Multiple sequence alignment - TraesCS7B01G313500

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G313500 chr7B 100.000 3911 0 0 1 3911 560501092 560505002 0.000000e+00 7223.0
1 TraesCS7B01G313500 chr7B 82.895 228 26 10 442 664 560501435 560501654 3.990000e-45 193.0
2 TraesCS7B01G313500 chr7B 82.819 227 28 9 344 563 560501533 560501755 3.990000e-45 193.0
3 TraesCS7B01G313500 chr7B 82.022 178 29 3 388 563 559632830 559633006 8.760000e-32 148.0
4 TraesCS7B01G313500 chr7D 92.626 3580 199 31 354 3911 562196953 562200489 0.000000e+00 5088.0
5 TraesCS7B01G313500 chr7D 92.080 3586 217 34 344 3911 524304112 524307648 0.000000e+00 4987.0
6 TraesCS7B01G313500 chr7D 91.525 3587 226 42 344 3911 524249385 524252912 0.000000e+00 4868.0
7 TraesCS7B01G313500 chr7D 92.262 2998 173 27 344 3323 524311765 524314721 0.000000e+00 4196.0
8 TraesCS7B01G313500 chr7D 91.220 2836 189 32 344 3164 523547311 523550101 0.000000e+00 3803.0
9 TraesCS7B01G313500 chr7D 86.891 267 29 4 399 664 524311722 524311983 1.060000e-75 294.0
10 TraesCS7B01G313500 chr7D 86.900 229 26 1 1 229 10119922 10120146 1.800000e-63 254.0
11 TraesCS7B01G313500 chr7D 82.784 273 36 6 399 665 562196900 562197167 2.350000e-57 233.0
12 TraesCS7B01G313500 chr7D 85.789 190 18 6 480 665 562196881 562197065 3.990000e-45 193.0
13 TraesCS7B01G313500 chr7A 91.358 3541 249 25 371 3894 604250276 604253776 0.000000e+00 4791.0
14 TraesCS7B01G313500 chr7A 90.937 3586 260 29 344 3911 604255655 604259193 0.000000e+00 4761.0
15 TraesCS7B01G313500 chr7A 91.034 3558 261 25 371 3911 604261057 604264573 0.000000e+00 4750.0
16 TraesCS7B01G313500 chr7A 90.633 3587 262 35 344 3911 604221975 604225506 0.000000e+00 4695.0
17 TraesCS7B01G313500 chr7A 92.444 2250 140 18 1672 3911 604303811 604306040 0.000000e+00 3186.0
18 TraesCS7B01G313500 chr7A 85.714 231 26 5 2 230 515174804 515174579 1.820000e-58 237.0
19 TraesCS7B01G313500 chr7A 84.112 214 32 2 4 217 49738366 49738155 5.120000e-49 206.0
20 TraesCS7B01G313500 chr6D 90.993 3564 249 33 371 3911 41624163 41620649 0.000000e+00 4737.0
21 TraesCS7B01G313500 chr6A 89.151 3567 269 56 371 3911 52185447 52181973 0.000000e+00 4335.0
22 TraesCS7B01G313500 chr6A 89.844 3397 260 40 344 3720 52289912 52286581 0.000000e+00 4283.0
23 TraesCS7B01G313500 chr6A 92.195 2998 173 31 344 3323 74148610 74151564 0.000000e+00 4183.0
24 TraesCS7B01G313500 chr6A 85.768 267 28 6 399 664 74148567 74148824 1.380000e-69 274.0
25 TraesCS7B01G313500 chr6A 83.645 214 33 2 4 217 559783853 559783642 2.380000e-47 200.0
26 TraesCS7B01G313500 chr6A 84.615 65 2 6 337 398 583829613 583829672 1.520000e-04 58.4
27 TraesCS7B01G313500 chrUn 95.032 1570 64 4 492 2051 77011485 77009920 0.000000e+00 2455.0
28 TraesCS7B01G313500 chrUn 94.841 1570 67 5 492 2051 76991851 76990286 0.000000e+00 2438.0
29 TraesCS7B01G313500 chrUn 94.170 223 9 1 492 714 453261801 453261583 1.740000e-88 337.0
30 TraesCS7B01G313500 chrUn 86.638 232 25 2 4 233 87983340 87983113 6.490000e-63 252.0
31 TraesCS7B01G313500 chr3A 85.068 221 24 5 7 223 686615517 686615302 2.370000e-52 217.0
32 TraesCS7B01G313500 chr3A 83.945 218 31 4 1 217 587679676 587679890 5.120000e-49 206.0
33 TraesCS7B01G313500 chr2A 83.190 232 34 4 4 233 303859379 303859151 1.420000e-49 207.0
34 TraesCS7B01G313500 chr4B 82.203 236 33 6 1 233 591720237 591720008 1.110000e-45 195.0
35 TraesCS7B01G313500 chr4A 87.952 166 19 1 69 233 556761776 556761611 1.110000e-45 195.0
36 TraesCS7B01G313500 chr1B 96.774 31 1 0 339 369 479792902 479792872 7.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G313500 chr7B 560501092 560505002 3910 False 2536.333333 7223 88.571333 1 3911 3 chr7B.!!$F2 3910
1 TraesCS7B01G313500 chr7D 524304112 524307648 3536 False 4987.000000 4987 92.080000 344 3911 1 chr7D.!!$F4 3567
2 TraesCS7B01G313500 chr7D 524249385 524252912 3527 False 4868.000000 4868 91.525000 344 3911 1 chr7D.!!$F3 3567
3 TraesCS7B01G313500 chr7D 523547311 523550101 2790 False 3803.000000 3803 91.220000 344 3164 1 chr7D.!!$F2 2820
