Multiple sequence alignment - TraesCS5A01G530100

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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 TraesCS5A01G530100 chr5A 100.000 2813 0 0 1 2813 688988526 688991338 0.000000e+00 5195.0
1 TraesCS5A01G530100 chr5A 98.725 863 11 0 970 1832 689299028 689299890 0.000000e+00 1533.0
2 TraesCS5A01G530100 chr5A 86.194 1043 88 21 1501 2502 689028689 689029716 0.000000e+00 1077.0
3 TraesCS5A01G530100 chr5A 94.099 322 18 1 2492 2813 689033924 689034244 3.260000e-134 488.0
4 TraesCS5A01G530100 chr5A 87.952 166 16 3 737 898 689298771 689298936 2.860000e-45 193.0
5 TraesCS5A01G530100 chr5A 94.340 53 3 0 1917 1969 689300045 689300097 6.460000e-12 82.4
6 TraesCS5A01G530100 chr5A 92.857 56 2 2 436 489 431664498 431664443 2.320000e-11 80.5
7 TraesCS5A01G530100 chr5A 97.436 39 1 0 491 529 24773248 24773286 1.810000e-07 67.6
8 TraesCS5A01G530100 chr4D 93.430 2146 80 22 721 2813 504344604 504346741 0.000000e+00 3125.0
9 TraesCS5A01G530100 chr4D 93.383 2146 81 22 721 2813 505189794 505187657 0.000000e+00 3120.0
10 TraesCS5A01G530100 chr4D 93.279 982 39 10 1011 1969 504996493 504997470 0.000000e+00 1423.0
11 TraesCS5A01G530100 chr4D 93.111 450 11 7 1 430 504344085 504344534 2.360000e-180 641.0
12 TraesCS5A01G530100 chr4D 91.304 345 10 7 106 430 505190208 505189864 1.190000e-123 453.0
13 TraesCS5A01G530100 chr4D 83.034 501 71 8 2210 2702 7471771 7472265 2.570000e-120 442.0
14 TraesCS5A01G530100 chr4D 86.379 301 30 2 1501 1801 504348995 504349284 4.520000e-83 318.0
15 TraesCS5A01G530100 chr4D 91.824 159 10 2 743 898 504996197 504996355 4.720000e-53 219.0
16 TraesCS5A01G530100 chr4D 100.000 67 0 0 29 95 505192116 505192050 1.060000e-24 124.0
17 TraesCS5A01G530100 chr4B 91.189 1952 108 31 721 2644 651021734 651023649 0.000000e+00 2593.0
18 TraesCS5A01G530100 chr4B 93.728 1132 45 12 721 1832 651752630 651753755 0.000000e+00 1674.0
19 TraesCS5A01G530100 chr4B 93.728 1132 45 12 721 1832 651770521 651769396 0.000000e+00 1674.0
20 TraesCS5A01G530100 chr4B 87.621 824 59 13 1833 2619 651753789 651754606 0.000000e+00 917.0
21 TraesCS5A01G530100 chr4B 93.992 516 31 0 1315 1830 651768745 651768230 0.000000e+00 782.0
22 TraesCS5A01G530100 chr4B 89.876 563 35 6 1833 2378 651769362 651768805 0.000000e+00 704.0
23 TraesCS5A01G530100 chr4B 97.885 331 3 1 1 331 650975941 650976267 1.130000e-158 569.0
24 TraesCS5A01G530100 chr4B 95.946 222 9 0 92 313 651752179 651752400 7.410000e-96 361.0
25 TraesCS5A01G530100 chr4B 91.176 204 18 0 1629 1832 651754650 651754853 7.670000e-71 278.0
26 TraesCS5A01G530100 chr4B 88.435 147 4 1 297 430 651752408 651752554 6.230000e-37 165.0
27 TraesCS5A01G530100 chr4B 86.179 123 4 1 321 430 651770719 651770597 1.370000e-23 121.0
28 TraesCS5A01G530100 chr2A 84.915 590 79 8 2228 2813 101032835 101032252 3.120000e-164 588.0
29 TraesCS5A01G530100 chr2A 85.897 78 8 2 499 576 23885380 23885454 2.320000e-11 80.5
30 TraesCS5A01G530100 chr2A 87.097 62 5 3 431 490 710489906 710489966 1.810000e-07 67.6
31 TraesCS5A01G530100 chr2A 95.122 41 2 0 491 531 706508287 706508327 6.500000e-07 65.8
32 TraesCS5A01G530100 chr5B 84.190 525 69 11 2290 2813 10273192 10273703 5.410000e-137 497.0
33 TraesCS5A01G530100 chr5B 91.096 146 10 2 575 717 8364165 8364310 7.950000e-46 195.0
34 TraesCS5A01G530100 chr5B 88.811 143 12 3 576 715 658748238 658748097 3.730000e-39 172.0
35 TraesCS5A01G530100 chr5B 80.597 201 17 14 536 716 620298235 620298433 4.890000e-28 135.0
36 TraesCS5A01G530100 chr5B 79.104 201 19 11 536 716 206790373 206790570 1.770000e-22 117.0
37 TraesCS5A01G530100 chr5B 76.271 177 40 1 2417 2591 393665857 393666033 2.980000e-15 93.5
38 TraesCS5A01G530100 chr2D 81.633 588 92 7 2224 2810 80777864 80778436 9.120000e-130 473.0
39 TraesCS5A01G530100 chr2D 81.229 602 96 8 2210 2810 80816981 80817566 1.180000e-128 470.0
40 TraesCS5A01G530100 chr4A 81.818 495 85 4 2269 2760 743340485 743340977 7.250000e-111 411.0
41 TraesCS5A01G530100 chr4A 93.182 44 3 0 491 534 429411629 429411586 6.500000e-07 65.8
42 TraesCS5A01G530100 chr1D 78.512 605 118 8 2210 2813 228824939 228825532 1.220000e-103 387.0
43 TraesCS5A01G530100 chr6D 76.628 599 121 10 2217 2813 414108119 414107538 2.100000e-81 313.0
44 TraesCS5A01G530100 chr6D 85.556 180 26 0 2634 2813 370363021 370363200 3.700000e-44 189.0
45 TraesCS5A01G530100 chr6D 86.986 146 16 2 575 717 470515007 470514862 8.060000e-36 161.0
46 TraesCS5A01G530100 chr6D 93.478 46 3 0 491 536 13199500 13199545 5.030000e-08 69.4
47 TraesCS5A01G530100 chr6B 86.702 188 17 6 536 719 120800611 120800428 4.750000e-48 202.0
48 TraesCS5A01G530100 chr6B 91.096 146 10 2 575 717 680182446 680182301 7.950000e-46 195.0
49 TraesCS5A01G530100 chr2B 91.837 147 9 2 575 718 757357658 757357512 4.750000e-48 202.0
50 TraesCS5A01G530100 chr2B 93.182 44 3 0 491 534 741220913 741220870 6.500000e-07 65.8
51 TraesCS5A01G530100 chr2B 93.182 44 3 0 491 534 741250486 741250443 6.500000e-07 65.8
52 TraesCS5A01G530100 chr7D 91.781 146 9 2 575 717 548022530 548022385 1.710000e-47 200.0
