Multiple sequence alignment - TraesCS5A01G087100

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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 TraesCS5A01G087100 chr5A 100.000 3635 0 0 1 3635 116035883 116032249 0.000000e+00 6713.0
1 TraesCS5A01G087100 chr5D 91.523 1852 106 22 28 1861 110792803 110794621 0.000000e+00 2503.0
2 TraesCS5A01G087100 chr5D 94.762 1470 55 9 1865 3318 110794652 110796115 0.000000e+00 2268.0
3 TraesCS5A01G087100 chr5B 88.384 1937 148 34 1 1875 122102816 122100895 0.000000e+00 2259.0
4 TraesCS5A01G087100 chr5B 88.946 1366 104 22 1986 3323 122100780 122099434 0.000000e+00 1642.0
5 TraesCS5A01G087100 chrUn 95.385 130 6 0 1335 1464 58870822 58870693 1.320000e-49 207.0
6 TraesCS5A01G087100 chr4A 94.615 130 7 0 1335 1464 437483907 437483778 6.150000e-48 202.0
7 TraesCS5A01G087100 chr4D 93.846 130 8 0 1335 1464 129776547 129776676 2.860000e-46 196.0
8 TraesCS5A01G087100 chr1B 83.212 137 21 2 1324 1459 659780378 659780243 1.370000e-24 124.0
9 TraesCS5A01G087100 chr1A 82.609 138 22 2 1323 1459 569139386 569139250 1.770000e-23 121.0
10 TraesCS5A01G087100 chr7D 81.897 116 19 2 1345 1459 117245069 117245183 2.990000e-16 97.1
11 TraesCS5A01G087100 chr7B 81.513 119 20 2 1342 1459 77432175 77432292 2.990000e-16 97.1


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 TraesCS5A01G087100 chr5A 116032249 116035883 3634 True 6713.0 6713 100.0000 1 3635 1 chr5A.!!$R1 3634
1 TraesCS5A01G087100 chr5D 110792803 110796115 3312 False 2385.5 2503 93.1425 28 3318 2 chr5D.!!$F1 3290
2 TraesCS5A01G087100 chr5B 122099434 122102816 3382 True 1950.5 2259 88.6650 1 3323 2 chr5B.!!$R1 3322

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
969 1017 0.335361 TTAGTCTCCGCCCCTCTCTT 59.665 55.0 0.0 0.0 0.0 2.85 F
1767 1832 1.211818 GCTGCACGCCTCTTCTATCG 61.212 60.0 0.0 0.0 0.0 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1944 2038 0.104120 TCTCGTTGGAGTGTGTGTGG 59.896 55.0 0.00 0.0 41.26 4.17 R
3425 3570 0.096976 CGATGCACTCGCGGAATTTT 59.903 50.0 6.13 0.0 41.14 1.82 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
56 57 7.592533 CGTGAGCATTTTAGGATTTATTGGATG 59.407 37.037 0.00 0.00 0.00 3.51
58 59 7.784073 TGAGCATTTTAGGATTTATTGGATGGA 59.216 33.333 0.00 0.00 0.00 3.41
75 76 0.822532 GGATGATTCCAGGCAGCTGG 60.823 60.000 17.12 2.74 45.53 4.85
84 85 3.050275 GGCAGCTGGTCGTTCCAC 61.050 66.667 17.12 0.00 41.93 4.02
93 94 2.240230 GTCGTTCCACGGCATTCAA 58.760 52.632 0.00 0.00 46.84 2.69
95 96 1.209127 CGTTCCACGGCATTCAACC 59.791 57.895 0.00 0.00 38.08 3.77
99 101 2.046285 CCACGGCATTCAACCCTCC 61.046 63.158 0.00 0.00 0.00 4.30
134 136 2.412065 GCTTCTCAATTGTCACTGCGTC 60.412 50.000 5.13 0.00 0.00 5.19
227 242 6.633325 TCTGAAGATGAAAAGATTCTCCCT 57.367 37.500 0.00 0.00 36.48 4.20
235 250 2.188818 AAGATTCTCCCTGCCTAGCT 57.811 50.000 0.00 0.00 0.00 3.32
237 252 2.486716 AGATTCTCCCTGCCTAGCTTT 58.513 47.619 0.00 0.00 0.00 3.51
243 258 0.842635 CCCTGCCTAGCTTTCATCCT 59.157 55.000 0.00 0.00 0.00 3.24
259 274 4.347360 CATCCTGGTGATGCTTCTATCA 57.653 45.455 0.88 0.00 44.16 2.15
261 276 5.314529 CATCCTGGTGATGCTTCTATCATT 58.685 41.667 0.88 0.00 44.16 2.57
270 285 7.124901 GGTGATGCTTCTATCATTATAGGAGGA 59.875 40.741 4.67 2.14 43.55 3.71
285 300 1.073923 GGAGGATGTGTGGAGGTTTGT 59.926 52.381 0.00 0.00 0.00 2.83
295 310 3.144285 AGGTTTGTCCTTCGGCGA 58.856 55.556 4.99 4.99 45.67 5.54
305 320 1.067000 TCCTTCGGCGAATTTTACGGA 60.067 47.619 23.96 20.79 0.00 4.69
309 324 4.034279 CCTTCGGCGAATTTTACGGAATTA 59.966 41.667 23.96 0.00 29.75 1.40
312 327 3.000122 CGGCGAATTTTACGGAATTACGA 60.000 43.478 18.96 0.00 37.61 3.43
313 328 4.511734 GGCGAATTTTACGGAATTACGAG 58.488 43.478 18.96 0.00 37.61 4.18
317 332 5.499017 CGAATTTTACGGAATTACGAGCGAA 60.499 40.000 18.96 6.25 37.61 4.70
327 342 6.084277 GGAATTACGAGCGAAATTTGTCTTT 58.916 36.000 0.00 0.00 0.00 2.52
328 343 6.032460 GGAATTACGAGCGAAATTTGTCTTTG 59.968 38.462 0.00 0.00 0.00 2.77
