Multiple sequence alignment - TraesCS2B01G431300

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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 TraesCS2B01G431300 chr2B 100.000 3272 0 0 1 3272 620597363 620594092 0.000000e+00 6043
1 TraesCS2B01G431300 chr2B 81.352 799 111 20 970 1764 683745777 683745013 1.670000e-172 616
2 TraesCS2B01G431300 chr2B 93.464 153 8 2 542 693 353470458 353470307 3.280000e-55 226
3 TraesCS2B01G431300 chr2B 92.929 99 6 1 2009 2107 315974346 315974249 3.400000e-30 143
4 TraesCS2B01G431300 chr2D 95.396 1173 50 3 2104 3272 524583024 524584196 0.000000e+00 1864
5 TraesCS2B01G431300 chr2D 90.909 605 46 5 1038 1639 524582008 524582606 0.000000e+00 804
6 TraesCS2B01G431300 chr2D 81.651 763 103 22 980 1739 571869988 571869260 1.680000e-167 599
7 TraesCS2B01G431300 chr2D 92.892 408 20 4 1624 2024 524582619 524583024 4.700000e-163 584
8 TraesCS2B01G431300 chr2D 89.139 267 27 2 778 1043 524581317 524581582 6.770000e-87 331
9 TraesCS2B01G431300 chr2D 88.614 202 19 3 1563 1764 571557174 571556977 3.260000e-60 243
10 TraesCS2B01G431300 chr2D 100.000 131 0 0 556 686 645613182 645613052 3.260000e-60 243
11 TraesCS2B01G431300 chr2D 92.079 101 8 0 2015 2115 25037876 25037976 3.400000e-30 143
12 TraesCS2B01G431300 chr2A 94.802 885 44 2 2390 3272 670249085 670249969 0.000000e+00 1378
13 TraesCS2B01G431300 chr2A 84.569 1173 127 27 862 2024 670247697 670248825 0.000000e+00 1114
14 TraesCS2B01G431300 chr2A 78.489 609 97 19 980 1585 710347867 710347290 5.160000e-98 368
15 TraesCS2B01G431300 chr2A 93.197 147 9 1 2616 2761 670238137 670238283 7.110000e-52 215
16 TraesCS2B01G431300 chr2A 94.681 94 5 0 2014 2107 15846304 15846397 2.630000e-31 147
17 TraesCS2B01G431300 chr3D 94.794 557 27 2 4 559 268943341 268942786 0.000000e+00 867
18 TraesCS2B01G431300 chr3D 92.784 97 5 1 2012 2108 509255104 509255198 4.400000e-29 139
19 TraesCS2B01G431300 chr4B 94.746 552 27 2 4 554 634320062 634319512 0.000000e+00 857
20 TraesCS2B01G431300 chr4B 94.286 560 30 2 1 559 73279316 73279874 0.000000e+00 856
21 TraesCS2B01G431300 chr4B 94.107 560 31 2 1 559 58757625 58758183 0.000000e+00 850
22 TraesCS2B01G431300 chr4B 94.255 557 30 2 4 559 324974655 324974100 0.000000e+00 850
23 TraesCS2B01G431300 chr4B 98.507 134 2 0 553 686 399945302 399945435 1.520000e-58 237
24 TraesCS2B01G431300 chr4B 92.708 96 7 0 2015 2110 308049733 308049638 4.400000e-29 139
25 TraesCS2B01G431300 chr4B 93.548 93 5 1 2019 2110 597668161 597668069 1.580000e-28 137
26 TraesCS2B01G431300 chr5B 94.434 557 30 1 4 559 130924313 130923757 0.000000e+00 856
27 TraesCS2B01G431300 chr5B 94.434 557 29 2 4 559 157391440 157390885 0.000000e+00 856
28 TraesCS2B01G431300 chr5B 94.255 557 31 1 4 559 228759203 228758647 0.000000e+00 850
29 TraesCS2B01G431300 chr5B 93.761 561 33 2 1 559 470019263 470019823 0.000000e+00 841
30 TraesCS2B01G431300 chr5B 93.805 113 5 2 679 791 297033729 297033839 5.610000e-38 169
31 TraesCS2B01G431300 chr5B 94.737 95 4 1 2021 2114 40880301 40880207 2.630000e-31 147
32 TraesCS2B01G431300 chr5B 93.069 101 6 1 2013 2112 317294230 317294330 2.630000e-31 147
33 TraesCS2B01G431300 chr5B 93.750 96 5 1 2012 2107 711237976 711237882 3.400000e-30 143
34 TraesCS2B01G431300 chr1B 97.842 139 1 2 548 686 409879799 409879935 4.220000e-59 239
35 TraesCS2B01G431300 chr1B 96.262 107 4 0 683 789 356224331 356224437 3.360000e-40 176
36 TraesCS2B01G431300 chr1B 97.087 103 3 0 686 788 57105643 57105541 1.210000e-39 174
37 TraesCS2B01G431300 chr7B 96.429 140 5 0 558 697 736367489 736367628 7.060000e-57 231
38 TraesCS2B01G431300 chr7B 97.059 102 3 0 686 787 234645627 234645526 4.340000e-39 172
39 TraesCS2B01G431300 chr7B 96.591 88 3 0 2020 2107 263113299 263113386 2.630000e-31 147
40 TraesCS2B01G431300 chr7B 96.629 89 2 1 2020 2107 545164532 545164620 2.630000e-31 147
41 TraesCS2B01G431300 chr7B 91.919 99 7 1 2015 2112 460585046 460584948 1.580000e-28 137
42 TraesCS2B01G431300 chr6B 95.205 146 4 3 553 697 159990508 159990651 9.130000e-56 228
43 TraesCS2B01G431300 chr6B 92.405 158 8 4 532 687 172239785 172239630 4.250000e-54 222
44 TraesCS2B01G431300 chr6B 95.370 108 5 0 683 790 355177889 355177996 4.340000e-39 172
45 TraesCS2B01G431300 chr6B 95.789 95 3 1 2023 2116 6785937 6786031 5.650000e-33 152
46 TraesCS2B01G431300 chr6B 95.556 90 4 0 2020 2109 576856720 576856631 9.460000e-31 145
47 TraesCS2B01G431300 chr6B 90.566 106 8 2 2002 2107 607208113 607208216 4.400000e-29 139
48 TraesCS2B01G431300 chr5D 92.994 157 7 4 532 686 452850652 452850806 3.280000e-55 226
49 TraesCS2B01G431300 chr5D 96.471 85 3 0 2023 2107 56448545 56448461 1.220000e-29 141
50 TraesCS2B01G431300 chr5D 93.684 95 4 2 2020 2112 504793019 504792925 1.220000e-29 141
51 TraesCS2B01G431300 chr5D 92.708 96 6 1 2022 2117 367998086 367998180 1.580000e-28 137