4 TraesCS7B01G313500 chr7D 524311722 524314721 2999 False 2245.000000 4196 89.576500 344 3323 2 chr7D.!!$F5 2979
5 TraesCS7B01G313500 chr7D 562196881 562200489 3608 False 1838.000000 5088 87.066333 354 3911 3 chr7D.!!$F6 3557
6 TraesCS7B01G313500 chr7A 604250276 604264573 14297 False 4767.333333 4791 91.109667 344 3911 3 chr7A.!!$F3 3567
7 TraesCS7B01G313500 chr7A 604221975 604225506 3531 False 4695.000000 4695 90.633000 344 3911 1 chr7A.!!$F1 3567
8 TraesCS7B01G313500 chr7A 604303811 604306040 2229 False 3186.000000 3186 92.444000 1672 3911 1 chr7A.!!$F2 2239
9 TraesCS7B01G313500 chr6D 41620649 41624163 3514 True 4737.000000 4737 90.993000 371 3911 1 chr6D.!!$R1 3540
10 TraesCS7B01G313500 chr6A 52181973 52185447 3474 True 4335.000000 4335 89.151000 371 3911 1 chr6A.!!$R1 3540
11 TraesCS7B01G313500 chr6A 52286581 52289912 3331 True 4283.000000 4283 89.844000 344 3720 1 chr6A.!!$R2 3376
12 TraesCS7B01G313500 chr6A 74148567 74151564 2997 False 2228.500000 4183 88.981500 344 3323 2 chr6A.!!$F2 2979
13 TraesCS7B01G313500 chrUn 77009920 77011485 1565 True 2455.000000 2455 95.032000 492 2051 1 chrUn.!!$R2 1559
14 TraesCS7B01G313500 chrUn 76990286 76991851 1565 True 2438.000000 2438 94.841000 492 2051 1 chrUn.!!$R1 1559

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
226 227 0.115745 AGGGGGTACTTGAGAACGGA 59.884 55.0 0.00 0.0 0.00 4.69 F
227 228 0.535797 GGGGGTACTTGAGAACGGAG 59.464 60.0 0.00 0.0 0.00 4.63 F
228 229 0.535797 GGGGTACTTGAGAACGGAGG 59.464 60.0 0.00 0.0 0.00 4.30 F
1144 1169 0.742990 GTTCCGTTGGATCCATCGCA 60.743 55.0 31.21 20.1 37.69 5.10 F
2417 2463 0.601311 GAGCGACTGGTGCAAGAGTT 60.601 55.0 0.00 0.0 33.85 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1417 1442 0.104304 AAGTTGTCAGCTTCGTCGGT 59.896 50.000 0.00 0.00 0.00 4.69 R
1503 1534 2.432456 GCGACGTGCCTGACATCA 60.432 61.111 0.00 0.00 37.76 3.07 R
1977 2010 4.833390 ACCTTGTAGAACTATGAGGCAAC 58.167 43.478 10.95 0.00 0.00 4.17 R
2619 2665 0.035317 CCATATGGCGCTCTGGCTTA 59.965 55.000 9.29 0.00 45.14 3.09 R
3288 14136 0.323451 GGACTTGGGCCCGAAGAAAT 60.323 55.000 29.60 14.84 0.00 2.17 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 5.389935 CGAAGCAAAAGGAGTGAATCTACAC 60.390 44.000 0.00 0.00 40.60 2.90
70 71 9.645059 CATCCATCTATATGTAGTTTGTACTGG 57.355 37.037 0.00 0.00 35.78 4.00
72 73 9.429109 TCCATCTATATGTAGTTTGTACTGGAA 57.571 33.333 0.00 0.00 35.78 3.53
82 83 8.836413 TGTAGTTTGTACTGGAATCTCAAAAAG 58.164 33.333 0.00 0.00 35.78 2.27
85 86 7.775561 AGTTTGTACTGGAATCTCAAAAAGACT 59.224 33.333 0.00 0.00 32.58 3.24
86 87 8.406297 GTTTGTACTGGAATCTCAAAAAGACTT 58.594 33.333 0.00 0.00 36.65 3.01
87 88 9.621629 TTTGTACTGGAATCTCAAAAAGACTTA 57.378 29.630 0.00 0.00 36.65 2.24
88 89 9.793259 TTGTACTGGAATCTCAAAAAGACTTAT 57.207 29.630 0.00 0.00 36.65 1.73
92 93 9.660180 ACTGGAATCTCAAAAAGACTTATACTC 57.340 33.333 0.00 0.00 36.65 2.59
93 94 9.103861 CTGGAATCTCAAAAAGACTTATACTCC 57.896 37.037 0.00 0.00 36.65 3.85
94 95 8.047310 TGGAATCTCAAAAAGACTTATACTCCC 58.953 37.037 0.00 0.00 36.65 4.30
95 96 8.268605 GGAATCTCAAAAAGACTTATACTCCCT 58.731 37.037 0.00 0.00 36.65 4.20
96 97 9.320352 GAATCTCAAAAAGACTTATACTCCCTC 57.680 37.037 0.00 0.00 36.65 4.30
97 98 7.184067 TCTCAAAAAGACTTATACTCCCTCC 57.816 40.000 0.00 0.00 0.00 4.30
98 99 5.974108 TCAAAAAGACTTATACTCCCTCCG 58.026 41.667 0.00 0.00 0.00 4.63
99 100 5.482878 TCAAAAAGACTTATACTCCCTCCGT 59.517 40.000 0.00 0.00 0.00 4.69
100 101 5.595257 AAAAGACTTATACTCCCTCCGTC 57.405 43.478 0.00 0.00 0.00 4.79
101 102 3.226682 AGACTTATACTCCCTCCGTCC 57.773 52.381 0.00 0.00 0.00 4.79
102 103 2.158490 AGACTTATACTCCCTCCGTCCC 60.158 54.545 0.00 0.00 0.00 4.46
103 104 1.572415 ACTTATACTCCCTCCGTCCCA 59.428 52.381 0.00 0.00 0.00 4.37
104 105 2.023695 ACTTATACTCCCTCCGTCCCAA 60.024 50.000 0.00 0.00 0.00 4.12
105 106 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
106 107 2.191981 ATACTCCCTCCGTCCCAAAT 57.808 50.000 0.00 0.00 0.00 2.32
107 108 1.961133 TACTCCCTCCGTCCCAAATT 58.039 50.000 0.00 0.00 0.00 1.82
