Multiple sequence alignment - TraesCS6B01G165800

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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 TraesCS6B01G165800 chr6B 100.000 3322 0 0 1 3322 172370205 172366884 0.000000e+00 6135.0
1 TraesCS6B01G165800 chr6B 85.779 1540 158 28 803 2324 172466102 172464606 0.000000e+00 1574.0
2 TraesCS6B01G165800 chr6B 89.060 649 66 3 1687 2335 172575230 172574587 0.000000e+00 800.0
3 TraesCS6B01G165800 chr6B 83.876 676 80 23 932 1592 172575947 172575286 4.710000e-173 617.0
4 TraesCS6B01G165800 chr6D 91.907 2570 100 60 24 2558 90346592 90349088 0.000000e+00 3494.0
5 TraesCS6B01G165800 chr6D 89.623 636 63 1 1687 2322 90194529 90195161 0.000000e+00 806.0
6 TraesCS6B01G165800 chr6D 85.217 575 75 7 1025 1592 90193902 90194473 1.720000e-162 582.0
7 TraesCS6B01G165800 chr6A 93.002 2315 92 25 24 2324 108218272 108216014 0.000000e+00 3314.0
8 TraesCS6B01G165800 chr6A 92.787 610 44 0 1715 2324 108332002 108331393 0.000000e+00 883.0
9 TraesCS6B01G165800 chr6A 89.465 636 64 1 1687 2322 108652359 108651727 0.000000e+00 800.0
10 TraesCS6B01G165800 chr6A 84.388 743 83 16 883 1607 108332764 108332037 0.000000e+00 699.0
11 TraesCS6B01G165800 chr6A 84.495 574 76 9 1029 1592 108652986 108652416 3.740000e-154 555.0
12 TraesCS6B01G165800 chr4D 89.443 521 47 8 2794 3312 63583324 63583838 0.000000e+00 651.0
13 TraesCS6B01G165800 chr4D 93.151 365 20 3 2959 3322 386123394 386123034 6.310000e-147 531.0
14 TraesCS6B01G165800 chr3B 93.681 364 23 0 2956 3319 204845379 204845742 2.250000e-151 545.0
15 TraesCS6B01G165800 chr3B 92.283 311 20 3 2657 2963 779532941 779532631 3.930000e-119 438.0
16 TraesCS6B01G165800 chr7B 93.132 364 25 0 2956 3319 458856347 458856710 4.880000e-148 534.0
17 TraesCS6B01G165800 chr7B 91.850 319 18 6 2650 2963 596984912 596985227 3.930000e-119 438.0
18 TraesCS6B01G165800 chr7B 76.111 540 113 13 1726 2257 676424794 676425325 5.460000e-68 268.0
19 TraesCS6B01G165800 chr7B 83.206 131 22 0 1343 1473 676216654 676216524 1.620000e-23 121.0
20 TraesCS6B01G165800 chr7B 81.982 111 20 0 1330 1440 676452657 676452767 9.810000e-16 95.3
21 TraesCS6B01G165800 chr3D 93.151 365 21 2 2959 3322 602048312 602047951 1.750000e-147 532.0
22 TraesCS6B01G165800 chr3D 92.652 313 21 2 2652 2963 336811519 336811208 1.820000e-122 449.0
23 TraesCS6B01G165800 chr3D 92.381 315 21 3 2652 2963 500888568 500888254 2.350000e-121 446.0
24 TraesCS6B01G165800 chr7D 92.954 369 19 4 2959 3322 78290985 78290619 6.310000e-147 531.0
25 TraesCS6B01G165800 chr7D 92.381 315 18 4 2651 2963 78293253 78292943 8.460000e-121 444.0
26 TraesCS6B01G165800 chr7D 75.836 538 118 11 1726 2257 597653673 597653142 2.540000e-66 263.0
27 TraesCS6B01G165800 chr7D 82.692 156 23 3 1321 1473 597965458 597965612 5.780000e-28 135.0
28 TraesCS6B01G165800 chr7D 82.474 97 17 0 1344 1440 597574835 597574739 5.900000e-13 86.1
29 TraesCS6B01G165800 chr5D 93.169 366 17 5 2956 3319 529804002 529804361 6.310000e-147 531.0
30 TraesCS6B01G165800 chr5D 92.916 367 23 3 2959 3322 539996545 539996179 6.310000e-147 531.0
31 TraesCS6B01G165800 chr5D 93.671 316 16 3 2650 2963 423275493 423275180 1.400000e-128 470.0
32 TraesCS6B01G165800 chr5D 92.744 317 19 4 2649 2963 551893400 551893714 3.910000e-124 455.0
33 TraesCS6B01G165800 chr5D 92.114 317 20 4 2650 2963 407317355 407317041 3.040000e-120 442.0
34 TraesCS6B01G165800 chr4B 92.183 371 29 0 2949 3319 62977107 62977477 2.940000e-145 525.0
35 TraesCS6B01G165800 chr7A 73.832 428 91 15 1059 1473 690195755 690195336 2.060000e-32 150.0
36 TraesCS6B01G165800 chr7A 83.582 67 7 4 1855 1919 622372552 622372488 3.580000e-05 60.2
37 TraesCS6B01G165800 chr3A 91.892 37 3 0 1222 1258 120166310 120166346 6.000000e-03 52.8


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 TraesCS6B01G165800 chr6B 172366884 172370205 3321 True 6135.0 6135 100.0000 1 3322 1 chr6B.!!$R1 3321
