Multiple sequence alignment - TraesCS7B01G218900

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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 TraesCS7B01G218900 chr7B 100.000 4393 0 0 1 4393 409219398 409223790 0.000000e+00 8113.0
1 TraesCS7B01G218900 chr7B 80.993 1068 197 6 1504 2568 409749079 409748015 0.000000e+00 843.0
2 TraesCS7B01G218900 chr7B 79.365 1071 201 18 1510 2567 157688458 157689521 0.000000e+00 736.0
3 TraesCS7B01G218900 chr7B 86.798 659 76 3 493 1140 409750121 409749463 0.000000e+00 725.0
4 TraesCS7B01G218900 chr7D 93.968 3017 99 32 1 2961 399832475 399835464 0.000000e+00 4486.0
5 TraesCS7B01G218900 chr7D 94.270 1274 39 12 3122 4393 399835463 399836704 0.000000e+00 1917.0
6 TraesCS7B01G218900 chr7D 80.019 1071 196 16 1509 2567 193935685 193936749 0.000000e+00 776.0
7 TraesCS7B01G218900 chr7D 85.736 659 83 3 493 1140 400185879 400185221 0.000000e+00 686.0
8 TraesCS7B01G218900 chr7D 84.322 708 86 20 3692 4393 520799099 520799787 0.000000e+00 669.0
9 TraesCS7B01G218900 chr7A 93.468 3016 113 30 1 2961 457682610 457685596 0.000000e+00 4401.0
10 TraesCS7B01G218900 chr7A 88.038 744 62 7 3632 4373 457692715 457693433 0.000000e+00 856.0
11 TraesCS7B01G218900 chr7A 79.213 1068 208 12 1510 2567 203526194 203527257 0.000000e+00 730.0
12 TraesCS7B01G218900 chr7A 92.283 311 22 1 3337 3647 457692395 457692703 1.450000e-119 440.0
13 TraesCS7B01G218900 chr7A 93.401 197 10 3 3122 3318 457685595 457685788 5.560000e-74 289.0
14 TraesCS7B01G218900 chr7A 100.000 28 0 0 3369 3396 20214983 20214956 8.000000e-03 52.8
15 TraesCS7B01G218900 chr1D 83.984 1230 175 8 1504 2727 416681 417894 0.000000e+00 1160.0
16 TraesCS7B01G218900 chr1D 90.588 680 54 4 463 1132 415434 416113 0.000000e+00 893.0
17 TraesCS7B01G218900 chr1D 79.041 1064 193 19 1526 2567 80843133 80844188 0.000000e+00 702.0
18 TraesCS7B01G218900 chr1D 83.539 486 62 13 3684 4165 486064656 486065127 5.220000e-119 438.0
19 TraesCS7B01G218900 chr1D 89.355 310 28 5 4085 4393 132852330 132852635 6.890000e-103 385.0
20 TraesCS7B01G218900 chr1A 80.019 1071 197 13 1510 2567 99319309 99320375 0.000000e+00 776.0
21 TraesCS7B01G218900 chr4D 86.061 660 79 9 481 1127 503920965 503920306 0.000000e+00 697.0
22 TraesCS7B01G218900 chr4D 82.801 657 67 17 3721 4373 137758507 137759121 2.990000e-151 545.0
23 TraesCS7B01G218900 chrUn 86.720 625 72 3 517 1130 100315253 100314629 0.000000e+00 684.0
24 TraesCS7B01G218900 chrUn 84.848 660 87 8 481 1127 350362709 350362050 0.000000e+00 652.0
