Multiple sequence alignment - TraesCS7B01G340400

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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 TraesCS7B01G340400 chr7B 100.000 3152 0 0 1 3152 594954062 594957213 0.000000e+00 5821.0
1 TraesCS7B01G340400 chr7D 95.908 2517 83 3 655 3152 550265779 550268294 0.000000e+00 4060.0
2 TraesCS7B01G340400 chr7D 94.828 232 11 1 356 587 550265524 550265754 8.310000e-96 361.0
3 TraesCS7B01G340400 chr7D 90.083 121 6 3 243 358 390929902 390929783 5.450000e-33 152.0
4 TraesCS7B01G340400 chr7D 85.393 89 5 2 1 81 550265384 550265472 5.600000e-13 86.1
5 TraesCS7B01G340400 chr7A 95.440 2522 70 15 640 3152 635683909 635686394 0.000000e+00 3978.0
6 TraesCS7B01G340400 chr7A 95.270 148 7 0 440 587 635683739 635683886 5.260000e-58 235.0
7 TraesCS7B01G340400 chr7A 100.000 86 0 0 1 86 635683479 635683564 3.250000e-35 159.0
8 TraesCS7B01G340400 chr7A 100.000 38 0 0 419 456 635683657 635683694 1.570000e-08 71.3
9 TraesCS7B01G340400 chr4A 92.138 1590 109 10 806 2391 595422682 595424259 0.000000e+00 2230.0
10 TraesCS7B01G340400 chr4A 87.943 141 13 3 236 374 208038010 208037872 2.520000e-36 163.0
11 TraesCS7B01G340400 chr4A 93.878 49 2 1 589 636 311662668 311662620 4.360000e-09 73.1
12 TraesCS7B01G340400 chr4B 88.689 1777 150 26 630 2391 14012846 14014586 0.000000e+00 2121.0
13 TraesCS7B01G340400 chr4B 97.619 42 1 0 589 630 54741050 54741091 4.360000e-09 73.1
14 TraesCS7B01G340400 chr4B 97.561 41 1 0 589 629 631527816 631527776 1.570000e-08 71.3
15 TraesCS7B01G340400 chr4D 91.361 1470 111 8 923 2389 7893183 7891727 0.000000e+00 1997.0
16 TraesCS7B01G340400 chr4D 78.947 608 69 26 2601 3152 7891672 7891068 2.990000e-95 359.0
17 TraesCS7B01G340400 chr4D 97.674 43 1 0 589 631 460563118 460563160 1.210000e-09 75.0
18 TraesCS7B01G340400 chr4D 95.122 41 2 0 589 629 493758661 493758701 7.300000e-07 65.8
19 TraesCS7B01G340400 chr3B 94.815 135 7 0 84 218 805003451 805003317 8.860000e-51 211.0
20 TraesCS7B01G340400 chr3B 96.694 121 4 0 81 201 238502556 238502676 5.330000e-48 202.0
21 TraesCS7B01G340400 chr3B 96.639 119 4 0 84 202 545060809 545060691 6.900000e-47 198.0
22 TraesCS7B01G340400 chr3B 96.610 118 4 0 84 201 457968681 457968798 2.480000e-46 196.0
23 TraesCS7B01G340400 chr3B 95.161 124 4 2 81 204 10646411 10646532 8.920000e-46 195.0
24 TraesCS7B01G340400 chr3D 96.610 118 4 0 85 202 439679604 439679487 2.480000e-46 196.0
25 TraesCS7B01G340400 chr3D 95.833 120 5 0 85 204 401178932 401179051 8.920000e-46 195.0
26 TraesCS7B01G340400 chr3D 94.495 109 6 0 250 358 397136454 397136562 5.410000e-38 169.0
27 TraesCS7B01G340400 chr3D 90.833 120 10 1 243 361 590847244 590847125 3.250000e-35 159.0
28 TraesCS7B01G340400 chr3D 83.212 137 13 4 2456 2582 507866732 507866596 1.990000e-22 117.0
29 TraesCS7B01G340400 chr3D 95.455 44 2 0 589 632 74197543 74197500 1.570000e-08 71.3
30 TraesCS7B01G340400 chr6D 94.444 126 7 0 84 209 329858711 329858586 8.920000e-46 195.0
31 TraesCS7B01G340400 chr6D 94.495 109 5 1 250 358 319685725 319685618 1.940000e-37 167.0
32 TraesCS7B01G340400 chr6D 89.516 124 6 4 251 368 435751143 435751021 1.960000e-32 150.0
33 TraesCS7B01G340400 chr6D 92.000 50 3 1 589 637 81224555 81224506 5.640000e-08 69.4
34 TraesCS7B01G340400 chr6D 90.566 53 4 1 577 629 438802633 438802684 5.640000e-08 69.4
35 TraesCS7B01G340400 chr6D 92.683 41 3 0 589 629 412458735 412458695 3.400000e-05 60.2
36 TraesCS7B01G340400 chr2D 94.444 126 7 0 84 209 305940256 305940131 8.920000e-46 195.0
37 TraesCS7B01G340400 chr2D 92.593 108 8 0 251 358 32984542 32984435 4.210000e-34 156.0
38 TraesCS7B01G340400 chr2D 79.259 135 16 5 2457 2582 451293419 451293550 2.010000e-12 84.2
39 TraesCS7B01G340400 chr2D 95.918 49 2 0 590 638 553897262 553897214 2.610000e-11 80.5
40 TraesCS7B01G340400 chr5B 94.444 108 5 1 251 358 615005021 615005127 6.990000e-37 165.0
41 TraesCS7B01G340400 chr5B 89.535 86 5 3 288 373 625228749 625228830 4.300000e-19 106.0
