Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold365
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: 1826335
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 10 of 11
Found at i:1568136 original size:34 final size:34
Alignment explanation
Indices: 1568098--1568276 Score: 189
Period size: 34 Copynumber: 5.5 Consensus size: 34
1568088 TCTGTAAAGC
* * *
1568098 CCACAACTCTGTGACACTTTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
*
1568132 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
*
1568159 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
*
1568193 CCACAACTCCATGGCACT-TTTTT-CTTTTCAAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT--AAGT
* *
1568227 CCACAACTCTGTGGCA-TCCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
*
1568260 CCACAACCCCGTGGCAC
1 CCACAACTCCGTGGCAC
1568277 CCCCTTTTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 24
0.76 0.08 0.15
Matches are distributed among these distances:
27 25 0.21
29 1 0.01
32 4 0.03
33 24 0.20
34 61 0.51
35 5 0.04
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
Found at i:1568162 original size:27 final size:27
Alignment explanation
Indices: 1568122--1568181 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
1568112 CACTTTTTTT
*
1568122 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
1568149 CCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
1568176 TCTTTT
1 CCTTTT
1568182 TCCTTCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.37, G:0.13, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:1568184 original size:61 final size:62
Alignment explanation
Indices: 1568092--1568294 Score: 239
Period size: 61 Copynumber: 3.2 Consensus size: 62
1568082 TCCTTTTCTG
* *
1568092 TAAAGCCCACAACTCTGTGACACTTTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
1 TAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * * *
1568154 T-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCATGGCACTTTTTTCT
1 TAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-----CCT
1568218 TT
61 TT
* * *
1568220 TCAAAGTCCACAACTCTGTGGCA-TCCTTTTCCTTTTAAGTCCACAACCCCGTGGCACCCCCTTT
1 T-AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--CCCTTT
1568284 TAAAGCCCACA
1 TAAAGCCCACA
1568295 CAAGTCGGTG
Statistics
Matches: 118, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
61 50 0.42
62 1 0.01
63 9 0.08
64 5 0.04
66 5 0.04
67 29 0.25
68 18 0.15
69 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.11, T:0.32
Consensus pattern (62 bp):
TAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
Found at i:1568326 original size:33 final size:33
Alignment explanation
Indices: 1568284--1568348 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1568274 CACCCCCTTT
1568284 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
1568317 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCT
1568349 AAGCCCAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (33 bp):
TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
Found at i:1568510 original size:92 final size:92
Alignment explanation
Indices: 1568343--1569185 Score: 1030
Period size: 92 Copynumber: 9.0 Consensus size: 92
1568333 CGGTGGCAAC
* * *
1568343 CCTTCTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
*
1568408 TCGTTGGCCTTGAATCAGCACATTGGCA
65 TCGCTGGCCTTGAATCAGCACATTGGCA
*
1568436 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
1568501 TGCTGGCCTTGAATCAGCACATTGGCA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
1568528 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
1568592 CACTGGCCTTGAATCAGCACATTGGCA
66 CGCTGGCCTTGAATCAGCACATTGGCA
**
1568619 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* *
1568684 CGCTGGCCTTGAATCAGTACATTGACA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * * *
1568711 CCTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
1568776 CGCTGGCCTTGAATCAGCACATTGGAA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
1568803 CCTTAAAGTCCAATATCACTGGCCTCGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
1568867 CGCTGGCCTTGAATCAACACATTGGCA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * * * **
1568894 CCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTTGCGCCTTCGTCATCTTTAAAACCCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCA
* *
1568959 ATGTCGTTGGCCTTGAATCAACACATTGGCA
62 ATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
1568990 TTCTTCTTTAAGTCCAATGTCGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 --C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
* *
1569055 ATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCA
62 ATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CA
* ** * * * * *
1569095 TCTTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCT-TTTTTAAGTCCAAT
1 CCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCAAT
*
1569157 GTCGCTGGCCTTGACTCAGCACATTGGCA
64 GTCGCTGGCCTTGAATCAGCACATTGGCA
1569186 TTCTTCTTCA
Statistics
Matches: 660, Mismatches: 69, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
91 169 0.26
92 291 0.44
93 4 0.01
94 1 0.00
95 5 0.01
96 63 0.10
97 7 0.01
98 1 0.00
99 1 0.00
100 77 0.12
101 4 0.01
102 34 0.05
104 1 0.00
105 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
CGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1568531 original size:21 final size:20
Alignment explanation
Indices: 1568507--1568575 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
1568497 ATGTTGCTGG
1568507 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
1568528 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
1568549 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
1568571 CCTTG
1 CCTTG
1568576 TCTTTAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 14 0.38
22 9 0.24
23 5 0.14
24 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:1568667 original size:183 final size:184
Alignment explanation
Indices: 1568343--1569083 Score: 1063
Period size: 183 Copynumber: 4.0 Consensus size: 184
1568333 CGGTGGCAAC
* * * *
1568343 CCTTCTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
*
1568408 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
65 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
* *
1568473 TTGGCGCCTTTATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
130 TTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1568528 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
*
1568592 CACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
** * *
1568657 TGGTGCCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGACA
131 TGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
*
1568711 CCTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
* * * *
1568776 CGCTGGCCTTGAATCAGCACATTGGAACCTTAAAGTCCAATATCACTGGCCTCGAATCAGCATAT
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * *
1568841 TGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
131 TGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * *
1568894 CCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTTGCGCCTTCGTCATCTTTAAAACCCA
1 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT--T-GTCTTTAAGA-CCA
* * * * *
1568959 ATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGTTGGCCTTGACT
62 ATGTCGCTGGCCTTGAATCAGCACATTGGCA--C--CTTTAAGTCCAATATCGCTGGCCTTGAAT
* * * *
1569024 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
123 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1569084 AGCCTTCGTC
Statistics
Matches: 499, Mismatches: 47, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
183 256 0.51
184 123 0.25
185 5 0.01
186 8 0.02
187 31 0.06
189 1 0.00
191 37 0.07
192 38 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (184 bp):
CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
TGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1568844 original size:275 final size:275
Alignment explanation
Indices: 1568343--1569089 Score: 1098
Period size: 275 Copynumber: 2.7 Consensus size: 275
1568333 CGGTGGCAAC
* * * *
1568343 CCTTCTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCTTTAAGTCCAATG
1568408 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
65 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
* * * *
1568473 TTGGCGCCTTTATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
130 TTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCTTAAAGTC
* *
1568538 CAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTG
195 CAATATCACTAGCCTCGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTG
*
1568603 AATCAGCACATTGGCA
260 AATCAACACATTGGCA
*
1568619 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCTTTAAGTCCAATGT
* * * * *
1568684 CGCTGGCCTTGAATCAGTACATTGACACCTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATAT
66 CGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* *
1568749 TGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCTTAAAGTCC
131 TGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCTTAAAGTCC
* *
1568814 AATATCACTGGCCTCGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
196 AATATCACTAGCCTCGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGA
1568879 ATCAACACATTGGCA
261 ATCAACACATTGGCA
* * * **
1568894 CCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTTGCGCCTTCGTCATCTTTAAAACCCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT--T-ATCTTT-AAGTCCA
* * * *
1568959 ATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGTTGGCCTTGACT
62 ATGTCGTTGGCCTTGAATCAGCACATTGGCA--C--CTTTAAGTCCAATATCGCTGGCCTTGAAT
* * * * *
1569024 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCT
123 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCT
1569089 T
188 T
1569090 CGTCATCTTT
Statistics
Matches: 420, Mismatches: 43, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
275 293 0.70
276 4 0.01
277 1 0.00
278 6 0.01
279 32 0.08
281 1 0.00
283 83 0.20
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (275 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCTTTAAGTCCAATGT
CGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
TGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCTTAAAGTCC
AATATCACTAGCCTCGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGA
ATCAACACATTGGCA
Found at i:1569093 original size:149 final size:143
Alignment explanation
Indices: 1568549--1569185 Score: 630
Period size: 149 Copynumber: 4.5 Consensus size: 143
1568539 AATATCGCTA
* * * * * *
1568549 GCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACA
1 GCCTTGAATCAACACATTGGCA--TTCTTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACA
* *
1568613 TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTT--T-ATCTTT-A
64 TTGGCACCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCTTTAA
** *
1568674 AGTCCAATGTCGCTG
129 AACCCAATGTCGTTG
** * * * * * *
1568689 GCCTTGAATCAGTACATTGACA--C--CTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATT
1 GCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATT
* * * *
1568750 GGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGA---------A-CC
66 GGCACC--T-TC---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCT
** * **
1568805 TTAAAGTCCAATATCACTG
125 TTAAAACCCAATGTCGTTG
* * * * * * *
1568824 GCCTCGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACA
1 GCCTTGAATCAACACATTGGCA--TTCTTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACA
* * *
1568888 TTGGCACCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTTGCGCCTTCGTCATCTTTAA
64 TTGGCACCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCTTTAA
1568953 AACCCAATGTCGTTG
129 AACCCAATGTCGTTG
*
1568968 GCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGTTGGCCTTGACTCAGCACATT
1 GCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATT
1569033 GGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCT
66 GGCACC-T--TC---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCT
1569098 TTAAAACCCAATGTCGTTG
125 TTAAAACCCAATGTCGTTG
*
1569117 GCCTTGAATCAACACATTGGCATTCTTTTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATT
1 GCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATT
1569182 GGCA
66 GGCA
1569186 TTCTTCTTCA
Statistics
Matches: 414, Mismatches: 52, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
134 34 0.08
135 71 0.17
137 3 0.01
138 2 0.00
140 57 0.14
141 33 0.08
142 2 0.00
143 42 0.10
144 35 0.08
146 2 0.00
149 133 0.32
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (143 bp):
GCCTTGAATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATT
GGCACCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCTTTAAAA
CCCAATGTCGTTG
Found at i:1569119 original size:53 final size:51
Alignment explanation
Indices: 1568903--1569183 Score: 251
Period size: 47 Copynumber: 5.6 Consensus size: 51
1568893 ACCTTCAAGT
* * * *
1568903 CCAATATCGTTGGCCTTGAATCAGCATATTTGCGCCTTCGTCATCTTTAAAAC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGAGCCTTC-TCATCTTT-AAAC
* * **
1568956 CCAATGTCGTTGGCCTTGAATCAACACATT-G-GCATTCT--TCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGAGCCTTCTCATCTTTAAAC
* **
1569003 CCAATGTCGTTGGCCTTGACTCAGCACATTGGCA-CC-T-TCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGG-AGCCTTCTCATCTTTAAAC
* * *
1569052 CCAATATCGCTGGCCTTGAATCAGCATATTGGAGCCTTCGTCATCTTTAAAAC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGAGCCTTC-TCATCTTT-AAAC
* * * **
1569105 CCAATGTCGTTGGCCTTGAATCAACACATT-G-GCATTCT--TTTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGAGCCTTCTCATCTTTAAAC
* *
1569152 CCAATGTCGCTGGCCTTGACTCAGCACATTGG
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGG
1569184 CATTCTTCTT
Statistics
Matches: 191, Mismatches: 26, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
47 60 0.31
48 13 0.07
49 40 0.21
50 3 0.02
51 10 0.05
52 10 0.05
53 55 0.29
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (51 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGAGCCTTCTCATCTTTAAAC
Found at i:1569223 original size:47 final size:47
Alignment explanation
Indices: 1568371--1569229 Score: 157
Period size: 43 Copynumber: 18.3 Consensus size: 47
1568361 ACTAGCCTTG
* * * * * *
1568371 AATCAGCATATTGGCACCTT-TATCTTTAAGTCCAATGTCGTTGGCCTTG
1 AATCAGCACATTGGCA--TTCT-TCTTCAAGTCCAATGTCGCTGACCGTA
* * * * *
1568420 AATCAGCACATTGGCA--C--CTTTAAGTCCAATATCGCTGGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * * * * *
1568463 AATCAGCATATTGGCGCCTT-TATCTTTAAGTCCAATGTTGCTGGCCTTG
1 AATCAGCACATT-G-GCATTCT-TCTTCAAGTCCAATGTCGCTGACCGTA
* * * *
1568512 AATCAGCACATTGGCA--C--CTTTAAGTCCAATATCGCT-AGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGA-CCGTA
* * * * * * * *
1568555 AATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCACTGGCCTTG
1 AATCAGCACATTGGCA--TTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * * *
1568603 AATCAGCACATTGGCA--C--CTTTAAGTCCAATATCGCTGGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * * * *
1568646 AATCAGCATATTGGTGCCTT-TATCTTTAAGTCCAATGTCGCTGGCCTTG
1 AATCAGCACATT-G-GCATTCT-TCTTCAAGTCCAATGTCGCTGACCGTA
* * * * * * *
1568695 AATCAGTACATTGACA--C--CTTTAAGTCTAATATCGCT-AGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGA-CCGTA
* * * * * *
1568738 AATCAGCATATTGGCACCTT-TGTCTTTAAGACCAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCA--TTCT-TCTTCAAGTCCAATGTCGCTGACCGTA
* * * * * *
1568787 AATCAGCACATTGG-A-AC--CTTAAAGTCCAATATCACTGGCC-TCG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGT-A
* * * * * * *
1568830 AATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCA--TTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * * * *
1568878 AATCAACACATTGGCA--C--CTTCAAGTCCAATATCGTTGGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * ** * * * *
1568921 AATCAGCATATTTGCGCCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTG
1 AATCAGCACA-TTG-GCATTC-T--TC-TTCAAGTCCAATGTCGCTGACCGTA
* * * * * *
1568974 AATCAACACATTGGCATTCTTCTTTAAGTCCAATGTCGTTGGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * * * * *
1569021 ACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTG
1 AATCAGCACATTGGCA--TTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* * * ** * * * *
1569070 AATCAGCATATTGGAGCCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTG
1 AATCAGCACATT-G-GCATTC-T--TC-TTCAAGTCCAATGTCGCTGACCGTA
* * * * * *
1569123 AATCAACACATTGGCATTCTTTTTTAAGTCCAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGTA
* *
1569170 ACTCAGCACATTGGCATTCTTCTTCAAGTCTAATGAT-GCTGACCGTA
1 AATCAGCACATTGGCATTCTTCTTCAAGTCCAATG-TCGCTGACCGTA
*
1569217 AATCAGCGCATTG
1 AATCAGCACATTG
1569230 ACATCCTTTT
Statistics
Matches: 645, Mismatches: 101, Indels: 130
0.74 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
43 204 0.32
44 6 0.01
45 6 0.01
47 109 0.17
48 77 0.12
49 161 0.25
50 3 0.00
51 12 0.02
52 7 0.01
53 59 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (47 bp):
AATCAGCACATTGGCATTCTTCTTCAAGTCCAATGTCGCTGACCGTA
Found at i:1574007 original size:34 final size:35
Alignment explanation
Indices: 1573969--1574035 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1573959 CCTTACAACA
1573969 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1574003 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1574036 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1574503 original size:13 final size:13
Alignment explanation
Indices: 1574485--1574509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1574475 CAATTTTTTG
1574485 TGTATCGATACAT
1 TGTATCGATACAT
1574498 TGTATCGATACA
1 TGTATCGATACA
1574510 CACTTGGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1575272 original size:12 final size:12
Alignment explanation
Indices: 1575255--1575280 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1575245 TAATTCACAC
1575255 ATATCAAAATTT
1 ATATCAAAATTT
1575267 ATATCAAAATTT
1 ATATCAAAATTT
1575279 AT
1 AT
1575281 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:1577527 original size:84 final size:84
Alignment explanation
Indices: 1577372--1577536 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1577362 CATTTTCCAC
* * * *
1577372 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
1577437 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
1577456 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
1577518 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
1577537 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:1578794 original size:20 final size:20
Alignment explanation
Indices: 1578749--1578800 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1578739 GTAGCCAAAC
* **
1578749 TTGTATCGATACACTAAGTA
1 TTGTATCGATACACCAAAAA
1578769 -TGTATCGATACACCAAAAA
1 TTGTATCGATACACCAAAAA
1578788 TTGTATCGATACA
1 TTGTATCGATACA
1578801 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:1580879 original size:15 final size:16
Alignment explanation
Indices: 1580848--1580880 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1580838 AGAAGATAAT
*
1580848 AAATTAAAAATTGTTG
1 AAATTAAAAATTCTTG
1580864 AAATTAAAAA-TCTTG
1 AAATTAAAAATTCTTG
1580879 AA
1 AA
1580881 CAAAAGATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (16 bp):
AAATTAAAAATTCTTG
Found at i:1584969 original size:13 final size:13
Alignment explanation
Indices: 1584951--1584989 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1584941 ACATTTTTCT
1584951 TTGTATCGATACA
1 TTGTATCGATACA
1584964 TTGTATCGATACA
1 TTGTATCGATACA
* *
1584977 CTGTATTGATACA
1 TTGTATCGATACA
1584990 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1586915 original size:40 final size:39
Alignment explanation
Indices: 1586829--1586917 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
1586819 GGGGAGATTT
*
1586829 TTTTTAAAGGGGAGATTGCGTAAATTTGCTAAAATTACC
1 TTTTTAAAGGGGAGATTACGTAAATTTGCTAAAATTACC
* * *
1586868 TTATTAAAGGGGAGAATGTACG-AAA-TTGTTAAAATTACT
1 TTTTTAAAGGGGAG-AT-TACGTAAATTTGCTAAAATTACC
1586907 TTGTTTAAAGG
1 TT-TTTAAAGG
1586918 AGAAAGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
39 27 0.64
40 12 0.29
41 3 0.07
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (39 bp):
TTTTTAAAGGGGAGATTACGTAAATTTGCTAAAATTACC
Found at i:1593255 original size:52 final size:52
Alignment explanation
Indices: 1593177--1593304 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1593167 CGAAATATGA
1593177 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1593229 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1593281 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1593305 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
51 21 0.28
52 55 0.72
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:1593331 original size:13 final size:13
Alignment explanation
Indices: 1593313--1593337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1593303 CAAAGATCAG
1593313 TGTATCGATACAA
1 TGTATCGATACAA
1593326 TGTATCGATACA
1 TGTATCGATACA
1593338 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1593415 original size:33 final size:33
Alignment explanation
Indices: 1593378--1593444 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1593368 AGTAGCTTAA
1593378 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1593411 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1593444 A
1 A
1593445 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1593418 original size:13 final size:13
Alignment explanation
Indices: 1593400--1593424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1593390 CAAAAAAATA
1593400 TGTATCGATACAT
1 TGTATCGATACAT
1593413 TGTATCGATACA
1 TGTATCGATACA
1593425 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1601305 original size:42 final size:42
Alignment explanation
Indices: 1601250--1601368 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1601240 TTCTTCTCTC
* *
1601250 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1601292 CTTCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1601334 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1601369 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1601310 original size:24 final size:24
Alignment explanation
Indices: 1601269--1601362 Score: 83
Period size: 24 Copynumber: 4.1 Consensus size: 24
1601259 TCATCCCTCC
* *
1601269 TCTCTCTATTATCTCTCCTGTCTCT
1 TCTC-CTATCATCCCTCCTGTCTCT
*
1601294 TCTCCTATCATCCCTCC--TATC-
1 TCTCCTATCATCCCTCCTGTCTCT
*
1601315 TCTACTATC-T--CTCCTGTCTCT
1 TCTCCTATCATCCCTCCTGTCTCT
* *
1601336 CCTCCTATCATCCCTCCTCTCTCT
1 TCTCCTATCATCCCTCCTGTCTCT
1601360 TCT
1 TCT
1601363 TTCTCTTTGA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
18 4 0.07
20 4 0.07
21 15 0.28
22 4 0.07
24 23 0.43
25 4 0.07
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.45
Consensus pattern (24 bp):
TCTCCTATCATCCCTCCTGTCTCT
Found at i:1601334 original size:18 final size:18
Alignment explanation
Indices: 1601265--1601335 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1601255 CCTGTCATCC
* *
1601265 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1601283 CTCCTGTCTCTTCTCCTATCAT
1 CTCCTG--TC-TCTACTATC-T
*
1601305 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1601325 CTCCTGTCTCT
1 CTCCTGTCTCT
1601336 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 3 0.07
21 15 0.37
22 3 0.07
24 5 0.12
ACGTcount: A:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1608968 original size:156 final size:154
Alignment explanation
Indices: 1608676--1609008 Score: 407
Period size: 156 Copynumber: 2.1 Consensus size: 154
1608666 TAAGTTTAAG
* * *
1608676 AAAAATTATGAAAATGCCCTTAGAAGATACTTTTGACGTAGAAGTACTAATACCCCTAAAGGACT
1 AAAAATTATGAAAATGCCCTTAGAAGATACTTTTGACATAGAAGTACGAATACCCCTAAAGAACT
* * **
1608741 TAAAAAAGATTATAGATGGGAAGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCG
66 TAAAAAAGATTAAAAATGGGAAGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAACCCG
* *
1608806 GTGACAACCTAGGACTTGATTCTA
131 GCGACAACCTAGGACTCGATTCTA
* ** * * *
1608830 AAAAATTATCAAAATGCCCTTAGGGGATA-TCTTTGACATAGAAGTGCCGGATATCCCTAAAGAA
1 AAAAATTATGAAAATGCCCTTAGAAGATACT-TTTGACATAGAAGT-ACGAATACCCCTAAAGAA
* * * * *
1608894 CTTAAAAAGGGTTACAAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCATTAAAGCAAAC
64 CTTAAAAAAGATTA-AAAATGGGAAGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAAC
** *
1608959 TTGGCGACAACCTAGGACTCGGTTCTA
128 CCGGCGACAACCTAGGACTCGATTCTA
1608986 AGAAAATTATGAAAATGTCCCTT
1 A-AAAATTATGAAAATG-CCCTT
1609009 GGTATACCTT
Statistics
Matches: 150, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
153 1 0.01
154 39 0.26
155 25 0.17
156 66 0.44
157 14 0.09
158 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (154 bp):
AAAAATTATGAAAATGCCCTTAGAAGATACTTTTGACATAGAAGTACGAATACCCCTAAAGAACT
TAAAAAAGATTAAAAATGGGAAGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAAACCCG
GCGACAACCTAGGACTCGATTCTA
Found at i:1609879 original size:175 final size:169
Alignment explanation
Indices: 1609417--1609895 Score: 583
Period size: 167 Copynumber: 2.8 Consensus size: 169
1609407 TGGGATCATA
* * *
1609417 ATTTTTATTTAATTTAATTTTTTTATTTCTCAAATAA-TTTATTTCGTACCTTAATGGAGAACCA
1 ATTTTTATTTTATTTTATTTTTTTATTT-TCAAA-AATTTTATTTCGTACCTTAATGGA-AGCCA
