Multiple sequence alignment - TraesCS6A01G230600

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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 TraesCS6A01G230600 chr6A 100.000 4805 0 0 1 4805 435247039 435251843 0.000000e+00 8874
1 TraesCS6A01G230600 chr6D 96.757 1665 50 3 2425 4088 289629958 289628297 0.000000e+00 2772
2 TraesCS6A01G230600 chr6D 93.373 1675 61 18 680 2347 289631584 289629953 0.000000e+00 2433
3 TraesCS6A01G230600 chr6D 94.201 638 25 7 4090 4723 289628197 289627568 0.000000e+00 963
4 TraesCS6A01G230600 chr6D 80.364 550 81 17 99 635 239054274 239053739 4.510000e-105 392
5 TraesCS6A01G230600 chr6D 81.600 500 63 18 1 485 292078353 292078838 2.100000e-103 387
6 TraesCS6A01G230600 chr6D 90.991 111 9 1 4696 4805 289627564 289627454 1.080000e-31 148
7 TraesCS6A01G230600 chr6D 93.814 97 2 2 2338 2434 27308700 27308608 5.010000e-30 143
8 TraesCS6A01G230600 chr6D 91.429 105 5 2 2333 2436 443958612 443958511 1.800000e-29 141
9 TraesCS6A01G230600 chr6B 96.699 1666 45 5 2425 4088 450639865 450638208 0.000000e+00 2763
10 TraesCS6A01G230600 chr6B 93.441 1555 45 17 695 2237 450641531 450640022 0.000000e+00 2254
11 TraesCS6A01G230600 chr6B 90.016 631 32 3 4090 4717 450638106 450637504 0.000000e+00 787
12 TraesCS6A01G230600 chr6B 95.161 124 6 0 2220 2343 450639984 450639861 3.790000e-46 196
13 TraesCS6A01G230600 chr7B 80.061 657 98 22 1 635 32018400 32019045 1.580000e-124 457
14 TraesCS6A01G230600 chr4D 81.655 556 73 18 16 552 508553565 508554110 7.390000e-118 435
15 TraesCS6A01G230600 chr5D 79.039 687 94 31 1 662 37895462 37896123 4.440000e-115 425
16 TraesCS6A01G230600 chr5D 84.182 373 46 9 1 362 424080150 424080520 2.750000e-92 350
17 TraesCS6A01G230600 chr3D 79.805 614 94 19 73 669 281092623 281092023 2.070000e-113 420
18 TraesCS6A01G230600 chr3D 92.233 103 4 2 2333 2435 30979289 30979387 5.010000e-30 143
19 TraesCS6A01G230600 chr2D 79.965 579 81 22 1 557 579200071 579199506 1.250000e-105 394
20 TraesCS6A01G230600 chr2D 90.654 107 7 1 2338 2444 165009323 165009220 6.480000e-29 139
21 TraesCS6A01G230600 chr2B 79.004 562 89 21 1 544 516537132 516536582 1.640000e-94 357
22 TraesCS6A01G230600 chr2B 78.287 502 74 25 1 483 10415979 10415494 1.690000e-74 291
23 TraesCS6A01G230600 chr2B 79.457 258 43 7 384 635 135711405 135711152 1.780000e-39 174
24 TraesCS6A01G230600 chr2B 96.739 92 3 0 2337 2428 745781717 745781626 2.320000e-33 154
25 TraesCS6A01G230600 chr5A 80.882 476 62 17 1 465 52876478 52876935 9.900000e-92 348
26 TraesCS6A01G230600 chr7D 79.278 526 81 20 16 520 319899643 319900161 4.600000e-90 342
27 TraesCS6A01G230600 chr7D 92.308 104 5 1 2331 2434 34845547 34845647 1.390000e-30 145
28 TraesCS6A01G230600 chr2A 80.563 355 54 10 287 635 337724820 337724475 4.770000e-65 259
29 TraesCS6A01G230600 chr2A 91.429 105 4 4 2332 2434 88119661 88119762 6.480000e-29 139
30 TraesCS6A01G230600 chr1D 76.555 418 86 10 3169 3583 416099338 416098930 8.100000e-53 219
31 TraesCS6A01G230600 chr1A 76.214 412 86 10 3175 3583 513624124 513623722 1.750000e-49 207
32 TraesCS6A01G230600 chr1A 79.562 137 28 0 1334 1470 513625930 513625794 1.100000e-16 99
33 TraesCS6A01G230600 chr1B 75.787 413 86 11 3175 3583 562375520 562375118 3.790000e-46 196
34 TraesCS6A01G230600 chr1B 83.942 137 22 0 1334 1470 562377419 562377283 1.090000e-26 132
35 TraesCS6A01G230600 chr3A 89.381 113 7 4 2323 2435 721624062 721623955 2.330000e-28 137
36 TraesCS6A01G230600 chr3B 85.294 136 13 6 2314 2446 188484190 188484059 3.020000e-27 134


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 TraesCS6A01G230600 chr6A 435247039 435251843 4804 False 8874 8874 100.00000 1 4805 1 chr6A.!!$F1 4804
