Multiple sequence alignment - TraesCS7B01G258900

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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 TraesCS7B01G258900 chr7B 100.000 4010 0 0 1 4010 479490719 479494728 0.000000e+00 7406.0
1 TraesCS7B01G258900 chr7D 94.637 2256 86 16 974 3202 457184625 457186872 0.000000e+00 3463.0
2 TraesCS7B01G258900 chr7D 93.180 2302 118 17 1097 3379 201196087 201193806 0.000000e+00 3345.0
3 TraesCS7B01G258900 chr7D 95.833 600 24 1 3411 4009 598046029 598046628 0.000000e+00 968.0
4 TraesCS7B01G258900 chr7D 92.419 277 6 6 676 952 457183986 457184247 8.130000e-102 381.0
5 TraesCS7B01G258900 chr7D 95.690 232 10 0 8 239 457180172 457180403 1.360000e-99 374.0
6 TraesCS7B01G258900 chr7D 91.364 220 17 2 234 451 457183681 457183900 2.340000e-77 300.0
7 TraesCS7B01G258900 chr7D 85.475 179 14 6 791 957 201196744 201196566 4.120000e-40 176.0
8 TraesCS7B01G258900 chr7D 87.342 79 4 4 245 320 201196980 201196905 7.140000e-13 86.1
9 TraesCS7B01G258900 chr7D 88.679 53 5 1 129 180 139191959 139191907 3.350000e-06 63.9
10 TraesCS7B01G258900 chr7A 92.619 2371 103 29 955 3286 543067238 543064901 0.000000e+00 3343.0
11 TraesCS7B01G258900 chr7A 93.266 594 36 4 3419 4010 7003903 7003312 0.000000e+00 872.0
12 TraesCS7B01G258900 chr7A 91.304 598 45 5 3418 4010 653998901 653999496 0.000000e+00 809.0
13 TraesCS7B01G258900 chr7A 92.562 242 15 3 67 306 543070145 543069905 1.070000e-90 344.0
14 TraesCS7B01G258900 chr7A 95.833 48 2 0 791 838 543068156 543068109 1.190000e-10 78.7
15 TraesCS7B01G258900 chr5A 96.860 605 18 1 3406 4009 597322298 597322902 0.000000e+00 1011.0
16 TraesCS7B01G258900 chr1A 96.672 601 19 1 3411 4010 97187340 97186740 0.000000e+00 998.0
17 TraesCS7B01G258900 chr3A 96.512 602 19 2 3411 4010 686898399 686897798 0.000000e+00 994.0
18 TraesCS7B01G258900 chr3A 93.813 598 34 3 3415 4010 515256480 515257076 0.000000e+00 896.0
19 TraesCS7B01G258900 chr3A 80.870 115 17 5 73 186 283109839 283109729 7.140000e-13 86.1
20 TraesCS7B01G258900 chr6B 96.500 600 20 1 3411 4009 32817943 32817344 0.000000e+00 990.0
21 TraesCS7B01G258900 chr6B 91.566 166 13 1 513 677 439481824 439481659 1.120000e-55 228.0
22 TraesCS7B01G258900 chr6A 95.000 600 28 2 3411 4009 58817761 58818359 0.000000e+00 941.0
23 TraesCS7B01G258900 chr4D 86.495 311 40 2 2607 2916 456086997 456087306 1.380000e-89 340.0
24 TraesCS7B01G258900 chr5D 74.407 590 133 15 2420 3001 305731755 305732334 1.860000e-58 237.0
25 TraesCS7B01G258900 chr5D 90.964 166 14 1 513 677 521863990 521864155 5.220000e-54 222.0
26 TraesCS7B01G258900 chr5D 91.018 167 12 3 513 678 543744722 543744558 5.220000e-54 222.0
27 TraesCS7B01G258900 chr5D 89.080 174 17 2 505 677 493226006 493226178 8.730000e-52 215.0
28 TraesCS7B01G258900 chr5B 74.106 587 137 12 2420 3001 350413314 350413890 1.120000e-55 228.0
29 TraesCS7B01G258900 chr5B 89.655 174 16 2 507 679 61071908 61072080 1.880000e-53 220.0
30 TraesCS7B01G258900 chr5B 83.607 61 9 1 2438 2497 13267003 13267063 5.600000e-04 56.5
31 TraesCS7B01G258900 chr1B 91.566 166 13 1 513 677 484457556 484457721 1.120000e-55 228.0
32 TraesCS7B01G258900 chr1B 90.476 168 13 2 513 678 560496488 560496654 6.750000e-53 219.0
33 TraesCS7B01G258900 chr2B 91.018 167 13 2 513 677 591109942 591109776 1.450000e-54 224.0
34 TraesCS7B01G258900 chr3B 90.964 166 14 1 513 677 40229186 40229351 5.220000e-54 222.0
35 TraesCS7B01G258900 chr3B 88.136 59 6 1 130 187 571760404 571760462 7.190000e-08 69.4
36 TraesCS7B01G258900 chr1D 96.970 33 1 0 68 100 318721796 318721828 5.600000e-04 56.5
37 TraesCS7B01G258900 chr2D 96.774 31 1 0 160 190 540838332 540838302 7.000000e-03 52.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G258900 chr7B 479490719 479494728 4009 False 7406.000000 7406 100.000000 1 4010 1 chr7B.!!$F1 4009
1 TraesCS7B01G258900 chr7D 201193806 201196980 3174 True 1202.366667 3345 88.665667 245 3379 3 chr7D.!!$R2 3134
2 TraesCS7B01G258900 chr7D 457180172 457186872 6700 False 1129.500000 3463 93.527500 8 3202 4 chr7D.!!$F2 3194
3 TraesCS7B01G258900 chr7D 598046029 598046628 599 False 968.000000 968 95.833000 3411 4009 1 chr7D.!!$F1 598
4 TraesCS7B01G258900 chr7A 543064901 543070145 5244 True 1255.233333 3343 93.671333 67 3286 3 chr7A.!!$R2 3219
5 TraesCS7B01G258900 chr7A 7003312 7003903 591 True 872.000000 872 93.266000 3419 4010 1 chr7A.!!$R1 591