336 351 5.416952 AGCGAAATTTGTCTTTGATGGATCT 59.583 36.000 0.00 0.00 0.00 2.75
338 353 7.284034 AGCGAAATTTGTCTTTGATGGATCTAT 59.716 33.333 0.00 0.00 0.00 1.98
364 379 4.687483 GGATCCAGTTTTCGTTCGTCTTTA 59.313 41.667 6.95 0.00 0.00 1.85
407 422 2.608261 CCCTTTCGATCTATGCGTCTCC 60.608 54.545 0.00 0.00 0.00 3.71
409 424 3.243569 CCTTTCGATCTATGCGTCTCCTT 60.244 47.826 0.00 0.00 0.00 3.36
423 439 0.924090 CTCCTTATCGTCGCAGTTGC 59.076 55.000 0.00 0.00 37.78 4.17
436 452 1.153168 AGTTGCTGTTCAGGTGCGT 60.153 52.632 1.97 0.00 0.00 5.24
438 454 0.592247 GTTGCTGTTCAGGTGCGTTG 60.592 55.000 1.97 0.00 0.00 4.10
442 458 1.831389 CTGTTCAGGTGCGTTGGTCG 61.831 60.000 0.00 0.00 43.12 4.79
455 471 3.416277 CGTTGGTCGCATGTGATTTTAG 58.584 45.455 12.94 1.21 0.00 1.85
509 525 2.166130 TTGCACGGCTTCGATGAGGA 62.166 55.000 1.89 0.00 37.63 3.71
511 527 1.809869 CACGGCTTCGATGAGGAGA 59.190 57.895 1.89 0.00 37.63 3.71
524 540 2.670939 TGAGGAGATGATGATGACGGT 58.329 47.619 0.00 0.00 0.00 4.83
525 541 2.363359 TGAGGAGATGATGATGACGGTG 59.637 50.000 0.00 0.00 0.00 4.94
526 542 1.069823 AGGAGATGATGATGACGGTGC 59.930 52.381 0.00 0.00 0.00 5.01
554 570 0.385223 CGTCTTGCTCAAGTGCTTGC 60.385 55.000 9.20 0.00 40.24 4.01
588 604 4.825634 AGATGGTATGCAAATCTGGATGTG 59.174 41.667 0.00 0.00 34.98 3.21
727 747 0.676782 GGCCTCAATTGTACGGTGCT 60.677 55.000 5.13 0.00 0.00 4.40
751 777 7.095940 GCTCTTGTAGTTGTGAAAATACGTACA 60.096 37.037 0.00 0.00 0.00 2.90
801 832 2.517402 CCCGTCCTCTCTCCCTCG 60.517 72.222 0.00 0.00 0.00 4.63
824 867 1.163420 TTCACCACGTGCGCATTCTT 61.163 50.000 15.91 0.00 32.98 2.52
902 947 4.675671 CGACTTCACTACTTGACATCTCCC 60.676 50.000 0.00 0.00 32.26 4.30
927 972 7.419981 CCTCTCTCATTAATCCAACTCTCCAAT 60.420 40.741 0.00 0.00 0.00 3.16
930 975 8.884124 TCTCATTAATCCAACTCTCCAATTTT 57.116 30.769 0.00 0.00 0.00 1.82
936 981 5.200368 TCCAACTCTCCAATTTTTCAAGC 57.800 39.130 0.00 0.00 0.00 4.01
937 982 4.895297 TCCAACTCTCCAATTTTTCAAGCT 59.105 37.500 0.00 0.00 0.00 3.74
938 983 5.363580 TCCAACTCTCCAATTTTTCAAGCTT 59.636 36.000 0.00 0.00 0.00 3.74
969 1017 0.335361 TTAGTCTCCGCCCCTCTCTT 59.665 55.000 0.00 0.00 0.00 2.85
1088 1136 4.700365 CGACGACGACCTGCTGCA 62.700 66.667 0.00 0.88 42.66 4.41
1102 1150 1.979155 CTGCACCACGAGGAGGAGA 60.979 63.158 11.77 0.00 44.70 3.71
1253 1318 1.452651 CTCCGGCCATGCAGATTGT 60.453 57.895 2.24 0.00 0.00 2.71
1282 1347 7.943079 TCAATTGATTCTTGATTTGAGCCTA 57.057 32.000 3.38 0.00 0.00 3.93
1315 1380 1.884464 CTGACCGTGGATCCATGCG 60.884 63.158 26.18 20.85 0.00 4.73
1510 1575 2.683968 CACACCGTGCATACAGTAGTT 58.316 47.619 0.00 0.00 0.00 2.24
1767 1832 1.211818 GCTGCACGCCTCTTCTATCG 61.212 60.000 0.00 0.00 0.00 2.92
1845 1910 9.906660 ATTGCTTCGTTAGATTTCATGTTTTTA 57.093 25.926 0.00 0.00 0.00 1.52
1945 2039 7.881775 ATTATAGTTCATTTTCTCCACACCC 57.118 36.000 0.00 0.00 0.00 4.61
1957 2063 1.223211 CACACCCACACACACTCCA 59.777 57.895 0.00 0.00 0.00 3.86
1960 2066 1.153249 ACCCACACACACTCCAACG 60.153 57.895 0.00 0.00 0.00 4.10
2029 2147 6.842163 AGGTGTCTTTTGCTAATTAATGTCG 58.158 36.000 0.00 0.00 0.00 4.35
2034 2152 9.906660 TGTCTTTTGCTAATTAATGTCGAAAAT 57.093 25.926 0.00 0.00 0.00 1.82
2052 2170 7.276878 GTCGAAAATTTGTTTTCCTTTTCCTCA 59.723 33.333 7.75 0.00 37.58 3.86
2184 2303 0.546747 TTCCTGGGAGGACCGACAAT 60.547 55.000 0.00 0.00 45.78 2.71
2313 2432 1.151450 CCTTGCTGACCACCACCTT 59.849 57.895 0.00 0.00 0.00 3.50
2331 2450 3.515502 ACCTTCAGCAAGCATCTACAGTA 59.484 43.478 0.00 0.00 0.00 2.74
2354 2473 1.076485 ATCATCTTGTGCCTGGGCC 60.076 57.895 9.28 0.00 41.09 5.80
2409 2528 3.333414 TCGTCGTCCGACTCGTTT 58.667 55.556 16.76 0.00 41.60 3.60
2469 2588 2.560542 GAGCGTGGGAGAGATGATACAT 59.439 50.000 0.00 0.00 0.00 2.29
2515 2634 0.850100 TCAAGGGTTTTGGCCTGAGA 59.150 50.000 3.32 0.00 0.00 3.27
2525 2644 0.843309 TGGCCTGAGACAAACCAGAA 59.157 50.000 3.32 0.00 32.37 3.02
2583 2702 1.249469 AAGGGTTCTCCGAGTCCGAC 61.249 60.000 0.00 0.00 41.52 4.79
