Multiple sequence alignment - TraesCS2A01G352700

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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 TraesCS2A01G352700 chr2A 100.000 3607 0 0 1 3607 593310517 593314123 0.000000e+00 6661.0
1 TraesCS2A01G352700 chr2A 89.796 490 40 9 3122 3606 696848447 696847963 1.420000e-173 619.0
2 TraesCS2A01G352700 chr2A 88.683 486 47 7 3122 3606 156660377 156660855 1.440000e-163 586.0
3 TraesCS2A01G352700 chr2A 97.872 47 0 1 3081 3126 768684056 768684102 2.990000e-11 80.5
4 TraesCS2A01G352700 chr2D 94.800 1173 44 7 1866 3031 449696406 449695244 0.000000e+00 1812.0
5 TraesCS2A01G352700 chr2D 87.156 1308 89 43 607 1852 449697681 449696391 0.000000e+00 1411.0
6 TraesCS2A01G352700 chr2D 83.333 582 48 30 202 753 449698551 449697989 3.240000e-135 492.0
7 TraesCS2A01G352700 chr2D 92.754 207 12 3 1 206 449698777 449698573 2.720000e-76 296.0
8 TraesCS2A01G352700 chr2D 97.872 47 1 0 3076 3122 13654556 13654510 8.300000e-12 82.4
9 TraesCS2A01G352700 chr2D 97.872 47 0 1 3076 3122 131133683 131133638 2.990000e-11 80.5
10 TraesCS2A01G352700 chr2B 88.120 968 72 18 916 1852 530048641 530047686 0.000000e+00 1110.0
11 TraesCS2A01G352700 chr2B 94.590 647 23 5 2402 3041 530046245 530045604 0.000000e+00 990.0
12 TraesCS2A01G352700 chr2B 92.929 396 18 2 1972 2367 530046631 530046246 5.230000e-158 568.0
13 TraesCS2A01G352700 chr2B 83.732 418 42 14 515 916 530049103 530048696 4.400000e-99 372.0
14 TraesCS2A01G352700 chr2B 82.619 420 38 20 1 398 530099008 530098602 4.460000e-89 339.0
15 TraesCS2A01G352700 chr2B 93.103 116 8 0 1866 1981 530047701 530047586 1.720000e-38 171.0
16 TraesCS2A01G352700 chr7D 90.741 486 39 4 3122 3606 595647397 595646917 0.000000e+00 643.0
17 TraesCS2A01G352700 chr7D 88.610 518 44 13 3080 3594 577852924 577852419 1.840000e-172 616.0
18 TraesCS2A01G352700 chr7D 97.917 48 0 1 3080 3126 64511679 64511632 8.300000e-12 82.4
19 TraesCS2A01G352700 chr1D 89.474 494 39 10 3118 3606 467241974 467241489 2.380000e-171 612.0
20 TraesCS2A01G352700 chr7A 89.571 489 32 15 3122 3606 462990710 462990237 1.430000e-168 603.0
21 TraesCS2A01G352700 chr7A 97.872 47 0 1 3081 3126 14828676 14828630 2.990000e-11 80.5
22 TraesCS2A01G352700 chr7A 97.872 47 0 1 3081 3126 191561912 191561866 2.990000e-11 80.5
23 TraesCS2A01G352700 chr6D 89.300 486 42 6 3122 3606 405820398 405819922 5.150000e-168 601.0
24 TraesCS2A01G352700 chr5B 89.463 484 39 8 3122 3604 686524506 686524978 5.150000e-168 601.0
25 TraesCS2A01G352700 chr4A 88.934 488 38 10 3122 3606 581946435 581946909 4.010000e-164 588.0
26 TraesCS2A01G352700 chr1A 91.667 60 3 2 3075 3133 376758155 376758213 8.300000e-12 82.4
27 TraesCS2A01G352700 chr5D 97.872 47 0 1 3081 3126 71885562 71885608 2.990000e-11 80.5
28 TraesCS2A01G352700 chr3A 94.444 54 0 3 3076 3126 427202772 427202825 2.990000e-11 80.5


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 TraesCS2A01G352700 chr2A 593310517 593314123 3606 False 6661.00 6661 100.00000 1 3607 1 chr2A.!!$F2 3606
1 TraesCS2A01G352700 chr2D 449695244 449698777 3533 True 1002.75 1812 89.51075 1 3031 4 chr2D.!!$R3 3030
2 TraesCS2A01G352700 chr2B 530045604 530049103 3499 True 642.20 1110 90.49480 515 3041 5 chr2B.!!$R2 2526
3 TraesCS2A01G352700 chr7D 577852419 577852924 505 True 616.00 616 88.61000 3080 3594 1 chr7D.!!$R2 514

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
274 303 0.034186 ATGGGTGTATGGGCAGTGTG 60.034 55.0 0.0 0.0 0.0 3.82 F
1273 1899 0.039911 AGACAGAGGGGTTCGTAGCT 59.960 55.0 0.0 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2103 3708 0.035152 TGTGCATACCAGCCTGAAGG 60.035 55.0 0.00 0.0 38.53 3.46 R
3116 4728 0.178068 AGGTTGCGACAAGTGAGTGT 59.822 50.0 6.39 0.0 0.00 3.55 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
25 26 3.160269 CAGCAAGATTTTCTCCCCTGTT 58.840 45.455 0.00 0.00 0.00 3.16
41 42 3.986006 TTCGCGGCTGTCGGAGTT 61.986 61.111 6.13 0.00 39.69 3.01
42 43 3.909258 TTCGCGGCTGTCGGAGTTC 62.909 63.158 6.13 0.00 39.69 3.01
102 103 1.271543 TGCTGCAGGCTAGTGTTTGAT 60.272 47.619 17.12 0.00 42.39 2.57
112 113 4.455124 GCTAGTGTTTGATGTGTCGTTTC 58.545 43.478 0.00 0.00 0.00 2.78
