Multiple sequence alignment - TraesCS2A01G437200

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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 TraesCS2A01G437200 chr2A 100.000 3422 0 0 1 3422 688974404 688970983 0.000000e+00 6320
1 TraesCS2A01G437200 chr2A 90.566 106 8 2 2774 2878 361381715 361381611 4.600000e-29 139
2 TraesCS2A01G437200 chr2B 90.691 2707 127 39 794 3422 650789396 650792055 0.000000e+00 3487
3 TraesCS2A01G437200 chr2B 85.882 425 16 14 397 778 650788926 650789349 2.460000e-111 412
4 TraesCS2A01G437200 chr2B 86.392 316 13 8 1 314 650788640 650788927 5.510000e-83 318
5 TraesCS2A01G437200 chr2B 87.805 123 11 4 280 401 773804020 773803901 1.280000e-29 141
6 TraesCS2A01G437200 chr2D 91.921 2426 114 31 397 2752 544780509 544782922 0.000000e+00 3319
7 TraesCS2A01G437200 chr2D 94.066 573 16 7 2868 3422 544782973 544783545 0.000000e+00 854
8 TraesCS2A01G437200 chr2D 89.815 216 14 3 1 215 544780237 544780445 1.570000e-68 270
9 TraesCS2A01G437200 chr2D 97.895 95 1 1 2780 2873 462248519 462248613 2.730000e-36 163
10 TraesCS2A01G437200 chr2D 94.737 95 5 0 305 399 367218091 367218185 7.650000e-32 148
11 TraesCS2A01G437200 chr4A 98.947 95 0 1 2785 2878 605008638 605008732 5.870000e-38 169
12 TraesCS2A01G437200 chr4A 96.667 90 3 0 309 398 38740534 38740445 2.130000e-32 150
13 TraesCS2A01G437200 chr1A 96.907 97 3 0 2781 2877 366288301 366288205 2.730000e-36 163
14 TraesCS2A01G437200 chr1A 91.379 116 5 3 2769 2881 161088453 161088566 1.640000e-33 154
15 TraesCS2A01G437200 chr1A 95.789 95 2 2 305 398 532441291 532441198 5.910000e-33 152
16 TraesCS2A01G437200 chr1A 90.654 107 8 2 311 417 237509491 237509595 1.280000e-29 141
17 TraesCS2A01G437200 chr1B 95.960 99 4 0 2774 2872 490725853 490725755 9.830000e-36 161
18 TraesCS2A01G437200 chr1B 93.204 103 7 0 2775 2877 577654999 577654897 5.910000e-33 152
19 TraesCS2A01G437200 chr7A 94.175 103 6 0 2775 2877 495549492 495549594 1.270000e-34 158
20 TraesCS2A01G437200 chr1D 92.661 109 5 3 2774 2881 447863711 447863817 1.640000e-33 154
21 TraesCS2A01G437200 chr4B 94.000 100 5 1 299 398 433617360 433617262 2.130000e-32 150
22 TraesCS2A01G437200 chr6D 91.589 107 8 1 301 406 136466294 136466400 2.750000e-31 147
23 TraesCS2A01G437200 chr7B 93.000 100 5 1 310 409 534830144 534830241 9.900000e-31 145
24 TraesCS2A01G437200 chr3B 95.604 91 3 1 308 398 29377103 29377014 9.900000e-31 145


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 TraesCS2A01G437200 chr2A 688970983 688974404 3421 True 6320.000000 6320 100.000 1 3422 1 chr2A.!!$R2 3421
1 TraesCS2A01G437200 chr2B 650788640 650792055 3415 False 1405.666667 3487 87.655 1 3422 3 chr2B.!!$F1 3421
2 TraesCS2A01G437200 chr2D 544780237 544783545 3308 False 1481.000000 3319 91.934 1 3422 3 chr2D.!!$F3 3421

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
237 239 0.036671 GTAGCACCAGTACCACCACC 60.037 60.0 0.00 0.0 0.0 4.61 F
813 891 0.249531 TTTGCTGCTGAACCGTACGA 60.250 50.0 18.76 0.0 0.0 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1743 1856 0.179000 CCATTACCTCTTCGCTGCCT 59.821 55.0 0.0 0.0 0.0 4.75 R
2717 2848 0.035056 CCGGCACCCTTTGAAGAGAT 60.035 55.0 0.0 0.0 0.0 2.75 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 3.801307 ACCCAACGATTTCCTACCTTT 57.199 42.857 0.00 0.00 0.00 3.11
125 127 1.005867 CCATGGCACCAAGTGTTGC 60.006 57.895 0.00 0.00 35.75 4.17
222 224 4.113354 CCTTTCGGTTCAGATACAGTAGC 58.887 47.826 0.00 0.00 0.00 3.58
224 226 3.777465 TCGGTTCAGATACAGTAGCAC 57.223 47.619 0.00 0.00 0.00 4.40
225 227 2.426024 TCGGTTCAGATACAGTAGCACC 59.574 50.000 0.00 0.00 0.00 5.01
226 228 2.165641 CGGTTCAGATACAGTAGCACCA 59.834 50.000 0.00 0.00 0.00 4.17
227 229 3.735208 CGGTTCAGATACAGTAGCACCAG 60.735 52.174 0.00 0.00 0.00 4.00
