Multiple sequence alignment - TraesCS2B01G510300

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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 TraesCS2B01G510300 chr2B 100.000 5283 0 0 1 5283 706413733 706419015 0.000000e+00 9756
1 TraesCS2B01G510300 chr2B 82.641 2431 343 46 2383 4751 57666966 57664553 0.000000e+00 2078
2 TraesCS2B01G510300 chr2B 81.739 2404 370 51 2388 4751 57674980 57672606 0.000000e+00 1943
3 TraesCS2B01G510300 chr2B 83.784 481 49 14 1615 2075 57669418 57668947 3.780000e-116 429
4 TraesCS2B01G510300 chr2B 89.602 327 34 0 1014 1340 57670110 57669784 2.940000e-112 416
5 TraesCS2B01G510300 chr2B 80.633 537 83 14 1615 2149 57675990 57675473 3.830000e-106 396
6 TraesCS2B01G510300 chr2B 90.397 302 27 2 1037 1337 425349184 425349484 3.830000e-106 396
7 TraesCS2B01G510300 chr2B 82.278 316 48 8 2845 3156 425351568 425351879 3.140000e-67 267
8 TraesCS2B01G510300 chr2B 89.205 176 17 2 2558 2732 425351249 425351423 8.910000e-53 219
9 TraesCS2B01G510300 chr2A 94.405 3700 148 24 1545 5210 719538066 719541740 0.000000e+00 5631
10 TraesCS2B01G510300 chr2A 82.502 2406 338 48 2404 4751 38311703 38309323 0.000000e+00 2034
11 TraesCS2B01G510300 chr2A 82.812 1280 192 24 3522 4782 478761609 478762879 0.000000e+00 1120
12 TraesCS2B01G510300 chr2A 84.354 882 79 22 56 893 719536510 719537376 0.000000e+00 809
13 TraesCS2B01G510300 chr2A 85.846 650 55 15 932 1546 719537381 719538028 0.000000e+00 656
14 TraesCS2B01G510300 chr2A 90.728 302 26 2 1037 1337 478758303 478758603 8.240000e-108 401
15 TraesCS2B01G510300 chr2A 88.379 327 38 0 1014 1340 38314183 38313857 1.380000e-105 394
16 TraesCS2B01G510300 chr2A 80.732 519 67 19 1642 2139 38313003 38312497 1.800000e-99 374
17 TraesCS2B01G510300 chr2A 88.068 176 19 2 2558 2732 478760453 478760627 1.930000e-49 207
18 TraesCS2B01G510300 chr2A 97.436 78 2 0 5205 5282 719549402 719549479 3.320000e-27 134
19 TraesCS2B01G510300 chr2D 88.093 2973 288 38 2323 5263 585474708 585477646 0.000000e+00 3469
20 TraesCS2B01G510300 chr2D 82.868 2399 334 45 2403 4751 34990419 34988048 0.000000e+00 2082
21 TraesCS2B01G510300 chr2D 82.041 2411 347 63 2388 4751 34997174 34994803 0.000000e+00 1975
22 TraesCS2B01G510300 chr2D 85.080 1756 208 35 3106 4825 585515750 585517487 0.000000e+00 1742
23 TraesCS2B01G510300 chr2D 87.963 1188 93 19 225 1369 585500959 585502139 0.000000e+00 1356
24 TraesCS2B01G510300 chr2D 84.790 927 81 21 1 893 585472525 585473425 0.000000e+00 876
25 TraesCS2B01G510300 chr2D 89.946 557 46 6 1611 2163 585474150 585474700 0.000000e+00 710
26 TraesCS2B01G510300 chr2D 91.932 471 29 4 1605 2067 585502322 585502791 0.000000e+00 651
27 TraesCS2B01G510300 chr2D 85.484 620 69 10 2514 3115 585514946 585515562 1.250000e-175 627
28 TraesCS2B01G510300 chr2D 86.535 557 51 16 957 1498 585473441 585473988 4.560000e-165 592
29 TraesCS2B01G510300 chr2D 82.664 548 62 20 813 1340 34992393 34991859 6.240000e-124 455
30 TraesCS2B01G510300 chr2D 83.750 480 50 15 1615 2075 34991494 34991024 3.780000e-116 429
31 TraesCS2B01G510300 chr2D 87.879 330 40 0 1014 1343 34998781 34998452 6.420000e-104 388
32 TraesCS2B01G510300 chr2D 79.926 538 78 21 1615 2149 34998178 34997668 8.360000e-98 368
33 TraesCS2B01G510300 chr2D 89.831 177 14 4 2558 2732 357699606 357699780 1.910000e-54 224


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 TraesCS2B01G510300 chr2B 706413733 706419015 5282 False 9756.000000 9756 100.000000 1 5283 1 chr2B.!!$F1 5282
1 TraesCS2B01G510300 chr2B 57664553 57675990 11437 True 1052.400000 2078 83.679800 1014 4751 5 chr2B.!!$R1 3737
2 TraesCS2B01G510300 chr2B 425349184 425351879 2695 False 294.000000 396 87.293333 1037 3156 3 chr2B.!!$F2 2119
3 TraesCS2B01G510300 chr2A 719536510 719541740 5230 False 2365.333333 5631 88.201667 56 5210 3 chr2A.!!$F3 5154
4 TraesCS2B01G510300 chr2A 38309323 38314183 4860 True 934.000000 2034 83.871000 1014 4751 3 chr2A.!!$R1 3737
5 TraesCS2B01G510300 chr2A 478758303 478762879 4576 False 576.000000 1120 87.202667 1037 4782 3 chr2A.!!$F2 3745
6 TraesCS2B01G510300 chr2D 585472525 585477646 5121 False 1411.750000 3469 87.341000 1 5263 4 chr2D.!!$F2 5262