42 TraesCS7B01G340400 chr5B 89.535 86 5 3 288 373 628828296 628828377 4.300000e-19 106.0
43 TraesCS7B01G340400 chr5B 84.483 116 8 7 288 401 633119510 633119403 4.300000e-19 106.0
44 TraesCS7B01G340400 chr6B 90.833 120 5 5 244 358 447886280 447886162 4.210000e-34 156.0
45 TraesCS7B01G340400 chr6B 94.000 50 3 0 580 629 517803599 517803648 3.370000e-10 76.8
46 TraesCS7B01G340400 chrUn 89.535 86 5 3 288 373 356909572 356909653 4.300000e-19 106.0
47 TraesCS7B01G340400 chr5D 89.535 86 5 3 288 373 501516029 501516110 4.300000e-19 106.0
48 TraesCS7B01G340400 chr5D 83.621 116 9 7 288 401 296874626 296874519 2.000000e-17 100.0
49 TraesCS7B01G340400 chr5D 90.566 53 5 0 586 638 520110225 520110277 1.570000e-08 71.3
50 TraesCS7B01G340400 chr5D 95.238 42 2 0 589 630 246300838 246300879 2.030000e-07 67.6
51 TraesCS7B01G340400 chr1A 92.157 51 3 1 589 638 298602789 298602739 1.570000e-08 71.3
52 TraesCS7B01G340400 chr1D 97.500 40 1 0 590 629 230670285 230670324 5.640000e-08 69.4
53 TraesCS7B01G340400 chr1D 93.182 44 1 2 580 623 472301836 472301877 2.620000e-06 63.9
54 TraesCS7B01G340400 chr1D 91.111 45 3 1 589 632 137066566 137066522 3.400000e-05 60.2
55 TraesCS7B01G340400 chr1D 92.683 41 3 0 589 629 434619818 434619778 3.400000e-05 60.2
56 TraesCS7B01G340400 chr1B 93.478 46 3 0 586 631 435094779 435094824 5.640000e-08 69.4


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 TraesCS7B01G340400 chr7B 594954062 594957213 3151 False 5821.000000 5821 100.0000 1 3152 1 chr7B.!!$F1 3151
1 TraesCS7B01G340400 chr7D 550265384 550268294 2910 False 1502.366667 4060 92.0430 1 3152 3 chr7D.!!$F1 3151
2 TraesCS7B01G340400 chr7A 635683479 635686394 2915 False 1110.825000 3978 97.6775 1 3152 4 chr7A.!!$F1 3151
3 TraesCS7B01G340400 chr4A 595422682 595424259 1577 False 2230.000000 2230 92.1380 806 2391 1 chr4A.!!$F1 1585
4 TraesCS7B01G340400 chr4B 14012846 14014586 1740 False 2121.000000 2121 88.6890 630 2391 1 chr4B.!!$F1 1761
5 TraesCS7B01G340400 chr4D 7891068 7893183 2115 True 1178.000000 1997 85.1540 923 3152 2 chr4D.!!$R1 2229

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
95 103 0.331954 TTCAGAGCTACTCCCTCCGT 59.668 55.0 0.0 0.0 0.0 4.69 F
97 105 0.741915 CAGAGCTACTCCCTCCGTTC 59.258 60.0 0.0 0.0 0.0 3.95 F
98 106 0.748729 AGAGCTACTCCCTCCGTTCG 60.749 60.0 0.0 0.0 0.0 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1389 1478 0.543277 CCATTAGCTCCTGTGCCTGA 59.457 55.0 0.00 0.0 0.0 3.86 R
1933 2022 1.590932 CATGGCAGCCTGTACTCATC 58.409 55.0 14.15 0.0 0.0 2.92 R
2180 2269 0.888736 CCAGACGCACCATGGTTTCA 60.889 55.0 16.84 0.0 0.0 2.69 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
83 91 3.988819 ACTTCAGTTCAGTCTTCAGAGC 58.011 45.455 0.00 0.00 0.00 4.09
84 92 3.640967 ACTTCAGTTCAGTCTTCAGAGCT 59.359 43.478 0.00 0.00 0.00 4.09
86 94 4.775058 TCAGTTCAGTCTTCAGAGCTAC 57.225 45.455 0.00 0.00 0.00 3.58
89 97 3.761752 AGTTCAGTCTTCAGAGCTACTCC 59.238 47.826 0.00 0.00 0.00 3.85
91 99 2.310349 TCAGTCTTCAGAGCTACTCCCT 59.690 50.000 0.00 0.00 0.00 4.20
92 100 2.687935 CAGTCTTCAGAGCTACTCCCTC 59.312 54.545 0.00 0.00 0.00 4.30
93 101 2.028876 GTCTTCAGAGCTACTCCCTCC 58.971 57.143 0.00 0.00 0.00 4.30
94 102 1.028905 CTTCAGAGCTACTCCCTCCG 58.971 60.000 0.00 0.00 0.00 4.63
95 103 0.331954 TTCAGAGCTACTCCCTCCGT 59.668 55.000 0.00 0.00 0.00 4.69
96 104 0.331954 TCAGAGCTACTCCCTCCGTT 59.668 55.000 0.00 0.00 0.00 4.44
97 105 0.741915 CAGAGCTACTCCCTCCGTTC 59.258 60.000 0.00 0.00 0.00 3.95
98 106 0.748729 AGAGCTACTCCCTCCGTTCG 60.749 60.000 0.00 0.00 0.00 3.95
99 107 1.726533 GAGCTACTCCCTCCGTTCGG 61.727 65.000 4.74 4.74 0.00 4.30
100 108 1.751927 GCTACTCCCTCCGTTCGGA 60.752 63.158 13.34 13.34 0.00 4.55
101 109 1.318158 GCTACTCCCTCCGTTCGGAA 61.318 60.000 14.79 0.04 33.41 4.30
102 110 1.400737 CTACTCCCTCCGTTCGGAAT 58.599 55.000 14.79 2.09 33.41 3.01
103 111 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
104 112 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
