Multiple sequence alignment - TraesCS7D01G016700

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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 TraesCS7D01G016700 chr7D 100.000 3369 0 0 1 3369 7443673 7447041 0.000000e+00 6222.0
1 TraesCS7D01G016700 chr7D 80.179 782 129 18 1254 2026 49802033 49801269 2.270000e-156 562.0
2 TraesCS7D01G016700 chr7D 77.448 337 41 20 1328 1630 7371694 7372029 5.780000e-38 169.0
3 TraesCS7D01G016700 chr7D 83.429 175 26 2 1020 1191 49802489 49802315 3.480000e-35 159.0
4 TraesCS7D01G016700 chr7D 86.607 112 5 4 735 846 7371411 7371512 7.640000e-22 115.0
5 TraesCS7D01G016700 chr7A 87.482 2836 183 91 622 3369 8371531 8374282 0.000000e+00 3112.0
6 TraesCS7D01G016700 chr7A 80.000 775 125 16 1254 2024 52682282 52681534 2.290000e-151 545.0
7 TraesCS7D01G016700 chr7A 86.957 345 9 19 255 564 8371186 8371529 4.130000e-94 355.0
8 TraesCS7D01G016700 chr7A 81.953 338 48 9 1328 1656 8334753 8335086 1.190000e-69 274.0
9 TraesCS7D01G016700 chr7A 82.286 175 28 2 1020 1191 52682727 52682553 7.530000e-32 148.0
10 TraesCS7D01G016700 chr7A 80.189 212 22 12 253 458 8334034 8334231 1.260000e-29 141.0
11 TraesCS7D01G016700 chr7A 89.286 112 2 2 133 244 8371024 8371125 7.580000e-27 132.0
12 TraesCS7D01G016700 chr7A 100.000 29 0 0 470 498 8334261 8334289 2.000000e-03 54.7
13 TraesCS7D01G016700 chr4A 86.998 2861 221 84 607 3369 732769506 732772313 0.000000e+00 3083.0
14 TraesCS7D01G016700 chr4A 80.334 778 127 19 1256 2024 664242003 664241243 1.750000e-157 566.0
15 TraesCS7D01G016700 chr4A 92.369 249 15 4 1 246 732768207 732768454 5.350000e-93 351.0
16 TraesCS7D01G016700 chr4A 80.294 340 46 14 1332 1653 732725956 732726292 1.560000e-58 237.0
17 TraesCS7D01G016700 chr4A 87.151 179 21 1 68 246 732725033 732725209 5.700000e-48 202.0
18 TraesCS7D01G016700 chr4A 80.442 317 14 18 271 558 732769212 732769509 7.370000e-47 198.0
19 TraesCS7D01G016700 chr4A 88.889 45 4 1 2425 2469 664240982 664240939 2.000000e-03 54.7
20 TraesCS7D01G016700 chr4B 79.026 801 127 25 1254 2024 86635530 86636319 8.340000e-141 510.0
21 TraesCS7D01G016700 chr4B 83.125 160 24 2 1020 1176 86635116 86635275 3.500000e-30 143.0
22 TraesCS7D01G016700 chr7B 88.406 138 12 3 1564 1699 649282486 649282621 2.690000e-36 163.0


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 TraesCS7D01G016700 chr7D 7443673 7447041 3368 False 6222.000000 6222 100.000000 1 3369 1 chr7D.!!$F1 3368
1 TraesCS7D01G016700 chr7D 49801269 49802489 1220 True 360.500000 562 81.804000 1020 2026 2 chr7D.!!$R1 1006
2 TraesCS7D01G016700 chr7A 8371024 8374282 3258 False 1199.666667 3112 87.908333 133 3369 3 chr7A.!!$F2 3236
3 TraesCS7D01G016700 chr7A 52681534 52682727 1193 True 346.500000 545 81.143000 1020 2024 2 chr7A.!!$R1 1004
4 TraesCS7D01G016700 chr4A 732768207 732772313 4106 False 1210.666667 3083 86.603000 1 3369 3 chr4A.!!$F2 3368
5 TraesCS7D01G016700 chr4A 664240939 664242003 1064 True 310.350000 566 84.611500 1256 2469 2 chr4A.!!$R1 1213
6 TraesCS7D01G016700 chr4A 732725033 732726292 1259 False 219.500000 237 83.722500 68 1653 2 chr4A.!!$F1 1585
7 TraesCS7D01G016700 chr4B 86635116 86636319 1203 False 326.500000 510 81.075500 1020 2024 2 chr4B.!!$F1 1004

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
706 1542 0.179045 AGCACACCACACAGTTCTCC 60.179 55.0 0.0 0.0 0.0 3.71 F
1196 2260 0.178873 TACTTCAGGGAGGGCAAGGT 60.179 55.0 0.0 0.0 0.0 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2038 3310 0.036388 CGGTGCTAGTGGAATGGTGT 60.036 55.0 0.0 0.0 0.0 4.16 R
2760 4095 0.523072 CCCAACGGCATTTCACTCAG 59.477 55.0 0.0 0.0 0.0 3.35 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
17 18 3.895025 CGCCCTCAGTCAACATGG 58.105 61.111 0.00 0.00 0.00 3.66
53 55 2.456577 GGTTGTTGGGTGCTATCCAAT 58.543 47.619 8.69 0.00 44.87 3.16
67 69 4.517453 GCTATCCAATTAAACGTGCCCATA 59.483 41.667 0.00 0.00 0.00 2.74
