Multiple sequence alignment - TraesCS4A01G330800

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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 TraesCS4A01G330800 chr4A 100.000 4187 0 0 1 4187 615440255 615436069 0.000000e+00 7733.0
1 TraesCS4A01G330800 chr4A 79.392 1315 229 27 1956 3253 615942382 615941093 0.000000e+00 889.0
2 TraesCS4A01G330800 chr4A 83.824 68 7 4 704 771 734455844 734455781 1.260000e-05 62.1
3 TraesCS4A01G330800 chr5D 91.289 3421 164 58 1 3375 552708322 552711654 0.000000e+00 4543.0
4 TraesCS4A01G330800 chr5D 93.396 212 11 3 3518 3728 552711670 552711879 1.130000e-80 311.0
5 TraesCS4A01G330800 chr5D 92.593 108 8 0 591 698 142126853 142126746 5.600000e-34 156.0
6 TraesCS4A01G330800 chr5D 92.661 109 7 1 591 698 262765979 262765871 5.600000e-34 156.0
7 TraesCS4A01G330800 chr5D 97.222 36 1 0 3796 3831 439263862 439263897 1.260000e-05 62.1
8 TraesCS4A01G330800 chr5B 93.987 1929 64 17 1 1898 697852887 697850980 0.000000e+00 2872.0
9 TraesCS4A01G330800 chr5B 94.875 1444 65 2 1932 3375 697850992 697849558 0.000000e+00 2248.0
10 TraesCS4A01G330800 chr5B 82.921 1253 196 6 1949 3189 698453890 698452644 0.000000e+00 1112.0
11 TraesCS4A01G330800 chr5B 83.737 744 69 30 3458 4179 697849559 697848846 0.000000e+00 656.0
12 TraesCS4A01G330800 chr5B 95.192 104 4 1 3374 3476 612333425 612333528 3.350000e-36 163.0
13 TraesCS4A01G330800 chr3B 75.794 1165 209 34 2010 3133 6639550 6638418 4.800000e-144 521.0
14 TraesCS4A01G330800 chr3A 75.871 1119 203 35 2053 3133 9731485 9730396 3.730000e-140 508.0
15 TraesCS4A01G330800 chrUn 75.986 837 152 20 2010 2820 293072389 293073202 1.830000e-103 387.0
16 TraesCS4A01G330800 chrUn 96.970 99 3 0 3364 3462 15864249 15864347 2.590000e-37 167.0
17 TraesCS4A01G330800 chr1D 100.000 92 0 0 3374 3465 107173677 107173586 2.000000e-38 171.0
18 TraesCS4A01G330800 chr1B 91.803 122 8 2 3366 3486 633615954 633616074 7.200000e-38 169.0
19 TraesCS4A01G330800 chr1B 89.655 58 3 3 3781 3836 45349081 45349025 2.090000e-08 71.3
20 TraesCS4A01G330800 chr1B 89.583 48 5 0 3775 3822 486778087 486778134 1.260000e-05 62.1
21 TraesCS4A01G330800 chr7A 97.917 96 2 0 3367 3462 171552029 171552124 2.590000e-37 167.0
22 TraesCS4A01G330800 chr7A 90.566 106 10 0 593 698 684269266 684269161 1.570000e-29 141.0
23 TraesCS4A01G330800 chr6A 91.200 125 7 3 3374 3497 592530821 592530700 2.590000e-37 167.0
24 TraesCS4A01G330800 chr6A 92.793 111 6 2 3357 3467 369574654 369574546 4.330000e-35 159.0
25 TraesCS4A01G330800 chr6A 81.553 103 11 4 704 804 452332409 452332313 1.250000e-10 78.7
26 TraesCS4A01G330800 chr6A 84.615 65 5 1 706 770 603931326 603931267 4.520000e-05 60.2
27 TraesCS4A01G330800 chr2B 94.444 108 6 0 591 698 324642862 324642755 2.590000e-37 167.0
28 TraesCS4A01G330800 chr2B 94.393 107 4 2 3355 3460 751263556 751263661 3.350000e-36 163.0
29 TraesCS4A01G330800 chr2B 92.500 40 2 1 3795 3834 194690733 194690771 5.850000e-04 56.5
30 TraesCS4A01G330800 chr3D 94.286 105 4 2 3368 3471 410422722 410422619 4.330000e-35 159.0
31 TraesCS4A01G330800 chr5A 91.667 108 9 0 591 698 174460179 174460072 2.610000e-32 150.0
32 TraesCS4A01G330800 chr6B 89.815 108 8 1 591 698 274873835 274873731 7.300000e-28 135.0
33 TraesCS4A01G330800 chr6B 80.198 101 11 5 706 804 34000525 34000432 2.700000e-07 67.6
34 TraesCS4A01G330800 chr6B 97.059 34 1 0 3794 3827 183670672 183670639 1.630000e-04 58.4
35 TraesCS4A01G330800 chr4D 88.889 108 12 0 591 698 220168520 220168627 2.630000e-27 134.0
36 TraesCS4A01G330800 chr6D 93.478 46 3 0 3780 3825 100387679 100387634 7.510000e-08 69.4
37 TraesCS4A01G330800 chr6D 85.294 68 8 2 706 773 458145762 458145697 7.510000e-08 69.4