2844 2968 3.642141 ACTTTTTGGGTCAGGTGTTCAT 58.358 40.909 0.00 0.00 0.00 2.57
2923 3048 6.564125 GCGCCTGATGTGTAATGTTACTTATC 60.564 42.308 0.00 8.11 34.77 1.75
3165 3290 0.535335 GCTAATGTCCCGTGTGGAGA 59.465 55.000 0.00 0.00 46.38 3.71
3184 3309 4.938226 GGAGAACCGAATTTCACAGAGAAT 59.062 41.667 0.00 0.00 35.83 2.40
3332 3477 9.653287 TTGTATATAACTTATATGCTGCAGGTC 57.347 33.333 17.12 0.00 35.56 3.85
3333 3478 9.035890 TGTATATAACTTATATGCTGCAGGTCT 57.964 33.333 17.12 0.00 35.56 3.85
3334 3479 9.877178 GTATATAACTTATATGCTGCAGGTCTT 57.123 33.333 17.12 0.31 32.91 3.01
3336 3481 5.365021 AACTTATATGCTGCAGGTCTTCT 57.635 39.130 17.12 0.00 0.00 2.85
3337 3482 4.954875 ACTTATATGCTGCAGGTCTTCTC 58.045 43.478 17.12 0.00 0.00 2.87
3338 3483 4.406972 ACTTATATGCTGCAGGTCTTCTCA 59.593 41.667 17.12 2.85 0.00 3.27
3339 3484 3.920231 ATATGCTGCAGGTCTTCTCAA 57.080 42.857 17.12 0.00 0.00 3.02
3340 3485 2.574006 ATGCTGCAGGTCTTCTCAAA 57.426 45.000 17.12 0.00 0.00 2.69
3341 3486 2.346766 TGCTGCAGGTCTTCTCAAAA 57.653 45.000 17.12 0.00 0.00 2.44
3342 3487 2.653726 TGCTGCAGGTCTTCTCAAAAA 58.346 42.857 17.12 0.00 0.00 1.94
3343 3488 2.620115 TGCTGCAGGTCTTCTCAAAAAG 59.380 45.455 17.12 0.00 0.00 2.27
3344 3489 2.606551 GCTGCAGGTCTTCTCAAAAAGC 60.607 50.000 17.12 0.00 0.00 3.51
3345 3490 2.620115 CTGCAGGTCTTCTCAAAAAGCA 59.380 45.455 5.57 0.00 0.00 3.91
3346 3491 3.023119 TGCAGGTCTTCTCAAAAAGCAA 58.977 40.909 0.00 0.00 0.00 3.91
3347 3492 3.446873 TGCAGGTCTTCTCAAAAAGCAAA 59.553 39.130 0.00 0.00 0.00 3.68
3348 3493 4.081752 TGCAGGTCTTCTCAAAAAGCAAAA 60.082 37.500 0.00 0.00 0.00 2.44
3349 3494 4.505556 GCAGGTCTTCTCAAAAAGCAAAAG 59.494 41.667 0.00 0.00 0.00 2.27
3350 3495 5.679638 GCAGGTCTTCTCAAAAAGCAAAAGA 60.680 40.000 0.00 0.00 0.00 2.52
3351 3496 6.332630 CAGGTCTTCTCAAAAAGCAAAAGAA 58.667 36.000 0.00 0.00 0.00 2.52
3352 3497 6.474751 CAGGTCTTCTCAAAAAGCAAAAGAAG 59.525 38.462 4.45 4.45 42.67 2.85
3353 3498 6.378280 AGGTCTTCTCAAAAAGCAAAAGAAGA 59.622 34.615 8.60 8.60 45.83 2.87
3356 3501 8.693542 TCTTCTCAAAAAGCAAAAGAAGAAAG 57.306 30.769 9.92 0.00 45.34 2.62
3357 3502 8.522830 TCTTCTCAAAAAGCAAAAGAAGAAAGA 58.477 29.630 9.92 0.00 45.34 2.52
3358 3503 9.143631 CTTCTCAAAAAGCAAAAGAAGAAAGAA 57.856 29.630 4.78 0.00 43.55 2.52
3359 3504 9.487790 TTCTCAAAAAGCAAAAGAAGAAAGAAA 57.512 25.926 0.00 0.00 0.00 2.52
3360 3505 9.657419 TCTCAAAAAGCAAAAGAAGAAAGAAAT 57.343 25.926 0.00 0.00 0.00 2.17
3435 3580 5.574815 AAAAATCAAGACAAAATTCCGCG 57.425 34.783 0.00 0.00 0.00 6.46
3436 3581 4.497473 AAATCAAGACAAAATTCCGCGA 57.503 36.364 8.23 0.00 0.00 5.87
3437 3582 3.747099 ATCAAGACAAAATTCCGCGAG 57.253 42.857 8.23 0.00 0.00 5.03
3438 3583 2.489971 TCAAGACAAAATTCCGCGAGT 58.510 42.857 8.23 0.00 0.00 4.18
3439 3584 2.223144 TCAAGACAAAATTCCGCGAGTG 59.777 45.455 8.23 0.00 0.00 3.51
3440 3585 0.517316 AGACAAAATTCCGCGAGTGC 59.483 50.000 8.23 0.00 37.91 4.40
3441 3586 0.237235 GACAAAATTCCGCGAGTGCA 59.763 50.000 8.23 0.00 42.97 4.57
3442 3587 0.881118 ACAAAATTCCGCGAGTGCAT 59.119 45.000 8.23 0.00 42.97 3.96
3443 3588 1.135689 ACAAAATTCCGCGAGTGCATC 60.136 47.619 8.23 0.00 42.97 3.91
3458 3603 4.318332 AGTGCATCGGGACATTATATGTG 58.682 43.478 0.00 0.00 45.03 3.21
3465 3610 3.253371 GGACATTATATGTGCGTGCAC 57.747 47.619 17.72 17.72 45.03 4.57
3476 3621 3.857923 GTGCGTGCACAAATTTTCATT 57.142 38.095 19.45 0.00 45.53 2.57
3477 3622 3.533919 GTGCGTGCACAAATTTTCATTG 58.466 40.909 19.45 0.00 45.53 2.82
3478 3623 3.244814 GTGCGTGCACAAATTTTCATTGA 59.755 39.130 19.45 0.00 45.53 2.57
3479 3624 3.867493 TGCGTGCACAAATTTTCATTGAA 59.133 34.783 18.64 0.00 0.00 2.69
3480 3625 4.330894 TGCGTGCACAAATTTTCATTGAAA 59.669 33.333 18.64 7.74 0.00 2.69
3481 3626 5.163824 TGCGTGCACAAATTTTCATTGAAAA 60.164 32.000 22.94 22.94 44.04 2.29
3482 3627 5.736358 GCGTGCACAAATTTTCATTGAAAAA 59.264 32.000 24.11 11.16 43.32 1.94
3483 3628 6.075988 GCGTGCACAAATTTTCATTGAAAAAG 60.076 34.615 24.11 18.99 43.32 2.27