105 113 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
106 114 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
107 115 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
108 116 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
109 117 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
110 118 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
111 119 3.581755 CTCCGTTCGGAATTACTTGTCA 58.418 45.455 14.79 0.00 33.41 3.58
112 120 4.181578 CTCCGTTCGGAATTACTTGTCAT 58.818 43.478 14.79 0.00 33.41 3.06
113 121 5.327616 TCCGTTCGGAATTACTTGTCATA 57.672 39.130 11.66 0.00 0.00 2.15
114 122 5.722263 TCCGTTCGGAATTACTTGTCATAA 58.278 37.500 11.66 0.00 0.00 1.90
115 123 6.164876 TCCGTTCGGAATTACTTGTCATAAA 58.835 36.000 11.66 0.00 0.00 1.40
116 124 6.649973 TCCGTTCGGAATTACTTGTCATAAAA 59.350 34.615 11.66 0.00 0.00 1.52
117 125 7.172875 TCCGTTCGGAATTACTTGTCATAAAAA 59.827 33.333 11.66 0.00 0.00 1.94
118 126 7.966204 CCGTTCGGAATTACTTGTCATAAAAAT 59.034 33.333 5.19 0.00 0.00 1.82
119 127 8.785101 CGTTCGGAATTACTTGTCATAAAAATG 58.215 33.333 0.00 0.00 0.00 2.32
120 128 9.072294 GTTCGGAATTACTTGTCATAAAAATGG 57.928 33.333 0.00 0.00 0.00 3.16
121 129 8.568676 TCGGAATTACTTGTCATAAAAATGGA 57.431 30.769 0.00 0.00 0.00 3.41
122 130 9.184523 TCGGAATTACTTGTCATAAAAATGGAT 57.815 29.630 0.00 0.00 0.00 3.41
175 183 8.311395 ACATCTAGATACATTCAGTTCTTGGA 57.689 34.615 4.54 0.00 0.00 3.53
176 184 8.200792 ACATCTAGATACATTCAGTTCTTGGAC 58.799 37.037 4.54 0.00 0.00 4.02
177 185 7.718334 TCTAGATACATTCAGTTCTTGGACA 57.282 36.000 0.00 0.00 0.00 4.02
178 186 8.134202 TCTAGATACATTCAGTTCTTGGACAA 57.866 34.615 0.00 0.00 0.00 3.18
179 187 8.253810 TCTAGATACATTCAGTTCTTGGACAAG 58.746 37.037 5.72 5.72 39.71 3.16
180 188 6.773638 AGATACATTCAGTTCTTGGACAAGT 58.226 36.000 11.44 0.00 39.38 3.16
181 189 7.907389 AGATACATTCAGTTCTTGGACAAGTA 58.093 34.615 11.44 0.00 39.38 2.24
182 190 8.375506 AGATACATTCAGTTCTTGGACAAGTAA 58.624 33.333 11.44 3.16 39.38 2.24
183 191 9.167311 GATACATTCAGTTCTTGGACAAGTAAT 57.833 33.333 11.44 0.00 39.38 1.89
184 192 7.823745 ACATTCAGTTCTTGGACAAGTAATT 57.176 32.000 11.44 0.70 39.38 1.40
185 193 7.875971 ACATTCAGTTCTTGGACAAGTAATTC 58.124 34.615 11.44 0.98 39.38 2.17
186 194 6.877611 TTCAGTTCTTGGACAAGTAATTCC 57.122 37.500 11.44 0.00 39.38 3.01
187 195 4.994852 TCAGTTCTTGGACAAGTAATTCCG 59.005 41.667 11.44 0.00 39.38 4.30
188 196 4.994852 CAGTTCTTGGACAAGTAATTCCGA 59.005 41.667 11.44 0.00 39.38 4.55
189 197 5.468746 CAGTTCTTGGACAAGTAATTCCGAA 59.531 40.000 11.44 0.00 39.38 4.30
190 198 5.469084 AGTTCTTGGACAAGTAATTCCGAAC 59.531 40.000 11.44 6.67 39.38 3.95
191 199 3.991773 TCTTGGACAAGTAATTCCGAACG 59.008 43.478 11.44 0.00 39.38 3.95
192 200 2.690786 TGGACAAGTAATTCCGAACGG 58.309 47.619 6.94 6.94 34.24 4.44
193 201 2.299582 TGGACAAGTAATTCCGAACGGA 59.700 45.455 12.04 12.04 43.52 4.69
194 202 2.928116 GGACAAGTAATTCCGAACGGAG 59.072 50.000 15.34 5.60 46.06 4.63
195 203 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
196 204 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
197 205 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
198 206 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
203 211 0.911769 TCCGAACGGAGGGAGTAGTA 59.088 55.000 12.04 0.00 39.76 1.82
218 226 6.322712 AGGGAGTAGTAGAGTATTTTCTGCAG 59.677 42.308 7.63 7.63 32.90 4.41
252 260 9.490379 AGTGAAGGATAAATCGATAAATGGTAC 57.510 33.333 0.00 0.00 0.00 3.34
253 261 9.490379 GTGAAGGATAAATCGATAAATGGTACT 57.510 33.333 0.00 0.00 0.00 2.73
254 262 9.706691 TGAAGGATAAATCGATAAATGGTACTC 57.293 33.333 0.00 0.00 0.00 2.59
255 263 9.152595 GAAGGATAAATCGATAAATGGTACTCC 57.847 37.037 0.00 0.00 0.00 3.85
256 264 7.621796 AGGATAAATCGATAAATGGTACTCCC 58.378 38.462 0.00 0.00 0.00 4.30
257 265 7.458170 AGGATAAATCGATAAATGGTACTCCCT 59.542 37.037 0.00 0.00 0.00 4.20
258 266 7.764901 GGATAAATCGATAAATGGTACTCCCTC 59.235 40.741 0.00 0.00 0.00 4.30
259 267 5.485209 AATCGATAAATGGTACTCCCTCC 57.515 43.478 0.00 0.00 0.00 4.30