7 TraesCS2B01G510300 chr2D 585514946 585517487 2541 False 1184.500000 1742 85.282000 2514 4825 2 chr2D.!!$F4 2311
8 TraesCS2B01G510300 chr2D 585500959 585502791 1832 False 1003.500000 1356 89.947500 225 2067 2 chr2D.!!$F3 1842
9 TraesCS2B01G510300 chr2D 34988048 34998781 10733 True 949.500000 2082 83.188000 813 4751 6 chr2D.!!$R1 3938

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
636 668 0.038892 CTTGCCACATTGACAGCCAC 60.039 55.000 0.00 0.0 0.00 5.01 F
1011 7001 0.032678 CGCGATAGATGGTGGAAGCT 59.967 55.000 0.00 0.0 39.76 3.74 F
1223 7213 0.175073 GGTTACTTCCTCGTGCGGAT 59.825 55.000 0.00 0.0 32.02 4.18 F
1521 7582 0.178967 TTGGGTGAAGCATTGCCAGA 60.179 50.000 4.70 0.0 0.00 3.86 F
2693 12095 2.296190 GTGGCTTCGACAATTTCCCTTT 59.704 45.455 0.00 0.0 0.00 3.11 F
4066 13957 1.825191 CCTCATGGGTTGGCCATCG 60.825 63.158 6.09 0.0 36.17 3.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1734 8546 0.178767 CCCGATCATCCAACTCAGCA 59.821 55.000 0.00 0.0 0.00 4.41 R
2693 12095 0.322456 AAATGCTGCAAGGCCGAGTA 60.322 50.000 6.36 0.0 0.00 2.59 R
3159 12803 7.122204 AGGTACAACAAGGAATTGGCTATTAAC 59.878 37.037 0.00 0.0 0.00 2.01 R
3484 13350 2.161609 GCAAAGACTGGTCGGTTAATGG 59.838 50.000 0.00 0.0 34.09 3.16 R
4094 13985 0.326595 TGGACACCATAACACCGCAT 59.673 50.000 0.00 0.0 0.00 4.73 R
4963 14860 3.184986 GCAAAAACATCATTGACCTGTGC 59.815 43.478 0.00 0.0 0.00 4.57 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
221 230 2.178474 ATCAAATTAGCACGCAAGCG 57.822 45.000 13.50 13.50 46.03 4.68
388 398 4.348863 AGCAATATCAGGAGCTAGGTTG 57.651 45.455 0.00 0.00 35.19 3.77
414 424 4.033776 CTGAAGAAGGGCCCCGCA 62.034 66.667 21.43 8.86 0.00 5.69
417 427 3.978571 GAAGAAGGGCCCCGCAGAC 62.979 68.421 21.43 1.99 0.00 3.51
450 460 4.223700 AGTGAGATTGCAACCAGTCTATGA 59.776 41.667 0.00 0.00 38.06 2.15
481 491 2.268920 GCCCCGCAGAAGATCACA 59.731 61.111 0.00 0.00 0.00 3.58
493 503 1.293062 AGATCACAAGGTCTGGGCAT 58.707 50.000 0.00 0.00 0.00 4.40
532 542 1.542175 CCTCCTGTCCCGATCCCTA 59.458 63.158 0.00 0.00 0.00 3.53
534 544 0.828343 CTCCTGTCCCGATCCCTACC 60.828 65.000 0.00 0.00 0.00 3.18
539 549 0.751452 GTCCCGATCCCTACCAAGAC 59.249 60.000 0.00 0.00 0.00 3.01
540 550 0.398098 TCCCGATCCCTACCAAGACC 60.398 60.000 0.00 0.00 0.00 3.85
542 552 1.424638 CCGATCCCTACCAAGACCAT 58.575 55.000 0.00 0.00 0.00 3.55
547 558 0.178068 CCCTACCAAGACCATGACCG 59.822 60.000 0.00 0.00 0.00 4.79
552 563 1.300971 CCAAGACCATGACCGTGCTG 61.301 60.000 0.00 0.00 0.00 4.41
555 566 3.899981 GACCATGACCGTGCTGGCA 62.900 63.158 0.00 0.00 43.94 4.92
572 583 0.884704 GCATGCTGGGGGTGTATACG 60.885 60.000 11.37 0.00 0.00 3.06
598 609 2.663196 GTGGCTGGCTCGTAGGTT 59.337 61.111 2.00 0.00 0.00 3.50
599 610 1.448013 GTGGCTGGCTCGTAGGTTC 60.448 63.158 2.00 0.00 0.00 3.62
600 611 2.187163 GGCTGGCTCGTAGGTTCC 59.813 66.667 0.00 0.00 0.00 3.62
625 657 2.463589 GATCCACGTCCCTTGCCACA 62.464 60.000 0.00 0.00 0.00 4.17
633 665 0.895100 TCCCTTGCCACATTGACAGC 60.895 55.000 0.00 0.00 0.00 4.40
634 666 1.588082 CCTTGCCACATTGACAGCC 59.412 57.895 0.00 0.00 0.00 4.85
636 668 0.038892 CTTGCCACATTGACAGCCAC 60.039 55.000 0.00 0.00 0.00 5.01
662 695 4.415224 AAGAGTCACCTAAACCCTAGGA 57.585 45.455 11.48 0.00 38.09 2.94
696 729 4.106029 ACAGCACGAATGAACGTACTAT 57.894 40.909 0.00 0.00 44.76 2.12
697 730 4.491676 ACAGCACGAATGAACGTACTATT 58.508 39.130 0.00 0.00 44.76 1.73
700 733 6.073440 ACAGCACGAATGAACGTACTATTTTT 60.073 34.615 0.00 0.00 44.76 1.94
721 754 6.702972 TTTTTGTTTGCATGGATACGAATG 57.297 33.333 10.46 0.00 42.51 2.67
723 756 5.635417 TTGTTTGCATGGATACGAATGAA 57.365 34.783 3.57 0.00 42.51 2.57
724 757 4.980590 TGTTTGCATGGATACGAATGAAC 58.019 39.130 3.57 0.00 42.51 3.18
728 761 3.565063 TGCATGGATACGAATGAACATGG 59.435 43.478 0.00 0.00 36.96 3.66
730 763 4.555313 GCATGGATACGAATGAACATGGTG 60.555 45.833 0.00 0.00 36.96 4.17
731 764 4.479786 TGGATACGAATGAACATGGTGA 57.520 40.909 0.00 0.00 42.51 4.02
733 766 4.875536 TGGATACGAATGAACATGGTGAAG 59.124 41.667 0.00 0.00 42.51 3.02
734 767 4.260784 GGATACGAATGAACATGGTGAAGC 60.261 45.833 0.00 0.00 0.00 3.86
735 768 1.812571 ACGAATGAACATGGTGAAGCC 59.187 47.619 0.00 0.00 37.90 4.35