1 TraesCS6A01G230600 chr6D 289627454 289631584 4130 True 1579 2772 93.83050 680 4805 4 chr6D.!!$R4 4125
2 TraesCS6A01G230600 chr6D 239053739 239054274 535 True 392 392 80.36400 99 635 1 chr6D.!!$R2 536
3 TraesCS6A01G230600 chr6B 450637504 450641531 4027 True 1500 2763 93.82925 695 4717 4 chr6B.!!$R1 4022
4 TraesCS6A01G230600 chr7B 32018400 32019045 645 False 457 457 80.06100 1 635 1 chr7B.!!$F1 634
5 TraesCS6A01G230600 chr4D 508553565 508554110 545 False 435 435 81.65500 16 552 1 chr4D.!!$F1 536
6 TraesCS6A01G230600 chr5D 37895462 37896123 661 False 425 425 79.03900 1 662 1 chr5D.!!$F1 661
7 TraesCS6A01G230600 chr3D 281092023 281092623 600 True 420 420 79.80500 73 669 1 chr3D.!!$R1 596
8 TraesCS6A01G230600 chr2D 579199506 579200071 565 True 394 394 79.96500 1 557 1 chr2D.!!$R2 556
9 TraesCS6A01G230600 chr2B 516536582 516537132 550 True 357 357 79.00400 1 544 1 chr2B.!!$R3 543
10 TraesCS6A01G230600 chr7D 319899643 319900161 518 False 342 342 79.27800 16 520 1 chr7D.!!$F2 504

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
670 717 0.107643 GGAGATGCTCTAAGCCCACC 59.892 60.000 0.00 0.0 41.51 4.61 F
1350 1402 0.035915 GGGAGGAGTCAAGTGAAGCC 60.036 60.000 0.00 0.0 0.00 4.35 F
1513 1574 1.134280 AGGAAGCATCGAAGGGTCATG 60.134 52.381 0.00 0.0 0.00 3.07 F
2180 2259 1.885871 GGTGAACATTCAGCCAGCC 59.114 57.895 11.86 0.0 46.84 4.85 F
3270 3404 1.004277 TGCTTCCCTAACCCATCACAC 59.996 52.381 0.00 0.0 0.00 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1477 1529 0.256464 TCCTCCTCCTCCTCGTCTTC 59.744 60.000 0.00 0.0 0.00 2.87 R
3242 3376 0.251165 GTTAGGGAAGCAGCCACCAA 60.251 55.000 7.62 0.0 0.00 3.67 R
3270 3404 1.160137 GCTGCTGTGGTAAGAACTGG 58.840 55.000 0.00 0.0 0.00 4.00 R
3735 3869 1.425066 TGTTGTGGCCTTCTTCCAGAT 59.575 47.619 3.32 0.0 33.63 2.90 R
4590 4829 0.108992 ATCGCACCAAGCAGCAAATG 60.109 50.000 0.00 0.0 46.13 2.32 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
51 56 4.154347 GGCTGTGCCTCCTCCTCG 62.154 72.222 0.73 0.00 46.69 4.63
52 57 4.154347 GCTGTGCCTCCTCCTCGG 62.154 72.222 0.00 0.00 0.00 4.63
147 161 4.120331 GTGGCCGCCATGAAGTGC 62.120 66.667 16.96 0.00 35.28 4.40
168 182 3.346734 TGGGAGGATTGGGCCCAC 61.347 66.667 28.70 15.02 46.57 4.61
171 185 2.597903 GAGGATTGGGCCCACCTC 59.402 66.667 34.36 34.36 41.31 3.85
173 187 3.728373 GGATTGGGCCCACCTCGT 61.728 66.667 28.70 8.40 41.11 4.18
174 188 2.124695 GATTGGGCCCACCTCGTC 60.125 66.667 28.70 14.03 41.11 4.20
175 189 4.096003 ATTGGGCCCACCTCGTCG 62.096 66.667 28.70 0.00 41.11 5.12
344 373 1.376037 GGCCGTGTGAAGAAGGAGG 60.376 63.158 0.00 0.00 0.00 4.30
346 378 0.670854 GCCGTGTGAAGAAGGAGGAC 60.671 60.000 0.00 0.00 0.00 3.85
349 381 1.202582 CGTGTGAAGAAGGAGGACGAT 59.797 52.381 0.00 0.00 0.00 3.73
379 414 0.521242 GCAAAGATGGCAACTACGCG 60.521 55.000 3.53 3.53 37.61 6.01
381 416 0.321298 AAAGATGGCAACTACGCGGT 60.321 50.000 12.47 0.00 37.61 5.68
386 421 2.468532 GCAACTACGCGGTGTTCG 59.531 61.111 12.47 10.47 42.76 3.95
405 440 1.594331 GGCAAGTTCTTCGACCTGTT 58.406 50.000 0.00 0.00 0.00 3.16
429 464 2.049156 GCAGCGGCCCTTTGTTTC 60.049 61.111 0.00 0.00 0.00 2.78
430 465 2.564721 GCAGCGGCCCTTTGTTTCT 61.565 57.895 0.00 0.00 0.00 2.52
504 544 2.795175 ATCGCCGAATCTATGTCGTT 57.205 45.000 0.00 0.00 36.77 3.85
573 615 0.251354 GTCTGAAGATGGCAGCTGGA 59.749 55.000 17.12 2.45 33.45 3.86
576 618 2.025605 TCTGAAGATGGCAGCTGGAAAT 60.026 45.455 17.12 0.00 33.45 2.17
577 619 2.758979 CTGAAGATGGCAGCTGGAAATT 59.241 45.455 17.12 0.00 0.00 1.82
578 620 3.167485 TGAAGATGGCAGCTGGAAATTT 58.833 40.909 17.12 0.00 0.00 1.82
590 632 0.746659 GGAAATTTGATCGCCCCCAG 59.253 55.000 0.00 0.00 0.00 4.45
591 633 1.684869 GGAAATTTGATCGCCCCCAGA 60.685 52.381 0.00 0.00 0.00 3.86
594 636 1.570857 ATTTGATCGCCCCCAGACCA 61.571 55.000 0.00 0.00 0.00 4.02