88 90 4.983671 AAACTCTTGGACAAAAGTGACC 57.016 40.909 0.00 0.00 39.72 4.02
94 96 1.133407 TGGACAAAAGTGACCGTTTGC 59.867 47.619 8.70 3.49 41.81 3.68
250 253 7.110179 GATAACACATATCCAACGACTGATG 57.890 40.000 0.00 0.00 35.34 3.07
251 254 4.736126 ACACATATCCAACGACTGATGA 57.264 40.909 0.00 0.00 0.00 2.92
253 256 5.487433 ACACATATCCAACGACTGATGAAA 58.513 37.500 0.00 0.00 0.00 2.69
264 317 3.425359 CGACTGATGAAATCTGCACAACC 60.425 47.826 0.00 0.00 45.06 3.77
267 320 4.525487 ACTGATGAAATCTGCACAACCAAT 59.475 37.500 0.00 0.00 45.06 3.16
285 1030 5.435291 ACCAATAGAGGATCAAGAAAGCAG 58.565 41.667 0.00 0.00 37.82 4.24
385 1143 8.425577 TCTCTTCTCTTTCAAAACTACAACAG 57.574 34.615 0.00 0.00 0.00 3.16
416 1181 5.766670 ACATGCACAATCAAGAGAAGAGAAA 59.233 36.000 0.00 0.00 0.00 2.52
417 1182 5.936686 TGCACAATCAAGAGAAGAGAAAG 57.063 39.130 0.00 0.00 0.00 2.62
419 1184 4.999950 GCACAATCAAGAGAAGAGAAAGGA 59.000 41.667 0.00 0.00 0.00 3.36
466 1246 1.737793 CCTTTGGGAAAAGACGGATCG 59.262 52.381 0.00 0.00 33.58 3.69
512 1337 0.757935 GCACCCAGCCCATGATTGAT 60.758 55.000 0.00 0.00 37.23 2.57
519 1344 1.144298 AGCCCATGATTGATAGCAGCA 59.856 47.619 0.00 0.00 0.00 4.41
558 1383 1.617850 GCGATGAGGTGATGGATCTCT 59.382 52.381 0.00 0.00 0.00 3.10
559 1384 2.352617 GCGATGAGGTGATGGATCTCTC 60.353 54.545 0.00 0.00 0.00 3.20
561 1386 3.191162 CGATGAGGTGATGGATCTCTCTC 59.809 52.174 0.00 0.00 32.85 3.20
562 1387 3.969466 TGAGGTGATGGATCTCTCTCT 57.031 47.619 0.00 0.00 32.85 3.10
563 1388 3.831323 TGAGGTGATGGATCTCTCTCTC 58.169 50.000 0.00 3.24 32.85 3.20
564 1389 3.203934 TGAGGTGATGGATCTCTCTCTCA 59.796 47.826 0.00 5.45 32.85 3.27
566 1391 3.205056 AGGTGATGGATCTCTCTCTCACT 59.795 47.826 0.00 0.00 35.22 3.41
567 1392 3.569701 GGTGATGGATCTCTCTCTCACTC 59.430 52.174 0.00 0.00 35.22 3.51
569 1394 4.516698 GTGATGGATCTCTCTCTCACTCTC 59.483 50.000 0.00 0.00 33.62 3.20
570 1395 4.413189 TGATGGATCTCTCTCTCACTCTCT 59.587 45.833 0.00 0.00 0.00 3.10
571 1396 4.422073 TGGATCTCTCTCTCACTCTCTC 57.578 50.000 0.00 0.00 0.00 3.20
572 1397 4.040047 TGGATCTCTCTCTCACTCTCTCT 58.960 47.826 0.00 0.00 0.00 3.10
573 1398 4.101585 TGGATCTCTCTCTCACTCTCTCTC 59.898 50.000 0.00 0.00 0.00 3.20
574 1399 4.346418 GGATCTCTCTCTCACTCTCTCTCT 59.654 50.000 0.00 0.00 0.00 3.10
575 1400 5.510520 GGATCTCTCTCTCACTCTCTCTCTC 60.511 52.000 0.00 0.00 0.00 3.20
576 1401 4.614475 TCTCTCTCTCACTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
577 1402 4.646945 TCTCTCTCTCACTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
578 1403 4.614475 TCTCTCTCACTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
579 1404 4.646945 TCTCTCTCACTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
580 1405 4.614475 TCTCTCACTCTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
581 1406 4.646945 TCTCTCACTCTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
582 1407 4.614475 TCTCACTCTCTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
583 1408 4.646945 TCTCACTCTCTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
584 1409 4.614475 TCACTCTCTCTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
585 1410 4.646945 TCACTCTCTCTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
586 1411 4.648762 CACTCTCTCTCTCTCTCTCTCTCT 59.351 50.000 0.00 0.00 0.00 3.10
587 1412 4.892934 ACTCTCTCTCTCTCTCTCTCTCTC 59.107 50.000 0.00 0.00 0.00 3.20
588 1413 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
589 1414 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
590 1415 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
591 1416 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
592 1417 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
593 1418 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
594 1419 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
595 1420 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
596 1421 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
