Multiple sequence alignment - TraesCS7A01G155700

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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 TraesCS7A01G155700 chr7A 100.000 4583 0 0 1 4583 108749551 108754133 0.000000e+00 8464
1 TraesCS7A01G155700 chr7A 96.000 200 6 2 4385 4583 627506872 627506674 1.590000e-84 324
2 TraesCS7A01G155700 chr7A 95.522 201 7 2 4385 4583 507540494 507540694 2.060000e-83 320
3 TraesCS7A01G155700 chr7D 96.797 3590 82 7 833 4392 104522469 104526055 0.000000e+00 5962
4 TraesCS7A01G155700 chr7D 90.909 88 8 0 677 764 564671219 564671306 8.050000e-23 119
5 TraesCS7A01G155700 chr7B 95.572 3591 113 21 833 4392 62654590 62658165 0.000000e+00 5709
6 TraesCS7A01G155700 chr2A 91.556 675 33 9 1 669 126566450 126567106 0.000000e+00 909
7 TraesCS7A01G155700 chr2A 85.802 162 20 2 3933 4091 741097592 741097431 7.890000e-38 169
8 TraesCS7A01G155700 chr2A 85.276 163 21 2 3932 4091 741227915 741227753 1.020000e-36 165
9 TraesCS7A01G155700 chr2A 87.912 91 9 2 673 762 735690169 735690080 6.270000e-19 106
10 TraesCS7A01G155700 chr5A 92.403 566 33 6 1 561 642139317 642138757 0.000000e+00 798
11 TraesCS7A01G155700 chr5A 91.304 437 29 5 1 433 30771425 30770994 5.110000e-164 588
12 TraesCS7A01G155700 chr6A 93.673 490 28 2 179 667 203219155 203218668 0.000000e+00 730
13 TraesCS7A01G155700 chr6A 97.409 193 5 0 4391 4583 376475037 376474845 3.420000e-86 329
14 TraesCS7A01G155700 chr6A 96.429 196 7 0 4388 4583 584924496 584924301 1.590000e-84 324
15 TraesCS7A01G155700 chr6A 95.500 200 8 1 4385 4583 561345262 561345461 7.400000e-83 318
16 TraesCS7A01G155700 chr5B 91.304 437 29 5 1 433 271163586 271164017 5.110000e-164 588
17 TraesCS7A01G155700 chr5B 85.279 394 39 11 290 669 447268264 447267876 5.560000e-104 388
18 TraesCS7A01G155700 chr5B 92.549 255 9 5 425 671 441101040 441100788 1.570000e-94 357
19 TraesCS7A01G155700 chr5B 92.531 241 13 2 11 249 441102940 441102703 1.580000e-89 340
20 TraesCS7A01G155700 chr5B 86.559 186 18 6 234 416 441101186 441101005 1.010000e-46 198
21 TraesCS7A01G155700 chr5B 91.358 81 4 2 677 754 17725205 17725285 1.740000e-19 108
22 TraesCS7A01G155700 chr2B 90.601 383 27 6 289 669 64998214 64997839 2.460000e-137 499
23 TraesCS7A01G155700 chr2B 89.447 199 17 2 93 287 64999414 64999216 9.850000e-62 248
24 TraesCS7A01G155700 chr1D 93.884 327 17 3 141 466 472420493 472420169 1.480000e-134 490
25 TraesCS7A01G155700 chr1D 84.874 357 29 9 292 628 369912202 369912553 2.040000e-88 337
26 TraesCS7A01G155700 chr1D 92.466 146 4 3 1 142 472420717 472420575 7.770000e-48 202
27 TraesCS7A01G155700 chr6B 85.787 394 36 9 290 669 62389364 62388977 2.570000e-107 399
28 TraesCS7A01G155700 chr6B 85.025 394 39 9 290 669 715710013 715710400 2.590000e-102 383
29 TraesCS7A01G155700 chr4B 87.500 296 29 2 380 669 570739089 570739382 7.350000e-88 335
30 TraesCS7A01G155700 chr1A 97.436 195 5 0 4389 4583 285723713 285723519 2.640000e-87 333
31 TraesCS7A01G155700 chr1A 95.500 200 8 1 4385 4583 73703263 73703462 7.400000e-83 318
32 TraesCS7A01G155700 chr1A 95.500 200 8 1 4385 4583 158984868 158985067 7.400000e-83 318
33 TraesCS7A01G155700 chr1A 95.500 200 8 1 4385 4583 250102265 250102066 7.400000e-83 318
34 TraesCS7A01G155700 chr1A 88.298 94 9 2 675 767 587678725 587678633 1.350000e-20 111
35 TraesCS7A01G155700 chr2D 85.185 162 21 2 3933 4091 609306083 609305922 3.670000e-36 163
36 TraesCS7A01G155700 chrUn 89.831 118 11 1 3933 4049 71540203 71540086 2.860000e-32 150
37 TraesCS7A01G155700 chrUn 90.435 115 10 1 3933 4046 345345919 345346033 2.860000e-32 150
38 TraesCS7A01G155700 chrUn 87.931 116 11 2 3933 4046 71566713 71566827 2.880000e-27 134
39 TraesCS7A01G155700 chr6D 88.136 118 13 1 3933 4049 25287642 25287525 6.180000e-29 139
40 TraesCS7A01G155700 chr6D 89.535 86 8 1 677 761 462491352 462491267 1.740000e-19 108
41 TraesCS7A01G155700 chr6D 88.372 86 10 0 677 762 120223125 120223040 2.260000e-18 104
42 TraesCS7A01G155700 chr6D 88.372 86 10 0 677 762 264840579 264840494 2.260000e-18 104
43 TraesCS7A01G155700 chr3B 89.773 88 9 0 675 762 781343359 781343272 3.750000e-21 113
44 TraesCS7A01G155700 chr3D 89.535 86 9 0 677 762 128873670 128873585 4.850000e-20 110


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 TraesCS7A01G155700 chr7A 108749551 108754133 4582 False 8464.000000 8464 100.000000 1 4583 1 chr7A.!!$F1 4582
1 TraesCS7A01G155700 chr7D 104522469 104526055 3586 False 5962.000000 5962 96.797000 833 4392 1 chr7D.!!$F1 3559
2 TraesCS7A01G155700 chr7B 62654590 62658165 3575 False 5709.000000 5709 95.572000 833 4392 1 chr7B.!!$F1 3559
3 TraesCS7A01G155700 chr2A 126566450 126567106 656 False 909.000000 909 91.556000 1 669 1 chr2A.!!$F1 668
4 TraesCS7A01G155700 chr5A 642138757 642139317 560 True 798.000000 798 92.403000 1 561 1 chr5A.!!$R2 560
5 TraesCS7A01G155700 chr5B 441100788 441102940 2152 True 298.333333 357 90.546333 11 671 3 chr5B.!!$R2 660
6 TraesCS7A01G155700 chr2B 64997839 64999414 1575 True 373.500000 499 90.024000 93 669 2 chr2B.!!$R1 576