25 TraesCS7B01G218900 chrUn 90.096 313 22 8 4085 4393 395014261 395013954 8.850000e-107 398.0
26 TraesCS7B01G218900 chr4B 85.780 654 83 3 482 1125 667572892 667572239 0.000000e+00 684.0
27 TraesCS7B01G218900 chr4B 95.556 180 4 3 2960 3137 208912466 208912289 7.190000e-73 285.0
28 TraesCS7B01G218900 chr4B 81.298 262 39 4 876 1127 650577997 650578258 2.070000e-48 204.0
29 TraesCS7B01G218900 chr2D 84.300 707 84 17 3692 4393 180494069 180494753 0.000000e+00 665.0
30 TraesCS7B01G218900 chr2D 83.475 708 81 16 3692 4393 500649542 500650219 1.040000e-175 627.0
31 TraesCS7B01G218900 chr5D 84.384 698 79 17 3699 4393 564984080 564983410 0.000000e+00 658.0
32 TraesCS7B01G218900 chr3A 86.201 616 66 14 3721 4332 163452558 163451958 0.000000e+00 649.0
33 TraesCS7B01G218900 chr3A 92.500 40 3 0 3369 3408 375814996 375814957 1.710000e-04 58.4
34 TraesCS7B01G218900 chr3B 83.144 706 92 14 3692 4393 697916306 697916988 1.740000e-173 619.0
35 TraesCS7B01G218900 chr3B 97.619 168 4 0 2956 3123 176920233 176920066 5.560000e-74 289.0
36 TraesCS7B01G218900 chr3B 95.604 182 5 3 2957 3136 256781476 256781296 5.560000e-74 289.0
37 TraesCS7B01G218900 chr3B 97.076 171 4 1 2960 3130 783212873 783212704 2.000000e-73 287.0
38 TraesCS7B01G218900 chr3B 96.532 173 5 1 2951 3123 731267209 731267038 7.190000e-73 285.0
39 TraesCS7B01G218900 chr6D 81.302 722 100 21 3676 4393 248010484 248011174 1.790000e-153 553.0
40 TraesCS7B01G218900 chr4A 90.096 313 21 9 4085 4393 592525312 592525006 8.850000e-107 398.0
41 TraesCS7B01G218900 chr4A 90.096 313 22 8 4085 4393 592811607 592811300 8.850000e-107 398.0
42 TraesCS7B01G218900 chr4A 90.096 313 21 9 4085 4393 593091867 593091561 8.850000e-107 398.0
43 TraesCS7B01G218900 chr4A 89.776 313 22 9 4085 4393 591518993 591519299 4.120000e-105 392.0
44 TraesCS7B01G218900 chr4A 95.954 173 6 1 2958 3130 676920989 676920818 3.350000e-71 279.0
45 TraesCS7B01G218900 chr5A 98.214 168 3 0 2958 3125 675526886 675527053 1.190000e-75 294.0
46 TraesCS7B01G218900 chr5B 96.552 174 5 1 2959 3131 276913961 276913788 2.000000e-73 287.0
47 TraesCS7B01G218900 chr5B 95.506 178 6 1 2948 3125 467042760 467042935 2.590000e-72 283.0


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 TraesCS7B01G218900 chr7B 409219398 409223790 4392 False 8113.0 8113 100.0000 1 4393 1 chr7B.!!$F2 4392
1 TraesCS7B01G218900 chr7B 409748015 409750121 2106 True 784.0 843 83.8955 493 2568 2 chr7B.!!$R1 2075
2 TraesCS7B01G218900 chr7B 157688458 157689521 1063 False 736.0 736 79.3650 1510 2567 1 chr7B.!!$F1 1057