615 657 4.202010 CCAAAAATATCATCGGTTCGCCTT 60.202 41.667 0.00 0.00 34.30 4.35
618 660 2.509052 TATCATCGGTTCGCCTTCAG 57.491 50.000 0.00 0.00 34.30 3.02
619 661 0.824109 ATCATCGGTTCGCCTTCAGA 59.176 50.000 0.00 0.00 34.30 3.27
649 696 2.684001 TTCTAATCCATGCGAACGGT 57.316 45.000 0.00 0.00 0.00 4.83
665 712 1.134670 ACGGTTGGAGATGCTCTAAGC 60.135 52.381 11.22 11.22 42.91 3.09
669 716 0.833287 TGGAGATGCTCTAAGCCCAC 59.167 55.000 0.00 0.00 41.51 4.61
670 717 0.107643 GGAGATGCTCTAAGCCCACC 59.892 60.000 0.00 0.00 41.51 4.61
671 718 0.107643 GAGATGCTCTAAGCCCACCC 59.892 60.000 0.00 0.00 41.51 4.61
672 719 0.621571 AGATGCTCTAAGCCCACCCA 60.622 55.000 0.00 0.00 41.51 4.51
673 720 0.179034 GATGCTCTAAGCCCACCCAG 60.179 60.000 0.00 0.00 41.51 4.45
674 721 1.639635 ATGCTCTAAGCCCACCCAGG 61.640 60.000 0.00 0.00 41.51 4.45
675 722 1.995626 GCTCTAAGCCCACCCAGGA 60.996 63.158 0.00 0.00 41.22 3.86
676 723 1.908483 CTCTAAGCCCACCCAGGAC 59.092 63.158 0.00 0.00 41.22 3.85
677 724 1.961180 CTCTAAGCCCACCCAGGACG 61.961 65.000 0.00 0.00 41.22 4.79
678 725 2.203877 TAAGCCCACCCAGGACGT 60.204 61.111 0.00 0.00 41.22 4.34
720 767 1.188219 AGCCTCGTCTCCTTTGCTCA 61.188 55.000 0.00 0.00 0.00 4.26
721 768 1.016653 GCCTCGTCTCCTTTGCTCAC 61.017 60.000 0.00 0.00 0.00 3.51
722 769 0.390472 CCTCGTCTCCTTTGCTCACC 60.390 60.000 0.00 0.00 0.00 4.02
723 770 0.734253 CTCGTCTCCTTTGCTCACCG 60.734 60.000 0.00 0.00 0.00 4.94
724 771 2.383527 CGTCTCCTTTGCTCACCGC 61.384 63.158 0.00 0.00 39.77 5.68
780 828 1.613317 GCCCAAAACCCCCACATAGC 61.613 60.000 0.00 0.00 0.00 2.97
782 830 0.975556 CCAAAACCCCCACATAGCCC 60.976 60.000 0.00 0.00 0.00 5.19
983 1032 4.135153 CCCAGCACGCGAGCTAGT 62.135 66.667 29.99 6.85 44.54 2.57
1038 1087 4.957296 TGGTGAAAGAGGTACTGAAAGAC 58.043 43.478 0.00 0.00 41.55 3.01
1042 1091 4.342951 TGAAAGAGGTACTGAAAGACGGAA 59.657 41.667 0.00 0.00 41.55 4.30
1051 1100 0.981943 GAAAGACGGAAGGGGGAAGA 59.018 55.000 0.00 0.00 0.00 2.87
1103 1152 0.103026 CGTGCTGAGATGATTCCCGA 59.897 55.000 0.00 0.00 0.00 5.14
1140 1189 0.402121 AAGTGGAAGGTGGAGGAAGC 59.598 55.000 0.00 0.00 0.00 3.86
1239 1288 1.283321 GAGAATGGAGGAAGCAAGGGT 59.717 52.381 0.00 0.00 0.00 4.34
1311 1363 1.914108 TCGAGTAGTGAGGAGGAGGAA 59.086 52.381 0.00 0.00 0.00 3.36
1317 1369 1.936631 AGTGAGGAGGAGGAAGAGGAT 59.063 52.381 0.00 0.00 0.00 3.24
1320 1372 2.316108 GAGGAGGAGGAAGAGGATGAC 58.684 57.143 0.00 0.00 0.00 3.06
1321 1373 1.036707 GGAGGAGGAAGAGGATGACG 58.963 60.000 0.00 0.00 0.00 4.35
1322 1374 1.410365 GGAGGAGGAAGAGGATGACGA 60.410 57.143 0.00 0.00 0.00 4.20
1323 1375 2.593026 GAGGAGGAAGAGGATGACGAT 58.407 52.381 0.00 0.00 0.00 3.73
1324 1376 2.295909 GAGGAGGAAGAGGATGACGATG 59.704 54.545 0.00 0.00 0.00 3.84
1325 1377 2.091610 AGGAGGAAGAGGATGACGATGA 60.092 50.000 0.00 0.00 0.00 2.92
1326 1378 2.295909 GGAGGAAGAGGATGACGATGAG 59.704 54.545 0.00 0.00 0.00 2.90
1327 1379 2.295909 GAGGAAGAGGATGACGATGAGG 59.704 54.545 0.00 0.00 0.00 3.86
1328 1380 2.091610 AGGAAGAGGATGACGATGAGGA 60.092 50.000 0.00 0.00 0.00 3.71
1329 1381 2.295909 GGAAGAGGATGACGATGAGGAG 59.704 54.545 0.00 0.00 0.00 3.69
1330 1382 1.993956 AGAGGATGACGATGAGGAGG 58.006 55.000 0.00 0.00 0.00 4.30
1331 1383 0.965439 GAGGATGACGATGAGGAGGG 59.035 60.000 0.00 0.00 0.00 4.30
1350 1402 0.035915 GGGAGGAGTCAAGTGAAGCC 60.036 60.000 0.00 0.00 0.00 4.35
1465 1517 7.090808 GGTTGGAATCAATGATGATGATGATG 58.909 38.462 0.00 0.00 45.60 3.07
1466 1518 7.039993 GGTTGGAATCAATGATGATGATGATGA 60.040 37.037 0.00 0.00 45.60 2.92
1467 1519 8.523658 GTTGGAATCAATGATGATGATGATGAT 58.476 33.333 0.00 0.00 45.60 2.45
1468 1520 8.055279 TGGAATCAATGATGATGATGATGATG 57.945 34.615 0.00 0.00 45.60 3.07
