Multiple sequence alignment - TraesCS7D01G393900

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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 TraesCS7D01G393900 chr7D 100.000 3572 0 0 1 3572 509534865 509531294 0.000000e+00 6597
1 TraesCS7D01G393900 chr7D 93.836 584 35 1 2990 3572 635995965 635996548 0.000000e+00 878
2 TraesCS7D01G393900 chr7A 93.066 2668 115 36 365 2986 580224335 580226978 0.000000e+00 3838
3 TraesCS7D01G393900 chr7A 93.559 590 36 2 2984 3572 92364737 92365325 0.000000e+00 878
4 TraesCS7D01G393900 chr7A 93.243 148 4 4 1 147 580224009 580224151 2.790000e-51 213
5 TraesCS7D01G393900 chr7A 93.939 66 4 0 175 240 580224148 580224213 2.270000e-17 100
6 TraesCS7D01G393900 chr7B 92.434 2498 102 39 511 2988 537517782 537515352 0.000000e+00 3485
7 TraesCS7D01G393900 chr7B 93.333 240 6 4 1 240 537518232 537518003 2.640000e-91 346
8 TraesCS7D01G393900 chr4D 82.432 1497 242 16 1062 2548 78779686 78781171 0.000000e+00 1288
9 TraesCS7D01G393900 chr4D 93.478 598 36 3 2977 3572 19346456 19347052 0.000000e+00 885
10 TraesCS7D01G393900 chr4D 78.717 1076 153 42 1487 2547 503606900 503607914 0.000000e+00 649
11 TraesCS7D01G393900 chr4B 82.152 1496 245 18 1062 2548 110228812 110230294 0.000000e+00 1264
12 TraesCS7D01G393900 chr4B 81.153 1475 234 30 1090 2547 667426663 667428110 0.000000e+00 1144
13 TraesCS7D01G393900 chr4A 82.012 1501 254 14 1054 2548 507592616 507594106 0.000000e+00 1262
14 TraesCS7D01G393900 chr4A 93.898 590 35 1 2984 3572 71082666 71082077 0.000000e+00 889
15 TraesCS7D01G393900 chrUn 81.377 1482 233 30 1083 2547 30095185 30096640 0.000000e+00 1168
16 TraesCS7D01G393900 chr2A 81.094 1481 246 23 1090 2547 753106080 753104611 0.000000e+00 1153
17 TraesCS7D01G393900 chr2B 79.905 1478 266 20 1090 2547 762118266 762116800 0.000000e+00 1055
18 TraesCS7D01G393900 chr6D 94.228 589 33 1 2985 3572 7446938 7447526 0.000000e+00 898
19 TraesCS7D01G393900 chr5D 94.521 584 28 3 2990 3572 382082673 382082093 0.000000e+00 898
20 TraesCS7D01G393900 chr5D 72.042 1513 340 67 1078 2547 371862154 371863626 1.210000e-99 374
21 TraesCS7D01G393900 chr3D 94.369 586 30 2 2990 3572 495800701 495801286 0.000000e+00 896
22 TraesCS7D01G393900 chr2D 93.997 583 33 2 2991 3572 399428245 399427664 0.000000e+00 881
23 TraesCS7D01G393900 chr3B 93.504 585 35 3 2990 3572 605325880 605325297 0.000000e+00 867
24 TraesCS7D01G393900 chr5A 72.294 1386 309 65 1213 2561 475295025 475296372 2.620000e-96 363
25 TraesCS7D01G393900 chr5A 78.537 205 33 8 2344 2547 688067814 688068008 1.350000e-24 124


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 TraesCS7D01G393900 chr7D 509531294 509534865 3571 True 6597.000000 6597 100.0000 1 3572 1 chr7D.!!$R1 3571
1 TraesCS7D01G393900 chr7D 635995965 635996548 583 False 878.000000 878 93.8360 2990 3572 1 chr7D.!!$F1 582
2 TraesCS7D01G393900 chr7A 580224009 580226978 2969 False 1383.666667 3838 93.4160 1 2986 3 chr7A.!!$F2 2985
3 TraesCS7D01G393900 chr7A 92364737 92365325 588 False 878.000000 878 93.5590 2984 3572 1 chr7A.!!$F1 588
4 TraesCS7D01G393900 chr7B 537515352 537518232 2880 True 1915.500000 3485 92.8835 1 2988 2 chr7B.!!$R1 2987
5 TraesCS7D01G393900 chr4D 78779686 78781171 1485 False 1288.000000 1288 82.4320 1062 2548 1 chr4D.!!$F2 1486
6 TraesCS7D01G393900 chr4D 19346456 19347052 596 False 885.000000 885 93.4780 2977 3572 1 chr4D.!!$F1 595
7 TraesCS7D01G393900 chr4D 503606900 503607914 1014 False 649.000000 649 78.7170 1487 2547 1 chr4D.!!$F3 1060
8 TraesCS7D01G393900 chr4B 110228812 110230294 1482 False 1264.000000 1264 82.1520 1062 2548 1 chr4B.!!$F1 1486
9 TraesCS7D01G393900 chr4B 667426663 667428110 1447 False 1144.000000 1144 81.1530 1090 2547 1 chr4B.!!$F2 1457
10 TraesCS7D01G393900 chr4A 507592616 507594106 1490 False 1262.000000 1262 82.0120 1054 2548 1 chr4A.!!$F1 1494
11 TraesCS7D01G393900 chr4A 71082077 71082666 589 True 889.000000 889 93.8980 2984 3572 1 chr4A.!!$R1 588