52 TraesCS2B01G431300 chr5D 90.196 102 9 1 2007 2107 297738443 297738342 7.370000e-27 132
53 TraesCS2B01G431300 chr3B 93.464 153 6 3 552 704 454715338 454715486 1.180000e-54 224
54 TraesCS2B01G431300 chr3B 96.190 105 4 0 683 787 785671861 785671965 4.340000e-39 172
55 TraesCS2B01G431300 chr3B 98.864 88 1 0 2023 2110 719826059 719826146 1.220000e-34 158
56 TraesCS2B01G431300 chr3A 95.370 108 3 2 683 790 408031072 408031177 1.560000e-38 171
57 TraesCS2B01G431300 chr3A 96.154 104 4 0 686 789 685428336 685428233 1.560000e-38 171
58 TraesCS2B01G431300 chrUn 97.000 100 3 0 683 782 92944504 92944603 5.610000e-38 169
59 TraesCS2B01G431300 chrUn 92.708 96 6 1 2020 2115 23609565 23609471 1.580000e-28 137
60 TraesCS2B01G431300 chrUn 93.548 93 5 1 2021 2112 135090716 135090808 1.580000e-28 137
61 TraesCS2B01G431300 chrUn 93.548 93 5 1 2021 2112 152687572 152687664 1.580000e-28 137
62 TraesCS2B01G431300 chrUn 91.753 97 8 0 2011 2107 62663390 62663486 5.690000e-28 135
63 TraesCS2B01G431300 chrUn 94.318 88 5 0 2020 2107 224653306 224653393 5.690000e-28 135
64 TraesCS2B01G431300 chrUn 91.579 95 8 0 2022 2116 23900938 23900844 7.370000e-27 132
65 TraesCS2B01G431300 chrUn 93.182 88 6 0 2023 2110 119047543 119047630 2.650000e-26 130
66 TraesCS2B01G431300 chrUn 93.103 87 6 0 2021 2107 41260073 41259987 9.530000e-26 128
67 TraesCS2B01G431300 chrUn 93.023 86 6 0 2022 2107 94847057 94846972 3.430000e-25 126
68 TraesCS2B01G431300 chrUn 90.526 95 8 1 2013 2107 23900844 23900937 1.230000e-24 124
69 TraesCS2B01G431300 chr7A 96.552 87 3 0 2023 2109 659068668 659068582 9.460000e-31 145
70 TraesCS2B01G431300 chr4D 95.604 91 3 1 2022 2111 449455701 449455611 9.460000e-31 145
71 TraesCS2B01G431300 chr4D 92.708 96 7 0 2012 2107 485409446 485409351 4.400000e-29 139
72 TraesCS2B01G431300 chr4D 93.478 92 6 0 2019 2110 10971619 10971528 1.580000e-28 137
73 TraesCS2B01G431300 chr4D 90.000 100 10 0 2015 2114 109272513 109272612 2.650000e-26 130
74 TraesCS2B01G431300 chr1D 92.929 99 6 1 2013 2110 415987133 415987231 3.400000e-30 143
75 TraesCS2B01G431300 chr1D 93.548 93 5 1 2023 2115 80020137 80020046 1.580000e-28 137
76 TraesCS2B01G431300 chr7D 95.455 88 4 0 2020 2107 506141366 506141453 1.220000e-29 141
77 TraesCS2B01G431300 chr5A 92.000 100 8 0 2014 2113 90623754 90623655 1.220000e-29 141
78 TraesCS2B01G431300 chr4A 93.684 95 5 1 2017 2111 646776743 646776650 1.220000e-29 141
79 TraesCS2B01G431300 chr6D 94.382 89 5 0 2023 2111 450890494 450890406 1.580000e-28 137
80 TraesCS2B01G431300 chr6D 92.632 95 6 1 2021 2115 361523867 361523774 5.690000e-28 135
81 TraesCS2B01G431300 chr6D 92.473 93 7 0 2016 2108 139569724 139569816 2.050000e-27 134


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 TraesCS2B01G431300 chr2B 620594092 620597363 3271 True 6043.00 6043 100.0000 1 3272 1 chr2B.!!$R3 3271
1 TraesCS2B01G431300 chr2B 683745013 683745777 764 True 616.00 616 81.3520 970 1764 1 chr2B.!!$R4 794
2 TraesCS2B01G431300 chr2D 524581317 524584196 2879 False 895.75 1864 92.0840 778 3272 4 chr2D.!!$F2 2494
3 TraesCS2B01G431300 chr2D 571869260 571869988 728 True 599.00 599 81.6510 980 1739 1 chr2D.!!$R2 759
4 TraesCS2B01G431300 chr2A 670247697 670249969 2272 False 1246.00 1378 89.6855 862 3272 2 chr2A.!!$F3 2410
5 TraesCS2B01G431300 chr2A 710347290 710347867 577 True 368.00 368 78.4890 980 1585 1 chr2A.!!$R1 605
6 TraesCS2B01G431300 chr3D 268942786 268943341 555 True 867.00 867 94.7940 4 559 1 chr3D.!!$R1 555
7 TraesCS2B01G431300 chr4B 634319512 634320062 550 True 857.00 857 94.7460 4 554 1 chr4B.!!$R4 550
8 TraesCS2B01G431300 chr4B 73279316 73279874 558 False 856.00 856 94.2860 1 559 1 chr4B.!!$F2 558
9 TraesCS2B01G431300 chr4B 58757625 58758183 558 False 850.00 850 94.1070 1 559 1 chr4B.!!$F1 558
10 TraesCS2B01G431300 chr4B 324974100 324974655 555 True 850.00 850 94.2550 4 559 1 chr4B.!!$R2 555
11 TraesCS2B01G431300 chr5B 130923757 130924313 556 True 856.00 856 94.4340 4 559 1 chr5B.!!$R2 555
12 TraesCS2B01G431300 chr5B 157390885 157391440 555 True 856.00 856 94.4340 4 559 1 chr5B.!!$R3 555
13 TraesCS2B01G431300 chr5B 228758647 228759203 556 True 850.00 850 94.2550 4 559 1 chr5B.!!$R4 555
14 TraesCS2B01G431300 chr5B 470019263 470019823 560 False 841.00 841 93.7610 1 559 1 chr5B.!!$F3 558

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
682 686 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.0 13.64 4.95 46.06 4.20 F
717 721 0.106469 GAAATCCCTTCCCTCCTGCC 60.106 60.0 0.00 0.00 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2156 2636 0.323629 TCCTTTGGCTTCCAGTACGG 59.676 55.000 0.00 0.0 33.81 4.02 R
2363 2843 1.963515 AGGAAACCACAGTGAATTGGC 59.036 47.619 0.62 0.0 36.20 4.52 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
58 60 3.588277 GACATGGTGTCACGACAGT 57.412 52.632 0.00 0.00 46.22 3.55
59 61 1.139989 GACATGGTGTCACGACAGTG 58.860 55.000 0.00 3.28 46.22 3.66