3484 3629 7.178741 CGTGCACAAATTTTCATTGAAAAAGA 58.821 30.769 24.11 6.57 43.32 2.52
3485 3630 7.162385 CGTGCACAAATTTTCATTGAAAAAGAC 59.838 33.333 24.11 15.41 43.32 3.01
3486 3631 7.961827 GTGCACAAATTTTCATTGAAAAAGACA 59.038 29.630 24.11 17.04 43.32 3.41
3487 3632 8.675504 TGCACAAATTTTCATTGAAAAAGACAT 58.324 25.926 24.11 8.48 43.32 3.06
3488 3633 9.505995 GCACAAATTTTCATTGAAAAAGACATT 57.494 25.926 24.11 13.21 43.32 2.71
3537 3682 3.866883 AAAATGCCCCGTGAATAGTTG 57.133 42.857 0.00 0.00 0.00 3.16
3538 3683 2.507407 AATGCCCCGTGAATAGTTGT 57.493 45.000 0.00 0.00 0.00 3.32
3539 3684 3.637911 AATGCCCCGTGAATAGTTGTA 57.362 42.857 0.00 0.00 0.00 2.41
3540 3685 3.637911 ATGCCCCGTGAATAGTTGTAA 57.362 42.857 0.00 0.00 0.00 2.41
3541 3686 2.702261 TGCCCCGTGAATAGTTGTAAC 58.298 47.619 0.00 0.00 0.00 2.50
3542 3687 2.011947 GCCCCGTGAATAGTTGTAACC 58.988 52.381 0.00 0.00 0.00 2.85
3543 3688 2.616001 GCCCCGTGAATAGTTGTAACCA 60.616 50.000 0.00 0.00 0.00 3.67
3544 3689 3.267483 CCCCGTGAATAGTTGTAACCAG 58.733 50.000 0.00 0.00 0.00 4.00
3545 3690 3.267483 CCCGTGAATAGTTGTAACCAGG 58.733 50.000 0.00 0.00 0.00 4.45
3546 3691 2.676342 CCGTGAATAGTTGTAACCAGGC 59.324 50.000 0.00 0.00 0.00 4.85
3547 3692 3.331150 CGTGAATAGTTGTAACCAGGCA 58.669 45.455 0.00 0.00 0.00 4.75
3548 3693 3.938963 CGTGAATAGTTGTAACCAGGCAT 59.061 43.478 0.00 0.00 0.00 4.40
3549 3694 5.113383 CGTGAATAGTTGTAACCAGGCATA 58.887 41.667 0.00 0.00 0.00 3.14
3550 3695 5.583061 CGTGAATAGTTGTAACCAGGCATAA 59.417 40.000 0.00 0.00 0.00 1.90
3551 3696 6.092944 CGTGAATAGTTGTAACCAGGCATAAA 59.907 38.462 0.00 0.00 0.00 1.40
3552 3697 7.361371 CGTGAATAGTTGTAACCAGGCATAAAA 60.361 37.037 0.00 0.00 0.00 1.52
3553 3698 8.301002 GTGAATAGTTGTAACCAGGCATAAAAA 58.699 33.333 0.00 0.00 0.00 1.94
3575 3720 6.921332 AAATTATCGTTTTTACACAAGCCG 57.079 33.333 0.00 0.00 0.00 5.52
3576 3721 2.325509 ATCGTTTTTACACAAGCCGC 57.674 45.000 0.00 0.00 0.00 6.53
3577 3722 1.015109 TCGTTTTTACACAAGCCGCA 58.985 45.000 0.00 0.00 0.00 5.69
3578 3723 1.400846 TCGTTTTTACACAAGCCGCAA 59.599 42.857 0.00 0.00 0.00 4.85
3579 3724 2.159421 TCGTTTTTACACAAGCCGCAAA 60.159 40.909 0.00 0.00 0.00 3.68
3580 3725 2.599082 CGTTTTTACACAAGCCGCAAAA 59.401 40.909 0.00 0.00 0.00 2.44
3581 3726 3.060895 CGTTTTTACACAAGCCGCAAAAA 59.939 39.130 0.00 0.00 0.00 1.94
3600 3745 5.346181 AAAAATGTCCTTTTTCACCGGAA 57.654 34.783 9.46 0.00 42.08 4.30
3601 3746 4.316205 AAATGTCCTTTTTCACCGGAAC 57.684 40.909 9.46 0.00 31.35 3.62
3602 3747 2.721425 TGTCCTTTTTCACCGGAACT 57.279 45.000 9.46 0.00 31.35 3.01
3603 3748 3.007473 TGTCCTTTTTCACCGGAACTT 57.993 42.857 9.46 0.00 31.35 2.66
3604 3749 3.358118 TGTCCTTTTTCACCGGAACTTT 58.642 40.909 9.46 0.00 31.35 2.66
3605 3750 3.129638 TGTCCTTTTTCACCGGAACTTTG 59.870 43.478 9.46 0.00 31.35 2.77
3606 3751 3.129813 GTCCTTTTTCACCGGAACTTTGT 59.870 43.478 9.46 0.00 31.35 2.83
3607 3752 3.129638 TCCTTTTTCACCGGAACTTTGTG 59.870 43.478 9.46 0.00 31.35 3.33
3608 3753 3.119280 CCTTTTTCACCGGAACTTTGTGT 60.119 43.478 9.46 0.00 31.35 3.72
3609 3754 4.096682 CCTTTTTCACCGGAACTTTGTGTA 59.903 41.667 9.46 0.00 31.35 2.90
3610 3755 4.619437 TTTTCACCGGAACTTTGTGTAC 57.381 40.909 9.46 0.00 31.35 2.90
3611 3756 1.855513 TCACCGGAACTTTGTGTACG 58.144 50.000 9.46 0.00 0.00 3.67
3612 3757 0.233848 CACCGGAACTTTGTGTACGC 59.766 55.000 9.46 0.00 0.00 4.42
3613 3758 0.179078 ACCGGAACTTTGTGTACGCA 60.179 50.000 9.46 4.65 0.00 5.24
3614 3759 0.233848 CCGGAACTTTGTGTACGCAC 59.766 55.000 9.03 0.00 45.44 5.34
3626 3771 4.687458 GTGTACGCACATATAAAGTCCG 57.313 45.455 0.39 0.00 44.64 4.79
3627 3772 3.488310 GTGTACGCACATATAAAGTCCGG 59.512 47.826 0.39 0.00 44.64 5.14
3628 3773 3.380954 TGTACGCACATATAAAGTCCGGA 59.619 43.478 0.00 0.00 0.00 5.14
3629 3774 3.746045 ACGCACATATAAAGTCCGGAT 57.254 42.857 7.81 0.00 0.00 4.18
3630 3775 4.067972 ACGCACATATAAAGTCCGGATT 57.932 40.909 7.81 0.00 0.00 3.01
3631 3776 4.056050 ACGCACATATAAAGTCCGGATTC 58.944 43.478 7.81 0.00 0.00 2.52