597 1422 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
598 1423 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
599 1424 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
600 1425 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
601 1426 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
602 1427 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
603 1428 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
604 1429 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
605 1430 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
606 1431 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
607 1432 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
608 1433 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
609 1434 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
610 1435 4.871822 TCTCTCTCTCTCTCTCTCTCTCA 58.128 47.826 0.00 0.00 0.00 3.27
611 1436 4.646945 TCTCTCTCTCTCTCTCTCTCTCAC 59.353 50.000 0.00 0.00 0.00 3.51
612 1437 4.352893 TCTCTCTCTCTCTCTCTCTCACA 58.647 47.826 0.00 0.00 0.00 3.58
613 1438 4.160439 TCTCTCTCTCTCTCTCTCTCACAC 59.840 50.000 0.00 0.00 0.00 3.82
614 1439 3.837731 TCTCTCTCTCTCTCTCTCACACA 59.162 47.826 0.00 0.00 0.00 3.72
615 1440 3.935203 CTCTCTCTCTCTCTCTCACACAC 59.065 52.174 0.00 0.00 0.00 3.82
616 1441 3.326297 TCTCTCTCTCTCTCTCACACACA 59.674 47.826 0.00 0.00 0.00 3.72
617 1442 3.407698 TCTCTCTCTCTCTCACACACAC 58.592 50.000 0.00 0.00 0.00 3.82
618 1443 3.145286 CTCTCTCTCTCTCACACACACA 58.855 50.000 0.00 0.00 0.00 3.72
619 1444 2.881513 TCTCTCTCTCTCACACACACAC 59.118 50.000 0.00 0.00 0.00 3.82
704 1540 0.253044 ACAGCACACCACACAGTTCT 59.747 50.000 0.00 0.00 0.00 3.01
706 1542 0.179045 AGCACACCACACAGTTCTCC 60.179 55.000 0.00 0.00 0.00 3.71
707 1543 0.463654 GCACACCACACAGTTCTCCA 60.464 55.000 0.00 0.00 0.00 3.86
708 1544 1.815408 GCACACCACACAGTTCTCCAT 60.815 52.381 0.00 0.00 0.00 3.41
709 1545 2.146342 CACACCACACAGTTCTCCATC 58.854 52.381 0.00 0.00 0.00 3.51
710 1546 2.050144 ACACCACACAGTTCTCCATCT 58.950 47.619 0.00 0.00 0.00 2.90
711 1547 2.224378 ACACCACACAGTTCTCCATCTG 60.224 50.000 0.00 0.00 37.65 2.90
712 1548 2.050144 ACCACACAGTTCTCCATCTGT 58.950 47.619 0.00 0.00 44.32 3.41
713 1549 2.439507 ACCACACAGTTCTCCATCTGTT 59.560 45.455 0.00 0.00 42.05 3.16
875 1796 1.118838 CGCCTTCTCCTTCCTCTCAT 58.881 55.000 0.00 0.00 0.00 2.90
1080 2018 4.891727 ATCGCGGCGGTGATGGTC 62.892 66.667 23.46 0.00 41.68 4.02
1107 2045 2.035626 AAGGTGGCCATGAACGGG 59.964 61.111 9.72 0.00 0.00 5.28
1196 2260 0.178873 TACTTCAGGGAGGGCAAGGT 60.179 55.000 0.00 0.00 0.00 3.50
1197 2261 1.301293 CTTCAGGGAGGGCAAGGTC 59.699 63.158 0.00 0.00 0.00 3.85
1473 2671 4.125695 ACCTTCTACCGCGGCGTC 62.126 66.667 28.58 0.00 0.00 5.19
1515 2731 2.510238 CAGCTGCACTACTCCGCC 60.510 66.667 0.00 0.00 0.00 6.13
1566 2791 2.526873 AAGAGGTGGACGCTGGGT 60.527 61.111 0.00 0.00 0.00 4.51
2032 3304 1.595357 CTCGGAAGGTACCACCACC 59.405 63.158 22.16 14.66 41.95 4.61
2038 3310 0.989212 AAGGTACCACCACCACACCA 60.989 55.000 15.94 0.00 41.95 4.17
2057 3329 0.036388 ACACCATTCCACTAGCACCG 60.036 55.000 0.00 0.00 0.00 4.94
2058 3330 0.249120 CACCATTCCACTAGCACCGA 59.751 55.000 0.00 0.00 0.00 4.69
2059 3331 1.134401 CACCATTCCACTAGCACCGAT 60.134 52.381 0.00 0.00 0.00 4.18
2115 3391 3.582208 GAGAGATCCTGCACCATCCTTAT 59.418 47.826 0.00 0.00 0.00 1.73
2128 3404 3.403038 CATCCTTATCGATGGTCCAACC 58.597 50.000 8.54 0.00 36.74 3.77
2129 3405 2.759355 TCCTTATCGATGGTCCAACCT 58.241 47.619 8.54 0.00 39.58 3.50
2331 3639 4.017092 GCAGCAGCAACAACAACC 57.983 55.556 0.00 0.00 41.58 3.77
2334 3642 0.528249 CAGCAGCAACAACAACCACC 60.528 55.000 0.00 0.00 0.00 4.61
2347 3655 2.291024 ACAACCACCACAACAACAGGTA 60.291 45.455 0.00 0.00 33.49 3.08
2371 3685 1.378250 GCAGATGCAGCCCTGACTT 60.378 57.895 14.21 0.00 41.59 3.01
2372 3686 0.964358 GCAGATGCAGCCCTGACTTT 60.964 55.000 14.21 0.00 41.59 2.66
2373 3687 1.093159 CAGATGCAGCCCTGACTTTC 58.907 55.000 0.00 0.00 32.37 2.62