12 TraesCS7D01G393900 chrUn 30095185 30096640 1455 False 1168.000000 1168 81.3770 1083 2547 1 chrUn.!!$F1 1464
13 TraesCS7D01G393900 chr2A 753104611 753106080 1469 True 1153.000000 1153 81.0940 1090 2547 1 chr2A.!!$R1 1457
14 TraesCS7D01G393900 chr2B 762116800 762118266 1466 True 1055.000000 1055 79.9050 1090 2547 1 chr2B.!!$R1 1457
15 TraesCS7D01G393900 chr6D 7446938 7447526 588 False 898.000000 898 94.2280 2985 3572 1 chr6D.!!$F1 587
16 TraesCS7D01G393900 chr5D 382082093 382082673 580 True 898.000000 898 94.5210 2990 3572 1 chr5D.!!$R1 582
17 TraesCS7D01G393900 chr5D 371862154 371863626 1472 False 374.000000 374 72.0420 1078 2547 1 chr5D.!!$F1 1469
18 TraesCS7D01G393900 chr3D 495800701 495801286 585 False 896.000000 896 94.3690 2990 3572 1 chr3D.!!$F1 582
19 TraesCS7D01G393900 chr2D 399427664 399428245 581 True 881.000000 881 93.9970 2991 3572 1 chr2D.!!$R1 581
20 TraesCS7D01G393900 chr3B 605325297 605325880 583 True 867.000000 867 93.5040 2990 3572 1 chr3B.!!$R1 582
21 TraesCS7D01G393900 chr5A 475295025 475296372 1347 False 363.000000 363 72.2940 1213 2561 1 chr5A.!!$F1 1348

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
326 327 0.032952 CAACCTCGGTCGTGGAAGAA 59.967 55.0 16.81 0.0 33.41 2.52 F
347 348 0.108424 AGTGAAGGCTGAGCGATGTC 60.108 55.0 0.00 0.0 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2505 2646 2.571653 CCTGAAGTAGTTGGTGGGATCA 59.428 50.000 0.00 0.0 0.0 2.92 R
2578 2726 2.912025 CCTTGGCGTGCAACCCTT 60.912 61.111 4.63 0.0 0.0 3.95 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
32 33 9.043079 GTAATTAAGTAGTAGGTCCTTGATTGC 57.957 37.037 0.00 0.00 30.21 3.56
63 64 2.627699 TGAAAATGCCAGAAGTTCCCAC 59.372 45.455 0.00 0.00 0.00 4.61
109 110 2.156343 ATATCTTCGAGCTTTCGGGC 57.844 50.000 0.00 0.00 0.00 6.13
155 156 1.546923 TGCTAGAATCGACGGAAACCA 59.453 47.619 0.00 0.00 0.00 3.67
156 157 2.167693 TGCTAGAATCGACGGAAACCAT 59.832 45.455 0.00 0.00 0.00 3.55
157 158 2.540101 GCTAGAATCGACGGAAACCATG 59.460 50.000 0.00 0.00 0.00 3.66
158 159 3.737047 GCTAGAATCGACGGAAACCATGA 60.737 47.826 0.00 0.00 0.00 3.07
159 160 3.328382 AGAATCGACGGAAACCATGAA 57.672 42.857 0.00 0.00 0.00 2.57
183 184 3.540314 ATCTGCACATCTCAAGTCCTC 57.460 47.619 0.00 0.00 0.00 3.71
240 241 0.596082 ATTTGTTGTGCCTACGCCAC 59.404 50.000 0.00 0.00 0.00 5.01
242 243 0.748367 TTGTTGTGCCTACGCCACAA 60.748 50.000 3.11 3.11 35.24 3.33
243 244 1.163420 TGTTGTGCCTACGCCACAAG 61.163 55.000 7.15 0.00 36.98 3.16
244 245 1.599518 TTGTGCCTACGCCACAAGG 60.600 57.895 3.11 0.00 33.78 3.61
247 248 1.302192 TGCCTACGCCACAAGGAAC 60.302 57.895 0.00 0.00 36.89 3.62
248 249 2.038837 GCCTACGCCACAAGGAACC 61.039 63.158 0.00 0.00 36.89 3.62
249 250 1.373435 CCTACGCCACAAGGAACCA 59.627 57.895 0.00 0.00 36.89 3.67
250 251 0.035439 CCTACGCCACAAGGAACCAT 60.035 55.000 0.00 0.00 36.89 3.55
251 252 1.613255 CCTACGCCACAAGGAACCATT 60.613 52.381 0.00 0.00 36.89 3.16
252 253 2.355310 CCTACGCCACAAGGAACCATTA 60.355 50.000 0.00 0.00 36.89 1.90
253 254 2.279935 ACGCCACAAGGAACCATTAA 57.720 45.000 0.00 0.00 36.89 1.40
254 255 2.588620 ACGCCACAAGGAACCATTAAA 58.411 42.857 0.00 0.00 36.89 1.52
256 257 2.671070 CGCCACAAGGAACCATTAAAGC 60.671 50.000 0.00 0.00 36.89 3.51
257 258 2.562738 GCCACAAGGAACCATTAAAGCT 59.437 45.455 0.00 0.00 36.89 3.74
258 259 3.006859 GCCACAAGGAACCATTAAAGCTT 59.993 43.478 0.00 0.00 36.89 3.74
260 261 4.559153 CACAAGGAACCATTAAAGCTTGG 58.441 43.478 0.00 0.00 39.02 3.61
261 262 3.006859 ACAAGGAACCATTAAAGCTTGGC 59.993 43.478 0.00 0.00 36.41 4.52
262 263 2.888212 AGGAACCATTAAAGCTTGGCA 58.112 42.857 0.00 0.00 36.41 4.92
263 264 3.238597 AGGAACCATTAAAGCTTGGCAA 58.761 40.909 0.00 0.00 36.41 4.52
265 266 4.286808 AGGAACCATTAAAGCTTGGCAATT 59.713 37.500 0.00 0.00 36.41 2.32
266 267 5.003160 GGAACCATTAAAGCTTGGCAATTT 58.997 37.500 0.00 1.92 36.41 1.82
267 268 5.106594 GGAACCATTAAAGCTTGGCAATTTG 60.107 40.000 0.00 0.00 36.41 2.32
268 269 4.325972 ACCATTAAAGCTTGGCAATTTGG 58.674 39.130 0.00 3.66 36.41 3.28
269 270 3.690628 CCATTAAAGCTTGGCAATTTGGG 59.309 43.478 0.00 0.44 0.00 4.12