7 TraesCS7A01G155700 chr1D 472420169 472420717 548 True 346.000000 490 93.175000 1 466 2 chr1D.!!$R1 465

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
459 3088 0.100682 GATGAGTTGCGACGGCTAGA 59.899 55.0 0.0 0.0 40.82 2.43 F
2088 4726 0.314302 ACGTCTTGTCAGGGAACTCG 59.686 55.0 0.0 0.0 40.21 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2208 4846 1.006832 CATACGCCTTGCCACAGTAC 58.993 55.0 0.00 0.0 0.0 2.73 R
4054 6697 1.667236 TAGAGGCATGCAACCATTCG 58.333 50.0 21.36 0.0 0.0 3.34 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
23 24 3.871006 TGCTGGACGAATAAACTGCTATG 59.129 43.478 0.00 0.00 0.00 2.23
24 25 4.119862 GCTGGACGAATAAACTGCTATGA 58.880 43.478 0.00 0.00 0.00 2.15
25 26 4.570772 GCTGGACGAATAAACTGCTATGAA 59.429 41.667 0.00 0.00 0.00 2.57
29 30 6.978659 TGGACGAATAAACTGCTATGAACTAG 59.021 38.462 0.00 0.00 0.00 2.57
126 135 7.262048 AGACTAGCAAAATACTCTAAGCAGAC 58.738 38.462 0.00 0.00 0.00 3.51
204 298 9.784680 CTTGTGATTACGAGTACTACAAAGTAT 57.215 33.333 0.00 0.00 40.30 2.12
287 1915 7.849804 ACTGCCTAGTACAATTGAGTATTTG 57.150 36.000 13.59 0.00 34.74 2.32
341 2969 2.513897 GCGGCTAGCGGGATGTTT 60.514 61.111 22.16 0.00 35.41 2.83
459 3088 0.100682 GATGAGTTGCGACGGCTAGA 59.899 55.000 0.00 0.00 40.82 2.43
466 3095 3.188873 AGTTGCGACGGCTAGATATAGAC 59.811 47.826 0.00 0.00 40.82 2.59
467 3096 2.082231 TGCGACGGCTAGATATAGACC 58.918 52.381 0.00 0.00 40.82 3.85
509 3146 1.494721 AGTTATGGGCCGATCACCAAT 59.505 47.619 2.36 1.43 40.73 3.16
607 3245 3.073798 TCCCTAGCCATGTTTTGTCAAGA 59.926 43.478 0.00 0.00 0.00 3.02
608 3246 3.826157 CCCTAGCCATGTTTTGTCAAGAA 59.174 43.478 0.00 0.00 0.00 2.52
645 3283 9.146984 CTTTGTAGTTATAATCAAAGTCCGACA 57.853 33.333 20.24 5.52 40.66 4.35
687 3325 8.954350 ACTCAATTCTTTTCTATTGGAGACATG 58.046 33.333 0.00 0.00 42.32 3.21
688 3326 8.868522 TCAATTCTTTTCTATTGGAGACATGT 57.131 30.769 0.00 0.00 42.32 3.21
689 3327 9.300681 TCAATTCTTTTCTATTGGAGACATGTT 57.699 29.630 0.00 0.00 42.32 2.71
690 3328 9.565213 CAATTCTTTTCTATTGGAGACATGTTC 57.435 33.333 0.00 0.00 42.32 3.18
691 3329 9.525826 AATTCTTTTCTATTGGAGACATGTTCT 57.474 29.630 0.00 0.00 42.32 3.01
692 3330 8.924511 TTCTTTTCTATTGGAGACATGTTCTT 57.075 30.769 0.00 0.00 42.32 2.52
693 3331 8.553459 TCTTTTCTATTGGAGACATGTTCTTC 57.447 34.615 0.00 0.00 42.32 2.87
694 3332 6.968131 TTTCTATTGGAGACATGTTCTTCG 57.032 37.500 0.00 0.00 42.32 3.79
695 3333 5.661056 TCTATTGGAGACATGTTCTTCGT 57.339 39.130 0.00 0.00 42.32 3.85
696 3334 5.651530 TCTATTGGAGACATGTTCTTCGTC 58.348 41.667 0.00 0.00 42.32 4.20
697 3335 3.744238 TTGGAGACATGTTCTTCGTCA 57.256 42.857 0.00 0.00 42.32 4.35
698 3336 3.961480 TGGAGACATGTTCTTCGTCAT 57.039 42.857 0.00 0.00 31.23 3.06
699 3337 3.849911 TGGAGACATGTTCTTCGTCATC 58.150 45.455 0.00 0.00 31.23 2.92
700 3338 3.511540 TGGAGACATGTTCTTCGTCATCT 59.488 43.478 0.00 0.00 31.23 2.90
701 3339 4.109050 GGAGACATGTTCTTCGTCATCTC 58.891 47.826 0.00 0.00 33.22 2.75
702 3340 4.142271 GGAGACATGTTCTTCGTCATCTCT 60.142 45.833 0.00 0.00 33.22 3.10
703 3341 5.066634 GGAGACATGTTCTTCGTCATCTCTA 59.933 44.000 0.00 0.00 33.22 2.43
704 3342 6.404844 GGAGACATGTTCTTCGTCATCTCTAA 60.405 42.308 0.00 0.00 33.22 2.10
705 3343 6.925211 AGACATGTTCTTCGTCATCTCTAAA 58.075 36.000 0.00 0.00 31.92 1.85
706 3344 7.551585 AGACATGTTCTTCGTCATCTCTAAAT 58.448 34.615 0.00 0.00 31.92 1.40
707 3345 8.037758 AGACATGTTCTTCGTCATCTCTAAATT 58.962 33.333 0.00 0.00 31.92 1.82
708 3346 9.302345 GACATGTTCTTCGTCATCTCTAAATTA 57.698 33.333 0.00 0.00 0.00 1.40
709 3347 9.088512 ACATGTTCTTCGTCATCTCTAAATTAC 57.911 33.333 0.00 0.00 0.00 1.89
710 3348 9.087424 CATGTTCTTCGTCATCTCTAAATTACA 57.913 33.333 0.00 0.00 0.00 2.41
711 3349 9.823647 ATGTTCTTCGTCATCTCTAAATTACAT 57.176 29.630 0.00 0.00 0.00 2.29
712 3350 9.087424 TGTTCTTCGTCATCTCTAAATTACATG 57.913 33.333 0.00 0.00 0.00 3.21
713 3351 7.700322 TCTTCGTCATCTCTAAATTACATGC 57.300 36.000 0.00 0.00 0.00 4.06
714 3352 7.264947 TCTTCGTCATCTCTAAATTACATGCA 58.735 34.615 0.00 0.00 0.00 3.96
715 3353 7.763985 TCTTCGTCATCTCTAAATTACATGCAA 59.236 33.333 0.00 0.00 0.00 4.08
716 3354 7.468922 TCGTCATCTCTAAATTACATGCAAG 57.531 36.000 0.00 0.00 0.00 4.01
717 3355 7.264947 TCGTCATCTCTAAATTACATGCAAGA 58.735 34.615 0.00 0.00 0.00 3.02
718 3356 7.222805 TCGTCATCTCTAAATTACATGCAAGAC 59.777 37.037 0.00 0.00 0.00 3.01
719 3357 7.223582 CGTCATCTCTAAATTACATGCAAGACT 59.776 37.037 0.00 0.00 0.00 3.24
720 3358 8.887717 GTCATCTCTAAATTACATGCAAGACTT 58.112 33.333 0.00 0.00 0.00 3.01
772 3410 8.709386 GCATATGCACTTATACTATTAGCTGT 57.291 34.615 22.84 0.00 41.59 4.40
773 3411 8.598924 GCATATGCACTTATACTATTAGCTGTG 58.401 37.037 22.84 0.00 41.59 3.66
774 3412 8.598924 CATATGCACTTATACTATTAGCTGTGC 58.401 37.037 10.53 10.53 46.42 4.57
775 3413 6.161855 TGCACTTATACTATTAGCTGTGCT 57.838 37.500 16.33 0.00 46.39 4.40
776 3414 6.216569 TGCACTTATACTATTAGCTGTGCTC 58.783 40.000 16.33 0.00 46.39 4.26
777 3415 6.040955 TGCACTTATACTATTAGCTGTGCTCT 59.959 38.462 16.33 0.00 46.39 4.09
778 3416 7.230712 TGCACTTATACTATTAGCTGTGCTCTA 59.769 37.037 16.33 0.00 46.39 2.43
779 3417 8.082852 GCACTTATACTATTAGCTGTGCTCTAA 58.917 37.037 10.26 0.00 43.95 2.10