1 TraesCS6B01G165800 chr6B 172464606 172466102 1496 True 1574.0 1574 85.7790 803 2324 1 chr6B.!!$R2 1521
2 TraesCS6B01G165800 chr6B 172574587 172575947 1360 True 708.5 800 86.4680 932 2335 2 chr6B.!!$R3 1403
3 TraesCS6B01G165800 chr6D 90346592 90349088 2496 False 3494.0 3494 91.9070 24 2558 1 chr6D.!!$F1 2534
4 TraesCS6B01G165800 chr6D 90193902 90195161 1259 False 694.0 806 87.4200 1025 2322 2 chr6D.!!$F2 1297
5 TraesCS6B01G165800 chr6A 108216014 108218272 2258 True 3314.0 3314 93.0020 24 2324 1 chr6A.!!$R1 2300
6 TraesCS6B01G165800 chr6A 108331393 108332764 1371 True 791.0 883 88.5875 883 2324 2 chr6A.!!$R2 1441
7 TraesCS6B01G165800 chr6A 108651727 108652986 1259 True 677.5 800 86.9800 1029 2322 2 chr6A.!!$R3 1293
8 TraesCS6B01G165800 chr4D 63583324 63583838 514 False 651.0 651 89.4430 2794 3312 1 chr4D.!!$F1 518
9 TraesCS6B01G165800 chr7B 676424794 676425325 531 False 268.0 268 76.1110 1726 2257 1 chr7B.!!$F3 531
10 TraesCS6B01G165800 chr7D 78290619 78293253 2634 True 487.5 531 92.6675 2651 3322 2 chr7D.!!$R3 671
11 TraesCS6B01G165800 chr7D 597653142 597653673 531 True 263.0 263 75.8360 1726 2257 1 chr7D.!!$R2 531

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
733 737 1.138069 TGCCGGCCGATATATACATGG 59.862 52.381 30.73 5.91 0.0 3.66 F
1164 1192 0.248012 TCGTGTACACCATCGGCAAT 59.752 50.000 20.11 0.00 0.0 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1601 1661 0.029167 TACGTGAAACAGACGACGCA 59.971 50.0 0.0 0.0 39.21 5.24 R
2593 2664 0.110486 ACAAGAAGGGAATGCGTGGT 59.890 50.0 0.0 0.0 0.00 4.16 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
30 31 2.572284 GACTCCCTCAACCGTCCG 59.428 66.667 0.00 0.00 0.00 4.79
37 38 3.515316 CTCAACCGTCCGCCTGTGT 62.515 63.158 0.00 0.00 0.00 3.72
91 92 2.034066 CGGGACCACATGCCAAGT 59.966 61.111 0.00 0.00 39.28 3.16
123 124 7.585573 GCAATTTTGTCGTCAATTTTGCATTTA 59.414 29.630 24.08 0.00 43.37 1.40
172 173 4.557205 AGATCGTAGTTTTGGATATCGGC 58.443 43.478 0.00 0.00 0.00 5.54
196 197 6.032094 CGCTGCAAACAAATAAGATTGATCT 58.968 36.000 0.00 0.00 39.22 2.75
461 462 8.790718 AGAGAATGTATAATGGAATGATGCAAC 58.209 33.333 0.00 0.00 0.00 4.17
573 575 9.599866 CATGTCTTGGAGATACATAAACACTTA 57.400 33.333 0.00 0.00 32.70 2.24
620 622 9.638239 CTTTCTTTGCCAGCACTAAATAATTTA 57.362 29.630 0.00 0.00 0.00 1.40
698 702 5.189928 TGTTTGTCCAAAGAAACTAGAGCA 58.810 37.500 0.00 0.00 38.95 4.26
702 706 3.675698 GTCCAAAGAAACTAGAGCACGAG 59.324 47.826 0.00 0.00 0.00 4.18
729 733 1.935933 CCTTGCCGGCCGATATATAC 58.064 55.000 30.73 7.10 0.00 1.47
731 735 2.158957 CCTTGCCGGCCGATATATACAT 60.159 50.000 30.73 0.00 0.00 2.29
732 736 2.595124 TGCCGGCCGATATATACATG 57.405 50.000 30.73 6.52 0.00 3.21
733 737 1.138069 TGCCGGCCGATATATACATGG 59.862 52.381 30.73 5.91 0.00 3.66
734 738 1.411246 GCCGGCCGATATATACATGGA 59.589 52.381 30.73 0.00 0.00 3.41
735 739 2.802057 GCCGGCCGATATATACATGGAC 60.802 54.545 30.73 0.00 0.00 4.02
736 740 2.727777 CGGCCGATATATACATGGACG 58.272 52.381 24.07 9.76 45.90 4.79
738 742 4.585955 GGCCGATATATACATGGACGAT 57.414 45.455 0.00 0.00 0.00 3.73
845 851 9.614792 AACCTTTTATACTATGATTCACCTCAC 57.385 33.333 0.00 0.00 0.00 3.51
848 854 8.642908 TTTTATACTATGATTCACCTCACGTG 57.357 34.615 9.94 9.94 44.50 4.49
866 875 2.724349 GTGTATACGTCCGCCTTACAG 58.276 52.381 0.00 0.00 0.00 2.74
906 915 8.245491 TGCACATATTGATATGCATTATTCCAC 58.755 33.333 3.54 0.00 42.92 4.02
914 923 8.510243 TGATATGCATTATTCCACATATGTCC 57.490 34.615 3.54 0.00 36.19 4.02
1004 1023 4.576463 ACGTCCTTGATTTTCAGATATGGC 59.424 41.667 0.00 0.00 0.00 4.40
1021 1040 2.878429 CTAGTCGCACGTGCTCCT 59.122 61.111 35.27 29.75 39.32 3.69
1022 1041 1.226435 CTAGTCGCACGTGCTCCTC 60.226 63.158 35.27 21.95 39.32 3.71
1023 1042 2.600122 CTAGTCGCACGTGCTCCTCC 62.600 65.000 35.27 18.73 39.32 4.30
1053 1081 2.490217 CTCGCCATCTCCGTCGTT 59.510 61.111 0.00 0.00 0.00 3.85
1074 1102 1.741770 GGTGCTTCTCAACGCGGAT 60.742 57.895 12.47 0.00 0.00 4.18
1164 1192 0.248012 TCGTGTACACCATCGGCAAT 59.752 50.000 20.11 0.00 0.00 3.56