181 183 0.940991 GCCCGCAAGAAACTTGCAAG 60.941 55.000 27.63 24.84 45.14 4.01
198 200 6.881065 ACTTGCAAGTCTAGAGCATGAATAAA 59.119 34.615 26.36 0.03 38.19 1.40
200 202 6.172630 TGCAAGTCTAGAGCATGAATAAACA 58.827 36.000 0.00 0.00 32.55 2.83
246 275 6.280643 ACTTTTTCACTTGTGCCCTATTTTC 58.719 36.000 0.00 0.00 0.00 2.29
263 292 2.816204 TTCGTTTCGTGATGGGTGTA 57.184 45.000 0.00 0.00 0.00 2.90
268 297 0.107410 TTCGTGATGGGTGTATGGGC 60.107 55.000 0.00 0.00 0.00 5.36
270 299 0.815213 CGTGATGGGTGTATGGGCAG 60.815 60.000 0.00 0.00 0.00 4.85
274 303 0.034186 ATGGGTGTATGGGCAGTGTG 60.034 55.000 0.00 0.00 0.00 3.82
276 305 0.960364 GGGTGTATGGGCAGTGTGTG 60.960 60.000 0.00 0.00 0.00 3.82
283 320 0.833949 TGGGCAGTGTGTGTTGTAGA 59.166 50.000 0.00 0.00 0.00 2.59
292 329 5.580691 CAGTGTGTGTTGTAGAACTGAGAAA 59.419 40.000 4.21 0.00 37.76 2.52
296 333 4.574828 TGTGTTGTAGAACTGAGAAAAGGC 59.425 41.667 4.21 0.00 32.79 4.35
299 336 3.403038 TGTAGAACTGAGAAAAGGCTGC 58.597 45.455 0.00 0.00 0.00 5.25
311 348 2.113860 AAGGCTGCGACATGTATGTT 57.886 45.000 0.00 0.00 41.95 2.71
312 349 1.656652 AGGCTGCGACATGTATGTTC 58.343 50.000 0.00 0.00 41.95 3.18
313 350 1.066215 AGGCTGCGACATGTATGTTCA 60.066 47.619 0.00 0.86 41.95 3.18
316 353 2.286595 GCTGCGACATGTATGTTCATGG 60.287 50.000 0.00 0.00 46.39 3.66
317 354 2.938451 CTGCGACATGTATGTTCATGGT 59.062 45.455 0.00 0.00 46.39 3.55
319 356 4.508662 TGCGACATGTATGTTCATGGTTA 58.491 39.130 0.00 0.00 46.39 2.85
320 357 5.122519 TGCGACATGTATGTTCATGGTTAT 58.877 37.500 0.00 0.00 46.39 1.89
322 359 5.909054 GCGACATGTATGTTCATGGTTATTG 59.091 40.000 0.00 0.00 46.39 1.90
323 360 5.909054 CGACATGTATGTTCATGGTTATTGC 59.091 40.000 0.00 0.00 46.39 3.56
324 361 6.147864 ACATGTATGTTCATGGTTATTGCC 57.852 37.500 0.00 0.00 46.39 4.52
325 362 5.068987 ACATGTATGTTCATGGTTATTGCCC 59.931 40.000 0.00 0.00 46.39 5.36
326 363 4.865905 TGTATGTTCATGGTTATTGCCCT 58.134 39.130 0.00 0.00 0.00 5.19
327 364 6.007485 TGTATGTTCATGGTTATTGCCCTA 57.993 37.500 0.00 0.00 0.00 3.53
330 367 2.254546 TCATGGTTATTGCCCTAGCG 57.745 50.000 0.00 0.00 44.31 4.26
355 392 2.910360 TGTGCTGCACAGACAGGT 59.090 55.556 29.99 0.00 39.62 4.00
356 393 1.227645 TGTGCTGCACAGACAGGTC 60.228 57.895 29.99 2.69 39.62 3.85
357 394 1.963338 GTGCTGCACAGACAGGTCC 60.963 63.158 26.70 0.00 38.16 4.46
373 418 2.047560 CCGGTTCGGTGGTTCCTC 60.048 66.667 0.00 0.00 42.73 3.71
391 436 2.757099 TTCCTCCCCGGTAGCGAC 60.757 66.667 17.33 0.00 0.00 5.19
398 443 2.754658 CCGGTAGCGACCTCCACT 60.755 66.667 17.33 0.00 44.46 4.00
400 445 2.772691 CGGTAGCGACCTCCACTCC 61.773 68.421 14.49 0.00 44.46 3.85
401 446 2.772691 GGTAGCGACCTCCACTCCG 61.773 68.421 9.01 0.00 43.16 4.63
402 447 2.045131 GTAGCGACCTCCACTCCGT 61.045 63.158 0.00 0.00 0.00 4.69
403 448 1.748122 TAGCGACCTCCACTCCGTC 60.748 63.158 0.00 0.00 0.00 4.79
404 449 4.131088 GCGACCTCCACTCCGTCC 62.131 72.222 0.00 0.00 0.00 4.79
405 450 2.675423 CGACCTCCACTCCGTCCA 60.675 66.667 0.00 0.00 0.00 4.02
406 451 2.052690 CGACCTCCACTCCGTCCAT 61.053 63.158 0.00 0.00 0.00 3.41
414 459 0.528466 CACTCCGTCCATGTCCATCG 60.528 60.000 0.00 0.00 0.00 3.84
422 467 1.218047 CATGTCCATCGTCCACCGT 59.782 57.895 0.00 0.00 37.94 4.83
425 470 3.387091 TCCATCGTCCACCGTGGG 61.387 66.667 17.76 2.56 38.32 4.61
443 488 3.254654 CGGCGGTACAGCACATCG 61.255 66.667 19.70 9.84 39.27 3.84
465 510 0.385849 TGTTACACGTCGTAGGTGCG 60.386 55.000 0.00 0.00 37.49 5.34
468 513 1.514678 TACACGTCGTAGGTGCGGTT 61.515 55.000 0.00 0.00 37.49 4.44
511 556 3.834799 GAGCTTGCTGCATGGGCC 61.835 66.667 16.06 0.00 45.94 5.80
541 586 4.142513 GCAGATCAGATGAACCTTGGAAAC 60.143 45.833 0.00 0.00 0.00 2.78
561 610 7.446013 TGGAAACAAAGAATGTAATACGAGGTT 59.554 33.333 0.00 0.00 42.99 3.50
567 616 8.717821 CAAAGAATGTAATACGAGGTTCTTGAA 58.282 33.333 11.03 0.00 36.40 2.69
586 635 0.321034 AGGGCCGTTTCGTAAACCTC 60.321 55.000 0.00 0.00 38.14 3.85
590 639 1.150827 CCGTTTCGTAAACCTCCACC 58.849 55.000 5.33 0.00 38.14 4.61
597 646 1.477295 CGTAAACCTCCACCTCTCTCC 59.523 57.143 0.00 0.00 0.00 3.71
664 720 3.202906 AGAAACGTGCAACAGTACACAT 58.797 40.909 0.00 0.00 36.57 3.21
665 721 3.247648 AGAAACGTGCAACAGTACACATC 59.752 43.478 0.00 3.10 36.57 3.06