780 3418 9.619316 CACTTATACTATTAGCTGTGCTCTAAG 57.381 37.037 0.00 0.00 40.44 2.18
781 3419 8.301002 ACTTATACTATTAGCTGTGCTCTAAGC 58.699 37.037 0.00 0.00 40.44 3.09
782 3420 3.971150 ACTATTAGCTGTGCTCTAAGCG 58.029 45.455 0.00 0.00 46.26 4.68
783 3421 3.632604 ACTATTAGCTGTGCTCTAAGCGA 59.367 43.478 0.00 0.00 46.26 4.93
784 3422 3.526931 ATTAGCTGTGCTCTAAGCGAA 57.473 42.857 0.00 0.00 46.26 4.70
785 3423 3.313012 TTAGCTGTGCTCTAAGCGAAA 57.687 42.857 0.00 0.00 46.26 3.46
786 3424 2.393271 AGCTGTGCTCTAAGCGAAAT 57.607 45.000 0.00 0.00 46.26 2.17
787 3425 3.526931 AGCTGTGCTCTAAGCGAAATA 57.473 42.857 0.00 0.00 46.26 1.40
788 3426 3.861840 AGCTGTGCTCTAAGCGAAATAA 58.138 40.909 0.00 0.00 46.26 1.40
789 3427 4.446371 AGCTGTGCTCTAAGCGAAATAAT 58.554 39.130 0.00 0.00 46.26 1.28
790 3428 4.878397 AGCTGTGCTCTAAGCGAAATAATT 59.122 37.500 0.00 0.00 46.26 1.40
791 3429 4.966366 GCTGTGCTCTAAGCGAAATAATTG 59.034 41.667 0.00 0.00 46.26 2.32
792 3430 4.908736 TGTGCTCTAAGCGAAATAATTGC 58.091 39.130 0.00 0.00 46.26 3.56
793 3431 4.635765 TGTGCTCTAAGCGAAATAATTGCT 59.364 37.500 0.00 0.00 46.26 3.91
794 3432 5.815222 TGTGCTCTAAGCGAAATAATTGCTA 59.185 36.000 0.00 0.00 46.26 3.49
795 3433 6.130058 GTGCTCTAAGCGAAATAATTGCTAC 58.870 40.000 0.00 0.00 46.26 3.58
796 3434 6.018669 GTGCTCTAAGCGAAATAATTGCTACT 60.019 38.462 0.00 0.00 46.26 2.57
797 3435 6.018751 TGCTCTAAGCGAAATAATTGCTACTG 60.019 38.462 0.00 0.00 46.26 2.74
798 3436 6.201044 GCTCTAAGCGAAATAATTGCTACTGA 59.799 38.462 0.00 0.00 38.17 3.41
799 3437 7.254455 GCTCTAAGCGAAATAATTGCTACTGAA 60.254 37.037 0.00 0.00 38.17 3.02
800 3438 8.662781 TCTAAGCGAAATAATTGCTACTGAAT 57.337 30.769 0.00 0.00 38.17 2.57
801 3439 8.765219 TCTAAGCGAAATAATTGCTACTGAATC 58.235 33.333 0.00 0.00 38.17 2.52
802 3440 7.559590 AAGCGAAATAATTGCTACTGAATCT 57.440 32.000 0.00 0.00 38.17 2.40
803 3441 8.662781 AAGCGAAATAATTGCTACTGAATCTA 57.337 30.769 0.00 0.00 38.17 1.98
804 3442 8.304202 AGCGAAATAATTGCTACTGAATCTAG 57.696 34.615 0.00 0.00 37.15 2.43
805 3443 8.144478 AGCGAAATAATTGCTACTGAATCTAGA 58.856 33.333 0.00 0.00 37.15 2.43
806 3444 8.431593 GCGAAATAATTGCTACTGAATCTAGAG 58.568 37.037 0.00 0.00 0.00 2.43
807 3445 8.920665 CGAAATAATTGCTACTGAATCTAGAGG 58.079 37.037 0.00 0.00 0.00 3.69
808 3446 9.988815 GAAATAATTGCTACTGAATCTAGAGGA 57.011 33.333 0.00 0.00 0.00 3.71
809 3447 9.995003 AAATAATTGCTACTGAATCTAGAGGAG 57.005 33.333 0.00 0.00 0.00 3.69
810 3448 8.719645 ATAATTGCTACTGAATCTAGAGGAGT 57.280 34.615 0.00 2.65 0.00 3.85
811 3449 5.843673 TTGCTACTGAATCTAGAGGAGTG 57.156 43.478 0.00 0.00 0.00 3.51
812 3450 5.117406 TGCTACTGAATCTAGAGGAGTGA 57.883 43.478 0.00 0.00 0.00 3.41
813 3451 5.129634 TGCTACTGAATCTAGAGGAGTGAG 58.870 45.833 0.00 0.00 30.09 3.51
814 3452 5.104318 TGCTACTGAATCTAGAGGAGTGAGA 60.104 44.000 0.00 0.00 28.63 3.27
815 3453 6.003950 GCTACTGAATCTAGAGGAGTGAGAT 58.996 44.000 0.00 0.00 28.63 2.75
816 3454 7.165485 GCTACTGAATCTAGAGGAGTGAGATA 58.835 42.308 0.00 0.00 28.63 1.98
817 3455 7.663905 GCTACTGAATCTAGAGGAGTGAGATAA 59.336 40.741 0.00 0.00 28.63 1.75
818 3456 9.739276 CTACTGAATCTAGAGGAGTGAGATAAT 57.261 37.037 0.00 0.00 28.63 1.28
820 3458 9.432982 ACTGAATCTAGAGGAGTGAGATAATTT 57.567 33.333 0.00 0.00 28.63 1.82
823 3461 9.855021 GAATCTAGAGGAGTGAGATAATTTAGC 57.145 37.037 0.00 0.00 29.71 3.09
824 3462 7.441890 TCTAGAGGAGTGAGATAATTTAGCG 57.558 40.000 0.00 0.00 0.00 4.26
825 3463 7.225011 TCTAGAGGAGTGAGATAATTTAGCGA 58.775 38.462 0.00 0.00 0.00 4.93
826 3464 6.909550 AGAGGAGTGAGATAATTTAGCGAT 57.090 37.500 0.00 0.00 0.00 4.58
827 3465 7.296628 AGAGGAGTGAGATAATTTAGCGATT 57.703 36.000 0.00 0.00 0.00 3.34
828 3466 7.151308 AGAGGAGTGAGATAATTTAGCGATTG 58.849 38.462 0.00 0.00 0.00 2.67
829 3467 5.698545 AGGAGTGAGATAATTTAGCGATTGC 59.301 40.000 0.00 0.00 43.24 3.56
830 3468 5.106908 GGAGTGAGATAATTTAGCGATTGCC 60.107 44.000 0.00 0.00 44.31 4.52
831 3469 4.449068 AGTGAGATAATTTAGCGATTGCCG 59.551 41.667 0.00 0.00 44.31 5.69
856 3494 3.499737 CTCCACGTGGCGCAATCC 61.500 66.667 30.25 0.00 34.44 3.01
864 3502 3.451894 GGCGCAATCCCCACAAGG 61.452 66.667 10.83 0.00 0.00 3.61
877 3515 1.228154 ACAAGGAACCAACGGCTCC 60.228 57.895 0.00 0.00 38.18 4.70
880 3518 4.324991 GGAACCAACGGCTCCGGT 62.325 66.667 13.31 2.51 44.69 5.28
996 3634 1.764454 GCTCCTTCTCCCTCCCCTC 60.764 68.421 0.00 0.00 0.00 4.30
1182 3820 2.863346 CGTCCACGTCCCTCACCAA 61.863 63.158 0.00 0.00 34.11 3.67
1204 3842 2.266055 GGCCCGTCCAAGAGACAG 59.734 66.667 0.00 0.00 46.69 3.51
1854 4492 4.464244 CAGATGGAAGAGTGTGGAGTAGAA 59.536 45.833 0.00 0.00 0.00 2.10
1869 4507 4.262463 GGAGTAGAACCAGATGTTGTCACA 60.262 45.833 0.00 0.00 37.29 3.58
2064 4702 3.270027 TGCGATTAAGATTGGGACTGTG 58.730 45.455 0.00 0.00 0.00 3.66
2088 4726 0.314302 ACGTCTTGTCAGGGAACTCG 59.686 55.000 0.00 0.00 40.21 4.18
2149 4787 9.317936 TCGCAGCATATAGAATATTTAATGAGG 57.682 33.333 0.00 0.00 0.00 3.86
2226 4864 0.107848 GGTACTGTGGCAAGGCGTAT 60.108 55.000 0.00 0.00 0.00 3.06
2475 5113 4.592942 TGCAATCAGTTCTGATAAAGCCT 58.407 39.130 20.76 5.14 0.00 4.58
2640 5278 1.760192 AATCTGGTGATCTTGCTGGC 58.240 50.000 0.00 0.00 31.51 4.85