270 271 4.565236 CCATTAAAGCTTGGCAATTTGGGA 60.565 41.667 0.00 0.00 0.00 4.37
271 272 2.549064 AAAGCTTGGCAATTTGGGAC 57.451 45.000 0.00 0.00 0.00 4.46
283 284 3.654021 TGGGACAAGACAGGCACA 58.346 55.556 0.00 0.00 31.92 4.57
284 285 1.148273 TGGGACAAGACAGGCACAC 59.852 57.895 0.00 0.00 31.92 3.82
285 286 1.148273 GGGACAAGACAGGCACACA 59.852 57.895 0.00 0.00 0.00 3.72
287 288 0.663153 GGACAAGACAGGCACACAAC 59.337 55.000 0.00 0.00 0.00 3.32
288 289 1.378531 GACAAGACAGGCACACAACA 58.621 50.000 0.00 0.00 0.00 3.33
289 290 1.742831 GACAAGACAGGCACACAACAA 59.257 47.619 0.00 0.00 0.00 2.83
290 291 2.163412 GACAAGACAGGCACACAACAAA 59.837 45.455 0.00 0.00 0.00 2.83
291 292 2.094752 ACAAGACAGGCACACAACAAAC 60.095 45.455 0.00 0.00 0.00 2.93
293 294 1.745087 AGACAGGCACACAACAAACTG 59.255 47.619 0.00 0.00 0.00 3.16
294 295 1.472480 GACAGGCACACAACAAACTGT 59.528 47.619 0.00 0.00 41.40 3.55
295 296 1.892474 ACAGGCACACAACAAACTGTT 59.108 42.857 0.00 0.00 42.08 3.16
297 298 3.508012 ACAGGCACACAACAAACTGTTTA 59.492 39.130 5.31 0.00 38.77 2.01
298 299 4.104776 CAGGCACACAACAAACTGTTTAG 58.895 43.478 5.31 3.66 38.77 1.85
299 300 3.761752 AGGCACACAACAAACTGTTTAGT 59.238 39.130 5.31 4.27 38.77 2.24
300 301 4.944930 AGGCACACAACAAACTGTTTAGTA 59.055 37.500 5.31 0.00 38.77 1.82
302 303 5.163693 GGCACACAACAAACTGTTTAGTACT 60.164 40.000 5.31 0.00 38.77 2.73
303 304 6.037391 GGCACACAACAAACTGTTTAGTACTA 59.963 38.462 5.31 0.00 38.77 1.82
304 305 6.903479 GCACACAACAAACTGTTTAGTACTAC 59.097 38.462 5.31 0.00 38.77 2.73
305 306 7.201582 GCACACAACAAACTGTTTAGTACTACT 60.202 37.037 5.31 0.00 38.77 2.57
306 307 9.304731 CACACAACAAACTGTTTAGTACTACTA 57.695 33.333 5.31 0.00 38.77 1.82
308 309 9.304731 CACAACAAACTGTTTAGTACTACTACA 57.695 33.333 5.31 9.15 38.77 2.74
312 313 8.699130 ACAAACTGTTTAGTACTACTACAACCT 58.301 33.333 14.63 3.95 35.69 3.50
313 314 9.189723 CAAACTGTTTAGTACTACTACAACCTC 57.810 37.037 14.63 0.00 35.69 3.85
315 316 6.150140 ACTGTTTAGTACTACTACAACCTCGG 59.850 42.308 14.63 7.50 34.74 4.63
316 317 6.003950 TGTTTAGTACTACTACAACCTCGGT 58.996 40.000 12.41 0.00 28.93 4.69
317 318 6.149474 TGTTTAGTACTACTACAACCTCGGTC 59.851 42.308 12.41 0.00 28.93 4.79
318 319 3.265791 AGTACTACTACAACCTCGGTCG 58.734 50.000 0.00 0.00 0.00 4.79
319 320 2.191128 ACTACTACAACCTCGGTCGT 57.809 50.000 0.00 0.00 0.00 4.34
320 321 1.808945 ACTACTACAACCTCGGTCGTG 59.191 52.381 0.00 0.00 0.00 4.35
321 322 1.131883 CTACTACAACCTCGGTCGTGG 59.868 57.143 9.54 9.54 35.14 4.94
322 323 0.538057 ACTACAACCTCGGTCGTGGA 60.538 55.000 16.81 0.00 33.41 4.02
323 324 0.599558 CTACAACCTCGGTCGTGGAA 59.400 55.000 16.81 1.06 33.41 3.53
325 326 1.111116 ACAACCTCGGTCGTGGAAGA 61.111 55.000 16.81 0.00 33.41 2.87
326 327 0.032952 CAACCTCGGTCGTGGAAGAA 59.967 55.000 16.81 0.00 33.41 2.52
327 328 0.317479 AACCTCGGTCGTGGAAGAAG 59.683 55.000 16.81 0.00 33.41 2.85
328 329 0.538977 ACCTCGGTCGTGGAAGAAGA 60.539 55.000 16.81 0.00 33.41 2.87
329 330 0.171455 CCTCGGTCGTGGAAGAAGAG 59.829 60.000 5.64 0.00 0.00 2.85
330 331 0.882474 CTCGGTCGTGGAAGAAGAGT 59.118 55.000 0.00 0.00 0.00 3.24
331 332 0.596577 TCGGTCGTGGAAGAAGAGTG 59.403 55.000 0.00 0.00 0.00 3.51
332 333 0.596577 CGGTCGTGGAAGAAGAGTGA 59.403 55.000 0.00 0.00 0.00 3.41
333 334 1.000607 CGGTCGTGGAAGAAGAGTGAA 60.001 52.381 0.00 0.00 0.00 3.18
334 335 2.678324 GGTCGTGGAAGAAGAGTGAAG 58.322 52.381 0.00 0.00 0.00 3.02
335 336 2.610727 GGTCGTGGAAGAAGAGTGAAGG 60.611 54.545 0.00 0.00 0.00 3.46
336 337 1.000955 TCGTGGAAGAAGAGTGAAGGC 59.999 52.381 0.00 0.00 0.00 4.35
337 338 1.001406 CGTGGAAGAAGAGTGAAGGCT 59.999 52.381 0.00 0.00 0.00 4.58
338 339 2.421619 GTGGAAGAAGAGTGAAGGCTG 58.578 52.381 0.00 0.00 0.00 4.85
339 340 2.037772 GTGGAAGAAGAGTGAAGGCTGA 59.962 50.000 0.00 0.00 0.00 4.26
340 341 2.301296 TGGAAGAAGAGTGAAGGCTGAG 59.699 50.000 0.00 0.00 0.00 3.35
341 342 2.345876 GAAGAAGAGTGAAGGCTGAGC 58.654 52.381 0.00 0.00 0.00 4.26
342 343 0.246086 AGAAGAGTGAAGGCTGAGCG 59.754 55.000 0.00 0.00 0.00 5.03
345 346 0.175302 AGAGTGAAGGCTGAGCGATG 59.825 55.000 0.00 0.00 0.00 3.84