3632 3777 4.055360 CGCACATATAAAGTCCGGATTCA 58.945 43.478 7.81 0.00 0.00 2.57
3633 3778 4.084537 CGCACATATAAAGTCCGGATTCAC 60.085 45.833 7.81 0.00 0.00 3.18
3634 3779 4.814234 GCACATATAAAGTCCGGATTCACA 59.186 41.667 7.81 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.996788 AGGACATGGAAGAATTTGATGC 57.003 40.909 0.00 0.00 0.00 3.91
9 10 6.884295 TCACGAATAAGGACATGGAAGAATTT 59.116 34.615 0.00 0.00 0.00 1.82
14 15 3.557595 GCTCACGAATAAGGACATGGAAG 59.442 47.826 0.00 0.00 0.00 3.46
56 57 2.716814 CAGCTGCCTGGAATCATCC 58.283 57.895 0.00 0.00 46.76 3.51
84 85 1.815421 CTCGGAGGGTTGAATGCCG 60.815 63.158 0.00 0.00 43.11 5.69
93 94 2.169590 ATCACCACTCCTCGGAGGGT 62.170 60.000 23.39 16.62 43.75 4.34
95 96 1.819229 CATCACCACTCCTCGGAGG 59.181 63.158 18.25 18.25 45.88 4.30
99 101 0.534412 AGAAGCATCACCACTCCTCG 59.466 55.000 0.00 0.00 0.00 4.63
134 136 8.628279 GCATACATTAAATAGAGTCGTTCGTAG 58.372 37.037 0.00 0.00 0.00 3.51
203 217 6.883217 CAGGGAGAATCTTTTCATCTTCAGAA 59.117 38.462 0.00 0.00 34.08 3.02
224 239 0.842635 AGGATGAAAGCTAGGCAGGG 59.157 55.000 0.00 0.00 0.00 4.45
227 242 1.065199 CACCAGGATGAAAGCTAGGCA 60.065 52.381 0.00 0.00 39.69 4.75
243 258 7.093156 CCTCCTATAATGATAGAAGCATCACCA 60.093 40.741 0.00 0.00 37.74 4.17
257 272 4.840680 CCTCCACACATCCTCCTATAATGA 59.159 45.833 0.00 0.00 0.00 2.57
259 274 4.832492 ACCTCCACACATCCTCCTATAAT 58.168 43.478 0.00 0.00 0.00 1.28
261 276 3.993658 ACCTCCACACATCCTCCTATA 57.006 47.619 0.00 0.00 0.00 1.31
285 300 6.139590 TAATTCCGTAAAATTCGCCGAAGGA 61.140 40.000 5.52 2.26 38.90 3.36
295 310 5.783100 TTCGCTCGTAATTCCGTAAAATT 57.217 34.783 0.00 0.00 33.54 1.82
305 320 6.664515 TCAAAGACAAATTTCGCTCGTAATT 58.335 32.000 1.88 1.88 0.00 1.40
309 324 4.466828 CATCAAAGACAAATTTCGCTCGT 58.533 39.130 0.00 0.00 0.00 4.18
312 327 5.416952 AGATCCATCAAAGACAAATTTCGCT 59.583 36.000 0.00 0.00 0.00 4.93
313 328 5.644644 AGATCCATCAAAGACAAATTTCGC 58.355 37.500 0.00 0.00 0.00 4.70
317 332 7.835682 TCCACATAGATCCATCAAAGACAAATT 59.164 33.333 0.00 0.00 0.00 1.82
336 351 3.930229 CGAACGAAAACTGGATCCACATA 59.070 43.478 11.44 0.00 0.00 2.29
338 353 2.139917 CGAACGAAAACTGGATCCACA 58.860 47.619 11.44 0.00 0.00 4.17
347 362 7.123830 CAGACAAATAAAGACGAACGAAAACT 58.876 34.615 0.14 0.00 0.00 2.66
350 365 6.592798 ACAGACAAATAAAGACGAACGAAA 57.407 33.333 0.14 0.00 0.00 3.46
364 379 6.437162 AGGGTGCAATATGTAAACAGACAAAT 59.563 34.615 0.00 0.00 31.83 2.32
384 399 2.128035 GACGCATAGATCGAAAGGGTG 58.872 52.381 6.19 0.00 0.00 4.61
423 439 1.831389 CGACCAACGCACCTGAACAG 61.831 60.000 0.00 0.00 34.51 3.16
436 452 3.485947 GCTAAAATCACATGCGACCAA 57.514 42.857 0.00 0.00 0.00 3.67
442 458 1.456732 GTCGCGCTAAAATCACATGC 58.543 50.000 5.56 0.00 0.00 4.06
457 473 0.039527 AAACATTTGGGAAGCGTCGC 60.040 50.000 9.80 9.80 37.23 5.19
471 487 9.134734 CCGTGCAAATTTTATTACAGTAAACAT 57.865 29.630 0.00 0.00 0.00 2.71
494 510 0.387202 CATCTCCTCATCGAAGCCGT 59.613 55.000 0.00 0.00 37.05 5.68
509 525 0.249615 CGGCACCGTCATCATCATCT 60.250 55.000 0.00 0.00 34.35 2.90
511 527 1.889105 GCGGCACCGTCATCATCAT 60.889 57.895 11.27 0.00 42.09 2.45
537 553 0.949397 CTGCAAGCACTTGAGCAAGA 59.051 50.000 16.47 0.00 42.93 3.02
540 556 0.464193 TGACTGCAAGCACTTGAGCA 60.464 50.000 14.44 5.04 42.93 4.26
669 689 3.265221 AGATGGATGATATGGACCGCATT 59.735 43.478 0.00 0.00 0.00 3.56
727 747 7.096518 CGTGTACGTATTTTCACAACTACAAGA 60.097 37.037 12.74 0.00 34.11 3.02
801 832 2.800746 GCGCACGTGGTGAAATGC 60.801 61.111 18.88 0.00 35.23 3.56
824 867 2.361230 TGAGCGCGAGGGAGAGAA 60.361 61.111 12.10 0.00 0.00 2.87
902 947 6.477053 TGGAGAGTTGGATTAATGAGAGAG 57.523 41.667 0.00 0.00 0.00 3.20
927 972 6.160576 AGCCAGTTTATGAAGCTTGAAAAA 57.839 33.333 2.10 0.00 0.00 1.94
930 975 6.003950 ACTAAGCCAGTTTATGAAGCTTGAA 58.996 36.000 2.10 0.00 43.30 2.69
936 981 4.806247 CGGAGACTAAGCCAGTTTATGAAG 59.194 45.833 0.00 0.00 37.72 3.02
937 982 4.755411 CGGAGACTAAGCCAGTTTATGAA 58.245 43.478 0.00 0.00 37.72 2.57