262 265 2.891191 AGGGGTCCAAAATAAAGCGA 57.109 45.000 0.00 0.00 0.00 4.93
331 334 7.412853 AAAAGGCTTGTTTTTAGGTGTTAGA 57.587 32.000 0.00 0.00 0.00 2.10
336 339 6.145534 GGCTTGTTTTTAGGTGTTAGATTTGC 59.854 38.462 0.00 0.00 0.00 3.68
364 367 5.121768 GCGTTGAGTCATGGTTATAAGTTGT 59.878 40.000 0.00 0.00 0.00 3.32
379 382 1.202806 AGTTGTTTAGGCTGCAGCTCA 60.203 47.619 35.82 21.92 41.70 4.26
418 421 3.517901 CCAGGTGGGATGTAGTGTTAGAA 59.482 47.826 0.00 0.00 40.01 2.10
438 441 6.718593 AGAATATGTAATGGGCCTAATGGA 57.281 37.500 4.53 0.00 34.57 3.41
565 569 9.646427 GATGTATCAATCTAATCAAGTACTCCC 57.354 37.037 0.00 0.00 0.00 4.30
566 570 8.783660 TGTATCAATCTAATCAAGTACTCCCT 57.216 34.615 0.00 0.00 0.00 4.20
567 571 8.861086 TGTATCAATCTAATCAAGTACTCCCTC 58.139 37.037 0.00 0.00 0.00 4.30
568 572 6.732896 TCAATCTAATCAAGTACTCCCTCC 57.267 41.667 0.00 0.00 0.00 4.30
569 573 5.302059 TCAATCTAATCAAGTACTCCCTCCG 59.698 44.000 0.00 0.00 0.00 4.63
570 574 4.246712 TCTAATCAAGTACTCCCTCCGT 57.753 45.455 0.00 0.00 0.00 4.69
571 575 4.205587 TCTAATCAAGTACTCCCTCCGTC 58.794 47.826 0.00 0.00 0.00 4.79
572 576 1.777941 ATCAAGTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
573 577 0.679002 TCAAGTACTCCCTCCGTCCG 60.679 60.000 0.00 0.00 0.00 4.79
574 578 0.679002 CAAGTACTCCCTCCGTCCGA 60.679 60.000 0.00 0.00 0.00 4.55
575 579 0.038744 AAGTACTCCCTCCGTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
576 580 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
577 581 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
578 582 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
579 583 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
580 584 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
581 585 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
582 586 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
583 587 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
584 588 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
585 589 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
586 590 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
587 591 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
588 592 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
589 593 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
590 594 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
591 595 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
592 596 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
593 597 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
594 598 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
595 599 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
596 600 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
597 601 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
605 609 9.918630 ACTTGTCATCAAAATGGATAAAAAGAG 57.081 29.630 0.00 0.00 33.42 2.85
643 647 9.845214 ACTAAAATACATCTAGATACATCCCCT 57.155 33.333 4.54 0.00 0.00 4.79
651 655 9.170890 ACATCTAGATACATCCCCTTTTATTCA 57.829 33.333 4.54 0.00 0.00 2.57
657 661 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
660 664 8.378115 ACATCCCCTTTTATTCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
661 665 8.260114 ACATCCCCTTTTATTCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
662 666 7.789202 TCCCCTTTTATTCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
663 667 8.200024 TCCCCTTTTATTCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
664 668 8.313292 TCCCCTTTTATTCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
665 669 8.096414 CCCCTTTTATTCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
672 676 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
673 677 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
674 678 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
675 679 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
676 680 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
677 681 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
678 682 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
679 683 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
680 684 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
681 685 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
682 686 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
683 687 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
684 688 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
685 689 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
686 690 0.251742 TTTCCGGACGGAGGGAGTAA 60.252 55.000 13.64 1.47 46.06 2.24
687 691 0.682209 TTCCGGACGGAGGGAGTAAG 60.682 60.000 13.64 0.00 46.06 2.34
688 692 1.077212 CCGGACGGAGGGAGTAAGA 60.077 63.158 4.40 0.00 37.50 2.10
689 693 0.682209 CCGGACGGAGGGAGTAAGAA 60.682 60.000 4.40 0.00 37.50 2.52
