Multiple sequence alignment - TraesCS3A01G422300

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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 TraesCS3A01G422300 chr3A 100.000 3077 0 0 1 3077 663452945 663449869 0.000000e+00 5683.0
1 TraesCS3A01G422300 chr3A 92.431 1308 87 8 819 2121 663441983 663440683 0.000000e+00 1857.0
2 TraesCS3A01G422300 chr3A 86.994 469 54 4 2410 2872 603920740 603921207 3.520000e-144 521.0
3 TraesCS3A01G422300 chr3A 85.146 478 67 3 1 475 702516957 702517433 1.280000e-133 486.0
4 TraesCS3A01G422300 chr3A 96.491 57 0 1 642 696 702517447 702517503 3.270000e-15 93.5
5 TraesCS3A01G422300 chr3A 81.481 108 20 0 2970 3077 603921263 603921370 4.230000e-14 89.8
6 TraesCS3A01G422300 chr3D 93.317 1197 47 12 901 2096 529503848 529502684 0.000000e+00 1736.0
7 TraesCS3A01G422300 chr3D 90.218 1329 115 12 819 2140 529496682 529495362 0.000000e+00 1720.0
8 TraesCS3A01G422300 chr3D 93.473 858 53 3 2094 2948 529502649 529501792 0.000000e+00 1271.0
9 TraesCS3A01G422300 chr3D 86.450 524 68 2 2429 2951 352779258 352779779 3.440000e-159 571.0
10 TraesCS3A01G422300 chr3D 78.368 527 98 14 2410 2933 173819620 173820133 8.230000e-86 327.0
11 TraesCS3A01G422300 chr3B 91.239 1267 91 9 850 2112 700234692 700235942 0.000000e+00 1707.0
12 TraesCS3A01G422300 chr3B 89.446 1336 121 9 819 2140 700073511 700072182 0.000000e+00 1668.0
13 TraesCS3A01G422300 chr3B 83.686 472 69 7 1 465 629907877 629907407 3.640000e-119 438.0
14 TraesCS3A01G422300 chr3B 90.164 183 15 2 642 822 629907384 629907203 5.130000e-58 235.0
15 TraesCS3A01G422300 chr7D 84.239 1123 167 9 972 2087 624769085 624770204 0.000000e+00 1085.0
16 TraesCS3A01G422300 chr7D 85.767 541 75 2 2408 2946 583053070 583052530 3.440000e-159 571.0
17 TraesCS3A01G422300 chr7D 84.236 203 25 5 2664 2862 52009719 52009520 1.130000e-44 191.0
18 TraesCS3A01G422300 chr4A 82.880 1139 174 13 971 2091 604105236 604104101 0.000000e+00 1003.0
19 TraesCS3A01G422300 chr4A 89.434 265 28 0 1 265 632629807 632629543 4.920000e-88 335.0
20 TraesCS3A01G422300 chr4A 100.000 157 0 0 485 641 34855571 34855415 1.080000e-74 291.0
21 TraesCS3A01G422300 chr4A 92.308 182 11 2 643 822 632628264 632628084 3.940000e-64 255.0
22 TraesCS3A01G422300 chr4A 86.885 183 21 2 642 822 700974358 700974177 5.200000e-48 202.0
23 TraesCS3A01G422300 chr5D 81.533 1213 154 32 903 2086 560224776 560225947 0.000000e+00 935.0
24 TraesCS3A01G422300 chr5D 86.372 543 72 2 2408 2948 483724774 483724232 2.640000e-165 592.0
25 TraesCS3A01G422300 chr5D 85.903 454 61 1 15 465 559600815 559600362 5.970000e-132 481.0
26 TraesCS3A01G422300 chr5D 84.337 332 48 4 2608 2936 515237622 515237292 3.830000e-84 322.0
27 TraesCS3A01G422300 chr7A 81.129 1081 171 25 1025 2079 51662495 51661422 0.000000e+00 835.0
28 TraesCS3A01G422300 chr7A 100.000 158 0 0 485 642 57193547 57193704 3.000000e-75 292.0
29 TraesCS3A01G422300 chr7A 99.367 158 1 0 485 642 644128149 644128306 1.400000e-73 287.0
30 TraesCS3A01G422300 chr7A 95.652 161 6 1 485 645 96561992 96561833 1.090000e-64 257.0
31 TraesCS3A01G422300 chr7A 84.118 170 21 5 643 808 681976967 681977134 3.180000e-35 159.0
32 TraesCS3A01G422300 chr2D 81.071 1083 163 28 1028 2086 13770230 13771294 0.000000e+00 826.0
33 TraesCS3A01G422300 chr2D 82.966 499 83 2 2440 2936 650470567 650470069 1.680000e-122 449.0
34 TraesCS3A01G422300 chr2D 81.321 530 87 9 2410 2936 403472168 403471648 1.320000e-113 420.0
35 TraesCS3A01G422300 chr5B 80.710 1099 155 32 1014 2082 711858984 711857913 0.000000e+00 802.0
36 TraesCS3A01G422300 chr5B 85.348 546 77 3 2402 2944 91899109 91898564 2.070000e-156 562.0
37 TraesCS3A01G422300 chr5B 83.304 563 82 8 2517 3077 487922972 487922420 2.740000e-140 508.0
38 TraesCS3A01G422300 chr5B 99.387 163 1 0 485 647 477426294 477426132 2.320000e-76 296.0
39 TraesCS3A01G422300 chr2B 79.537 1080 176 29 1028 2086 25069208 25070263 0.000000e+00 728.0
40 TraesCS3A01G422300 chr2B 100.000 157 0 0 485 641 100912753 100912597 1.080000e-74 291.0
41 TraesCS3A01G422300 chr2B 82.249 169 26 3 643 808 303032811 303032978 3.200000e-30 143.0