108 109 1.073098 ACTCCCTCCGTCCCAAATTT 58.927 50.000 0.00 0.00 0.00 1.82
109 110 1.004394 ACTCCCTCCGTCCCAAATTTC 59.996 52.381 0.00 0.00 0.00 2.17
110 111 1.282157 CTCCCTCCGTCCCAAATTTCT 59.718 52.381 0.00 0.00 0.00 2.52
111 112 1.708551 TCCCTCCGTCCCAAATTTCTT 59.291 47.619 0.00 0.00 0.00 2.52
112 113 1.818674 CCCTCCGTCCCAAATTTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
113 114 2.514803 CCTCCGTCCCAAATTTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
114 115 2.488153 CCTCCGTCCCAAATTTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
115 116 3.412386 CTCCGTCCCAAATTTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
116 117 3.821033 CTCCGTCCCAAATTTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
117 118 4.975631 TCCGTCCCAAATTTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
118 119 5.001232 TCCGTCCCAAATTTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
119 120 5.001232 CCGTCCCAAATTTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
120 121 5.648092 CCGTCCCAAATTTCTTGTCTTAGAT 59.352 40.000 0.00 0.00 0.00 1.98
121 122 6.151144 CCGTCCCAAATTTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
122 123 7.309194 CCGTCCCAAATTTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
123 124 7.538678 CGTCCCAAATTTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
124 125 8.360390 GTCCCAAATTTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
125 126 8.576442 TCCCAAATTTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
126 127 8.579863 CCCAAATTTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
134 135 9.582431 TCTTGTCTTAGATTTGTCTAAATACGG 57.418 33.333 0.26 0.99 36.66 4.02
135 136 9.582431 CTTGTCTTAGATTTGTCTAAATACGGA 57.418 33.333 0.26 0.00 36.66 4.69
137 138 9.529325 TGTCTTAGATTTGTCTAAATACGGATG 57.471 33.333 0.26 0.00 36.66 3.51
138 139 9.530633 GTCTTAGATTTGTCTAAATACGGATGT 57.469 33.333 0.26 0.00 36.66 3.06
145 146 9.832445 ATTTGTCTAAATACGGATGTATCAAGT 57.168 29.630 0.00 0.00 40.42 3.16
146 147 8.867112 TTGTCTAAATACGGATGTATCAAGTC 57.133 34.615 0.00 0.00 40.42 3.01
147 148 8.002984 TGTCTAAATACGGATGTATCAAGTCA 57.997 34.615 0.00 0.00 40.42 3.41
148 149 7.919091 TGTCTAAATACGGATGTATCAAGTCAC 59.081 37.037 0.00 0.00 40.42 3.67
149 150 7.113124 GTCTAAATACGGATGTATCAAGTCACG 59.887 40.741 0.00 0.00 40.42 4.35
150 151 4.913335 ATACGGATGTATCAAGTCACGT 57.087 40.909 0.00 0.00 36.56 4.49
151 152 3.587797 ACGGATGTATCAAGTCACGTT 57.412 42.857 0.00 0.00 0.00 3.99
152 153 3.921677 ACGGATGTATCAAGTCACGTTT 58.078 40.909 0.00 0.00 0.00 3.60
153 154 4.312443 ACGGATGTATCAAGTCACGTTTT 58.688 39.130 0.00 0.00 0.00 2.43
154 155 5.472148 ACGGATGTATCAAGTCACGTTTTA 58.528 37.500 0.00 0.00 0.00 1.52
155 156 5.575606 ACGGATGTATCAAGTCACGTTTTAG 59.424 40.000 0.00 0.00 0.00 1.85
156 157 5.575606 CGGATGTATCAAGTCACGTTTTAGT 59.424 40.000 0.00 0.00 0.00 2.24
157 158 6.748658 CGGATGTATCAAGTCACGTTTTAGTA 59.251 38.462 0.00 0.00 0.00 1.82
158 159 7.434307 CGGATGTATCAAGTCACGTTTTAGTAT 59.566 37.037 0.00 0.00 0.00 2.12
159 160 9.095065 GGATGTATCAAGTCACGTTTTAGTATT 57.905 33.333 0.00 0.00 0.00 1.89
212 213 2.325661 AAAAATTGGGACAGAGGGGG 57.674 50.000 0.00 0.00 42.39 5.40
213 214 1.167033 AAAATTGGGACAGAGGGGGT 58.833 50.000 0.00 0.00 42.39 4.95
214 215 2.068831 AAATTGGGACAGAGGGGGTA 57.931 50.000 0.00 0.00 42.39 3.69
215 216 1.296002 AATTGGGACAGAGGGGGTAC 58.704 55.000 0.00 0.00 42.39 3.34
216 217 0.421904 ATTGGGACAGAGGGGGTACT 59.578 55.000 0.00 0.00 42.39 2.73
217 218 0.195096 TTGGGACAGAGGGGGTACTT 59.805 55.000 0.00 0.00 42.39 2.24
218 219 0.546747 TGGGACAGAGGGGGTACTTG 60.547 60.000 0.00 0.00 0.00 3.16
219 220 0.252558 GGGACAGAGGGGGTACTTGA 60.253 60.000 0.00 0.00 0.00 3.02
220 221 1.196012 GGACAGAGGGGGTACTTGAG 58.804 60.000 0.00 0.00 0.00 3.02
221 222 1.273098 GGACAGAGGGGGTACTTGAGA 60.273 57.143 0.00 0.00 0.00 3.27
222 223 2.537143 GACAGAGGGGGTACTTGAGAA 58.463 52.381 0.00 0.00 0.00 2.87
223 224 2.234168 GACAGAGGGGGTACTTGAGAAC 59.766 54.545 0.00 0.00 0.00 3.01
224 225 1.204941 CAGAGGGGGTACTTGAGAACG 59.795 57.143 0.00 0.00 0.00 3.95