690 694 1.400737 CGGACGGAGGGAGTAAGAAT 58.599 55.000 0.00 0.00 0.00 2.40
691 695 1.755380 CGGACGGAGGGAGTAAGAATT 59.245 52.381 0.00 0.00 0.00 2.17
692 696 2.954318 CGGACGGAGGGAGTAAGAATTA 59.046 50.000 0.00 0.00 0.00 1.40
693 697 3.382546 CGGACGGAGGGAGTAAGAATTAA 59.617 47.826 0.00 0.00 28.70 1.40
694 698 4.499357 CGGACGGAGGGAGTAAGAATTAAG 60.499 50.000 0.00 0.00 28.70 1.85
695 699 4.648307 GGACGGAGGGAGTAAGAATTAAGA 59.352 45.833 0.00 0.00 28.70 2.10
696 700 5.128335 GGACGGAGGGAGTAAGAATTAAGAA 59.872 44.000 0.00 0.00 28.70 2.52
697 701 6.223351 ACGGAGGGAGTAAGAATTAAGAAG 57.777 41.667 0.00 0.00 28.70 2.85
698 702 5.128991 ACGGAGGGAGTAAGAATTAAGAAGG 59.871 44.000 0.00 0.00 28.70 3.46
699 703 5.363005 CGGAGGGAGTAAGAATTAAGAAGGA 59.637 44.000 0.00 0.00 28.70 3.36
700 704 6.127140 CGGAGGGAGTAAGAATTAAGAAGGAA 60.127 42.308 0.00 0.00 28.70 3.36
701 705 7.580882 CGGAGGGAGTAAGAATTAAGAAGGAAA 60.581 40.741 0.00 0.00 28.70 3.13
702 706 8.275758 GGAGGGAGTAAGAATTAAGAAGGAAAT 58.724 37.037 0.00 0.00 28.70 2.17
703 707 9.332502 GAGGGAGTAAGAATTAAGAAGGAAATC 57.667 37.037 0.00 0.00 28.70 2.17
704 708 8.275758 AGGGAGTAAGAATTAAGAAGGAAATCC 58.724 37.037 0.00 0.00 28.70 3.01
705 709 7.502895 GGGAGTAAGAATTAAGAAGGAAATCCC 59.497 40.741 0.00 0.00 30.83 3.85
706 710 8.275758 GGAGTAAGAATTAAGAAGGAAATCCCT 58.724 37.037 0.00 0.00 38.80 4.20
707 711 9.688091 GAGTAAGAATTAAGAAGGAAATCCCTT 57.312 33.333 0.00 0.00 45.30 3.95
716 720 3.503998 GAAATCCCTTCCCTCCTGC 57.496 57.895 0.00 0.00 0.00 4.85
717 721 0.106469 GAAATCCCTTCCCTCCTGCC 60.106 60.000 0.00 0.00 0.00 4.85
718 722 1.584717 AAATCCCTTCCCTCCTGCCC 61.585 60.000 0.00 0.00 0.00 5.36
765 769 4.214327 CCTCTCGCGCCCTCCTTC 62.214 72.222 0.00 0.00 0.00 3.46
766 770 3.144193 CTCTCGCGCCCTCCTTCT 61.144 66.667 0.00 0.00 0.00 2.85
767 771 1.824329 CTCTCGCGCCCTCCTTCTA 60.824 63.158 0.00 0.00 0.00 2.10
768 772 1.791103 CTCTCGCGCCCTCCTTCTAG 61.791 65.000 0.00 0.00 0.00 2.43
769 773 3.492311 CTCGCGCCCTCCTTCTAGC 62.492 68.421 0.00 0.00 0.00 3.42
770 774 3.838271 CGCGCCCTCCTTCTAGCA 61.838 66.667 0.00 0.00 0.00 3.49
771 775 2.107953 GCGCCCTCCTTCTAGCAG 59.892 66.667 0.00 0.00 0.00 4.24
772 776 2.107953 CGCCCTCCTTCTAGCAGC 59.892 66.667 0.00 0.00 0.00 5.25
773 777 2.107953 GCCCTCCTTCTAGCAGCG 59.892 66.667 0.00 0.00 0.00 5.18
774 778 2.107953 CCCTCCTTCTAGCAGCGC 59.892 66.667 0.00 0.00 0.00 5.92
775 779 2.107953 CCTCCTTCTAGCAGCGCC 59.892 66.667 2.29 0.00 0.00 6.53
776 780 2.725312 CCTCCTTCTAGCAGCGCCA 61.725 63.158 2.29 0.00 0.00 5.69
781 785 1.473257 CCTTCTAGCAGCGCCATAACA 60.473 52.381 2.29 0.00 0.00 2.41
784 788 1.480545 TCTAGCAGCGCCATAACAGAA 59.519 47.619 2.29 0.00 0.00 3.02
810 814 4.082787 ACACTCAACAGTTCAAACACCAAG 60.083 41.667 0.00 0.00 0.00 3.61
812 816 4.522789 ACTCAACAGTTCAAACACCAAGTT 59.477 37.500 0.00 0.00 43.89 2.66
815 819 4.701956 ACAGTTCAAACACCAAGTTCAG 57.298 40.909 0.00 0.00 40.26 3.02
832 836 4.276926 AGTTCAGAAGTCAATGTCCTTTGC 59.723 41.667 0.00 0.00 0.00 3.68
834 838 3.565482 TCAGAAGTCAATGTCCTTTGCAC 59.435 43.478 0.00 0.00 0.00 4.57
835 839 2.887152 AGAAGTCAATGTCCTTTGCACC 59.113 45.455 0.00 0.00 0.00 5.01
837 841 1.133513 AGTCAATGTCCTTTGCACCCA 60.134 47.619 0.00 0.00 0.00 4.51
840 844 2.971330 TCAATGTCCTTTGCACCCAAAT 59.029 40.909 0.00 0.00 39.98 2.32
841 845 4.021544 GTCAATGTCCTTTGCACCCAAATA 60.022 41.667 0.00 0.00 39.98 1.40
890 896 1.169577 AGAGGTGTACGCTCAGAGTG 58.830 55.000 9.60 9.60 0.00 3.51
992 998 3.504134 CACCAATAACAAACACCATCGGA 59.496 43.478 0.00 0.00 0.00 4.55
1017 1023 2.249535 AATGCAGCAGATAGGCGCG 61.250 57.895 0.00 0.00 39.27 6.86
1020 1026 2.664185 CAGCAGATAGGCGCGCAT 60.664 61.111 34.42 30.20 39.27 4.73
1036 1042 1.746861 CGCATATTCCTCTTGCCACCA 60.747 52.381 0.00 0.00 32.76 4.17
1154 1591 2.113986 GCACCAGGTCAAGGCTGT 59.886 61.111 0.00 0.00 0.00 4.40
1157 1594 0.109342 CACCAGGTCAAGGCTGTTCT 59.891 55.000 0.00 0.00 0.00 3.01
1165 1602 3.604582 GTCAAGGCTGTTCTTAGAGCAT 58.395 45.455 0.00 0.00 42.22 3.79
1190 1627 1.482593 CCCCCTACAAGCTGTGACTAG 59.517 57.143 0.00 0.00 0.00 2.57
1215 1652 3.568007 TGAACACAAACCAGGAATACAGC 59.432 43.478 0.00 0.00 0.00 4.40
1252 1689 5.749462 AGACCATCCCTCTTCTGTTATTTG 58.251 41.667 0.00 0.00 0.00 2.32
1317 1757 2.360165 GCTATGCCAGGAAGGACAAATG 59.640 50.000 0.00 0.00 41.22 2.32
1321 1761 3.037549 TGCCAGGAAGGACAAATGTTTT 58.962 40.909 0.00 0.00 41.22 2.43
1322 1762 3.069443 TGCCAGGAAGGACAAATGTTTTC 59.931 43.478 0.00 0.00 41.22 2.29
1391 1833 1.411246 TCCACAACGCTGTCTACAGTT 59.589 47.619 11.54 0.00 45.45 3.16
1392 1834 2.624364 TCCACAACGCTGTCTACAGTTA 59.376 45.455 11.54 0.00 45.45 2.24
1405 1847 9.543018 GCTGTCTACAGTTATTACATTCAAAAC 57.457 33.333 11.54 0.00 45.45 2.43
1428 1870 5.221342 ACGGTTAGCCATGTCAATTTTCAAA 60.221 36.000 0.00 0.00 34.09 2.69
1446 1888 3.152341 CAAAGAGTGCTGTGGATCCTTT 58.848 45.455 14.23 0.00 0.00 3.11
1448 1890 1.066573 AGAGTGCTGTGGATCCTTTCG 60.067 52.381 14.23 0.00 0.00 3.46