42 TraesCS3A01G422300 chr1D 84.660 515 77 2 2410 2922 470652873 470652359 2.120000e-141 512.0
43 TraesCS3A01G422300 chr1D 84.211 114 9 4 2970 3076 463982163 463982274 5.430000e-18 102.0
44 TraesCS3A01G422300 chr2A 85.177 479 66 4 1 475 179274994 179274517 1.280000e-133 486.0
45 TraesCS3A01G422300 chr2A 80.478 502 86 5 2437 2936 657059788 657060279 1.040000e-99 374.0
46 TraesCS3A01G422300 chr2A 91.257 183 13 2 642 822 179274503 179274322 2.370000e-61 246.0
47 TraesCS3A01G422300 chr6D 83.026 542 85 7 2410 2948 3994908 3995445 4.610000e-133 484.0
48 TraesCS3A01G422300 chr4B 100.000 158 0 0 484 641 568447274 568447117 3.000000e-75 292.0
49 TraesCS3A01G422300 chr6B 99.363 157 1 0 485 641 356581040 356580884 5.020000e-73 285.0
50 TraesCS3A01G422300 chr6B 84.946 186 24 3 642 825 688896428 688896245 5.240000e-43 185.0
51 TraesCS3A01G422300 chr6B 82.840 169 25 3 643 808 10041350 10041517 6.870000e-32 148.0
52 TraesCS3A01G422300 chr6A 93.789 161 9 1 482 641 143550091 143550251 1.100000e-59 241.0


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 TraesCS3A01G422300 chr3A 663449869 663452945 3076 True 5683.00 5683 100.0000 1 3077 1 chr3A.!!$R2 3076
1 TraesCS3A01G422300 chr3A 663440683 663441983 1300 True 1857.00 1857 92.4310 819 2121 1 chr3A.!!$R1 1302
2 TraesCS3A01G422300 chr3A 603920740 603921370 630 False 305.40 521 84.2375 2410 3077 2 chr3A.!!$F1 667
3 TraesCS3A01G422300 chr3A 702516957 702517503 546 False 289.75 486 90.8185 1 696 2 chr3A.!!$F2 695
4 TraesCS3A01G422300 chr3D 529495362 529496682 1320 True 1720.00 1720 90.2180 819 2140 1 chr3D.!!$R1 1321
5 TraesCS3A01G422300 chr3D 529501792 529503848 2056 True 1503.50 1736 93.3950 901 2948 2 chr3D.!!$R2 2047
6 TraesCS3A01G422300 chr3D 352779258 352779779 521 False 571.00 571 86.4500 2429 2951 1 chr3D.!!$F2 522
7 TraesCS3A01G422300 chr3D 173819620 173820133 513 False 327.00 327 78.3680 2410 2933 1 chr3D.!!$F1 523
8 TraesCS3A01G422300 chr3B 700234692 700235942 1250 False 1707.00 1707 91.2390 850 2112 1 chr3B.!!$F1 1262
9 TraesCS3A01G422300 chr3B 700072182 700073511 1329 True 1668.00 1668 89.4460 819 2140 1 chr3B.!!$R1 1321
10 TraesCS3A01G422300 chr3B 629907203 629907877 674 True 336.50 438 86.9250 1 822 2 chr3B.!!$R2 821
11 TraesCS3A01G422300 chr7D 624769085 624770204 1119 False 1085.00 1085 84.2390 972 2087 1 chr7D.!!$F1 1115
12 TraesCS3A01G422300 chr7D 583052530 583053070 540 True 571.00 571 85.7670 2408 2946 1 chr7D.!!$R2 538
13 TraesCS3A01G422300 chr4A 604104101 604105236 1135 True 1003.00 1003 82.8800 971 2091 1 chr4A.!!$R2 1120
14 TraesCS3A01G422300 chr4A 632628084 632629807 1723 True 295.00 335 90.8710 1 822 2 chr4A.!!$R4 821
15 TraesCS3A01G422300 chr5D 560224776 560225947 1171 False 935.00 935 81.5330 903 2086 1 chr5D.!!$F1 1183
16 TraesCS3A01G422300 chr5D 483724232 483724774 542 True 592.00 592 86.3720 2408 2948 1 chr5D.!!$R1 540
17 TraesCS3A01G422300 chr7A 51661422 51662495 1073 True 835.00 835 81.1290 1025 2079 1 chr7A.!!$R1 1054
18 TraesCS3A01G422300 chr2D 13770230 13771294 1064 False 826.00 826 81.0710 1028 2086 1 chr2D.!!$F1 1058
19 TraesCS3A01G422300 chr2D 403471648 403472168 520 True 420.00 420 81.3210 2410 2936 1 chr2D.!!$R1 526
20 TraesCS3A01G422300 chr5B 711857913 711858984 1071 True 802.00 802 80.7100 1014 2082 1 chr5B.!!$R4 1068
21 TraesCS3A01G422300 chr5B 91898564 91899109 545 True 562.00 562 85.3480 2402 2944 1 chr5B.!!$R1 542
22 TraesCS3A01G422300 chr5B 487922420 487922972 552 True 508.00 508 83.3040 2517 3077 1 chr5B.!!$R3 560
23 TraesCS3A01G422300 chr2B 25069208 25070263 1055 False 728.00 728 79.5370 1028 2086 1 chr2B.!!$F1 1058
24 TraesCS3A01G422300 chr1D 470652359 470652873 514 True 512.00 512 84.6600 2410 2922 1 chr1D.!!$R1 512
25 TraesCS3A01G422300 chr2A 179274322 179274994 672 True 366.00 486 88.2170 1 822 2 chr2A.!!$R1 821
26 TraesCS3A01G422300 chr6D 3994908 3995445 537 False 484.00 484 83.0260 2410 2948 1 chr6D.!!$F1 538

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