228 230 3.195825 GGTTCAGATACAGTAGCACCAGT 59.804 47.826 0.00 0.00 0.00 4.00
229 231 4.401519 GGTTCAGATACAGTAGCACCAGTA 59.598 45.833 0.00 0.00 0.00 2.74
230 232 5.341617 GTTCAGATACAGTAGCACCAGTAC 58.658 45.833 0.00 0.00 0.00 2.73
231 233 3.952323 TCAGATACAGTAGCACCAGTACC 59.048 47.826 0.00 0.00 0.00 3.34
232 234 3.699538 CAGATACAGTAGCACCAGTACCA 59.300 47.826 0.00 0.00 0.00 3.25
233 235 3.700038 AGATACAGTAGCACCAGTACCAC 59.300 47.826 0.00 0.00 0.00 4.16
234 236 0.974383 ACAGTAGCACCAGTACCACC 59.026 55.000 0.00 0.00 0.00 4.61
235 237 0.973632 CAGTAGCACCAGTACCACCA 59.026 55.000 0.00 0.00 0.00 4.17
236 238 0.974383 AGTAGCACCAGTACCACCAC 59.026 55.000 0.00 0.00 0.00 4.16
237 239 0.036671 GTAGCACCAGTACCACCACC 60.037 60.000 0.00 0.00 0.00 4.61
238 240 1.537814 TAGCACCAGTACCACCACCG 61.538 60.000 0.00 0.00 0.00 4.94
239 241 2.358247 CACCAGTACCACCACCGC 60.358 66.667 0.00 0.00 0.00 5.68
240 242 3.633116 ACCAGTACCACCACCGCC 61.633 66.667 0.00 0.00 0.00 6.13
241 243 4.752879 CCAGTACCACCACCGCCG 62.753 72.222 0.00 0.00 0.00 6.46
303 305 4.566987 ACCTCACAGAAAAACCGATACTC 58.433 43.478 0.00 0.00 0.00 2.59
308 311 5.244402 TCACAGAAAAACCGATACTCCTACA 59.756 40.000 0.00 0.00 0.00 2.74
309 312 6.070995 TCACAGAAAAACCGATACTCCTACAT 60.071 38.462 0.00 0.00 0.00 2.29
310 313 7.123098 TCACAGAAAAACCGATACTCCTACATA 59.877 37.037 0.00 0.00 0.00 2.29
311 314 7.222224 CACAGAAAAACCGATACTCCTACATAC 59.778 40.741 0.00 0.00 0.00 2.39
312 315 7.123847 ACAGAAAAACCGATACTCCTACATACT 59.876 37.037 0.00 0.00 0.00 2.12
313 316 8.627403 CAGAAAAACCGATACTCCTACATACTA 58.373 37.037 0.00 0.00 0.00 1.82
314 317 8.628280 AGAAAAACCGATACTCCTACATACTAC 58.372 37.037 0.00 0.00 0.00 2.73
315 318 8.530804 AAAAACCGATACTCCTACATACTACT 57.469 34.615 0.00 0.00 0.00 2.57
316 319 7.742556 AAACCGATACTCCTACATACTACTC 57.257 40.000 0.00 0.00 0.00 2.59
317 320 5.803552 ACCGATACTCCTACATACTACTCC 58.196 45.833 0.00 0.00 0.00 3.85
318 321 5.184711 CCGATACTCCTACATACTACTCCC 58.815 50.000 0.00 0.00 0.00 4.30
319 322 5.045724 CCGATACTCCTACATACTACTCCCT 60.046 48.000 0.00 0.00 0.00 4.20
320 323 6.108015 CGATACTCCTACATACTACTCCCTC 58.892 48.000 0.00 0.00 0.00 4.30
321 324 6.070653 CGATACTCCTACATACTACTCCCTCT 60.071 46.154 0.00 0.00 0.00 3.69
322 325 5.313280 ACTCCTACATACTACTCCCTCTG 57.687 47.826 0.00 0.00 0.00 3.35
323 326 4.727841 ACTCCTACATACTACTCCCTCTGT 59.272 45.833 0.00 0.00 0.00 3.41
324 327 5.194132 ACTCCTACATACTACTCCCTCTGTT 59.806 44.000 0.00 0.00 0.00 3.16
325 328 5.692928 TCCTACATACTACTCCCTCTGTTC 58.307 45.833 0.00 0.00 0.00 3.18
326 329 4.828387 CCTACATACTACTCCCTCTGTTCC 59.172 50.000 0.00 0.00 0.00 3.62
327 330 4.332683 ACATACTACTCCCTCTGTTCCA 57.667 45.455 0.00 0.00 0.00 3.53
328 331 4.684724 ACATACTACTCCCTCTGTTCCAA 58.315 43.478 0.00 0.00 0.00 3.53
329 332 5.091552 ACATACTACTCCCTCTGTTCCAAA 58.908 41.667 0.00 0.00 0.00 3.28
330 333 5.546499 ACATACTACTCCCTCTGTTCCAAAA 59.454 40.000 0.00 0.00 0.00 2.44
331 334 6.215636 ACATACTACTCCCTCTGTTCCAAAAT 59.784 38.462 0.00 0.00 0.00 1.82
332 335 7.402071 ACATACTACTCCCTCTGTTCCAAAATA 59.598 37.037 0.00 0.00 0.00 1.40
333 336 6.301169 ACTACTCCCTCTGTTCCAAAATAG 57.699 41.667 0.00 0.00 0.00 1.73
334 337 6.023603 ACTACTCCCTCTGTTCCAAAATAGA 58.976 40.000 0.00 0.00 32.42 1.98
335 338 6.674419 ACTACTCCCTCTGTTCCAAAATAGAT 59.326 38.462 0.00 0.00 32.88 1.98
336 339 5.749462 ACTCCCTCTGTTCCAAAATAGATG 58.251 41.667 0.00 0.00 32.88 2.90
337 340 5.488919 ACTCCCTCTGTTCCAAAATAGATGA 59.511 40.000 0.00 0.00 32.88 2.92
338 341 5.745227 TCCCTCTGTTCCAAAATAGATGAC 58.255 41.667 0.00 0.00 32.88 3.06
339 342 4.884164 CCCTCTGTTCCAAAATAGATGACC 59.116 45.833 0.00 0.00 32.88 4.02
340 343 4.884164 CCTCTGTTCCAAAATAGATGACCC 59.116 45.833 0.00 0.00 32.88 4.46