38 TraesCS4A01G330800 chr6D 85.294 68 7 3 706 773 458224955 458224891 2.700000e-07 67.6
39 TraesCS4A01G330800 chr6D 84.848 66 8 2 706 771 458171970 458171907 9.720000e-07 65.8
40 TraesCS4A01G330800 chr6D 93.023 43 2 1 3796 3837 161269110 161269152 1.260000e-05 62.1
41 TraesCS4A01G330800 chr6D 100.000 29 0 0 3801 3829 386438380 386438408 2.000000e-03 54.7


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 TraesCS4A01G330800 chr4A 615436069 615440255 4186 True 7733.000000 7733 100.000000 1 4187 1 chr4A.!!$R1 4186
1 TraesCS4A01G330800 chr4A 615941093 615942382 1289 True 889.000000 889 79.392000 1956 3253 1 chr4A.!!$R2 1297
2 TraesCS4A01G330800 chr5D 552708322 552711879 3557 False 2427.000000 4543 92.342500 1 3728 2 chr5D.!!$F2 3727
3 TraesCS4A01G330800 chr5B 697848846 697852887 4041 True 1925.333333 2872 90.866333 1 4179 3 chr5B.!!$R2 4178
4 TraesCS4A01G330800 chr5B 698452644 698453890 1246 True 1112.000000 1112 82.921000 1949 3189 1 chr5B.!!$R1 1240
5 TraesCS4A01G330800 chr3B 6638418 6639550 1132 True 521.000000 521 75.794000 2010 3133 1 chr3B.!!$R1 1123
6 TraesCS4A01G330800 chr3A 9730396 9731485 1089 True 508.000000 508 75.871000 2053 3133 1 chr3A.!!$R1 1080
7 TraesCS4A01G330800 chrUn 293072389 293073202 813 False 387.000000 387 75.986000 2010 2820 1 chrUn.!!$F2 810

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
531 534 1.452145 GACCGCCAACACCAACACAT 61.452 55.000 0.0 0.0 0.0 3.21 F
1232 1243 0.773644 ACAACCCACAAGAGCTGGAT 59.226 50.000 0.0 0.0 0.0 3.41 F
1233 1244 1.145738 ACAACCCACAAGAGCTGGATT 59.854 47.619 0.0 0.0 0.0 3.01 F
2778 2862 1.475280 CATCTCGACCGTAAACCAGGA 59.525 52.381 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2023 2074 1.079197 TGGCCAGTATGCACGTCAG 60.079 57.895 0.00 0.0 31.97 3.51 R
2778 2862 0.814410 CGCTGATGATGGAGCTGCTT 60.814 55.000 6.82 0.0 33.06 3.91 R
2827 2911 2.358957 CATTGCACCGAGGAAGATGAA 58.641 47.619 0.00 0.0 0.00 2.57 R
4034 4171 2.573009 TGGATGCAGAGGAACAATCTGA 59.427 45.455 7.13 0.0 45.80 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
37 38 6.952773 TCAGGTGTTACTACAAAGCAATTT 57.047 33.333 0.00 0.00 35.69 1.82
66 67 5.772672 AGAACCGTCTATGATCTAGAGCATT 59.227 40.000 27.14 9.48 38.52 3.56
360 363 5.970317 TGAATTTTCATCTGTGATGCACT 57.030 34.783 0.00 0.00 33.56 4.40
386 389 4.523558 AGGTCCTATCTGTTATACGAAGGC 59.476 45.833 0.00 0.00 0.00 4.35
387 390 4.523558 GGTCCTATCTGTTATACGAAGGCT 59.476 45.833 0.00 0.00 0.00 4.58
528 531 1.821759 CAGACCGCCAACACCAACA 60.822 57.895 0.00 0.00 0.00 3.33
531 534 1.452145 GACCGCCAACACCAACACAT 61.452 55.000 0.00 0.00 0.00 3.21
546 549 2.833794 ACACATACACAAGAACACGCT 58.166 42.857 0.00 0.00 0.00 5.07
579 582 4.741321 TTACGGTCCCCATGTAAGTAAG 57.259 45.455 0.00 0.00 0.00 2.34
840 843 5.824624 TGGATCATGTAGGAATCTTTTGCTC 59.175 40.000 0.00 0.00 34.97 4.26
888 891 5.049129 GGCTATCAATGATGAGTTTGCTACC 60.049 44.000 5.91 0.00 39.39 3.18
889 892 5.528690 GCTATCAATGATGAGTTTGCTACCA 59.471 40.000 5.91 0.00 39.39 3.25
890 893 6.206243 GCTATCAATGATGAGTTTGCTACCAT 59.794 38.462 5.91 0.00 39.39 3.55
891 894 7.255381 GCTATCAATGATGAGTTTGCTACCATT 60.255 37.037 5.91 0.00 39.39 3.16
892 895 6.198650 TCAATGATGAGTTTGCTACCATTG 57.801 37.500 0.00 0.00 0.00 2.82
921 929 2.426024 GTGCCAGGTTAGATCGACTACA 59.574 50.000 0.00 0.00 0.00 2.74
1059 1067 1.561542 CCTCTAGTGCCACCAGGATTT 59.438 52.381 0.00 0.00 36.89 2.17
1232 1243 0.773644 ACAACCCACAAGAGCTGGAT 59.226 50.000 0.00 0.00 0.00 3.41
1233 1244 1.145738 ACAACCCACAAGAGCTGGATT 59.854 47.619 0.00 0.00 0.00 3.01
1359 1370 8.677300 GCTTTCATTCATTGAGTTTGACCTATA 58.323 33.333 0.00 0.00 35.27 1.31
1528 1539 7.308229 ATTTGCACAAAAAGTTGCAAACAAGTA 60.308 29.630 20.53 1.94 46.55 2.24