745 778 3.961729 GTGAAGCCACCGTACCAC 58.038 61.111 0.00 0.00 37.33 4.16
746 779 2.025418 GTGAAGCCACCGTACCACG 61.025 63.158 0.00 0.00 42.11 4.94
748 781 2.025418 GAAGCCACCGTACCACGTG 61.025 63.158 9.08 9.08 40.58 4.49
750 783 4.973055 GCCACCGTACCACGTGCA 62.973 66.667 10.91 0.00 40.58 4.57
753 786 1.231958 CCACCGTACCACGTGCATTT 61.232 55.000 10.91 0.00 40.58 2.32
754 787 0.110419 CACCGTACCACGTGCATTTG 60.110 55.000 10.91 0.00 40.58 2.32
758 791 1.463056 CGTACCACGTGCATTTGACAT 59.537 47.619 10.91 0.00 36.74 3.06
759 792 2.724533 CGTACCACGTGCATTTGACATG 60.725 50.000 10.91 0.00 36.74 3.21
762 795 1.333115 CACGTGCATTTGACATGCTG 58.667 50.000 0.82 0.53 44.79 4.41
764 797 1.069022 ACGTGCATTTGACATGCTGAC 60.069 47.619 5.09 0.00 44.79 3.51
767 800 1.069091 TGCATTTGACATGCTGACGTG 60.069 47.619 5.09 0.00 44.79 4.49
768 801 1.609932 CATTTGACATGCTGACGTGC 58.390 50.000 0.00 0.00 36.15 5.34
771 804 1.844771 TTGACATGCTGACGTGCTGC 61.845 55.000 0.00 1.00 41.36 5.25
773 806 0.737367 GACATGCTGACGTGCTGCTA 60.737 55.000 0.00 0.00 41.53 3.49
774 807 0.738762 ACATGCTGACGTGCTGCTAG 60.739 55.000 0.00 0.00 41.53 3.42
775 808 0.738762 CATGCTGACGTGCTGCTAGT 60.739 55.000 0.00 0.18 41.53 2.57
776 809 0.817654 ATGCTGACGTGCTGCTAGTA 59.182 50.000 0.00 0.00 41.53 1.82
780 813 2.112522 CTGACGTGCTGCTAGTATTCG 58.887 52.381 0.00 0.00 0.00 3.34
782 815 2.162809 TGACGTGCTGCTAGTATTCGAA 59.837 45.455 0.00 0.00 0.00 3.71
785 818 4.288531 ACGTGCTGCTAGTATTCGAATAC 58.711 43.478 31.91 31.91 41.19 1.89
786 819 3.669122 CGTGCTGCTAGTATTCGAATACC 59.331 47.826 33.99 23.35 41.68 2.73
791 824 5.784177 CTGCTAGTATTCGAATACCCATGT 58.216 41.667 33.99 22.32 41.68 3.21
792 825 5.779922 TGCTAGTATTCGAATACCCATGTC 58.220 41.667 33.99 21.26 41.68 3.06
793 826 5.303333 TGCTAGTATTCGAATACCCATGTCA 59.697 40.000 33.99 22.94 41.68 3.58
794 827 5.864474 GCTAGTATTCGAATACCCATGTCAG 59.136 44.000 33.99 22.41 41.68 3.51
795 828 4.632153 AGTATTCGAATACCCATGTCAGC 58.368 43.478 33.99 13.74 41.68 4.26
798 831 2.107366 TCGAATACCCATGTCAGCTCA 58.893 47.619 0.00 0.00 0.00 4.26
802 835 0.904649 TACCCATGTCAGCTCAGTGG 59.095 55.000 0.00 0.00 0.00 4.00
803 836 1.748122 CCCATGTCAGCTCAGTGGC 60.748 63.158 0.00 0.00 0.00 5.01
804 837 1.748122 CCATGTCAGCTCAGTGGCC 60.748 63.158 0.00 0.00 0.00 5.36
806 839 1.025113 CATGTCAGCTCAGTGGCCTG 61.025 60.000 3.32 0.00 40.25 4.85
808 841 3.243816 TCAGCTCAGTGGCCTGCA 61.244 61.111 3.32 0.00 38.66 4.41
809 842 3.054503 CAGCTCAGTGGCCTGCAC 61.055 66.667 3.32 0.00 38.66 4.57
810 843 4.341783 AGCTCAGTGGCCTGCACC 62.342 66.667 3.32 0.00 38.66 5.01
812 845 3.957586 CTCAGTGGCCTGCACCCA 61.958 66.667 3.32 0.00 38.66 4.51
814 847 2.987547 CAGTGGCCTGCACCCAAG 60.988 66.667 3.32 0.00 33.39 3.61
815 848 4.982701 AGTGGCCTGCACCCAAGC 62.983 66.667 3.32 0.00 33.39 4.01
818 851 3.376918 GGCCTGCACCCAAGCTTC 61.377 66.667 0.00 0.00 34.99 3.86
820 853 2.633509 GCCTGCACCCAAGCTTCAG 61.634 63.158 0.00 0.00 34.99 3.02
864 6823 1.131638 TGCTCCCGCCTATTCATTCT 58.868 50.000 0.00 0.00 34.43 2.40
867 6826 2.485479 GCTCCCGCCTATTCATTCTTCA 60.485 50.000 0.00 0.00 0.00 3.02
868 6827 3.808618 GCTCCCGCCTATTCATTCTTCAT 60.809 47.826 0.00 0.00 0.00 2.57
869 6828 3.999663 CTCCCGCCTATTCATTCTTCATC 59.000 47.826 0.00 0.00 0.00 2.92
870 6829 3.077359 CCCGCCTATTCATTCTTCATCC 58.923 50.000 0.00 0.00 0.00 3.51
871 6830 3.244700 CCCGCCTATTCATTCTTCATCCT 60.245 47.826 0.00 0.00 0.00 3.24
919 6880 0.443869 CATCCCACGAAAGCACGAAG 59.556 55.000 5.12 0.00 37.03 3.79
1011 7001 0.032678 CGCGATAGATGGTGGAAGCT 59.967 55.000 0.00 0.00 39.76 3.74
1095 7085 1.214589 GGAGCAGCTTACGGTTCGA 59.785 57.895 0.00 0.00 0.00 3.71
1114 7104 2.279517 CGATAGTGGTGAGCGCCC 60.280 66.667 2.29 0.00 0.00 6.13
1155 7145 1.526887 CTCGTCACGCACAAACTCAAT 59.473 47.619 0.00 0.00 0.00 2.57
1158 7148 2.729360 CGTCACGCACAAACTCAATCTA 59.271 45.455 0.00 0.00 0.00 1.98
1223 7213 0.175073 GGTTACTTCCTCGTGCGGAT 59.825 55.000 0.00 0.00 32.02 4.18
1224 7214 1.405121 GGTTACTTCCTCGTGCGGATT 60.405 52.381 0.00 0.00 32.02 3.01
1293 7283 0.687354 AGCAGGAGAACACCGTCATT 59.313 50.000 0.00 0.00 34.73 2.57
1358 7356 0.250467 TGCCTGACTTCAGTTGAGCC 60.250 55.000 5.53 0.00 42.27 4.70
1373 7399 3.680786 GCCTTTGGGGTTGGCGTC 61.681 66.667 0.00 0.00 37.11 5.19