1453 1895 1.734465 GCTGTGGATCCTTTCGAAGTG 59.266 52.381 14.23 0.00 0.00 3.16
1552 1994 2.937469 TAACATCCAAAGGCAATGCG 57.063 45.000 0.00 0.00 0.00 4.73
1573 2015 3.318017 GCTCGCTCTTTCAGAAGTACAA 58.682 45.455 0.00 0.00 34.41 2.41
1613 2055 6.320926 ACCTTTAAGGGTACGTTTTGCTAAAA 59.679 34.615 16.10 0.00 40.58 1.52
1755 2225 3.496130 GGTCATGCGAAAGAGATACCATG 59.504 47.826 0.00 0.00 33.29 3.66
1758 2228 4.992951 TCATGCGAAAGAGATACCATGATG 59.007 41.667 0.00 0.00 35.50 3.07
1800 2272 8.539544 TGATTTTCCTAGTCAGATTCATGTACA 58.460 33.333 0.00 0.00 0.00 2.90
1832 2306 6.481954 ACCATATCGTCAAGAAAACTCAAC 57.518 37.500 0.00 0.00 0.00 3.18
1888 2362 1.618343 TGTCATCAAGGTGAAGCTCGA 59.382 47.619 0.00 0.00 0.00 4.04
1922 2396 3.186409 GTGTAAGAGTGATCTTTGCGCAA 59.814 43.478 21.02 21.02 0.00 4.85
1940 2414 2.863704 GCAAACAATTGAGACACTGCCC 60.864 50.000 13.59 0.00 38.94 5.36
2006 2485 8.357402 GTGTTCCAACATAAGGTACTCAAATTT 58.643 33.333 0.00 0.00 38.70 1.82
2018 2497 9.614792 AAGGTACTCAAATTTGTGGTCTATATC 57.385 33.333 20.88 7.34 38.49 1.63
2019 2498 8.768397 AGGTACTCAAATTTGTGGTCTATATCA 58.232 33.333 20.88 3.42 0.00 2.15
2027 2506 9.614792 AAATTTGTGGTCTATATCAACTACTCC 57.385 33.333 0.00 0.00 0.00 3.85
2028 2507 6.726490 TTGTGGTCTATATCAACTACTCCC 57.274 41.667 5.78 0.00 0.00 4.30
2029 2508 6.027025 TGTGGTCTATATCAACTACTCCCT 57.973 41.667 5.78 0.00 0.00 4.20
2030 2509 6.069331 TGTGGTCTATATCAACTACTCCCTC 58.931 44.000 5.78 0.00 0.00 4.30
2031 2510 5.477637 GTGGTCTATATCAACTACTCCCTCC 59.522 48.000 0.00 0.00 0.00 4.30
2032 2511 4.701171 GGTCTATATCAACTACTCCCTCCG 59.299 50.000 0.00 0.00 0.00 4.63
2033 2512 5.315348 GTCTATATCAACTACTCCCTCCGT 58.685 45.833 0.00 0.00 0.00 4.69
2034 2513 5.412286 GTCTATATCAACTACTCCCTCCGTC 59.588 48.000 0.00 0.00 0.00 4.79
2035 2514 1.777941 ATCAACTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
2036 2515 0.324091 TCAACTACTCCCTCCGTCCC 60.324 60.000 0.00 0.00 0.00 4.46
2037 2516 1.379576 AACTACTCCCTCCGTCCCG 60.380 63.158 0.00 0.00 0.00 5.14
2038 2517 2.147433 AACTACTCCCTCCGTCCCGT 62.147 60.000 0.00 0.00 0.00 5.28
2039 2518 1.274703 ACTACTCCCTCCGTCCCGTA 61.275 60.000 0.00 0.00 0.00 4.02
2040 2519 0.107017 CTACTCCCTCCGTCCCGTAA 60.107 60.000 0.00 0.00 0.00 3.18
2041 2520 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
2042 2521 1.041447 ACTCCCTCCGTCCCGTAATG 61.041 60.000 0.00 0.00 0.00 1.90
2043 2522 1.000739 TCCCTCCGTCCCGTAATGT 59.999 57.895 0.00 0.00 0.00 2.71
2044 2523 0.258484 TCCCTCCGTCCCGTAATGTA 59.742 55.000 0.00 0.00 0.00 2.29
2045 2524 1.113788 CCCTCCGTCCCGTAATGTAA 58.886 55.000 0.00 0.00 0.00 2.41
2046 2525 1.068127 CCCTCCGTCCCGTAATGTAAG 59.932 57.143 0.00 0.00 0.00 2.34
2047 2526 2.026641 CCTCCGTCCCGTAATGTAAGA 58.973 52.381 0.00 0.00 0.00 2.10
2048 2527 2.223665 CCTCCGTCCCGTAATGTAAGAC 60.224 54.545 0.00 0.00 0.00 3.01
2050 2529 1.133025 CCGTCCCGTAATGTAAGACGT 59.867 52.381 9.63 0.00 46.62 4.34
2051 2530 2.415893 CCGTCCCGTAATGTAAGACGTT 60.416 50.000 9.63 0.00 46.62 3.99
2052 2531 3.244976 CGTCCCGTAATGTAAGACGTTT 58.755 45.455 2.88 0.00 43.89 3.60
2053 2532 3.674753 CGTCCCGTAATGTAAGACGTTTT 59.325 43.478 0.00 0.00 43.89 2.43
2054 2533 4.150451 CGTCCCGTAATGTAAGACGTTTTT 59.850 41.667 0.00 0.00 43.89 1.94
2099 2578 3.720949 CGTCTTACATTATGGGACGGA 57.279 47.619 20.50 2.30 43.69 4.69
2100 2579 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
2101 2580 3.552273 CGTCTTACATTATGGGACGGAGG 60.552 52.174 20.50 5.87 43.69 4.30
2102 2581 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
2115 2595 4.705991 GGGACGGAGGGAGTATATTTCTAG 59.294 50.000 0.00 0.00 0.00 2.43
2156 2636 1.000171 CCTTTTGAACTCCTTGCAGCC 60.000 52.381 0.00 0.00 0.00 4.85
2190 2670 1.029681 AAGGAACCGTTGTTTGCCTC 58.970 50.000 0.00 0.00 33.97 4.70
2229 2709 5.719563 TCCAACTCGCATATTCCCAGATATA 59.280 40.000 0.00 0.00 0.00 0.86
2265 2745 3.006247 GCAGTTCTTCTCATCCAAGGAC 58.994 50.000 0.00 0.00 30.27 3.85
2295 2775 3.316308 GCATCGAAAGGAATTGCCACTAT 59.684 43.478 0.00 0.00 40.02 2.12
2376 2856 3.770263 ATTGATCGCCAATTCACTGTG 57.230 42.857 0.17 0.17 42.55 3.66
2531 3012 6.930667 TTTTTCAAGTGGTGGTAAGACTAC 57.069 37.500 0.00 0.00 0.00 2.73
2535 3016 4.038763 TCAAGTGGTGGTAAGACTACACAG 59.961 45.833 0.00 0.00 30.50 3.66
2721 3204 6.018994 CAGAACTAAATTATGCTGGTACGACC 60.019 42.308 0.00 0.00 39.22 4.79
2729 3212 1.883275 TGCTGGTACGACCCAAAAATG 59.117 47.619 0.00 0.00 37.50 2.32
2743 3226 2.811431 CAAAAATGTCTCTGCCGTGGTA 59.189 45.455 0.00 0.00 0.00 3.25
2745 3228 4.481368 AAAATGTCTCTGCCGTGGTATA 57.519 40.909 0.00 0.00 0.00 1.47
2766 3250 0.802494 CTTAACCCATCGCGTGCTTT 59.198 50.000 5.77 2.64 0.00 3.51
2769 3253 0.321298 AACCCATCGCGTGCTTTAGT 60.321 50.000 5.77 0.00 0.00 2.24
2946 3430 0.398696 TAATGGCACCGAACACCTGT 59.601 50.000 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
262 265 1.780309 TCAACCTGAAATGGACTGGGT 59.220 47.619 0.00 0.00 0.00 4.51