1469 1521 7.888021 TGGAATCAATGATGATGATGATGATGA 59.112 33.333 0.00 0.00 45.60 2.92
1470 1522 8.907885 GGAATCAATGATGATGATGATGATGAT 58.092 33.333 0.00 0.00 45.60 2.45
1471 1523 9.727627 GAATCAATGATGATGATGATGATGATG 57.272 33.333 0.00 0.00 45.60 3.07
1472 1524 9.466497 AATCAATGATGATGATGATGATGATGA 57.534 29.630 0.00 0.00 45.60 2.92
1473 1525 9.638176 ATCAATGATGATGATGATGATGATGAT 57.362 29.630 0.00 0.00 44.63 2.45
1474 1526 8.896744 TCAATGATGATGATGATGATGATGATG 58.103 33.333 0.00 0.00 0.00 3.07
1475 1527 8.896744 CAATGATGATGATGATGATGATGATGA 58.103 33.333 0.00 0.00 0.00 2.92
1476 1528 7.849804 TGATGATGATGATGATGATGATGAC 57.150 36.000 0.00 0.00 0.00 3.06
1477 1529 6.535150 TGATGATGATGATGATGATGATGACG 59.465 38.462 0.00 0.00 0.00 4.35
1478 1530 6.032956 TGATGATGATGATGATGATGACGA 57.967 37.500 0.00 0.00 0.00 4.20
1479 1531 6.460781 TGATGATGATGATGATGATGACGAA 58.539 36.000 0.00 0.00 0.00 3.85
1513 1574 1.134280 AGGAAGCATCGAAGGGTCATG 60.134 52.381 0.00 0.00 0.00 3.07
1615 1679 2.649331 TGCTAGCGAGTTACAGTTCC 57.351 50.000 10.77 0.00 0.00 3.62
1865 1939 6.478344 TCAATTGTTGATTTGTTGCTACAACC 59.522 34.615 13.36 9.02 38.14 3.77
2180 2259 1.885871 GGTGAACATTCAGCCAGCC 59.114 57.895 11.86 0.00 46.84 4.85
2349 2483 9.863650 TTGCAACTATTATCTAGTACTACCTCT 57.136 33.333 0.00 0.00 0.00 3.69
2350 2484 9.286170 TGCAACTATTATCTAGTACTACCTCTG 57.714 37.037 0.00 0.00 0.00 3.35
2351 2485 9.287373 GCAACTATTATCTAGTACTACCTCTGT 57.713 37.037 0.00 0.00 0.00 3.41
2368 2502 9.828852 CTACCTCTGTAAACTAATATAAGAGCG 57.171 37.037 0.00 0.00 0.00 5.03
2369 2503 8.235359 ACCTCTGTAAACTAATATAAGAGCGT 57.765 34.615 0.00 0.00 0.00 5.07
2370 2504 8.693625 ACCTCTGTAAACTAATATAAGAGCGTT 58.306 33.333 0.00 0.00 0.00 4.84
2371 2505 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
2386 2520 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
2387 2521 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
2388 2522 8.503458 AGAGCGTTTAGATCACTAAAGTAGTA 57.497 34.615 0.00 0.00 45.42 1.82
2389 2523 8.614346 AGAGCGTTTAGATCACTAAAGTAGTAG 58.386 37.037 0.00 0.00 45.42 2.57
2390 2524 8.278729 AGCGTTTAGATCACTAAAGTAGTAGT 57.721 34.615 0.00 0.00 45.42 2.73
2402 2536 8.278729 ACTAAAGTAGTAGTGATCTAAACGCT 57.721 34.615 0.00 0.00 37.23 5.07
2403 2537 8.397148 ACTAAAGTAGTAGTGATCTAAACGCTC 58.603 37.037 0.00 0.00 37.23 5.03
2404 2538 7.393841 AAAGTAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 0.00 4.09
2405 2539 7.393841 AAGTAGTAGTGATCTAAACGCTCTT 57.606 36.000 0.00 0.00 0.00 2.85
2406 2540 8.503458 AAGTAGTAGTGATCTAAACGCTCTTA 57.497 34.615 0.00 0.00 0.00 2.10
2407 2541 8.680039 AGTAGTAGTGATCTAAACGCTCTTAT 57.320 34.615 0.00 0.00 0.00 1.73
2408 2542 9.775854 AGTAGTAGTGATCTAAACGCTCTTATA 57.224 33.333 0.00 0.00 0.00 0.98
2419 2553 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
2420 2554 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2421 2555 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2422 2556 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2423 2557 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
2424 2558 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
2522 2656 7.049799 AGGCTTCTCATTTAGTCATAGAGTC 57.950 40.000 0.00 0.00 0.00 3.36
2648 2782 2.485814 GAGTGATTGTTGAAGGGTCAGC 59.514 50.000 0.00 0.00 34.49 4.26
2925 3059 5.420104 GGACCAAACAGATGATCCTGAATTT 59.580 40.000 6.04 0.00 37.59 1.82
2940 3074 6.230472 TCCTGAATTTTCTGATGACGAGAAA 58.770 36.000 0.00 0.00 37.60 2.52
3153 3287 1.929836 GCTCCTGTTGCTGATAACTCG 59.070 52.381 0.00 0.00 0.00 4.18
3242 3376 3.087031 CCATTCAGTTTGCAGACCAGAT 58.913 45.455 3.32 0.00 0.00 2.90
3243 3377 3.508793 CCATTCAGTTTGCAGACCAGATT 59.491 43.478 3.32 0.00 0.00 2.40
3270 3404 1.004277 TGCTTCCCTAACCCATCACAC 59.996 52.381 0.00 0.00 0.00 3.82