* *
1609481 AAAAGATACAAAAAGTTTTAAAAATTTTCATACTCCCACGGATACCCATGGGAATATTAGAAGTT
63 AAAAGATACAAAAAGTTTTAAATATTTTCATACT-CCACGGATACCCATGGGAATATTAGAAATT
* *
1609546 CTGAAAAATTCAGGTGATAATTTTTATTTGATGAAAAAGAATT
127 ATGAAAAATTCAGGTGATAATTTTTATTGGATGAAAAAGAATT
* * *
1609589 A--TTTA--TTATTTTATTTTTTTATTTTCAAAAATTTCATTTCATACCTTAATGGAAGCCCGAA
1 ATTTTTATTTTATTTTATTTTTTTATTTTCAAAAATTTTATTTCGTACCTTAATGGAAG-CCAAA
* * *
1609650 AAGATACAAAAAGTTTTAAATATTTTCATACCTCCACGGATACCTATGGGAATATTAAAAATTTT
65 AAGATACAAAAAGTTTTAAATATTTTCATA-CTCCACGGATACCCATGGGAATATTAGAAATTAT
*
1609715 GAAAAATTCAGGTGATCATTTTTTATTGGATGAAAAAGAATT
129 GAAAAATTCAGGTGAT-AATTTTTATTGGATGAAAAAGAATT
* * * *
1609757 ATTTATTATTTTATTTTATTATTTTTAATTTTTAAAAATTTTATTTTGTATCTTAATGGAAGCTT
1 ATTT-TTATTTTATTTTATT-TTTTT-ATTTTCAAAAATTTTATTTCGTACCTTAATGGAAGC-C
* *** *
1609822 AAAAAGATACGAAAAGTTTTAAATA-TTTCTATATCTCCATAAATACCCATAGGAATATTAGAAA
62 AAAAAGATACAAAAAGTTTTAAATATTTTC-ATA-CTCCACGGATACCCATGGGAATATTAGAAA
1609886 TATATGAAAA
125 T-TATGAAAA
1609896 TGATTAGTAT
Statistics
Matches: 264, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
166 3 0.01
167 101 0.38
168 43 0.16
170 5 0.02
171 3 0.01
172 1 0.00
173 10 0.04
174 10 0.04
175 81 0.31
176 7 0.03
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (169 bp):
ATTTTTATTTTATTTTATTTTTTTATTTTCAAAAATTTTATTTCGTACCTTAATGGAAGCCAAAA
AGATACAAAAAGTTTTAAATATTTTCATACTCCACGGATACCCATGGGAATATTAGAAATTATGA
AAAATTCAGGTGATAATTTTTATTGGATGAAAAAGAATT
Found at i:1611806 original size:164 final size:165
Alignment explanation
Indices: 1611233--1612290 Score: 1355
Period size: 164 Copynumber: 6.5 Consensus size: 165
1611223 TTTTAAGGAG
* * * * *
1611233 AAAATTCAAAATTCATGGAAATGATTGAATTTTTAAAAACTGAATTAATATAAAACAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
* *
1611298 TATTTGATGAATTTTAAAAATAAAAAACC-AGAAAAAGTCCCCTCGAAAAAA-TTACGGAGTAGA
66 TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAA-TCCTCACGAAAAAATTTACGGAGTAGA
* * *
1611361 AAACTCTGTATTTCAAAAATAAG-AAATTTC-AAGGA
130 AAACTCCGTATTTCAGAAA-AAGAAAATTTCAAAGAA
* *
1611396 AAATTTCAAAATTTATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
** * * *
1611461 TATTTGATGAATTTTAAAAATAAAAAAATAAGAAAAATCCTCTCAAAAAAAATTACGGAGTAGAA
66 TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAGTAGAA
* * * *
1611526 AACACTGTATTTTAAAAAAAAGAAAATTTC-AAGAAA
131 AACTCCGTA-TTTCAGAAAAAGAAAATTTCAAAG-AA
*
1611562 AAAATTTAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
* *
1611627 TATTTGATAAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAATAGAA
66 TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAGTAGAA
*
1611692 AACTCCGCATTTCAGAAAAAGAAAATTTCAAAG-A
131 AACTCCGTATTTCAGAAAAAGAAAATTTCAAAGAA
* * *
1611726 AAAATTCAAAATTTATGGAAATTAATGAATTTTTGAAAATTGAATTAATATCAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
* * * ** *
1611791 TATTTGATGAATTTTAAAAATCATAAA-TAAGAAAAAT-AACATCG-AAAAATTTACGGAGTGGA
66 TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCTCA-CGAAAAAATTTACGGAGTAGA
** * * *
1611853 AAACTCTATATTTCGGAAAAAGGAGAATTT-TAAGAA
130 AAACTCCGTATTTCAGAAAAA-GAAAATTTCAAAGAA
1611889 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
* * * *
1611954 TATTTGATGAATTTT-AAAATAAAAAA-TAAGAATAATCC-CCCGAAAAAATTTACGGAGTAAAA
66 TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAGTAGAA
*
1612016 AACTCCATATTT---AAAAA-AAAATTTCAAAGAA
131 AACTCCGTATTTCAGAAAAAGAAAATTTCAAAGAA
* * * *
1612047 AAAATTTAAAATTTATGAAAATGAATTAATTTTTGAAAACTGAATTAATATAAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
* * *
1612112 TATTTGATGAGTTTTAAAAATAAAAAACCAAGAAAAATTGCTC-CG-AAAAATTTACGGAGTAAA
66 TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAA-TCCTCACGAAAAAATTTACGGAGTAGA
* * * **
1612175 AAACTCCGCATTTGAGAAAAAAGAGAATTT-TGAGAA
130 AAACTCCGTATTTCAG-AAAAAGAAAATTTCAAAGAA
* ** * *
1612211 AAAATTCAAAATTTATGGAAATAAATGAAAATTTGAAAACTAAATTAATAGGAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
1612276 TATTTGATGAATTTT
66 TATTTGATGAATTTT
1612291 TGAAAAATGA
Statistics
Matches: 791, Mismatches: 83, Indels: 41
0.86 0.09 0.04
Matches are distributed among these distances:
157 6 0.01
158 80 0.10
159 16 0.02
160 36 0.05
161 6 0.01
162 86 0.11
163 193 0.24
164 196 0.25
165 42 0.05
166 130 0.16
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (165 bp):
AAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
TATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAGTAGAA
AACTCCGTATTTCAGAAAAAGAAAATTTCAAAGAA
Found at i:1612077 original size:18 final size:19
Alignment explanation
Indices: 1612056--1612095 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1612046 AAAAATTTAA
1612056 AATTTATGAAAA-TGAATT
1 AATTTATGAAAACTGAATT
*
1612074 AATTTTTGAAAACTGAATT
1 AATTTATGAAAACTGAATT
1612093 AAT
1 AAT
1612096 ATAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTTATGAAAACTGAATT
Found at i:1612231 original size:485 final size:491
Alignment explanation
Indices: 1611233--1612290 Score: 1521
Period size: 485 Copynumber: 2.2 Consensus size: 491
1611223 TTTTAAGGAG
* * * * *
1611233 AAAATTCAAAATTCATGGAAATGATTGAATTTTTAAAAACTGAATTAATATAAAACAAATAATAA
1 AAAATTCAAAATTTATGGAAATAAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAATAA
* ** *
1611298 TATTTGATGAATTTTAAAAATAAAAAACCAGAAAAAGTCCCCTCGAAAAAATTACGGAGTAGAAA
66 TATTTGATGAATTTTAAAAATAAAAAACAAGAAAAAGTAACATCGAAAAAATTACGGAGTAGAAA
* * * *
1611363 ACTCTGTATTTCAAAAATAAGAAATTTCAAGGAAAATTTCAAAATTTATGGAAATGAATGAATTT
131 ACTCTATATTTCAAAAAGAAGAAATTTCAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTT
1611428 TTGAAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAAATAAG
196 TTGAAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAAATAAG
* **
1611493 AAAAATCCTCTCAAAAAAAATTACGGAGTAGAAAACACTGTATTTTAAAAAAAAGAAAATTTCAA
261 AAAAATCCTCCCAAAAAAAATTACGGAGTAGAAAACACTCCATTTT--AAAAAAGAAAATTTCAA
* *
1611558 GAAAAAAATTTAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
324 GAAAAAAATTTAAAATTTATGAAAATGAATGAATTTTTGAAAACTGAATTAATATAAAATAAATA
1611623 ATAATATTTGATAAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAAT
389 ATAATATTTGATAAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAAT
*
1611688 AGAAAACTCCGCATTTCAGAAAAAGAAAATTTCAAAGA
454 AAAAAACTCCGCATTTCAGAAAAAGAAAATTTCAAAGA
* * *
1611726 AAAATTCAAAATTTATGGAAATTAATGAATTTTTGAAAATTGAATTAATATCAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATAAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAATAA
* * * * *
1611791 TATTTGATGAATTTTAAAAATCATAAATAAGAAAAA-TAACATCGAAAAATTTACGGAGTGGAAA
66 TATTTGATGAATTTTAAAAATAAAAAACAAGAAAAAGTAACATCGAAAAAATTACGGAGTAGAAA
* *
1611855 ACTCTATATTTCGGAAAAAGGAG-AATTTTAAGAAAAAATTCAAAATTTATGGAAATGAATGAAT
131 ACTCTATATTTC--AAAAAGAAGAAATTTCAAGAAAAAATTCAAAATTTATGGAAATGAATGAAT
*
1611919 TTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTT-AAAAT-AAAAAATA
194 TTTTGAAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAAATA
* * *
1611982 AGAATAATCC-CCCGAAAAAATTTACGGAGTA-AAAA-ACTCCATATTT-AAAAA-AAAATTTCA
259 AGAAAAATCCTCCCAAAAAAAATTACGGAGTAGAAAACACTCCAT-TTTAAAAAAGAAAATTTCA
*
1612042 A-AGAAAAAATTTAAAATTTATGAAAATGAATTAATTTTTGAAAACTGAATTAATATAAAATAAA
323 AGA-AAAAAATTTAAAATTTATGAAAATGAATGAATTTTTGAAAACTGAATTAATATAAAATAAA
* * *
1612106 TAATAATATTTGATGAGTTTTAAAAATAAAAAACCAAGAAAAATTGCTC-CG-AAAAATTTACGG
387 TAATAATATTTGATAAATTTTAAAAATAAAAAACCAAGAAAAA-TCCTCACGAAAAAATTTACGG
* * * **
1612169 AGTAAAAAACTCCGCATTTGAGAAAAAAGAGAATTT-TGAGAA
451 AATAAAAAACTCCGCATTTCAG-AAAAAGAAAATTTCAAAG-A
** * **
1612211 AAAATTCAAAATTTATGGAAATAAATGAAAATTTGAAAACTAAATTAATAGGAAATAAATAATAA
1 AAAATTCAAAATTTATGGAAATAAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAATAA
1612276 TATTTGATGAATTTT
66 TATTTGATGAATTTT
1612291 TGAAAAATGA
Statistics
Matches: 510, Mismatches: 48, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
484 34 0.07
485 197 0.39
486 9 0.02
488 5 0.01
489 7 0.01
490 18 0.04
491 17 0.03
492 39 0.08
493 177 0.35
494 7 0.01
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (491 bp):
AAAATTCAAAATTTATGGAAATAAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAATAA
TATTTGATGAATTTTAAAAATAAAAAACAAGAAAAAGTAACATCGAAAAAATTACGGAGTAGAAA
ACTCTATATTTCAAAAAGAAGAAATTTCAAGAAAAAATTCAAAATTTATGGAAATGAATGAATTT
TTGAAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAAATAAG
AAAAATCCTCCCAAAAAAAATTACGGAGTAGAAAACACTCCATTTTAAAAAAGAAAATTTCAAGA
AAAAAATTTAAAATTTATGAAAATGAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAAT
AATATTTGATAAATTTTAAAAATAAAAAACCAAGAAAAATCCTCACGAAAAAATTTACGGAATAA
AAAACTCCGCATTTCAGAAAAAGAAAATTTCAAAGA
Found at i:1612305 original size:102 final size:100
Alignment explanation
Indices: 1612190--1612490 Score: 362
Period size: 102 Copynumber: 3.0 Consensus size: 100
1612180 CCGCATTTGA
** * * *
1612190 GAAAAAAGAGAATTTTGAGAAAAAATTCAAAATTTATGGAAATAAATGAAAATTTGAAAACTAAA
1 GAAAAAAGAGAATTTCAAGAAAAAA-TCAAAATTTATGAAAATGAATGAAATTTTGAAAACT-AA
*
1612255 TTAATAGGAAATAAATAATAATATTTGATGAATTTTT
64 TTAATATGAAATAAATAATAATATTTGATGAATTTTT
*
1612292 GAAAAATGAGAATTTCAAGAAAAAAATCAAAATTTATGAAAATGAATGAAATTTTGAAAACTAAT
1 GAAAAAAGAGAATTTCAAG-AAAAAATCAAAATTTATGAAAATGAATGAAATTTTGAAAACTAAT
* * *
1612357 TACTATGAAATAAATAA-AAAATTCTG-T--A-TTTC
65 TAATATGAAATAAATAATAATATT-TGATGAATTTTT
* * *
1612389 AAAAAAAGAAAATTTCAAGAAAAACATCAAAATTTATGAAAATGAAT-AAATTTTTGGAAACTGA
1 GAAAAAAGAGAATTTCAAGAAAAA-ATCAAAATTTATGAAAATGAATGAAA-TTTTGAAAACT-A
* *
1612453 ATTAATATGAATTGAATAATAATATTTGATGAATTTTT
63 ATTAATATGAAATAAATAATAATATTTGATGAATTTTT
1612491 AATATTTTAA
Statistics
Matches: 170, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
96 8 0.05
97 51 0.30
98 20 0.12
99 6 0.04
100 6 0.04
101 21 0.12
102 52 0.31
103 6 0.04
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (100 bp):
GAAAAAAGAGAATTTCAAGAAAAAATCAAAATTTATGAAAATGAATGAAATTTTGAAAACTAATT
AATATGAAATAAATAATAATATTTGATGAATTTTT
Found at i:1612419 original size:97 final size:100
Alignment explanation
Indices: 1612191--1612489 Score: 340
Period size: 97 Copynumber: 3.0 Consensus size: 100
1612181 CGCATTTGAG
** * * *
1612191 AAAAAAGAGAATTTTGAGAAAAAATTCAAAATTTATGGAAATAAATGAAAATTTGAAAACTAAAT
1 AAAAAAGAGAATTTCAAGAAAAAA-TCAAAATTTATGAAAATGAATGAAATTTTGAAAACTAAAT
* * **
1612256 TAATAGGAAATAAATAATAATATTTGATGAATTTTTG
65 TAATATGAAATAAATAATAAAATTTGAT-AATTTTCA
*
1612293 AAAAATGAGAATTTCAAGAAAAAAATCAAAATTTATGAAAATGAATGAAATTTTGAAAACT-AAT
1 AAAAAAGAGAATTTCAAG-AAAAAATCAAAATTTATGAAAATGAATGAAATTTTGAAAACTAAAT
*
1612357 TACTATGAAATAAATAA-AAAATTCTG-T-A-TTTCA
65 TAATATGAAATAAATAATAAAATT-TGATAATTTTCA
* * *
1612390 AAAAAAGAAAATTTCAAGAAAAACATCAAAATTTATGAAAATGAAT-AAATTTTTGGAAACTGAA
1 AAAAAAGAGAATTTCAAGAAAAA-ATCAAAATTTATGAAAATGAATGAAA-TTTTGAAAACTAAA
* * *
1612454 TTAATATGAATTGAATAATAATATTTGATGAATTTT
64 TTAATATGAAATAAATAATAAAATTTGAT-AATTTT
1612490 TAATATTTTA
Statistics
Matches: 169, Mismatches: 18, Indels: 20
0.82 0.09 0.10
Matches are distributed among these distances:
96 8 0.05
97 51 0.30
98 20 0.12
99 6 0.04
100 6 0.04
101 21 0.12
102 51 0.30
103 6 0.04
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.31
Consensus pattern (100 bp):
AAAAAAGAGAATTTCAAGAAAAAATCAAAATTTATGAAAATGAATGAAATTTTGAAAACTAAATT
AATATGAAATAAATAATAAAATTTGATAATTTTCA
Found at i:1613962 original size:13 final size:13
Alignment explanation
Indices: 1613944--1613970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1613934 ACATACTGCT
1613944 TTGTATCGATACA
1 TTGTATCGATACA
1613957 TTGTATCGATACA
1 TTGTATCGATACA
1613970 T
1 T
1613971 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1613967 original size:33 final size:32
Alignment explanation
Indices: 1613925--1613989 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1613915 CACTTCTAGA
*
1613925 TGTATCGATACATACTGCTTTGTATCGATACAT
1 TGTATCGATACATACT-CATTGTATCGATACAT
*
1613958 TGTATCGATACATGCTCATTGTATCGATACAT
1 TGTATCGATACATACTCATTGTATCGATACAT
1613990 AGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:1613979 original size:19 final size:19
Alignment explanation
Indices: 1613955--1614011 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1613945 TGTATCGATA
1613955 CATTGTATCGATACATG-C
1 CATTGTATCGATACATGAC
1613973 TCATTGTATCGATACATAGAC
1 -CATTGTATCGATACAT-GAC
*
1613994 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
1614012 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 16 0.46
21 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:1614082 original size:13 final size:13
Alignment explanation
Indices: 1614060--1614108 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1614050 CATGGGACAA