775 1304 1.522092 CGCCTCCTATCCAGCAACA 59.478 57.895 0.00 0.00 0.00 3.33
853 1382 3.700038 TCCAATTCGAGAAGGACTAGGTC 59.300 47.826 0.00 0.00 0.00 3.85
854 1383 3.489398 CCAATTCGAGAAGGACTAGGTCG 60.489 52.174 0.00 0.00 32.65 4.79
855 1384 2.486472 TTCGAGAAGGACTAGGTCGT 57.514 50.000 0.00 0.00 32.65 4.34
856 1385 2.021355 TCGAGAAGGACTAGGTCGTC 57.979 55.000 0.00 0.00 32.65 4.20
920 1513 1.754380 AAATCCCGATCGATCCCGCA 61.754 55.000 18.66 1.85 35.37 5.69
931 1524 2.650813 GATCCCGCAGCATCTCCGTT 62.651 60.000 0.00 0.00 0.00 4.44
982 1579 1.569493 CCTCGTTGGTCGTTGCTTG 59.431 57.895 0.00 0.00 40.80 4.01
1035 1632 2.282251 TGCGACGGGACTCTGTCT 60.282 61.111 0.00 0.00 44.88 3.41
1059 1656 2.383527 CGAGTTCAACGCCTCAGCC 61.384 63.158 0.00 0.00 34.57 4.85
1129 1729 3.334054 GGGAGTGGAGGCCTTGCT 61.334 66.667 6.77 5.42 0.00 3.91
1157 1757 1.222936 GGGTGCCATCTGAGGTCAG 59.777 63.158 0.10 0.10 45.08 3.51
1177 1781 0.969149 ATGCTCGACAGACTTGACCA 59.031 50.000 0.00 0.00 0.00 4.02
1191 1795 2.015456 TGACCACCTCATCTCTGTGT 57.985 50.000 0.00 0.00 0.00 3.72
1207 1811 6.567959 TCTCTGTGTTATCTCTGCTGTTATG 58.432 40.000 0.00 0.00 0.00 1.90
1220 1824 5.822519 TCTGCTGTTATGTTTTCTGTCACTT 59.177 36.000 0.00 0.00 0.00 3.16
1221 1825 6.989759 TCTGCTGTTATGTTTTCTGTCACTTA 59.010 34.615 0.00 0.00 0.00 2.24
1223 1827 6.204688 TGCTGTTATGTTTTCTGTCACTTAGG 59.795 38.462 0.00 0.00 0.00 2.69
1224 1828 6.204882 GCTGTTATGTTTTCTGTCACTTAGGT 59.795 38.462 0.00 0.00 0.00 3.08
1225 1829 7.255139 GCTGTTATGTTTTCTGTCACTTAGGTT 60.255 37.037 0.00 0.00 0.00 3.50
1226 1830 8.514330 TGTTATGTTTTCTGTCACTTAGGTTT 57.486 30.769 0.00 0.00 0.00 3.27
1238 1864 3.632145 CACTTAGGTTTATGCCCATGGAC 59.368 47.826 15.22 0.55 0.00 4.02
1273 1899 0.039911 AGACAGAGGGGTTCGTAGCT 59.960 55.000 0.00 0.00 0.00 3.32
1276 1902 1.187087 CAGAGGGGTTCGTAGCTCTT 58.813 55.000 0.00 0.00 31.24 2.85
1348 1977 9.601217 TTTCTTTCTTTGGCTATCTGATAGTAC 57.399 33.333 22.12 16.60 35.29 2.73
1349 1978 8.540507 TCTTTCTTTGGCTATCTGATAGTACT 57.459 34.615 22.12 0.00 35.29 2.73
1350 1979 8.417106 TCTTTCTTTGGCTATCTGATAGTACTG 58.583 37.037 22.12 11.44 35.29 2.74
1351 1980 6.090483 TCTTTGGCTATCTGATAGTACTGC 57.910 41.667 22.12 10.86 35.29 4.40
1352 1981 5.598417 TCTTTGGCTATCTGATAGTACTGCA 59.402 40.000 22.12 2.82 35.29 4.41
1379 2009 7.867445 ATGAAGTTGGCGTTTTAGTAATTTG 57.133 32.000 0.00 0.00 0.00 2.32
1447 2080 0.465097 CCTGTCCCTGATGATGGTGC 60.465 60.000 0.00 0.00 0.00 5.01
1450 2083 0.543277 GTCCCTGATGATGGTGCAGA 59.457 55.000 0.00 0.00 0.00 4.26
1462 2095 1.561076 TGGTGCAGAGCATGATACCTT 59.439 47.619 0.00 0.00 41.91 3.50
1487 2120 7.519927 TGGTAAGTTTTCAGTGGGTATTACTT 58.480 34.615 0.00 0.00 0.00 2.24
1493 2126 5.416271 TTCAGTGGGTATTACTTCTCCAC 57.584 43.478 10.37 10.37 45.86 4.02
1511 2144 8.722480 TTCTCCACTATCATATGTTTCTGTTG 57.278 34.615 1.90 0.00 0.00 3.33
1546 2179 1.382522 ATTACATTGCTCTGCACCCG 58.617 50.000 0.00 0.00 38.71 5.28
1560 2193 1.663695 CACCCGAGCCGTTTCATATT 58.336 50.000 0.00 0.00 0.00 1.28
1617 2258 9.959721 ATATAACAGTTTCACCAAATACTCTGT 57.040 29.630 0.00 0.00 36.64 3.41
1618 2259 6.377327 AACAGTTTCACCAAATACTCTGTG 57.623 37.500 0.00 0.00 35.54 3.66
1619 2260 4.821805 ACAGTTTCACCAAATACTCTGTGG 59.178 41.667 0.00 0.00 38.46 4.17
1621 2262 5.049405 CAGTTTCACCAAATACTCTGTGGAC 60.049 44.000 0.00 0.00 36.23 4.02
1744 2385 2.420642 GATAGTGATGCATGATGCCGT 58.579 47.619 15.70 3.31 44.23 5.68
1859 2500 9.836179 ACTAGCTACTAGTACTAGTATCCCTAA 57.164 37.037 32.85 17.64 44.35 2.69
2103 3708 1.940613 CCGGTGCTATACTTTCAAGGC 59.059 52.381 0.00 0.00 0.00 4.35
2139 3744 6.579666 ATGCACATTTCAGAACATTACTGT 57.420 33.333 0.00 0.00 37.12 3.55
2140 3745 5.761003 TGCACATTTCAGAACATTACTGTG 58.239 37.500 0.00 0.00 35.22 3.66
2179 3784 7.402054 TCTATTCTCCTTTTTGATAGCCAACA 58.598 34.615 0.00 0.00 33.85 3.33
2266 3871 5.584649 CCTCACTCACTTCAGTTGTTAAACA 59.415 40.000 0.00 0.00 38.88 2.83
2386 3991 9.425577 ACTAATTAGTTGAAAGCTTAGACTCAC 57.574 33.333 12.50 0.00 31.13 3.51
2396 4001 9.337396 TGAAAGCTTAGACTCACTAAAAATGAA 57.663 29.630 0.00 0.00 40.07 2.57
2633 4238 6.718294 TCACTCTTCTCCAGTATGTAGTACA 58.282 40.000 5.24 5.24 35.67 2.90