3407 3541 4.060900 CTCAGTGGATCCAATCAATACCG 58.939 47.826 18.20 1.09 0.00 4.02
3606 3740 3.094498 GGGTACTTGGCCGGGGAT 61.094 66.667 2.18 0.00 0.00 3.85
3735 3869 0.261991 ATCAGGGGAGCTCGTCCTTA 59.738 55.000 20.52 15.15 46.06 2.69
3802 3936 2.584608 GTAGTGGCGGGCATCACT 59.415 61.111 7.75 2.79 45.10 3.41
3889 4023 7.549147 TGTAAGTCTCCCTGTAATTGTAGTT 57.451 36.000 0.00 0.00 0.00 2.24
3897 4031 7.816031 TCTCCCTGTAATTGTAGTTTTTACTCG 59.184 37.037 0.00 0.00 0.00 4.18
3960 4095 4.201891 GCATGTTGCTCATTACTTCTGGAG 60.202 45.833 0.00 0.00 40.96 3.86
4085 4220 7.413657 GCTTTATCGTGGTGTAATTTTCTGCTA 60.414 37.037 0.00 0.00 0.00 3.49
4088 4223 3.126343 CGTGGTGTAATTTTCTGCTACCC 59.874 47.826 0.00 0.00 0.00 3.69
4173 4408 2.964740 TGATCTGTCCTTCGCTGAAAG 58.035 47.619 0.00 0.00 0.00 2.62
4191 4426 6.653526 TGAAAGAAATGGATGTGACAATGT 57.346 33.333 0.00 0.00 0.00 2.71
4224 4459 1.681793 GCTCCTTCTATCGTGTAGGCA 59.318 52.381 0.00 0.00 0.00 4.75
4280 4515 2.949644 AGGTGTTTGAACTGGTAGCAAC 59.050 45.455 0.00 0.00 0.00 4.17
4312 4547 2.110352 GGGTGGCGGGTTTATCACG 61.110 63.158 0.00 0.00 46.88 4.35
4376 4612 8.618240 TCCAGTATTGATCTTTCCCTTAGTAA 57.382 34.615 0.00 0.00 0.00 2.24
4421 4657 7.631717 ATGTTTCTTATTTACCTTCTCAGGC 57.368 36.000 0.00 0.00 45.56 4.85
4444 4680 5.107104 GCCTTTTAAAATGCTTGCAGTTACC 60.107 40.000 17.75 0.00 0.00 2.85
4495 4731 2.573009 TGAATCAGGAAGCTGATGGTGA 59.427 45.455 0.00 0.00 42.63 4.02
4554 4790 6.200878 AGAAGTTCAGATTTGGGGAGTTAA 57.799 37.500 5.50 0.00 0.00 2.01
4576 4815 5.532025 AGCTGATAAACTTGTACTTTCGC 57.468 39.130 0.00 0.00 0.00 4.70
4586 4825 4.333372 ACTTGTACTTTCGCTTTCGGAAAA 59.667 37.500 4.53 0.00 31.94 2.29
4590 4829 2.051423 CTTTCGCTTTCGGAAAAAGGC 58.949 47.619 4.53 4.11 31.94 4.35
4592 4831 1.243902 TCGCTTTCGGAAAAAGGCAT 58.756 45.000 4.53 0.00 36.13 4.40
4655 4894 2.788786 CAGTTTGCATTTGGACGACAAC 59.211 45.455 0.00 0.00 39.19 3.32
4656 4895 2.425312 AGTTTGCATTTGGACGACAACA 59.575 40.909 0.00 0.00 39.19 3.33
4657 4896 3.119316 AGTTTGCATTTGGACGACAACAA 60.119 39.130 0.00 0.00 39.19 2.83
4723 4962 4.142790 TCCGATAGTTTCTAGGGCAGTAG 58.857 47.826 0.00 0.00 0.00 2.57
4785 5056 0.592754 GCGTCCGTAGATGTGCTCTC 60.593 60.000 0.00 0.00 35.28 3.20
4793 5064 1.077429 GATGTGCTCTCCCCCAACC 60.077 63.158 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 0.320771 GTTGATGACGAGGTGGCACT 60.321 55.000 18.45 3.24 0.00 4.40
147 161 2.438434 GCCCAATCCTCCCACACG 60.438 66.667 0.00 0.00 0.00 4.49
188 202 3.197790 CAATCACCTCCAGGCGCG 61.198 66.667 0.00 0.00 39.32 6.86
189 203 3.512516 GCAATCACCTCCAGGCGC 61.513 66.667 0.00 0.00 39.32 6.53
278 298 2.672996 CTGGCGGACTGGTTTGGG 60.673 66.667 0.00 0.00 0.00 4.12
319 339 0.681887 TCTTCACACGGCCGATCCTA 60.682 55.000 35.90 12.93 0.00 2.94
323 343 1.079127 CCTTCTTCACACGGCCGAT 60.079 57.895 35.90 17.41 0.00 4.18
324 344 2.154798 CTCCTTCTTCACACGGCCGA 62.155 60.000 35.90 6.02 0.00 5.54
362 394 0.321298 ACCGCGTAGTTGCCATCTTT 60.321 50.000 4.92 0.00 0.00 2.52
363 395 1.019278 CACCGCGTAGTTGCCATCTT 61.019 55.000 4.92 0.00 0.00 2.40
364 396 1.447838 CACCGCGTAGTTGCCATCT 60.448 57.895 4.92 0.00 0.00 2.90
365 397 1.296056 AACACCGCGTAGTTGCCATC 61.296 55.000 11.87 0.00 0.00 3.51
366 398 1.296056 GAACACCGCGTAGTTGCCAT 61.296 55.000 16.60 0.00 0.00 4.40
367 399 1.957186 GAACACCGCGTAGTTGCCA 60.957 57.895 16.60 0.00 0.00 4.92
371 403 2.735857 GCCGAACACCGCGTAGTT 60.736 61.111 12.40 12.40 36.84 2.24
379 414 0.234884 CGAAGAACTTGCCGAACACC 59.765 55.000 0.00 0.00 0.00 4.16
381 416 1.214367 GTCGAAGAACTTGCCGAACA 58.786 50.000 0.00 0.00 39.69 3.18
468 508 2.806244 GCGATATTTAGGCGTTCCACAT 59.194 45.455 0.00 0.00 33.74 3.21
504 544 6.210078 ACATTCGACTAAAATTCGGCAAAAA 58.790 32.000 0.00 0.00 37.09 1.94