2374 3688 0.694771 AGATGCAGCCCTGACTTTCA 59.305 50.000 0.00 0.00 0.00 2.69
2376 3690 1.471684 GATGCAGCCCTGACTTTCAAG 59.528 52.381 0.00 0.00 0.00 3.02
2377 3691 0.473755 TGCAGCCCTGACTTTCAAGA 59.526 50.000 0.00 0.00 0.00 3.02
2378 3692 0.877743 GCAGCCCTGACTTTCAAGAC 59.122 55.000 0.00 0.00 0.00 3.01
2379 3693 1.544314 GCAGCCCTGACTTTCAAGACT 60.544 52.381 0.00 0.00 0.00 3.24
2380 3694 2.421619 CAGCCCTGACTTTCAAGACTC 58.578 52.381 0.00 0.00 0.00 3.36
2381 3695 2.050144 AGCCCTGACTTTCAAGACTCA 58.950 47.619 0.00 0.00 0.00 3.41
2382 3696 2.147150 GCCCTGACTTTCAAGACTCAC 58.853 52.381 0.00 0.00 0.00 3.51
2383 3697 2.485479 GCCCTGACTTTCAAGACTCACA 60.485 50.000 0.00 0.00 0.00 3.58
2384 3698 3.397482 CCCTGACTTTCAAGACTCACAG 58.603 50.000 0.00 0.00 0.00 3.66
2385 3699 3.397482 CCTGACTTTCAAGACTCACAGG 58.603 50.000 0.00 0.00 37.81 4.00
2386 3700 2.805099 CTGACTTTCAAGACTCACAGGC 59.195 50.000 0.00 0.00 0.00 4.85
2387 3701 2.435805 TGACTTTCAAGACTCACAGGCT 59.564 45.455 0.00 0.00 32.54 4.58
2388 3702 2.805099 GACTTTCAAGACTCACAGGCTG 59.195 50.000 14.16 14.16 30.77 4.85
2389 3703 2.435805 ACTTTCAAGACTCACAGGCTGA 59.564 45.455 23.66 0.00 30.77 4.26
2416 3730 2.514824 GAGCCCTCCATCCGTTGC 60.515 66.667 0.00 0.00 0.00 4.17
2417 3731 3.329542 GAGCCCTCCATCCGTTGCA 62.330 63.158 0.00 0.00 0.00 4.08
2418 3732 2.124151 GCCCTCCATCCGTTGCAT 60.124 61.111 0.00 0.00 0.00 3.96
2419 3733 2.189499 GCCCTCCATCCGTTGCATC 61.189 63.158 0.00 0.00 0.00 3.91
2462 3781 4.261572 GCAGCAAATAAGTTCTCCAACACA 60.262 41.667 0.00 0.00 34.60 3.72
2475 3794 5.949735 TCTCCAACACACTTTTCAGTTTTC 58.050 37.500 0.00 0.00 0.00 2.29
2496 3816 4.641396 TCGTTTCCATGTTCTTGTGAGAT 58.359 39.130 0.00 0.00 0.00 2.75
2537 3863 2.331132 GCTTCAGGGCACTGTCAGC 61.331 63.158 21.83 21.83 45.14 4.26
2706 4039 0.037139 TTTCGTGGGGACATACGTGG 60.037 55.000 0.00 0.00 46.14 4.94
2711 4044 0.107410 TGGGGACATACGTGGAATGC 60.107 55.000 0.00 0.00 33.40 3.56
2741 4074 9.626045 AATTAACTGCAAATTTGTAAGAGCTAC 57.374 29.630 22.21 5.26 0.00 3.58
2760 4095 3.738830 ACACATGGCAATGGCATTATC 57.261 42.857 20.02 8.55 46.61 1.75
2771 4106 5.690409 GCAATGGCATTATCTGAGTGAAATG 59.310 40.000 13.23 0.00 40.72 2.32
2779 4114 0.523072 CTGAGTGAAATGCCGTTGGG 59.477 55.000 0.00 0.00 0.00 4.12
2783 4118 2.231235 GAGTGAAATGCCGTTGGGAAAT 59.769 45.455 0.00 0.00 34.06 2.17
2787 4122 3.812053 TGAAATGCCGTTGGGAAATTTTG 59.188 39.130 0.00 0.00 33.64 2.44
2794 4129 3.308530 CGTTGGGAAATTTTGAGCAGAC 58.691 45.455 0.00 0.00 0.00 3.51
2795 4130 3.243367 CGTTGGGAAATTTTGAGCAGACA 60.243 43.478 0.00 0.00 0.00 3.41
2796 4131 4.559300 CGTTGGGAAATTTTGAGCAGACAT 60.559 41.667 0.00 0.00 0.00 3.06
2797 4132 4.524316 TGGGAAATTTTGAGCAGACATG 57.476 40.909 0.00 0.00 0.00 3.21
2798 4133 4.151121 TGGGAAATTTTGAGCAGACATGA 58.849 39.130 0.00 0.00 0.00 3.07
2812 4147 7.503902 TGAGCAGACATGAGATAGTAGTGTATT 59.496 37.037 0.00 0.00 0.00 1.89
2856 4192 5.605534 ACCAACATGAGAGAATATCGGAAG 58.394 41.667 0.00 0.00 0.00 3.46
2857 4193 4.450419 CCAACATGAGAGAATATCGGAAGC 59.550 45.833 0.00 0.00 0.00 3.86
2863 4199 5.461526 TGAGAGAATATCGGAAGCAATACG 58.538 41.667 0.00 0.00 36.39 3.06
2868 4204 1.045407 ATCGGAAGCAATACGCCCTA 58.955 50.000 0.00 0.00 44.04 3.53
2921 4265 3.186047 ACGAATAGGCGTGCGTGC 61.186 61.111 0.00 0.00 43.79 5.34
2945 4289 4.397382 CACATATGCACAAGAAAGTGTCG 58.603 43.478 1.58 0.00 41.52 4.35
2956 4300 4.999751 AGAAAGTGTCGAGAATGAAAGC 57.000 40.909 0.00 0.00 0.00 3.51
2964 4308 3.124297 GTCGAGAATGAAAGCCACAAGAG 59.876 47.826 0.00 0.00 0.00 2.85
2966 4310 3.499918 CGAGAATGAAAGCCACAAGAGTT 59.500 43.478 0.00 0.00 0.00 3.01
2992 4336 0.366871 CTTCGACGTTCCATTGCTCG 59.633 55.000 0.00 0.00 0.00 5.03
3016 4360 5.036117 ACTTCTTCAGTTGCTTCCTGTAA 57.964 39.130 0.00 0.00 27.32 2.41
3031 4375 6.517529 GCTTCCTGTAATCTATCCAGTCGATT 60.518 42.308 0.00 0.00 31.92 3.34
3041 4385 2.666317 TCCAGTCGATTCCTAGCATCA 58.334 47.619 0.00 0.00 0.00 3.07