3 TraesCS7B01G218900 chr7D 399832475 399836704 4229 False 3201.5 4486 94.1190 1 4393 2 chr7D.!!$F3 4392
4 TraesCS7B01G218900 chr7D 193935685 193936749 1064 False 776.0 776 80.0190 1509 2567 1 chr7D.!!$F1 1058
5 TraesCS7B01G218900 chr7D 400185221 400185879 658 True 686.0 686 85.7360 493 1140 1 chr7D.!!$R1 647
6 TraesCS7B01G218900 chr7D 520799099 520799787 688 False 669.0 669 84.3220 3692 4393 1 chr7D.!!$F2 701
7 TraesCS7B01G218900 chr7A 457682610 457685788 3178 False 2345.0 4401 93.4345 1 3318 2 chr7A.!!$F2 3317
8 TraesCS7B01G218900 chr7A 203526194 203527257 1063 False 730.0 730 79.2130 1510 2567 1 chr7A.!!$F1 1057
9 TraesCS7B01G218900 chr7A 457692395 457693433 1038 False 648.0 856 90.1605 3337 4373 2 chr7A.!!$F3 1036
10 TraesCS7B01G218900 chr1D 415434 417894 2460 False 1026.5 1160 87.2860 463 2727 2 chr1D.!!$F4 2264
11 TraesCS7B01G218900 chr1D 80843133 80844188 1055 False 702.0 702 79.0410 1526 2567 1 chr1D.!!$F1 1041
12 TraesCS7B01G218900 chr1A 99319309 99320375 1066 False 776.0 776 80.0190 1510 2567 1 chr1A.!!$F1 1057
13 TraesCS7B01G218900 chr4D 503920306 503920965 659 True 697.0 697 86.0610 481 1127 1 chr4D.!!$R1 646
14 TraesCS7B01G218900 chr4D 137758507 137759121 614 False 545.0 545 82.8010 3721 4373 1 chr4D.!!$F1 652
15 TraesCS7B01G218900 chrUn 100314629 100315253 624 True 684.0 684 86.7200 517 1130 1 chrUn.!!$R1 613
16 TraesCS7B01G218900 chrUn 350362050 350362709 659 True 652.0 652 84.8480 481 1127 1 chrUn.!!$R2 646
17 TraesCS7B01G218900 chr4B 667572239 667572892 653 True 684.0 684 85.7800 482 1125 1 chr4B.!!$R2 643
18 TraesCS7B01G218900 chr2D 180494069 180494753 684 False 665.0 665 84.3000 3692 4393 1 chr2D.!!$F1 701
19 TraesCS7B01G218900 chr2D 500649542 500650219 677 False 627.0 627 83.4750 3692 4393 1 chr2D.!!$F2 701
20 TraesCS7B01G218900 chr5D 564983410 564984080 670 True 658.0 658 84.3840 3699 4393 1 chr5D.!!$R1 694
21 TraesCS7B01G218900 chr3A 163451958 163452558 600 True 649.0 649 86.2010 3721 4332 1 chr3A.!!$R1 611
22 TraesCS7B01G218900 chr3B 697916306 697916988 682 False 619.0 619 83.1440 3692 4393 1 chr3B.!!$F1 701
23 TraesCS7B01G218900 chr6D 248010484 248011174 690 False 553.0 553 81.3020 3676 4393 1 chr6D.!!$F1 717

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
268 288 1.447140 GCTGCATGGGTTACGACGA 60.447 57.895 0.00 0.00 0.00 4.20 F
449 487 2.351060 CGTGTTACAAGGTCGACTAGCA 60.351 50.000 16.46 5.29 0.00 3.49 F
1239 1316 0.324943 ACTGCCGAGCATGTACCTTT 59.675 50.000 0.00 0.00 38.13 3.11 F