349 1405 0.036306 ACTTGTTAGAGCCCCAACCG 59.964 55.0 0.0 0.0 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2121 3334 2.97133 ACCATGATTCAAGCCCAAACAA 59.029 40.909 0.0 0.0 0.0 2.83 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
46 47 6.062258 TGATTTAAAAGATCCTTCGTCCCT 57.938 37.500 0.00 0.00 0.00 4.20
57 58 4.205587 TCCTTCGTCCCTTCTATGACTAC 58.794 47.826 0.00 0.00 0.00 2.73
70 71 7.310113 CCTTCTATGACTACATCCCCTACATTC 60.310 44.444 0.00 0.00 37.87 2.67
73 74 4.878968 TGACTACATCCCCTACATTCAGA 58.121 43.478 0.00 0.00 0.00 3.27
76 77 5.529289 ACTACATCCCCTACATTCAGAGAA 58.471 41.667 0.00 0.00 0.00 2.87
113 114 7.575414 TTCCTTTTATTGCCATTAGCGATTA 57.425 32.000 0.00 0.00 43.62 1.75
145 146 4.762289 AGCAGAGTTACTATCCCCTTTG 57.238 45.455 0.00 0.00 0.00 2.77
150 151 6.127140 GCAGAGTTACTATCCCCTTTGAGTAA 60.127 42.308 0.00 0.00 33.17 2.24
154 155 4.838904 ACTATCCCCTTTGAGTAACCAC 57.161 45.455 0.00 0.00 0.00 4.16
238 239 5.239306 CACTAACAATTCAGTCTTCCTGCAA 59.761 40.000 0.00 0.00 41.25 4.08
244 245 4.572985 TTCAGTCTTCCTGCAAAACATG 57.427 40.909 0.00 0.00 41.25 3.21
245 246 3.819368 TCAGTCTTCCTGCAAAACATGA 58.181 40.909 0.00 0.00 41.25 3.07
259 260 6.604396 TGCAAAACATGACTGGATCTATCATT 59.396 34.615 0.00 0.00 30.58 2.57
271 282 5.545723 TGGATCTATCATTCCTCCTTCTTCC 59.454 44.000 0.00 0.00 32.95 3.46
281 292 6.952605 TTCCTCCTTCTTCCTTCTCAATAA 57.047 37.500 0.00 0.00 0.00 1.40
283 294 6.893583 TCCTCCTTCTTCCTTCTCAATAATG 58.106 40.000 0.00 0.00 0.00 1.90
286 297 5.192522 TCCTTCTTCCTTCTCAATAATGGCT 59.807 40.000 0.00 0.00 0.00 4.75
298 309 8.083828 TCTCAATAATGGCTAACTCTTCTCTT 57.916 34.615 0.00 0.00 0.00 2.85
304 1360 9.771534 ATAATGGCTAACTCTTCTCTTATGTTC 57.228 33.333 0.00 0.00 0.00 3.18
305 1361 6.859112 TGGCTAACTCTTCTCTTATGTTCT 57.141 37.500 0.00 0.00 0.00 3.01
334 1390 4.796038 AATCTTCTCATGCCCAAACTTG 57.204 40.909 0.00 0.00 0.00 3.16
340 1396 4.326826 TCTCATGCCCAAACTTGTTAGAG 58.673 43.478 0.00 0.00 0.00 2.43
349 1405 0.036306 ACTTGTTAGAGCCCCAACCG 59.964 55.000 0.00 0.00 0.00 4.44
361 1417 2.030540 GCCCCAACCGTTAAAGAACTTC 60.031 50.000 0.00 0.00 33.01 3.01
373 1429 6.468000 CGTTAAAGAACTTCTTGAAGCGTTTT 59.532 34.615 9.98 9.79 36.71 2.43
375 1431 9.281075 GTTAAAGAACTTCTTGAAGCGTTTTAA 57.719 29.630 9.98 13.10 36.71 1.52
381 1437 7.679659 ACTTCTTGAAGCGTTTTAATTTGAC 57.320 32.000 9.98 0.00 0.00 3.18
382 1438 7.254852 ACTTCTTGAAGCGTTTTAATTTGACA 58.745 30.769 9.98 0.00 0.00 3.58
393 1449 9.856803 GCGTTTTAATTTGACATTTAACACATT 57.143 25.926 0.00 0.00 0.00 2.71
433 1489 7.755373 GCTTTAACATACTGGTTCCAAATCTTC 59.245 37.037 0.00 0.00 32.29 2.87
442 1498 3.507622 GGTTCCAAATCTTCTCCACCAAG 59.492 47.826 0.00 0.00 0.00 3.61
444 1500 2.986019 TCCAAATCTTCTCCACCAAGGA 59.014 45.455 0.00 0.00 46.75 3.36
454 1510 3.838244 TCCACCAAGGATAGGAAATCG 57.162 47.619 0.00 0.00 43.07 3.34
487 1543 9.784531 TTGATCAAATCTAAACTCTCTTTCAGT 57.215 29.630 5.45 0.00 0.00 3.41
488 1544 9.212641 TGATCAAATCTAAACTCTCTTTCAGTG 57.787 33.333 0.00 0.00 0.00 3.66
489 1545 7.969536 TCAAATCTAAACTCTCTTTCAGTGG 57.030 36.000 0.00 0.00 0.00 4.00
490 1546 6.428159 TCAAATCTAAACTCTCTTTCAGTGGC 59.572 38.462 0.00 0.00 0.00 5.01
491 1547 3.914312 TCTAAACTCTCTTTCAGTGGCG 58.086 45.455 0.00 0.00 0.00 5.69
492 1548 1.884235 AAACTCTCTTTCAGTGGCGG 58.116 50.000 0.00 0.00 0.00 6.13
493 1549 1.048601 AACTCTCTTTCAGTGGCGGA 58.951 50.000 0.00 0.00 0.00 5.54
494 1550 0.605589 ACTCTCTTTCAGTGGCGGAG 59.394 55.000 0.00 0.00 0.00 4.63
507 1563 2.034066 CGGAGCTTGGCCCAGAAA 59.966 61.111 8.31 0.00 0.00 2.52
508 1564 1.603455 CGGAGCTTGGCCCAGAAAA 60.603 57.895 8.31 0.00 0.00 2.29
509 1565 1.866853 CGGAGCTTGGCCCAGAAAAC 61.867 60.000 8.31 0.00 0.00 2.43
510 1566 0.540597 GGAGCTTGGCCCAGAAAACT 60.541 55.000 8.31 0.00 0.00 2.66
511 1567 0.600057 GAGCTTGGCCCAGAAAACTG 59.400 55.000 8.31 0.00 0.00 3.16
512 1568 0.829182 AGCTTGGCCCAGAAAACTGG 60.829 55.000 8.31 9.05 43.86 4.00
518 1574 3.373565 CCAGAAAACTGGGCGGGC 61.374 66.667 8.23 0.00 40.68 6.13
519 1575 3.373565 CAGAAAACTGGGCGGGCC 61.374 66.667 14.65 14.65 0.00 5.80
530 1586 3.766691 GCGGGCCGACAGTAGGAA 61.767 66.667 33.44 0.00 0.00 3.36
531 1587 2.975536 CGGGCCGACAGTAGGAAA 59.024 61.111 24.41 0.00 0.00 3.13