341 344 5.500234 CTCTGTTCCAAAATAGATGACCCA 58.500 41.667 0.00 0.00 32.88 4.51
342 345 5.886609 TCTGTTCCAAAATAGATGACCCAA 58.113 37.500 0.00 0.00 28.72 4.12
343 346 6.493166 TCTGTTCCAAAATAGATGACCCAAT 58.507 36.000 0.00 0.00 28.72 3.16
344 347 6.953520 TCTGTTCCAAAATAGATGACCCAATT 59.046 34.615 0.00 0.00 28.72 2.32
345 348 7.454380 TCTGTTCCAAAATAGATGACCCAATTT 59.546 33.333 0.00 0.00 28.72 1.82
346 349 7.972301 TGTTCCAAAATAGATGACCCAATTTT 58.028 30.769 0.00 0.00 33.07 1.82
347 350 7.877097 TGTTCCAAAATAGATGACCCAATTTTG 59.123 33.333 10.80 10.80 43.77 2.44
348 351 7.552050 TCCAAAATAGATGACCCAATTTTGT 57.448 32.000 14.67 0.00 43.14 2.83
349 352 7.385267 TCCAAAATAGATGACCCAATTTTGTG 58.615 34.615 14.67 8.81 43.14 3.33
350 353 6.092533 CCAAAATAGATGACCCAATTTTGTGC 59.907 38.462 14.67 0.00 43.14 4.57
351 354 6.610075 AAATAGATGACCCAATTTTGTGCT 57.390 33.333 0.00 0.00 0.00 4.40
352 355 7.716799 AAATAGATGACCCAATTTTGTGCTA 57.283 32.000 0.00 0.00 0.00 3.49
353 356 7.716799 AATAGATGACCCAATTTTGTGCTAA 57.283 32.000 0.00 0.00 0.00 3.09
354 357 7.716799 ATAGATGACCCAATTTTGTGCTAAA 57.283 32.000 0.00 0.00 0.00 1.85
355 358 6.029346 AGATGACCCAATTTTGTGCTAAAG 57.971 37.500 0.00 0.00 0.00 1.85
356 359 5.539955 AGATGACCCAATTTTGTGCTAAAGT 59.460 36.000 0.00 0.00 0.00 2.66
357 360 5.606348 TGACCCAATTTTGTGCTAAAGTT 57.394 34.783 0.00 0.00 0.00 2.66
358 361 6.716934 TGACCCAATTTTGTGCTAAAGTTA 57.283 33.333 0.00 0.00 0.00 2.24
359 362 6.744112 TGACCCAATTTTGTGCTAAAGTTAG 58.256 36.000 0.00 0.00 0.00 2.34
360 363 6.322712 TGACCCAATTTTGTGCTAAAGTTAGT 59.677 34.615 0.32 0.00 33.32 2.24
361 364 7.502895 TGACCCAATTTTGTGCTAAAGTTAGTA 59.497 33.333 0.32 0.00 33.32 1.82
362 365 8.417273 ACCCAATTTTGTGCTAAAGTTAGTAT 57.583 30.769 0.32 0.00 33.32 2.12
363 366 9.523168 ACCCAATTTTGTGCTAAAGTTAGTATA 57.477 29.630 0.32 0.00 33.32 1.47
371 374 8.556213 TGTGCTAAAGTTAGTATAAAGTTGGG 57.444 34.615 0.32 0.00 33.32 4.12
372 375 8.158789 TGTGCTAAAGTTAGTATAAAGTTGGGT 58.841 33.333 0.32 0.00 33.32 4.51
373 376 8.663025 GTGCTAAAGTTAGTATAAAGTTGGGTC 58.337 37.037 0.32 0.00 33.32 4.46
374 377 8.377034 TGCTAAAGTTAGTATAAAGTTGGGTCA 58.623 33.333 0.32 0.00 33.32 4.02
375 378 9.392259 GCTAAAGTTAGTATAAAGTTGGGTCAT 57.608 33.333 0.32 0.00 33.32 3.06
384 387 9.408648 AGTATAAAGTTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 0.00 3.28
385 388 9.403583 GTATAAAGTTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
386 389 8.893563 ATAAAGTTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
387 390 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
388 391 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
389 392 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
390 393 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
391 394 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
392 395 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
393 396 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
394 397 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
395 398 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
445 448 3.439129 GGAGATGGTTTTAACGTGAAGGG 59.561 47.826 0.00 0.00 0.00 3.95
532 536 1.466167 CTTCATTTGGTCGAGGCACAG 59.534 52.381 0.00 0.00 0.00 3.66
629 633 1.587547 GCACCTAGCCAATACAGCTC 58.412 55.000 0.00 0.00 41.83 4.09
630 634 1.134401 GCACCTAGCCAATACAGCTCA 60.134 52.381 0.00 0.00 41.83 4.26
632 636 3.136763 CACCTAGCCAATACAGCTCATG 58.863 50.000 0.00 0.00 41.83 3.07
712 750 3.697045 CCACCACACCTAACTGAAACAAA 59.303 43.478 0.00 0.00 0.00 2.83
713 751 4.158764 CCACCACACCTAACTGAAACAAAA 59.841 41.667 0.00 0.00 0.00 2.44
747 794 9.090692 GTTATATAGTACGTGTTCATGTTGGTT 57.909 33.333 0.00 0.00 0.00 3.67