225 226 0.535797 GAGGGGGTACTTGAGAACGG 59.464 60.000 0.00 0.00 0.00 4.44
226 227 0.115745 AGGGGGTACTTGAGAACGGA 59.884 55.000 0.00 0.00 0.00 4.69
227 228 0.535797 GGGGGTACTTGAGAACGGAG 59.464 60.000 0.00 0.00 0.00 4.63
228 229 0.535797 GGGGTACTTGAGAACGGAGG 59.464 60.000 0.00 0.00 0.00 4.30
229 230 1.553706 GGGTACTTGAGAACGGAGGA 58.446 55.000 0.00 0.00 0.00 3.71
230 231 1.897802 GGGTACTTGAGAACGGAGGAA 59.102 52.381 0.00 0.00 0.00 3.36
231 232 2.094130 GGGTACTTGAGAACGGAGGAAG 60.094 54.545 0.00 0.00 0.00 3.46
232 233 2.561858 GGTACTTGAGAACGGAGGAAGT 59.438 50.000 0.00 0.00 0.00 3.01
233 234 3.006644 GGTACTTGAGAACGGAGGAAGTT 59.993 47.826 0.00 0.00 34.07 2.66
234 235 3.840124 ACTTGAGAACGGAGGAAGTTT 57.160 42.857 0.00 0.00 31.14 2.66
235 236 4.152284 ACTTGAGAACGGAGGAAGTTTT 57.848 40.909 0.00 0.00 31.14 2.43
236 237 5.286267 ACTTGAGAACGGAGGAAGTTTTA 57.714 39.130 0.00 0.00 31.14 1.52
237 238 5.298347 ACTTGAGAACGGAGGAAGTTTTAG 58.702 41.667 0.00 0.00 31.14 1.85
238 239 4.267349 TGAGAACGGAGGAAGTTTTAGG 57.733 45.455 0.00 0.00 31.14 2.69
239 240 3.899360 TGAGAACGGAGGAAGTTTTAGGA 59.101 43.478 0.00 0.00 31.14 2.94
240 241 4.530946 TGAGAACGGAGGAAGTTTTAGGAT 59.469 41.667 0.00 0.00 31.14 3.24
241 242 5.718130 TGAGAACGGAGGAAGTTTTAGGATA 59.282 40.000 0.00 0.00 31.14 2.59
242 243 6.211986 TGAGAACGGAGGAAGTTTTAGGATAA 59.788 38.462 0.00 0.00 31.14 1.75
243 244 6.641474 AGAACGGAGGAAGTTTTAGGATAAG 58.359 40.000 0.00 0.00 31.14 1.73
244 245 6.212993 AGAACGGAGGAAGTTTTAGGATAAGT 59.787 38.462 0.00 0.00 31.14 2.24
245 246 7.398332 AGAACGGAGGAAGTTTTAGGATAAGTA 59.602 37.037 0.00 0.00 31.14 2.24
246 247 6.871844 ACGGAGGAAGTTTTAGGATAAGTAC 58.128 40.000 0.00 0.00 0.00 2.73
247 248 6.438425 ACGGAGGAAGTTTTAGGATAAGTACA 59.562 38.462 0.00 0.00 0.00 2.90
248 249 7.125356 ACGGAGGAAGTTTTAGGATAAGTACAT 59.875 37.037 0.00 0.00 0.00 2.29
249 250 7.985752 CGGAGGAAGTTTTAGGATAAGTACATT 59.014 37.037 0.00 0.00 0.00 2.71
250 251 9.682465 GGAGGAAGTTTTAGGATAAGTACATTT 57.318 33.333 0.00 0.00 0.00 2.32
273 274 8.864069 TTTAAAATACCATGTGATAAATGCGG 57.136 30.769 0.00 0.00 0.00 5.69
274 275 6.463995 AAAATACCATGTGATAAATGCGGT 57.536 33.333 0.00 0.00 0.00 5.68
275 276 7.575414 AAAATACCATGTGATAAATGCGGTA 57.425 32.000 0.00 0.00 0.00 4.02
276 277 7.575414 AAATACCATGTGATAAATGCGGTAA 57.425 32.000 0.00 0.00 0.00 2.85
277 278 7.575414 AATACCATGTGATAAATGCGGTAAA 57.425 32.000 0.00 0.00 0.00 2.01
278 279 5.243426 ACCATGTGATAAATGCGGTAAAC 57.757 39.130 0.00 0.00 0.00 2.01
296 297 7.605410 GGTAAACGATTCAAACTATTCCAGA 57.395 36.000 0.00 0.00 0.00 3.86
297 298 8.036273 GGTAAACGATTCAAACTATTCCAGAA 57.964 34.615 0.00 0.00 0.00 3.02
298 299 8.175716 GGTAAACGATTCAAACTATTCCAGAAG 58.824 37.037 0.00 0.00 0.00 2.85
299 300 7.745620 AAACGATTCAAACTATTCCAGAAGT 57.254 32.000 0.00 0.00 0.00 3.01
300 301 8.842358 AAACGATTCAAACTATTCCAGAAGTA 57.158 30.769 0.00 0.00 0.00 2.24
301 302 7.829378 ACGATTCAAACTATTCCAGAAGTAC 57.171 36.000 0.00 0.00 0.00 2.73
302 303 7.383687 ACGATTCAAACTATTCCAGAAGTACA 58.616 34.615 0.00 0.00 0.00 2.90
303 304 8.041323 ACGATTCAAACTATTCCAGAAGTACAT 58.959 33.333 0.00 0.00 0.00 2.29
304 305 8.883731 CGATTCAAACTATTCCAGAAGTACATT 58.116 33.333 0.00 0.00 0.00 2.71
307 308 9.567776 TTCAAACTATTCCAGAAGTACATTTGA 57.432 29.630 0.00 0.00 0.00 2.69
308 309 9.567776 TCAAACTATTCCAGAAGTACATTTGAA 57.432 29.630 0.00 0.00 0.00 2.69
335 336 8.836268 AGTTTAAATCGTTTACCACATGTAGA 57.164 30.769 0.00 0.00 0.00 2.59
336 337 9.275398 AGTTTAAATCGTTTACCACATGTAGAA 57.725 29.630 0.00 0.00 0.00 2.10
484 486 8.740123 AGTATCGACCATGGTATCTAGATAAG 57.260 38.462 19.80 5.17 0.00 1.73
490 492 9.179909 CGACCATGGTATCTAGATAAGTCTAAT 57.820 37.037 19.80 0.00 36.54 1.73
576 583 8.867112 TTTTTAGTATCAACCTGCGTATCTAG 57.133 34.615 0.00 0.00 0.00 2.43
885 910 4.346730 TCCCTACTCAACGATAACAAGGA 58.653 43.478 0.00 0.00 0.00 3.36
937 962 3.678252 GCAAGCAGCAGTCTCTAGAATGA 60.678 47.826 11.36 0.00 42.16 2.57
960 985 1.532921 GCGTGCTGTTGCTTTGTTGTA 60.533 47.619 0.00 0.00 40.48 2.41