1600 1611 4.098044 GCTACCTACTCTATGTGTTGCAGA 59.902 45.833 0.00 0.00 0.00 4.26
1685 1703 1.537397 AACAGAGAGGCAGCTCCCA 60.537 57.895 0.00 0.00 35.49 4.37
1693 1719 4.284550 GCAGCTCCCACCACCCAA 62.285 66.667 0.00 0.00 0.00 4.12
1738 1780 5.053145 CAGCAGAGACCCACTGTATAATTC 58.947 45.833 0.00 0.00 37.64 2.17
2245 2320 5.233083 TGTCCAGATTTTCAGAGACACAT 57.767 39.130 0.00 0.00 29.75 3.21
2259 2334 4.454847 AGAGACACATTCATTCTTGTGCTG 59.545 41.667 3.13 0.00 45.59 4.41
2307 2382 2.359107 TTGAGCTTCGCCTGGCTG 60.359 61.111 17.92 10.52 39.05 4.85
2760 2844 1.558756 CTTCTCTGGTTCAGCCTCCAT 59.441 52.381 0.00 0.00 38.35 3.41
2778 2862 1.475280 CATCTCGACCGTAAACCAGGA 59.525 52.381 0.00 0.00 0.00 3.86
2827 2911 6.478512 AGTTGAAACCACACATAAATTGGT 57.521 33.333 0.00 0.00 45.95 3.67
3161 3254 8.714179 TGCAACGGTTATATATGTTAGTAATGC 58.286 33.333 0.00 0.00 0.00 3.56
3216 3309 6.348498 TGATCTTGTTGTGTACCATATCCAG 58.652 40.000 0.00 0.00 0.00 3.86
3263 3357 1.937562 GCGGTGCTGTATGTGTGTGTA 60.938 52.381 0.00 0.00 0.00 2.90
3287 3381 9.471084 GTACACTGTACATACATGCATACATAA 57.529 33.333 13.54 0.00 35.36 1.90
3289 3383 9.559732 ACACTGTACATACATGCATACATAATT 57.440 29.630 0.00 0.00 35.36 1.40
3337 3431 6.000840 TGTCAGTTTGCATGTTAATACTGGA 58.999 36.000 16.70 8.99 35.06 3.86
3375 3469 7.222224 ACACGCATCAATTAGCTAGTTAGTTAC 59.778 37.037 0.61 0.00 0.00 2.50
3376 3470 7.435488 CACGCATCAATTAGCTAGTTAGTTACT 59.565 37.037 0.61 0.00 41.04 2.24
3377 3471 7.648510 ACGCATCAATTAGCTAGTTAGTTACTC 59.351 37.037 0.61 0.00 38.33 2.59
3378 3472 7.115095 CGCATCAATTAGCTAGTTAGTTACTCC 59.885 40.741 0.61 0.00 38.33 3.85
3379 3473 7.385478 GCATCAATTAGCTAGTTAGTTACTCCC 59.615 40.741 0.61 0.00 38.33 4.30
3380 3474 8.643324 CATCAATTAGCTAGTTAGTTACTCCCT 58.357 37.037 0.61 0.00 38.33 4.20
3381 3475 8.235359 TCAATTAGCTAGTTAGTTACTCCCTC 57.765 38.462 0.61 0.00 38.33 4.30
3382 3476 7.287235 TCAATTAGCTAGTTAGTTACTCCCTCC 59.713 40.741 0.61 0.00 38.33 4.30
3383 3477 3.553904 AGCTAGTTAGTTACTCCCTCCG 58.446 50.000 0.00 0.00 38.33 4.63
3384 3478 3.053768 AGCTAGTTAGTTACTCCCTCCGT 60.054 47.826 0.00 0.00 38.33 4.69
3385 3479 3.698539 GCTAGTTAGTTACTCCCTCCGTT 59.301 47.826 0.00 0.00 38.33 4.44
3386 3480 4.202000 GCTAGTTAGTTACTCCCTCCGTTC 60.202 50.000 0.00 0.00 38.33 3.95
3387 3481 3.095332 AGTTAGTTACTCCCTCCGTTCC 58.905 50.000 0.00 0.00 28.23 3.62
3388 3482 2.827921 GTTAGTTACTCCCTCCGTTCCA 59.172 50.000 0.00 0.00 0.00 3.53
3389 3483 2.019807 AGTTACTCCCTCCGTTCCAA 57.980 50.000 0.00 0.00 0.00 3.53
3390 3484 2.332117 AGTTACTCCCTCCGTTCCAAA 58.668 47.619 0.00 0.00 0.00 3.28
3391 3485 2.707257 AGTTACTCCCTCCGTTCCAAAA 59.293 45.455 0.00 0.00 0.00 2.44
3392 3486 3.329814 AGTTACTCCCTCCGTTCCAAAAT 59.670 43.478 0.00 0.00 0.00 1.82
3393 3487 4.533311 AGTTACTCCCTCCGTTCCAAAATA 59.467 41.667 0.00 0.00 0.00 1.40
3394 3488 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
3395 3489 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
3396 3490 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
3397 3491 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
3398 3492 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
3399 3493 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
3400 3494 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
3401 3495 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
3402 3496 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
3403 3497 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
3404 3498 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
3405 3499 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
3406 3500 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
3407 3501 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