6 TraesCS7B01G258900 chr7A 653998901 653999496 595 False 809.000000 809 91.304000 3418 4010 1 chr7A.!!$F1 592
7 TraesCS7B01G258900 chr5A 597322298 597322902 604 False 1011.000000 1011 96.860000 3406 4009 1 chr5A.!!$F1 603
8 TraesCS7B01G258900 chr1A 97186740 97187340 600 True 998.000000 998 96.672000 3411 4010 1 chr1A.!!$R1 599
9 TraesCS7B01G258900 chr3A 686897798 686898399 601 True 994.000000 994 96.512000 3411 4010 1 chr3A.!!$R2 599
10 TraesCS7B01G258900 chr3A 515256480 515257076 596 False 896.000000 896 93.813000 3415 4010 1 chr3A.!!$F1 595
11 TraesCS7B01G258900 chr6B 32817344 32817943 599 True 990.000000 990 96.500000 3411 4009 1 chr6B.!!$R1 598
12 TraesCS7B01G258900 chr6A 58817761 58818359 598 False 941.000000 941 95.000000 3411 4009 1 chr6A.!!$F1 598
13 TraesCS7B01G258900 chr5D 305731755 305732334 579 False 237.000000 237 74.407000 2420 3001 1 chr5D.!!$F1 581
14 TraesCS7B01G258900 chr5B 350413314 350413890 576 False 228.000000 228 74.106000 2420 3001 1 chr5B.!!$F3 581

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
844 5449 0.030705 TCTCAATCCCTAGCTGCCCT 60.031 55.0 0.00 0.0 0.0 5.19 F
1925 8100 0.463204 CGTCCCTGCAGAGATGATGT 59.537 55.0 17.39 0.0 0.0 3.06 F
2889 9074 0.039618 TGGGGGAATCACTCTTTGGC 59.960 55.0 0.00 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2639 8824 1.073722 TCCAAGCTGAACAGGCCAG 59.926 57.895 5.01 0.0 34.88 4.85 R
2982 9167 0.458025 GTGGTCGCGAGTTCTTAGGG 60.458 60.000 10.24 0.0 0.00 3.53 R
3989 10192 2.710377 AGGCTATTGCATGTTTGTCGA 58.290 42.857 0.66 0.0 41.91 4.20 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
22 23 3.248446 TTTCCCACGCTTCCCGAGG 62.248 63.158 0.00 0.00 45.74 4.63
29 30 1.153449 CGCTTCCCGAGGCATACAA 60.153 57.895 0.00 0.00 40.02 2.41
63 64 3.426568 GCACTGTTGCGCCCTCTC 61.427 66.667 4.18 0.00 39.50 3.20
255 3541 9.853555 TCATCAACATTACAAATTATGGTCAAC 57.146 29.630 0.00 0.00 0.00 3.18
295 3584 0.509499 CACGGCGCTAAAACTCGAAA 59.491 50.000 6.90 0.00 0.00 3.46
313 4876 0.179056 AACCCCCTCATCATAACGCG 60.179 55.000 3.53 3.53 0.00 6.01
328 4891 4.618513 GCGAGAGAGATGCGGTAC 57.381 61.111 0.00 0.00 0.00 3.34
333 4896 0.680280 AGAGAGATGCGGTACCGTGT 60.680 55.000 33.34 22.66 42.09 4.49
411 4974 5.284079 CAAATTTTTAGCCTGATGGATCGG 58.716 41.667 0.00 0.00 32.27 4.18
447 5010 1.140407 CGCTCGGGAAGACGATCAAC 61.140 60.000 0.00 0.00 42.62 3.18
448 5011 0.173708 GCTCGGGAAGACGATCAACT 59.826 55.000 0.00 0.00 42.62 3.16
449 5012 1.914634 CTCGGGAAGACGATCAACTG 58.085 55.000 0.00 0.00 42.62 3.16
498 5093 2.192664 TCACGCAAGAATTTAGGGCA 57.807 45.000 0.00 0.00 43.62 5.36
501 5096 3.509575 TCACGCAAGAATTTAGGGCAAAT 59.490 39.130 0.00 0.00 38.67 2.32
506 5101 5.646606 GCAAGAATTTAGGGCAAATCGTAA 58.353 37.500 0.00 0.00 35.74 3.18
507 5102 6.096695 GCAAGAATTTAGGGCAAATCGTAAA 58.903 36.000 0.00 0.00 35.74 2.01
508 5103 6.756542 GCAAGAATTTAGGGCAAATCGTAAAT 59.243 34.615 0.00 0.00 38.52 1.40
509 5104 7.043391 GCAAGAATTTAGGGCAAATCGTAAATC 60.043 37.037 0.00 0.00 36.97 2.17
510 5105 6.725246 AGAATTTAGGGCAAATCGTAAATCG 58.275 36.000 0.00 0.00 36.97 3.34
537 5132 5.356882 TTTAACACAGTACAGATGCAAGC 57.643 39.130 0.00 0.00 0.00 4.01
538 5133 1.432514 ACACAGTACAGATGCAAGCG 58.567 50.000 0.00 0.00 0.00 4.68
539 5134 0.095935 CACAGTACAGATGCAAGCGC 59.904 55.000 0.00 0.00 39.24 5.92
540 5135 0.036952 ACAGTACAGATGCAAGCGCT 60.037 50.000 2.64 2.64 39.64 5.92
541 5136 0.649475 CAGTACAGATGCAAGCGCTC 59.351 55.000 12.06 0.00 39.64 5.03
542 5137 0.247460 AGTACAGATGCAAGCGCTCA 59.753 50.000 12.06 5.63 39.64 4.26
543 5138 1.134580 AGTACAGATGCAAGCGCTCAT 60.135 47.619 12.06 11.47 39.64 2.90
544 5139 2.101415 AGTACAGATGCAAGCGCTCATA 59.899 45.455 12.06 0.00 39.64 2.15
545 5140 2.251409 ACAGATGCAAGCGCTCATAT 57.749 45.000 12.06 5.22 39.64 1.78
546 5141 3.391506 ACAGATGCAAGCGCTCATATA 57.608 42.857 12.06 0.00 39.64 0.86
547 5142 3.935315 ACAGATGCAAGCGCTCATATAT 58.065 40.909 12.06 0.81 39.64 0.86
548 5143 5.077134 ACAGATGCAAGCGCTCATATATA 57.923 39.130 12.06 0.00 39.64 0.86
549 5144 4.867047 ACAGATGCAAGCGCTCATATATAC 59.133 41.667 12.06 0.00 39.64 1.47
550 5145 4.027050 CAGATGCAAGCGCTCATATATACG 60.027 45.833 12.06 0.00 39.64 3.06
558 5153 3.359654 CGCTCATATATACGCGCATACA 58.640 45.455 5.73 0.00 39.11 2.29
559 5154 3.177838 CGCTCATATATACGCGCATACAC 59.822 47.826 5.73 0.00 39.11 2.90
560 5155 4.352039 GCTCATATATACGCGCATACACT 58.648 43.478 5.73 0.00 0.00 3.55