1298 1330 6.145534 TCGCCATCATCGTTTACTGATATTTC 59.854 38.462 0.00 0.00 31.05 2.17
1428 1482 0.457851 CCAACTTTGCCGTGTTTGGA 59.542 50.000 0.00 0.00 0.00 3.53
1575 1629 5.175673 CGGTGAGTAACATAGTACATGCATG 59.824 44.000 25.09 25.09 0.00 4.06
1577 1631 6.018751 GGTGAGTAACATAGTACATGCATGTG 60.019 42.308 36.72 23.90 41.89 3.21
1611 1671 2.022346 GCATGCATGCGTCGTCTG 59.978 61.111 33.99 4.73 44.67 3.51
1648 1708 3.873952 GTGTGGTTCAATAGATCTGGAGC 59.126 47.826 5.18 2.55 0.00 4.70
1652 1712 6.043590 TGTGGTTCAATAGATCTGGAGCATAT 59.956 38.462 5.18 0.00 32.62 1.78
1653 1713 7.235399 TGTGGTTCAATAGATCTGGAGCATATA 59.765 37.037 5.18 0.00 32.62 0.86
1654 1714 7.547370 GTGGTTCAATAGATCTGGAGCATATAC 59.453 40.741 5.18 0.00 32.62 1.47
1721 1784 1.207089 CTGAACGATTCCCTGGTGCTA 59.793 52.381 0.00 0.00 0.00 3.49
1985 2048 2.701073 AGTGGTACAACGAGTTCTCG 57.299 50.000 18.66 18.66 44.16 4.04
2050 2113 2.267961 GAAGAACCCCGGCGTCAT 59.732 61.111 6.01 0.00 0.00 3.06
2104 2167 3.479269 GTTCGTCCAGAAGCCGCG 61.479 66.667 0.00 0.00 39.95 6.46
2324 2389 3.002791 GCTGCGCCATATTTGCTAGATA 58.997 45.455 4.18 0.00 0.00 1.98
2325 2390 3.624861 GCTGCGCCATATTTGCTAGATAT 59.375 43.478 4.18 0.00 0.00 1.63
2326 2391 4.495349 GCTGCGCCATATTTGCTAGATATG 60.495 45.833 4.18 0.00 37.27 1.78
2333 2398 7.781324 CCATATTTGCTAGATATGGGGTTTT 57.219 36.000 16.26 0.00 46.70 2.43
2334 2399 8.193953 CCATATTTGCTAGATATGGGGTTTTT 57.806 34.615 16.26 0.00 46.70 1.94
2373 2438 2.576191 TGGGTTTCTTGGTGATCCTAGG 59.424 50.000 0.82 0.82 37.23 3.02
2374 2439 2.844348 GGGTTTCTTGGTGATCCTAGGA 59.156 50.000 15.46 15.46 37.23 2.94
2375 2440 3.459969 GGGTTTCTTGGTGATCCTAGGAT 59.540 47.826 24.78 24.78 37.23 3.24
2376 2441 4.455606 GGTTTCTTGGTGATCCTAGGATG 58.544 47.826 29.32 13.19 37.23 3.51
2377 2442 4.164221 GGTTTCTTGGTGATCCTAGGATGA 59.836 45.833 29.32 18.68 37.23 2.92
2385 2452 5.851693 TGGTGATCCTAGGATGATTATTGGT 59.148 40.000 29.32 0.78 34.60 3.67
2386 2453 6.176183 GGTGATCCTAGGATGATTATTGGTG 58.824 44.000 29.32 0.00 34.60 4.17
2408 2475 3.907194 GTCGATTCGTATAGCTGCAGTAC 59.093 47.826 16.64 9.15 0.00 2.73
2411 2478 2.750301 TCGTATAGCTGCAGTACACG 57.250 50.000 16.64 18.36 0.00 4.49
2480 2550 4.153655 CACACACAAGAGATCAATGGACAG 59.846 45.833 0.00 0.00 0.00 3.51
2481 2551 3.126514 CACACAAGAGATCAATGGACAGC 59.873 47.826 0.00 0.00 0.00 4.40
2486 2556 2.435069 AGAGATCAATGGACAGCAGAGG 59.565 50.000 0.00 0.00 0.00 3.69
2495 2565 5.904362 ATGGACAGCAGAGGAAATTTTAC 57.096 39.130 0.00 0.00 0.00 2.01
2532 2602 5.107109 TGACACGTGAAATCCATTTCTTG 57.893 39.130 25.01 9.29 44.85 3.02
2533 2603 4.819088 TGACACGTGAAATCCATTTCTTGA 59.181 37.500 25.01 0.00 44.85 3.02
2546 2617 2.859165 TTCTTGAGCCGGTGAAATCT 57.141 45.000 1.90 0.00 0.00 2.40
2547 2618 2.099141 TCTTGAGCCGGTGAAATCTG 57.901 50.000 1.90 0.00 0.00 2.90
2574 2645 6.816616 TTTTTAGGGTGGAATCTGGTTTTT 57.183 33.333 0.00 0.00 0.00 1.94
2575 2646 7.916077 TTTTTAGGGTGGAATCTGGTTTTTA 57.084 32.000 0.00 0.00 0.00 1.52
2576 2647 7.533289 TTTTAGGGTGGAATCTGGTTTTTAG 57.467 36.000 0.00 0.00 0.00 1.85
2577 2648 3.431415 AGGGTGGAATCTGGTTTTTAGC 58.569 45.455 0.00 0.00 0.00 3.09
2578 2649 3.161866 GGGTGGAATCTGGTTTTTAGCA 58.838 45.455 0.00 0.00 0.00 3.49
2579 2650 3.576550 GGGTGGAATCTGGTTTTTAGCAA 59.423 43.478 0.00 0.00 0.00 3.91
2580 2651 4.556233 GGTGGAATCTGGTTTTTAGCAAC 58.444 43.478 0.00 0.00 0.00 4.17
2581 2652 4.226761 GTGGAATCTGGTTTTTAGCAACG 58.773 43.478 0.00 0.00 0.00 4.10
2582 2653 3.886505 TGGAATCTGGTTTTTAGCAACGT 59.113 39.130 0.00 0.00 0.00 3.99
2583 2654 4.226761 GGAATCTGGTTTTTAGCAACGTG 58.773 43.478 0.00 0.00 0.00 4.49
2584 2655 4.023536 GGAATCTGGTTTTTAGCAACGTGA 60.024 41.667 0.00 0.00 0.00 4.35
2585 2656 3.955771 TCTGGTTTTTAGCAACGTGAC 57.044 42.857 0.00 0.00 0.00 3.67
2586 2657 3.271729 TCTGGTTTTTAGCAACGTGACA 58.728 40.909 0.00 0.00 0.00 3.58
2587 2658 3.880490 TCTGGTTTTTAGCAACGTGACAT 59.120 39.130 0.00 0.00 0.00 3.06