508 548 4.250464 AGACATTCGACTAAAATTCGGCA 58.750 39.130 0.00 0.00 37.09 5.69
560 602 2.811410 TCAAATTTCCAGCTGCCATCT 58.189 42.857 8.66 0.00 0.00 2.90
562 604 2.100252 CGATCAAATTTCCAGCTGCCAT 59.900 45.455 8.66 0.00 0.00 4.40
563 605 1.473677 CGATCAAATTTCCAGCTGCCA 59.526 47.619 8.66 0.00 0.00 4.92
567 609 1.106285 GGGCGATCAAATTTCCAGCT 58.894 50.000 0.00 0.00 0.00 4.24
573 615 1.474330 GTCTGGGGGCGATCAAATTT 58.526 50.000 0.00 0.00 0.00 1.82
576 618 1.784301 TTGGTCTGGGGGCGATCAAA 61.784 55.000 0.00 0.00 29.17 2.69
577 619 1.784301 TTTGGTCTGGGGGCGATCAA 61.784 55.000 0.00 0.00 30.14 2.57
578 620 1.784301 TTTTGGTCTGGGGGCGATCA 61.784 55.000 0.00 0.00 0.00 2.92
590 632 4.279659 GCGAACCGATGATATTTTTGGTC 58.720 43.478 0.00 0.00 0.00 4.02
591 633 3.066203 GGCGAACCGATGATATTTTTGGT 59.934 43.478 0.00 0.00 0.00 3.67
594 636 4.638421 TGAAGGCGAACCGATGATATTTTT 59.362 37.500 0.00 0.00 42.76 1.94
635 677 0.744414 CTCCAACCGTTCGCATGGAT 60.744 55.000 0.00 0.00 40.94 3.41
636 678 1.375396 CTCCAACCGTTCGCATGGA 60.375 57.895 0.00 13.45 39.57 3.41
665 712 1.302511 CTCAAACGTCCTGGGTGGG 60.303 63.158 0.00 0.00 36.20 4.61
669 716 1.361668 CGCATCTCAAACGTCCTGGG 61.362 60.000 0.00 0.00 0.00 4.45
670 717 0.670546 ACGCATCTCAAACGTCCTGG 60.671 55.000 0.00 0.00 34.35 4.45
671 718 1.148310 AACGCATCTCAAACGTCCTG 58.852 50.000 0.00 0.00 39.49 3.86
672 719 1.531149 CAAACGCATCTCAAACGTCCT 59.469 47.619 0.00 0.00 39.49 3.85
673 720 1.399727 CCAAACGCATCTCAAACGTCC 60.400 52.381 0.00 0.00 39.49 4.79
674 721 1.399727 CCCAAACGCATCTCAAACGTC 60.400 52.381 0.00 0.00 39.49 4.34
675 722 0.591170 CCCAAACGCATCTCAAACGT 59.409 50.000 0.00 0.00 42.81 3.99
676 723 0.729140 GCCCAAACGCATCTCAAACG 60.729 55.000 0.00 0.00 0.00 3.60
677 724 0.598065 AGCCCAAACGCATCTCAAAC 59.402 50.000 0.00 0.00 0.00 2.93
678 725 0.881118 GAGCCCAAACGCATCTCAAA 59.119 50.000 0.00 0.00 0.00 2.69
782 830 2.267961 GGTTCAGTACTGCGGGGG 59.732 66.667 18.45 0.00 0.00 5.40
792 840 1.073199 CCGCAAAGGAGGGTTCAGT 59.927 57.895 0.00 0.00 45.00 3.41
983 1032 7.496920 CAGAATCCATCTCAGTGTAAATAGCAA 59.503 37.037 0.00 0.00 35.73 3.91
1038 1087 2.040606 TCCCTCTTCCCCCTTCCG 59.959 66.667 0.00 0.00 0.00 4.30
1042 1091 2.652113 CCTCCTCCCTCTTCCCCCT 61.652 68.421 0.00 0.00 0.00 4.79
1051 1100 1.617839 CTTTGCTCCCCTCCTCCCT 60.618 63.158 0.00 0.00 0.00 4.20
1103 1152 2.438392 ACTTCCTTTTCCAACGAGACCT 59.562 45.455 0.00 0.00 0.00 3.85
1114 1163 3.149981 CTCCACCTTCCACTTCCTTTTC 58.850 50.000 0.00 0.00 0.00 2.29
1117 1166 1.068121 CCTCCACCTTCCACTTCCTT 58.932 55.000 0.00 0.00 0.00 3.36
1140 1189 2.674220 GCTCTGGTCCTCCCCCTTG 61.674 68.421 0.00 0.00 0.00 3.61
1175 1224 5.585445 ACTTCAGAATTCATCTCAGCATCAC 59.415 40.000 8.44 0.00 35.73 3.06
1239 1288 1.455959 GGCCTCGCTCTCCTCCTTA 60.456 63.158 0.00 0.00 0.00 2.69
1311 1363 1.480312 CCCTCCTCATCGTCATCCTCT 60.480 57.143 0.00 0.00 0.00 3.69
1317 1369 1.075970 CTCCCCCTCCTCATCGTCA 60.076 63.158 0.00 0.00 0.00 4.35
1320 1372 1.532794 CTCCTCCCCCTCCTCATCG 60.533 68.421 0.00 0.00 0.00 3.84
1321 1373 0.471022 GACTCCTCCCCCTCCTCATC 60.471 65.000 0.00 0.00 0.00 2.92
1322 1374 1.231751 TGACTCCTCCCCCTCCTCAT 61.232 60.000 0.00 0.00 0.00 2.90
1323 1375 1.452226 TTGACTCCTCCCCCTCCTCA 61.452 60.000 0.00 0.00 0.00 3.86
1324 1376 0.689412 CTTGACTCCTCCCCCTCCTC 60.689 65.000 0.00 0.00 0.00 3.71
1325 1377 1.394151 CTTGACTCCTCCCCCTCCT 59.606 63.158 0.00 0.00 0.00 3.69
1326 1378 1.081277 ACTTGACTCCTCCCCCTCC 59.919 63.158 0.00 0.00 0.00 4.30
1327 1379 0.252284 TCACTTGACTCCTCCCCCTC 60.252 60.000 0.00 0.00 0.00 4.30
1328 1380 0.193574 TTCACTTGACTCCTCCCCCT 59.806 55.000 0.00 0.00 0.00 4.79
1329 1381 0.615850 CTTCACTTGACTCCTCCCCC 59.384 60.000 0.00 0.00 0.00 5.40
1330 1382 0.035915 GCTTCACTTGACTCCTCCCC 60.036 60.000 0.00 0.00 0.00 4.81