755 802 1.136169 GTTCATGTTGGTTCCGTACGC 60.136 52.381 10.49 0.00 0.00 4.42
782 840 6.763715 TTCAGTTATTAGTCATATGCCCCT 57.236 37.500 0.00 0.00 0.00 4.79
792 850 2.563620 TCATATGCCCCTTATTACGCGA 59.436 45.455 15.93 0.00 0.00 5.87
804 882 0.598942 TTACGCGACTTTGCTGCTGA 60.599 50.000 15.93 0.00 0.00 4.26
805 883 0.598942 TACGCGACTTTGCTGCTGAA 60.599 50.000 15.93 0.00 0.00 3.02
806 884 1.439365 CGCGACTTTGCTGCTGAAC 60.439 57.895 0.00 0.00 0.00 3.18
813 891 0.249531 TTTGCTGCTGAACCGTACGA 60.250 50.000 18.76 0.00 0.00 3.43
822 900 3.427233 GCTGAACCGTACGAACAGTATCT 60.427 47.826 18.76 0.00 37.69 1.98
915 993 7.445402 TGTTCAGAATCTTTCTTTTCTAGGTGG 59.555 37.037 0.00 0.00 38.11 4.61
985 1086 6.479006 TGATTTTCAGTCTCAGGTGATCATT 58.521 36.000 0.00 0.00 0.00 2.57
1083 1184 1.830477 CTTCTCTTCAGGGAGGACAGG 59.170 57.143 0.00 0.00 34.39 4.00
1180 1281 1.181098 AATGCACAGCCACAGGGAAC 61.181 55.000 0.00 0.00 35.59 3.62
1240 1350 1.059913 ACCTGTCAGGAAACCTCCAG 58.940 55.000 26.18 0.00 45.24 3.86
1359 1469 2.028484 GACAGGGTGAACGCGTCA 59.972 61.111 14.44 9.96 34.86 4.35
1407 1517 1.439228 CAGCCCATCGTCATCGTCT 59.561 57.895 0.00 0.00 38.33 4.18
1656 1769 2.045885 AGGGTTCATCTCTGGGTTCCTA 59.954 50.000 0.00 0.00 0.00 2.94
1659 1772 2.501723 GTTCATCTCTGGGTTCCTAGCA 59.498 50.000 0.00 0.00 0.00 3.49
1789 1912 2.007608 CTGTCACTCACTGCATCATGG 58.992 52.381 0.00 0.00 0.00 3.66
1826 1949 7.712797 ACTCGGAGAATTTTACAAACAATGTT 58.287 30.769 12.86 0.00 39.00 2.71
1928 2051 0.030369 CGGCATGTCCTACGAGGTAC 59.970 60.000 0.00 0.00 36.53 3.34
1941 2064 3.215151 ACGAGGTACGATCATGATCACT 58.785 45.455 30.13 22.09 45.77 3.41
1957 2080 4.761739 TGATCACTTGTTCTCCATCCAAAC 59.238 41.667 0.00 0.00 0.00 2.93
1968 2091 4.104738 TCTCCATCCAAACTTTCCTCTTGT 59.895 41.667 0.00 0.00 0.00 3.16
1990 2113 1.011333 GCACATTTGGGATGCATTGC 58.989 50.000 0.00 0.46 39.23 3.56
2002 2125 0.599558 TGCATTGCTTCTGCCTGTTC 59.400 50.000 10.49 0.00 38.89 3.18
2014 2137 3.009363 TCTGCCTGTTCTTTGGATCATCA 59.991 43.478 0.00 0.00 0.00 3.07
2015 2138 3.952323 CTGCCTGTTCTTTGGATCATCAT 59.048 43.478 0.00 0.00 0.00 2.45
2016 2139 5.104402 TCTGCCTGTTCTTTGGATCATCATA 60.104 40.000 0.00 0.00 0.00 2.15
2017 2140 5.698104 TGCCTGTTCTTTGGATCATCATAT 58.302 37.500 0.00 0.00 0.00 1.78
2029 2152 9.716531 TTTGGATCATCATATATCTGACACTTC 57.283 33.333 0.00 0.00 0.00 3.01
2089 2212 1.527380 GGTGAACACCGGGCTTTCA 60.527 57.895 6.32 8.54 42.29 2.69
2161 2284 1.414181 CCAGAGACACACCAAGACTGT 59.586 52.381 0.00 0.00 0.00 3.55
2216 2339 9.486497 AGTTCATATATATGCAGAGTTTCAGTG 57.514 33.333 16.59 0.00 33.76 3.66
2236 2359 6.921857 TCAGTGTCACTACTGCTAAACTAAAC 59.078 38.462 4.85 0.00 45.94 2.01
2264 2387 0.313987 TTCGTGTGTGATCTGACGCT 59.686 50.000 0.00 0.00 0.00 5.07
2420 2543 4.124351 CGCCGCCAAGACCGTCTA 62.124 66.667 0.26 0.00 0.00 2.59
2421 2544 2.202756 GCCGCCAAGACCGTCTAG 60.203 66.667 0.26 0.00 0.00 2.43
2422 2545 2.202756 CCGCCAAGACCGTCTAGC 60.203 66.667 0.26 7.39 0.00 3.42
2423 2546 2.571757 CGCCAAGACCGTCTAGCA 59.428 61.111 18.62 0.00 0.00 3.49
2665 2796 6.998074 TGGTTTCTCTTGTCAATATTCAGTGT 59.002 34.615 0.00 0.00 0.00 3.55
2716 2847 8.000127 ACATACCCACCTTTTTAGTCAGTAAAA 59.000 33.333 0.00 0.00 38.58 1.52
2717 2848 8.852135 CATACCCACCTTTTTAGTCAGTAAAAA 58.148 33.333 9.38 9.38 44.72 1.94
2799 2946 4.824289 TGACAAATACTCCCTCCGTAAAC 58.176 43.478 0.00 0.00 0.00 2.01
2800 2947 4.283978 TGACAAATACTCCCTCCGTAAACA 59.716 41.667 0.00 0.00 0.00 2.83
2808 2955 9.774413 AATACTCCCTCCGTAAACAAATATAAG 57.226 33.333 0.00 0.00 0.00 1.73
2813 2960 5.751990 CCTCCGTAAACAAATATAAGAGCGT 59.248 40.000 0.00 0.00 0.00 5.07
2814 2961 6.257193 CCTCCGTAAACAAATATAAGAGCGTT 59.743 38.462 0.00 0.00 0.00 4.84
2815 2962 7.201582 CCTCCGTAAACAAATATAAGAGCGTTT 60.202 37.037 0.00 0.00 0.00 3.60