2588 2659 3.958704 TGGTTTTTAGCAACGTGACATG 58.041 40.909 0.00 0.00 0.00 3.21
2589 2660 3.378742 TGGTTTTTAGCAACGTGACATGT 59.621 39.130 0.00 0.00 0.00 3.21
2590 2661 4.142359 TGGTTTTTAGCAACGTGACATGTT 60.142 37.500 7.24 7.24 0.00 2.71
2591 2662 4.801516 GGTTTTTAGCAACGTGACATGTTT 59.198 37.500 10.39 0.39 0.00 2.83
2592 2663 5.276161 GGTTTTTAGCAACGTGACATGTTTG 60.276 40.000 10.39 1.26 0.00 2.93
2593 2664 4.884458 TTTAGCAACGTGACATGTTTGA 57.116 36.364 10.39 0.00 0.00 2.69
2594 2665 2.755836 AGCAACGTGACATGTTTGAC 57.244 45.000 10.39 3.95 0.00 3.18
2595 2666 1.333619 AGCAACGTGACATGTTTGACC 59.666 47.619 10.39 0.69 0.00 4.02
2596 2667 1.064803 GCAACGTGACATGTTTGACCA 59.935 47.619 10.39 0.00 0.00 4.02
2597 2668 2.715268 CAACGTGACATGTTTGACCAC 58.285 47.619 10.39 1.88 0.00 4.16
2598 2669 3.727116 CGTGACATGTTTGACCACG 57.273 52.632 18.68 18.68 42.15 4.94
2599 2670 0.384230 CGTGACATGTTTGACCACGC 60.384 55.000 19.77 3.54 41.90 5.34
2600 2671 0.660488 GTGACATGTTTGACCACGCA 59.340 50.000 0.00 0.00 0.00 5.24
2601 2672 1.266718 GTGACATGTTTGACCACGCAT 59.733 47.619 0.00 0.00 0.00 4.73
2602 2673 1.952990 TGACATGTTTGACCACGCATT 59.047 42.857 0.00 0.00 0.00 3.56
2603 2674 2.031245 TGACATGTTTGACCACGCATTC 60.031 45.455 0.00 0.00 0.00 2.67
2604 2675 1.269448 ACATGTTTGACCACGCATTCC 59.731 47.619 0.00 0.00 0.00 3.01
2605 2676 0.887933 ATGTTTGACCACGCATTCCC 59.112 50.000 0.00 0.00 0.00 3.97
2606 2677 0.179004 TGTTTGACCACGCATTCCCT 60.179 50.000 0.00 0.00 0.00 4.20
2607 2678 0.958822 GTTTGACCACGCATTCCCTT 59.041 50.000 0.00 0.00 0.00 3.95
2608 2679 1.068541 GTTTGACCACGCATTCCCTTC 60.069 52.381 0.00 0.00 0.00 3.46
2609 2680 0.400213 TTGACCACGCATTCCCTTCT 59.600 50.000 0.00 0.00 0.00 2.85
2610 2681 0.400213 TGACCACGCATTCCCTTCTT 59.600 50.000 0.00 0.00 0.00 2.52
2611 2682 0.804989 GACCACGCATTCCCTTCTTG 59.195 55.000 0.00 0.00 0.00 3.02
2612 2683 0.110486 ACCACGCATTCCCTTCTTGT 59.890 50.000 0.00 0.00 0.00 3.16
2613 2684 0.523072 CCACGCATTCCCTTCTTGTG 59.477 55.000 0.00 0.00 0.00 3.33
2614 2685 0.523072 CACGCATTCCCTTCTTGTGG 59.477 55.000 0.00 0.00 0.00 4.17
2615 2686 1.244019 ACGCATTCCCTTCTTGTGGC 61.244 55.000 0.00 0.00 0.00 5.01
2616 2687 0.962356 CGCATTCCCTTCTTGTGGCT 60.962 55.000 0.00 0.00 0.00 4.75
2617 2688 0.813821 GCATTCCCTTCTTGTGGCTC 59.186 55.000 0.00 0.00 0.00 4.70
2618 2689 1.089920 CATTCCCTTCTTGTGGCTCG 58.910 55.000 0.00 0.00 0.00 5.03
2619 2690 0.693049 ATTCCCTTCTTGTGGCTCGT 59.307 50.000 0.00 0.00 0.00 4.18
2620 2691 1.344065 TTCCCTTCTTGTGGCTCGTA 58.656 50.000 0.00 0.00 0.00 3.43
2621 2692 1.568504 TCCCTTCTTGTGGCTCGTAT 58.431 50.000 0.00 0.00 0.00 3.06
2622 2693 1.906574 TCCCTTCTTGTGGCTCGTATT 59.093 47.619 0.00 0.00 0.00 1.89
2623 2694 2.304761 TCCCTTCTTGTGGCTCGTATTT 59.695 45.455 0.00 0.00 0.00 1.40
2624 2695 3.081804 CCCTTCTTGTGGCTCGTATTTT 58.918 45.455 0.00 0.00 0.00 1.82
2625 2696 3.506067 CCCTTCTTGTGGCTCGTATTTTT 59.494 43.478 0.00 0.00 0.00 1.94
2626 2697 4.698304 CCCTTCTTGTGGCTCGTATTTTTA 59.302 41.667 0.00 0.00 0.00 1.52
2627 2698 5.182380 CCCTTCTTGTGGCTCGTATTTTTAA 59.818 40.000 0.00 0.00 0.00 1.52
2628 2699 6.294286 CCCTTCTTGTGGCTCGTATTTTTAAA 60.294 38.462 0.00 0.00 0.00 1.52
2629 2700 7.312899 CCTTCTTGTGGCTCGTATTTTTAAAT 58.687 34.615 0.00 0.00 0.00 1.40
2630 2701 8.455682 CCTTCTTGTGGCTCGTATTTTTAAATA 58.544 33.333 0.00 0.00 0.00 1.40
2631 2702 9.490663 CTTCTTGTGGCTCGTATTTTTAAATAG 57.509 33.333 0.00 0.00 31.94 1.73
2632 2703 8.780846 TCTTGTGGCTCGTATTTTTAAATAGA 57.219 30.769 0.00 0.00 31.94 1.98
2633 2704 9.221933 TCTTGTGGCTCGTATTTTTAAATAGAA 57.778 29.630 0.00 0.00 31.94 2.10
2634 2705 9.490663 CTTGTGGCTCGTATTTTTAAATAGAAG 57.509 33.333 0.00 0.00 31.94 2.85
2635 2706 7.981142 TGTGGCTCGTATTTTTAAATAGAAGG 58.019 34.615 0.00 0.00 31.94 3.46
2636 2707 6.910972 GTGGCTCGTATTTTTAAATAGAAGGC 59.089 38.462 15.87 15.87 38.39 4.35
2637 2708 6.038936 TGGCTCGTATTTTTAAATAGAAGGCC 59.961 38.462 17.96 16.25 37.82 5.19
2638 2709 6.038936 GGCTCGTATTTTTAAATAGAAGGCCA 59.961 38.462 5.01 0.00 35.43 5.36