260 268 2.889045 TCGATAAATGGTACTCCCTCCG 59.111 50.000 0.00 0.00 0.00 4.63
261 269 2.626743 CGATAAATGGTACTCCCTCCGT 59.373 50.000 0.00 0.00 0.00 4.69
262 270 3.822735 CGATAAATGGTACTCCCTCCGTA 59.177 47.826 0.00 0.00 0.00 4.02
263 271 4.279169 CGATAAATGGTACTCCCTCCGTAA 59.721 45.833 0.00 0.00 0.00 3.18
264 272 5.221303 CGATAAATGGTACTCCCTCCGTAAA 60.221 44.000 0.00 0.00 0.00 2.01
265 273 3.900966 AATGGTACTCCCTCCGTAAAC 57.099 47.619 0.00 0.00 0.00 2.01
266 274 2.610438 TGGTACTCCCTCCGTAAACT 57.390 50.000 0.00 0.00 0.00 2.66
267 275 3.737559 TGGTACTCCCTCCGTAAACTA 57.262 47.619 0.00 0.00 0.00 2.24
268 276 4.046286 TGGTACTCCCTCCGTAAACTAA 57.954 45.455 0.00 0.00 0.00 2.24
269 277 4.613437 TGGTACTCCCTCCGTAAACTAAT 58.387 43.478 0.00 0.00 0.00 1.73
270 278 5.765510 TGGTACTCCCTCCGTAAACTAATA 58.234 41.667 0.00 0.00 0.00 0.98
271 279 6.376248 TGGTACTCCCTCCGTAAACTAATAT 58.624 40.000 0.00 0.00 0.00 1.28
272 280 7.526041 TGGTACTCCCTCCGTAAACTAATATA 58.474 38.462 0.00 0.00 0.00 0.86
273 281 8.004215 TGGTACTCCCTCCGTAAACTAATATAA 58.996 37.037 0.00 0.00 0.00 0.98
274 282 8.518702 GGTACTCCCTCCGTAAACTAATATAAG 58.481 40.741 0.00 0.00 0.00 1.73
275 283 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
276 284 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
277 285 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
278 286 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
279 287 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
280 288 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
281 289 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
282 290 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
283 291 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
284 292 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
300 308 8.973835 AGCGTTTAGATCACTATTATAAGAGC 57.026 34.615 7.03 0.00 0.00 4.09
301 309 7.751348 AGCGTTTAGATCACTATTATAAGAGCG 59.249 37.037 7.03 0.00 0.00 5.03
302 310 7.537991 GCGTTTAGATCACTATTATAAGAGCGT 59.462 37.037 7.03 0.00 0.00 5.07
303 311 9.395707 CGTTTAGATCACTATTATAAGAGCGTT 57.604 33.333 7.03 0.00 0.00 4.84
311 319 9.894783 TCACTATTATAAGAGCGTTTAGATCAC 57.105 33.333 7.03 0.00 37.82 3.06
312 320 9.900710 CACTATTATAAGAGCGTTTAGATCACT 57.099 33.333 7.03 0.00 37.82 3.41
352 360 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
353 361 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
354 362 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
355 363 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
356 364 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
464 533 5.716703 AGTAGTTGATGCTTTTAGGGCAATT 59.283 36.000 0.00 0.00 43.14 2.32
587 656 7.945033 TTGCAAATTTCAAACATACTTCCTC 57.055 32.000 0.00 0.00 0.00 3.71
589 658 8.402798 TGCAAATTTCAAACATACTTCCTCTA 57.597 30.769 0.00 0.00 0.00 2.43
590 659 8.514594 TGCAAATTTCAAACATACTTCCTCTAG 58.485 33.333 0.00 0.00 0.00 2.43
591 660 8.515414 GCAAATTTCAAACATACTTCCTCTAGT 58.485 33.333 0.00 0.00 0.00 2.57
592 661 9.831737 CAAATTTCAAACATACTTCCTCTAGTG 57.168 33.333 0.00 0.00 0.00 2.74
594 663 9.965902 AATTTCAAACATACTTCCTCTAGTGAT 57.034 29.630 0.00 0.00 0.00 3.06
595 664 9.606631 ATTTCAAACATACTTCCTCTAGTGATC 57.393 33.333 0.00 0.00 0.00 2.92
596 665 7.962995 TCAAACATACTTCCTCTAGTGATCT 57.037 36.000 0.00 0.00 0.00 2.75
598 667 9.475620 TCAAACATACTTCCTCTAGTGATCTAA 57.524 33.333 0.00 0.00 0.00 2.10
599 668 9.743057 CAAACATACTTCCTCTAGTGATCTAAG 57.257 37.037 0.00 0.00 0.00 2.18
600 669 7.519032 ACATACTTCCTCTAGTGATCTAAGC 57.481 40.000 0.00 0.00 0.00 3.09
601 670 6.205853 ACATACTTCCTCTAGTGATCTAAGCG 59.794 42.308 0.00 0.00 0.00 4.68
602 671 3.316868 ACTTCCTCTAGTGATCTAAGCGC 59.683 47.826 0.00 0.00 0.00 5.92
603 672 3.216187 TCCTCTAGTGATCTAAGCGCT 57.784 47.619 2.64 2.64 0.00 5.92
604 673 3.142951 TCCTCTAGTGATCTAAGCGCTC 58.857 50.000 12.06 0.00 0.00 5.03
605 674 3.146066 CCTCTAGTGATCTAAGCGCTCT 58.854 50.000 12.06 3.67 0.00 4.09
606 675 3.568007 CCTCTAGTGATCTAAGCGCTCTT 59.432 47.826 12.06 0.00 36.35 2.85