3408 3502 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
3409 3503 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
3410 3504 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
3411 3505 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
3412 3506 9.003658 CCAAAATAGATGACTCAACTTTGTACT 57.996 33.333 0.00 0.00 0.00 2.73
3435 3529 7.567458 ACTAACTTTAGTACAAAGTTGGGTCA 58.433 34.615 28.62 17.50 46.38 4.02
3436 3530 8.215736 ACTAACTTTAGTACAAAGTTGGGTCAT 58.784 33.333 28.62 17.19 46.38 3.06
3437 3531 7.506328 AACTTTAGTACAAAGTTGGGTCATC 57.494 36.000 23.48 0.00 45.58 2.92
3438 3532 6.838382 ACTTTAGTACAAAGTTGGGTCATCT 58.162 36.000 14.04 0.00 37.18 2.90
3439 3533 7.970102 ACTTTAGTACAAAGTTGGGTCATCTA 58.030 34.615 14.04 0.00 37.18 1.98
3440 3534 8.603304 ACTTTAGTACAAAGTTGGGTCATCTAT 58.397 33.333 14.04 0.00 37.18 1.98
3441 3535 9.449719 CTTTAGTACAAAGTTGGGTCATCTATT 57.550 33.333 0.00 0.00 0.00 1.73
3442 3536 9.802039 TTTAGTACAAAGTTGGGTCATCTATTT 57.198 29.630 0.00 0.00 0.00 1.40
3443 3537 9.802039 TTAGTACAAAGTTGGGTCATCTATTTT 57.198 29.630 0.00 0.00 0.00 1.82
3444 3538 8.110860 AGTACAAAGTTGGGTCATCTATTTTG 57.889 34.615 0.00 0.00 0.00 2.44
3445 3539 6.345096 ACAAAGTTGGGTCATCTATTTTGG 57.655 37.500 0.00 0.00 0.00 3.28
3446 3540 6.074648 ACAAAGTTGGGTCATCTATTTTGGA 58.925 36.000 0.00 0.00 0.00 3.53
3447 3541 6.553100 ACAAAGTTGGGTCATCTATTTTGGAA 59.447 34.615 0.00 0.00 0.00 3.53
3448 3542 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
3449 3543 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
3450 3544 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
3451 3545 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
3452 3546 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
3453 3547 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
3454 3548 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
3455 3549 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
3456 3550 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
3457 3551 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
3458 3552 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
3462 3556 1.553706 TGGAACGGAGGGAGTAGTTC 58.446 55.000 0.00 0.00 41.40 3.01
3490 3584 7.379098 AGGAACAAGCAATTTAGCTAACTAC 57.621 36.000 5.45 0.00 45.89 2.73
3491 3585 7.168905 AGGAACAAGCAATTTAGCTAACTACT 58.831 34.615 5.45 0.00 45.89 2.57
3492 3586 8.319146 AGGAACAAGCAATTTAGCTAACTACTA 58.681 33.333 5.45 0.00 45.89 1.82
3493 3587 8.604890 GGAACAAGCAATTTAGCTAACTACTAG 58.395 37.037 5.45 0.00 45.89 2.57
3514 3608 4.274147 AGCTAGTGCATGTAGTCTGTACT 58.726 43.478 0.00 0.06 41.53 2.73
3515 3609 4.707448 AGCTAGTGCATGTAGTCTGTACTT 59.293 41.667 0.00 0.00 39.72 2.24
3532 3626 7.170998 GTCTGTACTTTACTAGTGTTGCATGTT 59.829 37.037 5.39 0.00 37.73 2.71
3574 3668 5.063204 AGTACTTGTACATGTTGCATGTGT 58.937 37.500 18.38 13.81 33.76 3.72
3655 3759 6.870439 TGCTAAGCTAGTTATGTATGCATCTG 59.130 38.462 0.19 0.00 36.58 2.90
3734 3838 7.921786 TCAAGAATAAAACACACTATCCTGG 57.078 36.000 0.00 0.00 0.00 4.45
3735 3839 6.374333 TCAAGAATAAAACACACTATCCTGGC 59.626 38.462 0.00 0.00 0.00 4.85
3736 3840 5.193679 AGAATAAAACACACTATCCTGGCC 58.806 41.667 0.00 0.00 0.00 5.36
3737 3841 4.862641 ATAAAACACACTATCCTGGCCT 57.137 40.909 3.32 0.00 0.00 5.19
3738 3842 2.789409 AAACACACTATCCTGGCCTC 57.211 50.000 3.32 0.00 0.00 4.70
3739 3843 0.912486 AACACACTATCCTGGCCTCC 59.088 55.000 3.32 0.00 0.00 4.30
3740 3844 0.043334 ACACACTATCCTGGCCTCCT 59.957 55.000 3.32 0.00 0.00 3.69
3741 3845 1.207791 CACACTATCCTGGCCTCCTT 58.792 55.000 3.32 0.00 0.00 3.36
3742 3846 1.561542 CACACTATCCTGGCCTCCTTT 59.438 52.381 3.32 0.00 0.00 3.11
3743 3847 2.771943 CACACTATCCTGGCCTCCTTTA 59.228 50.000 3.32 0.00 0.00 1.85