561 5156 4.438145 GCTCATATATACGCGCATACACTC 59.562 45.833 5.73 0.00 0.00 3.51
562 5157 5.554822 TCATATATACGCGCATACACTCA 57.445 39.130 5.73 0.00 0.00 3.41
563 5158 5.329493 TCATATATACGCGCATACACTCAC 58.671 41.667 5.73 0.00 0.00 3.51
564 5159 2.410785 TATACGCGCATACACTCACC 57.589 50.000 5.73 0.00 0.00 4.02
565 5160 0.249322 ATACGCGCATACACTCACCC 60.249 55.000 5.73 0.00 0.00 4.61
566 5161 2.287457 TACGCGCATACACTCACCCC 62.287 60.000 5.73 0.00 0.00 4.95
567 5162 2.584608 GCGCATACACTCACCCCT 59.415 61.111 0.30 0.00 0.00 4.79
568 5163 1.820581 GCGCATACACTCACCCCTA 59.179 57.895 0.30 0.00 0.00 3.53
569 5164 0.393077 GCGCATACACTCACCCCTAT 59.607 55.000 0.30 0.00 0.00 2.57
570 5165 1.873903 GCGCATACACTCACCCCTATG 60.874 57.143 0.30 0.00 0.00 2.23
571 5166 1.686587 CGCATACACTCACCCCTATGA 59.313 52.381 0.00 0.00 0.00 2.15
572 5167 2.102420 CGCATACACTCACCCCTATGAA 59.898 50.000 0.00 0.00 0.00 2.57
573 5168 3.244215 CGCATACACTCACCCCTATGAAT 60.244 47.826 0.00 0.00 0.00 2.57
574 5169 4.067896 GCATACACTCACCCCTATGAATG 58.932 47.826 0.00 0.00 32.12 2.67
575 5170 2.717639 ACACTCACCCCTATGAATGC 57.282 50.000 0.00 0.00 28.78 3.56
576 5171 1.915489 ACACTCACCCCTATGAATGCA 59.085 47.619 0.00 0.00 28.78 3.96
577 5172 2.292267 CACTCACCCCTATGAATGCAC 58.708 52.381 0.00 0.00 0.00 4.57
578 5173 1.915489 ACTCACCCCTATGAATGCACA 59.085 47.619 0.00 0.00 0.00 4.57
579 5174 2.292267 CTCACCCCTATGAATGCACAC 58.708 52.381 0.00 0.00 0.00 3.82
580 5175 1.632920 TCACCCCTATGAATGCACACA 59.367 47.619 0.00 0.00 0.00 3.72
581 5176 1.745087 CACCCCTATGAATGCACACAC 59.255 52.381 0.00 0.00 0.00 3.82
582 5177 1.016627 CCCCTATGAATGCACACACG 58.983 55.000 0.00 0.00 0.00 4.49
583 5178 0.378257 CCCTATGAATGCACACACGC 59.622 55.000 0.00 0.00 0.00 5.34
585 5180 1.202065 CCTATGAATGCACACACGCAC 60.202 52.381 0.00 0.00 46.56 5.34
586 5181 1.464219 CTATGAATGCACACACGCACA 59.536 47.619 0.00 0.00 46.56 4.57
587 5182 0.040157 ATGAATGCACACACGCACAC 60.040 50.000 0.00 0.00 46.56 3.82
588 5183 1.370414 GAATGCACACACGCACACC 60.370 57.895 0.00 0.00 46.56 4.16
589 5184 2.731587 GAATGCACACACGCACACCC 62.732 60.000 0.00 0.00 46.56 4.61
590 5185 3.772853 ATGCACACACGCACACCCT 62.773 57.895 0.00 0.00 46.56 4.34
591 5186 2.280524 GCACACACGCACACCCTA 60.281 61.111 0.00 0.00 0.00 3.53
592 5187 1.671054 GCACACACGCACACCCTAT 60.671 57.895 0.00 0.00 0.00 2.57
593 5188 1.635663 GCACACACGCACACCCTATC 61.636 60.000 0.00 0.00 0.00 2.08
594 5189 1.019278 CACACACGCACACCCTATCC 61.019 60.000 0.00 0.00 0.00 2.59
595 5190 1.192146 ACACACGCACACCCTATCCT 61.192 55.000 0.00 0.00 0.00 3.24
596 5191 0.821517 CACACGCACACCCTATCCTA 59.178 55.000 0.00 0.00 0.00 2.94
597 5192 1.412710 CACACGCACACCCTATCCTAT 59.587 52.381 0.00 0.00 0.00 2.57
598 5193 1.412710 ACACGCACACCCTATCCTATG 59.587 52.381 0.00 0.00 0.00 2.23
599 5194 1.686587 CACGCACACCCTATCCTATGA 59.313 52.381 0.00 0.00 0.00 2.15
600 5195 1.964223 ACGCACACCCTATCCTATGAG 59.036 52.381 0.00 0.00 0.00 2.90
601 5196 1.337260 CGCACACCCTATCCTATGAGC 60.337 57.143 0.00 0.00 0.00 4.26
602 5197 1.694150 GCACACCCTATCCTATGAGCA 59.306 52.381 0.00 0.00 0.00 4.26
603 5198 2.548920 GCACACCCTATCCTATGAGCAC 60.549 54.545 0.00 0.00 0.00 4.40
604 5199 2.037772 CACACCCTATCCTATGAGCACC 59.962 54.545 0.00 0.00 0.00 5.01
605 5200 2.090494 ACACCCTATCCTATGAGCACCT 60.090 50.000 0.00 0.00 0.00 4.00
606 5201 2.301296 CACCCTATCCTATGAGCACCTG 59.699 54.545 0.00 0.00 0.00 4.00
607 5202 1.277557 CCCTATCCTATGAGCACCTGC 59.722 57.143 0.00 0.00 42.49 4.85
617 5212 4.361253 GCACCTGCGAAAGACTGA 57.639 55.556 0.00 0.00 0.00 3.41
618 5213 2.157421 GCACCTGCGAAAGACTGAG 58.843 57.895 0.00 0.00 0.00 3.35
619 5214 1.905922 GCACCTGCGAAAGACTGAGC 61.906 60.000 0.00 0.00 0.00 4.26
620 5215 1.004440 ACCTGCGAAAGACTGAGCC 60.004 57.895 0.00 0.00 0.00 4.70
621 5216 1.294780 CCTGCGAAAGACTGAGCCT 59.705 57.895 0.00 0.00 0.00 4.58
622 5217 0.532573 CCTGCGAAAGACTGAGCCTA 59.467 55.000 0.00 0.00 0.00 3.93
623 5218 1.634702 CTGCGAAAGACTGAGCCTAC 58.365 55.000 0.00 0.00 0.00 3.18
624 5219 0.966179 TGCGAAAGACTGAGCCTACA 59.034 50.000 0.00 0.00 0.00 2.74
625 5220 1.550524 TGCGAAAGACTGAGCCTACAT 59.449 47.619 0.00 0.00 0.00 2.29
626 5221 2.758423 TGCGAAAGACTGAGCCTACATA 59.242 45.455 0.00 0.00 0.00 2.29
627 5222 3.384789 TGCGAAAGACTGAGCCTACATAT 59.615 43.478 0.00 0.00 0.00 1.78
628 5223 3.984633 GCGAAAGACTGAGCCTACATATC 59.015 47.826 0.00 0.00 0.00 1.63