1614060 TGTATCGATACAT
1 TGTATCGATACAT
*
1614073 TGTATAGATACA-
1 TGTATCGATACAT
1614085 TG-AT-GA-A-AT
1 TGTATCGATACAT
1614094 TGTATCGATACAT
1 TGTATCGATACAT
1614107 TG
1 TG
1614109 CTTGTAATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1614103 original size:34 final size:33
Alignment explanation
Indices: 1614039--1614108 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
1614029 CTATCACTAT
*
1614039 TTGTATCGATACATGGGACAATGTATCGATACA
1 TTGTATAGATACATGGGACAATGTATCGATACA
*
1614072 TTGTATAGATACATGATGA-AATTGTATCGATACA
1 TTGTATAGATACATG-GGACAA-TGTATCGATACA
1614106 TTG
1 TTG
1614109 CTTGTAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 16 0.48
34 17 0.52
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (33 bp):
TTGTATAGATACATGGGACAATGTATCGATACA
Found at i:1622066 original size:12 final size:12
Alignment explanation
Indices: 1622049--1622074 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1622039 GATAAAGGGG
1622049 AAGAAATTCTTT
1 AAGAAATTCTTT
1622061 AAGAAATTCTTT
1 AAGAAATTCTTT
1622073 AA
1 AA
1622075 TTAAGGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAGAAATTCTTT
Found at i:1622651 original size:13 final size:13
Alignment explanation
Indices: 1622633--1622659 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1622623 ACATACTGCT
1622633 TTGTATCGATACA
1 TTGTATCGATACA
1622646 TTGTATCGATACA
1 TTGTATCGATACA
1622659 T
1 T
1622660 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1622656 original size:33 final size:32
Alignment explanation
Indices: 1622614--1622678 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1622604 CACTTCTAGA
*
1622614 TGTATCGATACATACTGCTTTGTATCGATACAT
1 TGTATCGATACATACT-CATTGTATCGATACAT
*
1622647 TGTATCGATACATGCTCATTGTATCGATACAT
1 TGTATCGATACATACTCATTGTATCGATACAT
1622679 AGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:1622668 original size:19 final size:19
Alignment explanation
Indices: 1622644--1622700 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1622634 TGTATCGATA
1622644 CATTGTATCGATACATG-C
1 CATTGTATCGATACATGAC
1622662 TCATTGTATCGATACATAGAC
1 -CATTGTATCGATACAT-GAC
*
1622683 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
1622701 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 16 0.46
21 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:1622767 original size:13 final size:13
Alignment explanation
Indices: 1622749--1622797 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
1622739 CATGGGACAA
1622749 TGTATCGATACAT
1 TGTATCGATACAT
1622762 TGTATCGATACA-
1 TGTATCGATACAT
1622774 TG-AT-GA-A-AT
1 TGTATCGATACAT
1622783 TGTATCGATACAT
1 TGTATCGATACAT
1622796 TG
1 TG
1622798 CTTGTAACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1622770 original size:33 final size:34
Alignment explanation
Indices: 1622728--1622797 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
1622718 CTATCACTAT
1622728 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
1622761 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
1622795 TTG
1 TTG
1622798 CTTGTAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:1623772 original size:44 final size:43
Alignment explanation
Indices: 1623679--1623960 Score: 262
Period size: 44 Copynumber: 6.4 Consensus size: 43
1623669 AAGGAAGTAG
* * * * * *
1623679 ATTTGACCATGGTAGTAACCATGCATCAAATTAAAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAGATT-GAATGAAAAGA
* *
1623723 ATTTGACCAGGGTGGTAACCATACGTTAGATTGAATTGAGAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAGATTGAA-TGAAAAGA
* * * * * *
1623767 GTTTGACCAGGGTGATAATCATAGGTCAAAAATGAATGAAAA-A
1 ATTTGACCAGGGTGGTAACCATACGTC-AGATTGAATGAAAAGA
* * * *
1623810 ATCTTGACTAGGGTAGTAACCATACGTCA-AGTGGGATGAAAAGA
1 AT-TTGACCAGGGTGGTAACCATACGTCAGA-TTGAATGAAAAGA
* *
1623854 ATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAGATTG-AATGAAAAGA
* * * *
1623898 GTTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAGAT-TGAATGAAAAGA
*
1623942 ACTTGACCAGGGTGGTAAC
1 ATTTGACCAGGGTGGTAAC
1623961 TGTAGACACC
Statistics
Matches: 191, Mismatches: 39, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 37 0.19
44 146 0.76
45 7 0.04
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (43 bp):
ATTTGACCAGGGTGGTAACCATACGTCAGATTGAATGAAAAGA
Found at i:1623875 original size:131 final size:131
Alignment explanation
Indices: 1623714--1623960 Score: 361
Period size: 131 Copynumber: 1.9 Consensus size: 131
1623704 TCAAATTAAA
* * * * *
1623714 ATGAAAAGAATTTGACCAGGGTGGTAACCATACGTTAGATTGAATTGAGAAGAGTTTGACCAGGG
1 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAAAAGAGTTTGACCAGGG
* * * * *
1623779 TGATAATCATAGGTCAAAAATGAATGAAAA-AATCTTGACTAGGGTAGTAACCATACGTCAAGTG
66 TGATAACCATACGTCAAAAAGGAAGGAAAAGAA-CTTGACCAGGGTAGTAACCATACGTCAAGTG
1623843 GG
130 GG
1623845 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAAAAGAGTTTGACCAGGG
1 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAAAAGAGTTTGACCAGGG
* * *
1623910 TGGTAACCATACGTCAAATAGGAAGGAAAAGAACTTGACCAGGGTGGTAAC
66 TGATAACCATACGTCAAAAAGGAAGGAAAAGAACTTGACCAGGGTAGTAAC
1623961 TGTAGACACC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
131 100 0.98
132 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (131 bp):
ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGAAATGAAAAGAGTTTGACCAGGG
TGATAACCATACGTCAAAAAGGAAGGAAAAGAACTTGACCAGGGTAGTAACCATACGTCAAGTGG
G
Found at i:1623904 original size:87 final size:88
Alignment explanation
Indices: 1623712--1623960 Score: 274
Period size: 87 Copynumber: 2.8 Consensus size: 88
1623702 CATCAAATTA
* * * * *
1623712 AAATGAAAAGAATTTGACCAGGGTGGTAACCATACGT-TAGATTGAATTGAGAAGAGTTTGACCA
1 AAATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAAG-TGGAA-TGAAAAGAATCTGACCA
* * *
1623776 GGGTGATAATCATAGGTCAAAAATG
64 GGGTGGTAACCATACGTCAAAAATG
* * *
1623801 -AATGAAAA-AATCTTGACTAGGGTAGTAACCATACGTCAAGTGGGATGAAAAGAATCTGACCAG
1 AAATGAAAAGAAT-TTGACCAGGGTGGTAACCATACGTCAAGTGGAATGAAAAGAATCTGACCAG
* *
1623864 GGTGGTAACCATACGTC-AGACTG
65 GGTGGTAACCATACGTCAAAAATG
* * *
1623887 AAATGAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAAAAGAA-CTTGACCA
1 AAATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAAGT-GGAATGAAAAGAATC-TGACCA
1623951 GGGTGGTAAC
64 GGGTGGTAAC
1623961 TGTAGACACC
Statistics
Matches: 135, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
86 4 0.03
87 67 0.50
88 62 0.46
89 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (88 bp):
AAATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAAGTGGAATGAAAAGAATCTGACCAGG
GTGGTAACCATACGTCAAAAATG
Found at i:1624201 original size:21 final size:21
Alignment explanation
Indices: 1624177--1624232 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1624167 AATTTATCCA
1624177 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1624198 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1624219 AATGTATCGATACA
1 AATGTATCGATACA
1624233 GGGTCCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1624311 original size:32 final size:32
Alignment explanation
Indices: 1624270--1624556 Score: 556
Period size: 32 Copynumber: 9.0 Consensus size: 32
1624260 TTCAACAATT
*
1624270 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624302 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624334 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624366 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624398 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624430 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624462 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1624494 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
1624526 TGTATCGATACATAAGTATTGTATTGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1624557 TAATTAGCTA
Statistics
Matches: 253, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 253 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1624617 original size:13 final size:13
Alignment explanation
Indices: 1624599--1624624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1624589 CATTTTTCTG
1624599 TGTATCGATACAT
1 TGTATCGATACAT
1624612 TGTATCGATACAT
1 TGTATCGATACAT
1624625 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1624617 original size:33 final size:33
Alignment explanation
Indices: 1624579--1624645 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1624569 GCCAAGGAAA
***
1624579 TGTATCAATACATTTTTCTGTGTATCGATACAT
1 TGTATCAATACATGGATCTGTGTATCGATACAT
* *
1624612 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCAATACATGGATCTGTGTATCGATACAT
1624645 T
1 T
1624646 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCAATACATGGATCTGTGTATCGATACAT
Found at i:1627159 original size:28 final size:27
Alignment explanation
Indices: 1627092--1627164 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1627082 CTTCACAATC
* *
1627092 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1627119 GGGGATACTCCAACCCCGTTACTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1627147 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1627165 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.36, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1627209 original size:51 final size:51
Alignment explanation
Indices: 1627147--1627320 Score: 195
Period size: 51 Copynumber: 3.4 Consensus size: 51
1627137 TTACTTCTGA
* *** *
1627147 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGACTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCATAATC
* * * *
1627198 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTT-C-ATAATC
* * *
1627251 GGGGATAGTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATACCAATTTTTCATAATC
* *
1627303 GAGGACACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1627321 TTACTTCCGA
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.36
52 19 0.19
53 31 0.31
54 14 0.14
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCATAATC
Found at i:1627414 original size:79 final size:80
Alignment explanation
Indices: 1627290--1627507 Score: 215
Period size: 80 Copynumber: 2.7 Consensus size: 80
1627280 AAAAATACCA
* * * * * *
1627290 ATTTTTCACAATCGAGGACACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCG-GCTTT
1 ATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGAGCTTT
*
1627354 ATTCCCAAGAT-ATTG
66 ATTCCCAA-ATCATCG
* ** * * **
1627369 ATTTCTCATAATTGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAATCCCGATTTTT
1 ATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGAGCTTT
* ** *
1627434 TTTTTCTAATCATCG
66 ATTCCCAAATCATCG
* * * *
1627449 ATTTCTCACAACCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 ATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1627508 TTATTATCTC
Statistics
Matches: 112, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
79 52 0.46
80 60 0.54
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (80 bp):
ATTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGAGCTTT
ATTCCCAAATCATCG
Found at i:1628696 original size:44 final size:44
Alignment explanation
Indices: 1628478--1628874 Score: 259
Period size: 44 Copynumber: 9.1 Consensus size: 44
1628468 CGTTGCGACA
** * *
1628478 GTAACCATATGTCAAAT-AGGATGAAAAGAGTTTGACTAGGGTG
1 GTAACCATATGTCAAATCAAAATGAAAAGAATTTGACCAGGGTG
* * * * * * * *
1628521 GTAACCACATGTTAGACCGAAAT-AAGAAGAGTTTGACTACGGTG
1 GTAACCATATGTCAAATCAAAATGAA-AAGAATTTGACCAGGGTG
* * * * * *
1628565 ATAACCATATATCAAAT-ATGAATGAAAAGAACTTAACTAGGGTG
1 GTAACCATATGTCAAATCA-AAATGAAAAGAATTTGACCAGGGTG
* * * * * * *
1628609 GTAAGCATATTTCAAGT-AAGATGAAAAGAATCTGACTAAGGTG
1 GTAACCATATGTCAAATCAAAATGAAAAGAATTTGACCAGGGTG
*
1628652 GTAACCATATGTCAAATCAAAATGAAAAGAGTTTGACCAGGGTG
1 GTAACCATATGTCAAATCAAAATGAAAAGAATTTGACCAGGGTG
* * * *
1628696 GTAACCATACGTCAAA-CAGGAAGGAAAAGAACTTGACCAGGGTG
1 GTAACCATATGTCAAATCA-AAATGAAAAGAATTTGACCAGGGTG
* * ** * *
1628740 GTAACCATATATC-AAGCAGGATAAAAAGAATGTGACCAGGGTG
1 GTAACCATATGTCAAATCAAAATGAAAAGAATTTGACCAGGGTG
* * * * * * *
1628783 GTAACCATATGTTAGACCAAAATGAGAAGAGTTTGACCATGTTG
1 GTAACCATATGTCAAATCAAAATGAAAAGAATTTGACCAGGGTG
* ** * * * *
1628827 ATAACCATACATCAAA-CAGGAAGGAAAAGAACTTGATCAGGGTG
1 GTAACCATATGTCAAATCA-AAATGAAAAGAATTTGACCAGGGTG
1628871 GTAA
1 GTAA
1628875 TGAAAATAAT
Statistics
Matches: 269, Mismatches: 76, Indels: 17
0.74 0.21 0.05
Matches are distributed among these distances:
43 85 0.32
44 182 0.68
45 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (44 bp):
GTAACCATATGTCAAATCAAAATGAAAAGAATTTGACCAGGGTG
Found at i:1628723 original size:131 final size:131
Alignment explanation