3744 3848 3.199946 CACACTATCCTGGCCTCCTTTAA 59.800 47.826 3.32 0.00 0.00 1.52
3745 3849 4.047883 ACACTATCCTGGCCTCCTTTAAT 58.952 43.478 3.32 0.00 0.00 1.40
3746 3850 5.071788 CACACTATCCTGGCCTCCTTTAATA 59.928 44.000 3.32 0.00 0.00 0.98
3747 3851 5.308237 ACACTATCCTGGCCTCCTTTAATAG 59.692 44.000 3.32 4.54 0.00 1.73
3748 3852 5.308237 CACTATCCTGGCCTCCTTTAATAGT 59.692 44.000 3.32 5.15 0.00 2.12
3749 3853 5.911766 ACTATCCTGGCCTCCTTTAATAGTT 59.088 40.000 3.32 0.00 0.00 2.24
3750 3854 5.734031 ATCCTGGCCTCCTTTAATAGTTT 57.266 39.130 3.32 0.00 0.00 2.66
3751 3855 5.530176 TCCTGGCCTCCTTTAATAGTTTT 57.470 39.130 3.32 0.00 0.00 2.43
3752 3856 5.899278 TCCTGGCCTCCTTTAATAGTTTTT 58.101 37.500 3.32 0.00 0.00 1.94
3783 3887 6.037830 GCGAGTATGCCTCCTTTAATTGTTTA 59.962 38.462 0.00 0.00 36.82 2.01
3790 3894 8.996024 TGCCTCCTTTAATTGTTTATTTAAGC 57.004 30.769 0.00 0.00 33.55 3.09
3805 3909 7.908827 TTATTTAAGCATTGACCGTAGAACA 57.091 32.000 0.00 0.00 0.00 3.18
3865 4000 4.285863 ACAGGTTCAACCAATTCCTTTCA 58.714 39.130 9.90 0.00 41.95 2.69
3885 4020 7.280652 CCTTTCATTGGAAACATCAAAAACTGT 59.719 33.333 0.00 0.00 42.32 3.55
3886 4021 7.536895 TTCATTGGAAACATCAAAAACTGTG 57.463 32.000 0.00 0.00 42.32 3.66
3893 4028 6.183360 GGAAACATCAAAAACTGTGGGAACTA 60.183 38.462 0.00 0.00 0.00 2.24
3895 4030 5.690865 ACATCAAAAACTGTGGGAACTAGA 58.309 37.500 0.00 0.00 0.00 2.43
3907 4042 4.930405 GTGGGAACTAGAAGTGCTAAACTC 59.070 45.833 0.00 0.00 38.56 3.01
3914 4049 6.326375 ACTAGAAGTGCTAAACTCGAAGATG 58.674 40.000 0.00 0.00 38.56 2.90
3917 4052 3.851098 AGTGCTAAACTCGAAGATGGAC 58.149 45.455 0.00 0.00 31.64 4.02
3922 4057 4.620803 GCTAAACTCGAAGATGGACCTCAA 60.621 45.833 0.00 0.00 33.89 3.02
3941 4076 9.442047 GACCTCAATCCAACTATAGATAATTGG 57.558 37.037 6.78 9.90 42.55 3.16
3976 4111 5.244851 GTCTTACTCTATGGCTCATGATCCA 59.755 44.000 20.08 20.08 36.70 3.41
4021 4157 2.040278 TCCATTGAGAAGGTTGGGTCTG 59.960 50.000 0.00 0.00 0.00 3.51
4034 4171 9.190317 GAAGGTTGGGTCTGATATTAGAAAAAT 57.810 33.333 0.00 0.00 0.00 1.82
4057 4194 3.377485 CAGATTGTTCCTCTGCATCCAAG 59.623 47.826 0.00 0.00 34.24 3.61
4065 4202 3.135348 TCCTCTGCATCCAAGTATTCCAG 59.865 47.826 0.00 0.00 0.00 3.86
4069 4206 2.025981 TGCATCCAAGTATTCCAGCAGT 60.026 45.455 0.00 0.00 0.00 4.40
4070 4207 3.019564 GCATCCAAGTATTCCAGCAGTT 58.980 45.455 0.00 0.00 0.00 3.16
4074 4211 5.692115 TCCAAGTATTCCAGCAGTTCATA 57.308 39.130 0.00 0.00 0.00 2.15
4075 4212 6.061022 TCCAAGTATTCCAGCAGTTCATAA 57.939 37.500 0.00 0.00 0.00 1.90
4076 4213 6.662755 TCCAAGTATTCCAGCAGTTCATAAT 58.337 36.000 0.00 0.00 0.00 1.28
4077 4214 7.118723 TCCAAGTATTCCAGCAGTTCATAATT 58.881 34.615 0.00 0.00 0.00 1.40
4078 4215 8.271458 TCCAAGTATTCCAGCAGTTCATAATTA 58.729 33.333 0.00 0.00 0.00 1.40
4079 4216 8.902806 CCAAGTATTCCAGCAGTTCATAATTAA 58.097 33.333 0.00 0.00 0.00 1.40
4117 4254 0.321919 TGGAGGCAAAGCAGTAGCAG 60.322 55.000 0.00 0.00 45.49 4.24
4127 4264 1.876156 AGCAGTAGCAGCAAGTTGAAC 59.124 47.619 7.16 0.00 45.49 3.18
4142 4279 6.605849 CAAGTTGAACATCAGTGATAACAGG 58.394 40.000 15.52 3.28 0.00 4.00
4153 4290 6.175471 TCAGTGATAACAGGAGTACTTCGTA 58.825 40.000 0.00 0.00 0.00 3.43
4169 4306 8.472413 AGTACTTCGTATTCTGTTGGCTATAAA 58.528 33.333 0.00 0.00 0.00 1.40
4170 4307 9.257651 GTACTTCGTATTCTGTTGGCTATAAAT 57.742 33.333 0.00 0.00 0.00 1.40
4172 4309 7.226720 ACTTCGTATTCTGTTGGCTATAAATGG 59.773 37.037 0.00 0.00 0.00 3.16
4174 4311 7.276658 TCGTATTCTGTTGGCTATAAATGGAA 58.723 34.615 0.00 0.00 0.00 3.53
4175 4312 7.936847 TCGTATTCTGTTGGCTATAAATGGAAT 59.063 33.333 0.00 0.00 0.00 3.01
4178 4315 5.385198 TCTGTTGGCTATAAATGGAATCCC 58.615 41.667 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 7.549842 GCTCTAGATCATAGACGGTTCTACATA 59.450 40.741 0.00 0.00 37.15 2.29