2975 3560 0.410663 TTCTACTCCCTCCGTTCCCA 59.589 55.000 0.00 0.00 0.00 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1168 1239 1.246649 ATCCGAAACAAGCATGCACA 58.753 45.000 21.98 0.0 0.00 4.57 R
1426 1660 1.476291 CCCCGAACCCATAAACTAGCC 60.476 57.143 0.00 0.0 0.00 3.93 R
3058 3643 0.528924 AGTGACTACATACGGCGCAA 59.471 50.000 10.83 0.0 0.00 4.85 R
3780 4399 1.146982 TCTTTGTTTGGGCCCTAGCTT 59.853 47.619 25.70 0.0 39.73 3.74 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
26 27 9.733556 TGTGTACAAATAAACCTATGTGAATCT 57.266 29.630 0.00 0.00 0.00 2.40
31 32 9.423061 ACAAATAAACCTATGTGAATCTTTTGC 57.577 29.630 0.00 0.00 0.00 3.68
33 34 7.716799 ATAAACCTATGTGAATCTTTTGCCA 57.283 32.000 0.00 0.00 0.00 4.92
52 53 7.473735 TTGCCAAAAAGACCATATATGAACA 57.526 32.000 14.54 0.00 0.00 3.18
53 54 7.473735 TGCCAAAAAGACCATATATGAACAA 57.526 32.000 14.54 0.00 0.00 2.83
55 56 9.194972 TGCCAAAAAGACCATATATGAACAATA 57.805 29.630 14.54 0.00 0.00 1.90
72 77 9.685276 ATGAACAATAAATTAGTGACCTGATGA 57.315 29.630 7.49 0.00 0.00 2.92
113 118 2.812178 AACCGCGCGTGGACATAC 60.812 61.111 42.78 5.79 0.00 2.39
157 162 4.804139 AGGAACTAGCGAACAATGAATACG 59.196 41.667 0.00 0.00 36.02 3.06
185 190 3.951775 ACTCTGGATCAACACTCACTC 57.048 47.619 0.00 0.00 0.00 3.51
186 191 3.234353 ACTCTGGATCAACACTCACTCA 58.766 45.455 0.00 0.00 0.00 3.41
268 288 1.447140 GCTGCATGGGTTACGACGA 60.447 57.895 0.00 0.00 0.00 4.20
366 402 3.823304 GCTTAGCTATTTAATGCCTGCCT 59.177 43.478 0.00 0.00 0.00 4.75
389 425 2.418197 GGCTAACAGCGGTAGTCATTCA 60.418 50.000 0.00 0.00 43.62 2.57
426 464 3.736252 CACATACTCTACACATTAGCGGC 59.264 47.826 0.00 0.00 0.00 6.53
449 487 2.351060 CGTGTTACAAGGTCGACTAGCA 60.351 50.000 16.46 5.29 0.00 3.49
467 505 3.216800 AGCAAAGTGTCAAGAGCAATGA 58.783 40.909 0.00 0.00 0.00 2.57
478 516 2.447443 AGAGCAATGACAGGACGTAGA 58.553 47.619 0.00 0.00 0.00 2.59
1168 1239 7.595311 ACAAACGCAAGAAGAAAATTCTTTT 57.405 28.000 9.60 1.80 46.84 2.27
1196 1268 4.059511 TGCTTGTTTCGGATTCTTTCGTA 58.940 39.130 0.00 0.00 0.00 3.43
1229 1301 2.682856 TGGAAAATATCAACTGCCGAGC 59.317 45.455 0.00 0.00 0.00 5.03
1239 1316 0.324943 ACTGCCGAGCATGTACCTTT 59.675 50.000 0.00 0.00 38.13 3.11
1447 1681 1.487558 GCTAGTTTATGGGTTCGGGGA 59.512 52.381 0.00 0.00 0.00 4.81
1500 1792 5.459982 AAGGGCTAATTTATGGGTGTACA 57.540 39.130 0.00 0.00 0.00 2.90
1544 2094 2.390599 GCAGCCGATGTTCAAGCGA 61.391 57.895 0.00 0.00 41.20 4.93
1622 2172 2.968206 GGGCTGTACGAGTTCGGT 59.032 61.111 6.48 0.00 44.95 4.69