938 983 3.430374 GCGGAGACTAAGCCAGTTTATGA 60.430 47.826 0.00 0.00 37.72 2.15
969 1017 9.589461 TCTCTTCCTTTTTCTAGTTCTAGAGAA 57.411 33.333 9.12 8.63 33.51 2.87
991 1039 1.134580 CCATGACGCCATGTTCTCTCT 60.135 52.381 10.93 0.00 46.68 3.10
992 1040 1.293924 CCATGACGCCATGTTCTCTC 58.706 55.000 10.93 0.00 46.68 3.20
1088 1136 2.361357 CGGTCTCCTCCTCGTGGT 60.361 66.667 2.99 0.00 34.23 4.16
1182 1230 2.203788 AGGGAGTTCCAGCGGTCA 60.204 61.111 0.00 0.00 38.24 4.02
1184 1232 3.382832 CGAGGGAGTTCCAGCGGT 61.383 66.667 0.00 0.00 38.24 5.68
1253 1318 9.199982 GCTCAAATCAAGAATCAATTGAAAAGA 57.800 29.630 13.09 7.02 39.92 2.52
1282 1347 2.820787 CGGTCAGTTCCTACTTCAGAGT 59.179 50.000 0.00 0.00 39.97 3.24
1293 1358 0.541863 ATGGATCCACGGTCAGTTCC 59.458 55.000 18.99 0.00 0.00 3.62
1331 1396 2.718073 GCTCTTCCCCGTCCGCTTA 61.718 63.158 0.00 0.00 0.00 3.09
1421 1486 0.626382 AGTGGAGGTCGAGGATGAGA 59.374 55.000 0.00 0.00 0.00 3.27
1562 1627 3.452474 GTGCAAGCTAGTCCACATCTAG 58.548 50.000 0.00 0.00 38.22 2.43
1563 1628 2.159240 CGTGCAAGCTAGTCCACATCTA 60.159 50.000 0.00 0.00 0.00 1.98
1944 2038 0.104120 TCTCGTTGGAGTGTGTGTGG 59.896 55.000 0.00 0.00 41.26 4.17
1945 2039 1.202417 ACTCTCGTTGGAGTGTGTGTG 60.202 52.381 7.42 0.00 43.38 3.82
1957 2063 3.982576 AAATTTTCGGCAACTCTCGTT 57.017 38.095 0.00 0.00 0.00 3.85
1960 2066 7.582352 AGTAAGTTAAATTTTCGGCAACTCTC 58.418 34.615 0.00 0.00 0.00 3.20
1992 2110 5.830000 AAAGACACCTTTGTAAGTGGAAC 57.170 39.130 0.00 0.00 40.83 3.62
2003 2121 7.807907 CGACATTAATTAGCAAAAGACACCTTT 59.192 33.333 0.00 0.00 44.00 3.11
2034 2152 5.646577 TTCGTGAGGAAAAGGAAAACAAA 57.353 34.783 0.00 0.00 0.00 2.83
2035 2153 5.646577 TTTCGTGAGGAAAAGGAAAACAA 57.353 34.783 0.00 0.00 41.55 2.83
2047 2165 2.844946 TGCAACATCTTTTCGTGAGGA 58.155 42.857 0.00 0.00 0.00 3.71
2052 2170 9.691362 AACTAATTAATTGCAACATCTTTTCGT 57.309 25.926 11.05 0.00 0.00 3.85
2098 2217 6.625532 AGGAACAAATGCAATTAGGGAAAT 57.374 33.333 0.00 0.00 33.67 2.17
2117 2236 5.787953 TTCATGTGCAAGAATCAAAGGAA 57.212 34.783 0.00 0.00 0.00 3.36
2118 2237 5.279106 CCTTTCATGTGCAAGAATCAAAGGA 60.279 40.000 12.61 0.00 40.71 3.36
2184 2303 5.306937 TGTCCTCCAGTAGTTTTTGATCTCA 59.693 40.000 0.00 0.00 0.00 3.27
2247 2366 3.569194 TCCTTGAACTTGGTGCTGTTA 57.431 42.857 0.00 0.00 0.00 2.41
2313 2432 3.099905 ACCTACTGTAGATGCTTGCTGA 58.900 45.455 16.22 0.00 0.00 4.26
2331 2450 1.064906 CCAGGCACAAGATGATCACCT 60.065 52.381 0.00 0.00 0.00 4.00
2354 2473 0.744414 CTCCATGTAGGCCGTTGGTG 60.744 60.000 13.65 9.15 37.29 4.17
2406 2525 4.083643 CCATCATATGACTCCGATGCAAAC 60.084 45.833 7.78 0.00 35.08 2.93
2409 2528 2.634453 ACCATCATATGACTCCGATGCA 59.366 45.455 7.78 0.00 35.08 3.96
2469 2588 2.576191 CTCTTGAACCCAATCCCCACTA 59.424 50.000 0.00 0.00 0.00 2.74
2515 2634 3.960102 TGAAGCTGGAAATTCTGGTTTGT 59.040 39.130 0.00 0.00 0.00 2.83
2525 2644 2.303022 TCCGAGTCTTGAAGCTGGAAAT 59.697 45.455 0.00 0.00 0.00 2.17
2660 2783 5.442779 CGACCATAAATCGTATATGCACGTG 60.443 44.000 12.28 12.28 42.51 4.49
2821 2945 4.601084 TGAACACCTGACCCAAAAAGTAA 58.399 39.130 0.00 0.00 0.00 2.24
2902 3027 9.770097 ATCCTGATAAGTAACATTACACATCAG 57.230 33.333 23.11 23.11 44.03 2.90
2923 3048 2.789208 CGCTTGTACATTTGCATCCTG 58.211 47.619 13.73 0.00 0.00 3.86
3165 3290 7.064728 GCTAGTTATTCTCTGTGAAATTCGGTT 59.935 37.037 0.00 0.00 38.29 4.44
3318 3463 5.357742 TTTGAGAAGACCTGCAGCATATA 57.642 39.130 8.66 0.00 0.00 0.86
3319 3464 3.920231 TTGAGAAGACCTGCAGCATAT 57.080 42.857 8.66 0.00 0.00 1.78
3320 3465 3.701205 TTTGAGAAGACCTGCAGCATA 57.299 42.857 8.66 0.00 0.00 3.14
3321 3466 2.574006 TTTGAGAAGACCTGCAGCAT 57.426 45.000 8.66 0.00 0.00 3.79
3322 3467 2.346766 TTTTGAGAAGACCTGCAGCA 57.653 45.000 8.66 0.00 0.00 4.41
3323 3468 2.606551 GCTTTTTGAGAAGACCTGCAGC 60.607 50.000 8.66 0.00 0.00 5.25
3324 3469 2.620115 TGCTTTTTGAGAAGACCTGCAG 59.380 45.455 6.78 6.78 0.00 4.41
3325 3470 2.653726 TGCTTTTTGAGAAGACCTGCA 58.346 42.857 0.00 0.00 0.00 4.41