1331 1383 0.035915 GGCTTCACTTGACTCCTCCC 60.036 60.000 0.00 0.00 0.00 4.30
1350 1402 0.248417 CCTCATCACTGCTCGACGAG 60.248 60.000 20.56 20.56 0.00 4.18
1465 1517 3.003793 TCCTCGTCTTCGTCATCATCATC 59.996 47.826 0.00 0.00 38.33 2.92
1466 1518 2.952310 TCCTCGTCTTCGTCATCATCAT 59.048 45.455 0.00 0.00 38.33 2.45
1467 1519 2.356069 CTCCTCGTCTTCGTCATCATCA 59.644 50.000 0.00 0.00 38.33 3.07
1468 1520 2.287308 CCTCCTCGTCTTCGTCATCATC 60.287 54.545 0.00 0.00 38.33 2.92
1469 1521 1.678627 CCTCCTCGTCTTCGTCATCAT 59.321 52.381 0.00 0.00 38.33 2.45
1470 1522 1.095600 CCTCCTCGTCTTCGTCATCA 58.904 55.000 0.00 0.00 38.33 3.07
1471 1523 1.332375 CTCCTCCTCGTCTTCGTCATC 59.668 57.143 0.00 0.00 38.33 2.92
1472 1524 1.384525 CTCCTCCTCGTCTTCGTCAT 58.615 55.000 0.00 0.00 38.33 3.06
1473 1525 0.677098 CCTCCTCCTCGTCTTCGTCA 60.677 60.000 0.00 0.00 38.33 4.35
1474 1526 0.392729 TCCTCCTCCTCGTCTTCGTC 60.393 60.000 0.00 0.00 38.33 4.20
1475 1527 0.393267 CTCCTCCTCCTCGTCTTCGT 60.393 60.000 0.00 0.00 38.33 3.85
1476 1528 1.098712 CCTCCTCCTCCTCGTCTTCG 61.099 65.000 0.00 0.00 38.55 3.79
1477 1529 0.256464 TCCTCCTCCTCCTCGTCTTC 59.744 60.000 0.00 0.00 0.00 2.87
1478 1530 0.705253 TTCCTCCTCCTCCTCGTCTT 59.295 55.000 0.00 0.00 0.00 3.01
1479 1531 0.257616 CTTCCTCCTCCTCCTCGTCT 59.742 60.000 0.00 0.00 0.00 4.18
1513 1574 3.565482 TCTGCTTCATGTTTGGAGTTGAC 59.435 43.478 0.00 0.00 30.30 3.18
1569 1633 8.905660 ATGATTCACACTCTACTACGTACTAT 57.094 34.615 0.00 0.00 0.00 2.12
1575 1639 5.807520 AGCAAATGATTCACACTCTACTACG 59.192 40.000 0.00 0.00 0.00 3.51
1615 1679 8.032952 TGTAAAGTCAATTGTGCTGATTAGAG 57.967 34.615 5.13 0.00 0.00 2.43
1771 1845 4.788100 GCACACTGTATAAACAATTGAGCG 59.212 41.667 13.59 0.00 34.49 5.03
2180 2259 7.279615 TCTATACATACACAAAATGGGAGGTG 58.720 38.462 0.00 0.00 37.29 4.00
2252 2386 8.421784 ACTGATACGGTCAAATTATCATAGTGT 58.578 33.333 0.00 0.00 36.14 3.55
2271 2405 6.763610 CCAGAATCCCAAAACTCTACTGATAC 59.236 42.308 0.00 0.00 0.00 2.24
2281 2415 4.202609 ACTGTCATCCAGAATCCCAAAACT 60.203 41.667 0.00 0.00 44.49 2.66
2343 2477 9.347240 ACGCTCTTATATTAGTTTACAGAGGTA 57.653 33.333 0.00 0.00 0.00 3.08
2345 2479 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
2360 2494 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
2361 2495 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
2362 2496 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
2363 2497 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
2364 2498 8.397148 ACTACTACTTTAGTGATCTAAACGCTC 58.603 37.037 0.00 0.00 40.05 5.03
2365 2499 8.278729 ACTACTACTTTAGTGATCTAAACGCT 57.721 34.615 0.00 0.00 40.05 5.07
2377 2511 8.278729 AGCGTTTAGATCACTACTACTTTAGT 57.721 34.615 0.00 0.00 42.68 2.24
2378 2512 8.614346 AGAGCGTTTAGATCACTACTACTTTAG 58.386 37.037 0.00 0.00 37.82 1.85
2379 2513 8.503458 AGAGCGTTTAGATCACTACTACTTTA 57.497 34.615 0.00 0.00 37.82 1.85
2380 2514 7.393841 AGAGCGTTTAGATCACTACTACTTT 57.606 36.000 0.00 0.00 37.82 2.66
2381 2515 7.393841 AAGAGCGTTTAGATCACTACTACTT 57.606 36.000 0.00 0.00 37.82 2.24
2382 2516 8.680039 ATAAGAGCGTTTAGATCACTACTACT 57.320 34.615 0.00 0.00 37.82 2.57
2393 2527 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
2394 2528 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2395 2529 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2396 2530 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2397 2531 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
2398 2532 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
2399 2533 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
2400 2534 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
2401 2535 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