Indices: 1628478--1628874 Score: 492
Period size: 131 Copynumber: 3.0 Consensus size: 131
1628468 CGTTGCGACA
* * * * * *
1628478 GTAACCATATGTCAAATAGGATGAAAAGAGTTTGACTAGGGTGGTAACCACATGTTAGACCGAAA
1 GTAACCATATATCAAGTAGGATGAAAAGAATCTGACTAGGGTGGTAACCATATGTTAGACCAAAA
* * * * * *
1628543 T-AAGAAGAGTTTGACTACGGTGATAACCATATATCAAATATGAATGAAAAGAACTTAACTAGGG
66 TGAA-AAGAGTTTGACCACGGTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGACTAGGG
1628607 TG
130 TG
* * * * * * *
1628609 GTAAGCATATTTCAAGTAAGATGAAAAGAATCTGACTAAGGTGGTAACCATATGTCAAATCAAAA
1 GTAACCATATATCAAGTAGGATGAAAAGAATCTGACTAGGGTGGTAACCATATGTTAGACCAAAA
* * * *
1628674 TGAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAGGAAGGAAAAGAACTTGACCAGGGT
66 TGAAAAGAGTTTGACCACGGTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGACTAGGGT
1628739 G
131 G
* * * *
1628740 GTAACCATATATCAAGCAGGATAAAAAGAATGTGACCAGGGTGGTAACCATATGTTAGACCAAAA
1 GTAACCATATATCAAGTAGGATGAAAAGAATCTGACTAGGGTGGTAACCATATGTTAGACCAAAA
* * *
1628805 TGAGAAGAGTTTGACCATGTTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGA-TCAGGG
66 TGAAAAGAGTTTGACCACGGTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGACT-AGGG
1628869 TG
130 TG
1628871 GTAA
1 GTAA
1628875 TGAAAATAAT
Statistics
Matches: 225, Mismatches: 39, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
131 223 0.99
132 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (131 bp):
GTAACCATATATCAAGTAGGATGAAAAGAATCTGACTAGGGTGGTAACCATATGTTAGACCAAAA
TGAAAAGAGTTTGACCACGGTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGACTAGGGT
G
Found at i:1628819 original size:87 final size:85
Alignment explanation
Indices: 1628478--1628874 Score: 294
Period size: 87 Copynumber: 4.5 Consensus size: 85
1628468 CGTTGCGACA
* * * * * *
1628478 GTAACCATATGTCAAATAGGATGAAAAGAGTTTGACTAGGGTGGTAACCACATGTTAGACCGAAA
1 GTAACCATATATCAAACAGGATGAAAAGA-ATTGACCAGGGTGGTAACCATATGTTA-ACCAAAA
* * *
1628543 T-AAGAAGAGTTTGACTACGGTG
64 TGAA-AAGAATTTGACCAAGGTG
* * * * * * ** *
1628565 ATAACCATATATCAAATATGAATGAAAAGAACTTAACTAGGGTGGTAAGCATAT-TTCAAGTAAG
1 GTAACCATATATCAAACA-GGATGAAAAGAA-TTGACCAGGGTGGTAACCATATGTT-AACCAAA
* *
1628629 ATGAAAAGAATCTGACTAAGGTG
63 ATGAAAAGAATTTGACCAAGGTG
* ** * * * * *
1628652 GTAACCATATGTCAAATCAAAATGAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAGGA
1 GTAACCATATATCAAA-CAGGATGAAAAGA-ATTGACCAGGGTGGTAACCATATGTTAACCA-AA
* * *
1628717 AGGAAAAGAACTTGACCAGGGTG
63 ATGAAAAGAATTTGACCAAGGTG
* *
1628740 GTAACCATATATCAAGCAGGATAAAAAGAATGTGACCAGGGTGGTAACCATATGTTAGACCAAAA
1 GTAACCATATATCAAACAGGATGAAAAGAAT-TGACCAGGGTGGTAACCATATGTTA-ACCAAAA
* * * *
1628805 TGAGAAGAGTTTGACCATGTTG
64 TGAAAAGAATTTGACCAAGGTG
* * * *
1628827 ATAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTAA
1 GTAACCATATATCAAACAGG-ATGAAAAGAA-TTGACCAGGGTGGTAA
1628875 TGAAAATAAT
Statistics
Matches: 243, Mismatches: 55, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
86 1 0.00
87 150 0.62
88 91 0.37
89 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (85 bp):
GTAACCATATATCAAACAGGATGAAAAGAATTGACCAGGGTGGTAACCATATGTTAACCAAAATG
AAAAGAATTTGACCAAGGTG
Found at i:1628879 original size:26 final size:26
Alignment explanation
Indices: 1628850--1628900 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1628840 AAACAGGAAG
*
1628850 GAAAAGAACTTGATCAGGGTGGTAAT
1 GAAAAGAACTTGACCAGGGTGGTAAT
* *
1628876 GAAAATAATTTGACCAGGGTGGTAA
1 GAAAAGAACTTGACCAGGGTGGTAA
1628901 CCATGCGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (26 bp):
GAAAAGAACTTGACCAGGGTGGTAAT
Found at i:1628936 original size:44 final size:43
Alignment explanation
Indices: 1628873--1629199 Score: 250
Period size: 44 Copynumber: 7.5 Consensus size: 43
1628863 TCAGGGTGGT
* *
1628873 AATGAAAATAATTTGACCAGGGTGGTAACCATGCGTCAGATC-GA
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCA-A-CAGA
* * * *
1628917 AATGAGAAGAGTTTGACCAGGGTGGTAACCTTACGTCAAACAGG
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTC-AACAGA
* * * * * *
1628961 AAGGAAAAGAACTTGATCAGGGTGGTGACCACACGTTAAGC-GA
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAA-CAGA
* * * *
1629004 GATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGG
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCA-ACAGA
* * * * *
1629048 AATGAGAAGAGTGTGACTAGGGTGGTAACCATACGTTAAACAAGA
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACG-TCAAC-AGA
* * * *
1629093 AGT-AAAAGAACTTGACCAGGGTGGAAACCATATGTCAAGCAG-
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAA-CAGA
* * * *
1629135 GATGAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAG-
1 AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCA-A-CAGA
* *
1629179 AATGAGAAGAGTTTGACCAGG
1 AATGAAAAGAATTTGACCAGG
1629200 TCCTAATGCT
Statistics
Matches: 217, Mismatches: 56, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
42 1 0.00
43 68 0.31
44 142 0.65
45 6 0.03
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (43 bp):
AATGAAAAGAATTTGACCAGGGTGGTAACCATACGTCAACAGA
Found at i:1628972 original size:114 final size:114
Alignment explanation
Indices: 1628763--1628986 Score: 340
Period size: 114 Copynumber: 2.0 Consensus size: 114
1628753 AAGCAGGATA
* * * *
1628763 AAAAGAATGTGACCAGGGTGGTAACCATATGTTAGACCAAAATGAGAAGAGTTTGACCATGTTGA
1 AAAAGAATGTGACCAGGGTGGTAACCATACGTCAGACCAAAATGAGAAGAGTTTGACCAGGGTGA
1628828 TAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTAATG
66 TAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTAATG
* * * * * *
1628877 AAAATAATTTGACCAGGGTGGTAACCATGCGTCAGATCGAAATGAGAAGAGTTTGACCAGGGTGG
1 AAAAGAATGTGACCAGGGTGGTAACCATACGTCAGACCAAAATGAGAAGAGTTTGACCAGGGTGA
* *
1628942 TAACCTTACGTCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGT
66 TAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGT
1628987 GACCACACGT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (114 bp):
AAAAGAATGTGACCAGGGTGGTAACCATACGTCAGACCAAAATGAGAAGAGTTTGACCAGGGTGA
TAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTAATG
Found at i:1629059 original size:245 final size:245
Alignment explanation
Indices: 1628629--1629116 Score: 663
Period size: 245 Copynumber: 2.0 Consensus size: 245
1628619 TTCAAGTAAG
* *
1628629 ATGAAAAGAATCTGACTAAGGTGGTAACCATATGTCAAATCAAAATGAAAAGAGTTTGACCAGGG
1 ATGAAAAGAATCTGACCAAGGTGGTAACCATACGTCAAATCAAAATGAAAAGAGTTTGACCAGGG
* *
1628694 TGGTAACCATACGTCAAACAGGAAGGAAAAGAACTTGACCAGGGTGGTAACCATATATCAAGCAG
66 TGGTAACCATACGTCAAACAGGAAGGAAAAGAACTTGACCAGGGTGGTAACCACACATCAAGCAG
* * * * *
1628759 GATAAAAAGAATGTGACCAGGGTGGTAACCATATGTTAGACCAAAATGAGAAGAGTTTGACCATG
131 GATAAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCAAAATGAGAAGAGTGTGACCAGG
* * *
1628824 TTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTA
196 GTGATAACCATACATCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGTA
* * * * * * *
1628874 ATGAAAATAATTTGACCAGGGTGGTAACCATGCGTCAGATCGAAATGAGAAGAGTTTGACCAGGG
1 ATGAAAAGAATCTGACCAAGGTGGTAACCATACGTCAAATCAAAATGAAAAGAGTTTGACCAGGG
* * * * *
1628939 TGGTAACCTTACGTCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTGACCACACGTTAAGC-G
66 TGGTAACCATACGTCAAACAGGAAGGAAAAGAACTTGACCAGGGTGGTAACCACACATCAAGCAG
* *** *
1629003 AGATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGGAATGAGAAGAGTGTGACTAG
131 -GATAAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCAAAATGAGAAGAGTGTGACCAG
* * * *
1629068 GGTGGTAACCATACGTTAAACAAGAAGTAAAAGAACTTGACCAGGGTGG
195 GGTGATAACCATACATCAAACAAGAAGGAAAAGAACTTGACCAGGGTGG
1629117 AAACCATATG
Statistics
Matches: 209, Mismatches: 33, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
244 1 0.00
245 208 1.00
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (245 bp):
ATGAAAAGAATCTGACCAAGGTGGTAACCATACGTCAAATCAAAATGAAAAGAGTTTGACCAGGG
TGGTAACCATACGTCAAACAGGAAGGAAAAGAACTTGACCAGGGTGGTAACCACACATCAAGCAG
GATAAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCAAAATGAGAAGAGTGTGACCAGG
GTGATAACCATACATCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGTA
Found at i:1629113 original size:131 final size:131
Alignment explanation
Indices: 1628874--1629199 Score: 440
Period size: 131 Copynumber: 2.5 Consensus size: 131
1628864 CAGGGTGGTA
* * * *
1628874 ATGAAAATAATTTGACCAGGGTGGTAACCATGCGTCAGA-TCGAAATGAGAAGAGTTTGACCAGG
1 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACT-GGAATGAGAAGAGTTTGACCAGG
* * * ** *
1628938 GTGGTAACCTTACGTCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTGACCACACGTTAAGC-
65 GTGGTAACCATACGTCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGAAACCACACGTCAAGCA
1629002 GAG
130 G-G
* *
1629005 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGGAATGAGAAGAGTGTGACTAGGG
1 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGGAATGAGAAGAGTTTGACCAGGG
* * * *
1629070 TGGTAACCATACGTTAAACAAGAAGTAAAAGAACTTGACCAGGGTGGAAACCATATGTCAAGCAG
66 TGGTAACCATACGTCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGAAACCACACGTCAAGCAG
1629135 G
131 G
* * **
1629136 ATGAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAGAATGAGAAGAGTTTGACCAGG
1 ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGGAATGAGAAGAGTTTGACCAGG
1629200 TCCTAATGCT
Statistics
Matches: 171, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 169 0.99
132 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (131 bp):
ATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTGGAATGAGAAGAGTTTGACCAGGG
TGGTAACCATACGTCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGAAACCACACGTCAAGCAG
G
Found at i:1629191 original size:376 final size:376
Alignment explanation
Indices: 1628498--1629197 Score: 938
Period size: 376 Copynumber: 1.9 Consensus size: 376
1628488 GTCAAATAGG
* * * * *
1628498 ATGAAAAGAGTTTGACTAGGGTGGTAACCACATGTTAGACCGAAATAAGAAGAGTTTGACTACGG
1 ATGAAAAGAATTTGACCAGGGTGGTAACCACACGTCAGACCGAAATAAGAAGAGTTTGACCACGG
* * * * * * * *
1628563 TGATAACCATATATCAAATATGAATGAAAAGAACTTAACTAGGGTGGTAAGCATATTTCAAGTAA
66 TGATAACCATACATCAAACAGGAAGGAAAAGAACTTAACTAGGGTGGTAACCACAGTTCAAGCAA
* * *
1628628 GATGAAAAGAATCTGACTAAGGTGGTAACCATATGTCAAATCAAAATGAAAAGAGTTTGACCAGG
131 GATGAAAAGAATCTGACCAAGGTGGTAACCATACGTCAAATCAAAATGAAAAGAGTGTGACCAGG
* *
1628693 GTGGTAACCATACGTCAAACAGGAAGGAAAAGAACTTGACCAGGGTGGTAACCATATATCAAGCA
196 GTGGTAACCATACGTCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGAAACCATATATCAAGCA
* * ** *
1628758 GGATAAAAAGAATGTGACCAGGGTGGTAACCATATGTTAGACCAAAATGAGAAGAGTTTGACCAT
261 GGATAAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGACCAT
1628823 GTTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTA
326 GTTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTA
* ** * * *
1628874 ATGAAAATAATTTGACCAGGGTGGTAACCATGCGTCAGATCGAAATGAGAAGAGTTTGACCAGGG
1 ATGAAAAGAATTTGACCAGGGTGGTAACCACACGTCAGACCGAAATAAGAAGAGTTTGACCACGG
* * * * *
1628939 TGGTAACCTTACGTCAAACAGGAAGGAAAAGAACTTGA-TCAGGGTGGTGACCACACGTT-AAGC
66 TGATAACCATACATCAAACAGGAAGGAAAAGAACTTAACT-AGGGTGGTAACCACA-GTTCAAGC
* * * ** * *
1629002 GAGATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGA-CTGGAATGAGAAGAGTGTGACT
129 AAGATGAAAAGAATCTGACCAAGGTGGTAACCATACGTCAAATC-AAAATGAAAAGAGTGTGACC
* * *
1629066 AGGGTGGTAACCATACGTTAAACAAGAAGTAAAAGAACTTGACCAGGGTGGAAACCATATGTCAA
193 AGGGTGGTAACCATACGTCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGAAACCATATATCAA
* *
1629131 GCAGGATGAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAGAATGAGAAGAGTTTGAC
258 GCAGGATAAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGAC
1629196 CA
323 CA
1629198 GGTCCTAATG
Statistics
Matches: 275, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
375 2 0.01
376 271 0.99
377 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (376 bp):
ATGAAAAGAATTTGACCAGGGTGGTAACCACACGTCAGACCGAAATAAGAAGAGTTTGACCACGG
TGATAACCATACATCAAACAGGAAGGAAAAGAACTTAACTAGGGTGGTAACCACAGTTCAAGCAA
GATGAAAAGAATCTGACCAAGGTGGTAACCATACGTCAAATCAAAATGAAAAGAGTGTGACCAGG
GTGGTAACCATACGTCAAACAAGAAGGAAAAGAACTTGACCAGGGTGGAAACCATATATCAAGCA
GGATAAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGACCAT
GTTGATAACCATACATCAAACAGGAAGGAAAAGAACTTGATCAGGGTGGTA
Found at i:1629195 original size:87 final size:87
Alignment explanation
Indices: 1628873--1629199 Score: 286
Period size: 87 Copynumber: 3.7 Consensus size: 87
1628863 TCAGGGTGGT
* * * * * *
1628873 AATGAAAATAATTTGACCAGGGTGGTAACCATGCGTCAGATCGAAATGAGAAGAGTTTGACCAGG
1 AATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCG-AATGAAAAGAATTTGACCAGG
* *
1628938 GTGGTAACCTTACGTCAAACAGG
65 GTGGTAACCATACGTCAAGCAGG
* * * * * * *
1628961 AAGGAAAAGAA-CTTGATCAGGGTGGTGACCACACGTTA-AGCGAGATGAAAAGAATCTGACCAG
1 AATGAAAAGAATC-TGACCAGGGTGGTAACCATACGTCAGACCGA-ATGAAAAGAATTTGACCAG