2639 2710 7.132863 GCTCGTATTTTTAAATAGAAGGCCAG 58.867 38.462 5.01 0.00 31.94 4.85
2640 2711 7.562454 TCGTATTTTTAAATAGAAGGCCAGG 57.438 36.000 5.01 0.00 31.94 4.45
2641 2712 6.038936 TCGTATTTTTAAATAGAAGGCCAGGC 59.961 38.462 5.01 1.26 31.94 4.85
2642 2713 6.513180 GTATTTTTAAATAGAAGGCCAGGCC 58.487 40.000 24.90 24.90 39.05 5.19
2643 2714 6.462487 GTATTTTTAAATAGAAGGCCAGGCCC 60.462 42.308 28.52 13.16 39.32 5.80
2644 2715 9.548472 GTATTTTTAAATAGAAGGCCAGGCCCG 62.548 44.444 28.52 0.00 39.32 6.13
2704 2776 2.743172 CGCTAAAAACTAGTTGTCGCG 58.257 47.619 20.85 20.85 0.00 5.87
2705 2777 2.492983 GCTAAAAACTAGTTGTCGCGC 58.507 47.619 9.34 0.00 0.00 6.86
2727 2799 3.212682 TTCGGCTGGTTTTGCGCA 61.213 55.556 5.66 5.66 0.00 6.09
2763 2835 2.417239 CTCCAACAGCCGCGTTAAAATA 59.583 45.455 4.92 0.00 0.00 1.40
2765 2837 2.162851 CAACAGCCGCGTTAAAATACG 58.837 47.619 4.92 0.00 44.09 3.06
2771 2843 4.628512 CGTTAAAATACGCGCGCA 57.371 50.000 32.58 20.08 34.45 6.09
2773 2845 0.516727 CGTTAAAATACGCGCGCACA 60.517 50.000 32.58 18.50 34.45 4.57
2833 2906 1.063027 CGCCGGAGCATTGCATATATG 59.937 52.381 5.05 8.45 39.83 1.78
2840 2913 4.868171 GGAGCATTGCATATATGGCATTTG 59.132 41.667 14.51 12.73 41.58 2.32
2883 2956 9.269453 TGAAACATTCAAAATGCAATGAACATA 57.731 25.926 13.17 0.00 38.29 2.29
2959 3032 4.255833 TCAAAATCATGCCCACAAGTTC 57.744 40.909 0.00 0.00 0.00 3.01
2963 3036 2.885135 TCATGCCCACAAGTTCATCT 57.115 45.000 0.00 0.00 0.00 2.90
3276 5315 0.602905 GCGCGCCCAACTCCTTATAT 60.603 55.000 23.24 0.00 0.00 0.86
3278 5317 1.270094 CGCGCCCAACTCCTTATATCA 60.270 52.381 0.00 0.00 0.00 2.15
3279 5318 2.417719 GCGCCCAACTCCTTATATCAG 58.582 52.381 0.00 0.00 0.00 2.90
3283 5322 2.368875 CCCAACTCCTTATATCAGGCGT 59.631 50.000 0.00 0.00 32.97 5.68
3319 5358 4.680237 CTGAAGCCACACGCCGGA 62.680 66.667 5.05 0.00 38.78 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.430929 CGGTTGAGGGAGTCCTGAATAAG 60.431 52.174 9.58 0.00 45.05 1.73
5 6 2.500098 CGGTTGAGGGAGTCCTGAATAA 59.500 50.000 9.58 0.00 45.05 1.40
6 7 2.108168 CGGTTGAGGGAGTCCTGAATA 58.892 52.381 9.58 0.00 45.05 1.75
7 8 0.905357 CGGTTGAGGGAGTCCTGAAT 59.095 55.000 9.58 0.00 45.05 2.57
8 9 0.471211 ACGGTTGAGGGAGTCCTGAA 60.471 55.000 9.58 0.00 45.05 3.02
9 10 0.898789 GACGGTTGAGGGAGTCCTGA 60.899 60.000 9.58 0.00 45.05 3.86
10 11 1.592223 GACGGTTGAGGGAGTCCTG 59.408 63.158 9.58 0.00 45.05 3.86
11 12 1.609794 GGACGGTTGAGGGAGTCCT 60.610 63.158 9.58 0.00 46.99 3.85
12 13 2.979649 GGACGGTTGAGGGAGTCC 59.020 66.667 0.00 0.00 45.07 3.85
13 14 2.572284 CGGACGGTTGAGGGAGTC 59.428 66.667 0.00 0.00 0.00 3.36
14 15 3.692406 GCGGACGGTTGAGGGAGT 61.692 66.667 0.00 0.00 0.00 3.85
15 16 4.452733 GGCGGACGGTTGAGGGAG 62.453 72.222 0.00 0.00 0.00 4.30
17 18 4.760047 CAGGCGGACGGTTGAGGG 62.760 72.222 0.00 0.00 0.00 4.30
18 19 4.003788 ACAGGCGGACGGTTGAGG 62.004 66.667 0.00 0.00 0.00 3.86
19 20 2.738521 CACAGGCGGACGGTTGAG 60.739 66.667 0.00 0.00 0.00 3.02
20 21 2.981977 GAACACAGGCGGACGGTTGA 62.982 60.000 0.00 0.00 0.00 3.18
21 22 2.590575 AACACAGGCGGACGGTTG 60.591 61.111 0.00 0.00 0.00 3.77
22 23 2.280592 GAACACAGGCGGACGGTT 60.281 61.111 0.00 0.00 0.00 4.44
37 38 2.159296 CGATGACATACCTCGTGTGGAA 60.159 50.000 0.00 0.00 33.30 3.53
51 52 2.139917 GGTGCAAACTGTACGATGACA 58.860 47.619 0.00 0.00 33.61 3.58
91 92 7.763172 AAATTGACGACAAAATTGCACTTAA 57.237 28.000 4.09 0.00 39.54 1.85
158 159 0.317020 GCAGCGCCGATATCCAAAAC 60.317 55.000 2.29 0.00 0.00 2.43
172 173 6.032094 AGATCAATCTTATTTGTTTGCAGCG 58.968 36.000 0.00 0.00 31.97 5.18
698 702 3.987404 GCAAGGCCAATGTCTCGT 58.013 55.556 5.01 0.00 0.00 4.18
729 733 3.192541 TGTTGGTCCATATCGTCCATG 57.807 47.619 0.00 0.00 0.00 3.66
731 735 3.540617 CATTGTTGGTCCATATCGTCCA 58.459 45.455 0.00 0.00 0.00 4.02
732 736 2.290641 GCATTGTTGGTCCATATCGTCC 59.709 50.000 0.00 0.00 0.00 4.79
733 737 2.290641 GGCATTGTTGGTCCATATCGTC 59.709 50.000 0.00 0.00 0.00 4.20