347 348 0.108424 AGTGAAGGCTGAGCGATGTC 60.108 55.000 0.00 0.00 0.00 3.06
348 349 0.108424 GTGAAGGCTGAGCGATGTCT 60.108 55.000 0.00 0.00 0.00 3.41
349 350 1.135139 GTGAAGGCTGAGCGATGTCTA 59.865 52.381 0.00 0.00 0.00 2.59
351 352 2.223900 TGAAGGCTGAGCGATGTCTATG 60.224 50.000 0.00 0.00 0.00 2.23
352 353 1.697284 AGGCTGAGCGATGTCTATGA 58.303 50.000 0.00 0.00 0.00 2.15
353 354 2.034878 AGGCTGAGCGATGTCTATGAA 58.965 47.619 0.00 0.00 0.00 2.57
354 355 2.432146 AGGCTGAGCGATGTCTATGAAA 59.568 45.455 0.00 0.00 0.00 2.69
355 356 2.541762 GGCTGAGCGATGTCTATGAAAC 59.458 50.000 0.00 0.00 0.00 2.78
356 357 2.541762 GCTGAGCGATGTCTATGAAACC 59.458 50.000 0.00 0.00 0.00 3.27
357 358 3.739519 GCTGAGCGATGTCTATGAAACCT 60.740 47.826 0.00 0.00 0.00 3.50
358 359 4.499865 GCTGAGCGATGTCTATGAAACCTA 60.500 45.833 0.00 0.00 0.00 3.08
359 360 5.592054 CTGAGCGATGTCTATGAAACCTAA 58.408 41.667 0.00 0.00 0.00 2.69
360 361 5.592054 TGAGCGATGTCTATGAAACCTAAG 58.408 41.667 0.00 0.00 0.00 2.18
361 362 4.372656 AGCGATGTCTATGAAACCTAAGC 58.627 43.478 0.00 0.00 0.00 3.09
362 363 3.495001 GCGATGTCTATGAAACCTAAGCC 59.505 47.826 0.00 0.00 0.00 4.35
363 364 4.693283 CGATGTCTATGAAACCTAAGCCA 58.307 43.478 0.00 0.00 0.00 4.75
382 383 3.371168 CCACAACCAAAATTCTGTCACG 58.629 45.455 0.00 0.00 0.00 4.35
384 385 2.043411 CAACCAAAATTCTGTCACGCG 58.957 47.619 3.53 3.53 0.00 6.01
385 386 0.591170 ACCAAAATTCTGTCACGCGG 59.409 50.000 12.47 0.00 0.00 6.46
405 406 3.555956 CGGTTTCCTCATTATCCAACTCG 59.444 47.826 0.00 0.00 0.00 4.18
406 407 4.514401 GGTTTCCTCATTATCCAACTCGT 58.486 43.478 0.00 0.00 0.00 4.18
407 408 4.941873 GGTTTCCTCATTATCCAACTCGTT 59.058 41.667 0.00 0.00 0.00 3.85
408 409 5.414765 GGTTTCCTCATTATCCAACTCGTTT 59.585 40.000 0.00 0.00 0.00 3.60
409 410 6.596497 GGTTTCCTCATTATCCAACTCGTTTA 59.404 38.462 0.00 0.00 0.00 2.01
410 411 7.120138 GGTTTCCTCATTATCCAACTCGTTTAA 59.880 37.037 0.00 0.00 0.00 1.52
411 412 8.674607 GTTTCCTCATTATCCAACTCGTTTAAT 58.325 33.333 0.00 0.00 0.00 1.40
412 413 8.801882 TTCCTCATTATCCAACTCGTTTAATT 57.198 30.769 0.00 0.00 0.00 1.40
413 414 8.433421 TCCTCATTATCCAACTCGTTTAATTC 57.567 34.615 0.00 0.00 0.00 2.17
414 415 8.265055 TCCTCATTATCCAACTCGTTTAATTCT 58.735 33.333 0.00 0.00 0.00 2.40
415 416 9.542462 CCTCATTATCCAACTCGTTTAATTCTA 57.458 33.333 0.00 0.00 0.00 2.10
417 418 9.027129 TCATTATCCAACTCGTTTAATTCTACG 57.973 33.333 6.05 6.05 39.03 3.51
418 419 8.814235 CATTATCCAACTCGTTTAATTCTACGT 58.186 33.333 10.78 0.00 38.79 3.57
423 436 7.752239 TCCAACTCGTTTAATTCTACGTAGAAG 59.248 37.037 34.13 23.40 44.67 2.85
441 454 8.271231 CGTAGAAGAAACGTCCTTATTGATAG 57.729 38.462 3.53 0.00 35.66 2.08
458 471 4.631131 TGATAGCTGCATGTACCATGTAC 58.369 43.478 1.02 0.00 0.00 2.90
460 473 3.565764 AGCTGCATGTACCATGTACAT 57.434 42.857 12.80 12.80 38.57 2.29
482 501 1.229428 AGCATGTGTCACCGTCAAAG 58.771 50.000 0.00 0.00 0.00 2.77
498 518 2.679837 TCAAAGCGGATGAATCTTGCTC 59.320 45.455 9.82 0.00 37.45 4.26
526 550 1.067693 TTCAGCGTGCGTGTATGAAG 58.932 50.000 0.00 0.00 0.00 3.02
541 565 4.469586 TGTATGAAGTGGAGTATGCTTGGA 59.530 41.667 0.00 0.00 0.00 3.53
561 585 0.676736 GATCGCCCAAACCAAACCAA 59.323 50.000 0.00 0.00 0.00 3.67
603 639 0.596083 CGCGTGGCCATGAAACAAAA 60.596 50.000 29.54 0.00 0.00 2.44
604 640 1.794512 GCGTGGCCATGAAACAAAAT 58.205 45.000 29.54 0.00 0.00 1.82
605 641 1.726248 GCGTGGCCATGAAACAAAATC 59.274 47.619 29.54 3.29 0.00 2.17
613 649 6.110707 GGCCATGAAACAAAATCATCAATCT 58.889 36.000 0.00 0.00 35.38 2.40
626 662 1.533625 TCAATCTCCAAAAGCGTGGG 58.466 50.000 4.55 0.00 39.34 4.61
779 815 4.613622 GCGCGCCATATCATGTTAAGATTT 60.614 41.667 23.24 0.00 0.00 2.17
780 816 5.451908 CGCGCCATATCATGTTAAGATTTT 58.548 37.500 0.00 0.00 0.00 1.82
781 817 5.914635 CGCGCCATATCATGTTAAGATTTTT 59.085 36.000 0.00 0.00 0.00 1.94
873 909 0.307760 CGCAGTGAACCAGTGGAAAC 59.692 55.000 18.40 10.67 35.54 2.78
874 910 1.388547 GCAGTGAACCAGTGGAAACA 58.611 50.000 18.40 9.75 35.54 2.83
875 911 1.956477 GCAGTGAACCAGTGGAAACAT 59.044 47.619 18.40 0.00 46.14 2.71