53 TraesCS5A01G530100 chr3B 91.781 146 9 2 575 717 776503240 776503095 1.710000e-47 200.0
54 TraesCS5A01G530100 chr3B 83.333 138 16 5 585 717 810665534 810665669 1.370000e-23 121.0
55 TraesCS5A01G530100 chrUn 91.096 146 10 2 575 717 318162572 318162427 7.950000e-46 195.0
56 TraesCS5A01G530100 chrUn 91.096 146 10 2 575 717 318169540 318169395 7.950000e-46 195.0
57 TraesCS5A01G530100 chrUn 91.096 146 10 2 575 717 330513594 330513449 7.950000e-46 195.0
58 TraesCS5A01G530100 chr5D 89.855 138 11 2 585 719 339717107 339717244 1.040000e-39 174.0
59 TraesCS5A01G530100 chr5D 80.612 196 20 8 540 718 288595290 288595484 4.890000e-28 135.0
60 TraesCS5A01G530100 chr3D 84.118 170 25 2 2646 2813 12359503 12359334 2.240000e-36 163.0
61 TraesCS5A01G530100 chr7A 86.486 148 14 4 575 716 168770430 168770283 1.040000e-34 158.0
62 TraesCS5A01G530100 chr1B 100.000 39 0 0 491 529 405665731 405665769 3.890000e-09 73.1


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 TraesCS5A01G530100 chr5A 688988526 688991338 2812 False 5195.000000 5195 100.000000 1 2813 1 chr5A.!!$F2 2812
1 TraesCS5A01G530100 chr5A 689028689 689029716 1027 False 1077.000000 1077 86.194000 1501 2502 1 chr5A.!!$F3 1001
2 TraesCS5A01G530100 chr5A 689298771 689300097 1326 False 602.800000 1533 93.672333 737 1969 3 chr5A.!!$F5 1232
3 TraesCS5A01G530100 chr4D 504344085 504349284 5199 False 1361.333333 3125 90.973333 1 2813 3 chr4D.!!$F2 2812
4 TraesCS5A01G530100 chr4D 505187657 505192116 4459 True 1232.333333 3120 94.895667 29 2813 3 chr4D.!!$R1 2784
5 TraesCS5A01G530100 chr4D 504996197 504997470 1273 False 821.000000 1423 92.551500 743 1969 2 chr4D.!!$F3 1226
6 TraesCS5A01G530100 chr4B 651021734 651023649 1915 False 2593.000000 2593 91.189000 721 2644 1 chr4B.!!$F2 1923
7 TraesCS5A01G530100 chr4B 651768230 651770719 2489 True 820.250000 1674 90.943750 321 2378 4 chr4B.!!$R1 2057
8 TraesCS5A01G530100 chr4B 651752179 651754853 2674 False 679.000000 1674 91.381200 92 2619 5 chr4B.!!$F3 2527
9 TraesCS5A01G530100 chr2A 101032252 101032835 583 True 588.000000 588 84.915000 2228 2813 1 chr2A.!!$R1 585
10 TraesCS5A01G530100 chr5B 10273192 10273703 511 False 497.000000 497 84.190000 2290 2813 1 chr5B.!!$F2 523
11 TraesCS5A01G530100 chr2D 80777864 80778436 572 False 473.000000 473 81.633000 2224 2810 1 chr2D.!!$F1 586
12 TraesCS5A01G530100 chr2D 80816981 80817566 585 False 470.000000 470 81.229000 2210 2810 1 chr2D.!!$F2 600
13 TraesCS5A01G530100 chr1D 228824939 228825532 593 False 387.000000 387 78.512000 2210 2813 1 chr1D.!!$F1 603
14 TraesCS5A01G530100 chr6D 414107538 414108119 581 True 313.000000 313 76.628000 2217 2813 1 chr6D.!!$R1 596

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
552 2422 0.040958 GATTCCGGCGATGCACATTC 60.041 55.0 9.3 0.0 0.0 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2494 4602 0.531974 AGCGCGGACTTTTGTTCAGA 60.532 50.0 8.83 0.0 0.0 3.27 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
212 2044 6.262944 AGTGTGCAACTGTAAGAAATGATGAA 59.737 34.615 0.00 0.00 37.88 2.57
304 2154 3.444703 TGGTACCAAAAATGTGTGTGC 57.555 42.857 13.60 0.00 0.00 4.57
349 2205 0.729116 AGGAAAATCATGCGTCGCTG 59.271 50.000 19.50 13.75 0.00 5.18
373 2243 5.526111 GCAACACCTGTCTAACTTCAACTAA 59.474 40.000 0.00 0.00 0.00 2.24
396 2266 1.336440 TCTGTTGCAACAACGGAATGG 59.664 47.619 30.62 17.43 38.66 3.16
430 2300 6.927381 ACGGCCGCCATAGTATTATTATTATC 59.073 38.462 28.58 0.00 0.00 1.75
432 2302 7.439955 CGGCCGCCATAGTATTATTATTATCAA 59.560 37.037 14.67 0.00 0.00 2.57
466 2336 9.865321 AATTCACATCTGATGTTTTTAAGGATG 57.135 29.630 20.13 5.98 42.70 3.51
467 2337 8.408043 TTCACATCTGATGTTTTTAAGGATGT 57.592 30.769 20.13 0.00 42.70 3.06
468 2338 8.044060 TCACATCTGATGTTTTTAAGGATGTC 57.956 34.615 20.13 0.00 42.70 3.06
469 2339 7.665145 TCACATCTGATGTTTTTAAGGATGTCA 59.335 33.333 20.13 0.00 42.70 3.58
470 2340 8.464404 CACATCTGATGTTTTTAAGGATGTCAT 58.536 33.333 20.13 0.00 42.70 3.06
471 2341 9.685276 ACATCTGATGTTTTTAAGGATGTCATA 57.315 29.630 17.24 0.00 41.63 2.15
479 2349 9.905713 TGTTTTTAAGGATGTCATATCTAAGCT 57.094 29.630 0.00 0.00 0.00 3.74
482 2352 9.988815 TTTTAAGGATGTCATATCTAAGCTCTC 57.011 33.333 0.00 0.00 0.00 3.20
483 2353 8.712228 TTAAGGATGTCATATCTAAGCTCTCA 57.288 34.615 0.00 0.00 0.00 3.27
484 2354 7.795534 AAGGATGTCATATCTAAGCTCTCAT 57.204 36.000 0.00 0.00 0.00 2.90
485 2355 8.891985 AAGGATGTCATATCTAAGCTCTCATA 57.108 34.615 0.00 0.00 0.00 2.15
486 2356 8.891985 AGGATGTCATATCTAAGCTCTCATAA 57.108 34.615 0.00 0.00 0.00 1.90
487 2357 9.319060 AGGATGTCATATCTAAGCTCTCATAAA 57.681 33.333 0.00 0.00 0.00 1.40
501 2371 8.268878 AGCTCTCATAAATAAGGAACTATGGT 57.731 34.615 0.00 0.00 38.49 3.55
502 2372 9.381038 AGCTCTCATAAATAAGGAACTATGGTA 57.619 33.333 0.00 0.00 38.49 3.25
506 2376 9.892130 CTCATAAATAAGGAACTATGGTATCCC 57.108 37.037 6.76 0.00 38.49 3.85
507 2377 8.832735 TCATAAATAAGGAACTATGGTATCCCC 58.167 37.037 6.76 0.00 38.49 4.81
508 2378 8.611257 CATAAATAAGGAACTATGGTATCCCCA 58.389 37.037 6.76 0.00 44.76 4.96