1378 7404 0.178975 TTTGGGGTTGGCGTCTGATT 60.179 50.000 0.00 0.00 0.00 2.57
1379 7405 0.178975 TTGGGGTTGGCGTCTGATTT 60.179 50.000 0.00 0.00 0.00 2.17
1408 7446 5.114081 GCTGCATTTGCTTTGATCCTTAAT 58.886 37.500 3.94 0.00 42.66 1.40
1410 7448 6.093082 GCTGCATTTGCTTTGATCCTTAATTT 59.907 34.615 3.94 0.00 42.66 1.82
1411 7449 7.361457 GCTGCATTTGCTTTGATCCTTAATTTT 60.361 33.333 3.94 0.00 42.66 1.82
1450 7489 3.243501 GGACTTTTGATGCTGCTTTGTGA 60.244 43.478 0.00 0.00 0.00 3.58
1500 7557 0.965363 GTGGGCCACAATGGTGTAGG 60.965 60.000 31.26 0.00 43.71 3.18
1521 7582 0.178967 TTGGGTGAAGCATTGCCAGA 60.179 50.000 4.70 0.00 0.00 3.86
1613 7993 6.513806 TCAAGTTTGCAGCATACATGTTAT 57.486 33.333 17.12 0.00 0.00 1.89
1693 8505 5.353394 AAACTTATGAGCTTATCGGGACA 57.647 39.130 0.00 0.00 0.00 4.02
1734 8546 4.260170 GCAGTGGATGTGAAGAATCTCTT 58.740 43.478 0.00 0.00 39.87 2.85
2059 8891 5.591877 AGAAACATACCAGCATTGATCCTTC 59.408 40.000 0.00 0.00 0.00 3.46
2075 8907 7.230849 TGATCCTTCATTTTGTGCAAACTAT 57.769 32.000 0.00 0.00 0.00 2.12
2232 9312 5.010282 GGGTTCCATGTGACTTGAGTATTT 58.990 41.667 0.00 0.00 0.00 1.40
2380 11531 7.201401 GCAGCACGGTATGGTAAAAATTAAAAG 60.201 37.037 0.00 0.00 36.72 2.27
2499 11901 5.289595 TGTGATAACGTTGATGCCTCTATC 58.710 41.667 11.99 3.01 0.00 2.08
2500 11902 5.163457 TGTGATAACGTTGATGCCTCTATCA 60.163 40.000 11.99 5.79 35.38 2.15
2501 11903 5.753438 GTGATAACGTTGATGCCTCTATCAA 59.247 40.000 11.99 0.00 42.93 2.57
2517 11919 7.017645 CCTCTATCAAAATTTCACTGTTGACG 58.982 38.462 0.00 0.00 33.09 4.35
2592 11994 8.729805 ATTTTTGTGCTTCCAGAAAACAAATA 57.270 26.923 15.98 13.30 41.93 1.40
2693 12095 2.296190 GTGGCTTCGACAATTTCCCTTT 59.704 45.455 0.00 0.00 0.00 3.11
2739 12146 2.672874 CACGTAAGCTTGCTCTAATGCA 59.327 45.455 9.86 0.00 45.62 3.96
2838 12272 8.614814 TCCTCTTTAGGGATTATTTGGATATGG 58.385 37.037 0.00 0.00 43.84 2.74
3299 12961 6.783708 ACCAGGTTTGACAAAATAAAGTCA 57.216 33.333 1.27 0.00 42.55 3.41
3363 13025 8.547069 GCAAGTTGTTTTTGCTGTGAATATAAA 58.453 29.630 4.48 0.00 45.64 1.40
3402 13080 2.906389 TCTTCAGTGGGCATAGTTGTCT 59.094 45.455 0.00 0.00 0.00 3.41
3535 13416 7.995463 TTATGTCCAACAAAAACTAAGTTGC 57.005 32.000 0.00 0.00 40.85 4.17
3599 13484 7.233855 ACTTGGGGATGGTATTTATAACCTT 57.766 36.000 0.00 0.00 37.91 3.50
3601 13486 5.390387 TGGGGATGGTATTTATAACCTTGC 58.610 41.667 0.00 0.00 37.91 4.01
3618 13503 7.910441 AACCTTGCCAAAATCATTTATTCTG 57.090 32.000 0.00 0.00 0.00 3.02
3622 13507 7.223387 CCTTGCCAAAATCATTTATTCTGCTAC 59.777 37.037 0.00 0.00 0.00 3.58
3623 13508 7.167924 TGCCAAAATCATTTATTCTGCTACA 57.832 32.000 0.00 0.00 0.00 2.74
3632 13517 7.526608 TCATTTATTCTGCTACAAAGGAAACG 58.473 34.615 0.00 0.00 0.00 3.60
3742 13630 9.208022 CCTACCAACATATCATATATTATGGCG 57.792 37.037 8.58 1.31 31.46 5.69
3851 13742 4.111577 AGACAATATCCCTCCTTGGTTGA 58.888 43.478 0.00 0.00 0.00 3.18
3860 13751 3.107601 CCTCCTTGGTTGACAGGATCTA 58.892 50.000 0.00 0.00 0.00 1.98
4066 13957 1.825191 CCTCATGGGTTGGCCATCG 60.825 63.158 6.09 0.00 36.17 3.84
4170 14061 1.149288 AGACTGGTTACCTGACCCTCA 59.851 52.381 15.16 0.00 39.01 3.86
4181 14072 1.118965 TGACCCTCACTTCGCCAAGA 61.119 55.000 0.00 0.00 33.34 3.02
4241 14132 0.036732 GTGTCATTGCTCCCCTCACA 59.963 55.000 0.00 0.00 0.00 3.58
4259 14150 2.299867 CACATTTTGGCTTTACTGGGCT 59.700 45.455 0.00 0.00 0.00 5.19
4373 14264 0.033781 TGCTGCCACAAAATTGCCTC 59.966 50.000 0.00 0.00 0.00 4.70
4392 14283 3.619038 CCTCGCAATCTACTTTGTCTTCC 59.381 47.826 0.00 0.00 0.00 3.46
4521 14412 5.345741 GCATACTTTGCGATTGACATGTTTT 59.654 36.000 0.00 0.00 42.54 2.43
4711 14602 4.330250 CCATCCCTTACATATGGCTGAAG 58.670 47.826 7.80 5.04 34.19 3.02
4718 14609 6.438741 CCCTTACATATGGCTGAAGATAGAGA 59.561 42.308 7.80 0.00 0.00 3.10
4723 14614 8.618702 ACATATGGCTGAAGATAGAGAAAATG 57.381 34.615 7.80 0.00 0.00 2.32
4787 14680 5.922544 ACGTTGTGTACATAGTTTACACTCC 59.077 40.000 12.50 4.07 46.42 3.85
4789 14682 7.040478 ACGTTGTGTACATAGTTTACACTCCTA 60.040 37.037 12.50 0.00 46.42 2.94
4896 14790 6.611464 GCGTCTTCTTAATTTGTTTTCTTGCG 60.611 38.462 0.00 0.00 0.00 4.85
4909 14806 6.146216 TGTTTTCTTGCGTTGTTACCATATG 58.854 36.000 0.00 0.00 0.00 1.78