607 676 4.757657 CCTCTAGTGATCTAAGCGCTCTTA 59.242 45.833 12.06 0.00 33.85 2.10
609 678 6.596106 CCTCTAGTGATCTAAGCGCTCTTATA 59.404 42.308 12.06 0.00 34.54 0.98
610 679 7.282224 CCTCTAGTGATCTAAGCGCTCTTATAT 59.718 40.741 12.06 0.00 34.54 0.86
611 680 8.568676 TCTAGTGATCTAAGCGCTCTTATATT 57.431 34.615 12.06 0.00 34.54 1.28
612 681 9.015367 TCTAGTGATCTAAGCGCTCTTATATTT 57.985 33.333 12.06 0.00 34.54 1.40
613 682 9.284594 CTAGTGATCTAAGCGCTCTTATATTTC 57.715 37.037 12.06 0.76 34.54 2.17
614 683 7.891561 AGTGATCTAAGCGCTCTTATATTTCT 58.108 34.615 12.06 0.00 34.54 2.52
615 684 8.364142 AGTGATCTAAGCGCTCTTATATTTCTT 58.636 33.333 12.06 0.00 34.54 2.52
616 685 8.983724 GTGATCTAAGCGCTCTTATATTTCTTT 58.016 33.333 12.06 0.00 34.54 2.52
617 686 8.982685 TGATCTAAGCGCTCTTATATTTCTTTG 58.017 33.333 12.06 0.00 34.54 2.77
618 687 7.178712 TCTAAGCGCTCTTATATTTCTTTGC 57.821 36.000 12.06 0.00 34.54 3.68
619 688 4.458951 AGCGCTCTTATATTTCTTTGCG 57.541 40.909 2.64 0.00 44.10 4.85
620 689 3.248602 AGCGCTCTTATATTTCTTTGCGG 59.751 43.478 2.64 0.00 41.99 5.69
621 690 3.247648 GCGCTCTTATATTTCTTTGCGGA 59.752 43.478 0.00 0.00 41.99 5.54
622 691 4.609336 GCGCTCTTATATTTCTTTGCGGAG 60.609 45.833 0.00 0.00 41.99 4.63
623 692 4.084328 CGCTCTTATATTTCTTTGCGGAGG 60.084 45.833 0.00 0.00 38.74 4.30
624 693 4.214332 GCTCTTATATTTCTTTGCGGAGGG 59.786 45.833 0.00 0.00 0.00 4.30
625 694 5.611374 CTCTTATATTTCTTTGCGGAGGGA 58.389 41.667 0.00 0.00 0.00 4.20
626 695 5.611374 TCTTATATTTCTTTGCGGAGGGAG 58.389 41.667 0.00 0.00 0.00 4.30
627 696 3.933861 ATATTTCTTTGCGGAGGGAGT 57.066 42.857 0.00 0.00 0.00 3.85
628 697 6.325545 TCTTATATTTCTTTGCGGAGGGAGTA 59.674 38.462 0.00 0.00 0.00 2.59
634 703 3.773119 TCTTTGCGGAGGGAGTATTTAGT 59.227 43.478 0.00 0.00 0.00 2.24
635 704 4.957954 TCTTTGCGGAGGGAGTATTTAGTA 59.042 41.667 0.00 0.00 0.00 1.82
681 752 9.712305 GACTAAGCTATTTATATGGCTCTTTCA 57.288 33.333 4.58 0.00 46.56 2.69
756 835 1.808945 CCTGTAACTTGCTCTTGGCTG 59.191 52.381 0.00 0.00 42.39 4.85
757 836 1.808945 CTGTAACTTGCTCTTGGCTGG 59.191 52.381 0.00 0.00 42.39 4.85
1313 1402 4.386761 CCACCCCAATATCTTCCATGTCTT 60.387 45.833 0.00 0.00 0.00 3.01
1329 1418 4.698201 TGTCTTTGGTGGAAGTACATCA 57.302 40.909 0.00 0.00 0.00 3.07
1452 1541 5.046376 TCTGAGGAAGCTGTTAATGATGTCA 60.046 40.000 0.00 0.00 0.00 3.58
1637 1726 1.287730 GCAGTCACAGCACGAGAAGG 61.288 60.000 0.00 0.00 0.00 3.46
1705 1794 6.272324 TCCTAAAGATGGGAATATACTGGGTG 59.728 42.308 0.00 0.00 32.47 4.61
1807 1896 5.136105 AGATGGCATTTCCTTCACCTTATC 58.864 41.667 0.00 0.00 40.48 1.75
1933 2022 7.048629 TCTGATAAGCTAGAAGTCTTCCATG 57.951 40.000 9.04 1.43 0.00 3.66
2180 2269 8.873830 CGAGTGTTATTGATTTACATGAGAAGT 58.126 33.333 0.00 0.00 0.00 3.01
2454 2551 1.683319 GGGTTGAGGGATTTGAGAGGC 60.683 57.143 0.00 0.00 0.00 4.70
2550 2664 3.261580 AGCTCACAAAAACTTGCCAAAC 58.738 40.909 0.00 0.00 0.00 2.93
2597 2711 0.527113 TGGCATCAAACCAATCAGCG 59.473 50.000 0.00 0.00 33.12 5.18
2611 2725 3.512033 ATCAGCGTCTAACTCCAGTTC 57.488 47.619 0.00 0.00 39.31 3.01
2637 2753 6.071447 TGCAGCTTATAATGCCAAAAAGAAGA 60.071 34.615 8.26 0.00 41.85 2.87
2705 2822 4.202503 TGGCTTCTCCTAATTGGATGGATC 60.203 45.833 0.00 0.00 45.16 3.36
2760 2877 8.341173 GGCACTCATTTATCTGAAACTCTATTG 58.659 37.037 0.00 0.00 0.00 1.90
2873 2995 5.967088 ACTCACACAATCATACCACTAGAC 58.033 41.667 0.00 0.00 0.00 2.59
2908 3030 7.675062 TGGTTGGATGTTTTAAATGCATTACT 58.325 30.769 13.39 0.00 0.00 2.24
2950 3096 4.568359 AGTACAATAACAAGCTGCATCTCG 59.432 41.667 1.02 0.00 0.00 4.04
3059 3227 8.767478 ATTGTTCTGCTAATTTCTGAATTTGG 57.233 30.769 7.57 6.05 36.82 3.28
3112 3280 2.865119 TGTGTCCTCATGCTCATGTT 57.135 45.000 9.41 0.00 39.72 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 91 1.400737 ATTCCGAACGGAGGGAGTAG 58.599 55.000 15.34 0.00 46.06 2.57
84 92 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
86 94 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
89 97 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