879 915 5.163754 GCAGTGAACCAGTGGAAACATATAC 60.164 44.000 18.40 3.36 46.14 1.47
896 932 8.921353 AACATATACTAGTACTCCTACTGTGG 57.079 38.462 4.31 0.00 34.79 4.17
897 933 8.043429 ACATATACTAGTACTCCTACTGTGGT 57.957 38.462 4.31 0.00 34.79 4.16
898 934 9.163894 ACATATACTAGTACTCCTACTGTGGTA 57.836 37.037 4.31 0.00 34.79 3.25
899 935 9.656040 CATATACTAGTACTCCTACTGTGGTAG 57.344 40.741 4.31 0.00 43.58 3.18
963 1000 2.301577 CCAGCTTAGGCACACTACTC 57.698 55.000 0.00 0.00 41.70 2.59
966 1006 3.024547 CAGCTTAGGCACACTACTCCTA 58.975 50.000 0.00 0.00 41.70 2.94
969 1009 3.447944 GCTTAGGCACACTACTCCTACTT 59.552 47.826 0.00 0.00 38.54 2.24
997 1046 2.228343 CAGCCAGAGAAGAAGCAAAAGG 59.772 50.000 0.00 0.00 0.00 3.11
998 1047 2.107204 AGCCAGAGAAGAAGCAAAAGGA 59.893 45.455 0.00 0.00 0.00 3.36
999 1048 2.887152 GCCAGAGAAGAAGCAAAAGGAA 59.113 45.455 0.00 0.00 0.00 3.36
1065 1114 3.764466 CTCCTCCTCGCCGCAGTT 61.764 66.667 0.00 0.00 0.00 3.16
1548 1609 1.201429 ACTTCAGCGGTGGAGGGATT 61.201 55.000 25.94 2.77 32.77 3.01
2635 2788 7.223387 GGATCAACAAACTAAATCATTCATGGC 59.777 37.037 0.00 0.00 0.00 4.40
2654 2807 1.802365 GCCGACGATGGTTTACTTTGT 59.198 47.619 0.00 0.00 0.00 2.83
2657 2810 3.364565 CCGACGATGGTTTACTTTGTTGG 60.365 47.826 0.00 0.00 36.40 3.77
2667 2820 7.493367 TGGTTTACTTTGTTGGGTAAAGAATG 58.507 34.615 0.00 0.00 38.18 2.67
2673 2826 4.027674 TGTTGGGTAAAGAATGCTGCTA 57.972 40.909 0.00 0.00 0.00 3.49
2826 2982 3.733337 AGACAGTGTACTTTCCTGCAAG 58.267 45.455 0.00 0.00 0.00 4.01
2833 2989 5.594317 AGTGTACTTTCCTGCAAGAAACAAT 59.406 36.000 6.38 1.38 34.07 2.71
2878 3036 4.576053 TCTTGAGATGTTAATGGCCATTCG 59.424 41.667 33.89 7.37 32.50 3.34
2919 3080 7.881643 TGTGTTATTGTTCATTAATTGCACC 57.118 32.000 0.00 0.00 0.00 5.01
2920 3081 7.436933 TGTGTTATTGTTCATTAATTGCACCA 58.563 30.769 0.00 0.00 0.00 4.17
2921 3082 7.598118 TGTGTTATTGTTCATTAATTGCACCAG 59.402 33.333 0.00 0.00 0.00 4.00
2932 3093 8.673711 TCATTAATTGCACCAGTACTAATTGTC 58.326 33.333 9.76 0.42 0.00 3.18
2969 3130 1.993370 GACCGACCACTCGATTTTCTG 59.007 52.381 0.00 0.00 43.06 3.02
2975 3136 4.376413 CGACCACTCGATTTTCTGTTTCTG 60.376 45.833 0.00 0.00 43.06 3.02
3002 3163 9.856162 TCTTTACTTTTAGGGAAACACTAATGT 57.144 29.630 0.00 0.00 42.46 2.71
3020 3181 1.745864 TTCACACGTGTGGGCGTTT 60.746 52.632 39.88 7.04 45.65 3.60
3023 3184 2.590575 CACGTGTGGGCGTTTCCT 60.591 61.111 7.58 0.00 43.83 3.36
3047 3208 1.805945 GTCCACACGTCTGGATCGC 60.806 63.158 16.00 0.00 42.50 4.58
3111 3273 2.646719 GTGTGCCACGTAGGACGA 59.353 61.111 5.94 0.00 46.05 4.20
3112 3274 1.214589 GTGTGCCACGTAGGACGAT 59.785 57.895 5.94 0.00 46.05 3.73
3207 3370 1.768870 ACTAGTTTCTGCCCACACAGT 59.231 47.619 0.00 0.00 38.84 3.55
3295 3460 0.579630 CAACTGCAGTTACGCGAACA 59.420 50.000 30.67 0.00 40.86 3.18
3328 3495 0.746063 AACACACATGGCAACTGTGG 59.254 50.000 23.90 15.82 46.53 4.17
3483 3651 8.608255 AACTACTGTTTGACCATATGTGGCAAA 61.608 37.037 19.52 19.52 43.12 3.68
3546 3714 6.425721 GCGGCAACTACCATAAATTAGACATA 59.574 38.462 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 0.255890 GGCAGGCAATCAAGGACCTA 59.744 55.000 0.00 0.00 0.00 3.08
19 20 1.000396 GGCAGGCAATCAAGGACCT 60.000 57.895 0.00 0.00 0.00 3.85
20 21 0.899717 TTGGCAGGCAATCAAGGACC 60.900 55.000 5.03 0.00 0.00 4.46
32 33 1.002201 TGGCATTTTCATGTTGGCAGG 59.998 47.619 10.92 0.00 40.50 4.85
63 64 3.733443 AAGGCCAGCTGTTTGTTTTAG 57.267 42.857 13.81 0.00 0.00 1.85
109 110 2.332063 ACACCATCGCCTCCTAATTG 57.668 50.000 0.00 0.00 0.00 2.32
159 160 5.075493 AGGACTTGAGATGTGCAGATTTTT 58.925 37.500 0.00 0.00 0.00 1.94
240 241 3.006752 TGCCAAGCTTTAATGGTTCCTTG 59.993 43.478 0.00 2.29 0.00 3.61
242 243 2.888212 TGCCAAGCTTTAATGGTTCCT 58.112 42.857 0.00 0.00 0.00 3.36
243 244 3.676291 TTGCCAAGCTTTAATGGTTCC 57.324 42.857 0.00 0.00 0.00 3.62
244 245 5.106594 CCAAATTGCCAAGCTTTAATGGTTC 60.107 40.000 0.00 0.00 0.00 3.62
247 248 3.690628 CCCAAATTGCCAAGCTTTAATGG 59.309 43.478 0.00 0.00 0.00 3.16
248 249 4.392754 GTCCCAAATTGCCAAGCTTTAATG 59.607 41.667 0.00 0.00 0.00 1.90