4911 14808 7.041303 TGTTTTCTTGCGTTGTTACCATATGTA 60.041 33.333 1.24 0.00 0.00 2.29
4956 14853 5.041951 TGATTTATGTTTTGCTCGTGGTC 57.958 39.130 0.00 0.00 0.00 4.02
4963 14860 3.535629 TTGCTCGTGGTCTGCCTGG 62.536 63.158 0.00 0.00 35.27 4.45
4990 14887 3.801594 GGTCAATGATGTTTTTGCGTGTT 59.198 39.130 0.00 0.00 0.00 3.32
5036 14933 3.009473 AGGTGCATGTGTATCAAGGAAGT 59.991 43.478 0.00 0.00 0.00 3.01
5055 14952 9.606631 AAGGAAGTAGATACAATGCTAAAGAAG 57.393 33.333 0.00 0.00 0.00 2.85
5072 14969 9.555727 GCTAAAGAAGGATACAAACCATACATA 57.444 33.333 0.00 0.00 41.41 2.29
5100 14997 9.698617 GACACATACGAATTTAAAATGACCTAC 57.301 33.333 4.27 0.00 0.00 3.18
5162 15059 3.370103 CGACCAAAACCAGCCTAGGATAA 60.370 47.826 14.75 0.00 0.00 1.75
5175 15075 3.320541 CCTAGGATAAGAGAGTGCCACAG 59.679 52.174 1.05 0.00 0.00 3.66
5202 15102 8.948631 AGTGTGGTATCATTTAACATAGTCTG 57.051 34.615 0.00 0.00 0.00 3.51
5218 15118 3.108376 AGTCTGGAGGGGTTGAATAGAC 58.892 50.000 0.00 0.00 34.75 2.59
5222 15122 3.381335 TGGAGGGGTTGAATAGACTACC 58.619 50.000 0.00 0.00 35.56 3.18
5224 15124 3.974642 GGAGGGGTTGAATAGACTACCAT 59.025 47.826 0.00 0.00 37.39 3.55
5228 15128 6.896883 AGGGGTTGAATAGACTACCATTAAC 58.103 40.000 0.00 0.00 37.39 2.01
5235 15135 7.343357 TGAATAGACTACCATTAACAAAGGGG 58.657 38.462 0.00 0.00 0.00 4.79
5236 15136 7.183112 TGAATAGACTACCATTAACAAAGGGGA 59.817 37.037 0.00 0.00 0.00 4.81
5237 15137 5.175388 AGACTACCATTAACAAAGGGGAC 57.825 43.478 0.00 0.00 0.00 4.46
5239 15139 4.918588 ACTACCATTAACAAAGGGGACTG 58.081 43.478 0.00 0.00 42.68 3.51
5240 15140 2.525368 ACCATTAACAAAGGGGACTGC 58.475 47.619 0.00 0.00 42.68 4.40
5241 15141 2.110011 ACCATTAACAAAGGGGACTGCT 59.890 45.455 0.00 0.00 42.68 4.24
5242 15142 3.165071 CCATTAACAAAGGGGACTGCTT 58.835 45.455 0.00 0.00 42.68 3.91
5243 15143 3.056607 CCATTAACAAAGGGGACTGCTTG 60.057 47.826 0.00 0.00 42.68 4.01
5244 15144 3.306472 TTAACAAAGGGGACTGCTTGT 57.694 42.857 0.00 0.00 41.87 3.16
5263 15163 5.232202 GCTTGTCAACTTTTAGTTTCCTTGC 59.768 40.000 0.00 0.00 36.03 4.01
5264 15164 5.906113 TGTCAACTTTTAGTTTCCTTGCA 57.094 34.783 0.00 0.00 36.03 4.08
5265 15165 6.274157 TGTCAACTTTTAGTTTCCTTGCAA 57.726 33.333 0.00 0.00 36.03 4.08
5266 15166 6.872920 TGTCAACTTTTAGTTTCCTTGCAAT 58.127 32.000 0.00 0.00 36.03 3.56
5267 15167 7.327214 TGTCAACTTTTAGTTTCCTTGCAATT 58.673 30.769 0.00 0.00 36.03 2.32
5268 15168 7.821846 TGTCAACTTTTAGTTTCCTTGCAATTT 59.178 29.630 0.00 0.00 36.03 1.82
5269 15169 8.664798 GTCAACTTTTAGTTTCCTTGCAATTTT 58.335 29.630 0.00 0.00 36.03 1.82
5270 15170 9.877178 TCAACTTTTAGTTTCCTTGCAATTTTA 57.123 25.926 0.00 0.00 36.03 1.52
5273 15173 8.826710 ACTTTTAGTTTCCTTGCAATTTTAAGC 58.173 29.630 0.00 0.00 0.00 3.09
5274 15174 8.956533 TTTTAGTTTCCTTGCAATTTTAAGCT 57.043 26.923 0.00 2.57 0.00 3.74
5275 15175 8.956533 TTTAGTTTCCTTGCAATTTTAAGCTT 57.043 26.923 3.48 3.48 0.00 3.74
5276 15176 8.956533 TTAGTTTCCTTGCAATTTTAAGCTTT 57.043 26.923 3.20 0.00 0.00 3.51
5277 15177 7.864108 AGTTTCCTTGCAATTTTAAGCTTTT 57.136 28.000 3.20 0.00 0.00 2.27
5278 15178 7.919690 AGTTTCCTTGCAATTTTAAGCTTTTC 58.080 30.769 3.20 0.00 0.00 2.29
5279 15179 7.770433 AGTTTCCTTGCAATTTTAAGCTTTTCT 59.230 29.630 3.20 0.00 0.00 2.52
5280 15180 9.040939 GTTTCCTTGCAATTTTAAGCTTTTCTA 57.959 29.630 3.20 0.00 0.00 2.10
5281 15181 8.587952 TTCCTTGCAATTTTAAGCTTTTCTAC 57.412 30.769 3.20 0.00 0.00 2.59
5282 15182 7.721402 TCCTTGCAATTTTAAGCTTTTCTACA 58.279 30.769 3.20 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.414594 GGAAGGAATGCGCATGCC 59.585 61.111 36.47 36.47 41.78 4.40
279 288 2.287457 TATCACGCGGGTGGTGCTAC 62.287 60.000 29.45 0.00 44.50 3.58
322 332 1.315257 ATCTGAAATGGTGGCGTGCC 61.315 55.000 3.30 3.30 0.00 5.01
357 367 3.579626 GATATTGCTTCGCGCCCGC 62.580 63.158 0.00 3.94 38.05 6.13
366 376 4.712476 CAACCTAGCTCCTGATATTGCTT 58.288 43.478 0.00 0.00 37.02 3.91
388 398 0.251634 CCCTTCTTCAGTGGGAGAGC 59.748 60.000 0.00 0.00 43.47 4.09
414 424 4.627394 TCACTGGCTGGTGAGTCT 57.373 55.556 9.16 0.00 40.72 3.24
450 460 1.720694 CGGGGCAGTGAAAACGTGTT 61.721 55.000 0.00 0.00 0.00 3.32
481 491 2.362120 GCTGCATGCCCAGACCTT 60.362 61.111 16.68 0.00 34.77 3.50
493 503 3.422303 GCCGTGAATCGTGCTGCA 61.422 61.111 0.00 0.00 37.94 4.41