3042 4386 2.362397 TCCAGTCGATTCCTAGCATCAC 59.638 50.000 0.00 0.49 0.00 3.06
3044 4388 1.338337 AGTCGATTCCTAGCATCACCG 59.662 52.381 0.00 0.00 0.00 4.94
3052 4396 1.403647 CCTAGCATCACCGAAACGACA 60.404 52.381 0.00 0.00 0.00 4.35
3054 4398 1.129809 GCATCACCGAAACGACACG 59.870 57.895 0.00 0.00 0.00 4.49
3056 4400 0.708370 CATCACCGAAACGACACGAG 59.292 55.000 0.00 0.00 0.00 4.18
3064 4408 2.058798 GAAACGACACGAGATTCAGCA 58.941 47.619 0.00 0.00 0.00 4.41
3068 4412 1.071605 GACACGAGATTCAGCACCAC 58.928 55.000 0.00 0.00 0.00 4.16
3081 4444 1.408422 GCACCACTTGCGTTGAATTC 58.592 50.000 0.00 0.00 42.79 2.17
3088 4451 3.737266 CACTTGCGTTGAATTCTTGCATT 59.263 39.130 16.62 7.77 35.20 3.56
3091 4454 5.982516 ACTTGCGTTGAATTCTTGCATTAAA 59.017 32.000 16.62 5.38 35.20 1.52
3092 4455 5.820926 TGCGTTGAATTCTTGCATTAAAC 57.179 34.783 13.37 4.04 0.00 2.01
3093 4456 4.683781 TGCGTTGAATTCTTGCATTAAACC 59.316 37.500 13.37 1.36 26.99 3.27
3094 4457 4.683781 GCGTTGAATTCTTGCATTAAACCA 59.316 37.500 7.05 0.00 26.99 3.67
3095 4458 5.388371 GCGTTGAATTCTTGCATTAAACCAC 60.388 40.000 7.05 0.00 26.99 4.16
3096 4459 5.920273 CGTTGAATTCTTGCATTAAACCACT 59.080 36.000 7.05 0.00 26.99 4.00
3097 4460 6.088085 CGTTGAATTCTTGCATTAAACCACTC 59.912 38.462 7.05 0.00 26.99 3.51
3098 4461 6.647334 TGAATTCTTGCATTAAACCACTCA 57.353 33.333 7.05 0.00 0.00 3.41
3099 4462 7.048629 TGAATTCTTGCATTAAACCACTCAA 57.951 32.000 7.05 0.00 0.00 3.02
3100 4463 7.495901 TGAATTCTTGCATTAAACCACTCAAA 58.504 30.769 7.05 0.00 0.00 2.69
3101 4464 7.437862 TGAATTCTTGCATTAAACCACTCAAAC 59.562 33.333 7.05 0.00 0.00 2.93
3102 4465 6.463995 TTCTTGCATTAAACCACTCAAACT 57.536 33.333 0.00 0.00 0.00 2.66
3103 4466 7.575414 TTCTTGCATTAAACCACTCAAACTA 57.425 32.000 0.00 0.00 0.00 2.24
3104 4467 7.759489 TCTTGCATTAAACCACTCAAACTAT 57.241 32.000 0.00 0.00 0.00 2.12
3105 4468 8.856153 TCTTGCATTAAACCACTCAAACTATA 57.144 30.769 0.00 0.00 0.00 1.31
3106 4469 8.726988 TCTTGCATTAAACCACTCAAACTATAC 58.273 33.333 0.00 0.00 0.00 1.47
3107 4470 8.630054 TTGCATTAAACCACTCAAACTATACT 57.370 30.769 0.00 0.00 0.00 2.12
3108 4471 8.039603 TGCATTAAACCACTCAAACTATACTG 57.960 34.615 0.00 0.00 0.00 2.74
3109 4472 7.880713 TGCATTAAACCACTCAAACTATACTGA 59.119 33.333 0.00 0.00 0.00 3.41
3110 4473 8.726988 GCATTAAACCACTCAAACTATACTGAA 58.273 33.333 0.00 0.00 0.00 3.02
3250 4613 2.938956 AGGTGTTGTCCTTCTTCAGG 57.061 50.000 0.00 0.00 45.64 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 25 0.610785 CCCAACAACCGCCTTACCAT 60.611 55.000 0.00 0.00 0.00 3.55
53 55 4.216687 CCAAGAGTTTATGGGCACGTTTAA 59.783 41.667 0.00 0.00 32.87 1.52
67 69 3.377172 CGGTCACTTTTGTCCAAGAGTTT 59.623 43.478 0.83 0.00 34.05 2.66
88 90 3.599568 CGCAAGGTTGTGCAAACG 58.400 55.556 0.00 0.00 45.19 3.60
246 249 5.945191 TCTATTGGTTGTGCAGATTTCATCA 59.055 36.000 0.00 0.00 0.00 3.07
247 250 6.441093 TCTATTGGTTGTGCAGATTTCATC 57.559 37.500 0.00 0.00 0.00 2.92
248 251 5.359009 CCTCTATTGGTTGTGCAGATTTCAT 59.641 40.000 0.00 0.00 0.00 2.57
250 253 4.943705 TCCTCTATTGGTTGTGCAGATTTC 59.056 41.667 0.00 0.00 0.00 2.17
251 254 4.922206 TCCTCTATTGGTTGTGCAGATTT 58.078 39.130 0.00 0.00 0.00 2.17
253 256 4.164796 TGATCCTCTATTGGTTGTGCAGAT 59.835 41.667 0.00 0.00 0.00 2.90
264 317 6.580788 TCTCTGCTTTCTTGATCCTCTATTG 58.419 40.000 0.00 0.00 0.00 1.90
267 320 5.304101 GGATCTCTGCTTTCTTGATCCTCTA 59.696 44.000 11.68 0.00 45.68 2.43
366 1116 5.743872 GGTTGCTGTTGTAGTTTTGAAAGAG 59.256 40.000 0.00 0.00 0.00 2.85
371 1122 5.186942 TGTAGGTTGCTGTTGTAGTTTTGA 58.813 37.500 0.00 0.00 0.00 2.69
376 1127 3.074412 GCATGTAGGTTGCTGTTGTAGT 58.926 45.455 0.00 0.00 37.14 2.73
385 1143 3.191162 TCTTGATTGTGCATGTAGGTTGC 59.809 43.478 0.00 0.00 40.55 4.17
416 1181 6.846988 ACAAAGAAGATCTTTTCCTCTTCCT 58.153 36.000 9.87 0.00 43.62 3.36
417 1182 7.366513 CAACAAAGAAGATCTTTTCCTCTTCC 58.633 38.462 9.87 0.00 43.62 3.46
419 1184 6.239148 GGCAACAAAGAAGATCTTTTCCTCTT 60.239 38.462 9.87 5.10 43.62 2.85