2651 4256 6.282199 AGTACAGTACTATTTGGGTGAGTG 57.718 41.667 11.84 0.00 37.23 3.51
2682 4287 4.074970 AGTGTCCACCTCTTATTTTGCTG 58.925 43.478 0.00 0.00 0.00 4.41
2729 4334 5.295950 TGGTAATTTGACCATTTTGCAGTG 58.704 37.500 0.00 0.00 44.79 3.66
2730 4335 5.163364 TGGTAATTTGACCATTTTGCAGTGT 60.163 36.000 0.00 0.00 44.79 3.55
2731 4336 6.040955 TGGTAATTTGACCATTTTGCAGTGTA 59.959 34.615 0.00 0.00 44.79 2.90
2805 4417 4.157289 AGTTGCAGGTTCAACATGATGATC 59.843 41.667 6.32 6.03 46.44 2.92
2959 4571 2.271800 GCTGATGGAAGTTACCAGTCG 58.728 52.381 0.00 0.00 43.49 4.18
2968 4580 1.084289 GTTACCAGTCGGTCAATGCC 58.916 55.000 0.00 0.00 44.71 4.40
3046 4658 7.454260 AACTCTGAAAGTTGAAACAAGAACT 57.546 32.000 0.00 0.00 46.61 3.01
3047 4659 7.078011 ACTCTGAAAGTTGAAACAAGAACTC 57.922 36.000 0.00 0.00 33.03 3.01
3048 4660 6.881602 ACTCTGAAAGTTGAAACAAGAACTCT 59.118 34.615 0.00 0.00 33.03 3.24
3049 4661 7.065204 ACTCTGAAAGTTGAAACAAGAACTCTC 59.935 37.037 0.00 0.00 33.03 3.20
3050 4662 6.878923 TCTGAAAGTTGAAACAAGAACTCTCA 59.121 34.615 0.00 0.00 30.37 3.27
3051 4663 7.390440 TCTGAAAGTTGAAACAAGAACTCTCAA 59.610 33.333 0.00 0.00 30.66 3.02
3052 4664 8.055279 TGAAAGTTGAAACAAGAACTCTCAAT 57.945 30.769 0.00 0.00 28.48 2.57
3053 4665 8.522830 TGAAAGTTGAAACAAGAACTCTCAATT 58.477 29.630 0.00 0.00 28.48 2.32
3054 4666 8.693542 AAAGTTGAAACAAGAACTCTCAATTG 57.306 30.769 0.00 0.00 31.02 2.32
3055 4667 7.396540 AGTTGAAACAAGAACTCTCAATTGT 57.603 32.000 5.13 0.00 37.47 2.71
3056 4668 7.830739 AGTTGAAACAAGAACTCTCAATTGTT 58.169 30.769 5.13 0.00 45.21 2.83
3057 4669 7.756722 AGTTGAAACAAGAACTCTCAATTGTTG 59.243 33.333 5.13 3.41 43.17 3.33
3058 4670 6.035843 TGAAACAAGAACTCTCAATTGTTGC 58.964 36.000 5.13 2.32 43.17 4.17
3059 4671 4.214980 ACAAGAACTCTCAATTGTTGCG 57.785 40.909 5.13 0.00 34.53 4.85
3060 4672 2.975851 CAAGAACTCTCAATTGTTGCGC 59.024 45.455 0.00 0.00 0.00 6.09
3061 4673 1.537202 AGAACTCTCAATTGTTGCGCC 59.463 47.619 4.18 0.00 0.00 6.53
3062 4674 1.266718 GAACTCTCAATTGTTGCGCCA 59.733 47.619 4.18 0.00 0.00 5.69
3063 4675 1.538047 ACTCTCAATTGTTGCGCCAT 58.462 45.000 4.18 0.00 0.00 4.40
3064 4676 2.710377 ACTCTCAATTGTTGCGCCATA 58.290 42.857 4.18 0.00 0.00 2.74
3065 4677 3.282021 ACTCTCAATTGTTGCGCCATAT 58.718 40.909 4.18 0.00 0.00 1.78
3066 4678 3.696051 ACTCTCAATTGTTGCGCCATATT 59.304 39.130 4.18 0.00 0.00 1.28
3067 4679 4.031418 TCTCAATTGTTGCGCCATATTG 57.969 40.909 4.18 9.88 0.00 1.90
3068 4680 3.693578 TCTCAATTGTTGCGCCATATTGA 59.306 39.130 17.53 17.53 34.90 2.57
3069 4681 4.031418 TCAATTGTTGCGCCATATTGAG 57.969 40.909 4.18 0.00 32.10 3.02
3070 4682 3.117794 CAATTGTTGCGCCATATTGAGG 58.882 45.455 4.18 0.00 0.00 3.86
3071 4683 1.832883 TTGTTGCGCCATATTGAGGT 58.167 45.000 4.18 0.00 0.00 3.85
3072 4684 1.832883 TGTTGCGCCATATTGAGGTT 58.167 45.000 4.18 0.00 0.00 3.50
3073 4685 1.742831 TGTTGCGCCATATTGAGGTTC 59.257 47.619 4.18 0.00 0.00 3.62
3074 4686 2.017049 GTTGCGCCATATTGAGGTTCT 58.983 47.619 4.18 0.00 0.00 3.01
3075 4687 2.418368 TGCGCCATATTGAGGTTCTT 57.582 45.000 4.18 0.00 0.00 2.52
3076 4688 2.722094 TGCGCCATATTGAGGTTCTTT 58.278 42.857 4.18 0.00 0.00 2.52
3077 4689 3.879998 TGCGCCATATTGAGGTTCTTTA 58.120 40.909 4.18 0.00 0.00 1.85
3078 4690 3.625764 TGCGCCATATTGAGGTTCTTTAC 59.374 43.478 4.18 0.00 0.00 2.01
3101 4713 7.907214 ACTGCGAAATCACTAATTAAGAAGT 57.093 32.000 0.00 0.00 0.00 3.01
3104 4716 8.997621 TGCGAAATCACTAATTAAGAAGTACT 57.002 30.769 0.00 0.00 0.00 2.73
3105 4717 9.084164 TGCGAAATCACTAATTAAGAAGTACTC 57.916 33.333 0.00 0.00 0.00 2.59
3107 4719 9.286946 CGAAATCACTAATTAAGAAGTACTCGT 57.713 33.333 0.00 0.00 0.00 4.18
3111 4723 7.372714 TCACTAATTAAGAAGTACTCGTTGCA 58.627 34.615 0.00 0.00 0.00 4.08
3112 4724 7.868922 TCACTAATTAAGAAGTACTCGTTGCAA 59.131 33.333 0.00 0.00 0.00 4.08
3113 4725 8.492748 CACTAATTAAGAAGTACTCGTTGCAAA 58.507 33.333 0.00 0.00 0.00 3.68
3114 4726 8.709646 ACTAATTAAGAAGTACTCGTTGCAAAG 58.290 33.333 0.00 2.46 0.00 2.77
3115 4727 7.724305 AATTAAGAAGTACTCGTTGCAAAGA 57.276 32.000 14.45 14.45 0.00 2.52
3116 4728 7.724305 ATTAAGAAGTACTCGTTGCAAAGAA 57.276 32.000 15.91 0.00 0.00 2.52
3117 4729 5.405331 AAGAAGTACTCGTTGCAAAGAAC 57.595 39.130 15.91 11.95 0.00 3.01