515 525 0.828343 GGTAGGGATCGGGACAGGAG 60.828 65.000 0.00 0.00 0.00 3.69
520 530 0.751452 GTCTTGGTAGGGATCGGGAC 59.249 60.000 0.00 0.00 0.00 4.46
532 542 1.302511 GCACGGTCATGGTCTTGGT 60.303 57.895 0.00 0.00 0.00 3.67
534 544 1.300971 CCAGCACGGTCATGGTCTTG 61.301 60.000 0.00 0.00 0.00 3.02
539 549 2.438975 ATGCCAGCACGGTCATGG 60.439 61.111 0.00 4.17 36.97 3.66
540 550 2.795973 CATGCCAGCACGGTCATG 59.204 61.111 0.00 12.00 40.51 3.07
542 552 4.334118 AGCATGCCAGCACGGTCA 62.334 61.111 15.66 0.00 36.97 4.02
552 563 0.537371 GTATACACCCCCAGCATGCC 60.537 60.000 15.66 0.00 31.97 4.40
555 566 0.399376 TCCGTATACACCCCCAGCAT 60.399 55.000 3.32 0.00 0.00 3.79
565 576 1.669049 CCACGTGGCCTCCGTATACA 61.669 60.000 24.02 0.00 36.65 2.29
588 599 1.174783 TCACTCAGGAACCTACGAGC 58.825 55.000 7.74 0.00 0.00 5.03
598 609 0.970937 GGGACGTGGATCACTCAGGA 60.971 60.000 0.00 0.00 31.34 3.86
599 610 0.972983 AGGGACGTGGATCACTCAGG 60.973 60.000 0.00 0.00 31.34 3.86
600 611 0.898320 AAGGGACGTGGATCACTCAG 59.102 55.000 0.00 0.00 28.08 3.35
662 695 0.744414 GTGCTGTATGATGCGTGGGT 60.744 55.000 0.00 0.00 0.00 4.51
700 733 5.635417 TCATTCGTATCCATGCAAACAAA 57.365 34.783 0.00 0.00 0.00 2.83
701 734 5.048434 TGTTCATTCGTATCCATGCAAACAA 60.048 36.000 0.00 0.00 0.00 2.83
702 735 4.457257 TGTTCATTCGTATCCATGCAAACA 59.543 37.500 0.00 0.00 0.00 2.83
705 738 4.036616 CCATGTTCATTCGTATCCATGCAA 59.963 41.667 0.00 0.00 0.00 4.08
707 740 3.565482 ACCATGTTCATTCGTATCCATGC 59.435 43.478 0.00 0.00 0.00 4.06
708 741 4.815846 TCACCATGTTCATTCGTATCCATG 59.184 41.667 0.00 0.00 0.00 3.66
709 742 5.034852 TCACCATGTTCATTCGTATCCAT 57.965 39.130 0.00 0.00 0.00 3.41
710 743 4.479786 TCACCATGTTCATTCGTATCCA 57.520 40.909 0.00 0.00 0.00 3.41
711 744 4.260784 GCTTCACCATGTTCATTCGTATCC 60.261 45.833 0.00 0.00 0.00 2.59
712 745 4.260784 GGCTTCACCATGTTCATTCGTATC 60.261 45.833 0.00 0.00 38.86 2.24
714 747 3.006940 GGCTTCACCATGTTCATTCGTA 58.993 45.455 0.00 0.00 38.86 3.43
715 748 1.812571 GGCTTCACCATGTTCATTCGT 59.187 47.619 0.00 0.00 38.86 3.85
728 761 2.025418 CGTGGTACGGTGGCTTCAC 61.025 63.158 0.00 0.00 38.08 3.18
739 772 2.850321 CATGTCAAATGCACGTGGTAC 58.150 47.619 18.88 0.59 0.00 3.34
741 774 0.039256 GCATGTCAAATGCACGTGGT 60.039 50.000 18.88 0.00 44.00 4.16
742 775 0.241749 AGCATGTCAAATGCACGTGG 59.758 50.000 18.88 0.00 46.77 4.94
745 778 1.609932 GTCAGCATGTCAAATGCACG 58.390 50.000 1.67 0.00 46.77 5.34
746 779 1.069022 ACGTCAGCATGTCAAATGCAC 60.069 47.619 1.67 0.00 46.77 4.57
748 781 1.609932 CACGTCAGCATGTCAAATGC 58.390 50.000 0.00 0.00 44.85 3.56
750 783 1.198408 CAGCACGTCAGCATGTCAAAT 59.802 47.619 0.36 0.00 37.40 2.32
753 786 2.319841 GCAGCACGTCAGCATGTCA 61.320 57.895 0.36 0.00 37.40 3.58
754 787 0.737367 TAGCAGCACGTCAGCATGTC 60.737 55.000 0.00 0.00 37.40 3.06
758 791 0.817654 ATACTAGCAGCACGTCAGCA 59.182 50.000 0.00 0.00 36.85 4.41
759 792 1.855360 GAATACTAGCAGCACGTCAGC 59.145 52.381 0.00 0.00 0.00 4.26
762 795 2.470196 TCGAATACTAGCAGCACGTC 57.530 50.000 0.00 0.00 0.00 4.34
764 797 3.669122 GGTATTCGAATACTAGCAGCACG 59.331 47.826 35.09 0.00 40.78 5.34
767 800 4.252971 TGGGTATTCGAATACTAGCAGC 57.747 45.455 35.09 22.64 40.78 5.25
768 801 5.784177 ACATGGGTATTCGAATACTAGCAG 58.216 41.667 35.09 25.64 40.78 4.24
771 804 5.864474 GCTGACATGGGTATTCGAATACTAG 59.136 44.000 35.09 26.15 40.78 2.57
773 806 4.345257 AGCTGACATGGGTATTCGAATACT 59.655 41.667 35.09 22.09 40.78 2.12
774 807 4.632153 AGCTGACATGGGTATTCGAATAC 58.368 43.478 31.43 31.43 40.37 1.89
775 808 4.343814 TGAGCTGACATGGGTATTCGAATA 59.656 41.667 13.85 13.85 0.00 1.75
776 809 3.134623 TGAGCTGACATGGGTATTCGAAT 59.865 43.478 16.15 16.15 0.00 3.34
780 813 3.201290 CACTGAGCTGACATGGGTATTC 58.799 50.000 0.00 0.00 0.00 1.75
782 815 1.487976 CCACTGAGCTGACATGGGTAT 59.512 52.381 0.00 0.00 0.00 2.73
785 818 1.748122 GCCACTGAGCTGACATGGG 60.748 63.158 0.00 0.00 0.00 4.00
786 819 1.748122 GGCCACTGAGCTGACATGG 60.748 63.158 0.00 0.00 0.00 3.66
798 831 4.982701 GCTTGGGTGCAGGCCACT 62.983 66.667 5.01 0.00 44.08 4.00
802 835 2.598394 TGAAGCTTGGGTGCAGGC 60.598 61.111 2.10 0.00 34.99 4.85
803 836 0.825010 AACTGAAGCTTGGGTGCAGG 60.825 55.000 2.10 0.00 34.99 4.85