532 1588 1.153628 CGGGCCGACAGTAGGAAAG 60.154 63.158 24.41 0.00 0.00 2.62
533 1589 1.601419 CGGGCCGACAGTAGGAAAGA 61.601 60.000 24.41 0.00 0.00 2.52
534 1590 0.611714 GGGCCGACAGTAGGAAAGAA 59.388 55.000 3.41 0.00 0.00 2.52
535 1591 1.675116 GGGCCGACAGTAGGAAAGAAC 60.675 57.143 3.41 0.00 0.00 3.01
536 1592 1.275573 GGCCGACAGTAGGAAAGAACT 59.724 52.381 3.41 0.00 0.00 3.01
537 1593 2.494870 GGCCGACAGTAGGAAAGAACTA 59.505 50.000 3.41 0.00 0.00 2.24
538 1594 3.132467 GGCCGACAGTAGGAAAGAACTAT 59.868 47.826 3.41 0.00 0.00 2.12
539 1595 4.382793 GGCCGACAGTAGGAAAGAACTATT 60.383 45.833 3.41 0.00 0.00 1.73
540 1596 4.567159 GCCGACAGTAGGAAAGAACTATTG 59.433 45.833 3.41 0.00 35.17 1.90
541 1597 5.109903 CCGACAGTAGGAAAGAACTATTGG 58.890 45.833 0.00 0.00 33.84 3.16
542 1598 5.109903 CGACAGTAGGAAAGAACTATTGGG 58.890 45.833 0.00 0.00 33.84 4.12
543 1599 5.105473 CGACAGTAGGAAAGAACTATTGGGA 60.105 44.000 0.00 0.00 33.84 4.37
544 1600 6.407074 CGACAGTAGGAAAGAACTATTGGGAT 60.407 42.308 0.00 0.00 33.84 3.85
545 1601 6.653989 ACAGTAGGAAAGAACTATTGGGATG 58.346 40.000 0.00 0.00 33.84 3.51
546 1602 6.058183 CAGTAGGAAAGAACTATTGGGATGG 58.942 44.000 0.00 0.00 0.00 3.51
547 1603 5.731678 AGTAGGAAAGAACTATTGGGATGGT 59.268 40.000 0.00 0.00 0.00 3.55
548 1604 4.860022 AGGAAAGAACTATTGGGATGGTG 58.140 43.478 0.00 0.00 0.00 4.17
549 1605 4.292306 AGGAAAGAACTATTGGGATGGTGT 59.708 41.667 0.00 0.00 0.00 4.16
550 1606 5.016831 GGAAAGAACTATTGGGATGGTGTT 58.983 41.667 0.00 0.00 0.00 3.32
551 1607 5.480422 GGAAAGAACTATTGGGATGGTGTTT 59.520 40.000 0.00 0.00 0.00 2.83
552 1608 6.350194 GGAAAGAACTATTGGGATGGTGTTTC 60.350 42.308 0.00 0.00 33.88 2.78
553 1609 5.255397 AGAACTATTGGGATGGTGTTTCA 57.745 39.130 0.00 0.00 0.00 2.69
554 1610 5.831103 AGAACTATTGGGATGGTGTTTCAT 58.169 37.500 0.00 0.00 0.00 2.57
555 1611 5.653769 AGAACTATTGGGATGGTGTTTCATG 59.346 40.000 0.00 0.00 0.00 3.07
556 1612 4.280819 ACTATTGGGATGGTGTTTCATGG 58.719 43.478 0.00 0.00 0.00 3.66
557 1613 1.265236 TTGGGATGGTGTTTCATGGC 58.735 50.000 0.00 0.00 0.00 4.40
558 1614 0.614415 TGGGATGGTGTTTCATGGCC 60.614 55.000 0.00 0.00 0.00 5.36
559 1615 1.329913 GGGATGGTGTTTCATGGCCC 61.330 60.000 0.00 0.00 0.00 5.80
560 1616 0.614415 GGATGGTGTTTCATGGCCCA 60.614 55.000 0.00 0.00 0.00 5.36
561 1617 1.265236 GATGGTGTTTCATGGCCCAA 58.735 50.000 0.00 0.00 0.00 4.12
562 1618 1.622811 GATGGTGTTTCATGGCCCAAA 59.377 47.619 0.00 0.00 0.00 3.28
563 1619 1.500474 TGGTGTTTCATGGCCCAAAA 58.500 45.000 0.00 0.00 0.00 2.44
564 1620 1.415659 TGGTGTTTCATGGCCCAAAAG 59.584 47.619 0.00 0.00 0.00 2.27
565 1621 1.416030 GGTGTTTCATGGCCCAAAAGT 59.584 47.619 0.00 0.00 0.00 2.66
566 1622 2.630580 GGTGTTTCATGGCCCAAAAGTA 59.369 45.455 0.00 0.00 0.00 2.24
567 1623 3.070302 GGTGTTTCATGGCCCAAAAGTAA 59.930 43.478 0.00 0.00 0.00 2.24
568 1624 4.306600 GTGTTTCATGGCCCAAAAGTAAG 58.693 43.478 0.00 0.00 0.00 2.34
569 1625 3.964031 TGTTTCATGGCCCAAAAGTAAGT 59.036 39.130 0.00 0.00 0.00 2.24
570 1626 5.010213 GTGTTTCATGGCCCAAAAGTAAGTA 59.990 40.000 0.00 0.00 0.00 2.24
571 1627 5.777732 TGTTTCATGGCCCAAAAGTAAGTAT 59.222 36.000 0.00 0.00 0.00 2.12
572 1628 6.948886 TGTTTCATGGCCCAAAAGTAAGTATA 59.051 34.615 0.00 0.00 0.00 1.47
573 1629 7.094118 TGTTTCATGGCCCAAAAGTAAGTATAC 60.094 37.037 0.00 0.00 0.00 1.47
574 1630 6.068461 TCATGGCCCAAAAGTAAGTATACA 57.932 37.500 0.00 0.00 34.29 2.29
575 1631 5.883673 TCATGGCCCAAAAGTAAGTATACAC 59.116 40.000 0.00 0.00 34.29 2.90
576 1632 5.508280 TGGCCCAAAAGTAAGTATACACT 57.492 39.130 0.00 0.00 36.19 3.55
577 1633 6.623979 TGGCCCAAAAGTAAGTATACACTA 57.376 37.500 0.00 0.00 33.48 2.74
578 1634 6.408869 TGGCCCAAAAGTAAGTATACACTAC 58.591 40.000 0.00 6.37 33.48 2.73
579 1635 6.013553 TGGCCCAAAAGTAAGTATACACTACA 60.014 38.462 0.00 0.00 33.48 2.74
580 1636 6.537660 GGCCCAAAAGTAAGTATACACTACAG 59.462 42.308 5.50 0.00 33.48 2.74
581 1637 7.325694 GCCCAAAAGTAAGTATACACTACAGA 58.674 38.462 5.50 0.00 33.48 3.41
582 1638 7.820872 GCCCAAAAGTAAGTATACACTACAGAA 59.179 37.037 5.50 0.00 33.48 3.02
583 1639 9.715121 CCCAAAAGTAAGTATACACTACAGAAA 57.285 33.333 5.50 0.00 33.48 2.52
593 1649 9.314321 AGTATACACTACAGAAAAATCGAATGG 57.686 33.333 5.50 0.00 31.45 3.16