629 5224 4.499865 GCGAAAGACTGAGCCTACATATCA 60.500 45.833 0.00 0.00 0.00 2.15
630 5225 5.777802 CGAAAGACTGAGCCTACATATCAT 58.222 41.667 0.00 0.00 0.00 2.45
631 5226 6.219473 CGAAAGACTGAGCCTACATATCATT 58.781 40.000 0.00 0.00 0.00 2.57
632 5227 6.703607 CGAAAGACTGAGCCTACATATCATTT 59.296 38.462 0.00 0.00 0.00 2.32
633 5228 7.225538 CGAAAGACTGAGCCTACATATCATTTT 59.774 37.037 0.00 0.00 0.00 1.82
634 5229 9.547753 GAAAGACTGAGCCTACATATCATTTTA 57.452 33.333 0.00 0.00 0.00 1.52
635 5230 9.905713 AAAGACTGAGCCTACATATCATTTTAA 57.094 29.630 0.00 0.00 0.00 1.52
636 5231 9.905713 AAGACTGAGCCTACATATCATTTTAAA 57.094 29.630 0.00 0.00 0.00 1.52
637 5232 9.905713 AGACTGAGCCTACATATCATTTTAAAA 57.094 29.630 2.51 2.51 0.00 1.52
658 5253 7.759489 AAAATTTATGAAGTCACTGTAGGCA 57.241 32.000 0.00 0.00 0.00 4.75
659 5254 6.743575 AATTTATGAAGTCACTGTAGGCAC 57.256 37.500 0.00 0.00 0.00 5.01
660 5255 2.770164 ATGAAGTCACTGTAGGCACC 57.230 50.000 0.00 0.00 0.00 5.01
661 5256 1.717032 TGAAGTCACTGTAGGCACCT 58.283 50.000 0.00 0.00 0.00 4.00
662 5257 1.618837 TGAAGTCACTGTAGGCACCTC 59.381 52.381 0.00 0.00 0.00 3.85
663 5258 0.603569 AAGTCACTGTAGGCACCTCG 59.396 55.000 0.00 0.00 0.00 4.63
664 5259 0.539901 AGTCACTGTAGGCACCTCGT 60.540 55.000 0.00 0.00 0.00 4.18
665 5260 0.109226 GTCACTGTAGGCACCTCGTC 60.109 60.000 0.00 0.00 0.00 4.20
666 5261 1.154016 CACTGTAGGCACCTCGTCG 60.154 63.158 0.00 0.00 0.00 5.12
667 5262 1.602888 ACTGTAGGCACCTCGTCGT 60.603 57.895 0.00 0.00 0.00 4.34
668 5263 1.177256 ACTGTAGGCACCTCGTCGTT 61.177 55.000 0.00 0.00 0.00 3.85
669 5264 0.732880 CTGTAGGCACCTCGTCGTTG 60.733 60.000 0.00 0.00 0.00 4.10
670 5265 1.174078 TGTAGGCACCTCGTCGTTGA 61.174 55.000 0.00 0.00 0.00 3.18
671 5266 0.731855 GTAGGCACCTCGTCGTTGAC 60.732 60.000 0.00 0.00 0.00 3.18
687 5282 4.682401 TCGTTGACGAGAAATCGATTTTGA 59.318 37.500 23.49 0.09 44.22 2.69
690 5285 3.932710 TGACGAGAAATCGATTTTGAGGG 59.067 43.478 23.49 13.71 36.85 4.30
711 5306 4.762251 GGGTATGGAATTTAGGACATCTGC 59.238 45.833 0.00 0.00 0.00 4.26
776 5371 3.037833 GCAAAAAGCCGCAGTGCC 61.038 61.111 10.11 0.00 37.23 5.01
777 5372 2.730604 CAAAAAGCCGCAGTGCCG 60.731 61.111 10.11 3.99 0.00 5.69
844 5449 0.030705 TCTCAATCCCTAGCTGCCCT 60.031 55.000 0.00 0.00 0.00 5.19
921 6426 0.546122 TTATCAGCCGAGGTGCCATT 59.454 50.000 0.00 0.00 0.00 3.16
993 6854 1.201429 ATCAGGAGGTGGTGGTGGAC 61.201 60.000 0.00 0.00 0.00 4.02
1164 7334 5.682422 GCATCCTTTGTCAAATTGTTTTTGC 59.318 36.000 0.00 0.00 0.00 3.68
1236 7406 2.034842 GCGACGATGATTTAGTTGACCG 60.035 50.000 0.00 0.00 0.00 4.79
1663 7836 3.906720 TGATACTTCCACCAGTAAGCC 57.093 47.619 0.00 0.00 32.90 4.35
1686 7861 4.763793 CAGTCTGTTGATTTGATCCCTTGT 59.236 41.667 0.00 0.00 0.00 3.16
1690 7865 6.655003 GTCTGTTGATTTGATCCCTTGTCTAA 59.345 38.462 0.00 0.00 0.00 2.10
1709 7884 5.062809 GTCTAACAATCTGCTCTTGTGCTAC 59.937 44.000 0.91 0.00 36.95 3.58
1710 7885 3.407424 ACAATCTGCTCTTGTGCTACA 57.593 42.857 0.00 0.00 35.57 2.74
1732 7907 7.367159 ACATATGCATGTGTTTGGAAATTTG 57.633 32.000 21.95 0.00 43.89 2.32
1737 7912 8.795842 ATGCATGTGTTTGGAAATTTGATTAT 57.204 26.923 0.00 0.00 0.00 1.28
1828 8003 1.148310 GCTGCGTTTGTCAAGCTCTA 58.852 50.000 0.00 0.00 0.00 2.43
1843 8018 6.423302 GTCAAGCTCTACATCATATCCTGTTG 59.577 42.308 0.00 0.00 0.00 3.33
1925 8100 0.463204 CGTCCCTGCAGAGATGATGT 59.537 55.000 17.39 0.00 0.00 3.06
1960 8135 6.212589 TGACCAGGTAATCAAGTTAGACATGA 59.787 38.462 0.00 0.00 29.93 3.07
2050 8225 7.839680 ATGTTTGTTATCTTCTTTCCTTGGT 57.160 32.000 0.00 0.00 0.00 3.67
2082 8258 6.525629 ACTAAAAGTTAGTCATGTGTGCTCT 58.474 36.000 0.00 0.00 0.00 4.09
2102 8278 5.227569 TCTGATTTGTGCTTAAGACCTCA 57.772 39.130 6.67 4.84 0.00 3.86
2394 8579 8.804688 TTATTTAGTTTGTTATGTTGGCACAC 57.195 30.769 0.00 0.00 39.29 3.82
2399 8584 1.801771 TGTTATGTTGGCACACGCTAC 59.198 47.619 0.00 0.00 39.29 3.58
2579 8764 5.505654 CGGCTGACAAACAAATACTTTCTGT 60.506 40.000 0.00 0.00 0.00 3.41
2639 8824 7.598869 TGAAATGCTATATGGACAGATTCGTAC 59.401 37.037 0.00 0.00 0.00 3.67
2709 8894 3.066342 TCGAGGCCGTAATAGAAGTCTTG 59.934 47.826 0.00 0.00 37.05 3.02
2887 9072 3.160679 AGTTGGGGGAATCACTCTTTG 57.839 47.619 0.00 0.00 0.00 2.77
2889 9074 0.039618 TGGGGGAATCACTCTTTGGC 59.960 55.000 0.00 0.00 0.00 4.52
2893 9078 1.467920 GGAATCACTCTTTGGCTGGG 58.532 55.000 0.00 0.00 0.00 4.45
2940 9125 4.653341 CCTGTTAGGATTCCTGATGACTCT 59.347 45.833 15.80 0.00 37.67 3.24
2982 9167 1.541588 GATGTGAGGGTGTTCTTTGCC 59.458 52.381 0.00 0.00 0.00 4.52