2816 2963 8.700722 TCCGTAAACAAATATAAGAGCGTTTA 57.299 30.769 0.00 0.00 0.00 2.01
2817 2964 8.810427 TCCGTAAACAAATATAAGAGCGTTTAG 58.190 33.333 0.00 0.00 31.53 1.85
2818 2965 8.810427 CCGTAAACAAATATAAGAGCGTTTAGA 58.190 33.333 0.00 0.00 31.53 2.10
2823 2970 9.601217 AACAAATATAAGAGCGTTTAGATCACT 57.399 29.630 0.00 0.00 37.82 3.41
2832 2979 8.503458 AGAGCGTTTAGATCACTACTTTAGTA 57.497 34.615 0.00 0.00 37.82 1.82
2863 3010 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
2864 3011 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
2865 3012 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
2866 3013 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
2942 3089 1.063183 GGGCAGGAGAAGATAGGCAT 58.937 55.000 0.00 0.00 0.00 4.40
2946 3093 3.244840 GGCAGGAGAAGATAGGCATGAAT 60.245 47.826 0.00 0.00 0.00 2.57
2961 3108 5.103771 AGGCATGAATCCTAGGATTGAACTT 60.104 40.000 36.38 20.19 43.98 2.66
2968 3116 2.357154 CCTAGGATTGAACTTGGTGGGG 60.357 54.545 1.05 0.00 0.00 4.96
3036 3184 2.436173 TCCTATCCACACACACACACAA 59.564 45.455 0.00 0.00 0.00 3.33
3037 3185 2.807967 CCTATCCACACACACACACAAG 59.192 50.000 0.00 0.00 0.00 3.16
3038 3186 1.679139 ATCCACACACACACACAAGG 58.321 50.000 0.00 0.00 0.00 3.61
3097 3247 3.056749 GGAGACGTACACAAACCTCATCT 60.057 47.826 0.00 0.00 0.00 2.90
3229 3379 8.525290 TGGATCAGATCACACGATATATATGT 57.475 34.615 12.66 0.00 29.66 2.29
3263 3418 1.006922 GAGCAGTTGCAACTTGGCC 60.007 57.895 29.23 18.53 45.16 5.36
3290 3445 4.427096 TCTCTGCTTTCTCTACGACAAG 57.573 45.455 0.00 0.00 0.00 3.16
3371 3540 5.514279 GCCTCGAATCCTACATCATTTTTG 58.486 41.667 0.00 0.00 0.00 2.44
3372 3541 5.066505 GCCTCGAATCCTACATCATTTTTGT 59.933 40.000 0.00 0.00 0.00 2.83
3379 3549 7.872113 ATCCTACATCATTTTTGTTCTCCTC 57.128 36.000 0.00 0.00 0.00 3.71
3399 3569 7.600375 TCTCCTCGAAATGCAGAATAATATGAC 59.400 37.037 0.00 0.00 0.00 3.06
3413 3583 0.459899 TATGACCGCGCAGACTGAAT 59.540 50.000 8.75 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
125 127 0.435769 CGTACGGGCTACACAAAACG 59.564 55.000 7.57 0.00 0.00 3.60
222 224 2.358247 GCGGTGGTGGTACTGGTG 60.358 66.667 0.00 0.00 0.00 4.17
224 226 4.752879 CGGCGGTGGTGGTACTGG 62.753 72.222 0.00 0.00 0.00 4.00
241 243 2.154798 TAGCACGTCACAGAGGTGGC 62.155 60.000 18.01 11.78 45.07 5.01
242 244 0.109086 CTAGCACGTCACAGAGGTGG 60.109 60.000 18.01 2.31 45.07 4.61
243 245 0.109086 CCTAGCACGTCACAGAGGTG 60.109 60.000 13.69 13.69 46.84 4.00
244 246 1.878656 GCCTAGCACGTCACAGAGGT 61.879 60.000 0.00 0.00 0.00 3.85
245 247 1.153745 GCCTAGCACGTCACAGAGG 60.154 63.158 0.00 0.00 0.00 3.69
303 305 4.828387 GGAACAGAGGGAGTAGTATGTAGG 59.172 50.000 0.00 0.00 0.00 3.18
308 311 6.893020 ATTTTGGAACAGAGGGAGTAGTAT 57.107 37.500 0.00 0.00 42.39 2.12
309 312 7.186972 TCTATTTTGGAACAGAGGGAGTAGTA 58.813 38.462 0.00 0.00 42.39 1.82
310 313 6.023603 TCTATTTTGGAACAGAGGGAGTAGT 58.976 40.000 0.00 0.00 42.39 2.73
311 314 6.546428 TCTATTTTGGAACAGAGGGAGTAG 57.454 41.667 0.00 0.00 42.39 2.57
312 315 6.672218 TCATCTATTTTGGAACAGAGGGAGTA 59.328 38.462 0.00 0.00 42.39 2.59
313 316 5.488919 TCATCTATTTTGGAACAGAGGGAGT 59.511 40.000 0.00 0.00 42.39 3.85
314 317 5.819901 GTCATCTATTTTGGAACAGAGGGAG 59.180 44.000 0.00 0.00 42.39 4.30
315 318 5.339200 GGTCATCTATTTTGGAACAGAGGGA 60.339 44.000 0.00 0.00 42.39 4.20
316 319 4.884164 GGTCATCTATTTTGGAACAGAGGG 59.116 45.833 0.00 0.00 42.39 4.30
317 320 4.884164 GGGTCATCTATTTTGGAACAGAGG 59.116 45.833 0.00 0.00 42.39 3.69
318 321 5.500234 TGGGTCATCTATTTTGGAACAGAG 58.500 41.667 0.00 0.00 42.39 3.35
319 322 5.512942 TGGGTCATCTATTTTGGAACAGA 57.487 39.130 0.00 0.00 42.39 3.41
320 323 6.780457 ATTGGGTCATCTATTTTGGAACAG 57.220 37.500 0.00 0.00 42.39 3.16
321 324 7.552050 AAATTGGGTCATCTATTTTGGAACA 57.448 32.000 0.00 0.00 0.00 3.18