509 2379 6.704056 AATAAGGAACTATGGTATCCCCAG 57.296 41.667 6.76 0.00 43.93 4.45
510 2380 2.711547 AAGGAACTATGGTATCCCCAGC 59.288 50.000 6.76 0.00 43.93 4.85
511 2381 4.530939 AAGGAACTATGGTATCCCCAGCC 61.531 52.174 6.76 0.00 43.93 4.85
515 2385 4.002006 TGGTATCCCCAGCCCATC 57.998 61.111 0.00 0.00 38.72 3.51
516 2386 1.005423 TGGTATCCCCAGCCCATCA 59.995 57.895 0.00 0.00 38.72 3.07
517 2387 1.061905 TGGTATCCCCAGCCCATCAG 61.062 60.000 0.00 0.00 38.72 2.90
518 2388 1.763770 GTATCCCCAGCCCATCAGG 59.236 63.158 0.00 0.00 39.47 3.86
537 2407 3.990318 GGGTTCAAATCCCGATGATTC 57.010 47.619 1.38 0.00 42.97 2.52
538 2408 2.623416 GGGTTCAAATCCCGATGATTCC 59.377 50.000 1.38 0.00 42.97 3.01
539 2409 2.290641 GGTTCAAATCCCGATGATTCCG 59.709 50.000 1.38 0.00 42.97 4.30
540 2410 2.254546 TCAAATCCCGATGATTCCGG 57.745 50.000 0.00 0.00 42.97 5.14
541 2411 0.593128 CAAATCCCGATGATTCCGGC 59.407 55.000 0.00 0.00 42.97 6.13
542 2412 0.884704 AAATCCCGATGATTCCGGCG 60.885 55.000 0.00 0.00 42.97 6.46
543 2413 1.754380 AATCCCGATGATTCCGGCGA 61.754 55.000 9.30 0.00 45.24 5.54
544 2414 1.544825 ATCCCGATGATTCCGGCGAT 61.545 55.000 9.30 0.00 45.24 4.58
545 2415 2.029288 CCCGATGATTCCGGCGATG 61.029 63.158 9.30 0.00 45.24 3.84
546 2416 2.671177 CCGATGATTCCGGCGATGC 61.671 63.158 9.30 0.00 40.54 3.91
547 2417 1.955663 CGATGATTCCGGCGATGCA 60.956 57.895 9.30 0.71 0.00 3.96
548 2418 1.571460 GATGATTCCGGCGATGCAC 59.429 57.895 9.30 0.00 0.00 4.57
549 2419 1.153188 ATGATTCCGGCGATGCACA 60.153 52.632 9.30 2.11 0.00 4.57
550 2420 0.535780 ATGATTCCGGCGATGCACAT 60.536 50.000 9.30 4.61 0.00 3.21
551 2421 0.747644 TGATTCCGGCGATGCACATT 60.748 50.000 9.30 0.00 0.00 2.71
552 2422 0.040958 GATTCCGGCGATGCACATTC 60.041 55.000 9.30 0.00 0.00 2.67
553 2423 0.747644 ATTCCGGCGATGCACATTCA 60.748 50.000 9.30 0.00 0.00 2.57
554 2424 1.368345 TTCCGGCGATGCACATTCAG 61.368 55.000 9.30 0.00 0.00 3.02
555 2425 2.108514 CCGGCGATGCACATTCAGT 61.109 57.895 9.30 0.00 0.00 3.41
565 2435 2.393271 CACATTCAGTGGGAGGAGAC 57.607 55.000 0.00 0.00 44.69 3.36
566 2436 0.898320 ACATTCAGTGGGAGGAGACG 59.102 55.000 0.00 0.00 0.00 4.18
567 2437 0.898320 CATTCAGTGGGAGGAGACGT 59.102 55.000 0.00 0.00 0.00 4.34
568 2438 2.100197 CATTCAGTGGGAGGAGACGTA 58.900 52.381 0.00 0.00 0.00 3.57
569 2439 1.542492 TTCAGTGGGAGGAGACGTAC 58.458 55.000 0.00 0.00 0.00 3.67
570 2440 0.323178 TCAGTGGGAGGAGACGTACC 60.323 60.000 3.41 3.41 0.00 3.34
571 2441 1.000107 AGTGGGAGGAGACGTACCC 60.000 63.158 7.51 0.00 41.22 3.69
572 2442 1.304713 GTGGGAGGAGACGTACCCA 60.305 63.158 11.16 11.16 45.49 4.51
573 2443 1.701603 TGGGAGGAGACGTACCCAT 59.298 57.895 11.16 0.00 43.89 4.00
574 2444 0.396695 TGGGAGGAGACGTACCCATC 60.397 60.000 11.16 1.36 43.89 3.51
575 2445 1.453762 GGGAGGAGACGTACCCATCG 61.454 65.000 8.23 0.00 40.78 3.84
576 2446 1.453762 GGAGGAGACGTACCCATCGG 61.454 65.000 8.23 0.00 0.00 4.18
578 2448 1.035932 AGGAGACGTACCCATCGGTG 61.036 60.000 8.23 0.00 44.40 4.94
579 2449 1.033746 GGAGACGTACCCATCGGTGA 61.034 60.000 0.00 0.00 44.40 4.02
580 2450 0.100146 GAGACGTACCCATCGGTGAC 59.900 60.000 0.00 0.00 44.40 3.67
581 2451 0.323178 AGACGTACCCATCGGTGACT 60.323 55.000 0.00 0.00 44.40 3.41
582 2452 0.529378 GACGTACCCATCGGTGACTT 59.471 55.000 0.00 0.00 44.40 3.01
583 2453 1.745087 GACGTACCCATCGGTGACTTA 59.255 52.381 0.00 0.00 44.40 2.24
584 2454 1.747355 ACGTACCCATCGGTGACTTAG 59.253 52.381 0.00 0.00 44.40 2.18
585 2455 1.747355 CGTACCCATCGGTGACTTAGT 59.253 52.381 0.00 0.00 44.40 2.24
586 2456 2.945008 CGTACCCATCGGTGACTTAGTA 59.055 50.000 0.00 0.00 44.40 1.82
587 2457 3.378112 CGTACCCATCGGTGACTTAGTAA 59.622 47.826 0.00 0.00 44.40 2.24
588 2458 4.142403 CGTACCCATCGGTGACTTAGTAAA 60.142 45.833 0.00 0.00 44.40 2.01
589 2459 5.450965 CGTACCCATCGGTGACTTAGTAAAT 60.451 44.000 0.00 0.00 44.40 1.40
590 2460 5.019785 ACCCATCGGTGACTTAGTAAATC 57.980 43.478 0.00 0.00 42.48 2.17
591 2461 4.715297 ACCCATCGGTGACTTAGTAAATCT 59.285 41.667 0.00 0.00 42.48 2.40
592 2462 5.163437 ACCCATCGGTGACTTAGTAAATCTC 60.163 44.000 0.00 0.00 42.48 2.75
593 2463 5.163447 CCCATCGGTGACTTAGTAAATCTCA 60.163 44.000 0.00 0.00 0.00 3.27
594 2464 6.338146 CCATCGGTGACTTAGTAAATCTCAA 58.662 40.000 0.00 0.00 0.00 3.02
595 2465 6.477033 CCATCGGTGACTTAGTAAATCTCAAG 59.523 42.308 0.00 0.00 0.00 3.02
596 2466 6.829229 TCGGTGACTTAGTAAATCTCAAGA 57.171 37.500 0.00 0.00 0.00 3.02
597 2467 7.406031 TCGGTGACTTAGTAAATCTCAAGAT 57.594 36.000 0.00 0.00 36.07 2.40
598 2468 8.515695 TCGGTGACTTAGTAAATCTCAAGATA 57.484 34.615 0.00 0.00 33.73 1.98
599 2469 8.963725 TCGGTGACTTAGTAAATCTCAAGATAA 58.036 33.333 0.00 0.00 33.73 1.75
600 2470 9.751542 CGGTGACTTAGTAAATCTCAAGATAAT 57.248 33.333 0.00 0.00 33.73 1.28
607 2477 9.653287 TTAGTAAATCTCAAGATAATATGCCGG 57.347 33.333 0.00 0.00 33.73 6.13
608 2478 7.680730 AGTAAATCTCAAGATAATATGCCGGT 58.319 34.615 1.90 0.00 33.73 5.28
609 2479 8.157476 AGTAAATCTCAAGATAATATGCCGGTT 58.843 33.333 1.90 0.00 33.73 4.44
610 2480 7.440523 AAATCTCAAGATAATATGCCGGTTC 57.559 36.000 1.90 0.00 33.73 3.62
611 2481 5.545063 TCTCAAGATAATATGCCGGTTCA 57.455 39.130 1.90 0.00 0.00 3.18