91 99 3.663995 TGACAAGTAATTCCGAACGGA 57.336 42.857 12.04 12.04 43.52 4.69
92 100 6.411630 TTTATGACAAGTAATTCCGAACGG 57.588 37.500 6.94 6.94 0.00 4.44
93 101 8.785101 CATTTTTATGACAAGTAATTCCGAACG 58.215 33.333 0.00 0.00 0.00 3.95
94 102 9.072294 CCATTTTTATGACAAGTAATTCCGAAC 57.928 33.333 0.00 0.00 0.00 3.95
95 103 9.015367 TCCATTTTTATGACAAGTAATTCCGAA 57.985 29.630 0.00 0.00 0.00 4.30
96 104 8.568676 TCCATTTTTATGACAAGTAATTCCGA 57.431 30.769 0.00 0.00 0.00 4.55
149 157 9.421399 TCCAAGAACTGAATGTATCTAGATGTA 57.579 33.333 15.79 4.44 0.00 2.29
150 158 8.200792 GTCCAAGAACTGAATGTATCTAGATGT 58.799 37.037 15.79 0.00 0.00 3.06
151 159 8.200120 TGTCCAAGAACTGAATGTATCTAGATG 58.800 37.037 15.79 0.00 0.00 2.90
152 160 8.311395 TGTCCAAGAACTGAATGTATCTAGAT 57.689 34.615 10.73 10.73 0.00 1.98
153 161 7.718334 TGTCCAAGAACTGAATGTATCTAGA 57.282 36.000 0.00 0.00 0.00 2.43
154 162 8.037758 ACTTGTCCAAGAACTGAATGTATCTAG 58.962 37.037 13.69 0.00 40.79 2.43
155 163 7.907389 ACTTGTCCAAGAACTGAATGTATCTA 58.093 34.615 13.69 0.00 40.79 1.98
156 164 6.773638 ACTTGTCCAAGAACTGAATGTATCT 58.226 36.000 13.69 0.00 40.79 1.98
157 165 8.547967 TTACTTGTCCAAGAACTGAATGTATC 57.452 34.615 13.69 0.00 40.79 2.24
158 166 9.520515 AATTACTTGTCCAAGAACTGAATGTAT 57.479 29.630 13.69 0.00 40.79 2.29
159 167 8.918202 AATTACTTGTCCAAGAACTGAATGTA 57.082 30.769 13.69 0.00 40.79 2.29
160 168 7.040409 GGAATTACTTGTCCAAGAACTGAATGT 60.040 37.037 13.69 0.00 40.79 2.71
161 169 7.308435 GGAATTACTTGTCCAAGAACTGAATG 58.692 38.462 13.69 0.00 40.79 2.67
162 170 6.149474 CGGAATTACTTGTCCAAGAACTGAAT 59.851 38.462 13.69 3.13 40.79 2.57
163 171 5.468746 CGGAATTACTTGTCCAAGAACTGAA 59.531 40.000 13.69 1.17 40.79 3.02
164 172 4.994852 CGGAATTACTTGTCCAAGAACTGA 59.005 41.667 13.69 0.00 40.79 3.41
165 173 4.994852 TCGGAATTACTTGTCCAAGAACTG 59.005 41.667 13.69 5.51 40.79 3.16
166 174 5.223449 TCGGAATTACTTGTCCAAGAACT 57.777 39.130 13.69 0.00 40.79 3.01
167 175 5.614013 CGTTCGGAATTACTTGTCCAAGAAC 60.614 44.000 13.69 4.70 40.79 3.01
168 176 4.449743 CGTTCGGAATTACTTGTCCAAGAA 59.550 41.667 13.69 4.62 40.79 2.52
169 177 3.991773 CGTTCGGAATTACTTGTCCAAGA 59.008 43.478 13.69 0.00 40.79 3.02
170 178 3.124636 CCGTTCGGAATTACTTGTCCAAG 59.875 47.826 5.19 5.51 43.79 3.61
171 179 3.068560 CCGTTCGGAATTACTTGTCCAA 58.931 45.455 5.19 0.00 33.10 3.53
172 180 2.299582 TCCGTTCGGAATTACTTGTCCA 59.700 45.455 11.66 0.00 33.10 4.02
173 181 2.928116 CTCCGTTCGGAATTACTTGTCC 59.072 50.000 14.79 0.00 33.41 4.02
174 182 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
175 183 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
176 184 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
177 185 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
178 186 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
179 187 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
180 188 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
181 189 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
182 190 1.341778 ACTACTCCCTCCGTTCGGAAT 60.342 52.381 14.79 2.09 33.41 3.01
183 191 0.038744 ACTACTCCCTCCGTTCGGAA 59.961 55.000 14.79 0.04 33.41 4.30
184 192 0.911769 TACTACTCCCTCCGTTCGGA 59.088 55.000 13.34 13.34 0.00 4.55
185 193 1.134280 TCTACTACTCCCTCCGTTCGG 60.134 57.143 4.74 4.74 0.00 4.30
186 194 2.211806 CTCTACTACTCCCTCCGTTCG 58.788 57.143 0.00 0.00 0.00 3.95
187 195 3.280197 ACTCTACTACTCCCTCCGTTC 57.720 52.381 0.00 0.00 0.00 3.95
188 196 5.385628 AATACTCTACTACTCCCTCCGTT 57.614 43.478 0.00 0.00 0.00 4.44
189 197 5.385628 AAATACTCTACTACTCCCTCCGT 57.614 43.478 0.00 0.00 0.00 4.69
190 198 6.016943 CAGAAAATACTCTACTACTCCCTCCG 60.017 46.154 0.00 0.00 0.00 4.63
191 199 6.239092 GCAGAAAATACTCTACTACTCCCTCC 60.239 46.154 0.00 0.00 0.00 4.30
192 200 6.321690 TGCAGAAAATACTCTACTACTCCCTC 59.678 42.308 0.00 0.00 0.00 4.30
193 201 6.195700 TGCAGAAAATACTCTACTACTCCCT 58.804 40.000 0.00 0.00 0.00 4.20
194 202 6.097129 ACTGCAGAAAATACTCTACTACTCCC 59.903 42.308 23.35 0.00 0.00 4.30