2742 5380 4.322574 GGGTCTCCAACTAAAGTAGTGGAC 60.323 50.000 0.31 0.00 39.39 4.02
2787 5425 2.362397 AGGTGTACTGCCAGATCATACG 59.638 50.000 0.00 0.00 0.00 3.06
2814 5452 2.370189 GACAGCTGTTATCAGGGCCTAT 59.630 50.000 22.65 3.09 41.57 2.57
2977 5615 6.044046 GCAATTATTGATGAAATGCCACTCA 58.956 36.000 9.36 0.00 0.00 3.41
2990 5628 3.505386 TGCCACTCACACCCAATTTAAT 58.495 40.909 0.00 0.00 0.00 1.40
3081 5719 3.488678 CAGAGATGTCGATGATTGAACCG 59.511 47.826 0.00 0.00 0.00 4.44
3117 5755 7.387643 GAATCCAAGTAGTGGTTTCTAGTCTT 58.612 38.462 8.34 0.00 46.41 3.01
3293 5931 7.705325 AGCAGCTGAATTAAAATTGATGATGAC 59.295 33.333 20.43 0.00 0.00 3.06
3297 5935 9.577110 GCTGAATTAAAATTGATGATGACTGAA 57.423 29.630 0.00 0.00 0.00 3.02
3353 5991 6.379988 GGAACTCTAGAAGTGGAAGAAGAGAT 59.620 42.308 4.29 0.00 38.58 2.75
3367 6005 3.259374 AGAAGAGATGGAAGAAGTTGCGA 59.741 43.478 0.00 0.00 0.00 5.10
3468 6106 2.230992 TGCAAGGATGTGTAACCATTGC 59.769 45.455 0.00 0.00 38.94 3.56
3838 6478 0.233332 GCGCTTGTTCTGACACAGTC 59.767 55.000 0.00 0.00 34.98 3.51
3963 6605 4.263374 CCATTCAGATGATACATGCTCCCT 60.263 45.833 0.00 0.00 35.16 4.20
4138 6789 9.840427 AGTTAATTCTACCAATTCGTTTCAATG 57.160 29.630 0.00 0.00 0.00 2.82
4207 6858 7.679638 GCGTGCATCAGTTTTAATAATCCTCTT 60.680 37.037 0.00 0.00 0.00 2.85
4351 7021 8.050316 AGTTAGGTCATTGGATGGAAATATCT 57.950 34.615 0.00 0.00 0.00 1.98
4376 7046 1.837051 TCTCAGGTGCCAACGGACT 60.837 57.895 0.00 0.00 0.00 3.85
4392 7062 4.377897 ACGGACTTGAACTTTCACTTAGG 58.622 43.478 0.00 0.00 36.83 2.69
4393 7063 3.186613 CGGACTTGAACTTTCACTTAGGC 59.813 47.826 0.00 0.00 36.83 3.93
4394 7064 4.390264 GGACTTGAACTTTCACTTAGGCT 58.610 43.478 0.00 0.00 36.83 4.58
4395 7065 5.548406 GGACTTGAACTTTCACTTAGGCTA 58.452 41.667 0.00 0.00 36.83 3.93
4396 7066 5.639931 GGACTTGAACTTTCACTTAGGCTAG 59.360 44.000 0.00 0.00 36.83 3.42
4397 7067 6.176014 ACTTGAACTTTCACTTAGGCTAGT 57.824 37.500 0.00 0.00 36.83 2.57
4398 7068 6.224584 ACTTGAACTTTCACTTAGGCTAGTC 58.775 40.000 0.00 0.00 36.83 2.59
4399 7069 5.801531 TGAACTTTCACTTAGGCTAGTCA 57.198 39.130 0.00 0.00 31.01 3.41
4400 7070 6.360370 TGAACTTTCACTTAGGCTAGTCAT 57.640 37.500 0.00 0.00 31.01 3.06
4401 7071 7.476540 TGAACTTTCACTTAGGCTAGTCATA 57.523 36.000 0.00 0.00 31.01 2.15
4402 7072 7.548097 TGAACTTTCACTTAGGCTAGTCATAG 58.452 38.462 0.00 0.00 31.01 2.23
4403 7073 7.178628 TGAACTTTCACTTAGGCTAGTCATAGT 59.821 37.037 0.00 0.00 31.01 2.12
4404 7074 6.868622 ACTTTCACTTAGGCTAGTCATAGTG 58.131 40.000 17.85 17.85 0.00 2.74
4405 7075 5.854010 TTCACTTAGGCTAGTCATAGTGG 57.146 43.478 21.45 9.17 0.00 4.00
4406 7076 4.215908 TCACTTAGGCTAGTCATAGTGGG 58.784 47.826 21.45 5.03 0.00 4.61
4407 7077 4.079385 TCACTTAGGCTAGTCATAGTGGGA 60.079 45.833 21.45 7.31 0.00 4.37
4408 7078 4.279671 CACTTAGGCTAGTCATAGTGGGAG 59.720 50.000 16.73 0.00 0.00 4.30
4409 7079 4.079096 ACTTAGGCTAGTCATAGTGGGAGT 60.079 45.833 0.00 0.00 0.00 3.85
4410 7080 5.133999 ACTTAGGCTAGTCATAGTGGGAGTA 59.866 44.000 0.00 0.00 0.00 2.59
4411 7081 4.537945 AGGCTAGTCATAGTGGGAGTAA 57.462 45.455 0.00 0.00 0.00 2.24
4412 7082 4.216708 AGGCTAGTCATAGTGGGAGTAAC 58.783 47.826 0.00 0.00 0.00 2.50
4413 7083 4.079096 AGGCTAGTCATAGTGGGAGTAACT 60.079 45.833 0.00 0.00 0.00 2.24
4414 7084 4.650131 GGCTAGTCATAGTGGGAGTAACTT 59.350 45.833 0.00 0.00 0.00 2.66
4415 7085 5.832060 GGCTAGTCATAGTGGGAGTAACTTA 59.168 44.000 0.00 0.00 0.00 2.24
4416 7086 6.016108 GGCTAGTCATAGTGGGAGTAACTTAG 60.016 46.154 0.00 0.00 0.00 2.18
4417 7087 5.855740 AGTCATAGTGGGAGTAACTTAGC 57.144 43.478 0.00 0.00 0.00 3.09
4418 7088 5.520751 AGTCATAGTGGGAGTAACTTAGCT 58.479 41.667 0.00 0.00 0.00 3.32
4419 7089 6.670617 AGTCATAGTGGGAGTAACTTAGCTA 58.329 40.000 0.00 0.00 0.00 3.32
4420 7090 6.773685 AGTCATAGTGGGAGTAACTTAGCTAG 59.226 42.308 0.00 0.00 0.00 3.42
4421 7091 6.546772 GTCATAGTGGGAGTAACTTAGCTAGT 59.453 42.308 0.00 0.00 39.32 2.57
4422 7092 7.718753 GTCATAGTGGGAGTAACTTAGCTAGTA 59.281 40.741 0.00 0.00 35.54 1.82
4423 7093 8.277197 TCATAGTGGGAGTAACTTAGCTAGTAA 58.723 37.037 0.00 0.00 35.54 2.24
4424 7094 6.772360 AGTGGGAGTAACTTAGCTAGTAAC 57.228 41.667 0.00 0.00 35.54 2.50
4425 7095 6.251471 AGTGGGAGTAACTTAGCTAGTAACA 58.749 40.000 0.00 0.00 35.54 2.41
4426 7096 6.896307 AGTGGGAGTAACTTAGCTAGTAACAT 59.104 38.462 0.00 0.00 35.54 2.71
4427 7097 8.057623 AGTGGGAGTAACTTAGCTAGTAACATA 58.942 37.037 0.00 0.00 35.54 2.29
4428 7098 8.351461 GTGGGAGTAACTTAGCTAGTAACATAG 58.649 40.741 0.00 0.00 35.54 2.23
4437 7107 3.444916 GCTAGTAACATAGCGCACTTCA 58.555 45.455 11.47 0.00 38.90 3.02
4438 7108 3.863424 GCTAGTAACATAGCGCACTTCAA 59.137 43.478 11.47 0.00 38.90 2.69
4439 7109 4.026475 GCTAGTAACATAGCGCACTTCAAG 60.026 45.833 11.47 0.00 38.90 3.02
4440 7110 4.188247 AGTAACATAGCGCACTTCAAGA 57.812 40.909 11.47 0.00 0.00 3.02
4441 7111 4.566004 AGTAACATAGCGCACTTCAAGAA 58.434 39.130 11.47 0.00 0.00 2.52
4442 7112 5.178797 AGTAACATAGCGCACTTCAAGAAT 58.821 37.500 11.47 0.00 0.00 2.40
4443 7113 5.643777 AGTAACATAGCGCACTTCAAGAATT 59.356 36.000 11.47 0.00 0.00 2.17
4444 7114 5.376854 AACATAGCGCACTTCAAGAATTT 57.623 34.783 11.47 0.00 0.00 1.82