612 2482 5.541845 TCTCAAGATAATATGCCGGTTCAG 58.458 41.667 1.90 0.00 0.00 3.02
613 2483 5.070446 TCTCAAGATAATATGCCGGTTCAGT 59.930 40.000 1.90 0.00 0.00 3.41
614 2484 5.680619 TCAAGATAATATGCCGGTTCAGTT 58.319 37.500 1.90 0.00 0.00 3.16
615 2485 6.119536 TCAAGATAATATGCCGGTTCAGTTT 58.880 36.000 1.90 0.00 0.00 2.66
616 2486 6.601613 TCAAGATAATATGCCGGTTCAGTTTT 59.398 34.615 1.90 0.00 0.00 2.43
617 2487 7.122055 TCAAGATAATATGCCGGTTCAGTTTTT 59.878 33.333 1.90 0.00 0.00 1.94
618 2488 7.027778 AGATAATATGCCGGTTCAGTTTTTC 57.972 36.000 1.90 0.00 0.00 2.29
619 2489 3.757745 ATATGCCGGTTCAGTTTTTCG 57.242 42.857 1.90 0.00 0.00 3.46
620 2490 0.596082 ATGCCGGTTCAGTTTTTCGG 59.404 50.000 1.90 0.00 43.13 4.30
621 2491 0.464013 TGCCGGTTCAGTTTTTCGGA 60.464 50.000 1.90 0.00 42.94 4.55
622 2492 0.237498 GCCGGTTCAGTTTTTCGGAG 59.763 55.000 1.90 0.00 42.94 4.63
623 2493 0.872388 CCGGTTCAGTTTTTCGGAGG 59.128 55.000 0.00 0.00 42.94 4.30
624 2494 1.589803 CGGTTCAGTTTTTCGGAGGT 58.410 50.000 0.00 0.00 0.00 3.85
625 2495 1.263217 CGGTTCAGTTTTTCGGAGGTG 59.737 52.381 0.00 0.00 0.00 4.00
626 2496 1.001706 GGTTCAGTTTTTCGGAGGTGC 60.002 52.381 0.00 0.00 0.00 5.01
627 2497 1.947456 GTTCAGTTTTTCGGAGGTGCT 59.053 47.619 0.00 0.00 0.00 4.40
628 2498 1.878953 TCAGTTTTTCGGAGGTGCTC 58.121 50.000 0.00 0.00 0.00 4.26
629 2499 1.140052 TCAGTTTTTCGGAGGTGCTCA 59.860 47.619 0.00 0.00 31.08 4.26
630 2500 2.154462 CAGTTTTTCGGAGGTGCTCAT 58.846 47.619 0.00 0.00 31.08 2.90
631 2501 3.007506 TCAGTTTTTCGGAGGTGCTCATA 59.992 43.478 0.00 0.00 31.08 2.15
632 2502 3.372206 CAGTTTTTCGGAGGTGCTCATAG 59.628 47.826 0.00 0.00 31.08 2.23
633 2503 2.678336 GTTTTTCGGAGGTGCTCATAGG 59.322 50.000 0.00 0.00 31.08 2.57
634 2504 0.830648 TTTCGGAGGTGCTCATAGGG 59.169 55.000 0.00 0.00 31.08 3.53
635 2505 1.048724 TTCGGAGGTGCTCATAGGGG 61.049 60.000 0.00 0.00 31.08 4.79
636 2506 2.832498 GGAGGTGCTCATAGGGGC 59.168 66.667 0.00 0.00 31.08 5.80
637 2507 2.072487 GGAGGTGCTCATAGGGGCA 61.072 63.158 0.00 0.00 36.01 5.36
638 2508 1.449353 GAGGTGCTCATAGGGGCAG 59.551 63.158 0.00 0.00 39.22 4.85
639 2509 2.049627 GAGGTGCTCATAGGGGCAGG 62.050 65.000 0.00 0.00 39.22 4.85
640 2510 2.512896 GTGCTCATAGGGGCAGGG 59.487 66.667 0.00 0.00 39.22 4.45
641 2511 2.042762 TGCTCATAGGGGCAGGGT 59.957 61.111 0.00 0.00 34.22 4.34
642 2512 2.377810 TGCTCATAGGGGCAGGGTG 61.378 63.158 0.00 0.00 34.22 4.61
643 2513 2.378634 GCTCATAGGGGCAGGGTGT 61.379 63.158 0.00 0.00 0.00 4.16
644 2514 1.528824 CTCATAGGGGCAGGGTGTG 59.471 63.158 0.00 0.00 0.00 3.82
645 2515 1.229820 TCATAGGGGCAGGGTGTGT 60.230 57.895 0.00 0.00 0.00 3.72
646 2516 1.077501 CATAGGGGCAGGGTGTGTG 60.078 63.158 0.00 0.00 0.00 3.82
647 2517 1.541368 ATAGGGGCAGGGTGTGTGT 60.541 57.895 0.00 0.00 0.00 3.72
648 2518 1.852157 ATAGGGGCAGGGTGTGTGTG 61.852 60.000 0.00 0.00 0.00 3.82
649 2519 4.204028 GGGGCAGGGTGTGTGTGT 62.204 66.667 0.00 0.00 0.00 3.72
650 2520 2.906897 GGGCAGGGTGTGTGTGTG 60.907 66.667 0.00 0.00 0.00 3.82
651 2521 2.191908 GGCAGGGTGTGTGTGTGA 59.808 61.111 0.00 0.00 0.00 3.58
652 2522 1.893808 GGCAGGGTGTGTGTGTGAG 60.894 63.158 0.00 0.00 0.00 3.51
653 2523 1.153168 GCAGGGTGTGTGTGTGAGT 60.153 57.895 0.00 0.00 0.00 3.41
654 2524 0.748005 GCAGGGTGTGTGTGTGAGTT 60.748 55.000 0.00 0.00 0.00 3.01
655 2525 1.299541 CAGGGTGTGTGTGTGAGTTC 58.700 55.000 0.00 0.00 0.00 3.01
656 2526 0.908910 AGGGTGTGTGTGTGAGTTCA 59.091 50.000 0.00 0.00 0.00 3.18
657 2527 1.490490 AGGGTGTGTGTGTGAGTTCAT 59.510 47.619 0.00 0.00 0.00 2.57
658 2528 2.703536 AGGGTGTGTGTGTGAGTTCATA 59.296 45.455 0.00 0.00 0.00 2.15
659 2529 3.067106 GGGTGTGTGTGTGAGTTCATAG 58.933 50.000 0.00 0.00 0.00 2.23
660 2530 3.067106 GGTGTGTGTGTGAGTTCATAGG 58.933 50.000 0.00 0.00 0.00 2.57
661 2531 3.067106 GTGTGTGTGTGAGTTCATAGGG 58.933 50.000 0.00 0.00 0.00 3.53
662 2532 2.703536 TGTGTGTGTGAGTTCATAGGGT 59.296 45.455 0.00 0.00 0.00 4.34
663 2533 3.067106 GTGTGTGTGAGTTCATAGGGTG 58.933 50.000 0.00 0.00 0.00 4.61
664 2534 2.969262 TGTGTGTGAGTTCATAGGGTGA 59.031 45.455 0.00 0.00 34.25 4.02
665 2535 3.244078 TGTGTGTGAGTTCATAGGGTGAC 60.244 47.826 0.00 0.00 36.32 3.67
666 2536 3.006967 GTGTGTGAGTTCATAGGGTGACT 59.993 47.826 0.00 0.00 36.32 3.41
667 2537 3.006859 TGTGTGAGTTCATAGGGTGACTG 59.993 47.826 0.00 0.00 36.32 3.51
668 2538 3.006967 GTGTGAGTTCATAGGGTGACTGT 59.993 47.826 0.00 0.00 36.32 3.55
669 2539 4.219944 GTGTGAGTTCATAGGGTGACTGTA 59.780 45.833 0.00 0.00 36.32 2.74
670 2540 5.023452 TGTGAGTTCATAGGGTGACTGTAT 58.977 41.667 0.00 0.00 36.32 2.29
671 2541 6.096423 GTGTGAGTTCATAGGGTGACTGTATA 59.904 42.308 0.00 0.00 36.32 1.47
672 2542 6.096423 TGTGAGTTCATAGGGTGACTGTATAC 59.904 42.308 0.00 0.00 36.32 1.47
673 2543 5.298527 TGAGTTCATAGGGTGACTGTATACG 59.701 44.000 0.00 0.00 36.32 3.06
674 2544 4.037684 AGTTCATAGGGTGACTGTATACGC 59.962 45.833 0.00 4.29 36.32 4.42
680 2550 2.444351 GGTGACTGTATACGCGTGTAC 58.556 52.381 31.61 31.61 32.26 2.90
681 2551 2.159531 GGTGACTGTATACGCGTGTACA 60.160 50.000 35.89 35.89 36.12 2.90
682 2552 3.488047 GGTGACTGTATACGCGTGTACAT 60.488 47.826 37.55 28.85 36.74 2.29