1096 1121 3.330720 GGCCAGTGGTGGGTAGCT 61.331 66.667 11.74 0.00 45.17 3.32
1144 1169 0.742990 GTTCCGTTGGATCCATCGCA 60.743 55.000 31.21 20.10 37.69 5.10
1417 1442 4.704833 GGCTCCAGGACAAGCGCA 62.705 66.667 11.47 0.00 39.47 6.09
1503 1534 2.047560 GGACTAGGCGCCAACGTT 60.048 61.111 31.54 10.27 42.83 3.99
1585 1616 1.454479 CGGTACTTCGGGGAGCCTA 60.454 63.158 0.00 0.00 0.00 3.93
1588 1619 1.482954 GTACTTCGGGGAGCCTAAGT 58.517 55.000 0.00 0.00 35.28 2.24
1717 1748 2.034532 TAGACCTCGACGGCCACA 59.965 61.111 2.24 0.00 35.61 4.17
1810 1841 4.821589 GGAACAGCGGCGAGAGGG 62.822 72.222 12.98 0.00 0.00 4.30
1977 2010 5.529060 GGCCTAGATTGAATTTAGTGACCAG 59.471 44.000 0.00 0.00 0.00 4.00
1990 2024 2.639839 AGTGACCAGTTGCCTCATAGTT 59.360 45.455 0.00 0.00 0.00 2.24
2015 2052 5.179045 ACAAGGTACTAATACGTCATCCG 57.821 43.478 0.00 0.00 38.49 4.18
2417 2463 0.601311 GAGCGACTGGTGCAAGAGTT 60.601 55.000 0.00 0.00 33.85 3.01
2565 2611 0.617820 AGGGTAGCCACGTCATCCTT 60.618 55.000 14.62 0.00 0.00 3.36
2616 2662 1.153289 CTGGGATGAACCGCTCCAG 60.153 63.158 0.00 0.00 40.11 3.86
2619 2665 0.322546 GGGATGAACCGCTCCAGTTT 60.323 55.000 0.00 0.00 40.11 2.66
2943 2989 3.261643 AGCTATGAATCACCGATATGGCA 59.738 43.478 0.00 0.00 43.94 4.92
3077 3144 5.694458 GCTATTTTGGTTTTGTCCGTTTCAT 59.306 36.000 0.00 0.00 0.00 2.57
3088 3155 3.818210 TGTCCGTTTCATGTACAAGCAAT 59.182 39.130 0.00 0.00 0.00 3.56
3092 3159 3.124466 CGTTTCATGTACAAGCAATCCGA 59.876 43.478 0.00 0.00 0.00 4.55
3257 8725 2.165845 CGAAGGATGAAAGTAGGTCGGT 59.834 50.000 0.00 0.00 0.00 4.69
3267 14115 3.240310 AGTAGGTCGGTGCATATAGGT 57.760 47.619 0.00 0.00 0.00 3.08
3268 14116 3.573695 AGTAGGTCGGTGCATATAGGTT 58.426 45.455 0.00 0.00 0.00 3.50
3269 14117 2.910688 AGGTCGGTGCATATAGGTTG 57.089 50.000 0.00 0.00 0.00 3.77
3270 14118 1.416401 AGGTCGGTGCATATAGGTTGG 59.584 52.381 0.00 0.00 0.00 3.77
3308 14156 1.710996 TTTCTTCGGGCCCAAGTCCA 61.711 55.000 24.92 10.11 37.79 4.02
3309 14157 2.045926 CTTCGGGCCCAAGTCCAG 60.046 66.667 24.92 2.86 37.79 3.86
3337 14187 5.181748 GCAGCATAGCAGCCTATAATAGTT 58.818 41.667 0.00 0.00 35.03 2.24
3449 14324 4.865905 TGGGAATCAATAAGCAGCCTAAA 58.134 39.130 0.00 0.00 0.00 1.85
3510 14434 2.754472 TGCATATTTCGAGGGTGATCG 58.246 47.619 0.00 0.00 44.07 3.69
3530 14454 2.354503 CGGATCTGAGATTATGGGCCAG 60.355 54.545 13.78 0.00 0.00 4.85
3542 14466 2.530460 TGGGCCAGTGAAAGCAATAT 57.470 45.000 0.00 0.00 0.00 1.28
3543 14467 2.101783 TGGGCCAGTGAAAGCAATATG 58.898 47.619 0.00 0.00 0.00 1.78
3546 14470 2.360165 GGCCAGTGAAAGCAATATGGAG 59.640 50.000 0.00 0.00 30.04 3.86
3571 14495 7.386299 AGACGATTAAAGATCTGTGATTATGGC 59.614 37.037 0.00 0.00 0.00 4.40
3586 14510 1.006813 ATGGCCCAATGGAACCAGTA 58.993 50.000 16.98 0.00 33.48 2.74
3600 14524 5.360429 TGGAACCAGTAAAAACCCAACTAAC 59.640 40.000 0.00 0.00 0.00 2.34
3642 14566 6.091169 CCAATGAAAGAAATGAAAACCCGATG 59.909 38.462 0.00 0.00 0.00 3.84
3709 14633 5.344128 GTGATTAAACTTGCAAGCTCATGTG 59.656 40.000 26.27 1.10 0.00 3.21
3715 14639 2.785540 TGCAAGCTCATGTGGATGTA 57.214 45.000 0.00 0.00 0.00 2.29
3744 14668 4.080807 TGCATAATTAAAGGACTCGTGGGA 60.081 41.667 0.00 0.00 0.00 4.37
3793 14718 3.017581 GGCAGATGGGTGGGGAGT 61.018 66.667 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.703130 AGTGTAGATTCACTCCTTTTGCTTC 59.297 40.000 0.00 0.00 44.07 3.86
44 45 9.645059 CCAGTACAAACTACATATAGATGGATG 57.355 37.037 1.85 0.00 33.46 3.51
45 46 9.601810 TCCAGTACAAACTACATATAGATGGAT 57.398 33.333 1.85 0.00 33.46 3.41
55 56 8.918202 TTTTGAGATTCCAGTACAAACTACAT 57.082 30.769 0.00 0.00 33.48 2.29
57 58 9.052759 TCTTTTTGAGATTCCAGTACAAACTAC 57.947 33.333 0.00 0.00 33.48 2.73
59 60 7.775561 AGTCTTTTTGAGATTCCAGTACAAACT 59.224 33.333 0.00 0.00 36.61 2.66
61 62 8.519799 AAGTCTTTTTGAGATTCCAGTACAAA 57.480 30.769 0.00 0.00 36.61 2.83
66 67 9.660180 GAGTATAAGTCTTTTTGAGATTCCAGT 57.340 33.333 0.00 0.00 36.61 4.00
67 68 9.103861 GGAGTATAAGTCTTTTTGAGATTCCAG 57.896 37.037 0.00 0.00 36.61 3.86
68 69 8.047310 GGGAGTATAAGTCTTTTTGAGATTCCA 58.953 37.037 0.00 0.00 36.61 3.53