331 334 0.660488 TGACTCAACGCAACGCAAAT 59.340 45.000 0.00 0.00 0.00 2.32
336 339 0.586319 AACCATGACTCAACGCAACG 59.414 50.000 0.00 0.00 0.00 4.10
364 367 0.692476 TCCTTGAGCTGCAGCCTAAA 59.308 50.000 34.39 23.48 43.38 1.85
418 421 4.017499 GGGTCCATTAGGCCCATTACATAT 60.017 45.833 0.00 0.00 45.38 1.78
464 467 3.468071 CCTAAGTAAGGGGCCCTTTTT 57.532 47.619 40.98 32.91 41.69 1.94
478 481 2.917205 AGGCTTACTTGTCCCCTAAGT 58.083 47.619 0.00 0.00 41.06 2.24
559 563 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
560 564 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
561 565 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
562 566 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
563 567 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
564 568 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
565 569 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
566 570 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
567 571 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
568 572 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
569 573 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
570 574 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
571 575 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
572 576 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
579 583 9.918630 CTCTTTTTATCCATTTTGATGACAAGT 57.081 29.630 0.00 0.00 37.32 3.16
617 621 9.845214 AGGGGATGTATCTAGATGTATTTTAGT 57.155 33.333 15.79 0.00 0.00 2.24
625 629 9.170890 TGAATAAAAGGGGATGTATCTAGATGT 57.829 33.333 15.79 1.25 0.00 3.06
631 635 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
634 638 9.486123 TCATCAAAATGAATAAAAGGGGATGTA 57.514 29.630 0.00 0.00 38.97 2.29
635 639 8.260114 GTCATCAAAATGAATAAAAGGGGATGT 58.740 33.333 0.00 0.00 43.42 3.06
636 640 8.259411 TGTCATCAAAATGAATAAAAGGGGATG 58.741 33.333 0.00 0.00 43.42 3.51
637 641 8.378115 TGTCATCAAAATGAATAAAAGGGGAT 57.622 30.769 0.00 0.00 43.42 3.85
638 642 7.789202 TGTCATCAAAATGAATAAAAGGGGA 57.211 32.000 0.00 0.00 43.42 4.81
639 643 8.096414 ACTTGTCATCAAAATGAATAAAAGGGG 58.904 33.333 0.00 0.00 43.42 4.79
647 651 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
648 652 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
649 653 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
650 654 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
651 655 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
652 656 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
653 657 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
654 658 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
655 659 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
656 660 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
657 661 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
658 662 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
659 663 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
660 664 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
661 665 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
662 666 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
663 667 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
664 668 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
665 669 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
666 670 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
667 671 0.251742 TTACTCCCTCCGTCCGGAAA 60.252 55.000 5.23 0.00 44.66 3.13
668 672 0.682209 CTTACTCCCTCCGTCCGGAA 60.682 60.000 5.23 0.00 44.66 4.30
669 673 1.077212 CTTACTCCCTCCGTCCGGA 60.077 63.158 0.00 0.00 42.90 5.14
670 674 0.682209 TTCTTACTCCCTCCGTCCGG 60.682 60.000 0.00 0.00 0.00 5.14
671 675 1.400737 ATTCTTACTCCCTCCGTCCG 58.599 55.000 0.00 0.00 0.00 4.79
672 676 4.648307 TCTTAATTCTTACTCCCTCCGTCC 59.352 45.833 0.00 0.00 0.00 4.79
673 677 5.848833 TCTTAATTCTTACTCCCTCCGTC 57.151 43.478 0.00 0.00 0.00 4.79
674 678 5.128991 CCTTCTTAATTCTTACTCCCTCCGT 59.871 44.000 0.00 0.00 0.00 4.69
675 679 5.363005 TCCTTCTTAATTCTTACTCCCTCCG 59.637 44.000 0.00 0.00 0.00 4.63
676 680 6.809976 TCCTTCTTAATTCTTACTCCCTCC 57.190 41.667 0.00 0.00 0.00 4.30
677 681 9.332502 GATTTCCTTCTTAATTCTTACTCCCTC 57.667 37.037 0.00 0.00 0.00 4.30
678 682 8.275758 GGATTTCCTTCTTAATTCTTACTCCCT 58.724 37.037 0.00 0.00 0.00 4.20
679 683 7.502895 GGGATTTCCTTCTTAATTCTTACTCCC 59.497 40.741 0.00 0.00 35.95 4.30
680 684 8.275758 AGGGATTTCCTTCTTAATTCTTACTCC 58.724 37.037 0.00 0.00 45.47 3.85
698 702 0.106469 GGCAGGAGGGAAGGGATTTC 60.106 60.000 0.00 0.00 34.93 2.17
699 703 1.584717 GGGCAGGAGGGAAGGGATTT 61.585 60.000 0.00 0.00 0.00 2.17
700 704 2.009302 GGGCAGGAGGGAAGGGATT 61.009 63.158 0.00 0.00 0.00 3.01
701 705 2.368878 GGGCAGGAGGGAAGGGAT 60.369 66.667 0.00 0.00 0.00 3.85
748 752 4.214327 GAAGGAGGGCGCGAGAGG 62.214 72.222 12.10 0.00 0.00 3.69