4445 7115 5.376854 ACATAGCGCACTTCAAGAATTTT 57.623 34.783 11.47 0.00 0.00 1.82
4446 7116 5.772521 ACATAGCGCACTTCAAGAATTTTT 58.227 33.333 11.47 0.00 0.00 1.94
4471 7141 7.637631 TGCTTATGTGGCAAGTAATTAATGA 57.362 32.000 0.00 0.00 36.71 2.57
4472 7142 7.706159 TGCTTATGTGGCAAGTAATTAATGAG 58.294 34.615 0.00 0.00 36.71 2.90
4473 7143 7.555914 TGCTTATGTGGCAAGTAATTAATGAGA 59.444 33.333 0.00 0.00 36.71 3.27
4474 7144 8.072567 GCTTATGTGGCAAGTAATTAATGAGAG 58.927 37.037 0.00 0.00 0.00 3.20
4475 7145 6.949352 ATGTGGCAAGTAATTAATGAGAGG 57.051 37.500 0.00 0.00 0.00 3.69
4476 7146 5.815581 TGTGGCAAGTAATTAATGAGAGGT 58.184 37.500 0.00 0.00 0.00 3.85
4477 7147 5.647658 TGTGGCAAGTAATTAATGAGAGGTG 59.352 40.000 0.00 0.00 0.00 4.00
4478 7148 5.066505 GTGGCAAGTAATTAATGAGAGGTGG 59.933 44.000 0.00 0.00 0.00 4.61
4479 7149 5.193679 GGCAAGTAATTAATGAGAGGTGGT 58.806 41.667 4.19 0.00 0.00 4.16
4480 7150 6.069905 TGGCAAGTAATTAATGAGAGGTGGTA 60.070 38.462 4.19 0.00 0.00 3.25
4481 7151 6.826741 GGCAAGTAATTAATGAGAGGTGGTAA 59.173 38.462 4.19 0.00 0.00 2.85
4482 7152 7.201705 GGCAAGTAATTAATGAGAGGTGGTAAC 60.202 40.741 4.19 0.00 0.00 2.50
4512 7182 6.160664 TGTTACTGTAACATAGCGCTTTTC 57.839 37.500 25.14 2.12 43.23 2.29
4513 7183 5.697178 TGTTACTGTAACATAGCGCTTTTCA 59.303 36.000 25.14 7.38 43.23 2.69
4514 7184 6.203145 TGTTACTGTAACATAGCGCTTTTCAA 59.797 34.615 25.14 0.00 43.23 2.69
4515 7185 5.283060 ACTGTAACATAGCGCTTTTCAAG 57.717 39.130 18.68 7.94 0.00 3.02
4516 7186 4.994852 ACTGTAACATAGCGCTTTTCAAGA 59.005 37.500 18.68 0.00 0.00 3.02
4517 7187 5.107065 ACTGTAACATAGCGCTTTTCAAGAC 60.107 40.000 18.68 6.42 0.00 3.01
4518 7188 4.752604 TGTAACATAGCGCTTTTCAAGACA 59.247 37.500 18.68 9.17 0.00 3.41
4519 7189 4.829064 AACATAGCGCTTTTCAAGACAA 57.171 36.364 18.68 0.00 0.00 3.18
4520 7190 4.410492 ACATAGCGCTTTTCAAGACAAG 57.590 40.909 18.68 0.00 0.00 3.16
4521 7191 4.065088 ACATAGCGCTTTTCAAGACAAGA 58.935 39.130 18.68 0.00 0.00 3.02
4522 7192 4.697352 ACATAGCGCTTTTCAAGACAAGAT 59.303 37.500 18.68 0.00 0.00 2.40
4523 7193 3.549299 AGCGCTTTTCAAGACAAGATG 57.451 42.857 2.64 0.00 0.00 2.90
4524 7194 3.141398 AGCGCTTTTCAAGACAAGATGA 58.859 40.909 2.64 0.00 0.00 2.92
4525 7195 3.188048 AGCGCTTTTCAAGACAAGATGAG 59.812 43.478 2.64 0.00 0.00 2.90
4526 7196 3.058639 GCGCTTTTCAAGACAAGATGAGT 60.059 43.478 0.00 0.00 0.00 3.41
4527 7197 4.706527 CGCTTTTCAAGACAAGATGAGTC 58.293 43.478 0.41 0.00 36.26 3.36
4529 7199 5.635280 CGCTTTTCAAGACAAGATGAGTCTA 59.365 40.000 0.41 0.00 45.11 2.59
4530 7200 6.400515 CGCTTTTCAAGACAAGATGAGTCTAC 60.401 42.308 0.41 0.00 45.11 2.59
4531 7201 6.425114 GCTTTTCAAGACAAGATGAGTCTACA 59.575 38.462 0.41 0.00 45.11 2.74
4532 7202 7.041780 GCTTTTCAAGACAAGATGAGTCTACAA 60.042 37.037 0.41 0.00 45.11 2.41
4533 7203 8.731275 TTTTCAAGACAAGATGAGTCTACAAA 57.269 30.769 0.00 0.00 45.11 2.83
4534 7204 8.731275 TTTCAAGACAAGATGAGTCTACAAAA 57.269 30.769 0.00 0.00 45.11 2.44
4535 7205 8.908786 TTCAAGACAAGATGAGTCTACAAAAT 57.091 30.769 0.00 0.00 45.11 1.82
4536 7206 9.996554 TTCAAGACAAGATGAGTCTACAAAATA 57.003 29.630 0.00 0.00 45.11 1.40
4537 7207 9.996554 TCAAGACAAGATGAGTCTACAAAATAA 57.003 29.630 0.00 0.00 45.11 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 4.449743 TGTTTGGATGCAACGTACTAGTTC 59.550 41.667 0.00 0.00 30.96 3.01
24 25 4.382291 TGTTTGGATGCAACGTACTAGTT 58.618 39.130 0.00 0.00 34.15 2.24
25 26 3.997762 TGTTTGGATGCAACGTACTAGT 58.002 40.909 0.00 0.00 0.00 2.57
29 30 5.291293 ACTATTGTTTGGATGCAACGTAC 57.709 39.130 0.00 0.00 0.00 3.67
91 96 9.151471 GAGTATTTTGCTAGTCTTGATGTAACA 57.849 33.333 0.00 0.00 0.00 2.41
95 102 9.593134 CTTAGAGTATTTTGCTAGTCTTGATGT 57.407 33.333 0.00 0.00 34.15 3.06
237 333 2.581354 CTAGCCGCTCACAAGCCT 59.419 61.111 0.00 0.00 46.34 4.58
239 335 3.558411 CGCTAGCCGCTCACAAGC 61.558 66.667 9.66 0.00 45.56 4.01
284 1912 6.238456 CGCTGTTTCTAATATCTCCATGCAAA 60.238 38.462 0.00 0.00 0.00 3.68
287 1915 4.752101 ACGCTGTTTCTAATATCTCCATGC 59.248 41.667 0.00 0.00 0.00 4.06
341 2969 2.507058 AGCAGATCCTAATGTTCAGGCA 59.493 45.455 0.00 0.00 32.82 4.75
459 3088 1.535833 CTCCACGCCTCGGTCTATAT 58.464 55.000 0.00 0.00 0.00 0.86
467 3096 4.498520 ACATCGCTCCACGCCTCG 62.499 66.667 0.00 0.00 43.23 4.63
486 3123 2.038426 TGGTGATCGGCCCATAACTATG 59.962 50.000 0.00 0.00 0.00 2.23
671 3309 6.464222 ACGAAGAACATGTCTCCAATAGAAA 58.536 36.000 0.00 0.00 34.56 2.52
672 3310 6.037786 ACGAAGAACATGTCTCCAATAGAA 57.962 37.500 0.00 0.00 34.56 2.10
673 3311 5.185056 TGACGAAGAACATGTCTCCAATAGA 59.815 40.000 0.00 0.00 34.56 1.98
674 3312 5.410924 TGACGAAGAACATGTCTCCAATAG 58.589 41.667 0.00 0.00 34.56 1.73
675 3313 5.400066 TGACGAAGAACATGTCTCCAATA 57.600 39.130 0.00 0.00 34.56 1.90
676 3314 4.271696 TGACGAAGAACATGTCTCCAAT 57.728 40.909 0.00 0.00 34.56 3.16
677 3315 3.744238 TGACGAAGAACATGTCTCCAA 57.256 42.857 0.00 0.00 34.56 3.53
678 3316 3.511540 AGATGACGAAGAACATGTCTCCA 59.488 43.478 0.00 0.00 34.56 3.86
679 3317 4.109050 GAGATGACGAAGAACATGTCTCC 58.891 47.826 0.00 0.00 36.24 3.71
680 3318 4.992688 AGAGATGACGAAGAACATGTCTC 58.007 43.478 0.00 0.00 41.04 3.36
681 3319 6.516739 TTAGAGATGACGAAGAACATGTCT 57.483 37.500 0.00 0.00 44.13 3.41