74 75 7.378181 AGTTTTCAGAACTTTTTCAAGCTTGA 58.622 30.769 25.16 25.16 33.72 3.02
341 344 5.821470 CCTCTAGTGCATCACAGATGAAAAT 59.179 40.000 10.95 0.78 38.69 1.82
360 363 7.166851 CCTTCGTATAACAGATAGGACCTCTA 58.833 42.308 0.00 0.00 0.00 2.43
443 446 3.455910 TCCTCCTGACGATCCATTTTGAT 59.544 43.478 0.00 0.00 0.00 2.57
528 531 2.543848 CACAGCGTGTTCTTGTGTATGT 59.456 45.455 1.24 0.00 0.00 2.29
531 534 1.930503 CACACAGCGTGTTCTTGTGTA 59.069 47.619 10.87 0.00 45.08 2.90
546 549 2.806608 GACCGTAAAGTCCTCACACA 57.193 50.000 0.00 0.00 0.00 3.72
665 668 1.358787 AGTCCCCATGCAAGAAATGGA 59.641 47.619 4.81 0.00 46.44 3.41
733 736 7.722795 TTTACTCGCATATGCATAGCTTTAA 57.277 32.000 26.52 13.94 42.21 1.52
734 737 7.722795 TTTTACTCGCATATGCATAGCTTTA 57.277 32.000 26.52 9.42 42.21 1.85
735 738 6.618287 TTTTACTCGCATATGCATAGCTTT 57.382 33.333 26.52 10.29 42.21 3.51
736 739 6.618287 TTTTTACTCGCATATGCATAGCTT 57.382 33.333 26.52 10.91 42.21 3.74
840 843 3.425193 TGCATTAATCACATCGTCGATCG 59.575 43.478 9.36 9.36 41.41 3.69
849 852 4.989277 TGATAGCCCTGCATTAATCACAT 58.011 39.130 0.00 0.00 0.00 3.21
851 854 5.474532 TCATTGATAGCCCTGCATTAATCAC 59.525 40.000 0.00 0.00 0.00 3.06
892 895 0.171903 CTAACCTGGCACTGCAATGC 59.828 55.000 12.63 12.63 45.34 3.56
921 929 2.046285 GCCAACTTGGTGCGGCTAT 61.046 57.895 9.63 0.00 40.46 2.97
1015 1023 1.284982 ACATCGCGTGACTTGACTGC 61.285 55.000 5.77 0.00 0.00 4.40
1232 1243 1.527380 GGTCGTTGCAACCTCCCAA 60.527 57.895 23.42 0.06 33.78 4.12
1233 1244 2.112297 GGTCGTTGCAACCTCCCA 59.888 61.111 23.42 0.06 33.78 4.37
1707 1733 2.363172 GGTCTCTGCTGGAGGGGTC 61.363 68.421 0.00 0.00 42.10 4.46
1708 1734 2.284995 GGTCTCTGCTGGAGGGGT 60.285 66.667 0.00 0.00 42.10 4.95
1710 1736 2.284921 TGGGTCTCTGCTGGAGGG 60.285 66.667 0.00 0.00 42.10 4.30
2023 2074 1.079197 TGGCCAGTATGCACGTCAG 60.079 57.895 0.00 0.00 31.97 3.51
2033 2084 1.272480 TGACTAGACAGCTGGCCAGTA 60.272 52.381 32.81 16.34 0.00 2.74
2245 2320 5.291858 CGTAAGCTATCAGCACAAGAATGAA 59.708 40.000 0.38 0.00 45.56 2.57
2259 2334 7.591165 TGTCCACTAATATCACGTAAGCTATC 58.409 38.462 0.00 0.00 45.62 2.08
2307 2382 1.613836 CTATGGCAGGAAAGATGGCC 58.386 55.000 0.00 0.00 46.58 5.36
2760 2844 1.542915 CTTCCTGGTTTACGGTCGAGA 59.457 52.381 0.00 0.00 0.00 4.04
2778 2862 0.814410 CGCTGATGATGGAGCTGCTT 60.814 55.000 6.82 0.00 33.06 3.91
2827 2911 2.358957 CATTGCACCGAGGAAGATGAA 58.641 47.619 0.00 0.00 0.00 2.57
2954 3038 3.600388 AGCATGAACACAAGGTAGTAGC 58.400 45.455 0.00 0.00 0.00 3.58
3216 3309 8.157183 GTGTATTTTACAAACACAACACAACAC 58.843 33.333 0.00 0.00 42.40 3.32
3263 3357 9.559732 AATTATGTATGCATGTATGTACAGTGT 57.440 29.630 10.16 0.00 39.92 3.55
3276 3370 7.170828 CCGCCGTATATGTAATTATGTATGCAT 59.829 37.037 3.79 3.79 39.03 3.96
3287 3381 3.328382 ACATGCCGCCGTATATGTAAT 57.672 42.857 0.00 0.00 32.41 1.89
3288 3382 2.823924 ACATGCCGCCGTATATGTAA 57.176 45.000 0.00 0.00 32.41 2.41
3289 3383 3.193903 ACATACATGCCGCCGTATATGTA 59.806 43.478 7.46 7.46 39.49 2.29
3290 3384 2.028476 ACATACATGCCGCCGTATATGT 60.028 45.455 0.00 0.00 37.51 2.29
3291 3385 2.348362 CACATACATGCCGCCGTATATG 59.652 50.000 0.00 0.00 0.00 1.78
3292 3386 2.028476 ACACATACATGCCGCCGTATAT 60.028 45.455 0.00 0.00 0.00 0.86
3293 3387 1.341852 ACACATACATGCCGCCGTATA 59.658 47.619 0.00 0.00 0.00 1.47
3294 3388 0.105964 ACACATACATGCCGCCGTAT 59.894 50.000 0.00 0.00 0.00 3.06
3337 3431 2.591715 GCGTGTGCACCCAAGACT 60.592 61.111 15.69 0.00 42.15 3.24
3375 3469 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
3376 3470 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
3377 3471 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
3378 3472 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