466 1246 2.628657 CCAGCCACCTACACCTATCTAC 59.371 54.545 0.00 0.00 0.00 2.59
498 1304 1.540267 GCTGCTATCAATCATGGGCTG 59.460 52.381 0.00 0.00 0.00 4.85
499 1305 1.144298 TGCTGCTATCAATCATGGGCT 59.856 47.619 0.00 0.00 0.00 5.19
512 1337 4.027674 TCTTTTGGTATGGTTGCTGCTA 57.972 40.909 0.00 0.00 0.00 3.49
519 1344 3.016736 CGCCTCATCTTTTGGTATGGTT 58.983 45.455 0.00 0.00 0.00 3.67
558 1383 4.614475 AGAGAGAGAGAGAGAGTGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
559 1384 4.648762 AGAGAGAGAGAGAGAGAGTGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
561 1386 4.648762 AGAGAGAGAGAGAGAGAGAGTGAG 59.351 50.000 0.00 0.00 0.00 3.51
562 1387 4.614475 AGAGAGAGAGAGAGAGAGAGTGA 58.386 47.826 0.00 0.00 0.00 3.41
563 1388 4.648762 AGAGAGAGAGAGAGAGAGAGAGTG 59.351 50.000 0.00 0.00 0.00 3.51
564 1389 4.877773 AGAGAGAGAGAGAGAGAGAGAGT 58.122 47.826 0.00 0.00 0.00 3.24
566 1391 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
567 1392 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
569 1394 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
570 1395 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
571 1396 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
572 1397 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
573 1398 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
574 1399 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
575 1400 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
576 1401 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
577 1402 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
578 1403 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
579 1404 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
580 1405 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
581 1406 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
582 1407 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
583 1408 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
584 1409 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
585 1410 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
586 1411 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
587 1412 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
588 1413 4.646945 GTGAGAGAGAGAGAGAGAGAGAGA 59.353 50.000 0.00 0.00 0.00 3.10
589 1414 4.403752 TGTGAGAGAGAGAGAGAGAGAGAG 59.596 50.000 0.00 0.00 0.00 3.20
590 1415 4.160439 GTGTGAGAGAGAGAGAGAGAGAGA 59.840 50.000 0.00 0.00 0.00 3.10
591 1416 4.081476 TGTGTGAGAGAGAGAGAGAGAGAG 60.081 50.000 0.00 0.00 0.00 3.20
592 1417 3.837731 TGTGTGAGAGAGAGAGAGAGAGA 59.162 47.826 0.00 0.00 0.00 3.10
593 1418 3.935203 GTGTGTGAGAGAGAGAGAGAGAG 59.065 52.174 0.00 0.00 0.00 3.20
594 1419 3.326297 TGTGTGTGAGAGAGAGAGAGAGA 59.674 47.826 0.00 0.00 0.00 3.10
595 1420 3.436704 GTGTGTGTGAGAGAGAGAGAGAG 59.563 52.174 0.00 0.00 0.00 3.20
596 1421 3.181450 TGTGTGTGTGAGAGAGAGAGAGA 60.181 47.826 0.00 0.00 0.00 3.10
597 1422 3.058293 GTGTGTGTGTGAGAGAGAGAGAG 60.058 52.174 0.00 0.00 0.00 3.20
598 1423 2.881513 GTGTGTGTGTGAGAGAGAGAGA 59.118 50.000 0.00 0.00 0.00 3.10
599 1424 2.620585 TGTGTGTGTGTGAGAGAGAGAG 59.379 50.000 0.00 0.00 0.00 3.20
600 1425 2.359214 GTGTGTGTGTGTGAGAGAGAGA 59.641 50.000 0.00 0.00 0.00 3.10
601 1426 2.099756 TGTGTGTGTGTGTGAGAGAGAG 59.900 50.000 0.00 0.00 0.00 3.20
602 1427 2.099405 TGTGTGTGTGTGTGAGAGAGA 58.901 47.619 0.00 0.00 0.00 3.10
603 1428 2.196749 GTGTGTGTGTGTGTGAGAGAG 58.803 52.381 0.00 0.00 0.00 3.20
604 1429 1.548269 TGTGTGTGTGTGTGTGAGAGA 59.452 47.619 0.00 0.00 0.00 3.10
605 1430 1.660607 GTGTGTGTGTGTGTGTGAGAG 59.339 52.381 0.00 0.00 0.00 3.20
606 1431 1.001406 TGTGTGTGTGTGTGTGTGAGA 59.999 47.619 0.00 0.00 0.00 3.27
607 1432 1.128507 GTGTGTGTGTGTGTGTGTGAG 59.871 52.381 0.00 0.00 0.00 3.51
608 1433 1.152510 GTGTGTGTGTGTGTGTGTGA 58.847 50.000 0.00 0.00 0.00 3.58
609 1434 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