734 738 2.297701 GGCATTGTTGGTCCATATCGT 58.702 47.619 0.00 0.00 0.00 3.73
735 739 2.296792 TGGCATTGTTGGTCCATATCG 58.703 47.619 0.00 0.00 0.00 2.92
736 740 6.403866 TTTATGGCATTGTTGGTCCATATC 57.596 37.500 4.78 0.00 40.19 1.63
737 741 6.805016 TTTTATGGCATTGTTGGTCCATAT 57.195 33.333 4.78 0.00 40.19 1.78
738 742 6.402222 GTTTTTATGGCATTGTTGGTCCATA 58.598 36.000 4.78 0.00 39.74 2.74
848 854 3.698029 TTCTGTAAGGCGGACGTATAC 57.302 47.619 0.00 0.00 31.00 1.47
906 915 1.610624 GGTATGCGTGGGGGACATATG 60.611 57.143 0.00 0.00 0.00 1.78
914 923 2.203337 CATGGGGTATGCGTGGGG 60.203 66.667 0.00 0.00 0.00 4.96
1021 1040 3.749064 GAGCACGACAGCGGAGGA 61.749 66.667 0.00 0.00 43.17 3.71
1416 1470 2.904866 GTGGCTCCAAACACGGCA 60.905 61.111 0.00 0.00 0.00 5.69
1600 1660 0.596600 ACGTGAAACAGACGACGCAT 60.597 50.000 0.00 0.00 39.21 4.73
1601 1661 0.029167 TACGTGAAACAGACGACGCA 59.971 50.000 0.00 0.00 39.21 5.24
1602 1662 0.428618 GTACGTGAAACAGACGACGC 59.571 55.000 0.00 0.00 39.21 5.19
1603 1663 0.693817 CGTACGTGAAACAGACGACG 59.306 55.000 7.22 0.00 39.21 5.12
1653 1713 9.998106 AAGGCACAATACGAGAAATAATATAGT 57.002 29.630 0.00 0.00 0.00 2.12
1721 1784 4.609018 CCGCCGATCTCGCCCATT 62.609 66.667 0.00 0.00 38.18 3.16
1842 1905 4.286320 GGCGCCGAGGTCGATCAT 62.286 66.667 12.58 0.00 43.02 2.45
1985 2048 2.647297 GCCTGGTTGTGCTTCTGC 59.353 61.111 0.00 0.00 40.20 4.26
2050 2113 1.002257 TAGTCGGCGTAGACCACCA 60.002 57.895 6.85 0.00 41.83 4.17
2147 2210 2.656055 GTGTGGTACGGCCCGTTA 59.344 61.111 16.82 0.00 41.54 3.18
2185 2250 3.535629 CTGCCCCACAGCTTCGTGA 62.536 63.158 5.78 0.00 40.19 4.35
2333 2398 8.593945 AAACCCATATCTAATGCTCAGAAAAA 57.406 30.769 0.00 0.00 0.00 1.94
2334 2399 8.055181 AGAAACCCATATCTAATGCTCAGAAAA 58.945 33.333 0.00 0.00 0.00 2.29
2335 2400 7.577303 AGAAACCCATATCTAATGCTCAGAAA 58.423 34.615 0.00 0.00 0.00 2.52
2336 2401 7.141758 AGAAACCCATATCTAATGCTCAGAA 57.858 36.000 0.00 0.00 0.00 3.02
2337 2402 6.753913 AGAAACCCATATCTAATGCTCAGA 57.246 37.500 0.00 0.00 0.00 3.27
2338 2403 6.206243 CCAAGAAACCCATATCTAATGCTCAG 59.794 42.308 0.00 0.00 0.00 3.35
2339 2404 6.064060 CCAAGAAACCCATATCTAATGCTCA 58.936 40.000 0.00 0.00 0.00 4.26
2340 2405 6.016777 CACCAAGAAACCCATATCTAATGCTC 60.017 42.308 0.00 0.00 0.00 4.26
2341 2406 5.829924 CACCAAGAAACCCATATCTAATGCT 59.170 40.000 0.00 0.00 0.00 3.79
2342 2407 5.827797 TCACCAAGAAACCCATATCTAATGC 59.172 40.000 0.00 0.00 0.00 3.56
2343 2408 7.175641 GGATCACCAAGAAACCCATATCTAATG 59.824 40.741 0.00 0.00 35.97 1.90
2344 2409 7.074237 AGGATCACCAAGAAACCCATATCTAAT 59.926 37.037 0.00 0.00 38.94 1.73
2345 2410 6.389869 AGGATCACCAAGAAACCCATATCTAA 59.610 38.462 0.00 0.00 38.94 2.10
2346 2411 5.911178 AGGATCACCAAGAAACCCATATCTA 59.089 40.000 0.00 0.00 38.94 1.98
2347 2412 4.728860 AGGATCACCAAGAAACCCATATCT 59.271 41.667 0.00 0.00 38.94 1.98
2348 2413 5.053978 AGGATCACCAAGAAACCCATATC 57.946 43.478 0.00 0.00 38.94 1.63
2349 2414 5.073691 CCTAGGATCACCAAGAAACCCATAT 59.926 44.000 1.05 0.00 38.94 1.78
2350 2415 4.412199 CCTAGGATCACCAAGAAACCCATA 59.588 45.833 1.05 0.00 38.94 2.74
2351 2416 3.203040 CCTAGGATCACCAAGAAACCCAT 59.797 47.826 1.05 0.00 38.94 4.00
2352 2417 2.576191 CCTAGGATCACCAAGAAACCCA 59.424 50.000 1.05 0.00 38.94 4.51
2353 2418 2.844348 TCCTAGGATCACCAAGAAACCC 59.156 50.000 7.62 0.00 38.94 4.11
2356 2421 6.581388 AATCATCCTAGGATCACCAAGAAA 57.419 37.500 22.02 0.00 38.94 2.52
2373 2438 5.907197 ACGAATCGACACCAATAATCATC 57.093 39.130 10.55 0.00 0.00 2.92
2374 2439 7.275779 GCTATACGAATCGACACCAATAATCAT 59.724 37.037 10.55 0.00 0.00 2.45
2375 2440 6.584942 GCTATACGAATCGACACCAATAATCA 59.415 38.462 10.55 0.00 0.00 2.57
2376 2441 6.807230 AGCTATACGAATCGACACCAATAATC 59.193 38.462 10.55 0.00 0.00 1.75
2377 2442 6.586463 CAGCTATACGAATCGACACCAATAAT 59.414 38.462 10.55 0.00 0.00 1.28
2385 2452 2.357952 ACTGCAGCTATACGAATCGACA 59.642 45.455 15.27 0.00 0.00 4.35
2386 2453 3.001395 ACTGCAGCTATACGAATCGAC 57.999 47.619 15.27 0.00 0.00 4.20