3326 3471 3.715628 TTGCTTTTTGAGAAGACCTGC 57.284 42.857 0.00 0.00 0.00 4.85
3327 3472 5.894807 TCTTTTGCTTTTTGAGAAGACCTG 58.105 37.500 0.00 0.00 0.00 4.00
3328 3473 6.378280 TCTTCTTTTGCTTTTTGAGAAGACCT 59.622 34.615 9.37 0.00 44.25 3.85
3329 3474 6.564328 TCTTCTTTTGCTTTTTGAGAAGACC 58.436 36.000 9.37 0.00 44.25 3.85
3330 3475 8.466086 TTTCTTCTTTTGCTTTTTGAGAAGAC 57.534 30.769 12.21 0.00 46.99 3.01
3331 3476 8.522830 TCTTTCTTCTTTTGCTTTTTGAGAAGA 58.477 29.630 9.37 9.37 46.20 2.87
3332 3477 8.693542 TCTTTCTTCTTTTGCTTTTTGAGAAG 57.306 30.769 5.33 5.33 42.80 2.85
3333 3478 9.487790 TTTCTTTCTTCTTTTGCTTTTTGAGAA 57.512 25.926 0.00 0.00 0.00 2.87
3334 3479 9.657419 ATTTCTTTCTTCTTTTGCTTTTTGAGA 57.343 25.926 0.00 0.00 0.00 3.27
3409 3554 9.019764 CGCGGAATTTTGTCTTGATTTTTATAT 57.980 29.630 0.00 0.00 0.00 0.86
3410 3555 8.237949 TCGCGGAATTTTGTCTTGATTTTTATA 58.762 29.630 6.13 0.00 0.00 0.98
3411 3556 7.087639 TCGCGGAATTTTGTCTTGATTTTTAT 58.912 30.769 6.13 0.00 0.00 1.40
3412 3557 6.439599 TCGCGGAATTTTGTCTTGATTTTTA 58.560 32.000 6.13 0.00 0.00 1.52
3413 3558 5.285651 TCGCGGAATTTTGTCTTGATTTTT 58.714 33.333 6.13 0.00 0.00 1.94
3414 3559 4.865776 TCGCGGAATTTTGTCTTGATTTT 58.134 34.783 6.13 0.00 0.00 1.82
3415 3560 4.023193 ACTCGCGGAATTTTGTCTTGATTT 60.023 37.500 6.13 0.00 0.00 2.17
3416 3561 3.502211 ACTCGCGGAATTTTGTCTTGATT 59.498 39.130 6.13 0.00 0.00 2.57
3417 3562 3.074412 ACTCGCGGAATTTTGTCTTGAT 58.926 40.909 6.13 0.00 0.00 2.57
3418 3563 2.223144 CACTCGCGGAATTTTGTCTTGA 59.777 45.455 6.13 0.00 0.00 3.02
3419 3564 2.574322 CACTCGCGGAATTTTGTCTTG 58.426 47.619 6.13 0.00 0.00 3.02
3420 3565 1.069227 GCACTCGCGGAATTTTGTCTT 60.069 47.619 6.13 0.00 0.00 3.01
3421 3566 0.517316 GCACTCGCGGAATTTTGTCT 59.483 50.000 6.13 0.00 0.00 3.41
3422 3567 0.237235 TGCACTCGCGGAATTTTGTC 59.763 50.000 6.13 0.00 42.97 3.18
3423 3568 0.881118 ATGCACTCGCGGAATTTTGT 59.119 45.000 6.13 0.00 42.97 2.83
3424 3569 1.538276 GATGCACTCGCGGAATTTTG 58.462 50.000 6.13 0.00 42.97 2.44
3425 3570 0.096976 CGATGCACTCGCGGAATTTT 59.903 50.000 6.13 0.00 41.14 1.82
3426 3571 1.715585 CGATGCACTCGCGGAATTT 59.284 52.632 6.13 0.00 41.14 1.82
3427 3572 3.398920 CGATGCACTCGCGGAATT 58.601 55.556 6.13 0.00 41.14 2.17
3432 3577 4.794439 TGTCCCGATGCACTCGCG 62.794 66.667 0.00 0.00 46.25 5.87
3433 3578 0.529773 TAATGTCCCGATGCACTCGC 60.530 55.000 11.51 2.00 46.25 5.03
3434 3579 4.855841 ACATATAATGTCCCGATGCACTCG 60.856 45.833 10.40 10.40 42.78 4.18
3435 3580 4.389992 CACATATAATGTCCCGATGCACTC 59.610 45.833 0.00 0.00 42.70 3.51
3436 3581 4.318332 CACATATAATGTCCCGATGCACT 58.682 43.478 0.00 0.00 42.70 4.40
3437 3582 3.120199 GCACATATAATGTCCCGATGCAC 60.120 47.826 0.00 0.00 42.70 4.57
3438 3583 3.073678 GCACATATAATGTCCCGATGCA 58.926 45.455 0.00 0.00 42.70 3.96
3439 3584 2.094258 CGCACATATAATGTCCCGATGC 59.906 50.000 4.49 0.00 42.70 3.91
3440 3585 3.123453 CACGCACATATAATGTCCCGATG 59.877 47.826 13.37 6.98 42.70 3.84
3441 3586 3.325870 CACGCACATATAATGTCCCGAT 58.674 45.455 13.37 0.77 42.70 4.18
3442 3587 2.749776 CACGCACATATAATGTCCCGA 58.250 47.619 13.37 0.00 42.70 5.14
3443 3588 1.194547 GCACGCACATATAATGTCCCG 59.805 52.381 7.62 7.62 42.70 5.14
3444 3589 2.032030 GTGCACGCACATATAATGTCCC 60.032 50.000 17.03 0.00 45.53 4.46
3445 3590 3.253371 GTGCACGCACATATAATGTCC 57.747 47.619 17.03 0.00 45.53 4.02
3455 3600 9.415370 TTTTCAATGAAAATTTGTGCACGCACA 62.415 33.333 20.42 20.42 43.47 4.57
3456 3601 3.244814 TCAATGAAAATTTGTGCACGCAC 59.755 39.130 15.20 15.20 46.33 5.34
3457 3602 3.451526 TCAATGAAAATTTGTGCACGCA 58.548 36.364 13.13 0.56 0.00 5.24
3458 3603 4.449870 TTCAATGAAAATTTGTGCACGC 57.550 36.364 13.13 0.00 0.00 5.34
3459 3604 7.162385 GTCTTTTTCAATGAAAATTTGTGCACG 59.838 33.333 20.15 0.00 40.50 5.34
3460 3605 7.961827 TGTCTTTTTCAATGAAAATTTGTGCAC 59.038 29.630 20.15 10.75 40.50 4.57
3461 3606 8.037382 TGTCTTTTTCAATGAAAATTTGTGCA 57.963 26.923 20.15 11.42 40.50 4.57