682 3320 7.763172 ATTTAGAGATGACGAAGAACATGTC 57.237 36.000 0.00 0.00 37.91 3.06
683 3321 9.088512 GTAATTTAGAGATGACGAAGAACATGT 57.911 33.333 0.00 0.00 0.00 3.21
684 3322 9.087424 TGTAATTTAGAGATGACGAAGAACATG 57.913 33.333 0.00 0.00 0.00 3.21
685 3323 9.823647 ATGTAATTTAGAGATGACGAAGAACAT 57.176 29.630 0.00 0.00 0.00 2.71
686 3324 9.087424 CATGTAATTTAGAGATGACGAAGAACA 57.913 33.333 0.00 0.00 0.00 3.18
687 3325 8.058915 GCATGTAATTTAGAGATGACGAAGAAC 58.941 37.037 0.00 0.00 0.00 3.01
688 3326 7.763985 TGCATGTAATTTAGAGATGACGAAGAA 59.236 33.333 0.00 0.00 0.00 2.52
689 3327 7.264947 TGCATGTAATTTAGAGATGACGAAGA 58.735 34.615 0.00 0.00 0.00 2.87
690 3328 7.468922 TGCATGTAATTTAGAGATGACGAAG 57.531 36.000 0.00 0.00 0.00 3.79
691 3329 7.763985 TCTTGCATGTAATTTAGAGATGACGAA 59.236 33.333 0.00 0.00 0.00 3.85
692 3330 7.222805 GTCTTGCATGTAATTTAGAGATGACGA 59.777 37.037 0.00 0.00 0.00 4.20
693 3331 7.223582 AGTCTTGCATGTAATTTAGAGATGACG 59.776 37.037 0.00 0.00 0.00 4.35
694 3332 8.430801 AGTCTTGCATGTAATTTAGAGATGAC 57.569 34.615 0.00 0.00 0.00 3.06
747 3385 8.598924 CACAGCTAATAGTATAAGTGCATATGC 58.401 37.037 21.09 21.09 42.50 3.14
754 3392 9.619316 CTTAGAGCACAGCTAATAGTATAAGTG 57.381 37.037 0.00 0.00 39.88 3.16
755 3393 8.301002 GCTTAGAGCACAGCTAATAGTATAAGT 58.699 37.037 0.00 0.00 41.89 2.24
756 3394 7.483375 CGCTTAGAGCACAGCTAATAGTATAAG 59.517 40.741 0.50 0.00 42.58 1.73
757 3395 7.174426 TCGCTTAGAGCACAGCTAATAGTATAA 59.826 37.037 0.50 0.00 42.58 0.98
758 3396 6.653740 TCGCTTAGAGCACAGCTAATAGTATA 59.346 38.462 0.50 0.00 42.58 1.47
759 3397 5.473846 TCGCTTAGAGCACAGCTAATAGTAT 59.526 40.000 0.50 0.00 42.58 2.12
760 3398 4.820173 TCGCTTAGAGCACAGCTAATAGTA 59.180 41.667 0.50 0.00 42.58 1.82
761 3399 3.632604 TCGCTTAGAGCACAGCTAATAGT 59.367 43.478 0.50 0.00 42.58 2.12
762 3400 4.230314 TCGCTTAGAGCACAGCTAATAG 57.770 45.455 0.50 0.00 42.58 1.73
763 3401 4.649088 TTCGCTTAGAGCACAGCTAATA 57.351 40.909 0.50 0.00 42.58 0.98
764 3402 3.526931 TTCGCTTAGAGCACAGCTAAT 57.473 42.857 0.50 0.00 42.58 1.73
765 3403 3.313012 TTTCGCTTAGAGCACAGCTAA 57.687 42.857 0.50 0.00 42.58 3.09
766 3404 3.526931 ATTTCGCTTAGAGCACAGCTA 57.473 42.857 0.50 0.00 42.58 3.32
767 3405 2.393271 ATTTCGCTTAGAGCACAGCT 57.607 45.000 0.50 0.00 42.58 4.24
768 3406 4.802876 ATTATTTCGCTTAGAGCACAGC 57.197 40.909 0.50 0.00 42.58 4.40
769 3407 4.966366 GCAATTATTTCGCTTAGAGCACAG 59.034 41.667 0.50 0.00 42.58 3.66
770 3408 4.635765 AGCAATTATTTCGCTTAGAGCACA 59.364 37.500 0.50 0.00 42.58 4.57
771 3409 5.162000 AGCAATTATTTCGCTTAGAGCAC 57.838 39.130 0.50 0.00 42.58 4.40
772 3410 6.018751 CAGTAGCAATTATTTCGCTTAGAGCA 60.019 38.462 0.50 0.00 42.58 4.26
773 3411 6.201044 TCAGTAGCAATTATTTCGCTTAGAGC 59.799 38.462 0.00 0.00 37.20 4.09
774 3412 7.700322 TCAGTAGCAATTATTTCGCTTAGAG 57.300 36.000 0.00 0.00 37.20 2.43
775 3413 8.662781 ATTCAGTAGCAATTATTTCGCTTAGA 57.337 30.769 0.00 0.00 37.20 2.10
776 3414 8.768955 AGATTCAGTAGCAATTATTTCGCTTAG 58.231 33.333 0.00 0.00 37.20 2.18
777 3415 8.662781 AGATTCAGTAGCAATTATTTCGCTTA 57.337 30.769 0.00 0.00 37.20 3.09
778 3416 7.559590 AGATTCAGTAGCAATTATTTCGCTT 57.440 32.000 0.00 0.00 37.20 4.68
779 3417 8.144478 TCTAGATTCAGTAGCAATTATTTCGCT 58.856 33.333 0.00 0.00 39.80 4.93
780 3418 8.299262 TCTAGATTCAGTAGCAATTATTTCGC 57.701 34.615 0.00 0.00 0.00 4.70
781 3419 8.920665 CCTCTAGATTCAGTAGCAATTATTTCG 58.079 37.037 0.00 0.00 0.00 3.46
782 3420 9.988815 TCCTCTAGATTCAGTAGCAATTATTTC 57.011 33.333 0.00 0.00 0.00 2.17
783 3421 9.995003 CTCCTCTAGATTCAGTAGCAATTATTT 57.005 33.333 0.00 0.00 0.00 1.40
784 3422 9.153479 ACTCCTCTAGATTCAGTAGCAATTATT 57.847 33.333 0.00 0.00 0.00 1.40
785 3423 8.584157 CACTCCTCTAGATTCAGTAGCAATTAT 58.416 37.037 0.00 0.00 0.00 1.28
786 3424 7.780271 TCACTCCTCTAGATTCAGTAGCAATTA 59.220 37.037 0.00 0.00 0.00 1.40
787 3425 6.609212 TCACTCCTCTAGATTCAGTAGCAATT 59.391 38.462 0.00 0.00 0.00 2.32
788 3426 6.132658 TCACTCCTCTAGATTCAGTAGCAAT 58.867 40.000 0.00 0.00 0.00 3.56
789 3427 5.510430 TCACTCCTCTAGATTCAGTAGCAA 58.490 41.667 0.00 0.00 0.00 3.91
790 3428 5.104318 TCTCACTCCTCTAGATTCAGTAGCA 60.104 44.000 0.00 0.00 0.00 3.49
791 3429 5.373222 TCTCACTCCTCTAGATTCAGTAGC 58.627 45.833 0.00 0.00 0.00 3.58
792 3430 9.739276 ATTATCTCACTCCTCTAGATTCAGTAG 57.261 37.037 0.00 0.00 32.39 2.57
794 3432 9.432982 AAATTATCTCACTCCTCTAGATTCAGT 57.567 33.333 0.00 0.00 32.39 3.41
797 3435 9.855021 GCTAAATTATCTCACTCCTCTAGATTC 57.145 37.037 0.00 0.00 32.39 2.52
798 3436 8.519526 CGCTAAATTATCTCACTCCTCTAGATT 58.480 37.037 0.00 0.00 32.39 2.40
799 3437 7.885922 TCGCTAAATTATCTCACTCCTCTAGAT 59.114 37.037 0.00 0.00 34.44 1.98
800 3438 7.225011 TCGCTAAATTATCTCACTCCTCTAGA 58.775 38.462 0.00 0.00 0.00 2.43
801 3439 7.441890 TCGCTAAATTATCTCACTCCTCTAG 57.558 40.000 0.00 0.00 0.00 2.43
802 3440 8.300286 CAATCGCTAAATTATCTCACTCCTCTA 58.700 37.037 0.00 0.00 0.00 2.43
803 3441 6.909550 ATCGCTAAATTATCTCACTCCTCT 57.090 37.500 0.00 0.00 0.00 3.69
804 3442 6.128688 GCAATCGCTAAATTATCTCACTCCTC 60.129 42.308 0.00 0.00 34.30 3.71
805 3443 5.698545 GCAATCGCTAAATTATCTCACTCCT 59.301 40.000 0.00 0.00 34.30 3.69