3379 3473 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
3380 3474 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
3381 3475 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
3382 3476 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
3383 3477 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
3384 3478 8.463930 ACAAAGTTGAGTCATCTATTTTGGAA 57.536 30.769 14.35 0.00 40.00 3.53
3385 3479 8.999431 GTACAAAGTTGAGTCATCTATTTTGGA 58.001 33.333 14.35 6.88 40.00 3.53
3386 3480 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
3409 3503 8.703743 TGACCCAACTTTGTACTAAAGTTAGTA 58.296 33.333 23.56 6.81 45.57 1.82
3410 3504 7.567458 TGACCCAACTTTGTACTAAAGTTAGT 58.433 34.615 23.56 22.58 45.57 2.24
3411 3505 8.617290 ATGACCCAACTTTGTACTAAAGTTAG 57.383 34.615 23.56 20.79 45.57 2.34
3412 3506 8.434392 AGATGACCCAACTTTGTACTAAAGTTA 58.566 33.333 23.56 14.79 45.57 2.24
3414 3508 6.838382 AGATGACCCAACTTTGTACTAAAGT 58.162 36.000 14.04 14.04 41.82 2.66
3415 3509 9.449719 AATAGATGACCCAACTTTGTACTAAAG 57.550 33.333 13.08 13.08 0.00 1.85
3416 3510 9.802039 AAATAGATGACCCAACTTTGTACTAAA 57.198 29.630 0.00 0.00 0.00 1.85
3417 3511 9.802039 AAAATAGATGACCCAACTTTGTACTAA 57.198 29.630 0.00 0.00 0.00 2.24
3418 3512 9.226606 CAAAATAGATGACCCAACTTTGTACTA 57.773 33.333 0.00 0.00 0.00 1.82
3419 3513 7.176690 CCAAAATAGATGACCCAACTTTGTACT 59.823 37.037 0.00 0.00 0.00 2.73
3420 3514 7.175990 TCCAAAATAGATGACCCAACTTTGTAC 59.824 37.037 0.00 0.00 0.00 2.90
3421 3515 7.235079 TCCAAAATAGATGACCCAACTTTGTA 58.765 34.615 0.00 0.00 0.00 2.41
3422 3516 6.074648 TCCAAAATAGATGACCCAACTTTGT 58.925 36.000 0.00 0.00 0.00 2.83
3423 3517 6.588719 TCCAAAATAGATGACCCAACTTTG 57.411 37.500 0.00 0.00 0.00 2.77
3424 3518 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
3425 3519 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
3426 3520 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
3427 3521 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
3428 3522 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
3429 3523 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
3430 3524 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
3431 3525 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
3432 3526 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
3433 3527 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
3434 3528 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
3435 3529 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
3436 3530 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
3437 3531 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
3438 3532 4.098894 ACTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
3439 3533 2.910977 ACTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
3440 3534 2.332117 ACTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
3441 3535 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
3442 3536 1.897802 GAACTACTCCCTCCGTTCCAA 59.102 52.381 0.00 0.00 31.89 3.53
3443 3537 1.076677 AGAACTACTCCCTCCGTTCCA 59.923 52.381 0.00 0.00 37.15 3.53
3444 3538 1.477295 CAGAACTACTCCCTCCGTTCC 59.523 57.143 0.00 0.00 37.15 3.62
3445 3539 2.444421 TCAGAACTACTCCCTCCGTTC 58.556 52.381 0.00 0.00 36.81 3.95
3446 3540 2.599408 TCAGAACTACTCCCTCCGTT 57.401 50.000 0.00 0.00 0.00 4.44
3447 3541 2.448453 CTTCAGAACTACTCCCTCCGT 58.552 52.381 0.00 0.00 0.00 4.69
3448 3542 1.751924 CCTTCAGAACTACTCCCTCCG 59.248 57.143 0.00 0.00 0.00 4.63
3449 3543 3.103080 TCCTTCAGAACTACTCCCTCC 57.897 52.381 0.00 0.00 0.00 4.30
3458 3552 8.607562 AGCTAAATTGCTTGTTCCTTCAGAACT 61.608 37.037 7.06 0.00 44.96 3.01
3462 3556 5.382618 AGCTAAATTGCTTGTTCCTTCAG 57.617 39.130 0.00 0.00 40.93 3.02