69 70 8.268605 AGGGAGTATAAGTCTTTTTGAGATTCC 58.731 37.037 0.00 0.00 36.61 3.01
70 71 9.320352 GAGGGAGTATAAGTCTTTTTGAGATTC 57.680 37.037 0.00 0.00 36.61 2.52
72 73 7.418025 CGGAGGGAGTATAAGTCTTTTTGAGAT 60.418 40.741 0.00 0.00 36.61 2.75
74 75 6.043411 CGGAGGGAGTATAAGTCTTTTTGAG 58.957 44.000 0.00 0.00 0.00 3.02
76 77 5.731591 ACGGAGGGAGTATAAGTCTTTTTG 58.268 41.667 0.00 0.00 0.00 2.44
78 79 4.405036 GGACGGAGGGAGTATAAGTCTTTT 59.595 45.833 0.00 0.00 0.00 2.27
79 80 3.959449 GGACGGAGGGAGTATAAGTCTTT 59.041 47.826 0.00 0.00 0.00 2.52
82 83 2.237643 GGGACGGAGGGAGTATAAGTC 58.762 57.143 0.00 0.00 0.00 3.01
85 86 2.852714 TTGGGACGGAGGGAGTATAA 57.147 50.000 0.00 0.00 0.00 0.98
86 87 2.852714 TTTGGGACGGAGGGAGTATA 57.147 50.000 0.00 0.00 0.00 1.47
87 88 2.191981 ATTTGGGACGGAGGGAGTAT 57.808 50.000 0.00 0.00 0.00 2.12
88 89 1.961133 AATTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
89 90 1.004394 GAAATTTGGGACGGAGGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
90 91 1.282157 AGAAATTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
91 92 1.368374 AGAAATTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
92 93 1.818674 CAAGAAATTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
93 94 2.488153 GACAAGAAATTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
94 95 3.412386 AGACAAGAAATTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
95 96 3.502123 AGACAAGAAATTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
96 97 5.001232 TCTAAGACAAGAAATTTGGGACGG 58.999 41.667 0.00 0.00 0.00 4.79
97 98 6.743575 ATCTAAGACAAGAAATTTGGGACG 57.256 37.500 0.00 0.00 0.00 4.79
98 99 8.360390 ACAAATCTAAGACAAGAAATTTGGGAC 58.640 33.333 0.00 0.00 33.04 4.46
99 100 8.477419 ACAAATCTAAGACAAGAAATTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
100 101 8.579863 AGACAAATCTAAGACAAGAAATTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
108 109 9.582431 CCGTATTTAGACAAATCTAAGACAAGA 57.418 33.333 9.81 0.00 45.93 3.02
109 110 9.582431 TCCGTATTTAGACAAATCTAAGACAAG 57.418 33.333 9.81 3.88 45.93 3.16
111 112 9.529325 CATCCGTATTTAGACAAATCTAAGACA 57.471 33.333 9.81 0.00 45.93 3.41
112 113 9.530633 ACATCCGTATTTAGACAAATCTAAGAC 57.469 33.333 0.00 0.83 45.93 3.01
119 120 9.832445 ACTTGATACATCCGTATTTAGACAAAT 57.168 29.630 0.00 0.00 38.48 2.32
120 121 9.309516 GACTTGATACATCCGTATTTAGACAAA 57.690 33.333 0.00 0.00 38.48 2.83
121 122 8.471609 TGACTTGATACATCCGTATTTAGACAA 58.528 33.333 0.00 0.00 38.48 3.18
122 123 7.919091 GTGACTTGATACATCCGTATTTAGACA 59.081 37.037 0.00 0.00 38.48 3.41
123 124 7.113124 CGTGACTTGATACATCCGTATTTAGAC 59.887 40.741 0.00 0.00 38.48 2.59
124 125 7.136772 CGTGACTTGATACATCCGTATTTAGA 58.863 38.462 0.00 0.00 38.48 2.10
125 126 6.916387 ACGTGACTTGATACATCCGTATTTAG 59.084 38.462 0.00 0.00 38.48 1.85
126 127 6.798482 ACGTGACTTGATACATCCGTATTTA 58.202 36.000 0.00 0.00 38.48 1.40
127 128 5.657474 ACGTGACTTGATACATCCGTATTT 58.343 37.500 0.00 0.00 38.48 1.40
128 129 5.258456 ACGTGACTTGATACATCCGTATT 57.742 39.130 0.00 0.00 38.48 1.89
129 130 4.913335 ACGTGACTTGATACATCCGTAT 57.087 40.909 0.00 0.00 41.16 3.06
130 131 4.707030 AACGTGACTTGATACATCCGTA 57.293 40.909 0.00 0.00 0.00 4.02
131 132 3.587797 AACGTGACTTGATACATCCGT 57.412 42.857 0.00 0.00 0.00 4.69
132 133 4.921470 AAAACGTGACTTGATACATCCG 57.079 40.909 0.00 0.00 0.00 4.18
133 134 6.963049 ACTAAAACGTGACTTGATACATCC 57.037 37.500 0.00 0.00 0.00 3.51
193 194 1.507742 ACCCCCTCTGTCCCAATTTTT 59.492 47.619 0.00 0.00 0.00 1.94
194 195 1.167033 ACCCCCTCTGTCCCAATTTT 58.833 50.000 0.00 0.00 0.00 1.82
195 196 1.639108 GTACCCCCTCTGTCCCAATTT 59.361 52.381 0.00 0.00 0.00 1.82
196 197 1.203570 AGTACCCCCTCTGTCCCAATT 60.204 52.381 0.00 0.00 0.00 2.32
197 198 0.421904 AGTACCCCCTCTGTCCCAAT 59.578 55.000 0.00 0.00 0.00 3.16
198 199 0.195096 AAGTACCCCCTCTGTCCCAA 59.805 55.000 0.00 0.00 0.00 4.12
199 200 0.546747 CAAGTACCCCCTCTGTCCCA 60.547 60.000 0.00 0.00 0.00 4.37
200 201 0.252558 TCAAGTACCCCCTCTGTCCC 60.253 60.000 0.00 0.00 0.00 4.46
201 202 1.196012 CTCAAGTACCCCCTCTGTCC 58.804 60.000 0.00 0.00 0.00 4.02