804 837 1.035139 AAACTGAAGCTTGGGTGCAG 58.965 50.000 2.10 7.16 34.99 4.41
806 839 1.408702 TGAAAACTGAAGCTTGGGTGC 59.591 47.619 2.10 0.00 0.00 5.01
808 841 1.676006 CGTGAAAACTGAAGCTTGGGT 59.324 47.619 2.10 0.00 0.00 4.51
809 842 1.600413 GCGTGAAAACTGAAGCTTGGG 60.600 52.381 2.10 0.00 0.00 4.12
810 843 1.600413 GGCGTGAAAACTGAAGCTTGG 60.600 52.381 2.10 0.00 0.00 3.61
811 844 1.600413 GGGCGTGAAAACTGAAGCTTG 60.600 52.381 2.10 0.00 0.00 4.01
812 845 0.668535 GGGCGTGAAAACTGAAGCTT 59.331 50.000 0.00 0.00 0.00 3.74
814 847 0.668535 AAGGGCGTGAAAACTGAAGC 59.331 50.000 0.00 0.00 0.00 3.86
815 848 4.561735 TTAAAGGGCGTGAAAACTGAAG 57.438 40.909 0.00 0.00 0.00 3.02
818 851 5.048294 AGGTATTTAAAGGGCGTGAAAACTG 60.048 40.000 0.00 0.00 0.00 3.16
820 853 5.381174 AGGTATTTAAAGGGCGTGAAAAC 57.619 39.130 0.00 0.00 0.00 2.43
864 6823 2.834549 GAGGTCAAGGTGAGAGGATGAA 59.165 50.000 0.00 0.00 0.00 2.57
867 6826 1.272760 ACGAGGTCAAGGTGAGAGGAT 60.273 52.381 0.00 0.00 0.00 3.24
868 6827 0.112606 ACGAGGTCAAGGTGAGAGGA 59.887 55.000 0.00 0.00 0.00 3.71
869 6828 0.528470 GACGAGGTCAAGGTGAGAGG 59.472 60.000 0.00 0.00 32.09 3.69
870 6829 1.201181 CAGACGAGGTCAAGGTGAGAG 59.799 57.143 0.00 0.00 34.60 3.20
871 6830 1.248486 CAGACGAGGTCAAGGTGAGA 58.752 55.000 0.00 0.00 34.60 3.27
919 6880 1.153025 GTAGGATCCGGGGTTTGGC 60.153 63.158 5.98 0.00 0.00 4.52
997 6978 0.032515 TCCGGAGCTTCCACCATCTA 60.033 55.000 0.00 0.00 35.91 1.98
1086 7076 0.659427 CCACTATCGCTCGAACCGTA 59.341 55.000 0.00 0.00 0.00 4.02
1095 7085 2.105128 GCGCTCACCACTATCGCT 59.895 61.111 0.00 0.00 42.19 4.93
1114 7104 1.614824 AGAAGAGCACCCCCAGGAG 60.615 63.158 0.00 0.00 36.73 3.69
1155 7145 1.039233 GGACGATCCCCACCGTTAGA 61.039 60.000 0.00 0.00 39.30 2.10
1358 7356 0.609131 ATCAGACGCCAACCCCAAAG 60.609 55.000 0.00 0.00 0.00 2.77
1373 7399 2.745281 CAAATGCAGCCCCAAAAATCAG 59.255 45.455 0.00 0.00 0.00 2.90
1378 7404 0.473326 AAGCAAATGCAGCCCCAAAA 59.527 45.000 8.28 0.00 45.16 2.44
1379 7405 0.473326 AAAGCAAATGCAGCCCCAAA 59.527 45.000 8.28 0.00 45.16 3.28
1408 7446 9.883142 AAAGTCCACAGATCATTGTTTTTAAAA 57.117 25.926 0.00 0.00 0.00 1.52
1410 7448 9.311916 CAAAAGTCCACAGATCATTGTTTTTAA 57.688 29.630 0.00 0.00 0.00 1.52
1411 7449 8.690884 TCAAAAGTCCACAGATCATTGTTTTTA 58.309 29.630 0.00 0.00 0.00 1.52
1417 7455 5.100259 GCATCAAAAGTCCACAGATCATTG 58.900 41.667 0.00 0.00 0.00 2.82
1424 7463 1.884579 AGCAGCATCAAAAGTCCACAG 59.115 47.619 0.00 0.00 0.00 3.66
1464 7518 4.382577 GGCCCACCCAAAAATAATACACAG 60.383 45.833 0.00 0.00 0.00 3.66
1500 7557 0.392336 TGGCAATGCTTCACCCAAAC 59.608 50.000 4.82 0.00 0.00 2.93
1588 7737 5.395682 ACATGTATGCTGCAAACTTGAAT 57.604 34.783 6.36 0.00 0.00 2.57
1613 7993 3.305267 CCTGCATCAACGGAAACAATGAA 60.305 43.478 0.00 0.00 0.00 2.57
1734 8546 0.178767 CCCGATCATCCAACTCAGCA 59.821 55.000 0.00 0.00 0.00 4.41
1978 8810 5.810525 ACGCTATTTATCAACATTGCAGTC 58.189 37.500 0.00 0.00 0.00 3.51
2075 8907 1.536072 CCTTGCGAAGTATAGCGAGCA 60.536 52.381 0.00 0.00 42.11 4.26
2079 8911 3.013276 TCATCCTTGCGAAGTATAGCG 57.987 47.619 0.00 0.00 35.87 4.26
2380 11531 8.942338 TTCACCATCTGTGTATAATCTACAAC 57.058 34.615 0.00 0.00 45.61 3.32
2499 11901 8.506140 AATATGTCGTCAACAGTGAAATTTTG 57.494 30.769 0.00 0.00 42.37 2.44
2500 11902 8.567948 AGAATATGTCGTCAACAGTGAAATTTT 58.432 29.630 0.00 0.00 42.37 1.82
2501 11903 8.099364 AGAATATGTCGTCAACAGTGAAATTT 57.901 30.769 0.00 0.00 42.37 1.82
2517 11919 9.289782 AGAAATACAATAGCCCAAGAATATGTC 57.710 33.333 0.00 0.00 0.00 3.06
2592 11994 6.490040 TGCTTAAATACTTTCCAAGACAGCTT 59.510 34.615 0.00 0.00 33.74 3.74
2693 12095 0.322456 AAATGCTGCAAGGCCGAGTA 60.322 50.000 6.36 0.00 0.00 2.59
2838 12272 7.907389 TGAGTAGTTCCATATGATAATCCACC 58.093 38.462 3.65 0.00 0.00 4.61
3159 12803 7.122204 AGGTACAACAAGGAATTGGCTATTAAC 59.878 37.037 0.00 0.00 0.00 2.01
3363 13025 8.295288 CACTGAAGAAATGCATTAAAGAGACTT 58.705 33.333 13.39 9.43 0.00 3.01
3402 13080 9.695526 CTCAATTTCATGGTTCTCACAAATTAA 57.304 29.630 0.00 0.00 33.14 1.40
3484 13350 2.161609 GCAAAGACTGGTCGGTTAATGG 59.838 50.000 0.00 0.00 34.09 3.16
3599 13484 7.167924 TGTAGCAGAATAAATGATTTTGGCA 57.832 32.000 0.00 0.00 31.66 4.92
3601 13486 9.090692 CCTTTGTAGCAGAATAAATGATTTTGG 57.909 33.333 0.00 0.00 31.66 3.28