610 1435 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
611 1436 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
612 1437 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
613 1438 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
614 1439 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
615 1440 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
616 1441 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
617 1442 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
618 1443 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
619 1444 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
704 1540 3.991999 GCAGCAGCAACAGATGGA 58.008 55.556 0.00 0.00 41.58 3.41
730 1566 2.050350 GGTGACCGGACCAGATCGA 61.050 63.158 9.46 0.00 35.88 3.59
1196 2260 4.467084 GCGTCATCTTGGGGCGGA 62.467 66.667 0.00 0.00 0.00 5.54
1197 2261 4.473520 AGCGTCATCTTGGGGCGG 62.474 66.667 0.00 0.00 0.00 6.13
1200 2264 1.153289 CTCCAGCGTCATCTTGGGG 60.153 63.158 0.00 0.00 0.00 4.96
1263 2458 2.862536 CACGAAGATCATGTACTGCCTG 59.137 50.000 0.00 0.00 0.00 4.85
1293 2488 1.670083 GAAGGTGGCCGTGGTGTAC 60.670 63.158 0.00 0.00 0.00 2.90
1493 2691 4.767255 AGTAGTGCAGCTGCCCGC 62.767 66.667 34.64 23.64 41.18 6.13
1497 2710 3.191539 GCGGAGTAGTGCAGCTGC 61.192 66.667 31.89 31.89 42.50 5.25
1566 2791 3.151710 CCCAGGATCGCCACCGTA 61.152 66.667 0.00 0.00 36.29 4.02
1634 2860 3.118075 GGAGTAGACGTAGGGGTACTTCT 60.118 52.174 0.00 0.00 33.83 2.85
1793 3019 7.637229 AGTAATTCAGATGAATGAAAGATGCG 58.363 34.615 8.76 0.00 43.41 4.73
1794 3020 9.875675 GTAGTAATTCAGATGAATGAAAGATGC 57.124 33.333 8.76 0.00 43.41 3.91
1857 3118 2.905736 CACCACCCCCTGAATTTCAATT 59.094 45.455 0.01 0.00 0.00 2.32
1858 3119 2.539302 CACCACCCCCTGAATTTCAAT 58.461 47.619 0.01 0.00 0.00 2.57
1860 3121 0.114168 CCACCACCCCCTGAATTTCA 59.886 55.000 0.00 0.00 0.00 2.69
1861 3122 0.614697 CCCACCACCCCCTGAATTTC 60.615 60.000 0.00 0.00 0.00 2.17
2029 3301 0.467106 TGGAATGGTGTGGTGTGGTG 60.467 55.000 0.00 0.00 0.00 4.17
2032 3304 2.426522 CTAGTGGAATGGTGTGGTGTG 58.573 52.381 0.00 0.00 0.00 3.82
2038 3310 0.036388 CGGTGCTAGTGGAATGGTGT 60.036 55.000 0.00 0.00 0.00 4.16
2057 3329 8.121305 ACTCTGAATCTGGATGTACTATGATC 57.879 38.462 0.00 0.00 0.00 2.92
2058 3330 8.489676 AACTCTGAATCTGGATGTACTATGAT 57.510 34.615 0.00 0.00 0.00 2.45
2059 3331 7.904558 AACTCTGAATCTGGATGTACTATGA 57.095 36.000 0.00 0.00 0.00 2.15
2115 3391 2.430694 CACTATGAGGTTGGACCATCGA 59.569 50.000 0.00 0.00 41.95 3.59
2128 3404 4.132336 CAATCATGGGTGGACACTATGAG 58.868 47.826 19.41 9.81 37.83 2.90
2129 3405 3.779738 TCAATCATGGGTGGACACTATGA 59.220 43.478 18.03 18.03 38.33 2.15
2194 3496 0.834261 TCACCAACACCGATCCCAGA 60.834 55.000 0.00 0.00 0.00 3.86
2269 3571 2.229784 GTCATCCTCTGCAACTTTTGGG 59.770 50.000 0.00 0.00 0.00 4.12
2323 3631 1.964223 TGTTGTTGTGGTGGTTGTTGT 59.036 42.857 0.00 0.00 0.00 3.32
2326 3634 1.181786 CCTGTTGTTGTGGTGGTTGT 58.818 50.000 0.00 0.00 0.00 3.32
2329 3637 1.282447 TGTACCTGTTGTTGTGGTGGT 59.718 47.619 0.00 0.00 35.48 4.16
2331 3639 1.946768 CCTGTACCTGTTGTTGTGGTG 59.053 52.381 0.00 0.00 35.48 4.17
2334 3642 1.333619 GCACCTGTACCTGTTGTTGTG 59.666 52.381 0.00 0.00 0.00 3.33
2371 3685 3.558931 TTTCAGCCTGTGAGTCTTGAA 57.441 42.857 0.00 0.00 36.21 2.69
2372 3686 3.558931 TTTTCAGCCTGTGAGTCTTGA 57.441 42.857 0.00 0.00 36.21 3.02
2373 3687 3.378112 TGTTTTTCAGCCTGTGAGTCTTG 59.622 43.478 0.00 0.00 36.21 3.02
2374 3688 3.620488 TGTTTTTCAGCCTGTGAGTCTT 58.380 40.909 0.00 0.00 36.21 3.01
2376 3690 3.206150 TCTGTTTTTCAGCCTGTGAGTC 58.794 45.455 0.00 0.00 43.32 3.36
2377 3691 3.209410 CTCTGTTTTTCAGCCTGTGAGT 58.791 45.455 0.00 0.00 43.32 3.41
2378 3692 2.551459 CCTCTGTTTTTCAGCCTGTGAG 59.449 50.000 0.00 0.00 43.32 3.51
2379 3693 2.172505 TCCTCTGTTTTTCAGCCTGTGA 59.827 45.455 0.00 0.00 43.32 3.58
2380 3694 2.551459 CTCCTCTGTTTTTCAGCCTGTG 59.449 50.000 0.00 0.00 43.32 3.66