749 753 1.791103 CTAGAAGGAGGGCGCGAGAG 61.791 65.000 12.10 0.00 0.00 3.20
750 754 1.824329 CTAGAAGGAGGGCGCGAGA 60.824 63.158 12.10 0.00 0.00 4.04
751 755 2.725008 CTAGAAGGAGGGCGCGAG 59.275 66.667 12.10 0.00 0.00 5.03
752 756 3.528370 GCTAGAAGGAGGGCGCGA 61.528 66.667 12.10 0.00 0.00 5.87
753 757 3.781770 CTGCTAGAAGGAGGGCGCG 62.782 68.421 0.00 0.00 29.18 6.86
754 758 2.107953 CTGCTAGAAGGAGGGCGC 59.892 66.667 0.00 0.00 29.18 6.53
755 759 2.107953 GCTGCTAGAAGGAGGGCG 59.892 66.667 0.00 0.00 33.92 6.13
756 760 2.107953 CGCTGCTAGAAGGAGGGC 59.892 66.667 0.00 0.00 39.48 5.19
757 761 2.107953 GCGCTGCTAGAAGGAGGG 59.892 66.667 0.00 7.93 46.69 4.30
758 762 2.037620 ATGGCGCTGCTAGAAGGAGG 62.038 60.000 7.64 0.00 33.92 4.30
759 763 0.676184 TATGGCGCTGCTAGAAGGAG 59.324 55.000 7.64 0.00 36.68 3.69
760 764 1.119684 TTATGGCGCTGCTAGAAGGA 58.880 50.000 7.64 0.00 0.00 3.36
761 765 1.221414 GTTATGGCGCTGCTAGAAGG 58.779 55.000 7.64 0.00 0.00 3.46
762 766 1.863454 CTGTTATGGCGCTGCTAGAAG 59.137 52.381 7.64 0.00 0.00 2.85
763 767 1.480545 TCTGTTATGGCGCTGCTAGAA 59.519 47.619 7.64 0.00 0.00 2.10
764 768 1.111277 TCTGTTATGGCGCTGCTAGA 58.889 50.000 7.64 1.33 0.00 2.43
765 769 1.939974 TTCTGTTATGGCGCTGCTAG 58.060 50.000 7.64 0.00 0.00 3.42
766 770 2.158971 TGATTCTGTTATGGCGCTGCTA 60.159 45.455 7.64 0.00 0.00 3.49
767 771 1.303309 GATTCTGTTATGGCGCTGCT 58.697 50.000 7.64 0.00 0.00 4.24
768 772 1.016627 TGATTCTGTTATGGCGCTGC 58.983 50.000 7.64 0.00 0.00 5.25
769 773 2.009051 TGTGATTCTGTTATGGCGCTG 58.991 47.619 7.64 0.00 0.00 5.18
770 774 2.009774 GTGTGATTCTGTTATGGCGCT 58.990 47.619 7.64 0.00 0.00 5.92
771 775 2.009774 AGTGTGATTCTGTTATGGCGC 58.990 47.619 0.00 0.00 0.00 6.53
772 776 3.261580 TGAGTGTGATTCTGTTATGGCG 58.738 45.455 0.00 0.00 0.00 5.69
773 777 4.455533 TGTTGAGTGTGATTCTGTTATGGC 59.544 41.667 0.00 0.00 0.00 4.40
774 778 5.702670 ACTGTTGAGTGTGATTCTGTTATGG 59.297 40.000 0.00 0.00 0.00 2.74
775 779 6.791887 ACTGTTGAGTGTGATTCTGTTATG 57.208 37.500 0.00 0.00 0.00 1.90
776 780 6.992123 TGAACTGTTGAGTGTGATTCTGTTAT 59.008 34.615 0.00 0.00 30.61 1.89
781 785 5.647658 TGTTTGAACTGTTGAGTGTGATTCT 59.352 36.000 0.00 0.00 30.61 2.40
784 788 4.096382 GGTGTTTGAACTGTTGAGTGTGAT 59.904 41.667 0.00 0.00 30.61 3.06
810 814 4.036734 TGCAAAGGACATTGACTTCTGAAC 59.963 41.667 0.00 0.00 31.84 3.18
812 816 3.565482 GTGCAAAGGACATTGACTTCTGA 59.435 43.478 0.00 0.00 31.84 3.27
815 819 2.029918 GGGTGCAAAGGACATTGACTTC 60.030 50.000 0.00 0.00 31.84 3.01
832 836 4.644234 TGTGCTGGTGATATTATTTGGGTG 59.356 41.667 0.00 0.00 0.00 4.61
834 838 4.889409 AGTGTGCTGGTGATATTATTTGGG 59.111 41.667 0.00 0.00 0.00 4.12
835 839 5.277490 CGAGTGTGCTGGTGATATTATTTGG 60.277 44.000 0.00 0.00 0.00 3.28
837 841 5.428253 ACGAGTGTGCTGGTGATATTATTT 58.572 37.500 0.00 0.00 32.36 1.40
840 844 4.465632 AACGAGTGTGCTGGTGATATTA 57.534 40.909 0.00 0.00 33.89 0.98
841 845 3.334583 AACGAGTGTGCTGGTGATATT 57.665 42.857 0.00 0.00 33.89 1.28
908 914 5.163612 GGCACCTGATTCTTTAACATTCTCC 60.164 44.000 0.00 0.00 0.00 3.71
918 924 6.721208 TGATTTTAGAAGGCACCTGATTCTTT 59.279 34.615 0.00 0.00 35.09 2.52
958 964 0.467804 TATTGGTGGCGATGCTGCTA 59.532 50.000 0.00 0.00 34.52 3.49
992 998 3.220110 CCTATCTGCTGCATTGTGGATT 58.780 45.455 1.31 0.00 0.00 3.01
1017 1023 2.057137 TGGTGGCAAGAGGAATATGC 57.943 50.000 0.00 0.00 39.33 3.14
1019 1025 4.079558 ACTGATTGGTGGCAAGAGGAATAT 60.080 41.667 0.00 0.00 0.00 1.28
1020 1026 3.266772 ACTGATTGGTGGCAAGAGGAATA 59.733 43.478 0.00 0.00 0.00 1.75
1036 1042 3.690460 GTGGATGTTGAGGGAACTGATT 58.310 45.455 0.00 0.00 44.43 2.57
1154 1591 1.564348 GGGGGTTGGATGCTCTAAGAA 59.436 52.381 0.00 0.00 0.00 2.52
1157 1594 2.124411 GTAGGGGGTTGGATGCTCTAA 58.876 52.381 0.00 0.00 0.00 2.10
1165 1602 0.770557 ACAGCTTGTAGGGGGTTGGA 60.771 55.000 0.00 0.00 0.00 3.53
1190 1627 4.336993 TGTATTCCTGGTTTGTGTTCACAC 59.663 41.667 5.07 2.93 46.59 3.82
1209 1646 5.069781 GGTCTCAGAGAACCTTATGCTGTAT 59.930 44.000 3.78 0.00 0.00 2.29
1215 1652 4.202305 GGGATGGTCTCAGAGAACCTTATG 60.202 50.000 13.25 0.00 28.56 1.90
1317 1757 8.749499 CATGAACTTTCATCTCAACTTGAAAAC 58.251 33.333 1.28 0.00 45.62 2.43
1321 1761 6.767423 TGTCATGAACTTTCATCTCAACTTGA 59.233 34.615 0.00 0.00 45.62 3.02
1322 1762 6.854892 GTGTCATGAACTTTCATCTCAACTTG 59.145 38.462 0.00 0.00 45.62 3.16
1391 1833 7.121463 ACATGGCTAACCGTTTTGAATGTAATA 59.879 33.333 0.00 0.00 39.70 0.98
1392 1834 5.968528 TGGCTAACCGTTTTGAATGTAAT 57.031 34.783 0.00 0.00 39.70 1.89
1405 1847 4.433186 TGAAAATTGACATGGCTAACCG 57.567 40.909 0.00 0.00 39.70 4.44
1428 1870 1.066573 CGAAAGGATCCACAGCACTCT 60.067 52.381 15.82 0.00 0.00 3.24
1446 1888 8.988934 GGCTATGTATAAATCATTTCACTTCGA 58.011 33.333 0.00 0.00 0.00 3.71
1466 1908 4.943705 ACCTGTTACAACATGAAGGCTATG 59.056 41.667 0.00 0.00 38.41 2.23
1470 1912 3.146066 TGACCTGTTACAACATGAAGGC 58.854 45.455 0.00 0.00 38.41 4.35
1573 2015 6.433093 CCCTTAAAGGTGCAATGTACTTTAGT 59.567 38.462 0.00 0.00 36.92 2.24