594 1650 5.880054 ACACTACAGAAAAATCGAATGGG 57.120 39.130 0.00 0.00 0.00 4.00
595 1651 4.156008 ACACTACAGAAAAATCGAATGGGC 59.844 41.667 0.00 0.00 0.00 5.36
596 1652 4.396166 CACTACAGAAAAATCGAATGGGCT 59.604 41.667 0.00 0.00 0.00 5.19
597 1653 3.855689 ACAGAAAAATCGAATGGGCTG 57.144 42.857 0.00 0.00 0.00 4.85
598 1654 2.493278 ACAGAAAAATCGAATGGGCTGG 59.507 45.455 11.08 0.00 0.00 4.85
599 1655 2.102578 AGAAAAATCGAATGGGCTGGG 58.897 47.619 0.00 0.00 0.00 4.45
600 1656 0.536724 AAAAATCGAATGGGCTGGGC 59.463 50.000 0.00 0.00 0.00 5.36
601 1657 1.666209 AAAATCGAATGGGCTGGGCG 61.666 55.000 0.00 0.00 0.00 6.13
602 1658 4.569180 ATCGAATGGGCTGGGCGG 62.569 66.667 0.00 0.00 0.00 6.13
627 1683 2.361610 CCCATTCGGCCTTGCTGT 60.362 61.111 0.00 0.00 36.18 4.40
628 1684 1.077787 CCCATTCGGCCTTGCTGTA 60.078 57.895 0.00 0.00 36.18 2.74
629 1685 1.097547 CCCATTCGGCCTTGCTGTAG 61.098 60.000 0.00 0.00 36.18 2.74
630 1686 1.718757 CCATTCGGCCTTGCTGTAGC 61.719 60.000 0.00 0.00 42.50 3.58
631 1687 0.745845 CATTCGGCCTTGCTGTAGCT 60.746 55.000 0.00 0.00 42.66 3.32
632 1688 0.462759 ATTCGGCCTTGCTGTAGCTC 60.463 55.000 0.00 0.00 42.66 4.09
633 1689 2.512515 CGGCCTTGCTGTAGCTCC 60.513 66.667 0.00 1.14 42.66 4.70
634 1690 2.512515 GGCCTTGCTGTAGCTCCG 60.513 66.667 5.38 0.00 42.66 4.63
635 1691 3.198489 GCCTTGCTGTAGCTCCGC 61.198 66.667 5.38 0.00 42.66 5.54
636 1692 2.512515 CCTTGCTGTAGCTCCGCC 60.513 66.667 5.38 0.00 42.66 6.13
637 1693 2.265739 CTTGCTGTAGCTCCGCCA 59.734 61.111 5.38 0.00 42.66 5.69
638 1694 2.047274 TTGCTGTAGCTCCGCCAC 60.047 61.111 5.38 0.00 42.66 5.01
639 1695 2.513026 CTTGCTGTAGCTCCGCCACT 62.513 60.000 5.38 0.00 42.66 4.00
640 1696 2.510238 GCTGTAGCTCCGCCACTG 60.510 66.667 0.00 0.00 38.21 3.66
720 1778 5.227908 TGGTCTGAAACGTCTCTAACAATC 58.772 41.667 0.00 0.00 0.00 2.67
744 1802 7.394816 TCTTCCTAACATTAACTTGAGGGAAG 58.605 38.462 0.00 0.00 44.80 3.46
773 1831 3.118261 TCCCAATCACTGCTCATAAGGAC 60.118 47.826 0.00 0.00 0.00 3.85
776 1834 3.724508 ATCACTGCTCATAAGGACTCG 57.275 47.619 0.00 0.00 0.00 4.18
810 1868 1.605453 GGTCGGATGGGCTTGGTTA 59.395 57.895 0.00 0.00 0.00 2.85
816 1874 2.878406 CGGATGGGCTTGGTTATTAGTG 59.122 50.000 0.00 0.00 0.00 2.74
841 1899 2.099098 AGAGTTGGTTTGGTTTTCAGCG 59.901 45.455 0.00 0.00 0.00 5.18
918 1976 1.135083 ACGATCAGTAAAGAGCCACGG 60.135 52.381 0.00 0.00 0.00 4.94
947 2020 2.033801 ACTCACTACCACACACACGTAC 59.966 50.000 0.00 0.00 0.00 3.67
1167 2280 2.350895 CACCAGTTCGCCATCCCA 59.649 61.111 0.00 0.00 0.00 4.37
1171 2284 1.811266 CAGTTCGCCATCCCAGTCG 60.811 63.158 0.00 0.00 0.00 4.18
1262 2375 2.361737 GGTGGGCTTCTTCCAGGC 60.362 66.667 0.00 0.00 38.65 4.85
2121 3334 2.691526 TCGTGCTTATGACCGGACTTAT 59.308 45.455 9.46 0.00 0.00 1.73
2140 3353 6.400568 ACTTATTGTTTGGGCTTGAATCATG 58.599 36.000 0.00 0.00 0.00 3.07
2154 3367 7.255695 GGCTTGAATCATGGTATGAATGAATGA 60.256 37.037 0.00 0.00 43.50 2.57
2258 3472 5.877012 AGATTGACTTCGTGCTTGTATCATT 59.123 36.000 0.00 0.00 0.00 2.57
2273 3487 9.929180 GCTTGTATCATTAGTAGAATATGGACA 57.071 33.333 0.00 0.00 0.00 4.02
2291 3505 6.911250 TGGACAACTAGAAATAGACAGTGA 57.089 37.500 0.00 0.00 0.00 3.41
2298 3512 9.692749 CAACTAGAAATAGACAGTGAGTTTGTA 57.307 33.333 0.00 0.00 0.00 2.41
2339 3553 6.546428 TTATTTTTGTGTCCCCTTGTTTGA 57.454 33.333 0.00 0.00 0.00 2.69
2364 3578 4.970003 CGATGCAGTTTTTATTTCCGATCC 59.030 41.667 0.00 0.00 0.00 3.36
2389 3603 7.339721 CCGGAGATTAGCATATTACTTCCTCTA 59.660 40.741 0.00 0.00 0.00 2.43
2521 3736 3.344515 GACTTCTTAAACGGGCCTCAAT 58.655 45.455 0.84 0.00 0.00 2.57
2628 3843 4.954118 AGGTCCAGCCCACCACGA 62.954 66.667 0.00 0.00 36.23 4.35
2730 3952 1.078426 CCCTTTCCGGTTGCGATCT 60.078 57.895 0.00 0.00 0.00 2.75
2750 3972 0.253894 CATCCACCACCATGAGCAGA 59.746 55.000 0.00 0.00 0.00 4.26
2911 4210 2.123251 GGAGCTGGATCCTCCCGA 60.123 66.667 14.23 0.00 42.46 5.14
2957 4256 2.672307 AGTCCGCGTCGTCTCCTT 60.672 61.111 4.92 0.00 0.00 3.36
2959 4258 2.359602 TCCGCGTCGTCTCCTTCT 60.360 61.111 4.92 0.00 0.00 2.85
2961 4260 2.100603 CGCGTCGTCTCCTTCTCC 59.899 66.667 0.00 0.00 0.00 3.71
2964 4263 2.490685 GTCGTCTCCTTCTCCCGC 59.509 66.667 0.00 0.00 0.00 6.13