*
1629024 GGTGGTAACCATACGTC-AGACTGG
64 GGTGGTAACCATACGTCAAG-CAGG
* * * * * * * *
1629048 AATGAGAAGAGTGTGACTAGGGTGGTAACCATACGTTAAACAAGAA-GTAAAAGAACTTGACCAG
1 AATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGAC-CGAATG-AAAAGAATTTGACCAG
* *
1629112 GGTGGAAACCATATGTCAAGCAGG
64 GGTGGTAACCATACGTCAAGCAGG
* * * *
1629136 -ATGAAAAGAATCTGACCAAGGTGGTAACCATACATCAGACCAGAATGAGAAGAGTTTGACCAGG
1 AATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACC-GAATGAAAAGAATTTGACCAGG
1629200 TCCTAATGCT
Statistics
Matches: 187, Mismatches: 42, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
86 2 0.01
87 117 0.63
88 64 0.34
89 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (87 bp):
AATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCGAATGAAAAGAATTTGACCAGGG
TGGTAACCATACGTCAAGCAGG
Found at i:1629238 original size:47 final size:47
Alignment explanation
Indices: 1629180--1629291 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
1629170 TCAGACCAGA
* *
1629180 ATGAGAAGAGTTTGACCAGGTCCTAATG-CTAATATAATCAAATGA-GG
1 ATGA-AAGAGTTTGACCAGGTCCTAACGTC-AATACAATCAAATGATGG
* * *
1629227 GTGGAAAGAGTTTAACCAGGTCCTAACGTCAATACAGTCAAATGATGG
1 AT-GAAAGAGTTTGACCAGGTCCTAACGTCAATACAATCAAATGATGG
1629275 ATGAAA-AGTTTGACCAG
1 ATGAAAGAGTTTGACCAG
1629292 ATATAGTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
46 10 0.18
47 39 0.71
48 6 0.11
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (47 bp):
ATGAAAGAGTTTGACCAGGTCCTAACGTCAATACAATCAAATGATGG
Found at i:1630038 original size:44 final size:44
Alignment explanation
Indices: 1629990--1630101 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 44
1629980 GTAAAGTGGA
* * *
1629990 AAATGCATATTAAATGATGCAAATACCAATG-TCATCTAAAAT-GC
1 AAATGCAAATGAAATGATGCAAAT-CCAACGATCA-CTAAAATAGC
* ** * *
1630034 AAATGTAGGTGAAATGATGCAAATGCAGCGATCACTAAAATAGC
1 AAATGCAAATGAAATGATGCAAATCCAACGATCACTAAAATAGC
*
1630078 AAATGCAAATGCAATGATGCAAAT
1 AAATGCAAATGAAATGATGCAAAT
1630102 GTGAATGTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
43 10 0.18
44 45 0.82
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (44 bp):
AAATGCAAATGAAATGATGCAAATCCAACGATCACTAAAATAGC
Found at i:1630235 original size:232 final size:227
Alignment explanation
Indices: 1629899--1630332 Score: 566
Period size: 232 Copynumber: 1.9 Consensus size: 227
1629889 GGTGCAGATA
** * *
1629899 TGCGTGAAACGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAAACATGAAACAAT
1 TGCGTGAAACGATGCAAATGCAAGCATCAATAAAAAGGAAAATGCAGATGAAAACATGAAACAAT
* *
1629964 GCAAATACATGCATTAGTAAAGTGGAAAATGCATATTAAATGATGCAAATACCAATGTCATCTAA
66 GCAAATACAAGCATCAGTAAAGTGGAAAATGCATATTAAATGATGCAAATACCAATGTCATCT-A
* * * * *
1630029 AATGCAAATGTAGGTGAAATGATGCAAATGC-AGCGATC-ACTAAAATAGCAAATGCAAATGCAA
130 AATGCAAATGCAGGTAAAATGATACAAATACAAGC-ATCAAC-AAAAGAGCAAATGCAAATGCAA
1630092 TGATGCAAATGTGAATGTTATCAAAACTACGAATG
193 TGATGCAAATGTGAATGTTATCAAAACTACGAATG
* * * *
1630127 TGCGTGAAATGGTGCAACTGCAAGCATCAATAAAAAGGAAAATGCAGATGAAAATATGCATGCAA
1 TGCGTGAAACGATGCAAATGCAAGCATCAATAAAAAGGAAAATGCAGATG-AAA-A--CATGAAA
* * * *
1630192 CAATGCAAATACAAGCATCAGTAAAGTGGCAAATGCATATTAAATGATGCAAATGCCAATTTTAT
62 CAATGCAAATACAAGCATCAGTAAAGTGGAAAATGCATATTAAATGATGCAAATACCAATGTCAT
* * * * * *
1630257 CTGAATGCAAGTGCATGTAAAATGATACAAATACAAGCATCAACAAAGGGGCAAATGCATATGCA
127 CTAAATGCAAATGCAGGTAAAATGATACAAATACAAGCATCAACAAAAGAGCAAATGCAAATGCA
1630322 ATGATGCAAAT
192 ATGATGCAAAT
1630333 ACCACTATCA
Statistics
Matches: 175, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
228 43 0.25
229 3 0.02
230 1 0.01
231 56 0.32
232 72 0.41
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (227 bp):
TGCGTGAAACGATGCAAATGCAAGCATCAATAAAAAGGAAAATGCAGATGAAAACATGAAACAAT
GCAAATACAAGCATCAGTAAAGTGGAAAATGCATATTAAATGATGCAAATACCAATGTCATCTAA
ATGCAAATGCAGGTAAAATGATACAAATACAAGCATCAACAAAAGAGCAAATGCAAATGCAATGA
TGCAAATGTGAATGTTATCAAAACTACGAATG
Found at i:1630243 original size:44 final size:43
Alignment explanation
Indices: 1630194--1630334 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 43
1630184 GCATGCAACA
*
1630194 ATGCAAATACAAGCATCAGTAAAGTGGCAAATGCATATTAAATG
1 ATGCAAATACAAGCATCA-TAAAGTGGCAAATGCATATAAAATG
* ** * * *
1630238 ATGCAAATGCCAATTTTATC-TGAA-T-GCAAGTGCATGTAAAATG
1 ATGCAAAT-ACAA--GCATCATAAAGTGGCAAATGCATATAAAATG
* * * **
1630281 ATACAAATACAAGCATCAACAAAGGGGCAAATGCATATGCAATG
1 ATGCAAATACAAGCATC-ATAAAGTGGCAAATGCATATAAAATG
1630325 ATGCAAATAC
1 ATGCAAATAC
1630335 CACTATCATC
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
40 3 0.04
42 5 0.07
43 22 0.31
44 32 0.45
45 6 0.08
47 3 0.04
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCAAATACAAGCATCATAAAGTGGCAAATGCATATAAAATG
Found at i:1632337 original size:9 final size:9
Alignment explanation
Indices: 1632323--1632363 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1632313 ATCAACCATC
*
1632323 GAAGATAAT
1 GAAGATGAT
1632332 GAAGATGAT
1 GAAGATGAT
*
1632341 GATGATGAT
1 GAAGATGAT
*
1632350 GATGATGAT
1 GAAGATGAT
1632359 GAAGA
1 GAAGA
1632364 AGTTGACTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (9 bp):
GAAGATGAT
Found at i:1632343 original size:3 final size:3
Alignment explanation
Indices: 1632330--1632360 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1632320 ATCGAAGATA
*
1632330 ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1632361 AGAAGTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:1642293 original size:21 final size:20
Alignment explanation
Indices: 1642247--1642295 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
1642237 AGAGAATAGA
1642247 TGTATGTGCAAATAAATTTT
1 TGTATGTGCAAATAAATTTT
*
1642267 TGTATGTGCGAATAAATTTT
1 TGTATGTGCAAATAAATTTT
1642287 TGATATGTG
1 TG-TATGTG
1642296 TGTAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (20 bp):
TGTATGTGCAAATAAATTTT
Found at i:1643062 original size:13 final size:13
Alignment explanation
Indices: 1643044--1643069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1643034 TACACAAAGT
1643044 ATGTATCGATACA
1 ATGTATCGATACA
1643057 ATGTATCGATACA
1 ATGTATCGATACA
1643070 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1643067 original size:32 final size:33
Alignment explanation
Indices: 1643026--1643089 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1643016 TAGCCAAACT
**
1643026 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1643058 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1643090 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1647869 original size:20 final size:20
Alignment explanation
Indices: 1647844--1647897 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1647834 CATTTTTGAC
1647844 ATGTATCGATACATC-CACTT
1 ATGTATCGATACATCAC-CTT
* * *
1647864 ATGTATCAATACGTTACCTT
1 ATGTATCGATACATCACCTT
1647884 ATTGTATCGATACA
1 A-TGTATCGATACA
1647898 AATTGTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATCACCTT
Found at i:1648860 original size:11 final size:11
Alignment explanation
Indices: 1648844--1648879 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1648834 AAATTTTCTA
1648844 TTTTTGAAAAT
1 TTTTTGAAAAT
**
1648855 TTTTTGAATTT
1 TTTTTGAAAAT
1648866 TTTTTGAAAAT
1 TTTTTGAAAAT
1648877 TTT
1 TTT
1648880 AGAAAATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TTTTTGAAAAT
Found at i:1649866 original size:166 final size:164
Alignment explanation
Indices: 1649354--1649875 Score: 439
Period size: 166 Copynumber: 3.1 Consensus size: 164
1649344 TGAAATTTTT
* * * * * ** * * *
1649354 CTATTTTCGAAATAA-AGAGTTTTATACTTCATAAATTTTTTCAAGGAGATTTTTTTTGGTTTTT
1 CTATTTTCGAAA-AATCGAGTTTTCTACTCCGTAAATTTTCTCGGGGAGAGTTTTCTTGATTTTT
* **
1649418 AATTTTTAAAATTCATCAAAT-TTATTTATTTATTACATATTAAAT-AAGTTTGCAAAAATTCAC
65 AATTTTTAAAATTCATCAAATATTA-TTATTTATTTCATATTAAATCAA-TTTTAAAAAATT-A-
* * * * * *
1649481 ATAT-TTTTAAAAAAGTTTCAATTTTTTTCCTTAAAATTCC
126 ATTTATTTTAATAAA-TTTTAAATTTTTT-CTTGAAATACC
* * * * * * *
1649521 CTATTTTTGTAATATGGAGTTTTCTACTTCGTAAATTTTTTCGGGGAGATTTTTCTT-AGTTTTT
1 CTATTTTCGAAAAATCGAGTTTTCTACTCCGTAAATTTTCTCGGGGAGAGTTTTCTTGA-TTTTT
* * * * * * * *
1649585 AATTTTTAAAATTTATCCAATATCATCACTTGA-TTCGTAATAAATCAATTTTTAAAAATTAATT
65 AATTTTTAAAATTCATCAAATATTATTA-TTTATTTCATATTAAATCAATTTTAAAAAATTAATT
* * **
1649649 TATTTTTATAAGTTTTGGATTTTTTCTTTGAAATGA--
129 TATTTTAATAAATTTTAAATTTTTTC-TTGAAAT-ACC
* * * *
1649685 TTTTTTTCCCGAAAAATCGAGTTTTCTTCTCCGTAAATTTTCTCGGGGGGAGTTTTCTTGATTTT
1 CTATTTT--CGAAAAATCGAGTTTTCTACTCCGTAAATTTTCTCGGGGAGAGTTTTCTTGATTTT
*
1649750 TAATTTTTAAAATTCATCAAATATTATTGTTTATTTCATATTAAATCAATTTTAAAAAATTAATT
64 TAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATCAATTTTAAAAAATTAATT
*
1649815 TATTTTCATAAATTTTAAATTTTTCTCTTGAAATACCC
129 TATTTTAATAAATTTTAAATTTTT-TCTTGAAATA-CC
* *
1649853 CTCTTTTCGAAAAATCGAATTTT
1 CTATTTTCGAAAAATCGAGTTTT
1649876 TTATCTCATA
Statistics
Matches: 282, Mismatches: 57, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
164 6 0.02
165 22 0.08
166 148 0.52
167 94 0.33
168 12 0.04
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (164 bp):
CTATTTTCGAAAAATCGAGTTTTCTACTCCGTAAATTTTCTCGGGGAGAGTTTTCTTGATTTTTA
ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATCAATTTTAAAAAATTAATTTA
TTTTAATAAATTTTAAATTTTTTCTTGAAATACC
Found at i:1652000 original size:20 final size:20
Alignment explanation
Indices: 1651975--1652015 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1651965 AACTTAGCCC
1651975 TTTAGAGTTACCAAGTGCCT
1 TTTAGAGTTACCAAGTGCCT
1651995 TTTAGAGTTACCAAGTGCCT
1 TTTAGAGTTACCAAGTGCCT
1652015 T
1 T
1652016 AGTGCCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TTTAGAGTTACCAAGTGCCT
Found at i:1655768 original size:3 final size:3
Alignment explanation
Indices: 1655754--1655784 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1655744 CATCAAAGAC
*
1655754 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1655785 GTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1661340 original size:20 final size:19
Alignment explanation
Indices: 1661290--1661346 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1661280 TTGTATTAAT
*
1661290 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* * *
1661309 TCACTATATCGATACATGC
1 ACATTGTATCGATACATGC
1661328 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1661347 AAACTGCCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1665984 original size:21 final size:21
Alignment explanation
Indices: 1665934--1665986 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
1665924 GAGCCACATA
*
1665934 TATCGATACAA-TTCATCATG
1 TATCGATACAATTTAATCATG
**
1665954 TATTAATACAATTTAATCATG
1 TATCGATACAATTTAATCATG
*
1665975 TATCGCTACAAT
1 TATCGATACAAT
1665987 GTATCGATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (21 bp):
TATCGATACAATTTAATCATG
Found at i:1668289 original size:89 final size:93
Alignment explanation
Indices: 1668135--1668344 Score: 243
Period size: 89 Copynumber: 2.3 Consensus size: 93
1668125 TCTTACCCCA
* *
1668135 TTCATTCAACCACTAGATGGTATTGATGCATAAAAAAAAAGCTTATTTCCTTGGGGTAGGGATAC
1 TTCATTCAACCACTAGATGGTATTGATGCAT-AAAAAAAAGCTGATTTCCTTAGGGTAGGGATAC
1668200 AAACCACACACATTCCTAATCATATCTCC
65 AAACCACACACATTCCTAATCATATCTCC
* * *
1668229 TTCATTCAACCACT-GATGGTATT-ATG-AT-CAAAAAAGCTGATTTCTTTAGGG-CGGGCATAC
1 TTCATTCAACCACTAGATGGTATTGATGCATAAAAAAAAGCTGATTTCCTTAGGGTAGGG-ATAC
* * * *
1668289 AAACCATACACGTTCCTAATTATATCT-T
65 AAACCACACACATTCCTAATCATATCTCC
* * *
1668317 TCTCATCCAACCATTAGATGATATTGAT
1 T-TCATTCAACCACTAGATGGTATTGAT
1668345 ACATCCCAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
88 4 0.04
89 58 0.58
90 8 0.08
91 4 0.04
92 3 0.03
93 9 0.09
94 14 0.14
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (93 bp):
TTCATTCAACCACTAGATGGTATTGATGCATAAAAAAAAGCTGATTTCCTTAGGGTAGGGATACA
AACCACACACATTCCTAATCATATCTCC
Found at i:1671954 original size:20 final size:20
Alignment explanation
Indices: 1671931--1672005 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1671921 AGAAAGATAG
1671931 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
*
1671950 GAATGTATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* * *
1671971 TATGTATCAATACATTGAAA
1 AATGTATCGATACATTCAAA
*
1671991 AATGTATTGATACAT
1 AATGTATCGATACAT
1672006 CTAGATAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1672051 original size:90 final size:91
Alignment explanation
Indices: 1671889--1672055 Score: 266
Period size: 90 Copynumber: 1.8 Consensus size: 91
1671879 AGATGTATTG
* * *
1671889 ATACATTGAAAAATGTATCGATACATCTGGGTAGAAAGATAGAATGTATCGATACATTAAAGAAT