683 2553 3.481028 GTGACTGTATACGCGTGTACATG 59.519 47.826 37.55 31.64 36.74 3.21
685 2555 3.948851 ACTGTATACGCGTGTACATGAG 58.051 45.455 37.55 29.87 36.74 2.90
690 2560 2.444624 CGCGTGTACATGAGCGCTT 61.445 57.895 23.08 0.00 46.56 4.68
694 2564 1.148310 GTGTACATGAGCGCTTGTGT 58.852 50.000 25.24 25.24 34.61 3.72
696 2566 1.000843 TGTACATGAGCGCTTGTGTCT 59.999 47.619 25.53 10.42 34.61 3.41
698 2568 0.250038 ACATGAGCGCTTGTGTCTGT 60.250 50.000 13.26 6.50 31.88 3.41
701 2571 0.673985 TGAGCGCTTGTGTCTGTACT 59.326 50.000 13.26 0.00 0.00 2.73
702 2572 1.063806 GAGCGCTTGTGTCTGTACTG 58.936 55.000 13.26 0.00 0.00 2.74
706 2576 2.677199 CGCTTGTGTCTGTACTGATGT 58.323 47.619 5.69 0.00 0.00 3.06
708 2578 3.121944 CGCTTGTGTCTGTACTGATGTTC 59.878 47.826 5.69 0.00 0.00 3.18
710 2580 4.511454 GCTTGTGTCTGTACTGATGTTCAA 59.489 41.667 5.69 8.15 0.00 2.69
711 2581 5.007626 GCTTGTGTCTGTACTGATGTTCAAA 59.992 40.000 5.69 0.00 0.00 2.69
712 2582 6.458206 GCTTGTGTCTGTACTGATGTTCAAAA 60.458 38.462 5.69 0.61 0.00 2.44
713 2583 6.993786 TGTGTCTGTACTGATGTTCAAAAA 57.006 33.333 5.69 0.00 0.00 1.94
736 2610 4.764679 AATGTCGCTTGTGATTTTGCTA 57.235 36.364 0.00 0.00 0.00 3.49
753 2627 4.970662 TGCTAGCATTTTCATGTCCTTC 57.029 40.909 14.93 0.00 32.28 3.46
757 2631 5.448360 GCTAGCATTTTCATGTCCTTCTGAC 60.448 44.000 10.63 0.00 44.72 3.51
884 2793 4.821589 CGGACAAGCTCGCCTCCC 62.822 72.222 0.00 0.00 0.00 4.30
885 2794 4.821589 GGACAAGCTCGCCTCCCG 62.822 72.222 0.00 0.00 38.61 5.14
909 2818 3.823330 GCAGCCAGCCACAGCATC 61.823 66.667 0.00 0.00 43.56 3.91
912 2825 2.827642 GCCAGCCACAGCATCCTC 60.828 66.667 0.00 0.00 43.56 3.71
955 2880 0.677842 AAAAGCAGGGCAGCAAGAAG 59.322 50.000 0.00 0.00 36.85 2.85
956 2881 0.178981 AAAGCAGGGCAGCAAGAAGA 60.179 50.000 0.00 0.00 36.85 2.87
957 2882 0.608582 AAGCAGGGCAGCAAGAAGAG 60.609 55.000 0.00 0.00 36.85 2.85
958 2883 2.045131 GCAGGGCAGCAAGAAGAGG 61.045 63.158 0.00 0.00 0.00 3.69
959 2884 1.377994 CAGGGCAGCAAGAAGAGGT 59.622 57.895 0.00 0.00 0.00 3.85
961 2886 0.615850 AGGGCAGCAAGAAGAGGTAC 59.384 55.000 0.00 0.00 0.00 3.34
963 2888 1.677217 GGGCAGCAAGAAGAGGTACAG 60.677 57.143 0.00 0.00 0.00 2.74
964 2889 1.082690 GCAGCAAGAAGAGGTACAGC 58.917 55.000 0.00 0.00 0.00 4.40
965 2890 1.609061 GCAGCAAGAAGAGGTACAGCA 60.609 52.381 0.00 0.00 0.00 4.41
966 2891 2.344950 CAGCAAGAAGAGGTACAGCAG 58.655 52.381 0.00 0.00 0.00 4.24
967 2892 1.082690 GCAAGAAGAGGTACAGCAGC 58.917 55.000 0.00 0.00 0.00 5.25
968 2893 1.354040 CAAGAAGAGGTACAGCAGCG 58.646 55.000 0.00 0.00 0.00 5.18
991 2921 0.317854 GCGGCAACAAGGAACAGTTC 60.318 55.000 4.52 4.52 0.00 3.01
1884 3866 8.469309 AAGAATAAACCAGCTGCACATATATT 57.531 30.769 8.66 6.65 0.00 1.28
2012 4025 6.985117 ACTTGCTCATGATTGTAAACATGTT 58.015 32.000 4.92 4.92 42.75 2.71
2096 4109 1.003839 GATGGTCACAACGGGCTCA 60.004 57.895 0.00 0.00 0.00 4.26
2219 4259 1.533625 TGGTCTCCATTTTCGCCAAG 58.466 50.000 0.00 0.00 0.00 3.61
2226 4266 1.134729 CCATTTTCGCCAAGGGGAATG 60.135 52.381 17.78 13.90 44.47 2.67
2271 4315 0.179045 ACACCCAGACTCTGCAACAC 60.179 55.000 0.00 0.00 0.00 3.32
2281 4325 4.641989 AGACTCTGCAACACTGAAATGTTT 59.358 37.500 0.00 0.00 40.89 2.83
2304 4348 4.226427 ACAGACATTATGGATGCACACT 57.774 40.909 0.00 0.00 39.47 3.55
2318 4365 5.009210 GGATGCACACTAACCTACAACAAAA 59.991 40.000 0.00 0.00 0.00 2.44
2380 4453 4.241590 TCAAAACCATGTAGCTGCAAAG 57.758 40.909 9.07 5.72 0.00 2.77
2395 4468 0.249280 CAAAGCAAACCACCGGGAAC 60.249 55.000 6.32 0.00 38.05 3.62
2467 4575 1.451207 TGCACAAGTGTTGTCGCCT 60.451 52.632 1.79 0.00 43.23 5.52
2494 4602 6.462207 CCGATCATAGATCTCAGGTTTTCACT 60.462 42.308 0.00 0.00 0.00 3.41
2504 4612 5.943416 TCTCAGGTTTTCACTCTGAACAAAA 59.057 36.000 0.00 0.00 35.89 2.44
2585 4695 5.016831 GGTCATACCTTGGATTTTCACCTT 58.983 41.667 0.00 0.00 34.73 3.50
2665 4775 4.574828 GCTACAAGTCAAGAAACACCAAGA 59.425 41.667 0.00 0.00 0.00 3.02
2690 4800 2.424474 CTCATCCCCTCGAGGACAG 58.576 63.158 33.39 19.98 39.24 3.51
2720 4837 3.585862 GTTGCGAGACCTCATAACTCAA 58.414 45.455 0.00 0.00 0.00 3.02
2739 4856 2.684374 CAATTGCCATGACATTCTCGGA 59.316 45.455 0.00 0.00 0.00 4.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
159 1991 1.128692 GTCCAGGAAAATTGCGACGAG 59.871 52.381 0.00 0.00 0.00 4.18
304 2154 0.586256 CAACGTCAGCAACACACACG 60.586 55.000 0.00 0.00 36.54 4.49
349 2205 3.877508 AGTTGAAGTTAGACAGGTGTTGC 59.122 43.478 0.00 0.00 0.00 4.17
373 2243 1.745232 TCCGTTGTTGCAACAGAAGT 58.255 45.000 29.50 0.00 40.50 3.01
440 2310 9.865321 CATCCTTAAAAACATCAGATGTGAATT 57.135 29.630 17.11 13.64 44.07 2.17
441 2311 9.028284 ACATCCTTAAAAACATCAGATGTGAAT 57.972 29.630 17.11 8.37 44.07 2.57
442 2312 8.408043 ACATCCTTAAAAACATCAGATGTGAA 57.592 30.769 17.11 8.20 44.07 3.18
444 2314 7.819644 TGACATCCTTAAAAACATCAGATGTG 58.180 34.615 17.11 3.24 44.07 3.21
456 2326 9.988815 GAGAGCTTAGATATGACATCCTTAAAA 57.011 33.333 0.00 0.00 0.00 1.52
457 2327 9.147732 TGAGAGCTTAGATATGACATCCTTAAA 57.852 33.333 0.00 0.00 0.00 1.52
458 2328 8.712228 TGAGAGCTTAGATATGACATCCTTAA 57.288 34.615 0.00 0.00 0.00 1.85