1751 2306 4.607606 CCGACGCTCGCGCTCATA 62.608 66.667 11.65 0.00 44.19 2.15
1895 2453 2.527123 TTCACAGGGTGGCCGGTA 60.527 61.111 1.90 0.00 33.87 4.02
2038 2596 4.116328 CGTGGCGCTCTCGAAGGA 62.116 66.667 7.64 0.00 38.10 3.36
2153 2714 0.691078 TCAGGGCCTCTTCCGCTTAT 60.691 55.000 0.95 0.00 0.00 1.73
2213 2780 1.752683 ACTACCGGAGCTACACTGAG 58.247 55.000 9.46 0.00 0.00 3.35
2381 2948 0.617820 AGGTGAAGGCCAGGTACGAT 60.618 55.000 5.01 0.00 0.00 3.73
2501 3071 1.220206 CTGCTCCAAGGACTCGCAT 59.780 57.895 2.49 0.00 0.00 4.73
2743 3322 5.686753 AGAGATTGTATCGTCTCTACTGGT 58.313 41.667 3.24 0.00 46.93 4.00
2744 3323 6.828788 AGAGATTGTATCGTCTCTACTGGTA 58.171 40.000 3.24 0.00 46.93 3.25
2765 3347 5.756833 GGTATAGTAAGTTGGTTTGATCCGG 59.243 44.000 0.00 0.00 0.00 5.14
2780 3365 2.973694 TCCGGGCTACTTGATGTAAC 57.026 50.000 0.00 0.00 0.00 2.50
2890 3475 2.047655 TTTAGGGCAGGTGACGCG 60.048 61.111 3.53 3.53 0.00 6.01
2961 3546 6.894828 TGGTCAAAAAGCTTTACGATTCTAC 58.105 36.000 13.10 3.91 0.00 2.59
2962 3547 6.708949 TGGTCAAAAAGCTTTACGATTCTACT 59.291 34.615 13.10 0.00 0.00 2.57
2963 3548 7.095355 TGGTCAAAAAGCTTTACGATTCTACTC 60.095 37.037 13.10 0.00 0.00 2.59
2964 3549 7.235080 GTCAAAAAGCTTTACGATTCTACTCC 58.765 38.462 13.10 0.00 0.00 3.85
2965 3550 6.370718 TCAAAAAGCTTTACGATTCTACTCCC 59.629 38.462 13.10 0.00 0.00 4.30
2966 3551 5.678955 AAAGCTTTACGATTCTACTCCCT 57.321 39.130 10.72 0.00 0.00 4.20
2967 3552 4.922471 AGCTTTACGATTCTACTCCCTC 57.078 45.455 0.00 0.00 0.00 4.30
2968 3553 3.637694 AGCTTTACGATTCTACTCCCTCC 59.362 47.826 0.00 0.00 0.00 4.30
2969 3554 3.550436 GCTTTACGATTCTACTCCCTCCG 60.550 52.174 0.00 0.00 0.00 4.63
2970 3555 3.287867 TTACGATTCTACTCCCTCCGT 57.712 47.619 0.00 0.00 0.00 4.69
2971 3556 2.140839 ACGATTCTACTCCCTCCGTT 57.859 50.000 0.00 0.00 0.00 4.44
2972 3557 2.022934 ACGATTCTACTCCCTCCGTTC 58.977 52.381 0.00 0.00 0.00 3.95
2973 3558 1.337387 CGATTCTACTCCCTCCGTTCC 59.663 57.143 0.00 0.00 0.00 3.62
2974 3559 1.687660 GATTCTACTCCCTCCGTTCCC 59.312 57.143 0.00 0.00 0.00 3.97
2975 3560 0.410663 TTCTACTCCCTCCGTTCCCA 59.589 55.000 0.00 0.00 0.00 4.37
2976 3561 0.410663 TCTACTCCCTCCGTTCCCAA 59.589 55.000 0.00 0.00 0.00 4.12
2977 3562 1.203212 TCTACTCCCTCCGTTCCCAAA 60.203 52.381 0.00 0.00 0.00 3.28
2978 3563 1.838077 CTACTCCCTCCGTTCCCAAAT 59.162 52.381 0.00 0.00 0.00 2.32
2979 3564 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
2980 3565 1.558294 ACTCCCTCCGTTCCCAAATAC 59.442 52.381 0.00 0.00 0.00 1.89
2981 3566 1.838077 CTCCCTCCGTTCCCAAATACT 59.162 52.381 0.00 0.00 0.00 2.12