195 203 6.975772 CACTGCAGAAAATACTCTACTACTCC 59.024 42.308 23.35 0.00 0.00 3.85
196 204 7.763356 TCACTGCAGAAAATACTCTACTACTC 58.237 38.462 23.35 0.00 0.00 2.59
197 205 7.394923 ACTCACTGCAGAAAATACTCTACTACT 59.605 37.037 23.35 0.00 0.00 2.57
198 206 7.540299 ACTCACTGCAGAAAATACTCTACTAC 58.460 38.462 23.35 0.00 0.00 2.73
203 211 5.736951 AGACTCACTGCAGAAAATACTCT 57.263 39.130 23.35 7.37 0.00 3.24
218 226 7.028926 TCGATTTATCCTTCACTAGACTCAC 57.971 40.000 0.00 0.00 0.00 3.51
252 260 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
253 261 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
254 262 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
255 263 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
256 264 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
257 265 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
258 266 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
274 282 9.068008 GCTCTTATAATAGTGATCTAAACGCTC 57.932 37.037 0.00 0.00 0.00 5.03
275 283 7.751348 CGCTCTTATAATAGTGATCTAAACGCT 59.249 37.037 5.69 0.00 0.00 5.07
276 284 7.537991 ACGCTCTTATAATAGTGATCTAAACGC 59.462 37.037 15.92 0.00 0.00 4.84
277 285 8.951954 ACGCTCTTATAATAGTGATCTAAACG 57.048 34.615 15.92 3.74 0.00 3.60
285 293 9.894783 GTGATCTAAACGCTCTTATAATAGTGA 57.105 33.333 15.92 0.00 0.00 3.41
286 294 9.900710 AGTGATCTAAACGCTCTTATAATAGTG 57.099 33.333 9.25 9.25 0.00 2.74
326 334 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
327 335 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
328 336 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
329 337 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
330 338 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
338 346 9.656323 TCACATATACTCCCTCTGTAAACTAAT 57.344 33.333 0.00 0.00 0.00 1.73
339 347 9.656323 ATCACATATACTCCCTCTGTAAACTAA 57.344 33.333 0.00 0.00 0.00 2.24
340 348 9.298250 GATCACATATACTCCCTCTGTAAACTA 57.702 37.037 0.00 0.00 0.00 2.24
341 349 7.785028 TGATCACATATACTCCCTCTGTAAACT 59.215 37.037 0.00 0.00 0.00 2.66
342 350 7.952671 TGATCACATATACTCCCTCTGTAAAC 58.047 38.462 0.00 0.00 0.00 2.01
343 351 8.421784 GTTGATCACATATACTCCCTCTGTAAA 58.578 37.037 0.00 0.00 0.00 2.01
344 352 7.785028 AGTTGATCACATATACTCCCTCTGTAA 59.215 37.037 0.00 0.00 0.00 2.41
345 353 7.298374 AGTTGATCACATATACTCCCTCTGTA 58.702 38.462 0.00 0.00 0.00 2.74
346 354 6.139671 AGTTGATCACATATACTCCCTCTGT 58.860 40.000 0.00 0.00 0.00 3.41
347 355 6.266330 TGAGTTGATCACATATACTCCCTCTG 59.734 42.308 17.71 0.00 33.18 3.35
348 356 6.377080 TGAGTTGATCACATATACTCCCTCT 58.623 40.000 17.71 0.00 33.18 3.69
349 357 6.656632 TGAGTTGATCACATATACTCCCTC 57.343 41.667 17.71 0.11 33.18 4.30
350 358 6.784473 TCATGAGTTGATCACATATACTCCCT 59.216 38.462 17.71 6.49 41.91 4.20
351 359 6.997655 TCATGAGTTGATCACATATACTCCC 58.002 40.000 17.71 0.74 41.91 4.30
352 360 8.147058 AGTTCATGAGTTGATCACATATACTCC 58.853 37.037 17.71 6.03 41.91 3.85
356 364 9.846248 CGATAGTTCATGAGTTGATCACATATA 57.154 33.333 0.00 0.00 41.91 0.86
357 365 7.330454 GCGATAGTTCATGAGTTGATCACATAT 59.670 37.037 0.00 0.00 38.81 1.78
358 366 6.642540 GCGATAGTTCATGAGTTGATCACATA 59.357 38.462 0.00 0.00 38.81 2.29
359 367 5.464722 GCGATAGTTCATGAGTTGATCACAT 59.535 40.000 0.00 0.00 38.81 3.21
360 368 4.805719 GCGATAGTTCATGAGTTGATCACA 59.194 41.667 0.00 0.00 38.81 3.58
381 389 2.159653 GCTCAATAAGTGTCACCAAGCG 60.160 50.000 0.00 0.00 0.00 4.68
464 533 7.266922 ACATTAAACTACTTTCCGCTTTTGA 57.733 32.000 0.00 0.00 0.00 2.69
530 599 3.320541 ACGATTGGTTGGCAAGATGAAAA 59.679 39.130 0.00 0.00 0.00 2.29
583 652 3.142951 GAGCGCTTAGATCACTAGAGGA 58.857 50.000 13.26 0.00 34.89 3.71
587 656 9.284594 GAAATATAAGAGCGCTTAGATCACTAG 57.715 37.037 13.26 0.00 37.50 2.57
589 658 7.891561 AGAAATATAAGAGCGCTTAGATCACT 58.108 34.615 13.26 14.58 37.50 3.41
590 659 8.527567 AAGAAATATAAGAGCGCTTAGATCAC 57.472 34.615 13.26 12.97 37.50 3.06
591 660 8.982685 CAAAGAAATATAAGAGCGCTTAGATCA 58.017 33.333 13.26 2.70 37.50 2.92