459 2329 8.891985 ATGAGAGCTTAGATATGACATCCTTA 57.108 34.615 0.00 0.00 0.00 2.69
460 2330 7.795534 ATGAGAGCTTAGATATGACATCCTT 57.204 36.000 0.00 0.00 0.00 3.36
461 2331 8.891985 TTATGAGAGCTTAGATATGACATCCT 57.108 34.615 0.00 0.00 0.00 3.24
475 2345 8.718656 ACCATAGTTCCTTATTTATGAGAGCTT 58.281 33.333 0.00 0.00 0.00 3.74
476 2346 8.268878 ACCATAGTTCCTTATTTATGAGAGCT 57.731 34.615 0.00 0.00 0.00 4.09
500 2370 1.763770 CCTGATGGGCTGGGGATAC 59.236 63.158 0.00 0.00 32.31 2.24
501 2371 4.337474 CCTGATGGGCTGGGGATA 57.663 61.111 0.00 0.00 32.31 2.59
511 2381 1.064758 TCGGGATTTGAACCCTGATGG 60.065 52.381 0.00 0.00 44.72 3.51
512 2382 2.418368 TCGGGATTTGAACCCTGATG 57.582 50.000 0.00 0.00 44.72 3.07
513 2383 2.509548 TCATCGGGATTTGAACCCTGAT 59.490 45.455 0.00 0.00 44.72 2.90
514 2384 1.912731 TCATCGGGATTTGAACCCTGA 59.087 47.619 0.00 0.00 44.72 3.86
515 2385 2.418368 TCATCGGGATTTGAACCCTG 57.582 50.000 0.00 0.00 44.72 4.45
516 2386 3.555966 GAATCATCGGGATTTGAACCCT 58.444 45.455 0.00 0.00 46.17 4.34
517 2387 2.623416 GGAATCATCGGGATTTGAACCC 59.377 50.000 5.01 0.00 46.17 4.11
518 2388 2.290641 CGGAATCATCGGGATTTGAACC 59.709 50.000 5.01 2.00 46.17 3.62
519 2389 2.290641 CCGGAATCATCGGGATTTGAAC 59.709 50.000 0.00 0.00 46.17 3.18
520 2390 2.571212 CCGGAATCATCGGGATTTGAA 58.429 47.619 0.00 0.00 46.17 2.69
521 2391 1.813862 GCCGGAATCATCGGGATTTGA 60.814 52.381 5.05 0.00 46.17 2.69
522 2392 0.593128 GCCGGAATCATCGGGATTTG 59.407 55.000 5.05 2.39 46.17 2.32
523 2393 0.884704 CGCCGGAATCATCGGGATTT 60.885 55.000 5.05 0.00 46.17 2.17
525 2395 1.544825 ATCGCCGGAATCATCGGGAT 61.545 55.000 5.05 3.33 46.27 3.85
526 2396 2.207229 ATCGCCGGAATCATCGGGA 61.207 57.895 5.05 1.20 46.27 5.14
527 2397 2.029288 CATCGCCGGAATCATCGGG 61.029 63.158 5.05 0.67 46.86 5.14
529 2399 1.955663 TGCATCGCCGGAATCATCG 60.956 57.895 5.05 0.00 0.00 3.84
530 2400 1.159713 TGTGCATCGCCGGAATCATC 61.160 55.000 5.05 0.00 0.00 2.92
531 2401 0.535780 ATGTGCATCGCCGGAATCAT 60.536 50.000 5.05 0.00 0.00 2.45
532 2402 0.747644 AATGTGCATCGCCGGAATCA 60.748 50.000 5.05 0.00 0.00 2.57
533 2403 0.040958 GAATGTGCATCGCCGGAATC 60.041 55.000 5.05 0.00 0.00 2.52
534 2404 0.747644 TGAATGTGCATCGCCGGAAT 60.748 50.000 5.05 0.00 0.00 3.01
535 2405 1.368345 CTGAATGTGCATCGCCGGAA 61.368 55.000 5.05 0.00 0.00 4.30
536 2406 1.815003 CTGAATGTGCATCGCCGGA 60.815 57.895 5.05 0.00 0.00 5.14
537 2407 2.108514 ACTGAATGTGCATCGCCGG 61.109 57.895 0.00 0.00 0.00 6.13
538 2408 1.061411 CACTGAATGTGCATCGCCG 59.939 57.895 0.00 0.00 40.06 6.46
539 2409 1.430632 CCACTGAATGTGCATCGCC 59.569 57.895 0.00 0.00 44.92 5.54
540 2410 1.026182 TCCCACTGAATGTGCATCGC 61.026 55.000 0.00 0.00 44.92 4.58
541 2411 1.012086 CTCCCACTGAATGTGCATCG 58.988 55.000 0.00 0.00 44.92 3.84
542 2412 1.065199 TCCTCCCACTGAATGTGCATC 60.065 52.381 0.00 0.00 44.92 3.91
543 2413 0.994247 TCCTCCCACTGAATGTGCAT 59.006 50.000 0.00 0.00 44.92 3.96
544 2414 0.325933 CTCCTCCCACTGAATGTGCA 59.674 55.000 0.00 0.00 44.92 4.57
545 2415 0.615331 TCTCCTCCCACTGAATGTGC 59.385 55.000 0.00 0.00 44.92 4.57
546 2416 1.404717 CGTCTCCTCCCACTGAATGTG 60.405 57.143 0.00 0.00 45.80 3.21
547 2417 0.898320 CGTCTCCTCCCACTGAATGT 59.102 55.000 0.00 0.00 0.00 2.71
548 2418 0.898320 ACGTCTCCTCCCACTGAATG 59.102 55.000 0.00 0.00 0.00 2.67
549 2419 2.100989 GTACGTCTCCTCCCACTGAAT 58.899 52.381 0.00 0.00 0.00 2.57
550 2420 1.542492 GTACGTCTCCTCCCACTGAA 58.458 55.000 0.00 0.00 0.00 3.02
551 2421 0.323178 GGTACGTCTCCTCCCACTGA 60.323 60.000 0.00 0.00 0.00 3.41
552 2422 1.321074 GGGTACGTCTCCTCCCACTG 61.321 65.000 0.00 0.00 39.68 3.66
553 2423 1.000107 GGGTACGTCTCCTCCCACT 60.000 63.158 0.00 0.00 39.68 4.00
554 2424 1.304713 TGGGTACGTCTCCTCCCAC 60.305 63.158 0.00 0.00 44.07 4.61
555 2425 3.183287 TGGGTACGTCTCCTCCCA 58.817 61.111 0.00 0.87 46.34 4.37
556 2426 1.453762 CGATGGGTACGTCTCCTCCC 61.454 65.000 0.00 0.00 40.26 4.30
557 2427 1.453762 CCGATGGGTACGTCTCCTCC 61.454 65.000 0.00 0.00 0.00 4.30
558 2428 2.031360 CCGATGGGTACGTCTCCTC 58.969 63.158 0.00 0.00 0.00 3.71
559 2429 4.254721 CCGATGGGTACGTCTCCT 57.745 61.111 0.00 0.00 0.00 3.69
569 2439 5.163447 TGAGATTTACTAAGTCACCGATGGG 60.163 44.000 0.00 0.00 40.11 4.00
570 2440 5.902681 TGAGATTTACTAAGTCACCGATGG 58.097 41.667 0.00 0.00 0.00 3.51
571 2441 7.258441 TCTTGAGATTTACTAAGTCACCGATG 58.742 38.462 0.00 0.00 0.00 3.84
572 2442 7.406031 TCTTGAGATTTACTAAGTCACCGAT 57.594 36.000 0.00 0.00 0.00 4.18
573 2443 6.829229 TCTTGAGATTTACTAAGTCACCGA 57.171 37.500 0.00 0.00 0.00 4.69
574 2444 9.751542 ATTATCTTGAGATTTACTAAGTCACCG 57.248 33.333 0.00 0.00 36.05 4.94
581 2451 9.653287 CCGGCATATTATCTTGAGATTTACTAA 57.347 33.333 0.00 0.00 36.05 2.24
582 2452 8.812972 ACCGGCATATTATCTTGAGATTTACTA 58.187 33.333 0.00 0.00 36.05 1.82
583 2453 7.680730 ACCGGCATATTATCTTGAGATTTACT 58.319 34.615 0.00 0.00 36.05 2.24
584 2454 7.907214 ACCGGCATATTATCTTGAGATTTAC 57.093 36.000 0.00 0.00 36.05 2.01
585 2455 8.154203 TGAACCGGCATATTATCTTGAGATTTA 58.846 33.333 0.00 0.00 36.05 1.40
586 2456 6.998074 TGAACCGGCATATTATCTTGAGATTT 59.002 34.615 0.00 0.00 36.05 2.17