3118 4730 4.439057 AGAAGTACTCGTTGCAAAGAACA 58.561 39.130 15.91 4.24 0.00 3.18
3119 4731 4.270325 AGAAGTACTCGTTGCAAAGAACAC 59.730 41.667 15.91 14.96 0.00 3.32
3120 4732 3.793559 AGTACTCGTTGCAAAGAACACT 58.206 40.909 15.91 16.69 0.00 3.55
3137 4749 0.464036 ACTCACTTGTCGCAACCTGA 59.536 50.000 0.00 0.00 0.00 3.86
3138 4750 1.070758 ACTCACTTGTCGCAACCTGAT 59.929 47.619 0.00 0.00 0.00 2.90
3207 4819 8.036273 TCTTTTAAACCGTGTATCCAAATCTC 57.964 34.615 0.00 0.00 0.00 2.75
3213 4825 2.534349 CGTGTATCCAAATCTCGAACCG 59.466 50.000 0.00 0.00 0.00 4.44
3221 4833 3.250040 CCAAATCTCGAACCGTTTTCACT 59.750 43.478 0.00 0.00 0.00 3.41
3279 4891 6.536582 AGATCTCATGTTGATAGGTTTTGACG 59.463 38.462 0.00 0.00 0.00 4.35
3283 4895 5.995282 TCATGTTGATAGGTTTTGACGAACT 59.005 36.000 0.00 0.00 0.00 3.01
3293 4905 7.956420 AGGTTTTGACGAACTTTTTCTTTTT 57.044 28.000 0.00 0.00 0.00 1.94
3296 4908 7.889211 GGTTTTGACGAACTTTTTCTTTTTACG 59.111 33.333 0.00 0.00 0.00 3.18
3298 4910 8.725212 TTTGACGAACTTTTTCTTTTTACGAA 57.275 26.923 0.00 0.00 0.00 3.85
3371 4985 1.892209 TTCCTTTCCGAAAGAGGCAC 58.108 50.000 20.43 0.00 41.02 5.01
3372 4986 0.320421 TCCTTTCCGAAAGAGGCACG 60.320 55.000 20.43 4.67 41.02 5.34
3373 4987 0.602905 CCTTTCCGAAAGAGGCACGT 60.603 55.000 20.43 0.00 41.02 4.49
3374 4988 0.790814 CTTTCCGAAAGAGGCACGTC 59.209 55.000 14.72 0.00 41.02 4.34
3375 4989 0.601841 TTTCCGAAAGAGGCACGTCC 60.602 55.000 0.00 0.00 0.00 4.79
3376 4990 2.758770 TTCCGAAAGAGGCACGTCCG 62.759 60.000 0.00 0.00 40.77 4.79
3388 5002 3.733960 CGTCCGTGCCTCTCGTGA 61.734 66.667 0.00 0.00 0.00 4.35
3415 5029 1.213013 CCGTGACTCTCGTGGAAGG 59.787 63.158 0.24 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 4.415332 GAACTCCGACAGCCGCGA 62.415 66.667 8.23 0.00 36.84 5.87
50 51 5.827267 AGAAATTTTGAAACAAATGTGGGGG 59.173 36.000 0.00 0.00 0.00 5.40
51 52 6.940831 AGAAATTTTGAAACAAATGTGGGG 57.059 33.333 0.00 0.00 0.00 4.96
129 131 9.149225 GAACAGGCAATCAGAGTTCATATATAG 57.851 37.037 0.00 0.00 38.66 1.31
132 134 5.985530 CGAACAGGCAATCAGAGTTCATATA 59.014 40.000 0.00 0.00 38.71 0.86
133 135 4.813161 CGAACAGGCAATCAGAGTTCATAT 59.187 41.667 0.00 0.00 38.71 1.78
138 140 1.160137 GCGAACAGGCAATCAGAGTT 58.840 50.000 0.00 0.00 0.00 3.01
229 258 3.915437 AACGAAAATAGGGCACAAGTG 57.085 42.857 0.00 0.00 0.00 3.16
230 259 3.058501 CGAAACGAAAATAGGGCACAAGT 60.059 43.478 0.00 0.00 0.00 3.16
231 260 3.058501 ACGAAACGAAAATAGGGCACAAG 60.059 43.478 0.00 0.00 0.00 3.16
232 261 2.879646 ACGAAACGAAAATAGGGCACAA 59.120 40.909 0.00 0.00 0.00 3.33
246 275 1.663643 CCATACACCCATCACGAAACG 59.336 52.381 0.00 0.00 0.00 3.60
263 292 1.419762 TCTACAACACACACTGCCCAT 59.580 47.619 0.00 0.00 0.00 4.00
268 297 4.682787 TCTCAGTTCTACAACACACACTG 58.317 43.478 0.00 0.00 34.60 3.66
270 299 6.417191 TTTTCTCAGTTCTACAACACACAC 57.583 37.500 0.00 0.00 34.60 3.82
274 303 4.816925 AGCCTTTTCTCAGTTCTACAACAC 59.183 41.667 0.00 0.00 34.60 3.32
276 305 4.319839 GCAGCCTTTTCTCAGTTCTACAAC 60.320 45.833 0.00 0.00 0.00 3.32
283 320 1.230324 GTCGCAGCCTTTTCTCAGTT 58.770 50.000 0.00 0.00 0.00 3.16
292 329 2.009774 GAACATACATGTCGCAGCCTT 58.990 47.619 0.00 0.00 40.80 4.35
296 333 2.938451 ACCATGAACATACATGTCGCAG 59.062 45.455 0.00 0.00 44.00 5.18
299 336 5.909054 GCAATAACCATGAACATACATGTCG 59.091 40.000 0.00 0.00 44.00 4.35
311 348 1.202758 CCGCTAGGGCAATAACCATGA 60.203 52.381 0.19 0.00 38.60 3.07
312 349 1.238439 CCGCTAGGGCAATAACCATG 58.762 55.000 0.19 0.00 38.60 3.66
313 350 3.725754 CCGCTAGGGCAATAACCAT 57.274 52.632 0.19 0.00 38.60 3.55
342 379 2.047844 CCGGACCTGTCTGTGCAG 60.048 66.667 0.00 0.00 34.20 4.41
357 394 0.669625 GAAGAGGAACCACCGAACCG 60.670 60.000 0.00 0.00 44.74 4.44
368 413 0.032416 CTACCGGGGAGGAAGAGGAA 60.032 60.000 6.32 0.00 45.00 3.36
369 414 1.619143 CTACCGGGGAGGAAGAGGA 59.381 63.158 6.32 0.00 45.00 3.71
370 415 2.134933 GCTACCGGGGAGGAAGAGG 61.135 68.421 8.71 0.00 45.00 3.69
371 416 2.491022 CGCTACCGGGGAGGAAGAG 61.491 68.421 8.71 0.00 45.00 2.85
372 417 2.441532 CGCTACCGGGGAGGAAGA 60.442 66.667 8.71 0.00 45.00 2.87
373 418 2.441532 TCGCTACCGGGGAGGAAG 60.442 66.667 8.71 0.00 45.00 3.46
398 443 1.672854 GGACGATGGACATGGACGGA 61.673 60.000 0.00 0.00 0.00 4.69