2402 2536 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
2403 2537 8.518702 GGTACTCCCTCCGTAAACTAATATAAG 58.481 40.741 0.00 0.00 0.00 1.73
2404 2538 8.004215 TGGTACTCCCTCCGTAAACTAATATAA 58.996 37.037 0.00 0.00 0.00 0.98
2405 2539 7.526041 TGGTACTCCCTCCGTAAACTAATATA 58.474 38.462 0.00 0.00 0.00 0.86
2406 2540 6.376248 TGGTACTCCCTCCGTAAACTAATAT 58.624 40.000 0.00 0.00 0.00 1.28
2407 2541 5.765510 TGGTACTCCCTCCGTAAACTAATA 58.234 41.667 0.00 0.00 0.00 0.98
2408 2542 4.613437 TGGTACTCCCTCCGTAAACTAAT 58.387 43.478 0.00 0.00 0.00 1.73
2409 2543 4.046286 TGGTACTCCCTCCGTAAACTAA 57.954 45.455 0.00 0.00 0.00 2.24
2410 2544 3.737559 TGGTACTCCCTCCGTAAACTA 57.262 47.619 0.00 0.00 0.00 2.24
2411 2545 2.610438 TGGTACTCCCTCCGTAAACT 57.390 50.000 0.00 0.00 0.00 2.66
2412 2546 3.900966 AATGGTACTCCCTCCGTAAAC 57.099 47.619 0.00 0.00 0.00 2.01
2413 2547 4.914177 AAAATGGTACTCCCTCCGTAAA 57.086 40.909 0.00 0.00 0.00 2.01
2414 2548 4.914177 AAAAATGGTACTCCCTCCGTAA 57.086 40.909 0.00 0.00 0.00 3.18
2415 2549 6.350906 CATTAAAAATGGTACTCCCTCCGTA 58.649 40.000 0.00 0.00 0.00 4.02
2416 2550 4.914177 TTAAAAATGGTACTCCCTCCGT 57.086 40.909 0.00 0.00 0.00 4.69
2417 2551 4.578928 CCATTAAAAATGGTACTCCCTCCG 59.421 45.833 10.00 0.00 34.56 4.63
2418 2552 5.762279 TCCATTAAAAATGGTACTCCCTCC 58.238 41.667 16.24 0.00 40.06 4.30
2419 2553 7.898014 ATTCCATTAAAAATGGTACTCCCTC 57.102 36.000 16.24 0.00 40.06 4.30
2420 2554 8.679344 AAATTCCATTAAAAATGGTACTCCCT 57.321 30.769 16.24 0.00 40.06 4.20
2421 2555 9.733556 AAAAATTCCATTAAAAATGGTACTCCC 57.266 29.630 16.24 0.00 40.06 4.30
2498 2632 6.609212 TGACTCTATGACTAAATGAGAAGCCT 59.391 38.462 0.00 0.00 0.00 4.58
2579 2713 4.253685 CAAACAGTCAAGATATGGACCGT 58.746 43.478 0.00 0.00 34.58 4.83
2648 2782 1.135315 CATTCAGGGGATTGTGTTGCG 60.135 52.381 0.00 0.00 0.00 4.85
2925 3059 2.828520 AGCCTCTTTCTCGTCATCAGAA 59.171 45.455 0.00 0.00 0.00 3.02
2940 3074 5.690464 ATGATCTTTTGTACTCAGCCTCT 57.310 39.130 0.00 0.00 0.00 3.69
3242 3376 0.251165 GTTAGGGAAGCAGCCACCAA 60.251 55.000 7.62 0.00 0.00 3.67
3243 3377 1.378762 GTTAGGGAAGCAGCCACCA 59.621 57.895 7.62 0.00 0.00 4.17
3270 3404 1.160137 GCTGCTGTGGTAAGAACTGG 58.840 55.000 0.00 0.00 0.00 4.00
3407 3541 5.841957 ATTCTGATTCTGGTAATGTTGCC 57.158 39.130 0.00 0.00 0.00 4.52
3735 3869 1.425066 TGTTGTGGCCTTCTTCCAGAT 59.575 47.619 3.32 0.00 33.63 2.90
3802 3936 2.969950 ACGCCTGCCAGTTATCCTATTA 59.030 45.455 0.00 0.00 0.00 0.98
3889 4023 5.717078 TCAAGAAGTAGGAGCGAGTAAAA 57.283 39.130 0.00 0.00 0.00 1.52
4085 4220 5.020795 GGTTCCATATAAACACAAAGGGGT 58.979 41.667 3.39 0.00 0.00 4.95
4088 4223 4.944930 TCGGGTTCCATATAAACACAAAGG 59.055 41.667 3.97 0.00 30.22 3.11
4173 4408 4.651994 GACGACATTGTCACATCCATTTC 58.348 43.478 16.61 0.00 38.75 2.17
4191 4426 2.066262 GAAGGAGCACATTTTCGACGA 58.934 47.619 0.00 0.00 0.00 4.20
4280 4515 1.683943 CCACCCCATCATTGCTACTG 58.316 55.000 0.00 0.00 0.00 2.74
4421 4657 5.988561 TGGTAACTGCAAGCATTTTAAAAGG 59.011 36.000 8.21 8.21 37.60 3.11
4444 4680 4.445385 CGAAAAGGCTTCCTGATTTGTTTG 59.555 41.667 0.00 0.00 32.13 2.93
4495 4731 2.418368 TGTGAGGCTCGGCAAAATAT 57.582 45.000 10.42 0.00 0.00 1.28
4554 4790 5.238583 AGCGAAAGTACAAGTTTATCAGCT 58.761 37.500 0.00 0.00 0.00 4.24
4576 4815 3.184986 CAGCAAATGCCTTTTTCCGAAAG 59.815 43.478 0.94 0.00 43.38 2.62
4590 4829 0.108992 ATCGCACCAAGCAGCAAATG 60.109 50.000 0.00 0.00 46.13 2.32
4592 4831 0.521291 GTATCGCACCAAGCAGCAAA 59.479 50.000 0.00 0.00 46.13 3.68
4768 5038 0.386113 GGGAGAGCACATCTACGGAC 59.614 60.000 0.00 0.00 40.20 4.79
4785 5056 0.540830 TTGGATTTGACGGTTGGGGG 60.541 55.000 0.00 0.00 0.00 5.40


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

AutoCloner maintained by Alex Coulton.