587 2457 6.533730 TGAACCGGCATATTATCTTGAGATT 58.466 36.000 0.00 0.00 36.05 2.40
588 2458 6.114187 TGAACCGGCATATTATCTTGAGAT 57.886 37.500 0.00 0.00 38.51 2.75
589 2459 5.070446 ACTGAACCGGCATATTATCTTGAGA 59.930 40.000 0.00 0.00 0.00 3.27
590 2460 5.300752 ACTGAACCGGCATATTATCTTGAG 58.699 41.667 0.00 0.00 0.00 3.02
591 2461 5.290493 ACTGAACCGGCATATTATCTTGA 57.710 39.130 0.00 0.00 0.00 3.02
592 2462 6.377327 AAACTGAACCGGCATATTATCTTG 57.623 37.500 0.00 0.00 0.00 3.02
593 2463 7.404671 AAAAACTGAACCGGCATATTATCTT 57.595 32.000 0.00 0.00 0.00 2.40
594 2464 6.238374 CGAAAAACTGAACCGGCATATTATCT 60.238 38.462 0.00 0.00 0.00 1.98
595 2465 5.907391 CGAAAAACTGAACCGGCATATTATC 59.093 40.000 0.00 0.00 0.00 1.75
596 2466 5.220970 CCGAAAAACTGAACCGGCATATTAT 60.221 40.000 0.00 0.00 33.47 1.28
597 2467 4.095185 CCGAAAAACTGAACCGGCATATTA 59.905 41.667 0.00 0.00 33.47 0.98
598 2468 3.119637 CCGAAAAACTGAACCGGCATATT 60.120 43.478 0.00 0.00 33.47 1.28
599 2469 2.422127 CCGAAAAACTGAACCGGCATAT 59.578 45.455 0.00 0.00 33.47 1.78
600 2470 1.807742 CCGAAAAACTGAACCGGCATA 59.192 47.619 0.00 0.00 33.47 3.14
601 2471 0.596082 CCGAAAAACTGAACCGGCAT 59.404 50.000 0.00 0.00 33.47 4.40
602 2472 0.464013 TCCGAAAAACTGAACCGGCA 60.464 50.000 0.00 0.00 39.96 5.69
603 2473 0.237498 CTCCGAAAAACTGAACCGGC 59.763 55.000 0.00 0.00 39.96 6.13
604 2474 0.872388 CCTCCGAAAAACTGAACCGG 59.128 55.000 0.00 0.00 41.36 5.28
605 2475 1.263217 CACCTCCGAAAAACTGAACCG 59.737 52.381 0.00 0.00 0.00 4.44
606 2476 1.001706 GCACCTCCGAAAAACTGAACC 60.002 52.381 0.00 0.00 0.00 3.62
607 2477 1.947456 AGCACCTCCGAAAAACTGAAC 59.053 47.619 0.00 0.00 0.00 3.18
608 2478 2.218603 GAGCACCTCCGAAAAACTGAA 58.781 47.619 0.00 0.00 0.00 3.02
609 2479 1.140052 TGAGCACCTCCGAAAAACTGA 59.860 47.619 0.00 0.00 0.00 3.41
610 2480 1.593196 TGAGCACCTCCGAAAAACTG 58.407 50.000 0.00 0.00 0.00 3.16
611 2481 2.568623 ATGAGCACCTCCGAAAAACT 57.431 45.000 0.00 0.00 0.00 2.66
612 2482 2.678336 CCTATGAGCACCTCCGAAAAAC 59.322 50.000 0.00 0.00 0.00 2.43
613 2483 2.355716 CCCTATGAGCACCTCCGAAAAA 60.356 50.000 0.00 0.00 0.00 1.94
614 2484 1.209504 CCCTATGAGCACCTCCGAAAA 59.790 52.381 0.00 0.00 0.00 2.29
615 2485 0.830648 CCCTATGAGCACCTCCGAAA 59.169 55.000 0.00 0.00 0.00 3.46
616 2486 1.048724 CCCCTATGAGCACCTCCGAA 61.049 60.000 0.00 0.00 0.00 4.30
617 2487 1.457643 CCCCTATGAGCACCTCCGA 60.458 63.158 0.00 0.00 0.00 4.55
618 2488 3.142393 CCCCTATGAGCACCTCCG 58.858 66.667 0.00 0.00 0.00 4.63
619 2489 2.049627 CTGCCCCTATGAGCACCTCC 62.050 65.000 0.00 0.00 34.68 4.30
620 2490 1.449353 CTGCCCCTATGAGCACCTC 59.551 63.158 0.00 0.00 34.68 3.85
621 2491 2.074948 CCTGCCCCTATGAGCACCT 61.075 63.158 0.00 0.00 34.68 4.00
622 2492 2.512896 CCTGCCCCTATGAGCACC 59.487 66.667 0.00 0.00 34.68 5.01
623 2493 2.378634 ACCCTGCCCCTATGAGCAC 61.379 63.158 0.00 0.00 34.68 4.40
624 2494 2.042762 ACCCTGCCCCTATGAGCA 59.957 61.111 0.00 0.00 37.46 4.26
625 2495 2.378634 ACACCCTGCCCCTATGAGC 61.379 63.158 0.00 0.00 0.00 4.26
626 2496 1.274703 ACACACCCTGCCCCTATGAG 61.275 60.000 0.00 0.00 0.00 2.90
627 2497 1.229820 ACACACCCTGCCCCTATGA 60.230 57.895 0.00 0.00 0.00 2.15
628 2498 1.077501 CACACACCCTGCCCCTATG 60.078 63.158 0.00 0.00 0.00 2.23
629 2499 1.541368 ACACACACCCTGCCCCTAT 60.541 57.895 0.00 0.00 0.00 2.57
630 2500 2.122144 ACACACACCCTGCCCCTA 60.122 61.111 0.00 0.00 0.00 3.53
631 2501 3.889692 CACACACACCCTGCCCCT 61.890 66.667 0.00 0.00 0.00 4.79
632 2502 4.204028 ACACACACACCCTGCCCC 62.204 66.667 0.00 0.00 0.00 5.80
633 2503 2.906897 CACACACACACCCTGCCC 60.907 66.667 0.00 0.00 0.00 5.36
634 2504 1.893808 CTCACACACACACCCTGCC 60.894 63.158 0.00 0.00 0.00 4.85
635 2505 0.748005 AACTCACACACACACCCTGC 60.748 55.000 0.00 0.00 0.00 4.85
636 2506 1.299541 GAACTCACACACACACCCTG 58.700 55.000 0.00 0.00 0.00 4.45
637 2507 0.908910 TGAACTCACACACACACCCT 59.091 50.000 0.00 0.00 0.00 4.34
638 2508 1.967319 ATGAACTCACACACACACCC 58.033 50.000 0.00 0.00 0.00 4.61
639 2509 3.067106 CCTATGAACTCACACACACACC 58.933 50.000 0.00 0.00 0.00 4.16
640 2510 3.067106 CCCTATGAACTCACACACACAC 58.933 50.000 0.00 0.00 0.00 3.82
641 2511 2.703536 ACCCTATGAACTCACACACACA 59.296 45.455 0.00 0.00 0.00 3.72
642 2512 3.067106 CACCCTATGAACTCACACACAC 58.933 50.000 0.00 0.00 0.00 3.82
643 2513 2.969262 TCACCCTATGAACTCACACACA 59.031 45.455 0.00 0.00 33.02 3.72
644 2514 3.006967 AGTCACCCTATGAACTCACACAC 59.993 47.826 0.00 0.00 39.72 3.82
645 2515 3.006859 CAGTCACCCTATGAACTCACACA 59.993 47.826 0.00 0.00 39.72 3.72
646 2516 3.006967 ACAGTCACCCTATGAACTCACAC 59.993 47.826 0.00 0.00 39.72 3.82
647 2517 3.239449 ACAGTCACCCTATGAACTCACA 58.761 45.455 0.00 0.00 39.72 3.58
648 2518 3.963428 ACAGTCACCCTATGAACTCAC 57.037 47.619 0.00 0.00 39.72 3.51
649 2519 5.298527 CGTATACAGTCACCCTATGAACTCA 59.701 44.000 3.32 0.00 39.72 3.41
650 2520 5.759963 CGTATACAGTCACCCTATGAACTC 58.240 45.833 3.32 0.00 39.72 3.01
651 2521 4.037684 GCGTATACAGTCACCCTATGAACT 59.962 45.833 3.32 0.00 39.72 3.01
652 2522 4.296690 GCGTATACAGTCACCCTATGAAC 58.703 47.826 3.32 0.00 39.72 3.18
653 2523 3.004002 CGCGTATACAGTCACCCTATGAA 59.996 47.826 0.00 0.00 39.72 2.57