806 3444 5.106908 GGCAATCGCTAAATTATCTCACTCC 60.107 44.000 0.00 0.00 38.60 3.85
807 3445 5.388890 CGGCAATCGCTAAATTATCTCACTC 60.389 44.000 0.00 0.00 38.60 3.51
808 3446 4.449068 CGGCAATCGCTAAATTATCTCACT 59.551 41.667 0.00 0.00 38.60 3.41
809 3447 4.377431 CCGGCAATCGCTAAATTATCTCAC 60.377 45.833 0.00 0.00 38.60 3.51
810 3448 3.745975 CCGGCAATCGCTAAATTATCTCA 59.254 43.478 0.00 0.00 38.60 3.27
811 3449 3.746492 ACCGGCAATCGCTAAATTATCTC 59.254 43.478 0.00 0.00 38.60 2.75
812 3450 3.498397 CACCGGCAATCGCTAAATTATCT 59.502 43.478 0.00 0.00 38.60 1.98
813 3451 3.250040 ACACCGGCAATCGCTAAATTATC 59.750 43.478 0.00 0.00 38.60 1.75
814 3452 3.211045 ACACCGGCAATCGCTAAATTAT 58.789 40.909 0.00 0.00 38.60 1.28
815 3453 2.634600 ACACCGGCAATCGCTAAATTA 58.365 42.857 0.00 0.00 38.60 1.40
816 3454 1.459450 ACACCGGCAATCGCTAAATT 58.541 45.000 0.00 0.00 38.60 1.82
817 3455 1.132262 CAACACCGGCAATCGCTAAAT 59.868 47.619 0.00 0.00 38.60 1.40
818 3456 0.519519 CAACACCGGCAATCGCTAAA 59.480 50.000 0.00 0.00 38.60 1.85
819 3457 0.320858 TCAACACCGGCAATCGCTAA 60.321 50.000 0.00 0.00 38.60 3.09
820 3458 1.017177 GTCAACACCGGCAATCGCTA 61.017 55.000 0.00 0.00 38.60 4.26
821 3459 2.031919 TCAACACCGGCAATCGCT 59.968 55.556 0.00 0.00 38.60 4.93
822 3460 2.175811 GTCAACACCGGCAATCGC 59.824 61.111 0.00 0.00 37.59 4.58
823 3461 1.635663 GGAGTCAACACCGGCAATCG 61.636 60.000 0.00 0.00 38.88 3.34
824 3462 0.605319 TGGAGTCAACACCGGCAATC 60.605 55.000 0.00 0.00 0.00 2.67
825 3463 0.889186 GTGGAGTCAACACCGGCAAT 60.889 55.000 0.00 0.00 32.80 3.56
826 3464 1.525077 GTGGAGTCAACACCGGCAA 60.525 57.895 0.00 0.00 32.80 4.52
827 3465 2.110213 GTGGAGTCAACACCGGCA 59.890 61.111 0.00 0.00 32.80 5.69
828 3466 3.041940 CGTGGAGTCAACACCGGC 61.042 66.667 0.00 0.00 35.46 6.13
829 3467 1.954146 CACGTGGAGTCAACACCGG 60.954 63.158 7.95 0.00 35.46 5.28
830 3468 1.954146 CCACGTGGAGTCAACACCG 60.954 63.158 31.31 0.00 37.39 4.94
831 3469 2.251642 GCCACGTGGAGTCAACACC 61.252 63.158 38.30 13.05 37.39 4.16
856 3494 2.561037 GCCGTTGGTTCCTTGTGGG 61.561 63.158 0.00 0.00 0.00 4.61
864 3502 3.047877 CACCGGAGCCGTTGGTTC 61.048 66.667 9.46 0.00 37.81 3.62
930 3568 5.827797 TGCATGTTATCCTCTTTGGGTATTC 59.172 40.000 0.00 0.00 36.20 1.75
1017 3655 1.074850 GAGGAGAGAGGGGAAGGGG 60.075 68.421 0.00 0.00 0.00 4.79
1854 4492 2.783135 GTCCATGTGACAACATCTGGT 58.217 47.619 8.84 0.00 45.50 4.00
1869 4507 1.556911 CCTGACACTAGGCTTGTCCAT 59.443 52.381 14.94 0.00 42.40 3.41
1881 4519 3.326747 GCTATGAACGAAACCTGACACT 58.673 45.455 0.00 0.00 0.00 3.55
1923 4561 1.330521 CGCATCCGGATAAAACACTGG 59.669 52.381 18.63 2.12 0.00 4.00
1953 4591 1.066929 GTCATGCCATTTGGTTCCACC 60.067 52.381 0.00 0.00 39.22 4.61
2088 4726 6.527722 CACATTTAGCATACATGTCAACCAAC 59.472 38.462 0.00 0.00 0.00 3.77
2149 4787 3.439895 GAAGATGTCCTTCTCGGGTAC 57.560 52.381 0.00 0.00 46.03 3.34
2208 4846 1.006832 CATACGCCTTGCCACAGTAC 58.993 55.000 0.00 0.00 0.00 2.73
2226 4864 4.356405 TTCCATCTTGCAGAAGAGTTCA 57.644 40.909 0.00 0.00 41.62 3.18
2742 5380 9.185192 CCTTGTTGCTTCATTTTAAAGAAGTAG 57.815 33.333 15.00 7.87 42.42 2.57
2787 5425 3.686726 CCCTGATAACAGCTGTCAAAGTC 59.313 47.826 21.95 13.72 42.25 3.01
2814 5452 2.458706 AGATACCATCCCCTCCATACCA 59.541 50.000 0.00 0.00 0.00 3.25
2883 5521 5.708697 TGCTGCATAATGATCTAAATCTGGG 59.291 40.000 0.00 0.00 32.75 4.45
2977 5615 5.222254 ACTCCCACAGTATTAAATTGGGTGT 60.222 40.000 6.81 6.81 46.27 4.16
2990 5628 5.586877 AGGTTAGTAATGACTCCCACAGTA 58.413 41.667 0.00 0.00 37.10 2.74
3117 5755 2.842496 AGATTGTCCAGCAAGATCCTGA 59.158 45.455 0.00 0.00 40.86 3.86
3293 5931 2.441001 AGCATAGAGGGTCCCATTTCAG 59.559 50.000 11.55 0.00 0.00 3.02
3297 5935 2.373502 GCTAAGCATAGAGGGTCCCATT 59.626 50.000 11.55 0.00 0.00 3.16
3353 5991 2.038426 TGGATTCTCGCAACTTCTTCCA 59.962 45.455 0.00 0.00 0.00 3.53
3367 6005 7.707624 TTGCTAATTTCTCACAATGGATTCT 57.292 32.000 0.00 0.00 0.00 2.40
3408 6046 3.013219 GCTTCTGAAGTGAGGGGAATTC 58.987 50.000 17.97 0.00 0.00 2.17
3468 6106 3.314541 ACTAACTTAGCGAAGGTGTGG 57.685 47.619 7.45 0.54 40.22 4.17
3838 6478 6.173339 AGTGTCAACTATACAAGAATGGTGG 58.827 40.000 0.00 0.00 33.79 4.61
3963 6605 7.811653 TCGTTTACAATGAATTCACTAATGCA 58.188 30.769 11.07 0.00 35.02 3.96
4054 6697 1.667236 TAGAGGCATGCAACCATTCG 58.333 50.000 21.36 0.00 0.00 3.34
4138 6789 9.660180 AGACTGAAGAAGAAATTTGTCCTATAC 57.340 33.333 0.00 0.00 0.00 1.47
4327 6997 9.442047 CTAGATATTTCCATCCAATGACCTAAC 57.558 37.037 0.00 0.00 0.00 2.34
4349 7019 0.614979 GGCACCTGAGACCCACTAGA 60.615 60.000 0.00 0.00 0.00 2.43
4351 7021 0.472925 TTGGCACCTGAGACCCACTA 60.473 55.000 0.00 0.00 0.00 2.74
4376 7046 6.169557 TGACTAGCCTAAGTGAAAGTTCAA 57.830 37.500 0.00 0.00 39.21 2.69
4392 7062 5.855740 AAGTTACTCCCACTATGACTAGC 57.144 43.478 0.00 0.00 0.00 3.42
4393 7063 6.773685 AGCTAAGTTACTCCCACTATGACTAG 59.226 42.308 0.00 0.00 0.00 2.57
4394 7064 6.670617 AGCTAAGTTACTCCCACTATGACTA 58.329 40.000 0.00 0.00 0.00 2.59
4395 7065 5.520751 AGCTAAGTTACTCCCACTATGACT 58.479 41.667 0.00 0.00 0.00 3.41
4396 7066 5.855740 AGCTAAGTTACTCCCACTATGAC 57.144 43.478 0.00 0.00 0.00 3.06