400 445 0.806102 GTGGACGATGGACATGGACG 60.806 60.000 0.00 0.00 0.00 4.79
401 446 0.462047 GGTGGACGATGGACATGGAC 60.462 60.000 0.00 0.00 0.00 4.02
402 447 1.904771 GGTGGACGATGGACATGGA 59.095 57.895 0.00 0.00 0.00 3.41
403 448 4.540153 GGTGGACGATGGACATGG 57.460 61.111 0.00 0.00 0.00 3.66
425 470 3.564027 GATGTGCTGTACCGCCGC 61.564 66.667 6.82 0.83 0.00 6.53
430 475 1.086696 AACATGCGATGTGCTGTACC 58.913 50.000 0.00 0.00 44.07 3.34
433 478 1.464608 GTGTAACATGCGATGTGCTGT 59.535 47.619 0.00 0.00 44.07 4.40
440 485 2.447250 CTACGACGTGTAACATGCGAT 58.553 47.619 11.56 0.00 35.74 4.58
443 488 1.652124 CACCTACGACGTGTAACATGC 59.348 52.381 11.56 0.00 35.74 4.06
493 538 3.834799 GCCCATGCAGCAAGCTCC 61.835 66.667 0.00 0.00 45.94 4.70
511 556 2.107750 ATCTGATCTGCCGTGCCG 59.892 61.111 0.00 0.00 0.00 5.69
541 586 8.251750 TCAAGAACCTCGTATTACATTCTTTG 57.748 34.615 8.51 6.44 34.90 2.77
561 610 0.680618 TACGAAACGGCCCTTCAAGA 59.319 50.000 11.70 0.00 0.00 3.02
567 616 0.321034 GAGGTTTACGAAACGGCCCT 60.321 55.000 0.00 0.00 42.29 5.19
586 635 4.075793 TCCCGGGGAGAGAGGTGG 62.076 72.222 23.50 0.00 0.00 4.61
590 639 2.123640 GGAGTCCCGGGGAGAGAG 60.124 72.222 23.50 0.00 29.39 3.20
608 657 3.675619 AACTGGATACCCGGCGCAC 62.676 63.158 10.83 0.00 42.81 5.34
648 704 3.878086 AAAGATGTGTACTGTTGCACG 57.122 42.857 0.00 0.00 41.02 5.34
654 710 5.710984 CGGAAGAGTAAAGATGTGTACTGT 58.289 41.667 0.00 0.00 30.65 3.55
656 712 4.381718 GGCGGAAGAGTAAAGATGTGTACT 60.382 45.833 0.00 0.00 33.21 2.73
657 713 3.864003 GGCGGAAGAGTAAAGATGTGTAC 59.136 47.826 0.00 0.00 0.00 2.90
664 720 0.815734 CTCCGGCGGAAGAGTAAAGA 59.184 55.000 30.59 2.94 0.00 2.52
665 721 0.531200 ACTCCGGCGGAAGAGTAAAG 59.469 55.000 30.59 17.52 41.51 1.85
854 1383 2.022129 CGGTGTTGTGCTCGGAGAC 61.022 63.158 9.69 5.03 0.00 3.36
855 1384 2.338620 CGGTGTTGTGCTCGGAGA 59.661 61.111 9.69 0.00 0.00 3.71
856 1385 3.414700 GCGGTGTTGTGCTCGGAG 61.415 66.667 0.00 0.00 0.00 4.63
895 1433 0.039437 ATCGATCGGGATTTCGTCGG 60.039 55.000 16.41 0.00 36.74 4.79
901 1439 1.004918 GCGGGATCGATCGGGATTT 60.005 57.895 18.81 0.00 39.00 2.17
906 1444 3.580100 ATGCTGCGGGATCGATCGG 62.580 63.158 18.81 13.98 39.00 4.18
920 1513 4.446371 CTCTATTTGGAAACGGAGATGCT 58.554 43.478 0.00 0.00 0.00 3.79
931 1524 0.926293 CCCCCTGGCTCTATTTGGAA 59.074 55.000 0.00 0.00 0.00 3.53
952 1549 2.271800 CCAACGAGGCAGTCAAGTATC 58.728 52.381 0.00 0.00 0.00 2.24
955 1552 0.249911 GACCAACGAGGCAGTCAAGT 60.250 55.000 0.00 0.00 43.14 3.16
962 1559 2.933878 AAGCAACGACCAACGAGGCA 62.934 55.000 0.00 0.00 45.77 4.75
1016 1613 2.910479 ACAGAGTCCCGTCGCACA 60.910 61.111 0.00 0.00 0.00 4.57
1035 1632 1.081641 GGCGTTGAACTCGTCGAGA 60.082 57.895 28.33 3.45 33.32 4.04
1059 1656 1.604593 CTTGGTGACCAGGGCCTTG 60.605 63.158 8.15 8.15 33.81 3.61
1129 1729 3.588511 TGGCACCCCCATCTTGCA 61.589 61.111 0.00 0.00 39.18 4.08
1157 1757 1.067565 TGGTCAAGTCTGTCGAGCATC 60.068 52.381 0.00 0.00 32.58 3.91
1164 1768 2.564947 AGATGAGGTGGTCAAGTCTGTC 59.435 50.000 0.00 0.00 39.19 3.51
1177 1781 4.099266 GCAGAGATAACACAGAGATGAGGT 59.901 45.833 0.00 0.00 0.00 3.85
1191 1795 7.877612 TGACAGAAAACATAACAGCAGAGATAA 59.122 33.333 0.00 0.00 0.00 1.75
1207 1811 6.379386 GGCATAAACCTAAGTGACAGAAAAC 58.621 40.000 0.00 0.00 0.00 2.43
1220 1824 2.174639 CCAGTCCATGGGCATAAACCTA 59.825 50.000 20.74 0.00 46.36 3.08
1221 1825 1.063717 CCAGTCCATGGGCATAAACCT 60.064 52.381 20.74 0.00 46.36 3.50
1238 1864 1.677576 TGTCTGCAGAAAACAAGCCAG 59.322 47.619 20.19 0.00 0.00 4.85
1273 1899 4.617530 CGAATTCGGTACACTCCTTCAAGA 60.618 45.833 20.16 0.00 35.37 3.02
1276 1902 2.559668 ACGAATTCGGTACACTCCTTCA 59.440 45.455 29.79 0.00 44.95 3.02
1348 1977 3.492421 AACGCCAACTTCATATTGCAG 57.508 42.857 0.00 0.00 0.00 4.41
1349 1978 3.932545 AAACGCCAACTTCATATTGCA 57.067 38.095 0.00 0.00 0.00 4.08
1350 1979 5.399013 ACTAAAACGCCAACTTCATATTGC 58.601 37.500 0.00 0.00 0.00 3.56
1351 1980 9.567848 AATTACTAAAACGCCAACTTCATATTG 57.432 29.630 0.00 0.00 0.00 1.90
1379 2009 6.877611 TCCAGAAGGAAACATTCAGTAAAC 57.122 37.500 0.00 0.00 42.23 2.01
1447 2080 5.028549 ACTTACCAAGGTATCATGCTCTG 57.971 43.478 0.00 0.00 0.00 3.35