322 325 7.877612 ACAAAATTGGGTCATCTATTTTGGAAC 59.122 33.333 19.76 0.00 45.43 3.62
323 326 7.877097 CACAAAATTGGGTCATCTATTTTGGAA 59.123 33.333 19.76 0.00 45.43 3.53
324 327 7.385267 CACAAAATTGGGTCATCTATTTTGGA 58.615 34.615 19.76 0.00 45.43 3.53
325 328 6.092533 GCACAAAATTGGGTCATCTATTTTGG 59.907 38.462 19.76 13.44 45.43 3.28
326 329 6.875195 AGCACAAAATTGGGTCATCTATTTTG 59.125 34.615 16.57 16.57 46.06 2.44
327 330 7.008021 AGCACAAAATTGGGTCATCTATTTT 57.992 32.000 0.00 0.00 33.05 1.82
328 331 6.610075 AGCACAAAATTGGGTCATCTATTT 57.390 33.333 0.00 0.00 33.05 1.40
329 332 7.716799 TTAGCACAAAATTGGGTCATCTATT 57.283 32.000 0.00 0.00 33.05 1.73
330 333 7.397192 ACTTTAGCACAAAATTGGGTCATCTAT 59.603 33.333 0.00 0.00 33.05 1.98
331 334 6.719370 ACTTTAGCACAAAATTGGGTCATCTA 59.281 34.615 0.00 0.00 33.05 1.98
332 335 5.539955 ACTTTAGCACAAAATTGGGTCATCT 59.460 36.000 0.00 0.00 33.05 2.90
333 336 5.783111 ACTTTAGCACAAAATTGGGTCATC 58.217 37.500 0.00 0.00 33.05 2.92
334 337 5.806654 ACTTTAGCACAAAATTGGGTCAT 57.193 34.783 0.00 0.00 33.05 3.06
335 338 5.606348 AACTTTAGCACAAAATTGGGTCA 57.394 34.783 0.00 0.00 33.05 4.02
336 339 6.745116 ACTAACTTTAGCACAAAATTGGGTC 58.255 36.000 0.00 0.00 34.09 4.46
337 340 6.724893 ACTAACTTTAGCACAAAATTGGGT 57.275 33.333 0.00 0.00 34.09 4.51
345 348 9.005777 CCCAACTTTATACTAACTTTAGCACAA 57.994 33.333 0.00 0.00 34.09 3.33
346 349 8.158789 ACCCAACTTTATACTAACTTTAGCACA 58.841 33.333 0.00 0.00 34.09 4.57
347 350 8.557592 ACCCAACTTTATACTAACTTTAGCAC 57.442 34.615 0.00 0.00 34.09 4.40
348 351 8.377034 TGACCCAACTTTATACTAACTTTAGCA 58.623 33.333 0.00 0.00 34.09 3.49
349 352 8.782339 TGACCCAACTTTATACTAACTTTAGC 57.218 34.615 0.00 0.00 34.09 3.09
358 361 9.408648 CCAAAATAGATGACCCAACTTTATACT 57.591 33.333 0.00 0.00 0.00 2.12
359 362 9.403583 TCCAAAATAGATGACCCAACTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
360 363 9.983024 TTCCAAAATAGATGACCCAACTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
361 364 8.749354 GTTCCAAAATAGATGACCCAACTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
362 365 7.094549 CGTTCCAAAATAGATGACCCAACTTTA 60.095 37.037 0.00 0.00 0.00 1.85
363 366 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
364 367 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
365 368 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
366 369 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
367 370 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
368 371 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
369 372 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
370 373 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
371 374 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
372 375 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
373 376 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
374 377 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
375 378 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
376 379 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
377 380 3.118519 GCTACTCCCTCCGTTCCAAAATA 60.119 47.826 0.00 0.00 0.00 1.40
378 381 2.355818 GCTACTCCCTCCGTTCCAAAAT 60.356 50.000 0.00 0.00 0.00 1.82
379 382 1.002773 GCTACTCCCTCCGTTCCAAAA 59.997 52.381 0.00 0.00 0.00 2.44
380 383 0.611714 GCTACTCCCTCCGTTCCAAA 59.388 55.000 0.00 0.00 0.00 3.28
381 384 0.252103 AGCTACTCCCTCCGTTCCAA 60.252 55.000 0.00 0.00 0.00 3.53
382 385 0.252103 AAGCTACTCCCTCCGTTCCA 60.252 55.000 0.00 0.00 0.00 3.53
383 386 0.903236 AAAGCTACTCCCTCCGTTCC 59.097 55.000 0.00 0.00 0.00 3.62
384 387 1.549170 TCAAAGCTACTCCCTCCGTTC 59.451 52.381 0.00 0.00 0.00 3.95
385 388 1.640917 TCAAAGCTACTCCCTCCGTT 58.359 50.000 0.00 0.00 0.00 4.44