1 ATACATTGAAAAATGTATCGATACATCTAGATAGAAAGACAGAATGTATCGATACATTAAAGAAT
1671954 GTATCGATACATTCATATATGTATCA
66 GTATCGATACATTCATATATGTATCA
* *
1671980 ATACATTGAAAAATGTATTGATACATCTAGATA-AAAGACAGAATGTATTGATACATTGAAA-AA
1 ATACATTGAAAAATGTATCGATACATCTAGATAGAAAGACAGAATGTATCGATACATT-AAAGAA
1672043 TGTATCGATACAT
65 TGTATCGATACAT
1672056 CTGGGTAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 37 0.53
91 33 0.47
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (91 bp):
ATACATTGAAAAATGTATCGATACATCTAGATAGAAAGACAGAATGTATCGATACATTAAAGAAT
GTATCGATACATTCATATATGTATCA
Found at i:1673314 original size:149 final size:142
Alignment explanation
Indices: 1672975--1673432 Score: 456
Period size: 149 Copynumber: 3.1 Consensus size: 142
1672965 CATTAACTTG
* * * * *
1672975 TGTGGGCTTCGAAAAGAGTTGCCACTGACTCTATGGGCTTTGAAAAGAGTTGCCATTGATTTGTG
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT-TATGGGCTTTG-AAAG-GATGCCACTGA-CT-TG
* * ** * ** *
1673040 TGGGTTTTGAAA-GAATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACCAACTTATGGGCTTT
60 TGGGCTTTGAAATG-GTGCCACCGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT
* * *
1673104 G-TAAGGGTGCCACTGACT
124 GAAAAGGATACCACTGACT
* * * *
1673122 TGTGGGCTTCGAAATGGTATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGG-GTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
1673187 TTTTAAA-GGTTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGCCA-TCGACTTGTGTGGACT
65 TTTGAAATGG-TGCCACCGA-CT-TGTGGGCTTTGAAAAGA--TGCCACT-GACTTGTG-GG-CT
* *
1673250 TTGAAAAGAGTTACCACTAACT
122 TTGAAAAG-GATACCACTGACT
* * *
1673272 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGGCATTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* *
1673337 TTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAAGG
66 TTGAAATGGTGCCACCGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGG
* *
1673402 ATGCCATTGACT
131 ATACCACTGACT
1673414 TGTGGGCTTTGAAAAGGGT
1 TGTGGGCTTTGAAAAGGGT
1673433 CGTATTGATG
Statistics
Matches: 264, Mismatches: 34, Indels: 31
0.80 0.10 0.09
Matches are distributed among these distances:
142 48 0.18
143 11 0.04
144 27 0.10
145 17 0.06
146 24 0.09
147 45 0.17
148 6 0.02
149 59 0.22
150 27 0.10
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (142 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
TTGAAATGGTGCCACCGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGG
ATACCACTGACT
Found at i:1673432 original size:263 final size:268
Alignment explanation
Indices: 1672923--1673432 Score: 685
Period size: 263 Copynumber: 1.9 Consensus size: 268
1672913 GTGATTTAAA
* *
1672923 AAAGGTTGCCACCGATTTGCGTGGGCTTTAAAAAAAAGGTGCCATTAACTTGTGTGGGCTTCGAA
1 AAAGGTTGCCACCGATTTGCGTGGGCTTTAAAAAAAAGGTGCCATCAACTTGTGTGGACTTCGAA
* * * * * *
1672988 AAGAGTTGCCACTGACTCTATGGGCTTTGAAAAGAGTTGCCATTGATTTGTGTGGGTTTTGAAAG
66 AAGAGTTACCACTAACTCTATGGGCTTTGAAAAGAGGTGCCACTGATCTGTGTGGGCTTTGAAAG
* * *
1673053 AATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACCAACTTATGGGCTTTGTAAGGGTGCCACT
131 AATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACCAACTTATGGGCTTTGAAAAGATGCCACT
1673118 GACTTGTGGGCTTCGAAATGGTATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGT
196 GACTTGTGGGCTTCGAAATGGTATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGT
1673183 GGGCTTTT
261 GGGCTTTT
* * * * * *
1673191 AAAGGTTGCCACCGATTTGTGTGGGCTTT-GAAAAGAGTTGCCATCGACTTGTGTGGACTTTGAA
1 AAAGGTTGCCACCGATTTGCGTGGGCTTTAAAAAAAAGGTGCCATCAACTTGTGTGGACTTCGAA
*
1673255 AAGAGTTACCACTAACT-TGTGGGCTTTGAAAAG-GGTGCCACTGA-CT-TGTGGGCTTTGAAAG
66 AAGAGTTACCACTAACTCTATGGGCTTTGAAAAGAGGTGCCACTGATCTGTGTGGGCTTTGAAAG
* * * * ** *
1673316 GATGGCATTGACTTGTGGGCTTTGAAATGG-TGCCACTGACTTGTGGGCTTTGAAAAGATGCCAC
131 AATGCCACTAACTTGTGGGCTTTGAAA-GGATGCCACCAACTTATGGGCTTTGAAAAGATGCCAC
* * *
1673380 TGACTTGTGGGCTTTGAGAA-GG-ATGCCATTGACTTGTGGGCTTTGAAAAGGGT
195 TGACTTGTGGGCTTCGA-AATGGTATGCCACTGACTTATGGGCTTTG-AAAGGGT
1673433 CGTATTGATG
Statistics
Matches: 211, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
262 21 0.10
263 90 0.43
264 5 0.02
265 9 0.04
266 15 0.07
267 43 0.20
268 28 0.13
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (268 bp):
AAAGGTTGCCACCGATTTGCGTGGGCTTTAAAAAAAAGGTGCCATCAACTTGTGTGGACTTCGAA
AAGAGTTACCACTAACTCTATGGGCTTTGAAAAGAGGTGCCACTGATCTGTGTGGGCTTTGAAAG
AATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACCAACTTATGGGCTTTGAAAAGATGCCACT
GACTTGTGGGCTTCGAAATGGTATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGT
GGGCTTTT
Found at i:1673440 original size:29 final size:29
Alignment explanation
Indices: 1672975--1673430 Score: 444
Period size: 28 Copynumber: 15.6 Consensus size: 29
1672965 CATTAACTTG
* *
1672975 TGTGGGCTTCGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* * * *
1673005 CTATGGGCTTTGAAAAGAGTTGCCATTGATTT
1 -TGTGGGCTTTGAAAAG-GATGCCACTGA-CT
* * *
1673037 GTGTGGGTTTTG-AAAGAATGCCACTAACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
**
1673066 TGTGGGCTTTG-AAAGGATGCCACCAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
1673094 TATGGGCTTTG-TAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
1673122 TGTGGGCTTCGAAATGGTATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-ATGCCACTGACT
* *
1673152 TATGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
1673180 TGTGGGCTTT-TAAAGGTTGCCACCGATTT
1 TGTGGGCTTTGAAAAGGATGCCACTGA-CT
*
1673209 GTGTGGGCTTTGAAAAGAGTTGCCA-TCGACT
1 -TGTGGGCTTTGAAAAG-GATGCCACT-GACT
* * *
1673240 TGTGTGGACTTTGAAAAGAGTTACCACTAACT
1 TGTG-GG-CTTTGAAAAG-GATGCCACTGACT
*
1673272 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
1673301 TGTGGGCTTTG-AAAGGATGGCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
1673329 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
1673357 TGTGGGCTTTGAAAA-GATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
1673385 TGTGGGCTTTGAGAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
1673414 TGTGGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAAGG
1673431 GTCGTATTGA
Statistics
Matches: 359, Mismatches: 51, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.00
28 163 0.45
29 62 0.17
30 51 0.14
31 38 0.11
32 43 0.12
33 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:1674743 original size:19 final size:18
Alignment explanation
Indices: 1674716--1674756 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
1674706 GACCCTTCTA
1674716 TTTTTGTTTGTTTGGTTT
1 TTTTTGTTTGTTTGGTTT
*
1674734 TTTTTGGTTTGTTTTGTTT
1 TTTTT-GTTTGTTTGGTTT
1674753 TTTT
1 TTTT
1674757 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (18 bp):
TTTTTGTTTGTTTGGTTT
Found at i:1681530 original size:52 final size:52
Alignment explanation
Indices: 1681450--1681567 Score: 200
Period size: 52 Copynumber: 2.3 Consensus size: 52
1681440 AAGTTGTCTG
*
1681450 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* * *
1681502 CATGCATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
1681554 CATGTATCGATACA
1 CATGTATCGATACA
1681568 AAGATCATTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:1681594 original size:13 final size:13
Alignment explanation
Indices: 1681576--1681600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1681566 CAAAGATCAT
1681576 TGTATCGATACAA
1 TGTATCGATACAA
1681589 TGTATCGATACA
1 TGTATCGATACA
1681601 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1681680 original size:13 final size:13
Alignment explanation
Indices: 1681662--1681686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1681652 ACAAAACTTA
1681662 TGTATCGATACAT
1 TGTATCGATACAT
1681675 TGTATCGATACA
1 TGTATCGATACA
1681687 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1681682 original size:32 final size:32
Alignment explanation
Indices: 1681641--1681705 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1681631 AGTAGCTTAA
1681641 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
1681673 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
1681705 A
1 A
1681706 ACACTTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:1681716 original size:20 final size:19
Alignment explanation
Indices: 1681643--1681722 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 19
1681633 TAGCTTAAAT
*
1681643 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
1681662 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1681675 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1681694 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
1681714 TGTATCGAT
1 TGTATCGAT
1681723 TCAAATCGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
13 9 0.17
14 1 0.02
16 5 0.09
18 1 0.02
19 25 0.47
20 12 0.23
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1682681 original size:65 final size:65
Alignment explanation
Indices: 1682577--1682706 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
1682567 TTAAAGGTGA
*
1682577 TGCCACCGACTTGTGTAGGCTTTAAAGGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGG
1 TGCCACCGACTTGTGTAGGCTTTAAAGGAAGGTTACCACCGACTTGTGTGGGCTTTAGAG-AGGG
1682641 T
65 T
*
1682642 TGCCACCGACTTGTGTGGGCTTTAGAA-GAAGGTTACCACCGACTTGTGTGGGCTTTAGAGAGGG
1 TGCCACCGACTTGTGTAGGCTTTA-AAGGAAGGTTACCACCGACTTGTGTGGGCTTTAGAGAGGG
1682706 T
65 T
1682707 AATAGAGTGC
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
65 56 0.92
66 5 0.08
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (65 bp):
TGCCACCGACTTGTGTAGGCTTTAAAGGAAGGTTACCACCGACTTGTGTGGGCTTTAGAGAGGGT
Found at i:1682699 original size:33 final size:33
Alignment explanation
Indices: 1682577--1682700 Score: 191
Period size: 33 Copynumber: 3.8 Consensus size: 33
1682567 TTAAAGGTGA
*
1682577 TGCCACCGACTTGTGTAGGCTTTA-AAGGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-GAAGGT
1682610 TGCCACCGACTTGTGTGGGCTTT-G-AGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGT
1682642 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
*
1682675 TACCACCGACTTGTGTGGGCTTTAGA
1 TGCCACCGACTTGTGTGGGCTTTAGA
1682701 GAGGGTAATA
Statistics
Matches: 85, Mismatches: 2, Indels: 8
0.89 0.02 0.08
Matches are distributed among these distances:
31 3 0.04
32 27 0.32
33 51 0.60
34 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.28
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGT
Found at i:1682787 original size:61 final size:63
Alignment explanation
Indices: 1682710--1683048 Score: 322
Period size: 61 Copynumber: 5.4 Consensus size: 63
1682700 AGAGGGTAAT
*
1682710 AGAGTGCCACGGAGTTGTGGGCTTTAAAAG-GGTGCCACGGAGTTGTGGACTTAGAAGGAACA
1 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
* *
1682772 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAG
1 AGAGTGCCACGGAGTTGTGGGCTTTAAAA--G----AG-GTGCCACGGAGTTGTGGACTTAGAAG
1682836 GAAAA
59 GAAAA
1682841 AGAGTGCCACGGAGTTGTGGGC-TTAAAAG-GGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
* * * * * *
1682902 AGAGTGCCACAGAGTTGTGGGCTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGAA--AAAA
1 AGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
* * * * * * * * *
1682964 A-A-TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGAACTTTGAA-G-AAA
1 AGAGTGCCACGGAGTTGTGGGCTTT-AA-AAGAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
* * *
1683025 AGA-TGCCACTGAGTCGTGGACTTT
1 AGAGTGCCACGGAGTTGTGGGCTTT
1683049 GAGAAGAGAT
Statistics
Matches: 245, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
60 20 0.08
61 109 0.44
62 32 0.13
63 5 0.02
64 22 0.09
67 1 0.00
68 1 0.00
69 36 0.15
70 19 0.08
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (63 bp):
AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
Found at i:1682815 original size:97 final size:92
Alignment explanation
Indices: 1682688--1682955 Score: 281
Period size: 97 Copynumber: 2.8 Consensus size: 92
1682678 CACCGACTTG
* * *
1682688 TGTGGGCTTTAGAGAGGGTAATAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGTGCCACGGAG
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGTGCCACGGAG
1682752 TTGTGGACTTAGAAGGAACAAGGTGCCACGGAGT
65 TTGTGGACTT---A--AA-AAGGTGCCACGGAGT
*
1682786 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT----G-AAAAGGGTGCCAC
* *
1682851 GGAGTTGTGGGCTTAAAAGGGTGCCACGGAGT
61 GGAGTTGTGGACTTAAAAAGGTGCCACGGAGT
* * * * * *
1682883 TGTGGAC-TTAGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGGAAAGAGATGCCACTGAG
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-GGTGCCACGGAG
*
1682946 TCGTGGACTT
65 TTGTGGACTT
1682956 TGAAAAAAAA
Statistics
Matches: 148, Mismatches: 15, Indels: 21
0.80 0.08 0.11
Matches are distributed among these distances:
90 4 0.03
91 18 0.12
95 30 0.20
96 5 0.03
97 52 0.35
98 13 0.09
100 1 0.01