654 2524 2.551032 CGCGTATACAGTCACCCTATGA 59.449 50.000 0.00 0.00 33.79 2.15
655 2525 2.292569 ACGCGTATACAGTCACCCTATG 59.707 50.000 11.67 0.00 0.00 2.23
656 2526 2.292569 CACGCGTATACAGTCACCCTAT 59.707 50.000 13.44 0.00 0.00 2.57
657 2527 1.672363 CACGCGTATACAGTCACCCTA 59.328 52.381 13.44 0.00 0.00 3.53
658 2528 0.454600 CACGCGTATACAGTCACCCT 59.545 55.000 13.44 0.00 0.00 4.34
659 2529 0.171903 ACACGCGTATACAGTCACCC 59.828 55.000 13.44 0.00 0.00 4.61
660 2530 2.159531 TGTACACGCGTATACAGTCACC 60.160 50.000 25.34 0.00 0.00 4.02
661 2531 3.121559 TGTACACGCGTATACAGTCAC 57.878 47.619 25.34 2.33 0.00 3.67
662 2532 3.374678 TCATGTACACGCGTATACAGTCA 59.625 43.478 31.02 16.86 34.88 3.41
663 2533 3.943958 TCATGTACACGCGTATACAGTC 58.056 45.455 31.02 6.25 34.88 3.51
664 2534 3.791122 GCTCATGTACACGCGTATACAGT 60.791 47.826 31.02 18.74 34.88 3.55
665 2535 2.719556 GCTCATGTACACGCGTATACAG 59.280 50.000 31.02 22.83 34.88 2.74
666 2536 2.723209 GCTCATGTACACGCGTATACA 58.277 47.619 30.14 30.14 35.82 2.29
667 2537 1.707117 CGCTCATGTACACGCGTATAC 59.293 52.381 20.36 20.36 40.64 1.47
668 2538 1.922880 GCGCTCATGTACACGCGTATA 60.923 52.381 26.35 0.27 46.56 1.47
669 2539 1.206745 GCGCTCATGTACACGCGTAT 61.207 55.000 26.35 1.77 46.56 3.06
670 2540 1.870458 GCGCTCATGTACACGCGTA 60.870 57.895 26.35 0.00 46.56 4.42
671 2541 3.179265 GCGCTCATGTACACGCGT 61.179 61.111 26.35 5.58 46.56 6.01
674 2544 0.093535 CACAAGCGCTCATGTACACG 59.906 55.000 12.06 0.00 0.00 4.49
680 2550 1.391485 GTACAGACACAAGCGCTCATG 59.609 52.381 12.06 15.18 0.00 3.07
681 2551 1.273606 AGTACAGACACAAGCGCTCAT 59.726 47.619 12.06 0.00 0.00 2.90
682 2552 0.673985 AGTACAGACACAAGCGCTCA 59.326 50.000 12.06 0.00 0.00 4.26
683 2553 1.063806 CAGTACAGACACAAGCGCTC 58.936 55.000 12.06 0.00 0.00 5.03
685 2555 1.391485 CATCAGTACAGACACAAGCGC 59.609 52.381 0.00 0.00 0.00 5.92
687 2557 4.058124 TGAACATCAGTACAGACACAAGC 58.942 43.478 0.00 0.00 0.00 4.01
690 2560 6.993786 TTTTTGAACATCAGTACAGACACA 57.006 33.333 0.00 0.00 0.00 3.72
712 2582 4.810491 AGCAAAATCACAAGCGACATTTTT 59.190 33.333 0.00 0.00 0.00 1.94
713 2583 4.370917 AGCAAAATCACAAGCGACATTTT 58.629 34.783 0.00 0.00 0.00 1.82
716 2586 3.426695 GCTAGCAAAATCACAAGCGACAT 60.427 43.478 10.63 0.00 0.00 3.06
717 2587 2.095768 GCTAGCAAAATCACAAGCGACA 60.096 45.455 10.63 0.00 0.00 4.35
718 2588 2.095768 TGCTAGCAAAATCACAAGCGAC 60.096 45.455 16.84 0.00 32.67 5.19
753 2627 1.334869 GGTGAAGGTGCAAGTTGTCAG 59.665 52.381 4.48 0.00 0.00 3.51
757 2631 1.603678 GCATGGTGAAGGTGCAAGTTG 60.604 52.381 0.00 0.00 38.68 3.16
892 2801 3.823330 GATGCTGTGGCTGGCTGC 61.823 66.667 7.96 7.96 39.59 5.25
893 2802 3.138798 GGATGCTGTGGCTGGCTG 61.139 66.667 2.00 0.00 39.59 4.85
894 2803 3.336568 AGGATGCTGTGGCTGGCT 61.337 61.111 2.00 0.00 39.59 4.75
895 2804 2.827642 GAGGATGCTGTGGCTGGC 60.828 66.667 0.00 0.00 39.59 4.85
899 2808 4.512914 GGGGGAGGATGCTGTGGC 62.513 72.222 0.00 0.00 39.26 5.01
955 2880 1.807573 GCTGTCGCTGCTGTACCTC 60.808 63.158 0.00 0.00 0.00 3.85
956 2881 2.262915 GCTGTCGCTGCTGTACCT 59.737 61.111 0.00 0.00 0.00 3.08
957 2882 3.181967 CGCTGTCGCTGCTGTACC 61.182 66.667 0.00 0.00 0.00 3.34
958 2883 3.181967 CCGCTGTCGCTGCTGTAC 61.182 66.667 0.00 0.00 0.00 2.90
964 2889 3.584250 CTTGTTGCCGCTGTCGCTG 62.584 63.158 0.00 0.00 0.00 5.18
965 2890 3.349006 CTTGTTGCCGCTGTCGCT 61.349 61.111 0.00 0.00 0.00 4.93
966 2891 4.389576 CCTTGTTGCCGCTGTCGC 62.390 66.667 0.00 0.00 0.00 5.19
967 2892 2.250939 TTCCTTGTTGCCGCTGTCG 61.251 57.895 0.00 0.00 0.00 4.35
968 2893 1.282875 GTTCCTTGTTGCCGCTGTC 59.717 57.895 0.00 0.00 0.00 3.51
1359 3290 1.118965 TGGGCTCCTCGTTCTTGTCA 61.119 55.000 0.00 0.00 0.00 3.58
1849 3828 4.725169 GCTGGTTTATTCTTCTTTCGAGCG 60.725 45.833 0.00 0.00 0.00 5.03
1884 3866 6.455360 TGCTCTCATCGCATCATATGTATA 57.545 37.500 1.90 0.00 31.40 1.47
2033 4046 9.691362 AGAAAAGAAAACATAATTAATGCGTGT 57.309 25.926 0.00 0.00 39.39 4.49
2096 4109 5.254115 AGAAGAAAAATAACGGGCTAGCTT 58.746 37.500 15.72 3.64 0.00 3.74
2281 4325 5.744171 AGTGTGCATCCATAATGTCTGTAA 58.256 37.500 0.00 0.00 37.71 2.41
2293 4337 3.071747 TGTTGTAGGTTAGTGTGCATCCA 59.928 43.478 0.00 0.00 0.00 3.41
2380 4453 4.337060 GCGTTCCCGGTGGTTTGC 62.337 66.667 0.00 0.00 33.68 3.68
2467 4575 3.816398 ACCTGAGATCTATGATCGGGA 57.184 47.619 12.50 0.00 41.28 5.14
2494 4602 0.531974 AGCGCGGACTTTTGTTCAGA 60.532 50.000 8.83 0.00 0.00 3.27
2504 4612 1.873698 TTGTTTTAAGAGCGCGGACT 58.126 45.000 8.83 0.00 0.00 3.85
2547 4656 3.508845 ATGACCTTAAGTGGTTGTGCT 57.491 42.857 0.97 0.00 41.00 4.40
2585 4695 8.282982 AGGAGGAGTACATAGTCTTATCTTTCA 58.717 37.037 0.00 0.00 0.00 2.69
2665 4775 1.834263 CTCGAGGGGATGAGGACTTTT 59.166 52.381 3.91 0.00 0.00 2.27
2690 4800 0.729816 GGTCTCGCAACGACAGACTC 60.730 60.000 8.61 0.00 33.57 3.36
2702 4812 3.001736 GCAATTGAGTTATGAGGTCTCGC 59.998 47.826 10.34 0.00 0.00 5.03
2720 4837 2.292267 GTCCGAGAATGTCATGGCAAT 58.708 47.619 3.01 0.00 0.00 3.56
2739 4856 6.820335 TCGATTTCCATGATGAAGATAGTGT 58.180 36.000 0.00 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.