249 250 4.041444 TGTCCCAAATTGCCAAGCTTTAAT 59.959 37.500 0.00 0.00 0.00 1.40
250 251 3.389329 TGTCCCAAATTGCCAAGCTTTAA 59.611 39.130 0.00 0.00 0.00 1.52
251 252 2.968574 TGTCCCAAATTGCCAAGCTTTA 59.031 40.909 0.00 0.00 0.00 1.85
252 253 1.767681 TGTCCCAAATTGCCAAGCTTT 59.232 42.857 0.00 0.00 0.00 3.51
253 254 1.422531 TGTCCCAAATTGCCAAGCTT 58.577 45.000 0.00 0.00 0.00 3.74
254 255 1.345415 CTTGTCCCAAATTGCCAAGCT 59.655 47.619 5.71 0.00 0.00 3.74
256 257 2.364970 TGTCTTGTCCCAAATTGCCAAG 59.635 45.455 10.16 10.16 35.09 3.61
257 258 2.364970 CTGTCTTGTCCCAAATTGCCAA 59.635 45.455 0.00 0.00 0.00 4.52
258 259 1.962807 CTGTCTTGTCCCAAATTGCCA 59.037 47.619 0.00 0.00 0.00 4.92
260 261 1.337167 GCCTGTCTTGTCCCAAATTGC 60.337 52.381 0.00 0.00 0.00 3.56
261 262 1.962807 TGCCTGTCTTGTCCCAAATTG 59.037 47.619 0.00 0.00 0.00 2.32
262 263 1.963515 GTGCCTGTCTTGTCCCAAATT 59.036 47.619 0.00 0.00 0.00 1.82
263 264 1.133513 TGTGCCTGTCTTGTCCCAAAT 60.134 47.619 0.00 0.00 0.00 2.32
265 266 0.465460 GTGTGCCTGTCTTGTCCCAA 60.465 55.000 0.00 0.00 0.00 4.12
266 267 1.148273 GTGTGCCTGTCTTGTCCCA 59.852 57.895 0.00 0.00 0.00 4.37
267 268 0.465460 TTGTGTGCCTGTCTTGTCCC 60.465 55.000 0.00 0.00 0.00 4.46
268 269 0.663153 GTTGTGTGCCTGTCTTGTCC 59.337 55.000 0.00 0.00 0.00 4.02
269 270 1.378531 TGTTGTGTGCCTGTCTTGTC 58.621 50.000 0.00 0.00 0.00 3.18
270 271 1.832883 TTGTTGTGTGCCTGTCTTGT 58.167 45.000 0.00 0.00 0.00 3.16
271 272 2.164219 AGTTTGTTGTGTGCCTGTCTTG 59.836 45.455 0.00 0.00 0.00 3.02
275 276 1.544724 ACAGTTTGTTGTGTGCCTGT 58.455 45.000 0.00 0.00 0.00 4.00
276 277 2.652941 AACAGTTTGTTGTGTGCCTG 57.347 45.000 0.00 0.00 39.45 4.85
277 278 3.761752 ACTAAACAGTTTGTTGTGTGCCT 59.238 39.130 8.93 0.00 40.14 4.75
278 279 4.104696 ACTAAACAGTTTGTTGTGTGCC 57.895 40.909 8.93 0.00 40.14 5.01
279 280 5.875930 AGTACTAAACAGTTTGTTGTGTGC 58.124 37.500 8.93 4.04 40.14 4.57
280 281 8.193250 AGTAGTACTAAACAGTTTGTTGTGTG 57.807 34.615 8.93 0.00 40.14 3.82
281 282 9.305925 GTAGTAGTACTAAACAGTTTGTTGTGT 57.694 33.333 11.64 3.02 40.14 3.72
282 283 9.304731 TGTAGTAGTACTAAACAGTTTGTTGTG 57.695 33.333 11.64 0.00 40.14 3.33
283 284 9.874205 TTGTAGTAGTACTAAACAGTTTGTTGT 57.126 29.630 11.64 7.43 40.14 3.32
285 286 9.317936 GGTTGTAGTAGTACTAAACAGTTTGTT 57.682 33.333 22.67 0.00 43.41 2.83
287 288 9.189723 GAGGTTGTAGTAGTACTAAACAGTTTG 57.810 37.037 22.67 1.82 31.62 2.93
288 289 8.078596 CGAGGTTGTAGTAGTACTAAACAGTTT 58.921 37.037 22.67 3.49 31.62 2.66
289 290 7.308830 CCGAGGTTGTAGTAGTACTAAACAGTT 60.309 40.741 22.67 14.49 31.62 3.16
290 291 6.150140 CCGAGGTTGTAGTAGTACTAAACAGT 59.850 42.308 22.67 15.49 31.62 3.55
291 292 6.150140 ACCGAGGTTGTAGTAGTACTAAACAG 59.850 42.308 22.67 16.97 31.62 3.16
293 294 6.502136 ACCGAGGTTGTAGTAGTACTAAAC 57.498 41.667 11.64 15.66 31.62 2.01
294 295 5.351465 CGACCGAGGTTGTAGTAGTACTAAA 59.649 44.000 11.64 3.72 31.62 1.85
295 296 4.870426 CGACCGAGGTTGTAGTAGTACTAA 59.130 45.833 11.64 0.00 31.62 2.24
297 298 3.265791 CGACCGAGGTTGTAGTAGTACT 58.734 50.000 8.14 8.14 0.00 2.73
298 299 3.003480 ACGACCGAGGTTGTAGTAGTAC 58.997 50.000 13.21 0.37 40.64 2.73
299 300 3.002791 CACGACCGAGGTTGTAGTAGTA 58.997 50.000 14.32 0.00 40.47 1.82
300 301 1.808945 CACGACCGAGGTTGTAGTAGT 59.191 52.381 14.32 0.00 40.47 2.73
302 303 1.167851 CCACGACCGAGGTTGTAGTA 58.832 55.000 14.32 0.00 40.47 1.82
303 304 0.538057 TCCACGACCGAGGTTGTAGT 60.538 55.000 14.32 1.99 40.47 2.73
304 305 0.599558 TTCCACGACCGAGGTTGTAG 59.400 55.000 14.32 8.15 40.47 2.74
305 306 0.599558 CTTCCACGACCGAGGTTGTA 59.400 55.000 14.32 0.00 40.47 2.41
306 307 1.111116 TCTTCCACGACCGAGGTTGT 61.111 55.000 9.29 9.29 42.97 3.32
308 309 0.317479 CTTCTTCCACGACCGAGGTT 59.683 55.000 5.84 0.00 0.00 3.50
310 311 0.171455 CTCTTCTTCCACGACCGAGG 59.829 60.000 0.00 0.00 0.00 4.63
312 313 0.596577 CACTCTTCTTCCACGACCGA 59.403 55.000 0.00 0.00 0.00 4.69
313 314 0.596577 TCACTCTTCTTCCACGACCG 59.403 55.000 0.00 0.00 0.00 4.79
315 316 2.678324 CCTTCACTCTTCTTCCACGAC 58.322 52.381 0.00 0.00 0.00 4.34