3490 3584 4.909696 ACAGACTACATGCACTAGCTAG 57.090 45.455 19.44 19.44 42.74 3.42
3491 3585 5.437946 AGTACAGACTACATGCACTAGCTA 58.562 41.667 0.00 0.00 36.35 3.32
3492 3586 4.274147 AGTACAGACTACATGCACTAGCT 58.726 43.478 0.00 0.00 36.35 3.32
3493 3587 4.640789 AGTACAGACTACATGCACTAGC 57.359 45.455 0.00 0.00 36.06 3.42
3494 3588 7.763356 AGTAAAGTACAGACTACATGCACTAG 58.237 38.462 0.00 0.00 33.58 2.57
3495 3589 7.698506 AGTAAAGTACAGACTACATGCACTA 57.301 36.000 0.00 0.00 33.58 2.74
3496 3590 6.591750 AGTAAAGTACAGACTACATGCACT 57.408 37.500 0.00 0.00 33.58 4.40
3497 3591 7.485277 CACTAGTAAAGTACAGACTACATGCAC 59.515 40.741 0.00 0.00 35.76 4.57
3498 3592 7.176165 ACACTAGTAAAGTACAGACTACATGCA 59.824 37.037 0.00 0.00 35.76 3.96
3499 3593 7.536855 ACACTAGTAAAGTACAGACTACATGC 58.463 38.462 0.00 0.00 35.76 4.06
3500 3594 9.343103 CAACACTAGTAAAGTACAGACTACATG 57.657 37.037 0.00 0.00 35.76 3.21
3501 3595 8.027771 GCAACACTAGTAAAGTACAGACTACAT 58.972 37.037 0.00 0.00 35.76 2.29
3514 3608 5.766150 AGCAAACATGCAACACTAGTAAA 57.234 34.783 0.00 0.00 37.25 2.01
3515 3609 5.518812 CAAGCAAACATGCAACACTAGTAA 58.481 37.500 0.00 0.00 37.25 2.24
3546 3640 5.234752 TGCAACATGTACAAGTACTAGGTG 58.765 41.667 3.84 12.19 37.00 4.00
3574 3668 5.067413 CCTCTTTCCAACTATACTAGTCGCA 59.933 44.000 0.00 0.00 38.26 5.10
3710 3814 6.374333 GCCAGGATAGTGTGTTTTATTCTTGA 59.626 38.462 0.00 0.00 0.00 3.02
3717 3821 3.054655 GGAGGCCAGGATAGTGTGTTTTA 60.055 47.826 5.01 0.00 0.00 1.52
3749 3853 4.419522 GAGGCATACTCGCAAAGAAAAA 57.580 40.909 0.00 0.00 36.29 1.94
3764 3868 9.599866 GCTTAAATAAACAATTAAAGGAGGCAT 57.400 29.630 0.00 0.00 0.00 4.40
3783 3887 6.811253 TTGTTCTACGGTCAATGCTTAAAT 57.189 33.333 0.00 0.00 0.00 1.40
3865 4000 5.130145 TCCCACAGTTTTTGATGTTTCCAAT 59.870 36.000 0.00 0.00 0.00 3.16
3885 4020 4.321750 CGAGTTTAGCACTTCTAGTTCCCA 60.322 45.833 0.00 0.00 35.01 4.37
3886 4021 4.082354 TCGAGTTTAGCACTTCTAGTTCCC 60.082 45.833 0.00 0.00 35.01 3.97
3893 4028 4.220821 TCCATCTTCGAGTTTAGCACTTCT 59.779 41.667 0.00 0.00 35.01 2.85
3895 4030 4.246458 GTCCATCTTCGAGTTTAGCACTT 58.754 43.478 0.00 0.00 35.01 3.16
3907 4042 2.988010 TGGATTGAGGTCCATCTTCG 57.012 50.000 0.00 0.00 43.20 3.79
3914 4049 9.442047 CAATTATCTATAGTTGGATTGAGGTCC 57.558 37.037 0.00 0.00 38.81 4.46
3941 4076 7.982354 AGCCATAGAGTAAGACAAGTTACATTC 59.018 37.037 0.00 0.00 35.65 2.67
3945 4080 6.864342 TGAGCCATAGAGTAAGACAAGTTAC 58.136 40.000 0.00 0.00 33.72 2.50
3976 4111 7.121907 GGAAGCTTTTGTTGAAATAGGATCTCT 59.878 37.037 0.00 0.00 0.00 3.10
3985 4120 6.819284 TCTCAATGGAAGCTTTTGTTGAAAT 58.181 32.000 16.75 0.00 0.00 2.17
4034 4171 2.573009 TGGATGCAGAGGAACAATCTGA 59.427 45.455 7.13 0.00 45.80 3.27
4065 4202 9.853921 GCTATTGCAATTTTAATTATGAACTGC 57.146 29.630 18.75 7.97 39.41 4.40
4077 4214 8.632679 CCTCCAGAAATAGCTATTGCAATTTTA 58.367 33.333 23.76 8.31 42.74 1.52
4078 4215 7.495055 CCTCCAGAAATAGCTATTGCAATTTT 58.505 34.615 23.76 11.37 42.74 1.82
4079 4216 6.462067 GCCTCCAGAAATAGCTATTGCAATTT 60.462 38.462 23.76 8.26 42.74 1.82
4080 4217 5.010415 GCCTCCAGAAATAGCTATTGCAATT 59.990 40.000 23.76 7.22 42.74 2.32
4081 4218 4.522022 GCCTCCAGAAATAGCTATTGCAAT 59.478 41.667 23.76 17.56 42.74 3.56
4082 4219 3.885297 GCCTCCAGAAATAGCTATTGCAA 59.115 43.478 23.76 0.00 42.74 4.08
4083 4220 3.117926 TGCCTCCAGAAATAGCTATTGCA 60.118 43.478 23.76 20.04 42.74 4.08
4084 4221 3.480470 TGCCTCCAGAAATAGCTATTGC 58.520 45.455 19.53 17.61 40.05 3.56
4117 4254 6.000891 TGTTATCACTGATGTTCAACTTGC 57.999 37.500 1.42 0.00 0.00 4.01
4127 4264 5.974158 CGAAGTACTCCTGTTATCACTGATG 59.026 44.000 0.00 0.00 0.00 3.07
4153 4290 6.494835 GGGATTCCATTTATAGCCAACAGAAT 59.505 38.462 4.80 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.