592 661 7.954786 GCAAAGAAATATAAGAGCGCTTAGATC 59.045 37.037 13.26 7.41 37.50 2.75
594 663 6.074302 CGCAAAGAAATATAAGAGCGCTTAGA 60.074 38.462 13.26 11.33 39.79 2.10
595 664 6.067669 CGCAAAGAAATATAAGAGCGCTTAG 58.932 40.000 13.26 0.27 39.79 2.18
596 665 5.050363 CCGCAAAGAAATATAAGAGCGCTTA 60.050 40.000 13.26 12.50 42.28 3.09
598 667 3.248602 CCGCAAAGAAATATAAGAGCGCT 59.751 43.478 11.27 11.27 42.28 5.92
599 668 3.247648 TCCGCAAAGAAATATAAGAGCGC 59.752 43.478 0.00 0.00 42.28 5.92
600 669 4.084328 CCTCCGCAAAGAAATATAAGAGCG 60.084 45.833 0.00 0.00 43.13 5.03
601 670 4.214332 CCCTCCGCAAAGAAATATAAGAGC 59.786 45.833 0.00 0.00 0.00 4.09
602 671 5.611374 TCCCTCCGCAAAGAAATATAAGAG 58.389 41.667 0.00 0.00 0.00 2.85
603 672 5.130477 ACTCCCTCCGCAAAGAAATATAAGA 59.870 40.000 0.00 0.00 0.00 2.10
604 673 5.368989 ACTCCCTCCGCAAAGAAATATAAG 58.631 41.667 0.00 0.00 0.00 1.73
605 674 5.367945 ACTCCCTCCGCAAAGAAATATAA 57.632 39.130 0.00 0.00 0.00 0.98
606 675 6.681729 ATACTCCCTCCGCAAAGAAATATA 57.318 37.500 0.00 0.00 0.00 0.86
607 676 3.933861 ACTCCCTCCGCAAAGAAATAT 57.066 42.857 0.00 0.00 0.00 1.28
609 678 3.933861 ATACTCCCTCCGCAAAGAAAT 57.066 42.857 0.00 0.00 0.00 2.17
610 679 3.713826 AATACTCCCTCCGCAAAGAAA 57.286 42.857 0.00 0.00 0.00 2.52
611 680 3.713826 AAATACTCCCTCCGCAAAGAA 57.286 42.857 0.00 0.00 0.00 2.52
612 681 3.773119 ACTAAATACTCCCTCCGCAAAGA 59.227 43.478 0.00 0.00 0.00 2.52
613 682 4.138487 ACTAAATACTCCCTCCGCAAAG 57.862 45.455 0.00 0.00 0.00 2.77
614 683 5.680594 TTACTAAATACTCCCTCCGCAAA 57.319 39.130 0.00 0.00 0.00 3.68
615 684 5.188359 AGTTTACTAAATACTCCCTCCGCAA 59.812 40.000 0.00 0.00 0.00 4.85
616 685 4.713321 AGTTTACTAAATACTCCCTCCGCA 59.287 41.667 0.00 0.00 0.00 5.69
617 686 5.068855 AGAGTTTACTAAATACTCCCTCCGC 59.931 44.000 0.00 0.00 39.23 5.54
618 687 6.712179 AGAGTTTACTAAATACTCCCTCCG 57.288 41.667 0.00 0.00 39.23 4.63
650 721 9.495572 GAGCCATATAAATAGCTTAGTCAAGTT 57.504 33.333 0.00 0.00 35.23 2.66
681 752 9.844790 CATCACACACATAATACAAAATTGACT 57.155 29.630 0.00 0.00 0.00 3.41
756 835 4.704833 TCACCGCAGCAGAAGCCC 62.705 66.667 0.00 0.00 43.56 5.19
757 836 3.123620 CTCACCGCAGCAGAAGCC 61.124 66.667 0.00 0.00 43.56 4.35
770 849 4.338118 TCCCATTTCAGAACAACAACTCAC 59.662 41.667 0.00 0.00 0.00 3.51
971 1060 2.711542 AGGTCTTAAATGCAAGTCCGG 58.288 47.619 0.00 0.00 38.35 5.14
1078 1167 0.798776 CGTCCATGACCAGCAGAAAC 59.201 55.000 0.00 0.00 0.00 2.78
1313 1402 2.365941 TCACGTGATGTACTTCCACCAA 59.634 45.455 15.76 0.00 0.00 3.67
1389 1478 0.543277 CCATTAGCTCCTGTGCCTGA 59.457 55.000 0.00 0.00 0.00 3.86
1452 1541 2.629017 AAGGGATTTGGCAGTCCATT 57.371 45.000 18.85 16.01 43.05 3.16
1515 1604 5.893824 AGGAATCAACTTGTCCTTGAAGTTT 59.106 36.000 0.00 0.00 40.83 2.66
1705 1794 8.987890 TGGATATTTTAACTTGAAAGCAAAAGC 58.012 29.630 8.33 0.00 32.73 3.51
1807 1896 2.224018 GCTCCACTCTCCTAGCATTCAG 60.224 54.545 0.00 0.00 35.05 3.02
1933 2022 1.590932 CATGGCAGCCTGTACTCATC 58.409 55.000 14.15 0.00 0.00 2.92
2180 2269 0.888736 CCAGACGCACCATGGTTTCA 60.889 55.000 16.84 0.00 0.00 2.69
2326 2417 8.190122 TCATATTTAAAGATGTGATGTTGGTGC 58.810 33.333 19.42 0.00 0.00 5.01
2394 2486 7.360113 ACTTGTGACCTCCATAAAAACATTT 57.640 32.000 0.00 0.00 0.00 2.32
2395 2487 6.976934 ACTTGTGACCTCCATAAAAACATT 57.023 33.333 0.00 0.00 0.00 2.71
2550 2664 9.919348 CATTTGGTAAATCAAAAGTTGTCAAAG 57.081 29.630 0.00 0.00 39.64 2.77
2611 2725 5.653507 TCTTTTTGGCATTATAAGCTGCAG 58.346 37.500 10.11 10.11 40.18 4.41
2637 2753 5.086104 ACAAAGCGGAACTGATACTGTAT 57.914 39.130 0.00 0.00 0.00 2.29
2705 2822 7.770897 ACTATTGTTTATGAGCCAAAGGTAGAG 59.229 37.037 0.00 0.00 0.00 2.43
2760 2877 2.037772 AGTCACATGAGACTGGGTGAAC 59.962 50.000 22.83 0.00 46.58 3.18
2873 2995 0.523072 CATCCAACCAACCAAGAGCG 59.477 55.000 0.00 0.00 0.00 5.03
3059 3227 5.577164 AGTGAACGTAGATAAGCATTGTCAC 59.423 40.000 0.00 0.00 38.84 3.67
3112 3280 5.171476 GCAGATAACTTGAAGTCACTAGCA 58.829 41.667 0.00 0.00 0.00 3.49


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

AutoCloner maintained by Alex Coulton.