2436 2505 9.509855 TGTGTGTCACTTGTTTTACATTAATTC 57.490 29.630 4.27 0.00 35.11 2.17
2445 2514 5.935206 TCTCTTGTGTGTGTCACTTGTTTTA 59.065 36.000 4.27 0.00 46.27 1.52
2448 2517 3.937814 TCTCTTGTGTGTGTCACTTGTT 58.062 40.909 4.27 0.00 46.27 2.83
2453 2522 4.083643 CCATTGATCTCTTGTGTGTGTCAC 60.084 45.833 0.00 0.00 46.31 3.67
2455 2524 4.153117 GTCCATTGATCTCTTGTGTGTGTC 59.847 45.833 0.00 0.00 0.00 3.67
2456 2525 4.067896 GTCCATTGATCTCTTGTGTGTGT 58.932 43.478 0.00 0.00 0.00 3.72
2457 2526 4.067192 TGTCCATTGATCTCTTGTGTGTG 58.933 43.478 0.00 0.00 0.00 3.82
2458 2527 4.321718 CTGTCCATTGATCTCTTGTGTGT 58.678 43.478 0.00 0.00 0.00 3.72
2466 2536 2.433604 TCCTCTGCTGTCCATTGATCTC 59.566 50.000 0.00 0.00 0.00 2.75
2480 2550 8.021955 CAAATCCTTTGTAAAATTTCCTCTGC 57.978 34.615 0.00 0.00 35.94 4.26
2514 2584 3.191371 GGCTCAAGAAATGGATTTCACGT 59.809 43.478 13.30 0.00 46.50 4.49
2532 2602 3.643159 AAAAACAGATTTCACCGGCTC 57.357 42.857 0.00 0.00 0.00 4.70
2555 2626 4.043561 TGCTAAAAACCAGATTCCACCCTA 59.956 41.667 0.00 0.00 0.00 3.53
2556 2627 3.181423 TGCTAAAAACCAGATTCCACCCT 60.181 43.478 0.00 0.00 0.00 4.34
2557 2628 3.161866 TGCTAAAAACCAGATTCCACCC 58.838 45.455 0.00 0.00 0.00 4.61
2558 2629 4.556233 GTTGCTAAAAACCAGATTCCACC 58.444 43.478 0.00 0.00 0.00 4.61
2559 2630 4.226761 CGTTGCTAAAAACCAGATTCCAC 58.773 43.478 0.00 0.00 0.00 4.02
2560 2631 3.886505 ACGTTGCTAAAAACCAGATTCCA 59.113 39.130 0.00 0.00 0.00 3.53
2561 2632 4.023536 TCACGTTGCTAAAAACCAGATTCC 60.024 41.667 0.00 0.00 0.00 3.01
2562 2633 4.909880 GTCACGTTGCTAAAAACCAGATTC 59.090 41.667 0.00 0.00 0.00 2.52
2563 2634 4.336993 TGTCACGTTGCTAAAAACCAGATT 59.663 37.500 0.00 0.00 0.00 2.40
2564 2635 3.880490 TGTCACGTTGCTAAAAACCAGAT 59.120 39.130 0.00 0.00 0.00 2.90
2565 2636 3.271729 TGTCACGTTGCTAAAAACCAGA 58.728 40.909 0.00 0.00 0.00 3.86
2566 2637 3.684103 TGTCACGTTGCTAAAAACCAG 57.316 42.857 0.00 0.00 0.00 4.00
2567 2638 3.378742 ACATGTCACGTTGCTAAAAACCA 59.621 39.130 0.00 0.00 0.00 3.67
2568 2639 3.959943 ACATGTCACGTTGCTAAAAACC 58.040 40.909 0.00 0.00 0.00 3.27
2569 2640 5.513495 TCAAACATGTCACGTTGCTAAAAAC 59.487 36.000 0.00 0.00 0.00 2.43
2570 2641 5.513495 GTCAAACATGTCACGTTGCTAAAAA 59.487 36.000 0.00 0.00 0.00 1.94
2571 2642 5.031578 GTCAAACATGTCACGTTGCTAAAA 58.968 37.500 0.00 0.00 0.00 1.52
2572 2643 4.496673 GGTCAAACATGTCACGTTGCTAAA 60.497 41.667 0.00 0.00 0.00 1.85
2573 2644 3.002862 GGTCAAACATGTCACGTTGCTAA 59.997 43.478 0.00 0.00 0.00 3.09
2574 2645 2.546368 GGTCAAACATGTCACGTTGCTA 59.454 45.455 0.00 0.00 0.00 3.49
2575 2646 1.333619 GGTCAAACATGTCACGTTGCT 59.666 47.619 0.00 0.00 0.00 3.91
2576 2647 1.064803 TGGTCAAACATGTCACGTTGC 59.935 47.619 0.00 0.00 0.00 4.17
2577 2648 2.715268 GTGGTCAAACATGTCACGTTG 58.285 47.619 0.00 0.00 0.00 4.10
2578 2649 1.329292 CGTGGTCAAACATGTCACGTT 59.671 47.619 22.08 2.23 43.92 3.99
2579 2650 0.934496 CGTGGTCAAACATGTCACGT 59.066 50.000 22.08 0.00 43.92 4.49
2580 2651 3.727116 CGTGGTCAAACATGTCACG 57.273 52.632 18.68 18.68 43.58 4.35
2581 2652 0.660488 TGCGTGGTCAAACATGTCAC 59.340 50.000 0.00 1.29 0.00 3.67
2582 2653 1.603456 ATGCGTGGTCAAACATGTCA 58.397 45.000 0.00 0.00 0.00 3.58
2583 2654 2.584791 GAATGCGTGGTCAAACATGTC 58.415 47.619 0.00 0.00 0.00 3.06
2584 2655 1.269448 GGAATGCGTGGTCAAACATGT 59.731 47.619 0.00 0.00 0.00 3.21
2585 2656 1.402720 GGGAATGCGTGGTCAAACATG 60.403 52.381 0.00 0.00 0.00 3.21
2586 2657 0.887933 GGGAATGCGTGGTCAAACAT 59.112 50.000 0.00 0.00 0.00 2.71
2587 2658 0.179004 AGGGAATGCGTGGTCAAACA 60.179 50.000 0.00 0.00 0.00 2.83
2588 2659 0.958822 AAGGGAATGCGTGGTCAAAC 59.041 50.000 0.00 0.00 0.00 2.93
2589 2660 1.202879 AGAAGGGAATGCGTGGTCAAA 60.203 47.619 0.00 0.00 0.00 2.69
2590 2661 0.400213 AGAAGGGAATGCGTGGTCAA 59.600 50.000 0.00 0.00 0.00 3.18
2591 2662 0.400213 AAGAAGGGAATGCGTGGTCA 59.600 50.000 0.00 0.00 0.00 4.02
2592 2663 0.804989 CAAGAAGGGAATGCGTGGTC 59.195 55.000 0.00 0.00 0.00 4.02
2593 2664 0.110486 ACAAGAAGGGAATGCGTGGT 59.890 50.000 0.00 0.00 0.00 4.16