3035 9221 1.779061 AAGACACCCCGTGCTGGATT 61.779 55.000 0.00 0.00 42.00 3.01
3048 9234 3.987220 GTGCTGGATTGTGCGTTTTATTT 59.013 39.130 0.00 0.00 0.00 1.40
3071 9257 6.398655 TTCTCCTAACTAAGTACCTCCTGA 57.601 41.667 0.00 0.00 0.00 3.86
3202 9388 5.419788 TGCATTTGATTGGAGCTACTTGATT 59.580 36.000 0.00 0.00 0.00 2.57
3203 9389 6.602803 TGCATTTGATTGGAGCTACTTGATTA 59.397 34.615 0.00 0.00 0.00 1.75
3205 9391 7.646314 CATTTGATTGGAGCTACTTGATTAGG 58.354 38.462 0.00 0.00 0.00 2.69
3221 9417 5.014202 TGATTAGGTTCCCTTTAGTTTGGC 58.986 41.667 0.00 0.00 34.61 4.52
3230 9426 3.119352 CCCTTTAGTTTGGCTGCATCTTC 60.119 47.826 0.50 0.00 0.00 2.87
3232 9428 4.142513 CCTTTAGTTTGGCTGCATCTTCTC 60.143 45.833 0.50 0.00 0.00 2.87
3240 9436 2.346803 GCTGCATCTTCTCGTGGTTTA 58.653 47.619 0.00 0.00 0.00 2.01
3266 9462 8.287503 ACGTTGTAAAATCTATTCTTTGGTGTC 58.712 33.333 0.00 0.00 0.00 3.67
3277 9473 4.387026 TCTTTGGTGTCCTTTCATGGAT 57.613 40.909 0.00 0.00 38.52 3.41
3289 9485 9.337396 TGTCCTTTCATGGATATTTGTATACAC 57.663 33.333 4.68 0.00 38.52 2.90
3290 9486 9.561069 GTCCTTTCATGGATATTTGTATACACT 57.439 33.333 4.68 0.00 38.52 3.55
3301 9497 9.910511 GATATTTGTATACACTAACCGTTGTTG 57.089 33.333 4.68 0.00 35.87 3.33
3317 9513 4.911610 CGTTGTTGATTTTTCTAGTGGCAG 59.088 41.667 0.00 0.00 0.00 4.85
3336 9532 7.232534 AGTGGCAGGTGAAAATTACTGAATAAA 59.767 33.333 0.00 0.00 32.86 1.40
3337 9533 8.034804 GTGGCAGGTGAAAATTACTGAATAAAT 58.965 33.333 0.00 0.00 32.86 1.40
3371 9567 3.403936 AGGTGACTGTTGCTTGTCC 57.596 52.632 0.00 0.00 41.13 4.02
3375 9571 3.073062 AGGTGACTGTTGCTTGTCCTATT 59.927 43.478 0.00 0.00 41.13 1.73
3379 9575 6.016610 GGTGACTGTTGCTTGTCCTATTTTAA 60.017 38.462 0.00 0.00 32.67 1.52
3380 9576 7.309194 GGTGACTGTTGCTTGTCCTATTTTAAT 60.309 37.037 0.00 0.00 32.67 1.40
3381 9577 8.082242 GTGACTGTTGCTTGTCCTATTTTAATT 58.918 33.333 0.00 0.00 32.67 1.40
3382 9578 8.637986 TGACTGTTGCTTGTCCTATTTTAATTT 58.362 29.630 0.00 0.00 32.67 1.82
3383 9579 9.476202 GACTGTTGCTTGTCCTATTTTAATTTT 57.524 29.630 0.00 0.00 0.00 1.82
3384 9580 9.830975 ACTGTTGCTTGTCCTATTTTAATTTTT 57.169 25.926 0.00 0.00 0.00 1.94
3517 9716 6.516739 TCCATTCATCCTCAGTACGATATC 57.483 41.667 0.00 0.00 0.00 1.63
3531 9733 4.839668 ACGATATCTACAGAGCTTCACC 57.160 45.455 0.34 0.00 0.00 4.02
3537 9739 4.436242 TCTACAGAGCTTCACCTTTACG 57.564 45.455 0.00 0.00 0.00 3.18
3984 10187 9.720769 CTTCTTACTTCTCCAACTAACCAAATA 57.279 33.333 0.00 0.00 0.00 1.40
3989 10192 7.699878 ACTTCTCCAACTAACCAAATATCCTT 58.300 34.615 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.031465 TCGGGAAGCGTGGGAAAC 59.969 61.111 0.00 0.00 0.00 2.78
4 5 2.345991 CTCGGGAAGCGTGGGAAA 59.654 61.111 0.00 0.00 0.00 3.13
5 6 3.702048 CCTCGGGAAGCGTGGGAA 61.702 66.667 0.00 0.00 0.00 3.97
63 64 8.322906 GTGATTAGCACAAACATTAATAACCG 57.677 34.615 0.00 0.00 46.91 4.44
108 109 6.709145 TGTTATGTGATTACGCGTAAAGTT 57.291 33.333 32.89 18.74 38.93 2.66
255 3541 5.107453 CGTGCTTACTTTGGACTTTACAGAG 60.107 44.000 0.00 0.00 0.00 3.35
295 3584 1.046472 TCGCGTTATGATGAGGGGGT 61.046 55.000 5.77 0.00 0.00 4.95
313 4876 0.029567 CACGGTACCGCATCTCTCTC 59.970 60.000 33.62 0.00 44.19 3.20
328 4891 3.025978 TCTACCTACCATAACCACACGG 58.974 50.000 0.00 0.00 38.77 4.94
333 4896 4.543689 CTGACCTCTACCTACCATAACCA 58.456 47.826 0.00 0.00 0.00 3.67
338 4901 3.132056 TCTCCTGACCTCTACCTACCAT 58.868 50.000 0.00 0.00 0.00 3.55
342 4905 2.206223 TGCTCTCCTGACCTCTACCTA 58.794 52.381 0.00 0.00 0.00 3.08
369 4932 0.326264 GCCCCTCAGATCAACACACT 59.674 55.000 0.00 0.00 0.00 3.55
403 4966 1.622607 TTTCTGGCCGTCCGATCCAT 61.623 55.000 0.00 0.00 34.14 3.41
513 5108 6.205784 GCTTGCATCTGTACTGTGTTAAAAA 58.794 36.000 0.00 0.00 0.00 1.94
514 5109 5.559991 CGCTTGCATCTGTACTGTGTTAAAA 60.560 40.000 0.00 0.00 0.00 1.52
515 5110 4.084066 CGCTTGCATCTGTACTGTGTTAAA 60.084 41.667 0.00 0.00 0.00 1.52
516 5111 3.431912 CGCTTGCATCTGTACTGTGTTAA 59.568 43.478 0.00 0.00 0.00 2.01
517 5112 2.993220 CGCTTGCATCTGTACTGTGTTA 59.007 45.455 0.00 0.00 0.00 2.41
518 5113 1.800586 CGCTTGCATCTGTACTGTGTT 59.199 47.619 0.00 0.00 0.00 3.32
519 5114 1.432514 CGCTTGCATCTGTACTGTGT 58.567 50.000 0.00 0.00 0.00 3.72
520 5115 0.095935 GCGCTTGCATCTGTACTGTG 59.904 55.000 0.00 0.00 38.92 3.66
521 5116 0.036952 AGCGCTTGCATCTGTACTGT 60.037 50.000 2.64 0.00 42.66 3.55
522 5117 0.649475 GAGCGCTTGCATCTGTACTG 59.351 55.000 13.26 0.00 42.66 2.74