386 389 1.867363 ATCAAAGCTACTCCCTCCGT 58.133 50.000 0.00 0.00 0.00 4.69
387 390 2.168521 TGAATCAAAGCTACTCCCTCCG 59.831 50.000 0.00 0.00 0.00 4.63
388 391 3.432890 CCTGAATCAAAGCTACTCCCTCC 60.433 52.174 0.00 0.00 0.00 4.30
389 392 3.452627 TCCTGAATCAAAGCTACTCCCTC 59.547 47.826 0.00 0.00 0.00 4.30
390 393 3.454858 TCCTGAATCAAAGCTACTCCCT 58.545 45.455 0.00 0.00 0.00 4.20
391 394 3.914426 TCCTGAATCAAAGCTACTCCC 57.086 47.619 0.00 0.00 0.00 4.30
392 395 7.865706 TTTTATCCTGAATCAAAGCTACTCC 57.134 36.000 0.00 0.00 0.00 3.85
393 396 9.167311 TCTTTTTATCCTGAATCAAAGCTACTC 57.833 33.333 0.00 0.00 0.00 2.59
394 397 9.171877 CTCTTTTTATCCTGAATCAAAGCTACT 57.828 33.333 0.00 0.00 0.00 2.57
395 398 9.167311 TCTCTTTTTATCCTGAATCAAAGCTAC 57.833 33.333 0.00 0.00 0.00 3.58
445 448 2.540101 AGATATTAACTGCAACGCGCTC 59.460 45.455 5.73 0.00 43.06 5.03
477 481 8.428063 AGTTCATTCAGAAGAAGAAGAAGAAGA 58.572 33.333 0.00 0.00 36.78 2.87
493 497 9.903682 AAATGAAGATGTTAACAGTTCATTCAG 57.096 29.630 34.60 0.00 44.30 3.02
532 536 1.367471 GCAAGCAAACCACCTTCCC 59.633 57.895 0.00 0.00 0.00 3.97
629 633 3.325293 AGGCAGACAGACACTTACATG 57.675 47.619 0.00 0.00 0.00 3.21
630 634 4.772624 TCTTAGGCAGACAGACACTTACAT 59.227 41.667 0.00 0.00 0.00 2.29
632 636 4.785511 TCTTAGGCAGACAGACACTTAC 57.214 45.455 0.00 0.00 0.00 2.34
636 662 5.703130 AGAAATTTCTTAGGCAGACAGACAC 59.297 40.000 15.11 0.00 32.55 3.67
640 670 6.566197 AACAGAAATTTCTTAGGCAGACAG 57.434 37.500 18.16 5.73 34.74 3.51
720 758 8.472413 ACCAACATGAACACGTACTATATAACT 58.528 33.333 0.00 0.00 0.00 2.24
721 759 8.638685 ACCAACATGAACACGTACTATATAAC 57.361 34.615 0.00 0.00 0.00 1.89
723 761 7.922278 GGAACCAACATGAACACGTACTATATA 59.078 37.037 0.00 0.00 0.00 0.86
724 762 6.759827 GGAACCAACATGAACACGTACTATAT 59.240 38.462 0.00 0.00 0.00 0.86
738 785 1.153353 AAGCGTACGGAACCAACATG 58.847 50.000 18.39 0.00 0.00 3.21
747 794 6.158598 ACTAATAACTGAAAAAGCGTACGGA 58.841 36.000 18.39 0.00 0.00 4.69
755 802 8.352942 GGGGCATATGACTAATAACTGAAAAAG 58.647 37.037 8.85 0.00 0.00 2.27
782 840 2.093625 CAGCAGCAAAGTCGCGTAATAA 59.906 45.455 5.77 0.00 36.85 1.40
792 850 1.226746 GTACGGTTCAGCAGCAAAGT 58.773 50.000 0.00 0.00 0.00 2.66
804 882 3.254166 ACACAGATACTGTTCGTACGGTT 59.746 43.478 16.52 0.77 42.59 4.44
805 883 2.816087 ACACAGATACTGTTCGTACGGT 59.184 45.455 16.52 11.59 42.59 4.83
806 884 3.120095 TGACACAGATACTGTTCGTACGG 60.120 47.826 16.52 1.09 42.59 4.02
813 891 6.788598 ATGAGAGATGACACAGATACTGTT 57.211 37.500 1.46 0.00 42.59 3.16
822 900 3.405823 TGTGCAATGAGAGATGACACA 57.594 42.857 0.00 0.00 33.99 3.72
908 986 3.697045 AGTTGAGTCGATTCTCCACCTAG 59.303 47.826 9.50 0.00 32.68 3.02
915 993 4.167554 ACTGTCAGTTGAGTCGATTCTC 57.832 45.455 9.50 2.80 35.28 2.87
1180 1281 2.282674 TGCTTCCTTGGCTGCTGG 60.283 61.111 0.00 0.00 0.00 4.85
1240 1350 1.382692 GCTGGATTGCTGCTTCCCTC 61.383 60.000 16.17 7.16 0.00 4.30
1287 1397 4.803426 GTCGCCGCCTCTCCTGTG 62.803 72.222 0.00 0.00 0.00 3.66
1383 1493 0.182061 ATGACGATGGGCTGCTCATT 59.818 50.000 17.40 0.60 0.00 2.57
1407 1517 0.478072 AACTGGCACTGAATCCACCA 59.522 50.000 0.00 0.00 0.00 4.17
1656 1769 1.078989 AGACTACCCCTGTACCTTGCT 59.921 52.381 0.00 0.00 0.00 3.91
1659 1772 1.720533 TGGAGACTACCCCTGTACCTT 59.279 52.381 0.00 0.00 0.00 3.50
1743 1856 0.179000 CCATTACCTCTTCGCTGCCT 59.821 55.000 0.00 0.00 0.00 4.75
1789 1912 3.053831 TCTCCGAGTTTTTGGGATGAC 57.946 47.619 0.00 0.00 0.00 3.06
1804 1927 9.840427 AGATAACATTGTTTGTAAAATTCTCCG 57.160 29.630 7.45 0.00 37.68 4.63
1826 1949 6.546772 TGCAGCATAATTTCATGGTTCAGATA 59.453 34.615 0.00 0.00 34.50 1.98
1928 2051 4.436332 TGGAGAACAAGTGATCATGATCG 58.564 43.478 26.52 16.50 40.63 3.69
1941 2064 4.803452 AGGAAAGTTTGGATGGAGAACAA 58.197 39.130 0.00 0.00 0.00 2.83