2381 3695 2.856222 CTCCTCTGTTTTTCAGCCTGT 58.144 47.619 0.00 0.00 43.32 4.00
2382 3696 1.538950 GCTCCTCTGTTTTTCAGCCTG 59.461 52.381 0.00 0.00 43.32 4.85
2383 3697 1.546548 GGCTCCTCTGTTTTTCAGCCT 60.547 52.381 0.34 0.00 43.32 4.58
2384 3698 0.884514 GGCTCCTCTGTTTTTCAGCC 59.115 55.000 0.00 0.00 43.32 4.85
2385 3699 0.884514 GGGCTCCTCTGTTTTTCAGC 59.115 55.000 0.00 0.00 43.32 4.26
2386 3700 2.431454 GAGGGCTCCTCTGTTTTTCAG 58.569 52.381 12.53 0.00 46.41 3.02
2387 3701 2.568623 GAGGGCTCCTCTGTTTTTCA 57.431 50.000 12.53 0.00 46.41 2.69
2412 3726 0.827507 AACACCCACCCAGATGCAAC 60.828 55.000 0.00 0.00 0.00 4.17
2416 3730 2.577606 TGTTAACACCCACCCAGATG 57.422 50.000 3.59 0.00 0.00 2.90
2417 3731 2.445525 ACTTGTTAACACCCACCCAGAT 59.554 45.455 8.07 0.00 0.00 2.90
2418 3732 1.847737 ACTTGTTAACACCCACCCAGA 59.152 47.619 8.07 0.00 0.00 3.86
2419 3733 1.953686 CACTTGTTAACACCCACCCAG 59.046 52.381 8.07 3.71 0.00 4.45
2462 3781 5.961272 ACATGGAAACGAAAACTGAAAAGT 58.039 33.333 0.00 0.00 0.00 2.66
2475 3794 4.452114 TGATCTCACAAGAACATGGAAACG 59.548 41.667 0.00 0.00 34.49 3.60
2537 3863 4.012374 ACCTAAACAGCTTCATGACATGG 58.988 43.478 15.37 1.62 0.00 3.66
2605 3931 6.869695 TCTGATGTCGCTATTAGTTTTGGTA 58.130 36.000 0.00 0.00 0.00 3.25
2706 4039 9.143631 ACAAATTTGCAGTTAATTAGAGCATTC 57.856 29.630 18.12 0.00 34.87 2.67
2741 4074 3.319689 TCAGATAATGCCATTGCCATGTG 59.680 43.478 0.00 0.00 36.33 3.21
2760 4095 0.523072 CCCAACGGCATTTCACTCAG 59.477 55.000 0.00 0.00 0.00 3.35
2771 4106 1.270041 TGCTCAAAATTTCCCAACGGC 60.270 47.619 0.00 0.00 0.00 5.68
2773 4108 3.243367 TGTCTGCTCAAAATTTCCCAACG 60.243 43.478 0.00 0.00 0.00 4.10
2779 4114 7.983307 ACTATCTCATGTCTGCTCAAAATTTC 58.017 34.615 0.00 0.00 0.00 2.17
2783 4118 7.038048 CACTACTATCTCATGTCTGCTCAAAA 58.962 38.462 0.00 0.00 0.00 2.44
2787 4122 5.766150 ACACTACTATCTCATGTCTGCTC 57.234 43.478 0.00 0.00 0.00 4.26
2838 4174 6.034363 CGTATTGCTTCCGATATTCTCTCATG 59.966 42.308 0.00 0.00 0.00 3.07
2843 4179 3.368236 GGCGTATTGCTTCCGATATTCTC 59.632 47.826 0.00 0.00 45.43 2.87
2845 4181 2.415512 GGGCGTATTGCTTCCGATATTC 59.584 50.000 0.00 0.00 45.43 1.75
2856 4192 7.668525 AAAAAGTAGATATAGGGCGTATTGC 57.331 36.000 4.88 0.00 45.38 3.56
2943 4287 3.244215 ACTCTTGTGGCTTTCATTCTCGA 60.244 43.478 0.00 0.00 0.00 4.04
2945 4289 5.703130 ACTAACTCTTGTGGCTTTCATTCTC 59.297 40.000 0.00 0.00 0.00 2.87
2956 4300 5.392286 GTCGAAGTCTACTAACTCTTGTGG 58.608 45.833 0.00 0.00 0.00 4.17
2964 4308 4.410492 TGGAACGTCGAAGTCTACTAAC 57.590 45.455 4.00 0.00 0.00 2.34
2966 4310 4.673580 GCAATGGAACGTCGAAGTCTACTA 60.674 45.833 4.00 0.00 0.00 1.82
2992 4336 2.810852 CAGGAAGCAACTGAAGAAGTCC 59.189 50.000 0.00 0.00 38.56 3.85
3016 4360 4.667573 TGCTAGGAATCGACTGGATAGAT 58.332 43.478 0.00 0.00 34.08 1.98
3031 4375 1.135199 GTCGTTTCGGTGATGCTAGGA 60.135 52.381 0.00 0.00 0.00 2.94
3041 4385 1.001048 TGAATCTCGTGTCGTTTCGGT 60.001 47.619 0.00 0.00 0.00 4.69
3042 4386 1.649171 CTGAATCTCGTGTCGTTTCGG 59.351 52.381 0.00 0.00 0.00 4.30
3044 4388 2.058798 TGCTGAATCTCGTGTCGTTTC 58.941 47.619 0.00 0.00 0.00 2.78
3052 4396 1.800805 CAAGTGGTGCTGAATCTCGT 58.199 50.000 0.00 0.00 0.00 4.18
3079 4442 6.463995 AGTTTGAGTGGTTTAATGCAAGAA 57.536 33.333 0.00 0.00 0.00 2.52
3081 4444 8.730680 AGTATAGTTTGAGTGGTTTAATGCAAG 58.269 33.333 0.00 0.00 0.00 4.01
3088 4451 9.616156 TTGTTTCAGTATAGTTTGAGTGGTTTA 57.384 29.630 0.00 0.00 0.00 2.01
3091 4454 8.514330 TTTTGTTTCAGTATAGTTTGAGTGGT 57.486 30.769 0.00 0.00 0.00 4.16
3127 4490 9.236006 ACTACAATGCATTCTTCTGAACTTATT 57.764 29.630 9.53 0.00 34.71 1.40
3128 4491 8.798859 ACTACAATGCATTCTTCTGAACTTAT 57.201 30.769 9.53 0.00 34.71 1.73
3129 4492 9.151471 GTACTACAATGCATTCTTCTGAACTTA 57.849 33.333 9.53 0.00 34.71 2.24
3132 4495 6.595716 AGGTACTACAATGCATTCTTCTGAAC 59.404 38.462 9.53 2.50 36.02 3.18


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

AutoCloner maintained by Alex Coulton.