523 5118 0.247460 TGAGCGCTTGCATCTGTACT 59.753 50.000 13.26 0.00 42.66 2.73
524 5119 1.293924 ATGAGCGCTTGCATCTGTAC 58.706 50.000 13.26 0.00 42.66 2.90
525 5120 2.888834 TATGAGCGCTTGCATCTGTA 57.111 45.000 13.26 0.00 42.66 2.74
526 5121 2.251409 ATATGAGCGCTTGCATCTGT 57.749 45.000 13.26 0.00 42.66 3.41
527 5122 4.027050 CGTATATATGAGCGCTTGCATCTG 60.027 45.833 13.26 0.00 42.66 2.90
528 5123 4.108336 CGTATATATGAGCGCTTGCATCT 58.892 43.478 13.26 6.79 42.66 2.90
529 5124 3.302092 GCGTATATATGAGCGCTTGCATC 60.302 47.826 13.26 0.00 45.48 3.91
530 5125 2.604914 GCGTATATATGAGCGCTTGCAT 59.395 45.455 13.26 14.41 45.48 3.96
531 5126 1.992667 GCGTATATATGAGCGCTTGCA 59.007 47.619 13.26 6.25 45.48 4.08
532 5127 1.007011 CGCGTATATATGAGCGCTTGC 60.007 52.381 13.26 0.00 46.56 4.01
533 5128 2.959586 CGCGTATATATGAGCGCTTG 57.040 50.000 13.26 7.35 46.56 4.01
538 5133 4.352039 AGTGTATGCGCGTATATATGAGC 58.648 43.478 19.79 20.14 38.31 4.26
539 5134 5.452623 GTGAGTGTATGCGCGTATATATGAG 59.547 44.000 19.79 3.76 0.00 2.90
540 5135 5.329493 GTGAGTGTATGCGCGTATATATGA 58.671 41.667 19.79 3.29 0.00 2.15
541 5136 4.499399 GGTGAGTGTATGCGCGTATATATG 59.501 45.833 19.79 0.00 0.00 1.78
542 5137 4.439700 GGGTGAGTGTATGCGCGTATATAT 60.440 45.833 19.79 9.03 0.00 0.86
543 5138 3.119743 GGGTGAGTGTATGCGCGTATATA 60.120 47.826 19.79 14.59 0.00 0.86
544 5139 2.352421 GGGTGAGTGTATGCGCGTATAT 60.352 50.000 19.79 4.31 0.00 0.86
545 5140 1.001048 GGGTGAGTGTATGCGCGTATA 60.001 52.381 13.13 13.13 0.00 1.47
546 5141 0.249322 GGGTGAGTGTATGCGCGTAT 60.249 55.000 15.52 15.52 0.00 3.06
547 5142 1.140161 GGGTGAGTGTATGCGCGTA 59.860 57.895 8.43 4.92 0.00 4.42
548 5143 2.125673 GGGTGAGTGTATGCGCGT 60.126 61.111 8.43 7.55 0.00 6.01
549 5144 2.011741 TAGGGGTGAGTGTATGCGCG 62.012 60.000 0.00 0.00 0.00 6.86
550 5145 0.393077 ATAGGGGTGAGTGTATGCGC 59.607 55.000 0.00 0.00 0.00 6.09
551 5146 1.686587 TCATAGGGGTGAGTGTATGCG 59.313 52.381 0.00 0.00 0.00 4.73
552 5147 3.838244 TTCATAGGGGTGAGTGTATGC 57.162 47.619 0.00 0.00 0.00 3.14
553 5148 4.067896 GCATTCATAGGGGTGAGTGTATG 58.932 47.826 0.00 0.00 37.92 2.39
554 5149 3.716353 TGCATTCATAGGGGTGAGTGTAT 59.284 43.478 0.00 0.00 37.92 2.29
555 5150 3.111484 TGCATTCATAGGGGTGAGTGTA 58.889 45.455 0.00 0.00 37.92 2.90
556 5151 1.915489 TGCATTCATAGGGGTGAGTGT 59.085 47.619 0.00 0.00 37.92 3.55
557 5152 2.292267 GTGCATTCATAGGGGTGAGTG 58.708 52.381 0.00 0.00 38.45 3.51
558 5153 1.915489 TGTGCATTCATAGGGGTGAGT 59.085 47.619 0.00 0.00 0.00 3.41
559 5154 2.292267 GTGTGCATTCATAGGGGTGAG 58.708 52.381 0.00 0.00 0.00 3.51
560 5155 1.632920 TGTGTGCATTCATAGGGGTGA 59.367 47.619 0.00 0.00 0.00 4.02
561 5156 1.745087 GTGTGTGCATTCATAGGGGTG 59.255 52.381 0.00 0.00 0.00 4.61
562 5157 1.678728 CGTGTGTGCATTCATAGGGGT 60.679 52.381 0.00 0.00 0.00 4.95
563 5158 1.016627 CGTGTGTGCATTCATAGGGG 58.983 55.000 0.00 0.00 0.00 4.79
564 5159 0.378257 GCGTGTGTGCATTCATAGGG 59.622 55.000 0.00 0.00 34.15 3.53
565 5160 1.085893 TGCGTGTGTGCATTCATAGG 58.914 50.000 0.00 0.00 40.62 2.57
573 5168 2.390306 ATAGGGTGTGCGTGTGTGCA 62.390 55.000 0.00 0.00 43.95 4.57
574 5169 1.635663 GATAGGGTGTGCGTGTGTGC 61.636 60.000 0.00 0.00 0.00 4.57
575 5170 1.019278 GGATAGGGTGTGCGTGTGTG 61.019 60.000 0.00 0.00 0.00 3.82
576 5171 1.192146 AGGATAGGGTGTGCGTGTGT 61.192 55.000 0.00 0.00 0.00 3.72
577 5172 0.821517 TAGGATAGGGTGTGCGTGTG 59.178 55.000 0.00 0.00 0.00 3.82
578 5173 1.412710 CATAGGATAGGGTGTGCGTGT 59.587 52.381 0.00 0.00 0.00 4.49
579 5174 1.686587 TCATAGGATAGGGTGTGCGTG 59.313 52.381 0.00 0.00 0.00 5.34
580 5175 1.964223 CTCATAGGATAGGGTGTGCGT 59.036 52.381 0.00 0.00 0.00 5.24
581 5176 1.337260 GCTCATAGGATAGGGTGTGCG 60.337 57.143 0.00 0.00 0.00 5.34
582 5177 1.694150 TGCTCATAGGATAGGGTGTGC 59.306 52.381 0.00 0.00 0.00 4.57
583 5178 2.037772 GGTGCTCATAGGATAGGGTGTG 59.962 54.545 0.00 0.00 0.00 3.82
584 5179 2.090494 AGGTGCTCATAGGATAGGGTGT 60.090 50.000 0.00 0.00 0.00 4.16
585 5180 2.301296 CAGGTGCTCATAGGATAGGGTG 59.699 54.545 0.00 0.00 0.00 4.61
586 5181 2.614259 CAGGTGCTCATAGGATAGGGT 58.386 52.381 0.00 0.00 0.00 4.34
587 5182 1.277557 GCAGGTGCTCATAGGATAGGG 59.722 57.143 0.00 0.00 38.21 3.53
588 5183 1.067283 CGCAGGTGCTCATAGGATAGG 60.067 57.143 0.00 0.00 39.32 2.57
589 5184 1.889170 TCGCAGGTGCTCATAGGATAG 59.111 52.381 0.00 0.00 39.32 2.08
590 5185 1.995376 TCGCAGGTGCTCATAGGATA 58.005 50.000 0.00 0.00 39.32 2.59
591 5186 1.123077 TTCGCAGGTGCTCATAGGAT 58.877 50.000 0.00 0.00 39.32 3.24