2966 4265 4.194720 CGTCTCCTTCTCCCGCCG 62.195 72.222 0.00 0.00 0.00 6.46
2967 4266 3.069318 GTCTCCTTCTCCCGCCGT 61.069 66.667 0.00 0.00 0.00 5.68
3007 4306 3.770040 CCTCCGGGTCACATGCGA 61.770 66.667 0.00 0.00 0.00 5.10
3028 4327 2.825836 CCGGAGTTGGAGGCATGC 60.826 66.667 9.90 9.90 0.00 4.06
3029 4328 2.046023 CGGAGTTGGAGGCATGCA 60.046 61.111 21.36 0.00 0.00 3.96
3030 4329 2.401766 CGGAGTTGGAGGCATGCAC 61.402 63.158 21.36 12.64 0.00 4.57
3032 4331 2.360350 AGTTGGAGGCATGCACCG 60.360 61.111 21.36 0.00 33.69 4.94
3033 4332 4.120331 GTTGGAGGCATGCACCGC 62.120 66.667 21.36 14.20 33.69 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 7.073208 TGAATGTAGGGGATGTAGTCATAGAA 58.927 38.462 0.00 0.00 34.06 2.10
57 58 5.557576 TCATTCTCTGAATGTAGGGGATG 57.442 43.478 16.66 0.00 0.00 3.51
70 71 9.971922 AAAAGGAAAAACACTATTCATTCTCTG 57.028 29.630 0.00 0.00 29.20 3.35
76 77 9.435688 GGCAATAAAAGGAAAAACACTATTCAT 57.564 29.630 0.00 0.00 0.00 2.57
145 146 6.937392 ACAATCTAAAGAGAGGTGGTTACTC 58.063 40.000 0.00 0.00 34.35 2.59
150 151 5.568620 ACAACAATCTAAAGAGAGGTGGT 57.431 39.130 4.99 0.00 34.35 4.16
238 239 7.146715 AGGAATGATAGATCCAGTCATGTTT 57.853 36.000 6.01 0.00 38.23 2.83
244 245 5.779771 AGAAGGAGGAATGATAGATCCAGTC 59.220 44.000 0.00 0.00 38.23 3.51
245 246 5.725490 AGAAGGAGGAATGATAGATCCAGT 58.275 41.667 0.00 0.00 38.23 4.00
259 260 6.126652 CCATTATTGAGAAGGAAGAAGGAGGA 60.127 42.308 0.00 0.00 0.00 3.71
271 282 8.203485 AGAGAAGAGTTAGCCATTATTGAGAAG 58.797 37.037 0.00 0.00 0.00 2.85
281 292 7.430760 AGAACATAAGAGAAGAGTTAGCCAT 57.569 36.000 0.00 0.00 0.00 4.40
283 294 8.554835 AAAAGAACATAAGAGAAGAGTTAGCC 57.445 34.615 0.00 0.00 0.00 3.93
312 1368 5.324409 ACAAGTTTGGGCATGAGAAGATTA 58.676 37.500 0.00 0.00 0.00 1.75
334 1390 2.477845 TTAACGGTTGGGGCTCTAAC 57.522 50.000 3.82 3.82 34.18 2.34
340 1396 1.612676 AGTTCTTTAACGGTTGGGGC 58.387 50.000 3.07 0.00 40.73 5.80
349 1405 7.736031 AAAACGCTTCAAGAAGTTCTTTAAC 57.264 32.000 15.60 8.24 40.45 2.01
397 1453 6.384305 ACCAGTATGTTAAAGCTACAGATCCT 59.616 38.462 0.00 0.00 0.00 3.24
400 1456 7.048512 GGAACCAGTATGTTAAAGCTACAGAT 58.951 38.462 0.00 0.00 0.00 2.90
418 1474 3.084786 GGTGGAGAAGATTTGGAACCAG 58.915 50.000 0.00 0.00 0.00 4.00
442 1498 6.931281 TGATCAAATCTGACGATTTCCTATCC 59.069 38.462 0.00 0.00 45.57 2.59
444 1500 8.737168 TTTGATCAAATCTGACGATTTCCTAT 57.263 30.769 16.91 0.00 45.57 2.57
465 1521 6.428159 GCCACTGAAAGAGAGTTTAGATTTGA 59.572 38.462 0.00 0.00 37.43 2.69
467 1523 5.409826 CGCCACTGAAAGAGAGTTTAGATTT 59.590 40.000 0.00 0.00 37.43 2.17
470 1526 3.306088 CCGCCACTGAAAGAGAGTTTAGA 60.306 47.826 0.00 0.00 37.43 2.10
471 1527 2.996621 CCGCCACTGAAAGAGAGTTTAG 59.003 50.000 0.00 0.00 37.43 1.85
472 1528 2.631062 TCCGCCACTGAAAGAGAGTTTA 59.369 45.455 0.00 0.00 37.43 2.01
474 1530 1.001406 CTCCGCCACTGAAAGAGAGTT 59.999 52.381 0.00 0.00 37.43 3.01
475 1531 0.605589 CTCCGCCACTGAAAGAGAGT 59.394 55.000 0.00 0.00 37.43 3.24
476 1532 0.739112 GCTCCGCCACTGAAAGAGAG 60.739 60.000 0.00 0.00 37.43 3.20
477 1533 1.188219 AGCTCCGCCACTGAAAGAGA 61.188 55.000 0.00 0.00 37.43 3.10
478 1534 0.321122 AAGCTCCGCCACTGAAAGAG 60.321 55.000 0.00 0.00 37.43 2.85
479 1535 0.603707 CAAGCTCCGCCACTGAAAGA 60.604 55.000 0.00 0.00 37.43 2.52
480 1536 1.580845 CCAAGCTCCGCCACTGAAAG 61.581 60.000 0.00 0.00 42.29 2.62
481 1537 1.600636 CCAAGCTCCGCCACTGAAA 60.601 57.895 0.00 0.00 0.00 2.69
482 1538 2.032528 CCAAGCTCCGCCACTGAA 59.967 61.111 0.00 0.00 0.00 3.02
489 1545 4.722700 TTCTGGGCCAAGCTCCGC 62.723 66.667 8.04 0.00 0.00 5.54
490 1546 1.603455 TTTTCTGGGCCAAGCTCCG 60.603 57.895 8.04 0.00 0.00 4.63
491 1547 0.540597 AGTTTTCTGGGCCAAGCTCC 60.541 55.000 8.04 0.00 0.00 4.70
492 1548 0.600057 CAGTTTTCTGGGCCAAGCTC 59.400 55.000 8.04 0.00 43.61 4.09
493 1549 2.737503 CAGTTTTCTGGGCCAAGCT 58.262 52.632 8.04 0.00 43.61 3.74
502 1558 3.373565 GGCCCGCCCAGTTTTCTG 61.374 66.667 0.00 0.00 46.60 3.02
513 1569 3.305177 TTTCCTACTGTCGGCCCGC 62.305 63.158 0.00 0.00 0.00 6.13
514 1570 1.153628 CTTTCCTACTGTCGGCCCG 60.154 63.158 0.00 0.00 0.00 6.13
515 1571 0.611714 TTCTTTCCTACTGTCGGCCC 59.388 55.000 0.00 0.00 0.00 5.80