202 203 2.233305 TCTCAAGTACCCCCTCTGTC 57.767 55.000 0.00 0.00 0.00 3.51
203 204 2.258109 GTTCTCAAGTACCCCCTCTGT 58.742 52.381 0.00 0.00 0.00 3.41
204 205 1.204941 CGTTCTCAAGTACCCCCTCTG 59.795 57.143 0.00 0.00 0.00 3.35
205 206 1.558233 CGTTCTCAAGTACCCCCTCT 58.442 55.000 0.00 0.00 0.00 3.69
206 207 0.535797 CCGTTCTCAAGTACCCCCTC 59.464 60.000 0.00 0.00 0.00 4.30
207 208 0.115745 TCCGTTCTCAAGTACCCCCT 59.884 55.000 0.00 0.00 0.00 4.79
208 209 0.535797 CTCCGTTCTCAAGTACCCCC 59.464 60.000 0.00 0.00 0.00 5.40
209 210 0.535797 CCTCCGTTCTCAAGTACCCC 59.464 60.000 0.00 0.00 0.00 4.95
210 211 1.553706 TCCTCCGTTCTCAAGTACCC 58.446 55.000 0.00 0.00 0.00 3.69
211 212 2.561858 ACTTCCTCCGTTCTCAAGTACC 59.438 50.000 0.00 0.00 0.00 3.34
212 213 3.938289 ACTTCCTCCGTTCTCAAGTAC 57.062 47.619 0.00 0.00 0.00 2.73
213 214 4.950205 AAACTTCCTCCGTTCTCAAGTA 57.050 40.909 0.00 0.00 0.00 2.24
214 215 3.840124 AAACTTCCTCCGTTCTCAAGT 57.160 42.857 0.00 0.00 0.00 3.16
215 216 4.691216 CCTAAAACTTCCTCCGTTCTCAAG 59.309 45.833 0.00 0.00 0.00 3.02
216 217 4.345837 TCCTAAAACTTCCTCCGTTCTCAA 59.654 41.667 0.00 0.00 0.00 3.02
217 218 3.899360 TCCTAAAACTTCCTCCGTTCTCA 59.101 43.478 0.00 0.00 0.00 3.27
218 219 4.532314 TCCTAAAACTTCCTCCGTTCTC 57.468 45.455 0.00 0.00 0.00 2.87
219 220 6.212993 ACTTATCCTAAAACTTCCTCCGTTCT 59.787 38.462 0.00 0.00 0.00 3.01
220 221 6.404708 ACTTATCCTAAAACTTCCTCCGTTC 58.595 40.000 0.00 0.00 0.00 3.95
221 222 6.370186 ACTTATCCTAAAACTTCCTCCGTT 57.630 37.500 0.00 0.00 0.00 4.44
222 223 6.438425 TGTACTTATCCTAAAACTTCCTCCGT 59.562 38.462 0.00 0.00 0.00 4.69
223 224 6.870769 TGTACTTATCCTAAAACTTCCTCCG 58.129 40.000 0.00 0.00 0.00 4.63
224 225 9.682465 AAATGTACTTATCCTAAAACTTCCTCC 57.318 33.333 0.00 0.00 0.00 4.30
247 248 9.474920 CCGCATTTATCACATGGTATTTTAAAT 57.525 29.630 0.00 0.00 0.00 1.40
248 249 8.470805 ACCGCATTTATCACATGGTATTTTAAA 58.529 29.630 0.00 0.00 0.00 1.52
249 250 8.001881 ACCGCATTTATCACATGGTATTTTAA 57.998 30.769 0.00 0.00 0.00 1.52
250 251 7.575414 ACCGCATTTATCACATGGTATTTTA 57.425 32.000 0.00 0.00 0.00 1.52
251 252 6.463995 ACCGCATTTATCACATGGTATTTT 57.536 33.333 0.00 0.00 0.00 1.82
252 253 7.575414 TTACCGCATTTATCACATGGTATTT 57.425 32.000 0.00 0.00 31.16 1.40
253 254 7.422399 GTTTACCGCATTTATCACATGGTATT 58.578 34.615 0.00 0.00 31.16 1.89
254 255 6.293190 CGTTTACCGCATTTATCACATGGTAT 60.293 38.462 0.00 0.00 31.16 2.73
255 256 5.006844 CGTTTACCGCATTTATCACATGGTA 59.993 40.000 0.00 0.00 0.00 3.25
256 257 4.201871 CGTTTACCGCATTTATCACATGGT 60.202 41.667 0.00 0.00 0.00 3.55
257 258 4.034626 TCGTTTACCGCATTTATCACATGG 59.965 41.667 0.00 0.00 36.19 3.66
258 259 5.150342 TCGTTTACCGCATTTATCACATG 57.850 39.130 0.00 0.00 36.19 3.21
259 260 6.037720 TGAATCGTTTACCGCATTTATCACAT 59.962 34.615 0.00 0.00 36.19 3.21
260 261 5.351740 TGAATCGTTTACCGCATTTATCACA 59.648 36.000 0.00 0.00 36.19 3.58
261 262 5.802064 TGAATCGTTTACCGCATTTATCAC 58.198 37.500 0.00 0.00 36.19 3.06
262 263 6.424176 TTGAATCGTTTACCGCATTTATCA 57.576 33.333 0.00 0.00 36.19 2.15
263 264 6.964934 AGTTTGAATCGTTTACCGCATTTATC 59.035 34.615 0.00 0.00 36.19 1.75
264 265 6.848451 AGTTTGAATCGTTTACCGCATTTAT 58.152 32.000 0.00 0.00 36.19 1.40
265 266 6.243811 AGTTTGAATCGTTTACCGCATTTA 57.756 33.333 0.00 0.00 36.19 1.40
266 267 5.116069 AGTTTGAATCGTTTACCGCATTT 57.884 34.783 0.00 0.00 36.19 2.32
267 268 4.759516 AGTTTGAATCGTTTACCGCATT 57.240 36.364 0.00 0.00 36.19 3.56
268 269 6.431198 AATAGTTTGAATCGTTTACCGCAT 57.569 33.333 0.00 0.00 36.19 4.73
269 270 5.163834 GGAATAGTTTGAATCGTTTACCGCA 60.164 40.000 0.00 0.00 36.19 5.69
270 271 5.163834 TGGAATAGTTTGAATCGTTTACCGC 60.164 40.000 0.00 0.00 36.19 5.68
271 272 6.311935 TCTGGAATAGTTTGAATCGTTTACCG 59.688 38.462 0.00 0.00 38.13 4.02
272 273 7.605410 TCTGGAATAGTTTGAATCGTTTACC 57.395 36.000 0.00 0.00 0.00 2.85
273 274 8.718734 ACTTCTGGAATAGTTTGAATCGTTTAC 58.281 33.333 0.00 0.00 0.00 2.01
274 275 8.842358 ACTTCTGGAATAGTTTGAATCGTTTA 57.158 30.769 0.00 0.00 0.00 2.01
275 276 7.745620 ACTTCTGGAATAGTTTGAATCGTTT 57.254 32.000 0.00 0.00 0.00 3.60