2982 3567 2.238898 CTCCCTCCGTTCCCAAATACTT 59.761 50.000 0.00 0.00 0.00 2.24
2983 3568 2.026636 TCCCTCCGTTCCCAAATACTTG 60.027 50.000 0.00 0.00 0.00 3.16
2984 3569 2.290705 CCCTCCGTTCCCAAATACTTGT 60.291 50.000 0.00 0.00 0.00 3.16
2985 3570 3.007635 CCTCCGTTCCCAAATACTTGTC 58.992 50.000 0.00 0.00 0.00 3.18
2986 3571 3.307480 CCTCCGTTCCCAAATACTTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
2987 3572 4.324267 CTCCGTTCCCAAATACTTGTCTT 58.676 43.478 0.00 0.00 0.00 3.01
2988 3573 4.721132 TCCGTTCCCAAATACTTGTCTTT 58.279 39.130 0.00 0.00 0.00 2.52
2989 3574 4.758165 TCCGTTCCCAAATACTTGTCTTTC 59.242 41.667 0.00 0.00 0.00 2.62
2990 3575 4.760204 CCGTTCCCAAATACTTGTCTTTCT 59.240 41.667 0.00 0.00 0.00 2.52
2991 3576 5.935789 CCGTTCCCAAATACTTGTCTTTCTA 59.064 40.000 0.00 0.00 0.00 2.10
2992 3577 6.092259 CCGTTCCCAAATACTTGTCTTTCTAG 59.908 42.308 0.00 0.00 0.00 2.43
2993 3578 6.092259 CGTTCCCAAATACTTGTCTTTCTAGG 59.908 42.308 0.00 0.00 0.00 3.02
2994 3579 5.497474 TCCCAAATACTTGTCTTTCTAGGC 58.503 41.667 0.00 0.00 0.00 3.93
2995 3580 5.013704 TCCCAAATACTTGTCTTTCTAGGCA 59.986 40.000 0.00 0.00 33.22 4.75
2996 3581 5.888161 CCCAAATACTTGTCTTTCTAGGCAT 59.112 40.000 0.00 0.00 35.56 4.40
2997 3582 6.378280 CCCAAATACTTGTCTTTCTAGGCATT 59.622 38.462 0.00 0.00 35.56 3.56
2998 3583 7.093771 CCCAAATACTTGTCTTTCTAGGCATTT 60.094 37.037 0.00 0.00 35.56 2.32
2999 3584 7.970614 CCAAATACTTGTCTTTCTAGGCATTTC 59.029 37.037 0.00 0.00 35.56 2.17
3000 3585 8.514594 CAAATACTTGTCTTTCTAGGCATTTCA 58.485 33.333 0.00 0.00 35.56 2.69
3001 3586 8.635765 AATACTTGTCTTTCTAGGCATTTCAA 57.364 30.769 0.00 0.00 35.56 2.69
3002 3587 6.959639 ACTTGTCTTTCTAGGCATTTCAAA 57.040 33.333 0.00 0.00 35.56 2.69
3003 3588 7.530426 ACTTGTCTTTCTAGGCATTTCAAAT 57.470 32.000 0.00 0.00 35.56 2.32
3004 3589 7.373493 ACTTGTCTTTCTAGGCATTTCAAATG 58.627 34.615 5.68 5.68 35.56 2.32
3005 3590 6.271488 TGTCTTTCTAGGCATTTCAAATGG 57.729 37.500 12.14 0.00 29.10 3.16
3006 3591 6.009589 TGTCTTTCTAGGCATTTCAAATGGA 58.990 36.000 12.14 0.00 29.10 3.41
3007 3592 6.071952 TGTCTTTCTAGGCATTTCAAATGGAC 60.072 38.462 12.14 8.23 29.10 4.02
3008 3593 6.151817 GTCTTTCTAGGCATTTCAAATGGACT 59.848 38.462 12.14 3.08 0.00 3.85
3009 3594 6.375455 TCTTTCTAGGCATTTCAAATGGACTC 59.625 38.462 12.14 0.00 0.00 3.36
3010 3595 5.178096 TCTAGGCATTTCAAATGGACTCA 57.822 39.130 12.14 0.00 0.00 3.41
3011 3596 5.569355 TCTAGGCATTTCAAATGGACTCAA 58.431 37.500 12.14 0.00 0.00 3.02
3012 3597 4.525912 AGGCATTTCAAATGGACTCAAC 57.474 40.909 12.14 0.00 0.00 3.18