1450 2083 6.245408 TGAAAACTTACCAAGGTATCATGCT 58.755 36.000 0.00 0.00 0.00 3.79
1462 2095 7.081857 AGTAATACCCACTGAAAACTTACCA 57.918 36.000 0.00 0.00 0.00 3.25
1487 2120 6.763135 GCAACAGAAACATATGATAGTGGAGA 59.237 38.462 10.38 0.00 0.00 3.71
1546 2179 5.803020 AGTCTGAAAATATGAAACGGCTC 57.197 39.130 0.00 0.00 0.00 4.70
1592 2225 9.214957 CACAGAGTATTTGGTGAAACTGTTATA 57.785 33.333 0.00 0.00 35.62 0.98
1612 2253 0.670546 AATTGCGGACGTCCACAGAG 60.671 55.000 32.80 17.77 35.14 3.35
1613 2254 0.250124 AAATTGCGGACGTCCACAGA 60.250 50.000 32.80 19.61 35.14 3.41
1615 2256 0.533085 TCAAATTGCGGACGTCCACA 60.533 50.000 32.80 27.23 35.14 4.17
1616 2257 0.589223 TTCAAATTGCGGACGTCCAC 59.411 50.000 32.80 24.79 35.14 4.02
1617 2258 1.529226 ATTCAAATTGCGGACGTCCA 58.471 45.000 32.80 15.50 35.14 4.02
1618 2259 2.095466 TCAATTCAAATTGCGGACGTCC 60.095 45.455 25.28 25.28 44.15 4.79
1619 2260 3.196007 TCAATTCAAATTGCGGACGTC 57.804 42.857 7.13 7.13 44.15 4.34
1621 2262 3.757184 TGATCAATTCAAATTGCGGACG 58.243 40.909 10.02 0.00 44.15 4.79
1744 2385 9.883142 ACAAATGAAAGAACTAAATTTGGAACA 57.117 25.926 8.72 0.35 40.74 3.18
1861 2502 6.704310 TGAGAAATAGTACCGGTAGCTTTTT 58.296 36.000 16.41 19.55 0.00 1.94
1862 2503 6.070938 ACTGAGAAATAGTACCGGTAGCTTTT 60.071 38.462 16.41 14.16 0.00 2.27
1863 2504 5.421374 ACTGAGAAATAGTACCGGTAGCTTT 59.579 40.000 16.41 14.35 0.00 3.51
1864 2505 4.954826 ACTGAGAAATAGTACCGGTAGCTT 59.045 41.667 16.41 5.99 0.00 3.74
1865 2506 4.534797 ACTGAGAAATAGTACCGGTAGCT 58.465 43.478 16.41 16.91 0.00 3.32
1866 2507 4.915158 ACTGAGAAATAGTACCGGTAGC 57.085 45.455 16.41 10.23 0.00 3.58
1894 2535 0.815615 CAGTTATCTCCGCCCTTGCC 60.816 60.000 0.00 0.00 0.00 4.52
1903 2544 4.329462 AAGAAGGATCGCAGTTATCTCC 57.671 45.455 0.00 0.00 0.00 3.71
1984 3589 0.174162 AAAGAAATCATGGCTGGCGC 59.826 50.000 0.00 0.00 0.00 6.53
2103 3708 0.035152 TGTGCATACCAGCCTGAAGG 60.035 55.000 0.00 0.00 38.53 3.46
2139 3744 9.676129 AAGGAGAATAGAGGAAGTAAATATCCA 57.324 33.333 0.00 0.00 38.23 3.41
2157 3762 6.894103 AGATGTTGGCTATCAAAAAGGAGAAT 59.106 34.615 0.00 0.00 37.08 2.40
2179 3784 3.560025 CCACCTAAGGACAAGTTGCAGAT 60.560 47.826 1.81 0.00 0.00 2.90
2247 3852 8.909708 TTGATTTGTTTAACAACTGAAGTGAG 57.090 30.769 10.28 0.00 37.90 3.51
2266 3871 9.226606 TCGAGTAATAAATGTCCACTTTGATTT 57.773 29.630 0.00 0.00 0.00 2.17
2386 3991 5.287035 GCAAGAACCGCTCATTCATTTTTAG 59.713 40.000 0.00 0.00 0.00 1.85
2396 4001 0.674895 GGAGTGCAAGAACCGCTCAT 60.675 55.000 0.00 0.00 40.63 2.90
2633 4238 6.180472 CCATTTCACTCACCCAAATAGTACT 58.820 40.000 0.00 0.00 0.00 2.73
2643 4248 2.162681 CACTTCCCATTTCACTCACCC 58.837 52.381 0.00 0.00 0.00 4.61
2651 4256 2.040412 AGAGGTGGACACTTCCCATTTC 59.960 50.000 10.47 0.00 42.01 2.17
2790 4402 6.206243 CCCAAGGATAGATCATCATGTTGAAC 59.794 42.308 10.41 8.08 35.11 3.18
2793 4405 4.458295 GCCCAAGGATAGATCATCATGTTG 59.542 45.833 0.00 0.00 35.11 3.33
2805 4417 6.906157 AATCAATTACATGCCCAAGGATAG 57.094 37.500 0.00 0.00 0.00 2.08
2925 4537 3.588396 TCCATCAGCAGCCCATCATATTA 59.412 43.478 0.00 0.00 0.00 0.98
2968 4580 2.757868 TCAAATTTCATAACTGGGCCGG 59.242 45.455 11.83 11.83 0.00 6.13
3028 4640 8.801913 CAATTGAGAGTTCTTGTTTCAACTTTC 58.198 33.333 0.00 0.00 35.36 2.62
3035 4647 5.172053 CGCAACAATTGAGAGTTCTTGTTTC 59.828 40.000 13.59 0.00 39.19 2.78
3041 4653 1.537202 GGCGCAACAATTGAGAGTTCT 59.463 47.619 13.59 0.00 31.66 3.01
3042 4654 1.266718 TGGCGCAACAATTGAGAGTTC 59.733 47.619 13.59 4.27 31.66 3.01
3043 4655 1.317613 TGGCGCAACAATTGAGAGTT 58.682 45.000 13.59 0.00 31.66 3.01
3044 4656 1.538047 ATGGCGCAACAATTGAGAGT 58.462 45.000 13.59 0.00 31.66 3.24
3045 4657 3.976793 ATATGGCGCAACAATTGAGAG 57.023 42.857 13.59 7.20 31.66 3.20
3046 4658 3.693578 TCAATATGGCGCAACAATTGAGA 59.306 39.130 16.65 1.16 32.99 3.27
3047 4659 4.031418 TCAATATGGCGCAACAATTGAG 57.969 40.909 16.65 5.37 32.99 3.02
3048 4660 3.181488 CCTCAATATGGCGCAACAATTGA 60.181 43.478 18.56 18.56 35.76 2.57
3049 4661 3.117794 CCTCAATATGGCGCAACAATTG 58.882 45.455 10.83 12.37 0.00 2.32
3050 4662 2.760092 ACCTCAATATGGCGCAACAATT 59.240 40.909 10.83 0.00 0.00 2.32
3051 4663 2.378038 ACCTCAATATGGCGCAACAAT 58.622 42.857 10.83 0.00 0.00 2.71