1613 2055 3.631686 TGTTTTCTGTATTGTGCTGTGCT 59.368 39.130 0.00 0.00 0.00 4.40
1625 2095 4.595781 ACCAGTGGTCCTATGTTTTCTGTA 59.404 41.667 9.70 0.00 0.00 2.74
1714 2184 6.484364 TGACCAGCATGTCTATCTGAATTA 57.516 37.500 7.10 0.00 36.21 1.40
1743 2213 6.384015 TGGTGAACTACATCATGGTATCTCTT 59.616 38.462 0.00 0.00 34.38 2.85
1755 2225 6.500684 AATCATGTGTTGGTGAACTACATC 57.499 37.500 0.00 0.00 37.18 3.06
1758 2228 6.016276 AGGAAAATCATGTGTTGGTGAACTAC 60.016 38.462 0.00 0.00 32.79 2.73
1832 2306 7.301054 CACTCTGGCAAAACTAGATAAACTTG 58.699 38.462 0.00 0.00 35.03 3.16
1888 2362 5.376625 TCACTCTTACACCTTTGATTTGCT 58.623 37.500 0.00 0.00 0.00 3.91
1922 2396 1.202758 TCGGGCAGTGTCTCAATTGTT 60.203 47.619 5.13 0.00 0.00 2.83
1940 2414 8.484641 AGATGTAAATGCATACCTTATGATCG 57.515 34.615 0.00 0.00 38.45 3.69
2006 2485 6.027025 AGGGAGTAGTTGATATAGACCACA 57.973 41.667 0.00 0.00 0.00 4.17
2016 2495 1.688627 GGGACGGAGGGAGTAGTTGAT 60.689 57.143 0.00 0.00 0.00 2.57
2017 2496 0.324091 GGGACGGAGGGAGTAGTTGA 60.324 60.000 0.00 0.00 0.00 3.18
2018 2497 2.200052 GGGACGGAGGGAGTAGTTG 58.800 63.158 0.00 0.00 0.00 3.16
2019 2498 4.781264 GGGACGGAGGGAGTAGTT 57.219 61.111 0.00 0.00 0.00 2.24
2032 2511 5.596268 AAAAACGTCTTACATTACGGGAC 57.404 39.130 0.00 0.00 43.25 4.46
2074 2553 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
2075 2554 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
2076 2555 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
2077 2556 3.448301 TCCGTCCCATAATGTAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
2078 2557 3.025978 TCCGTCCCATAATGTAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
2080 2559 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
2081 2560 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
2082 2561 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
2083 2562 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
2084 2563 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
2085 2564 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
2086 2565 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
2087 2566 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
2088 2567 4.687262 ATATACTCCCTCCGTCCCATAA 57.313 45.455 0.00 0.00 0.00 1.90
2089 2568 4.687262 AATATACTCCCTCCGTCCCATA 57.313 45.455 0.00 0.00 0.00 2.74
2090 2569 3.562108 AATATACTCCCTCCGTCCCAT 57.438 47.619 0.00 0.00 0.00 4.00
2091 2570 3.116862 AGAAATATACTCCCTCCGTCCCA 60.117 47.826 0.00 0.00 0.00 4.37
2092 2571 3.508426 AGAAATATACTCCCTCCGTCCC 58.492 50.000 0.00 0.00 0.00 4.46
2093 2572 4.705991 CCTAGAAATATACTCCCTCCGTCC 59.294 50.000 0.00 0.00 0.00 4.79
2094 2573 4.158209 GCCTAGAAATATACTCCCTCCGTC 59.842 50.000 0.00 0.00 0.00 4.79
2095 2574 4.087907 GCCTAGAAATATACTCCCTCCGT 58.912 47.826 0.00 0.00 0.00 4.69
2096 2575 4.087182 TGCCTAGAAATATACTCCCTCCG 58.913 47.826 0.00 0.00 0.00 4.63
2097 2576 6.410540 CAATGCCTAGAAATATACTCCCTCC 58.589 44.000 0.00 0.00 0.00 4.30
2098 2577 5.877564 GCAATGCCTAGAAATATACTCCCTC 59.122 44.000 0.00 0.00 0.00 4.30
2099 2578 5.280727 GGCAATGCCTAGAAATATACTCCCT 60.281 44.000 18.47 0.00 46.69 4.20
2100 2579 4.944317 GGCAATGCCTAGAAATATACTCCC 59.056 45.833 18.47 0.00 46.69 4.30
2115 2595 2.480419 GTGAGATATACACGGCAATGCC 59.520 50.000 15.52 15.52 46.75 4.40
2124 2604 7.331791 AGGAGTTCAAAAGGTGAGATATACAC 58.668 38.462 4.53 4.53 37.61 2.90
2156 2636 0.323629 TCCTTTGGCTTCCAGTACGG 59.676 55.000 0.00 0.00 33.81 4.02
2229 2709 7.495055 AGAAGAACTGCAGAATTTTTGTTGAT 58.505 30.769 23.35 0.00 0.00 2.57
2265 2745 5.258622 CAATTCCTTTCGATGCTTTAGTCG 58.741 41.667 0.00 0.00 39.11 4.18
2363 2843 1.963515 AGGAAACCACAGTGAATTGGC 59.036 47.619 0.62 0.00 36.20 4.52
2376 2856 2.489938 TATGGTGCTGTGAGGAAACC 57.510 50.000 0.00 0.00 0.00 3.27
2531 3012 5.705902 TCAATTGTTTGCATCTGATCTGTG 58.294 37.500 5.13 0.00 32.61 3.66
2535 3016 4.740268 TGCTCAATTGTTTGCATCTGATC 58.260 39.130 15.43 0.00 32.61 2.92
2721 3204 1.068333 CCACGGCAGAGACATTTTTGG 60.068 52.381 0.00 0.00 0.00 3.28
2729 3212 1.033574 AGCTATACCACGGCAGAGAC 58.966 55.000 0.00 0.00 0.00 3.36
2743 3226 1.865865 CACGCGATGGGTTAAGCTAT 58.134 50.000 15.93 2.87 0.00 2.97
2745 3228 2.106683 GCACGCGATGGGTTAAGCT 61.107 57.895 15.93 0.00 0.00 3.74
2766 3250 1.339055 GCTGGTGCTGGTGATTCACTA 60.339 52.381 16.02 9.61 33.75 2.74
2769 3253 1.303561 GGCTGGTGCTGGTGATTCA 60.304 57.895 0.00 0.00 39.59 2.57
2925 3409 2.091541 CAGGTGTTCGGTGCCATTATT 58.908 47.619 0.00 0.00 0.00 1.40
2946 3430 4.198530 TGATCAGCGCCTTGATAAAATCA 58.801 39.130 11.69 4.33 37.90 2.57
3120 3604 1.619807 ATTACCTCGTGGTTCCCCGG 61.620 60.000 15.36 0.00 46.05 5.73
3126 3610 1.138266 CCCATCGATTACCTCGTGGTT 59.862 52.381 15.36 0.00 46.05 3.67
3174 3658 2.126307 CAGGTGTCCGAGCAGACG 60.126 66.667 0.00 0.00 39.77 4.18


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

AutoCloner maintained by Alex Coulton.