1957 2080 4.053295 CAAATGTGCCAACAAGAGGAAAG 58.947 43.478 0.00 0.00 40.46 2.62
1968 2091 1.277579 ATGCATCCCAAATGTGCCAA 58.722 45.000 0.00 0.00 38.06 4.52
1990 2113 3.415212 TGATCCAAAGAACAGGCAGAAG 58.585 45.455 0.00 0.00 0.00 2.85
2002 2125 9.722184 AAGTGTCAGATATATGATGATCCAAAG 57.278 33.333 2.87 0.00 0.00 2.77
2014 2137 7.015974 TCCTGCAGAATGAAGTGTCAGATATAT 59.984 37.037 17.39 0.00 41.55 0.86
2015 2138 6.324770 TCCTGCAGAATGAAGTGTCAGATATA 59.675 38.462 17.39 0.00 41.55 0.86
2016 2139 5.129980 TCCTGCAGAATGAAGTGTCAGATAT 59.870 40.000 17.39 0.00 41.55 1.63
2017 2140 4.467438 TCCTGCAGAATGAAGTGTCAGATA 59.533 41.667 17.39 0.00 41.55 1.98
2050 2173 2.908015 CCGATCCGGTCACCCAAT 59.092 61.111 0.00 0.00 42.73 3.16
2089 2212 0.672342 ACTTGTACAACGCGTCCTCT 59.328 50.000 14.44 0.00 0.00 3.69
2216 2339 8.361592 TGAAAGTTTAGTTTAGCAGTAGTGAC 57.638 34.615 0.42 0.00 0.00 3.67
2236 2359 4.092529 CAGATCACACACGAATCCTGAAAG 59.907 45.833 0.00 0.00 0.00 2.62
2264 2387 7.353414 TCCTGGAAACAAAATTACATCACAA 57.647 32.000 0.00 0.00 42.06 3.33
2418 2541 1.269517 GGCTGCTAGTGCTAGTGCTAG 60.270 57.143 17.99 14.43 40.48 3.42
2419 2542 0.747255 GGCTGCTAGTGCTAGTGCTA 59.253 55.000 17.99 0.00 40.48 3.49
2420 2543 1.519719 GGCTGCTAGTGCTAGTGCT 59.480 57.895 17.99 0.00 40.48 4.40
2421 2544 1.522580 GGGCTGCTAGTGCTAGTGC 60.523 63.158 0.00 11.22 40.48 4.40
2422 2545 1.144936 GGGGCTGCTAGTGCTAGTG 59.855 63.158 0.00 3.45 40.48 2.74
2423 2546 1.002274 AGGGGCTGCTAGTGCTAGT 59.998 57.895 0.00 0.00 40.48 2.57
2506 2637 9.390795 CACAAACAAATGTTTCATTCTAGAGAG 57.609 33.333 8.50 0.00 45.54 3.20
2549 2680 2.576615 ACCTTGTGAACTGAAGGAAGC 58.423 47.619 0.00 0.00 41.26 3.86
2694 2825 7.783119 AGATTTTTACTGACTAAAAAGGTGGGT 59.217 33.333 4.76 0.00 44.08 4.51
2716 2847 1.614317 CCGGCACCCTTTGAAGAGATT 60.614 52.381 0.00 0.00 0.00 2.40
2717 2848 0.035056 CCGGCACCCTTTGAAGAGAT 60.035 55.000 0.00 0.00 0.00 2.75
2777 2924 4.283978 TGTTTACGGAGGGAGTATTTGTCA 59.716 41.667 0.00 0.00 0.00 3.58
2790 2937 6.823678 ACGCTCTTATATTTGTTTACGGAG 57.176 37.500 0.00 0.00 0.00 4.63
2808 2955 9.733219 ATTACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.81 5.03
2817 2964 9.733219 AGCGTTTAGATTACTAAAGTAGTGATC 57.267 33.333 10.62 10.62 46.38 2.92
2818 2965 9.733219 GAGCGTTTAGATTACTAAAGTAGTGAT 57.267 33.333 0.00 0.00 45.42 3.06
2819 2966 8.954350 AGAGCGTTTAGATTACTAAAGTAGTGA 58.046 33.333 0.00 0.00 45.42 3.41
2820 2967 9.570488 AAGAGCGTTTAGATTACTAAAGTAGTG 57.430 33.333 0.00 0.00 45.42 2.74
2841 2988 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
2942 3089 5.500234 CACCAAGTTCAATCCTAGGATTCA 58.500 41.667 30.52 18.95 42.30 2.57
2946 3093 2.576191 CCCACCAAGTTCAATCCTAGGA 59.424 50.000 15.46 15.46 0.00 2.94
2968 3116 7.178131 CGTACACGGCAAGAAGAATAGCTTC 62.178 48.000 0.00 0.00 43.31 3.86
3036 3184 7.681939 TTTTATTTCGAAACTGATAGCACCT 57.318 32.000 13.81 0.00 0.00 4.00
3037 3185 7.968405 ACATTTTATTTCGAAACTGATAGCACC 59.032 33.333 13.81 0.00 0.00 5.01
3038 3186 8.788813 CACATTTTATTTCGAAACTGATAGCAC 58.211 33.333 13.81 0.00 0.00 4.40
3097 3247 4.260743 CCCGTCAACGTCTGTATTCGTATA 60.261 45.833 1.48 0.00 39.39 1.47
3229 3379 3.196385 TCCCACCCCATTTGCCCA 61.196 61.111 0.00 0.00 0.00 5.36
3263 3418 2.977772 AGAGAAAGCAGAGATTCCCG 57.022 50.000 0.00 0.00 0.00 5.14
3290 3445 3.546724 GTTCTTATGGAAAGAGGAGCCC 58.453 50.000 0.00 0.00 35.51 5.19
3371 3540 6.610741 ATTATTCTGCATTTCGAGGAGAAC 57.389 37.500 8.86 0.00 44.40 3.01
3372 3541 8.150296 TCATATTATTCTGCATTTCGAGGAGAA 58.850 33.333 9.06 9.06 45.40 2.87
3379 3549 5.082059 GCGGTCATATTATTCTGCATTTCG 58.918 41.667 0.00 0.00 33.09 3.46
3399 3569 1.091771 AATCCATTCAGTCTGCGCGG 61.092 55.000 10.86 10.86 0.00 6.46


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

AutoCloner maintained by Alex Coulton.