2594 2665 0.523072 CACAAGAAGGGAATGCGTGG 59.477 55.000 0.00 0.00 0.00 4.94
2595 2666 0.523072 CCACAAGAAGGGAATGCGTG 59.477 55.000 0.00 0.00 0.00 5.34
2596 2667 1.244019 GCCACAAGAAGGGAATGCGT 61.244 55.000 0.00 0.00 0.00 5.24
2597 2668 0.962356 AGCCACAAGAAGGGAATGCG 60.962 55.000 0.00 0.00 0.00 4.73
2598 2669 0.813821 GAGCCACAAGAAGGGAATGC 59.186 55.000 0.00 0.00 0.00 3.56
2599 2670 1.089920 CGAGCCACAAGAAGGGAATG 58.910 55.000 0.00 0.00 0.00 2.67
2600 2671 0.693049 ACGAGCCACAAGAAGGGAAT 59.307 50.000 0.00 0.00 0.00 3.01
2601 2672 1.344065 TACGAGCCACAAGAAGGGAA 58.656 50.000 0.00 0.00 0.00 3.97
2602 2673 1.568504 ATACGAGCCACAAGAAGGGA 58.431 50.000 0.00 0.00 0.00 4.20
2603 2674 2.403252 AATACGAGCCACAAGAAGGG 57.597 50.000 0.00 0.00 0.00 3.95
2604 2675 4.766404 AAAAATACGAGCCACAAGAAGG 57.234 40.909 0.00 0.00 0.00 3.46
2605 2676 9.490663 CTATTTAAAAATACGAGCCACAAGAAG 57.509 33.333 0.00 0.00 0.00 2.85
2606 2677 9.221933 TCTATTTAAAAATACGAGCCACAAGAA 57.778 29.630 0.00 0.00 0.00 2.52
2607 2678 8.780846 TCTATTTAAAAATACGAGCCACAAGA 57.219 30.769 0.00 0.00 0.00 3.02
2608 2679 9.490663 CTTCTATTTAAAAATACGAGCCACAAG 57.509 33.333 0.00 0.00 0.00 3.16
2609 2680 8.455682 CCTTCTATTTAAAAATACGAGCCACAA 58.544 33.333 0.00 0.00 0.00 3.33
2610 2681 7.414762 GCCTTCTATTTAAAAATACGAGCCACA 60.415 37.037 0.00 0.00 0.00 4.17
2611 2682 6.910972 GCCTTCTATTTAAAAATACGAGCCAC 59.089 38.462 0.00 0.00 0.00 5.01
2612 2683 6.038936 GGCCTTCTATTTAAAAATACGAGCCA 59.961 38.462 0.00 0.00 30.58 4.75
2613 2684 6.038936 TGGCCTTCTATTTAAAAATACGAGCC 59.961 38.462 3.32 1.03 30.69 4.70
2614 2685 7.023197 TGGCCTTCTATTTAAAAATACGAGC 57.977 36.000 3.32 0.00 0.00 5.03
2615 2686 7.639945 CCTGGCCTTCTATTTAAAAATACGAG 58.360 38.462 3.32 0.00 0.00 4.18
2616 2687 6.038936 GCCTGGCCTTCTATTTAAAAATACGA 59.961 38.462 7.66 0.00 0.00 3.43
2617 2688 6.206498 GCCTGGCCTTCTATTTAAAAATACG 58.794 40.000 7.66 0.00 0.00 3.06
2618 2689 6.513180 GGCCTGGCCTTCTATTTAAAAATAC 58.487 40.000 30.42 0.00 46.69 1.89
2619 2690 6.724893 GGCCTGGCCTTCTATTTAAAAATA 57.275 37.500 30.42 0.00 46.69 1.40
2620 2691 5.614324 GGCCTGGCCTTCTATTTAAAAAT 57.386 39.130 30.42 0.00 46.69 1.82
2636 2707 1.526917 CTCTTAATGCCGGGCCTGG 60.527 63.158 27.88 27.88 0.00 4.45
2637 2708 2.189499 GCTCTTAATGCCGGGCCTG 61.189 63.158 17.97 3.88 0.00 4.85
2638 2709 1.999634 ATGCTCTTAATGCCGGGCCT 62.000 55.000 17.97 3.08 0.00 5.19
2639 2710 1.518903 GATGCTCTTAATGCCGGGCC 61.519 60.000 17.97 0.00 0.00 5.80
2640 2711 0.536006 AGATGCTCTTAATGCCGGGC 60.536 55.000 13.32 13.32 0.00 6.13
2641 2712 1.517242 GAGATGCTCTTAATGCCGGG 58.483 55.000 2.18 0.00 0.00 5.73
2642 2713 1.202687 TGGAGATGCTCTTAATGCCGG 60.203 52.381 0.00 0.00 0.00 6.13
2643 2714 2.245159 TGGAGATGCTCTTAATGCCG 57.755 50.000 0.00 0.00 0.00 5.69
2644 2715 3.282021 TGTTGGAGATGCTCTTAATGCC 58.718 45.455 0.00 0.00 0.00 4.40
2645 2716 3.944015 ACTGTTGGAGATGCTCTTAATGC 59.056 43.478 0.00 0.00 0.00 3.56
2646 2717 4.269603 CGACTGTTGGAGATGCTCTTAATG 59.730 45.833 0.00 0.00 0.00 1.90
2647 2718 4.437239 CGACTGTTGGAGATGCTCTTAAT 58.563 43.478 0.00 0.00 0.00 1.40
2648 2719 3.849911 CGACTGTTGGAGATGCTCTTAA 58.150 45.455 0.00 0.00 0.00 1.85
2649 2720 2.417379 GCGACTGTTGGAGATGCTCTTA 60.417 50.000 0.00 0.00 0.00 2.10
2687 2758 1.136557 GCGCGCGACAACTAGTTTTTA 60.137 47.619 37.18 0.00 0.00 1.52
2819 2891 4.323180 CCCAAATGCCATATATGCAATGCT 60.323 41.667 6.82 0.00 42.92 3.79
2833 2906 3.399440 TCATTTTGTGTCCCAAATGCC 57.601 42.857 0.00 0.00 42.45 4.40
2840 2913 6.917217 TGTTTCAAATTCATTTTGTGTCCC 57.083 33.333 0.00 0.00 44.25 4.46
3069 5107 3.142770 TATAGCCGCGACCCCTCCT 62.143 63.158 8.23 0.00 0.00 3.69
3114 5152 2.438975 CTGCACCCATGGACGCAT 60.439 61.111 23.26 0.00 35.13 4.73
3276 5315 2.395360 GCAATAACCGCACGCCTGA 61.395 57.895 0.00 0.00 0.00 3.86
3278 5317 3.496131 CGCAATAACCGCACGCCT 61.496 61.111 0.00 0.00 0.00 5.52


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

AutoCloner maintained by Alex Coulton.