592 5187 0.901827 TTTCGCAGGTGCTCATAGGA 59.098 50.000 0.00 0.00 39.32 2.94
593 5188 1.134699 TCTTTCGCAGGTGCTCATAGG 60.135 52.381 0.00 0.00 39.32 2.57
594 5189 1.929836 GTCTTTCGCAGGTGCTCATAG 59.070 52.381 0.00 0.00 39.32 2.23
595 5190 1.550524 AGTCTTTCGCAGGTGCTCATA 59.449 47.619 0.00 0.00 39.32 2.15
596 5191 0.322975 AGTCTTTCGCAGGTGCTCAT 59.677 50.000 0.00 0.00 39.32 2.90
597 5192 0.601046 CAGTCTTTCGCAGGTGCTCA 60.601 55.000 0.00 0.00 39.32 4.26
598 5193 0.319900 TCAGTCTTTCGCAGGTGCTC 60.320 55.000 0.00 0.00 39.32 4.26
599 5194 0.320247 CTCAGTCTTTCGCAGGTGCT 60.320 55.000 0.00 0.00 39.32 4.40
600 5195 1.905922 GCTCAGTCTTTCGCAGGTGC 61.906 60.000 0.00 0.00 37.78 5.01
601 5196 1.294659 GGCTCAGTCTTTCGCAGGTG 61.295 60.000 0.00 0.00 0.00 4.00
602 5197 1.004440 GGCTCAGTCTTTCGCAGGT 60.004 57.895 0.00 0.00 0.00 4.00
603 5198 0.532573 TAGGCTCAGTCTTTCGCAGG 59.467 55.000 0.00 0.00 0.00 4.85
604 5199 1.067565 TGTAGGCTCAGTCTTTCGCAG 60.068 52.381 0.00 0.00 0.00 5.18
605 5200 0.966179 TGTAGGCTCAGTCTTTCGCA 59.034 50.000 0.00 0.00 0.00 5.10
606 5201 2.301577 ATGTAGGCTCAGTCTTTCGC 57.698 50.000 0.00 0.00 0.00 4.70
607 5202 5.188327 TGATATGTAGGCTCAGTCTTTCG 57.812 43.478 0.00 0.00 0.00 3.46
608 5203 8.443953 AAAATGATATGTAGGCTCAGTCTTTC 57.556 34.615 0.00 0.00 0.00 2.62
609 5204 9.905713 TTAAAATGATATGTAGGCTCAGTCTTT 57.094 29.630 0.00 0.00 0.00 2.52
610 5205 9.905713 TTTAAAATGATATGTAGGCTCAGTCTT 57.094 29.630 0.00 0.00 0.00 3.01
611 5206 9.905713 TTTTAAAATGATATGTAGGCTCAGTCT 57.094 29.630 0.00 0.00 0.00 3.24
632 5227 9.290988 TGCCTACAGTGACTTCATAAATTTTAA 57.709 29.630 0.00 0.00 0.00 1.52
633 5228 8.726988 GTGCCTACAGTGACTTCATAAATTTTA 58.273 33.333 0.00 0.00 0.00 1.52
634 5229 7.309194 GGTGCCTACAGTGACTTCATAAATTTT 60.309 37.037 0.00 0.00 0.00 1.82
635 5230 6.151144 GGTGCCTACAGTGACTTCATAAATTT 59.849 38.462 0.00 0.00 0.00 1.82
636 5231 5.648092 GGTGCCTACAGTGACTTCATAAATT 59.352 40.000 0.00 0.00 0.00 1.82
637 5232 5.045578 AGGTGCCTACAGTGACTTCATAAAT 60.046 40.000 0.00 0.00 0.00 1.40
638 5233 4.286032 AGGTGCCTACAGTGACTTCATAAA 59.714 41.667 0.00 0.00 0.00 1.40
639 5234 3.838317 AGGTGCCTACAGTGACTTCATAA 59.162 43.478 0.00 0.00 0.00 1.90
640 5235 3.441101 AGGTGCCTACAGTGACTTCATA 58.559 45.455 0.00 0.00 0.00 2.15
641 5236 2.234908 GAGGTGCCTACAGTGACTTCAT 59.765 50.000 0.00 0.00 0.00 2.57
642 5237 1.618837 GAGGTGCCTACAGTGACTTCA 59.381 52.381 0.00 0.00 0.00 3.02
643 5238 1.402984 CGAGGTGCCTACAGTGACTTC 60.403 57.143 0.00 0.00 0.00 3.01
644 5239 0.603569 CGAGGTGCCTACAGTGACTT 59.396 55.000 0.00 0.00 0.00 3.01
645 5240 0.539901 ACGAGGTGCCTACAGTGACT 60.540 55.000 0.00 0.00 0.00 3.41
646 5241 0.109226 GACGAGGTGCCTACAGTGAC 60.109 60.000 0.00 0.00 0.00 3.67
647 5242 1.583495 CGACGAGGTGCCTACAGTGA 61.583 60.000 0.00 0.00 0.00 3.41
648 5243 1.154016 CGACGAGGTGCCTACAGTG 60.154 63.158 0.00 0.00 0.00 3.66
649 5244 1.177256 AACGACGAGGTGCCTACAGT 61.177 55.000 0.00 0.00 0.00 3.55
650 5245 0.732880 CAACGACGAGGTGCCTACAG 60.733 60.000 0.00 0.00 0.00 2.74
651 5246 1.174078 TCAACGACGAGGTGCCTACA 61.174 55.000 0.00 0.00 37.50 2.74
652 5247 0.731855 GTCAACGACGAGGTGCCTAC 60.732 60.000 0.00 0.00 37.50 3.18
653 5248 1.582968 GTCAACGACGAGGTGCCTA 59.417 57.895 0.00 0.00 37.50 3.93
654 5249 2.338984 GTCAACGACGAGGTGCCT 59.661 61.111 0.00 0.00 37.50 4.75
663 5258 4.563524 AAATCGATTTCTCGTCAACGAC 57.436 40.909 17.60 0.00 44.22 4.34
665 5260 4.941604 TCAAAATCGATTTCTCGTCAACG 58.058 39.130 22.93 0.00 45.25 4.10
666 5261 5.316770 CCTCAAAATCGATTTCTCGTCAAC 58.683 41.667 22.93 0.00 45.25 3.18
667 5262 4.391830 CCCTCAAAATCGATTTCTCGTCAA 59.608 41.667 22.93 4.26 45.25 3.18
668 5263 3.932710 CCCTCAAAATCGATTTCTCGTCA 59.067 43.478 22.93 4.04 45.25 4.35
669 5264 3.933332 ACCCTCAAAATCGATTTCTCGTC 59.067 43.478 22.93 0.00 45.25 4.20
670 5265 3.939066 ACCCTCAAAATCGATTTCTCGT 58.061 40.909 22.93 12.14 45.25 4.18
671 5266 5.050091 CCATACCCTCAAAATCGATTTCTCG 60.050 44.000 22.93 14.50 46.41 4.04
672 5267 6.055588 TCCATACCCTCAAAATCGATTTCTC 58.944 40.000 22.93 0.00 0.00 2.87
673 5268 6.001449 TCCATACCCTCAAAATCGATTTCT 57.999 37.500 22.93 11.01 0.00 2.52
674 5269 6.693315 TTCCATACCCTCAAAATCGATTTC 57.307 37.500 22.93 0.00 0.00 2.17
675 5270 7.660030 AATTCCATACCCTCAAAATCGATTT 57.340 32.000 17.60 17.60 0.00 2.17
687 5282 5.456763 GCAGATGTCCTAAATTCCATACCCT 60.457 44.000 0.00 0.00 0.00 4.34