516 1572 1.275573 AGTTCTTTCCTACTGTCGGCC 59.724 52.381 0.00 0.00 0.00 6.13
517 1573 2.745515 AGTTCTTTCCTACTGTCGGC 57.254 50.000 0.00 0.00 0.00 5.54
518 1574 5.109903 CCAATAGTTCTTTCCTACTGTCGG 58.890 45.833 0.00 0.00 0.00 4.79
519 1575 5.105473 TCCCAATAGTTCTTTCCTACTGTCG 60.105 44.000 0.00 0.00 0.00 4.35
520 1576 6.295719 TCCCAATAGTTCTTTCCTACTGTC 57.704 41.667 0.00 0.00 0.00 3.51
521 1577 6.353082 CCATCCCAATAGTTCTTTCCTACTGT 60.353 42.308 0.00 0.00 0.00 3.55
522 1578 6.058183 CCATCCCAATAGTTCTTTCCTACTG 58.942 44.000 0.00 0.00 0.00 2.74
523 1579 5.731678 ACCATCCCAATAGTTCTTTCCTACT 59.268 40.000 0.00 0.00 0.00 2.57
524 1580 5.823045 CACCATCCCAATAGTTCTTTCCTAC 59.177 44.000 0.00 0.00 0.00 3.18
525 1581 5.491078 ACACCATCCCAATAGTTCTTTCCTA 59.509 40.000 0.00 0.00 0.00 2.94
526 1582 4.292306 ACACCATCCCAATAGTTCTTTCCT 59.708 41.667 0.00 0.00 0.00 3.36
527 1583 4.600062 ACACCATCCCAATAGTTCTTTCC 58.400 43.478 0.00 0.00 0.00 3.13
528 1584 6.208599 TGAAACACCATCCCAATAGTTCTTTC 59.791 38.462 0.00 0.00 0.00 2.62
529 1585 6.074648 TGAAACACCATCCCAATAGTTCTTT 58.925 36.000 0.00 0.00 0.00 2.52
530 1586 5.640147 TGAAACACCATCCCAATAGTTCTT 58.360 37.500 0.00 0.00 0.00 2.52
531 1587 5.255397 TGAAACACCATCCCAATAGTTCT 57.745 39.130 0.00 0.00 0.00 3.01
532 1588 5.163519 CCATGAAACACCATCCCAATAGTTC 60.164 44.000 0.00 0.00 0.00 3.01
533 1589 4.711355 CCATGAAACACCATCCCAATAGTT 59.289 41.667 0.00 0.00 0.00 2.24
534 1590 4.280819 CCATGAAACACCATCCCAATAGT 58.719 43.478 0.00 0.00 0.00 2.12
535 1591 3.068590 GCCATGAAACACCATCCCAATAG 59.931 47.826 0.00 0.00 0.00 1.73
536 1592 3.030291 GCCATGAAACACCATCCCAATA 58.970 45.455 0.00 0.00 0.00 1.90
537 1593 1.832998 GCCATGAAACACCATCCCAAT 59.167 47.619 0.00 0.00 0.00 3.16
538 1594 1.265236 GCCATGAAACACCATCCCAA 58.735 50.000 0.00 0.00 0.00 4.12
539 1595 0.614415 GGCCATGAAACACCATCCCA 60.614 55.000 0.00 0.00 0.00 4.37
540 1596 1.329913 GGGCCATGAAACACCATCCC 61.330 60.000 4.39 0.00 0.00 3.85
541 1597 0.614415 TGGGCCATGAAACACCATCC 60.614 55.000 0.00 0.00 0.00 3.51
542 1598 1.265236 TTGGGCCATGAAACACCATC 58.735 50.000 7.26 0.00 0.00 3.51
543 1599 1.727062 TTTGGGCCATGAAACACCAT 58.273 45.000 7.26 0.00 0.00 3.55
544 1600 1.415659 CTTTTGGGCCATGAAACACCA 59.584 47.619 7.26 0.00 0.00 4.17
545 1601 1.416030 ACTTTTGGGCCATGAAACACC 59.584 47.619 7.26 0.00 0.00 4.16
546 1602 2.908688 ACTTTTGGGCCATGAAACAC 57.091 45.000 7.26 0.00 0.00 3.32
547 1603 3.964031 ACTTACTTTTGGGCCATGAAACA 59.036 39.130 7.26 0.00 0.00 2.83
548 1604 4.600692 ACTTACTTTTGGGCCATGAAAC 57.399 40.909 7.26 0.00 0.00 2.78
549 1605 6.948886 TGTATACTTACTTTTGGGCCATGAAA 59.051 34.615 7.26 4.95 0.00 2.69
550 1606 6.376018 GTGTATACTTACTTTTGGGCCATGAA 59.624 38.462 7.26 4.73 0.00 2.57
551 1607 5.883673 GTGTATACTTACTTTTGGGCCATGA 59.116 40.000 7.26 0.00 0.00 3.07
552 1608 5.885912 AGTGTATACTTACTTTTGGGCCATG 59.114 40.000 7.26 3.33 31.66 3.66
553 1609 6.074698 AGTGTATACTTACTTTTGGGCCAT 57.925 37.500 7.26 0.00 31.66 4.40
554 1610 5.508280 AGTGTATACTTACTTTTGGGCCA 57.492 39.130 0.00 0.00 31.66 5.36
555 1611 6.408869 TGTAGTGTATACTTACTTTTGGGCC 58.591 40.000 4.17 0.00 38.36 5.80
556 1612 7.325694 TCTGTAGTGTATACTTACTTTTGGGC 58.674 38.462 4.17 0.00 38.36 5.36
557 1613 9.715121 TTTCTGTAGTGTATACTTACTTTTGGG 57.285 33.333 4.17 0.00 38.36 4.12
567 1623 9.314321 CCATTCGATTTTTCTGTAGTGTATACT 57.686 33.333 4.17 0.00 40.99 2.12
568 1624 8.548721 CCCATTCGATTTTTCTGTAGTGTATAC 58.451 37.037 0.00 0.00 0.00 1.47
569 1625 7.225931 GCCCATTCGATTTTTCTGTAGTGTATA 59.774 37.037 0.00 0.00 0.00 1.47
570 1626 6.038271 GCCCATTCGATTTTTCTGTAGTGTAT 59.962 38.462 0.00 0.00 0.00 2.29
571 1627 5.353123 GCCCATTCGATTTTTCTGTAGTGTA 59.647 40.000 0.00 0.00 0.00 2.90
572 1628 4.156008 GCCCATTCGATTTTTCTGTAGTGT 59.844 41.667 0.00 0.00 0.00 3.55
573 1629 4.396166 AGCCCATTCGATTTTTCTGTAGTG 59.604 41.667 0.00 0.00 0.00 2.74
574 1630 4.396166 CAGCCCATTCGATTTTTCTGTAGT 59.604 41.667 0.00 0.00 0.00 2.73
575 1631 4.201950 CCAGCCCATTCGATTTTTCTGTAG 60.202 45.833 0.00 0.00 0.00 2.74
576 1632 3.694072 CCAGCCCATTCGATTTTTCTGTA 59.306 43.478 0.00 0.00 0.00 2.74