103 25 0.17
ACGTcount: A:0.28, C:0.13, G:0.37, T:0.22
Consensus pattern (92 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGTGCCACGGAGT
TGTGGACTTAAAAAGGTGCCACGGAGT
Found at i:1682844 original size:34 final size:33
Alignment explanation
Indices: 1682710--1683084 Score: 278
Period size: 31 Copynumber: 11.9 Consensus size: 33
1682700 AGAGGGTAAT
*
1682710 AGAGTGCCACGGAGTTGTGGGCTTT-----AAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* * *
1682738 AGGGTGCCACGGAGTTGTGGACTTAGAAGGAACA
1 AGAGTGCCACGGAGTTGTGGACTTTGAA-GAAAA
* *
1682772 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
1 AGAGTGCCACGGAGTTGTGGACTTT-GAA--GAAAA
*
1682807 AGAGTGCCACGGAGTTGTGGGCTTTGAAGGAAAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAA-GAAAA
*
1682841 AGAGTGCCACGGAGTTGTGGGC-TT-----AAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* *
1682868 AGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAA-GAAAA
* * *
1682902 AGAGTGCCACAGAGTTGTGGGCTTTG--GAAAG
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* *
1682933 AGA-TGCCACTGAGTCGTGGACTTTGAA-AAAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* *
1682964 A-A-TGCCACTGAGTCGTGGACTTTGAAG-AAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* * *
1682994 AGA-TGCCACTGAGTCGTGAACTTTGAAG-AAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* * *
1683025 AGA-TGCCACTGAGTCGTGGACTTTG-AG-AAG
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
* * * *
1683055 AGATTGCCACTGAGTCGTGCACTTT-AAGAA
1 AGAGTGCCACGGAGTTGTGGACTTTGAAGAA
1683085 GGCATTTGAA
Statistics
Matches: 299, Mismatches: 25, Indels: 42
0.82 0.07 0.11
Matches are distributed among these distances:
27 23 0.08
28 23 0.08
30 55 0.18
31 85 0.28
32 1 0.00
33 22 0.07
34 59 0.20
35 9 0.03
36 22 0.07
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (33 bp):
AGAGTGCCACGGAGTTGTGGACTTTGAAGAAAA
Found at i:1682897 original size:27 final size:27
Alignment explanation
Indices: 1682838--1682897 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1682828 CTTTGAAGGA
* *
1682838 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1682865 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
1682892 AGAAGG
1 AAAAGG
1682898 AAAAAGAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1683063 original size:62 final size:61
Alignment explanation
Indices: 1682806--1683084 Score: 266
Period size: 61 Copynumber: 4.5 Consensus size: 61
1682796 AAAAGGGAAA
* * * * * * *
1682806 AAGAG-TGCCACGGAGTTGTGGGCTTTGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
1 AAGAGATGCCACTGAGTCGTGGACTTTGAA-G-AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* * * * * * *
1682867 AAG-GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTG-G
1 AAGAGATGCCACTGAGTCGTGGACTTTGAA-G-AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
1682929 AAAGAGATGCCACTGAGTCGTGGACTTTGAA-AAAAAATGCCACTGAGTCGTGGACTTTGAAG
1 -AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
1682991 AAAAGATGCCACTGAGTCGTGAACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
*
1683052 AAGAGATTGCCACTGAGTCGTGCACTTT-AAGAA
1 AAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAA
1683085 GGCATTTGAA
Statistics
Matches: 192, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
60 20 0.10
61 97 0.51
62 50 0.26
63 3 0.02
64 22 0.11
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (61 bp):
AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:1683215 original size:16 final size:17
Alignment explanation
Indices: 1683184--1683221 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1683174 GATGCAAATA
* *
1683184 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
1683201 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
1683217 ATGAT
1 ATGAT
1683222 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:1684132 original size:15 final size:15
Alignment explanation
Indices: 1684107--1684147 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1684097 CTCACCGAGA
* *
1684107 TTTTCTATTTTGTTT
1 TTTTCTTTTTTGTTC
1684122 TTTTCTTTTTT-TTC
1 TTTTCTTTTTTGTTC
1684136 TTTT-TTTTTTGT
1 TTTTCTTTTTTGT
1684148 GTTTGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 7 0.30
15 10 0.43
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.85
Consensus pattern (15 bp):
TTTTCTTTTTTGTTC
Found at i:1684144 original size:10 final size:9
Alignment explanation
Indices: 1684119--1684143 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1684109 TTCTATTTTG
1684119 TTTTTTTCT
1 TTTTTTTCT
1684128 TTTTTTTCT
1 TTTTTTTCT
1684137 TTTTTTT
1 TTTTTTT
1684144 TTGTGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:1684408 original size:13 final size:12
Alignment explanation
Indices: 1684402--1684465 Score: 75
Period size: 11 Copynumber: 5.7 Consensus size: 12
1684392 TTTTCTGTGC
1684402 TTTTTTTTGTTG
1 TTTTTTTTGTTG
1684414 TTTTTTTTTGTTG
1 -TTTTTTTTGTTG
1684427 -TTTTTTT-TT-
1 TTTTTTTTGTTG
*
1684436 TTATTTTT-TTG
1 TTTTTTTTGTTG
1684447 TTTTTTTTGTT-
1 TTTTTTTTGTTG
1684458 TTTTTTTT
1 TTTTTTTT
1684466 TCATCACTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.22
11 22 0.48
12 2 0.04
13 12 0.26
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (12 bp):
TTTTTTTTGTTG
Found at i:1684434 original size:29 final size:29
Alignment explanation
Indices: 1684402--1684466 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
1684392 TTTTCTGTGC
* *
1684402 TTTTTTTTGTTGTTTT-TTTTTGTTGTTT
1 TTTTTTTTATTTTTTTGTTTTTGTTGTTT
*
1684430 TTTTTTTTATTTTTTTGTTTTTTTTGTTT
1 TTTTTTTTATTTTTTTGTTTTTGTTGTTT
1684459 TTTTTTTT
1 TTTTTTTT
1684467 CATCACTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (29 bp):
TTTTTTTTATTTTTTTGTTTTTGTTGTTT
Found at i:1684466 original size:13 final size:13
Alignment explanation
Indices: 1684402--1684466 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
1684392 TTTTCTGTGC
*
1684402 TTTTTTTTGTTGT
1 TTTTTTTTTTTGT
*
1684415 TTTTTTTTGTTGTT
1 TTTTTTTTTTTG-T
*
1684429 TTTTTTTTTATTTT
1 TTTTTTTTT-TTGT
1684443 TTTGTTTTTTTTGT
1 TTT-TTTTTTTTGT
1684457 TTTTTTTTTT
1 TTTTTTTTTT
1684467 CATCACTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 19 0.41
14 19 0.41
15 8 0.17
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:1684477 original size:33 final size:33
Alignment explanation
Indices: 1684406--1684478 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
1684396 CTGTGCTTTT
* *
1684406 TTTTGTTGTTTTTTTTTGTTGTTTTTTTTTTTAT
1 TTTT-TTGTTTTTTTTTGTTGTTTTTTTTTTCAC
1684440 TTTTTTG-TTTTTTTTGTT-TTTTTTTTTCATCAC
1 TTTTTTGTTTTTTTTTGTTGTTTTTTTTT--TCAC
1684473 TTTTTT
1 TTTTTT
1684479 TTAAGGGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 9 0.26
32 11 0.31
33 11 0.31
34 4 0.11
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.84
Consensus pattern (33 bp):
TTTTTTGTTTTTTTTTGTTGTTTTTTTTTTCAC
Found at i:1684480 original size:1 final size:1
Alignment explanation
Indices: 1684402--1684466 Score: 67
Period size: 1 Copynumber: 65.0 Consensus size: 1
1684392 TTTTCTGTGC
* * * * * * *
1684402 TTTTTTTTGTTGTTTTTTTTTGTTGTTTTTTTTTTTATTTTTTTGTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1684467 CATCACTTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:1691187 original size:52 final size:52
Alignment explanation
Indices: 1691106--1691216 Score: 188
Period size: 52 Copynumber: 2.1 Consensus size: 52
1691096 AAAAAGTTGT
1691106 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGC
* *
1691158 CTGCATGTATCGATACATTTTATTA-TGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTAGGCAAATTTGC
1691210 CTGCATG
1 CTGCATG
1691217 ATCAGTGTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
52 50 0.89
53 6 0.11
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGC
Found at i:1691238 original size:52 final size:52
Alignment explanation
Indices: 1691106--1691246 Score: 162
Period size: 52 Copynumber: 2.7 Consensus size: 52
1691096 AAAAAGTTGT
* *
1691106 CTGCATGTATCGATACAT-TTAATAGTGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATGAT-ATAATGTATCGATACATCTAGGCAAATTTGC
** * *
1691158 CTGCATGTATCGATACATTTTATTATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATGATATAATGTATCGATACATCTAGGCAAATTTGC
**
1691210 CTGCATG-ATC-AGTGTATCGATATAATGTATCGATACA
1 CTGCATGTATCGA-TACAT-GATATAATGTATCGATACA
1691247 AAGATCAGTG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
50 1 0.01
51 6 0.08
52 69 0.88
53 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATGATATAATGTATCGATACATCTAGGCAAATTTGC
Found at i:1691258 original size:33 final size:33
Alignment explanation
Indices: 1691216--1691279 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
1691206 TTGCCTGCAT
*
1691216 GATCAGTGTATCGATATAATGTATCGATACAAA
1 GATCAGTGTATCGATACAATGTATCGATACAAA
1691249 GATCAGTGTATCGATACAATGTATCGATACA
1 GATCAGTGTATCGATACAATGTATCGATACA
1691280 TTTGAGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (33 bp):
GATCAGTGTATCGATACAATGTATCGATACAAA
Found at i:1691273 original size:13 final size:13
Alignment explanation
Indices: 1691222--1691279 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
1691212 GCATGATCAG
*
1691222 TGTATCGATATAA
1 TGTATCGATACAA
1691235 TGTATCGATACAA
1 TGTATCGATACAA
*
1691248 ---A--GAT-CAG
1 TGTATCGATACAA
1691255 TGTATCGATACAA
1 TGTATCGATACAA
1691268 TGTATCGATACA
1 TGTATCGATACA
1691280 TTTGAGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
8 3 0.08
10 2 0.06
12 3 0.08
13 26 0.72
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1691359 original size:13 final size:13
Alignment explanation
Indices: 1691341--1691365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1691331 ACAAAACTTA
1691341 TGTATCGATACAT
1 TGTATCGATACAT
1691354 TGTATCGATACA
1 TGTATCGATACA
1691366 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1691360 original size:32 final size:33
Alignment explanation
Indices: 1691320--1691385 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
1691310 AGTAGCTTAA
1691320 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
1691352 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
1691385 A
1 A
1691386 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:1694045 original size:15 final size:15
Alignment explanation
Indices: 1694006--1694050 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1693996 ATGTATCGAC
*
1694006 AATTTTGTGGTGGGT
1 AATTTTGTGGTGGAT
**
1694021 AATTAGGTGGTGGAT
1 AATTTTGTGGTGGAT
*
1694036 GATTTTGTGGTGGAT
1 AATTTTGTGGTGGAT
1694051 TTGGCGGAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (15 bp):
AATTTTGTGGTGGAT
Found at i:1700247 original size:13 final size:13
Alignment explanation
Indices: 1700229--1700254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1700219 TACAGCAAGT
1700229 ATGTATCGATACA
1 ATGTATCGATACA
1700242 ATGTATCGATACA
1 ATGTATCGATACA
1700255 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1702503 original size:21 final size:21
Alignment explanation
Indices: 1702470--1702514 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1702460 TTGCAAGTTG
*
1702470 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1702492 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1702512 AAA
1 AAA
1702515 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1704338 original size:15 final size:15
Alignment explanation
Indices: 1704318--1704348 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1704308 TAAAAATGTC
*
1704318 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1704333 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1704348 C
1 C
1704349 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1706448 original size:13 final size:13
Alignment explanation
Indices: 1706430--1706455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1706420 ACATTTTCCT
1706430 TTGTATCGATACA
1 TTGTATCGATACA
1706443 TTGTATCGATACA
1 TTGTATCGATACA
1706456 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1706619 original size:20 final size:20
Alignment explanation
Indices: 1706576--1706621 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1706566 AAATCTTTTG
1706576 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1706597 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1706617 CAAAA
1 CAAAA
1706622 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1709027 original size:13 final size:13
Alignment explanation
Indices: 1709009--1709034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1708999 TACAGCAAGT
1709009 ATGTATCGATACA
1 ATGTATCGATACA
1709022 ATGTATCGATACA
1 ATGTATCGATACA
1709035 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Done.