3052 4664 1.832883 ACCTCAATATGGCGCAACAA 58.167 45.000 10.83 0.00 0.00 2.83
3053 4665 1.742831 GAACCTCAATATGGCGCAACA 59.257 47.619 10.83 0.00 0.00 3.33
3054 4666 2.017049 AGAACCTCAATATGGCGCAAC 58.983 47.619 10.83 0.00 0.00 4.17
3055 4667 2.418368 AGAACCTCAATATGGCGCAA 57.582 45.000 10.83 0.00 0.00 4.85
3056 4668 2.418368 AAGAACCTCAATATGGCGCA 57.582 45.000 10.83 0.00 0.00 6.09
3057 4669 3.877508 AGTAAAGAACCTCAATATGGCGC 59.122 43.478 0.00 0.00 0.00 6.53
3058 4670 4.260784 GCAGTAAAGAACCTCAATATGGCG 60.261 45.833 0.00 0.00 0.00 5.69
3059 4671 4.260784 CGCAGTAAAGAACCTCAATATGGC 60.261 45.833 0.00 0.00 0.00 4.40
3060 4672 5.116180 TCGCAGTAAAGAACCTCAATATGG 58.884 41.667 0.00 0.00 0.00 2.74
3061 4673 6.662414 TTCGCAGTAAAGAACCTCAATATG 57.338 37.500 0.00 0.00 0.00 1.78
3062 4674 7.552687 TGATTTCGCAGTAAAGAACCTCAATAT 59.447 33.333 0.00 0.00 0.00 1.28
3063 4675 6.876789 TGATTTCGCAGTAAAGAACCTCAATA 59.123 34.615 0.00 0.00 0.00 1.90
3064 4676 5.705441 TGATTTCGCAGTAAAGAACCTCAAT 59.295 36.000 0.00 0.00 0.00 2.57
3065 4677 5.049680 GTGATTTCGCAGTAAAGAACCTCAA 60.050 40.000 0.00 0.00 0.00 3.02
3066 4678 4.451096 GTGATTTCGCAGTAAAGAACCTCA 59.549 41.667 0.00 0.00 0.00 3.86
3067 4679 4.691216 AGTGATTTCGCAGTAAAGAACCTC 59.309 41.667 0.00 0.00 0.00 3.85
3068 4680 4.642429 AGTGATTTCGCAGTAAAGAACCT 58.358 39.130 0.00 0.00 0.00 3.50
3069 4681 6.476243 TTAGTGATTTCGCAGTAAAGAACC 57.524 37.500 0.00 0.00 32.36 3.62
3072 4684 9.647797 TCTTAATTAGTGATTTCGCAGTAAAGA 57.352 29.630 0.00 0.00 37.26 2.52
3075 4687 9.431887 ACTTCTTAATTAGTGATTTCGCAGTAA 57.568 29.630 0.00 0.00 37.88 2.24
3076 4688 8.997621 ACTTCTTAATTAGTGATTTCGCAGTA 57.002 30.769 0.00 0.00 0.00 2.74
3077 4689 7.907214 ACTTCTTAATTAGTGATTTCGCAGT 57.093 32.000 0.00 0.00 0.00 4.40
3078 4690 9.088512 AGTACTTCTTAATTAGTGATTTCGCAG 57.911 33.333 0.00 0.00 0.00 5.18
3099 4711 3.793559 AGTGTTCTTTGCAACGAGTACT 58.206 40.909 14.37 14.37 0.00 2.73
3101 4713 3.554324 GTGAGTGTTCTTTGCAACGAGTA 59.446 43.478 0.00 0.00 0.00 2.59
3104 4716 2.627945 AGTGAGTGTTCTTTGCAACGA 58.372 42.857 0.00 0.00 0.00 3.85
3105 4717 3.100817 CAAGTGAGTGTTCTTTGCAACG 58.899 45.455 0.00 0.00 0.00 4.10
3107 4719 3.181511 CGACAAGTGAGTGTTCTTTGCAA 60.182 43.478 0.00 0.00 0.00 4.08
3108 4720 2.351418 CGACAAGTGAGTGTTCTTTGCA 59.649 45.455 0.00 0.00 0.00 4.08
3111 4723 2.627945 TGCGACAAGTGAGTGTTCTTT 58.372 42.857 0.00 0.00 0.00 2.52
3112 4724 2.309528 TGCGACAAGTGAGTGTTCTT 57.690 45.000 0.00 0.00 0.00 2.52
3113 4725 1.933853 GTTGCGACAAGTGAGTGTTCT 59.066 47.619 0.00 0.00 0.00 3.01
3114 4726 1.003866 GGTTGCGACAAGTGAGTGTTC 60.004 52.381 6.39 0.00 0.00 3.18
3115 4727 1.014352 GGTTGCGACAAGTGAGTGTT 58.986 50.000 6.39 0.00 0.00 3.32
3116 4728 0.178068 AGGTTGCGACAAGTGAGTGT 59.822 50.000 6.39 0.00 0.00 3.55
3117 4729 0.583438 CAGGTTGCGACAAGTGAGTG 59.417 55.000 6.39 0.00 0.00 3.51
3118 4730 0.464036 TCAGGTTGCGACAAGTGAGT 59.536 50.000 6.39 0.00 0.00 3.41
3119 4731 1.800805 ATCAGGTTGCGACAAGTGAG 58.199 50.000 6.39 0.00 0.00 3.51
3120 4732 2.299013 ACTATCAGGTTGCGACAAGTGA 59.701 45.455 6.39 5.99 0.00 3.41
3196 4808 5.121142 GTGAAAACGGTTCGAGATTTGGATA 59.879 40.000 0.00 0.00 0.00 2.59
3197 4809 4.069304 TGAAAACGGTTCGAGATTTGGAT 58.931 39.130 0.00 0.00 0.00 3.41
3207 4819 4.939509 ATCCAATAGTGAAAACGGTTCG 57.060 40.909 0.00 0.00 0.00 3.95
3213 4825 4.494199 CGCGAGGAATCCAATAGTGAAAAC 60.494 45.833 0.00 0.00 0.00 2.43
3221 4833 1.026584 TCGACGCGAGGAATCCAATA 58.973 50.000 15.93 0.00 0.00 1.90
3371 4985 2.742710 TTTCACGAGAGGCACGGACG 62.743 60.000 0.00 0.00 34.93 4.79
3372 4986 1.006571 TTTCACGAGAGGCACGGAC 60.007 57.895 0.00 0.00 34.93 4.79
3373 4987 1.289066 CTTTCACGAGAGGCACGGA 59.711 57.895 0.00 0.00 34.93 4.69
3374 4988 2.383527 GCTTTCACGAGAGGCACGG 61.384 63.158 0.00 0.00 34.93 4.94
3375 4989 1.221466 TTGCTTTCACGAGAGGCACG 61.221 55.000 10.78 0.00 35.28 5.34
3376 4990 0.944386 TTTGCTTTCACGAGAGGCAC 59.056 50.000 10.78 0.00 35.28 5.01
3388 5002 1.597663 CGAGAGTCACGGTTTTGCTTT 59.402 47.619 1.62 0.00 0.00 3.51
3445 5059 1.804326 CCGTGCCTCTCGTAAACGG 60.804 63.158 2.24 0.00 46.69 4.44
3502 5116 1.217882 CGAGAGTCACGGTTTTGCTT 58.782 50.000 1.62 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.