3618 13503 4.098416 GCATTCATCGTTTCCTTTGTAGC 58.902 43.478 0.00 0.00 0.00 3.58
3622 13507 3.899734 TGTGCATTCATCGTTTCCTTTG 58.100 40.909 0.00 0.00 0.00 2.77
3623 13508 4.582701 TTGTGCATTCATCGTTTCCTTT 57.417 36.364 0.00 0.00 0.00 3.11
3632 13517 4.628333 CCTTGGTTTGATTGTGCATTCATC 59.372 41.667 0.00 0.00 0.00 2.92
3736 13624 2.822561 TGGAAAACAAATGAGCGCCATA 59.177 40.909 2.29 0.00 34.45 2.74
3767 13658 8.919145 TGGTAATTTGGAAATTTTATCGCCTAT 58.081 29.630 2.79 0.00 39.24 2.57
3772 13663 7.038659 TGGCTGGTAATTTGGAAATTTTATCG 58.961 34.615 2.79 0.00 39.24 2.92
3851 13742 2.706190 GGCCCACATAAGTAGATCCTGT 59.294 50.000 0.00 0.00 0.00 4.00
3860 13751 0.967380 GCTGCAAGGCCCACATAAGT 60.967 55.000 0.00 0.00 0.00 2.24
4035 13926 5.046288 ACCCATGAGGCAAAAATGAAAAA 57.954 34.783 0.00 0.00 40.58 1.94
4066 13957 1.959085 CCTGCAATCACACCACCAC 59.041 57.895 0.00 0.00 0.00 4.16
4094 13985 0.326595 TGGACACCATAACACCGCAT 59.673 50.000 0.00 0.00 0.00 4.73
4097 13988 3.536956 ACTATGGACACCATAACACCG 57.463 47.619 10.96 3.19 44.65 4.94
4107 13998 3.722147 CAGCTGTGGATACTATGGACAC 58.278 50.000 5.25 0.00 37.61 3.67
4170 14061 4.393062 CACAAACATAGATCTTGGCGAAGT 59.607 41.667 8.41 0.00 0.00 3.01
4181 14072 7.308770 CCAATCAACTGTGACACAAACATAGAT 60.309 37.037 10.02 5.05 36.31 1.98
4241 14132 1.276138 GCAGCCCAGTAAAGCCAAAAT 59.724 47.619 0.00 0.00 0.00 1.82
4259 14150 4.136796 CAGGATTTCCAATATCGAAGGCA 58.863 43.478 0.00 0.00 38.89 4.75
4373 14264 4.499183 AGAGGAAGACAAAGTAGATTGCG 58.501 43.478 0.00 0.00 33.52 4.85
4381 14272 4.141482 TGGCTACAAAGAGGAAGACAAAGT 60.141 41.667 0.00 0.00 0.00 2.66
4392 14283 5.220931 GGTTGATTGCTATGGCTACAAAGAG 60.221 44.000 1.68 0.00 39.59 2.85
4521 14412 4.277476 ACAAACAAGATGACAGTCCCAAA 58.723 39.130 0.00 0.00 0.00 3.28
4868 14761 9.445786 CAAGAAAACAAATTAAGAAGACGCTTA 57.554 29.630 0.00 0.00 0.00 3.09
4869 14762 7.043391 GCAAGAAAACAAATTAAGAAGACGCTT 60.043 33.333 0.00 0.00 0.00 4.68
4870 14763 6.417930 GCAAGAAAACAAATTAAGAAGACGCT 59.582 34.615 0.00 0.00 0.00 5.07
4872 14765 6.413818 ACGCAAGAAAACAAATTAAGAAGACG 59.586 34.615 0.00 0.00 43.62 4.18
4931 14828 5.240623 ACCACGAGCAAAACATAAATCAAGA 59.759 36.000 0.00 0.00 0.00 3.02
4963 14860 3.184986 GCAAAAACATCATTGACCTGTGC 59.815 43.478 0.00 0.00 0.00 4.57
4968 14865 3.380142 ACACGCAAAAACATCATTGACC 58.620 40.909 0.00 0.00 0.00 4.02
4995 14892 5.523188 GCACCTCTTCTACATGATTCAGAAG 59.477 44.000 17.36 17.36 44.32 2.85
5055 14952 6.044046 TGTGTCGTATGTATGGTTTGTATCC 58.956 40.000 0.00 0.00 0.00 2.59
5072 14969 7.118680 AGGTCATTTTAAATTCGTATGTGTCGT 59.881 33.333 0.00 0.00 0.00 4.34
5073 14970 7.461107 AGGTCATTTTAAATTCGTATGTGTCG 58.539 34.615 0.00 0.00 0.00 4.35
5100 14997 3.784994 GTCGACTCTTTCTTAACGATCCG 59.215 47.826 8.70 0.00 32.78 4.18
5175 15075 9.601217 AGACTATGTTAAATGATACCACACTTC 57.399 33.333 0.00 0.00 0.00 3.01
5202 15102 3.381335 TGGTAGTCTATTCAACCCCTCC 58.619 50.000 0.00 0.00 0.00 4.30
5218 15118 3.694566 GCAGTCCCCTTTGTTAATGGTAG 59.305 47.826 0.00 0.00 0.00 3.18
5222 15122 3.573967 ACAAGCAGTCCCCTTTGTTAATG 59.426 43.478 0.00 0.00 0.00 1.90
5224 15124 3.219281 GACAAGCAGTCCCCTTTGTTAA 58.781 45.455 0.00 0.00 41.56 2.01
5235 15135 6.183360 AGGAAACTAAAAGTTGACAAGCAGTC 60.183 38.462 2.66 2.66 43.65 3.51
5236 15136 5.652452 AGGAAACTAAAAGTTGACAAGCAGT 59.348 36.000 0.00 0.00 38.66 4.40
5237 15137 6.136541 AGGAAACTAAAAGTTGACAAGCAG 57.863 37.500 0.00 0.00 38.66 4.24
5238 15138 6.329496 CAAGGAAACTAAAAGTTGACAAGCA 58.671 36.000 0.00 0.00 42.68 3.91
5239 15139 5.232202 GCAAGGAAACTAAAAGTTGACAAGC 59.768 40.000 0.00 0.00 42.68 4.01
5240 15140 6.329496 TGCAAGGAAACTAAAAGTTGACAAG 58.671 36.000 0.00 0.00 42.68 3.16
5241 15141 6.274157 TGCAAGGAAACTAAAAGTTGACAA 57.726 33.333 0.00 0.00 42.68 3.18
5242 15142 5.906113 TGCAAGGAAACTAAAAGTTGACA 57.094 34.783 0.00 0.00 42.68 3.58
5243 15143 7.770801 AATTGCAAGGAAACTAAAAGTTGAC 57.229 32.000 4.94 0.00 42.68 3.18
5244 15144 8.785329 AAAATTGCAAGGAAACTAAAAGTTGA 57.215 26.923 4.94 0.00 42.68 3.18
5248 15148 9.045223 AGCTTAAAATTGCAAGGAAACTAAAAG 57.955 29.630 4.94 0.70 42.68 2.27


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

AutoCloner maintained by Alex Coulton.