316 317 1.000955 GCCTTCACTCTTCTTCCACGA 59.999 52.381 0.00 0.00 0.00 4.35
317 318 1.001406 AGCCTTCACTCTTCTTCCACG 59.999 52.381 0.00 0.00 0.00 4.94
318 319 2.037772 TCAGCCTTCACTCTTCTTCCAC 59.962 50.000 0.00 0.00 0.00 4.02
319 320 2.301296 CTCAGCCTTCACTCTTCTTCCA 59.699 50.000 0.00 0.00 0.00 3.53
320 321 2.934801 GCTCAGCCTTCACTCTTCTTCC 60.935 54.545 0.00 0.00 0.00 3.46
321 322 2.345876 GCTCAGCCTTCACTCTTCTTC 58.654 52.381 0.00 0.00 0.00 2.87
322 323 1.337635 CGCTCAGCCTTCACTCTTCTT 60.338 52.381 0.00 0.00 0.00 2.52
323 324 0.246086 CGCTCAGCCTTCACTCTTCT 59.754 55.000 0.00 0.00 0.00 2.85
325 326 0.901124 ATCGCTCAGCCTTCACTCTT 59.099 50.000 0.00 0.00 0.00 2.85
326 327 0.175302 CATCGCTCAGCCTTCACTCT 59.825 55.000 0.00 0.00 0.00 3.24
327 328 0.108424 ACATCGCTCAGCCTTCACTC 60.108 55.000 0.00 0.00 0.00 3.51
328 329 0.108424 GACATCGCTCAGCCTTCACT 60.108 55.000 0.00 0.00 0.00 3.41
329 330 0.108424 AGACATCGCTCAGCCTTCAC 60.108 55.000 0.00 0.00 0.00 3.18
330 331 1.474330 TAGACATCGCTCAGCCTTCA 58.526 50.000 0.00 0.00 0.00 3.02
331 332 2.035193 TCATAGACATCGCTCAGCCTTC 59.965 50.000 0.00 0.00 0.00 3.46
332 333 2.034878 TCATAGACATCGCTCAGCCTT 58.965 47.619 0.00 0.00 0.00 4.35
333 334 1.697284 TCATAGACATCGCTCAGCCT 58.303 50.000 0.00 0.00 0.00 4.58
334 335 2.515926 TTCATAGACATCGCTCAGCC 57.484 50.000 0.00 0.00 0.00 4.85
335 336 2.541762 GGTTTCATAGACATCGCTCAGC 59.458 50.000 0.00 0.00 0.00 4.26
336 337 4.052159 AGGTTTCATAGACATCGCTCAG 57.948 45.455 0.00 0.00 0.00 3.35
337 338 5.592054 CTTAGGTTTCATAGACATCGCTCA 58.408 41.667 0.00 0.00 0.00 4.26
338 339 4.446051 GCTTAGGTTTCATAGACATCGCTC 59.554 45.833 0.00 0.00 0.00 5.03
339 340 4.372656 GCTTAGGTTTCATAGACATCGCT 58.627 43.478 0.00 0.00 0.00 4.93
340 341 3.495001 GGCTTAGGTTTCATAGACATCGC 59.505 47.826 0.00 0.00 0.00 4.58
341 342 4.508124 GTGGCTTAGGTTTCATAGACATCG 59.492 45.833 0.00 0.00 0.00 3.84
342 343 5.428253 TGTGGCTTAGGTTTCATAGACATC 58.572 41.667 0.00 0.00 0.00 3.06
345 346 4.395231 GGTTGTGGCTTAGGTTTCATAGAC 59.605 45.833 0.00 0.00 0.00 2.59
347 348 4.331968 TGGTTGTGGCTTAGGTTTCATAG 58.668 43.478 0.00 0.00 0.00 2.23
348 349 4.374689 TGGTTGTGGCTTAGGTTTCATA 57.625 40.909 0.00 0.00 0.00 2.15
349 350 3.237268 TGGTTGTGGCTTAGGTTTCAT 57.763 42.857 0.00 0.00 0.00 2.57
351 352 4.394439 TTTTGGTTGTGGCTTAGGTTTC 57.606 40.909 0.00 0.00 0.00 2.78
352 353 5.130311 AGAATTTTGGTTGTGGCTTAGGTTT 59.870 36.000 0.00 0.00 0.00 3.27
353 354 4.653801 AGAATTTTGGTTGTGGCTTAGGTT 59.346 37.500 0.00 0.00 0.00 3.50
354 355 4.039124 CAGAATTTTGGTTGTGGCTTAGGT 59.961 41.667 0.00 0.00 0.00 3.08
355 356 4.039124 ACAGAATTTTGGTTGTGGCTTAGG 59.961 41.667 0.57 0.00 0.00 2.69
356 357 5.200368 ACAGAATTTTGGTTGTGGCTTAG 57.800 39.130 0.57 0.00 0.00 2.18
357 358 4.646945 TGACAGAATTTTGGTTGTGGCTTA 59.353 37.500 0.57 0.00 31.98 3.09
358 359 3.450457 TGACAGAATTTTGGTTGTGGCTT 59.550 39.130 0.57 0.00 31.98 4.35
359 360 3.030291 TGACAGAATTTTGGTTGTGGCT 58.970 40.909 0.57 0.00 31.98 4.75
360 361 3.123050 GTGACAGAATTTTGGTTGTGGC 58.877 45.455 0.57 0.00 31.39 5.01
361 362 3.371168 CGTGACAGAATTTTGGTTGTGG 58.629 45.455 0.57 0.00 0.00 4.17
362 363 2.788786 GCGTGACAGAATTTTGGTTGTG 59.211 45.455 0.57 0.00 0.00 3.33
363 364 2.540769 CGCGTGACAGAATTTTGGTTGT 60.541 45.455 0.00 0.00 0.00 3.32
382 383 3.279434 AGTTGGATAATGAGGAAACCGC 58.721 45.455 0.00 0.00 0.00 5.68
384 385 4.514401 ACGAGTTGGATAATGAGGAAACC 58.486 43.478 0.00 0.00 0.00 3.27
385 386 6.496338 AAACGAGTTGGATAATGAGGAAAC 57.504 37.500 0.00 0.00 0.00 2.78
416 417 7.096558 GCTATCAATAAGGACGTTTCTTCTACG 60.097 40.741 8.11 0.00 44.20 3.51
417 418 7.921745 AGCTATCAATAAGGACGTTTCTTCTAC 59.078 37.037 8.11 0.00 0.00 2.59
418 419 7.921214 CAGCTATCAATAAGGACGTTTCTTCTA 59.079 37.037 8.11 0.00 0.00 2.10
419 420 6.758886 CAGCTATCAATAAGGACGTTTCTTCT 59.241 38.462 8.11 0.00 0.00 2.85
423 436 4.570772 TGCAGCTATCAATAAGGACGTTTC 59.429 41.667 0.00 0.00 0.00 2.78
458 471 1.660607 GACGGTGACACATGCTACATG 59.339 52.381 8.08 6.03 0.00 3.21
460 473 0.676736 TGACGGTGACACATGCTACA 59.323 50.000 8.08 0.00 0.00 2.74