577 1633 2.493278 CCAGCCCATTCGATTTTTCTGT 59.507 45.455 0.00 0.00 0.00 3.41
578 1634 2.159198 CCCAGCCCATTCGATTTTTCTG 60.159 50.000 0.00 0.00 0.00 3.02
579 1635 2.102578 CCCAGCCCATTCGATTTTTCT 58.897 47.619 0.00 0.00 0.00 2.52
580 1636 1.471501 GCCCAGCCCATTCGATTTTTC 60.472 52.381 0.00 0.00 0.00 2.29
581 1637 0.536724 GCCCAGCCCATTCGATTTTT 59.463 50.000 0.00 0.00 0.00 1.94
582 1638 1.666209 CGCCCAGCCCATTCGATTTT 61.666 55.000 0.00 0.00 0.00 1.82
583 1639 2.120909 CGCCCAGCCCATTCGATTT 61.121 57.895 0.00 0.00 0.00 2.17
584 1640 2.516930 CGCCCAGCCCATTCGATT 60.517 61.111 0.00 0.00 0.00 3.34
585 1641 4.569180 CCGCCCAGCCCATTCGAT 62.569 66.667 0.00 0.00 0.00 3.59
610 1666 1.077787 TACAGCAAGGCCGAATGGG 60.078 57.895 0.00 0.00 39.58 4.00
611 1667 1.718757 GCTACAGCAAGGCCGAATGG 61.719 60.000 0.00 0.00 41.59 3.16
612 1668 0.745845 AGCTACAGCAAGGCCGAATG 60.746 55.000 3.70 0.00 45.16 2.67
613 1669 0.462759 GAGCTACAGCAAGGCCGAAT 60.463 55.000 3.70 0.00 45.16 3.34
614 1670 1.079127 GAGCTACAGCAAGGCCGAA 60.079 57.895 3.70 0.00 45.16 4.30
615 1671 2.579201 GAGCTACAGCAAGGCCGA 59.421 61.111 3.70 0.00 45.16 5.54
616 1672 2.512515 GGAGCTACAGCAAGGCCG 60.513 66.667 3.70 0.00 45.16 6.13
617 1673 2.512515 CGGAGCTACAGCAAGGCC 60.513 66.667 3.70 0.00 45.16 5.19
634 1690 0.888285 ACAGCAAAGAGAGCAGTGGC 60.888 55.000 0.00 0.00 41.61 5.01
635 1691 0.873054 CACAGCAAAGAGAGCAGTGG 59.127 55.000 0.00 0.00 43.22 4.00
636 1692 0.873054 CCACAGCAAAGAGAGCAGTG 59.127 55.000 4.06 4.06 45.52 3.66
637 1693 0.250640 CCCACAGCAAAGAGAGCAGT 60.251 55.000 0.00 0.00 31.51 4.40
638 1694 0.035881 TCCCACAGCAAAGAGAGCAG 59.964 55.000 0.00 0.00 0.00 4.24
639 1695 0.250467 GTCCCACAGCAAAGAGAGCA 60.250 55.000 0.00 0.00 0.00 4.26
640 1696 0.036022 AGTCCCACAGCAAAGAGAGC 59.964 55.000 0.00 0.00 0.00 4.09
702 1760 6.097915 AGGAAGATTGTTAGAGACGTTTCA 57.902 37.500 8.98 0.00 0.00 2.69
707 1765 9.582431 TTAATGTTAGGAAGATTGTTAGAGACG 57.418 33.333 0.00 0.00 0.00 4.18
720 1778 7.394816 TCTTCCCTCAAGTTAATGTTAGGAAG 58.605 38.462 8.35 8.35 45.95 3.46
744 1802 0.107459 GCAGTGATTGGGAGGACCTC 60.107 60.000 13.60 13.60 41.11 3.85
773 1831 4.434520 GACCCTGGAAAAGTTAGATCGAG 58.565 47.826 0.00 0.00 0.00 4.04
776 1834 3.197116 TCCGACCCTGGAAAAGTTAGATC 59.803 47.826 0.00 0.00 34.30 2.75
841 1899 1.398198 CGTCGACGTCTATCCGGATTC 60.398 57.143 29.08 12.70 34.11 2.52
864 1922 0.520404 GATTGCTGACAGGCAGTGTG 59.480 55.000 4.80 0.00 46.62 3.82
918 1976 3.056821 TGTGTGGTAGTGAGTGATGTAGC 60.057 47.826 0.00 0.00 0.00 3.58
947 2020 5.853282 GTCGATCCTTTGAATTCAGTTTGTG 59.147 40.000 8.41 0.00 0.00 3.33
1262 2375 3.645975 GCACACCGTGGTTCACCG 61.646 66.667 3.03 0.00 39.43 4.94
1287 2400 3.423162 GAGCATCGCCGACAGAGCT 62.423 63.158 5.11 5.11 34.61 4.09
2121 3334 2.971330 ACCATGATTCAAGCCCAAACAA 59.029 40.909 0.00 0.00 0.00 2.83
2140 3353 9.676861 TGGATAATCAGATCATTCATTCATACC 57.323 33.333 0.00 0.00 0.00 2.73
2339 3553 5.811399 TCGGAAATAAAAACTGCATCGAT 57.189 34.783 0.00 0.00 0.00 3.59
2364 3578 7.164230 AGAGGAAGTAATATGCTAATCTCCG 57.836 40.000 0.00 0.00 0.00 4.63
2600 3815 0.321653 GCTGGACCTGTCAAACGGAT 60.322 55.000 0.00 0.00 0.00 4.18
2605 3820 1.150536 GTGGGCTGGACCTGTCAAA 59.849 57.895 5.26 0.00 39.10 2.69
2606 3821 2.829384 GGTGGGCTGGACCTGTCAA 61.829 63.158 5.26 0.00 39.10 3.18
2666 3888 1.214424 GAGGGAGAGAGTGAGCTAGGT 59.786 57.143 0.00 0.00 0.00 3.08
2706 3928 1.299976 CAACCGGAAAGGGAGAGGG 59.700 63.158 9.46 0.00 46.96 4.30
2730 3952 0.253894 CTGCTCATGGTGGTGGATGA 59.746 55.000 0.00 0.00 0.00 2.92
2951 4250 2.754658 GACGGCGGGAGAAGGAGA 60.755 66.667 13.24 0.00 0.00 3.71
2991 4290 2.100631 GTTCGCATGTGACCCGGAG 61.101 63.158 8.86 0.00 0.00 4.63
2992 4291 2.047655 GTTCGCATGTGACCCGGA 60.048 61.111 8.86 0.00 0.00 5.14
2995 4294 2.100631 CGGAGTTCGCATGTGACCC 61.101 63.158 8.86 9.63 0.00 4.46
3000 4299 3.377656 ACTCCGGAGTTCGCATGT 58.622 55.556 31.69 7.13 38.83 3.21
3039 4338 4.445545 CTTTTCCGTGCGCGCCTC 62.446 66.667 30.77 20.33 36.67 4.70
3045 4344 3.431725 GCCTCCCTTTTCCGTGCG 61.432 66.667 0.00 0.00 0.00 5.34
3052 4351 4.410400 CTCCGCCGCCTCCCTTTT 62.410 66.667 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.