3462 3607 9.505995 AATGTCTTTTTCAATGAAAATTTGTGC 57.494 25.926 20.15 9.44 40.50 4.57
3516 3661 3.576550 ACAACTATTCACGGGGCATTTTT 59.423 39.130 0.00 0.00 0.00 1.94
3517 3662 3.161866 ACAACTATTCACGGGGCATTTT 58.838 40.909 0.00 0.00 0.00 1.82
3518 3663 2.802719 ACAACTATTCACGGGGCATTT 58.197 42.857 0.00 0.00 0.00 2.32
3519 3664 2.507407 ACAACTATTCACGGGGCATT 57.493 45.000 0.00 0.00 0.00 3.56
3520 3665 3.275999 GTTACAACTATTCACGGGGCAT 58.724 45.455 0.00 0.00 0.00 4.40
3521 3666 2.616001 GGTTACAACTATTCACGGGGCA 60.616 50.000 0.00 0.00 0.00 5.36
3522 3667 2.011947 GGTTACAACTATTCACGGGGC 58.988 52.381 0.00 0.00 0.00 5.80
3523 3668 3.267483 CTGGTTACAACTATTCACGGGG 58.733 50.000 0.00 0.00 0.00 5.73
3524 3669 3.267483 CCTGGTTACAACTATTCACGGG 58.733 50.000 0.00 0.00 0.00 5.28
3525 3670 2.676342 GCCTGGTTACAACTATTCACGG 59.324 50.000 0.00 0.00 0.00 4.94
3526 3671 3.331150 TGCCTGGTTACAACTATTCACG 58.669 45.455 0.00 0.00 0.00 4.35
3527 3672 6.995511 TTATGCCTGGTTACAACTATTCAC 57.004 37.500 0.00 0.00 0.00 3.18
3528 3673 8.410673 TTTTTATGCCTGGTTACAACTATTCA 57.589 30.769 0.00 0.00 0.00 2.57
3550 3695 7.567952 GCGGCTTGTGTAAAAACGATAATTTTT 60.568 33.333 0.00 0.00 42.80 1.94
3551 3696 6.129035 GCGGCTTGTGTAAAAACGATAATTTT 60.129 34.615 0.00 0.00 33.13 1.82
3552 3697 5.343860 GCGGCTTGTGTAAAAACGATAATTT 59.656 36.000 0.00 0.00 0.00 1.82
3553 3698 4.854839 GCGGCTTGTGTAAAAACGATAATT 59.145 37.500 0.00 0.00 0.00 1.40
3554 3699 4.083217 TGCGGCTTGTGTAAAAACGATAAT 60.083 37.500 0.00 0.00 0.00 1.28
3555 3700 3.250280 TGCGGCTTGTGTAAAAACGATAA 59.750 39.130 0.00 0.00 0.00 1.75
3556 3701 2.806818 TGCGGCTTGTGTAAAAACGATA 59.193 40.909 0.00 0.00 0.00 2.92
3557 3702 1.604755 TGCGGCTTGTGTAAAAACGAT 59.395 42.857 0.00 0.00 0.00 3.73
3558 3703 1.015109 TGCGGCTTGTGTAAAAACGA 58.985 45.000 0.00 0.00 0.00 3.85
3559 3704 1.828832 TTGCGGCTTGTGTAAAAACG 58.171 45.000 0.00 0.00 0.00 3.60
3560 3705 4.585619 TTTTTGCGGCTTGTGTAAAAAC 57.414 36.364 0.00 0.00 0.00 2.43
3579 3724 4.404394 AGTTCCGGTGAAAAAGGACATTTT 59.596 37.500 0.00 0.00 43.04 1.82
3580 3725 3.958147 AGTTCCGGTGAAAAAGGACATTT 59.042 39.130 0.00 0.00 33.16 2.32
3581 3726 3.562182 AGTTCCGGTGAAAAAGGACATT 58.438 40.909 0.00 0.00 33.16 2.71
3582 3727 3.223674 AGTTCCGGTGAAAAAGGACAT 57.776 42.857 0.00 0.00 33.16 3.06
3583 3728 2.721425 AGTTCCGGTGAAAAAGGACA 57.279 45.000 0.00 0.00 33.16 4.02
3584 3729 3.129813 ACAAAGTTCCGGTGAAAAAGGAC 59.870 43.478 0.00 0.00 33.16 3.85
3585 3730 3.129638 CACAAAGTTCCGGTGAAAAAGGA 59.870 43.478 0.00 0.00 34.52 3.36
3586 3731 3.119280 ACACAAAGTTCCGGTGAAAAAGG 60.119 43.478 0.00 0.00 36.42 3.11
3587 3732 4.104696 ACACAAAGTTCCGGTGAAAAAG 57.895 40.909 0.00 0.00 36.42 2.27
3588 3733 4.437121 CGTACACAAAGTTCCGGTGAAAAA 60.437 41.667 0.00 0.00 36.42 1.94
3589 3734 3.063725 CGTACACAAAGTTCCGGTGAAAA 59.936 43.478 0.00 0.00 36.42 2.29
3590 3735 2.608546 CGTACACAAAGTTCCGGTGAAA 59.391 45.455 0.00 0.00 36.42 2.69
3591 3736 2.203401 CGTACACAAAGTTCCGGTGAA 58.797 47.619 0.00 0.00 36.42 3.18
3592 3737 1.855513 CGTACACAAAGTTCCGGTGA 58.144 50.000 0.00 0.00 36.42 4.02
3593 3738 0.233848 GCGTACACAAAGTTCCGGTG 59.766 55.000 0.00 0.00 38.47 4.94
3594 3739 0.179078 TGCGTACACAAAGTTCCGGT 60.179 50.000 0.00 0.00 0.00 5.28
3595 3740 0.233848 GTGCGTACACAAAGTTCCGG 59.766 55.000 0.00 0.00 46.61 5.14
3596 3741 3.721466 GTGCGTACACAAAGTTCCG 57.279 52.632 0.00 0.00 46.61 4.30
3605 3750 3.488310 CCGGACTTTATATGTGCGTACAC 59.512 47.826 8.99 0.00 45.36 2.90
3606 3751 3.380954 TCCGGACTTTATATGTGCGTACA 59.619 43.478 9.28 9.28 45.36 2.90
3607 3752 3.968649 TCCGGACTTTATATGTGCGTAC 58.031 45.455 0.00 0.00 45.36 3.67
3608 3753 4.859304 ATCCGGACTTTATATGTGCGTA 57.141 40.909 6.12 4.52 45.36 4.42
3609 3754 3.746045 ATCCGGACTTTATATGTGCGT 57.254 42.857 6.12 0.00 45.36 5.24
3610 3755 4.055360 TGAATCCGGACTTTATATGTGCG 58.945 43.478 6.12 11.41 46.15 5.34
3611 3756 4.814234 TGTGAATCCGGACTTTATATGTGC 59.186 41.667 6.12 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.