690 5285 6.767902 TCTTGCAGATGTCCTAAATTCCATAC 59.232 38.462 0.00 0.00 0.00 2.39
711 5306 8.122952 AGATGTCGTGTAAAAAGAAAACTCTTG 58.877 33.333 0.00 0.00 0.00 3.02
792 5387 2.794910 AGATGAACGAACAAGACACACG 59.205 45.455 0.00 0.00 0.00 4.49
794 5389 3.049912 CGAGATGAACGAACAAGACACA 58.950 45.455 0.00 0.00 0.00 3.72
921 6426 3.311511 TAGCGGCCTCTGGGAAGGA 62.312 63.158 5.22 0.00 38.87 3.36
1236 7406 0.868406 CAAGTCGGACAAGTTGAGCC 59.132 55.000 10.54 9.46 32.36 4.70
1339 7512 3.381045 TCAAATCGTCGCATATCTGGAC 58.619 45.455 0.00 0.00 0.00 4.02
1418 7591 1.205655 GGAAATTTCTTCCCTGCAGGC 59.794 52.381 28.39 9.18 34.51 4.85
1663 7836 4.763793 ACAAGGGATCAAATCAACAGACTG 59.236 41.667 0.00 0.00 0.00 3.51
1686 7861 4.277515 AGCACAAGAGCAGATTGTTAGA 57.722 40.909 0.00 0.00 38.80 2.10
1690 7865 3.407424 TGTAGCACAAGAGCAGATTGT 57.593 42.857 0.00 0.00 41.47 2.71
1709 7884 7.598189 TCAAATTTCCAAACACATGCATATG 57.402 32.000 2.71 2.71 40.24 1.78
1710 7885 8.795842 AATCAAATTTCCAAACACATGCATAT 57.204 26.923 0.00 0.00 0.00 1.78
1732 7907 8.078596 AGCTGCAAATATCGAGGAAAAATAATC 58.921 33.333 1.02 0.00 0.00 1.75
1737 7912 6.751514 TTAGCTGCAAATATCGAGGAAAAA 57.248 33.333 1.02 0.00 0.00 1.94
1828 8003 6.464892 CCATAGACACCAACAGGATATGATGT 60.465 42.308 0.00 0.00 29.97 3.06
1843 8018 2.993899 CGGCGATTATTCCATAGACACC 59.006 50.000 0.00 0.00 0.00 4.16
1960 8135 9.097257 CAACAAACAAGTTATGTGGAAAGAAAT 57.903 29.630 0.00 0.00 42.99 2.17
2031 8206 6.369629 TCCAAACCAAGGAAAGAAGATAACA 58.630 36.000 0.00 0.00 30.71 2.41
2082 8258 4.973168 ACTGAGGTCTTAAGCACAAATCA 58.027 39.130 0.00 3.18 0.00 2.57
2394 8579 4.735822 GCTACACTTTCAGATACAGTAGCG 59.264 45.833 0.00 0.00 42.08 4.26
2399 8584 6.974932 AACATGCTACACTTTCAGATACAG 57.025 37.500 0.00 0.00 0.00 2.74
2579 8764 3.740452 GCAGCTCTCAATCTCAGCATACA 60.740 47.826 0.00 0.00 35.46 2.29
2639 8824 1.073722 TCCAAGCTGAACAGGCCAG 59.926 57.895 5.01 0.00 34.88 4.85
2709 8894 1.177401 GAGGACCATCAACCTTTGCC 58.823 55.000 0.00 0.00 36.57 4.52
2940 9125 5.565509 TCAAACTGGCCATACTTTGACATA 58.434 37.500 21.20 7.21 29.66 2.29
2982 9167 0.458025 GTGGTCGCGAGTTCTTAGGG 60.458 60.000 10.24 0.00 0.00 3.53
3035 9221 6.870971 AGTTAGGAGAAAATAAAACGCACA 57.129 33.333 0.00 0.00 0.00 4.57
3048 9234 6.011805 ACTCAGGAGGTACTTAGTTAGGAGAA 60.012 42.308 0.83 0.00 41.55 2.87
3095 9281 5.654650 TGTTGTTTTGACACAGAGGGTTTAT 59.345 36.000 0.00 0.00 0.00 1.40
3205 9391 1.960689 TGCAGCCAAACTAAAGGGAAC 59.039 47.619 0.00 0.00 0.00 3.62
3221 9417 3.999229 GTAAACCACGAGAAGATGCAG 57.001 47.619 0.00 0.00 0.00 4.41
3240 9436 8.161699 ACACCAAAGAATAGATTTTACAACGT 57.838 30.769 0.00 0.00 0.00 3.99
3250 9446 6.604795 CCATGAAAGGACACCAAAGAATAGAT 59.395 38.462 0.00 0.00 0.00 1.98
3263 9459 9.337396 GTGTATACAAATATCCATGAAAGGACA 57.663 33.333 7.25 0.00 41.30 4.02
3277 9473 9.656040 ATCAACAACGGTTAGTGTATACAAATA 57.344 29.630 7.25 1.01 34.87 1.40
3289 9485 7.075741 CCACTAGAAAAATCAACAACGGTTAG 58.924 38.462 0.00 0.00 34.87 2.34
3290 9486 6.513720 GCCACTAGAAAAATCAACAACGGTTA 60.514 38.462 0.00 0.00 34.87 2.85
3294 9490 4.854399 TGCCACTAGAAAAATCAACAACG 58.146 39.130 0.00 0.00 0.00 4.10
3301 9497 5.705609 TTTCACCTGCCACTAGAAAAATC 57.294 39.130 0.00 0.00 0.00 2.17
3336 9532 5.063880 GTCACCTGAAAGTCCAACTACAAT 58.936 41.667 0.00 0.00 0.00 2.71
3337 9533 4.163458 AGTCACCTGAAAGTCCAACTACAA 59.837 41.667 0.00 0.00 0.00 2.41
3348 9544 2.684881 ACAAGCAACAGTCACCTGAAAG 59.315 45.455 0.00 0.00 41.50 2.62
3404 9600 9.999660 TTAGGTGTGTGTTCAACTACATTAATA 57.000 29.630 2.25 0.00 37.35 0.98
3409 9605 8.372459 TCTAATTAGGTGTGTGTTCAACTACAT 58.628 33.333 12.54 0.00 37.35 2.29
3413 9609 7.062749 TCTCTAATTAGGTGTGTGTTCAACT 57.937 36.000 12.54 0.00 38.93 3.16
3517 9716 2.924290 GCGTAAAGGTGAAGCTCTGTAG 59.076 50.000 0.00 0.00 0.00 2.74
3531 9733 5.189659 AGCTAGAGGTCTTATGCGTAAAG 57.810 43.478 0.00 0.00 0.00 1.85
3537 9739 4.681074 AGGAAAGCTAGAGGTCTTATGC 57.319 45.455 0.00 0.00 0.00 3.14
3616 9818 5.512942 TGAGGATTTGTAACAAGATGGGA 57.487 39.130 0.00 0.00 0.00 4.37
3653 9855 8.271458 TGCAGATGTATTAACAAAAGGGATAGA 58.729 33.333 0.00 0.00 39.58 1.98
3722 9924 6.428159 CACTTTATCCGGGAGAAATTAGATGG 59.572 42.308 16.51 6.54 0.00 3.51
3984 10187 4.201950 GCTATTGCATGTTTGTCGAAGGAT 60.202 41.667 0.00 0.00 39.41 3.24
3989 10192 2.710377 AGGCTATTGCATGTTTGTCGA 58.290 42.857 0.66 0.00 41.91 4.20


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

AutoCloner maintained by Alex Coulton.