276 277 7.876068 TGTACTTCTGGAATAGTTTGAATCGTT 59.124 33.333 0.00 0.00 0.00 3.85
277 278 7.383687 TGTACTTCTGGAATAGTTTGAATCGT 58.616 34.615 0.00 0.00 0.00 3.73
278 279 7.827819 TGTACTTCTGGAATAGTTTGAATCG 57.172 36.000 0.00 0.00 0.00 3.34
281 282 9.567776 TCAAATGTACTTCTGGAATAGTTTGAA 57.432 29.630 0.00 0.00 0.00 2.69
282 283 9.567776 TTCAAATGTACTTCTGGAATAGTTTGA 57.432 29.630 0.00 0.00 0.00 2.69
309 310 9.926158 TCTACATGTGGTAAACGATTTAAACTA 57.074 29.630 9.11 0.00 0.00 2.24
310 311 8.836268 TCTACATGTGGTAAACGATTTAAACT 57.164 30.769 9.11 0.00 0.00 2.66
454 456 8.256605 TCTAGATACCATGGTCGATACTACTAC 58.743 40.741 23.76 0.00 0.00 2.73
553 560 7.812690 TCTAGATACGCAGGTTGATACTAAA 57.187 36.000 0.00 0.00 0.00 1.85
847 872 0.600057 GGGAAGCCAACTTTGCTCTG 59.400 55.000 0.00 0.00 38.34 3.35
885 910 0.674895 CAGGCTTGCGAGGTAGCTTT 60.675 55.000 2.37 0.00 37.54 3.51
930 955 2.009051 CAACAGCACGCCATCATTCTA 58.991 47.619 0.00 0.00 0.00 2.10
932 957 0.799534 GCAACAGCACGCCATCATTC 60.800 55.000 0.00 0.00 0.00 2.67
937 962 1.007038 CAAAGCAACAGCACGCCAT 60.007 52.632 0.00 0.00 0.00 4.40
960 985 3.589951 ATTACAATGAGCAGCTGGGAT 57.410 42.857 17.12 0.00 0.00 3.85
1144 1169 2.290514 CGGTGCCCATATCCTTCATCAT 60.291 50.000 0.00 0.00 0.00 2.45
1203 1228 0.107703 TCTTGGGACATGTGATCGGC 60.108 55.000 1.15 0.00 39.30 5.54
1417 1442 0.104304 AAGTTGTCAGCTTCGTCGGT 59.896 50.000 0.00 0.00 0.00 4.69
1503 1534 2.432456 GCGACGTGCCTGACATCA 60.432 61.111 0.00 0.00 37.76 3.07
1717 1748 7.234577 TGTGTTGGCCTCCTTAATAATTTTCTT 59.765 33.333 3.32 0.00 0.00 2.52
1977 2010 4.833390 ACCTTGTAGAACTATGAGGCAAC 58.167 43.478 10.95 0.00 0.00 4.17
1990 2024 6.203530 CGGATGACGTATTAGTACCTTGTAGA 59.796 42.308 0.00 0.00 37.93 2.59
2015 2052 7.978975 AGAGTGTGAGCTATTATCTTTTCTCAC 59.021 37.037 11.84 11.84 46.18 3.51
2417 2463 3.900966 AGTTGAGCTGCATGATGTCTA 57.099 42.857 1.02 0.00 0.00 2.59
2616 2662 1.663695 TATGGCGCTCTGGCTTAAAC 58.336 50.000 7.64 0.00 45.14 2.01
2619 2665 0.035317 CCATATGGCGCTCTGGCTTA 59.965 55.000 9.29 0.00 45.14 3.09
3006 3072 0.658897 GAACGAAACAAAGCGGGACA 59.341 50.000 0.00 0.00 0.00 4.02
3077 3144 5.471797 TGAAAGAAATCGGATTGCTTGTACA 59.528 36.000 21.76 18.22 37.14 2.90
3088 3155 1.658596 CGACGCATGAAAGAAATCGGA 59.341 47.619 0.00 0.00 0.00 4.55
3092 3159 1.131126 CCAGCGACGCATGAAAGAAAT 59.869 47.619 23.70 0.00 0.00 2.17
3257 8725 2.422803 GGAGTTGCCCAACCTATATGCA 60.423 50.000 7.48 0.00 42.06 3.96
3288 14136 0.323451 GGACTTGGGCCCGAAGAAAT 60.323 55.000 29.60 14.84 0.00 2.17
3406 14281 5.376854 CATGGCAATTTGCTAGGGTATAC 57.623 43.478 20.06 0.00 44.28 1.47
3412 14287 1.779221 TCCCATGGCAATTTGCTAGG 58.221 50.000 20.06 15.90 44.28 3.02
3465 14380 4.586421 CCTCATTGCATACCTCACTCTCTA 59.414 45.833 0.00 0.00 0.00 2.43
3510 14434 2.641815 ACTGGCCCATAATCTCAGATCC 59.358 50.000 0.00 0.00 0.00 3.36
3530 14454 5.741388 AATCGTCTCCATATTGCTTTCAC 57.259 39.130 0.00 0.00 0.00 3.18
3542 14466 5.914898 TCACAGATCTTTAATCGTCTCCA 57.085 39.130 0.00 0.00 0.00 3.86
3543 14467 8.920665 CATAATCACAGATCTTTAATCGTCTCC 58.079 37.037 0.00 0.00 0.00 3.71
3546 14470 7.360438 GGCCATAATCACAGATCTTTAATCGTC 60.360 40.741 0.00 0.00 0.00 4.20
3571 14495 3.007506 GGGTTTTTACTGGTTCCATTGGG 59.992 47.826 2.09 0.00 0.00 4.12
3615 14539 5.308014 GGGTTTTCATTTCTTTCATTGGCT 58.692 37.500 0.00 0.00 0.00 4.75
3634 14558 4.911390 AGTCTTGAATCTTTCATCGGGTT 58.089 39.130 0.00 0.00 39.84 4.11
3642 14566 6.772716 TGGCCCATAATAGTCTTGAATCTTTC 59.227 38.462 0.00 0.00 0.00 2.62
3709 14633 7.230510 TCCTTTAATTATGCACCATGTACATCC 59.769 37.037 5.07 0.00 0.00 3.51
3715 14639 5.296780 CGAGTCCTTTAATTATGCACCATGT 59.703 40.000 0.00 0.00 0.00 3.21
3771 14695 2.750657 CCCACCCATCTGCCTCTCC 61.751 68.421 0.00 0.00 0.00 3.71
3793 14718 1.485066 GTCCTTAAATGCCTCCTCGGA 59.515 52.381 0.00 0.00 33.16 4.55
3827 14752 6.146510 GTCGTATGTGTCAAGTGTGGAAATTA 59.853 38.462 0.00 0.00 0.00 1.40
3864 14789 5.342806 TGATTTCATGTTTCGTGAGTGTC 57.657 39.130 0.00 0.00 30.69 3.67


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.