461 474 1.790755 TTGACGGTGACACATGCTAC 58.209 50.000 8.08 0.00 0.00 3.58
482 501 1.502163 CCCGAGCAAGATTCATCCGC 61.502 60.000 0.00 0.00 0.00 5.54
498 518 3.027170 GCACGCTGAATGTGACCCG 62.027 63.158 0.00 0.00 39.73 5.28
526 550 2.748605 CGATCTCCAAGCATACTCCAC 58.251 52.381 0.00 0.00 0.00 4.02
541 565 0.178975 TGGTTTGGTTTGGGCGATCT 60.179 50.000 0.00 0.00 0.00 2.75
561 585 2.478894 CGGCAGTTCACAACGACTAAAT 59.521 45.455 0.00 0.00 36.23 1.40
603 639 3.379372 CCACGCTTTTGGAGATTGATGAT 59.621 43.478 0.00 0.00 39.24 2.45
604 640 2.749076 CCACGCTTTTGGAGATTGATGA 59.251 45.455 0.00 0.00 39.24 2.92
605 641 2.159338 CCCACGCTTTTGGAGATTGATG 60.159 50.000 0.00 0.00 39.24 3.07
613 649 2.281208 CCGACCCACGCTTTTGGA 60.281 61.111 0.00 0.00 39.24 3.53
626 662 1.733399 GACGCCTCAACTGACCGAC 60.733 63.158 0.00 0.00 0.00 4.79
781 817 9.453572 TCGATTCTACTGGTTAGTTAGTTTCTA 57.546 33.333 0.00 0.00 38.36 2.10
873 909 9.656040 CTACCACAGTAGGAGTACTAGTATATG 57.344 40.741 5.75 1.08 42.05 1.78
896 932 3.008330 TCTGCTCGAACACTACTCCTAC 58.992 50.000 0.00 0.00 0.00 3.18
897 933 3.271729 CTCTGCTCGAACACTACTCCTA 58.728 50.000 0.00 0.00 0.00 2.94
898 934 2.088423 CTCTGCTCGAACACTACTCCT 58.912 52.381 0.00 0.00 0.00 3.69
899 935 1.468395 GCTCTGCTCGAACACTACTCC 60.468 57.143 0.00 0.00 0.00 3.85
900 936 1.200252 TGCTCTGCTCGAACACTACTC 59.800 52.381 0.00 0.00 0.00 2.59
901 937 1.201181 CTGCTCTGCTCGAACACTACT 59.799 52.381 0.00 0.00 0.00 2.57
944 981 1.134670 GGAGTAGTGTGCCTAAGCTGG 60.135 57.143 0.00 0.00 40.80 4.85
948 985 5.419471 AGAAAGTAGGAGTAGTGTGCCTAAG 59.581 44.000 0.00 0.00 36.14 2.18
950 987 4.931914 AGAAAGTAGGAGTAGTGTGCCTA 58.068 43.478 0.00 0.00 33.28 3.93
959 996 4.350245 TGGCTGCTAAGAAAGTAGGAGTA 58.650 43.478 0.00 0.00 40.60 2.59
960 997 3.173965 TGGCTGCTAAGAAAGTAGGAGT 58.826 45.455 0.00 0.00 40.60 3.85
961 998 3.449018 TCTGGCTGCTAAGAAAGTAGGAG 59.551 47.826 0.00 0.00 41.23 3.69
962 999 3.441101 TCTGGCTGCTAAGAAAGTAGGA 58.559 45.455 0.00 0.00 38.31 2.94
963 1000 3.449018 TCTCTGGCTGCTAAGAAAGTAGG 59.551 47.826 0.00 0.00 38.31 3.18
966 1006 3.580458 TCTTCTCTGGCTGCTAAGAAAGT 59.420 43.478 0.00 0.00 0.00 2.66
969 1009 3.618507 GCTTCTTCTCTGGCTGCTAAGAA 60.619 47.826 15.08 15.08 35.49 2.52
1057 1106 2.409870 CCATGGAAGGAACTGCGGC 61.410 63.158 5.56 0.00 40.86 6.53
1059 1108 2.409870 GGCCATGGAAGGAACTGCG 61.410 63.158 18.40 0.00 40.86 5.18
1065 1114 1.694169 GGAGGAGGCCATGGAAGGA 60.694 63.158 18.40 0.00 0.00 3.36
2505 2646 2.571653 CCTGAAGTAGTTGGTGGGATCA 59.428 50.000 0.00 0.00 0.00 2.92
2578 2726 2.912025 CCTTGGCGTGCAACCCTT 60.912 61.111 4.63 0.00 0.00 3.95
2635 2788 3.364565 CCAACAAAGTAAACCATCGTCGG 60.365 47.826 0.00 0.00 0.00 4.79
2654 2807 4.009675 CAGTAGCAGCATTCTTTACCCAA 58.990 43.478 0.00 0.00 0.00 4.12
2657 2810 4.253685 TGACAGTAGCAGCATTCTTTACC 58.746 43.478 0.00 0.00 0.00 2.85
2667 2820 3.372206 CCAATACAACTGACAGTAGCAGC 59.628 47.826 8.91 0.00 36.86 5.25
2673 2826 5.241403 TCCAATCCAATACAACTGACAGT 57.759 39.130 1.07 1.07 0.00 3.55
2826 2982 2.031157 CACCCTCACCGACAATTGTTTC 60.031 50.000 13.36 0.00 0.00 2.78
2833 2989 0.034756 CATCACACCCTCACCGACAA 59.965 55.000 0.00 0.00 0.00 3.18
2878 3036 0.591170 ACAAACACGCTACATGCCAC 59.409 50.000 0.00 0.00 38.78 5.01
2947 3108 0.389426 AAAATCGAGTGGTCGGTCGG 60.389 55.000 0.00 0.00 46.80 4.79
2969 3130 8.680001 TGTTTCCCTAAAAGTAAAGACAGAAAC 58.320 33.333 0.00 0.00 39.65 2.78
3047 3208 1.594518 CGTGCAAAAGACAGTGAACGG 60.595 52.381 0.00 0.00 42.08 4.44
3111 3273 3.790416 AACGCCCACACACCAGCAT 62.790 57.895 0.00 0.00 0.00 3.79
3112 3274 4.497984 AACGCCCACACACCAGCA 62.498 61.111 0.00 0.00 0.00 4.41
3207 3370 0.391130 GCGCATGAACTAGGTGGTGA 60.391 55.000 0.30 0.00 0.00 4.02
3295 3460 4.093472 TGTGTGTTTACCTAGTTGCCAT 57.907 40.909 0.00 0.00 0.00 4.40
3483 3651 4.575885 AGTTGCCGTGTGTGATTAACTAT 58.424 39.130 0.00 0.00 0.00 2.12
3546 3714 8.863872 ATCTGTTTTGGTTAACTATAGTTGCT 57.136 30.769 25.27 4.67 38.90 3.91


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

AutoCloner maintained by Alex Coulton.