4397 7067 6.670617 ACTAGCTAAGTTACTCCCACTATGA 58.329 40.000 0.00 0.00 33.35 2.15
4398 7068 6.963083 ACTAGCTAAGTTACTCCCACTATG 57.037 41.667 0.00 0.00 33.35 2.23
4399 7069 8.057623 TGTTACTAGCTAAGTTACTCCCACTAT 58.942 37.037 0.00 0.00 38.33 2.12
4400 7070 7.405292 TGTTACTAGCTAAGTTACTCCCACTA 58.595 38.462 0.00 0.00 38.33 2.74
4401 7071 6.251471 TGTTACTAGCTAAGTTACTCCCACT 58.749 40.000 0.00 0.00 38.33 4.00
4402 7072 6.521151 TGTTACTAGCTAAGTTACTCCCAC 57.479 41.667 0.00 0.00 38.33 4.61
4403 7073 7.014038 GCTATGTTACTAGCTAAGTTACTCCCA 59.986 40.741 0.00 0.00 40.79 4.37
4404 7074 7.369607 GCTATGTTACTAGCTAAGTTACTCCC 58.630 42.308 0.00 0.00 40.79 4.30
4405 7075 7.076983 CGCTATGTTACTAGCTAAGTTACTCC 58.923 42.308 0.00 0.00 41.61 3.85
4406 7076 6.578172 GCGCTATGTTACTAGCTAAGTTACTC 59.422 42.308 0.00 0.00 41.61 2.59
4407 7077 6.039047 TGCGCTATGTTACTAGCTAAGTTACT 59.961 38.462 9.73 0.00 41.61 2.24
4408 7078 6.142002 GTGCGCTATGTTACTAGCTAAGTTAC 59.858 42.308 9.73 0.79 41.61 2.50
4409 7079 6.039047 AGTGCGCTATGTTACTAGCTAAGTTA 59.961 38.462 9.73 0.00 41.61 2.24
4410 7080 5.041940 GTGCGCTATGTTACTAGCTAAGTT 58.958 41.667 9.73 0.00 41.61 2.66
4411 7081 4.338682 AGTGCGCTATGTTACTAGCTAAGT 59.661 41.667 9.73 0.00 41.61 2.24
4412 7082 4.861210 AGTGCGCTATGTTACTAGCTAAG 58.139 43.478 9.73 0.00 41.61 2.18
4413 7083 4.913335 AGTGCGCTATGTTACTAGCTAA 57.087 40.909 9.73 0.00 41.61 3.09
4414 7084 4.337274 TGAAGTGCGCTATGTTACTAGCTA 59.663 41.667 9.73 0.00 41.61 3.32
4415 7085 3.130516 TGAAGTGCGCTATGTTACTAGCT 59.869 43.478 9.73 0.00 41.61 3.32
4416 7086 3.444916 TGAAGTGCGCTATGTTACTAGC 58.555 45.455 9.73 0.00 40.61 3.42
4417 7087 5.340803 TCTTGAAGTGCGCTATGTTACTAG 58.659 41.667 9.73 0.00 0.00 2.57
4418 7088 5.319140 TCTTGAAGTGCGCTATGTTACTA 57.681 39.130 9.73 0.00 0.00 1.82
4419 7089 4.188247 TCTTGAAGTGCGCTATGTTACT 57.812 40.909 9.73 0.00 0.00 2.24
4420 7090 4.921470 TTCTTGAAGTGCGCTATGTTAC 57.079 40.909 9.73 0.00 0.00 2.50
4421 7091 6.494893 AAATTCTTGAAGTGCGCTATGTTA 57.505 33.333 9.73 0.00 0.00 2.41
4422 7092 5.376854 AAATTCTTGAAGTGCGCTATGTT 57.623 34.783 9.73 0.00 0.00 2.71
4423 7093 5.376854 AAAATTCTTGAAGTGCGCTATGT 57.623 34.783 9.73 0.00 0.00 2.29
4447 7117 7.555914 TCTCATTAATTACTTGCCACATAAGCA 59.444 33.333 0.00 0.00 38.81 3.91
4448 7118 7.930217 TCTCATTAATTACTTGCCACATAAGC 58.070 34.615 0.00 0.00 0.00 3.09
4449 7119 8.562892 CCTCTCATTAATTACTTGCCACATAAG 58.437 37.037 0.00 0.00 0.00 1.73
4450 7120 8.052748 ACCTCTCATTAATTACTTGCCACATAA 58.947 33.333 0.00 0.00 0.00 1.90
4451 7121 7.498900 CACCTCTCATTAATTACTTGCCACATA 59.501 37.037 0.00 0.00 0.00 2.29
4452 7122 6.319658 CACCTCTCATTAATTACTTGCCACAT 59.680 38.462 0.00 0.00 0.00 3.21
4453 7123 5.647658 CACCTCTCATTAATTACTTGCCACA 59.352 40.000 0.00 0.00 0.00 4.17
4454 7124 5.066505 CCACCTCTCATTAATTACTTGCCAC 59.933 44.000 0.00 0.00 0.00 5.01
4455 7125 5.192927 CCACCTCTCATTAATTACTTGCCA 58.807 41.667 0.00 0.00 0.00 4.92
4456 7126 5.193679 ACCACCTCTCATTAATTACTTGCC 58.806 41.667 0.00 0.00 0.00 4.52
4457 7127 7.335924 TGTTACCACCTCTCATTAATTACTTGC 59.664 37.037 0.00 0.00 0.00 4.01
4458 7128 8.786826 TGTTACCACCTCTCATTAATTACTTG 57.213 34.615 0.00 0.00 0.00 3.16
4489 7159 7.570507 CTTGAAAAGCGCTATGTTACAGTAACA 60.571 37.037 25.09 25.09 44.55 2.41
4490 7160 6.160664 TGAAAAGCGCTATGTTACAGTAAC 57.839 37.500 12.05 15.58 39.11 2.50
4491 7161 6.647481 TCTTGAAAAGCGCTATGTTACAGTAA 59.353 34.615 12.05 0.00 45.70 2.24
4492 7162 6.090358 GTCTTGAAAAGCGCTATGTTACAGTA 59.910 38.462 12.05 0.00 45.70 2.74
4493 7163 4.994852 TCTTGAAAAGCGCTATGTTACAGT 59.005 37.500 12.05 0.00 45.70 3.55
4494 7164 5.107104 TGTCTTGAAAAGCGCTATGTTACAG 60.107 40.000 12.05 5.30 45.70 2.74
4495 7165 4.752604 TGTCTTGAAAAGCGCTATGTTACA 59.247 37.500 12.05 7.09 45.70 2.41
4496 7166 5.277601 TGTCTTGAAAAGCGCTATGTTAC 57.722 39.130 12.05 4.27 45.70 2.50
4497 7167 5.699001 TCTTGTCTTGAAAAGCGCTATGTTA 59.301 36.000 12.05 0.00 45.70 2.41
4498 7168 4.515191 TCTTGTCTTGAAAAGCGCTATGTT 59.485 37.500 12.05 5.31 45.70 2.71
4499 7169 4.065088 TCTTGTCTTGAAAAGCGCTATGT 58.935 39.130 12.05 0.00 45.70 2.29
4500 7170 4.668576 TCTTGTCTTGAAAAGCGCTATG 57.331 40.909 12.05 0.00 45.70 2.23
4501 7171 4.937620 TCATCTTGTCTTGAAAAGCGCTAT 59.062 37.500 12.05 1.76 45.70 2.97
4502 7172 4.314961 TCATCTTGTCTTGAAAAGCGCTA 58.685 39.130 12.05 0.00 45.70 4.26
4503 7173 3.141398 TCATCTTGTCTTGAAAAGCGCT 58.859 40.909 2.64 2.64 45.70 5.92
4504 7174 3.058639 ACTCATCTTGTCTTGAAAAGCGC 60.059 43.478 0.00 0.00 45.70 5.92
4505 7175 4.450419 AGACTCATCTTGTCTTGAAAAGCG 59.550 41.667 0.00 0.00 45.70 4.68
4506 7176 5.938438 AGACTCATCTTGTCTTGAAAAGC 57.062 39.130 0.00 0.00 45.70 3.51
4507 7177 7.953158 TGTAGACTCATCTTGTCTTGAAAAG 57.047 36.000 1.67 0.00 41.45 2.27
4508 7178 8.731275 TTTGTAGACTCATCTTGTCTTGAAAA 57.269 30.769 1.67 0.00 41.45 2.29
4509 7179 8.731275 TTTTGTAGACTCATCTTGTCTTGAAA 57.269 30.769 1.67 0.35 41.45 2.69
4510 7180 8.908786 ATTTTGTAGACTCATCTTGTCTTGAA 57.091 30.769 1.67 0.00 41.45 2.69
4511 7181 9.996554 TTATTTTGTAGACTCATCTTGTCTTGA 57.003 29.630 1.67 0.00 41.45 3.02


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

AutoCloner maintained by Alex Coulton.