3013 3598 3.896888 AGGCATTTCAAATGGACTCAACA 59.103 39.130 12.14 0.00 0.00 3.33
3014 3599 4.529377 AGGCATTTCAAATGGACTCAACAT 59.471 37.500 12.14 0.00 0.00 2.71
3015 3600 5.716228 AGGCATTTCAAATGGACTCAACATA 59.284 36.000 12.14 0.00 0.00 2.29
3016 3601 5.807011 GGCATTTCAAATGGACTCAACATAC 59.193 40.000 12.14 0.00 0.00 2.39
3017 3602 5.512788 GCATTTCAAATGGACTCAACATACG 59.487 40.000 12.14 0.00 0.00 3.06
3018 3603 5.621197 TTTCAAATGGACTCAACATACGG 57.379 39.130 0.00 0.00 0.00 4.02
3019 3604 4.545208 TCAAATGGACTCAACATACGGA 57.455 40.909 0.00 0.00 0.00 4.69
3020 3605 5.097742 TCAAATGGACTCAACATACGGAT 57.902 39.130 0.00 0.00 0.00 4.18
3021 3606 4.875536 TCAAATGGACTCAACATACGGATG 59.124 41.667 5.94 5.94 39.16 3.51
3023 3608 5.607939 AATGGACTCAACATACGGATGTA 57.392 39.130 15.10 0.00 45.93 2.29
3024 3609 5.808366 ATGGACTCAACATACGGATGTAT 57.192 39.130 15.10 0.00 45.93 2.29
3062 3647 5.998454 AGGATAGATTCACTCATTTTGCG 57.002 39.130 0.00 0.00 0.00 4.85
3063 3648 4.274459 AGGATAGATTCACTCATTTTGCGC 59.726 41.667 0.00 0.00 0.00 6.09
3064 3649 2.927553 AGATTCACTCATTTTGCGCC 57.072 45.000 4.18 0.00 0.00 6.53
3065 3650 1.131126 AGATTCACTCATTTTGCGCCG 59.869 47.619 4.18 0.00 0.00 6.46
3066 3651 0.881118 ATTCACTCATTTTGCGCCGT 59.119 45.000 4.18 0.00 0.00 5.68
3067 3652 1.514003 TTCACTCATTTTGCGCCGTA 58.486 45.000 4.18 0.00 0.00 4.02
3068 3653 1.732941 TCACTCATTTTGCGCCGTAT 58.267 45.000 4.18 0.00 0.00 3.06
3069 3654 1.396648 TCACTCATTTTGCGCCGTATG 59.603 47.619 4.18 5.63 0.00 2.39
3070 3655 1.130373 CACTCATTTTGCGCCGTATGT 59.870 47.619 4.18 0.00 0.00 2.29
3071 3656 2.350192 CACTCATTTTGCGCCGTATGTA 59.650 45.455 4.18 0.00 0.00 2.29
3072 3657 2.607635 ACTCATTTTGCGCCGTATGTAG 59.392 45.455 4.18 7.56 0.00 2.74
3073 3658 2.607635 CTCATTTTGCGCCGTATGTAGT 59.392 45.455 4.18 0.00 0.00 2.73
3074 3659 2.605818 TCATTTTGCGCCGTATGTAGTC 59.394 45.455 4.18 0.00 0.00 2.59
3075 3660 2.081725 TTTTGCGCCGTATGTAGTCA 57.918 45.000 4.18 0.00 0.00 3.41
3076 3661 1.352114 TTTGCGCCGTATGTAGTCAC 58.648 50.000 4.18 0.00 0.00 3.67
3077 3662 0.528924 TTGCGCCGTATGTAGTCACT 59.471 50.000 4.18 0.00 0.00 3.41
3078 3663 0.528924 TGCGCCGTATGTAGTCACTT 59.471 50.000 4.18 0.00 0.00 3.16
3079 3664 0.921347 GCGCCGTATGTAGTCACTTG 59.079 55.000 0.00 0.00 0.00 3.16
3080 3665 1.734707 GCGCCGTATGTAGTCACTTGT 60.735 52.381 0.00 0.00 0.00 3.16
3081 3666 2.602878 CGCCGTATGTAGTCACTTGTT 58.397 47.619 0.00 0.00 0.00 2.83
3082 3667 2.344441 CGCCGTATGTAGTCACTTGTTG 59.656 50.000 0.00 0.00 0.00 3.33
3083 3668 3.581755 GCCGTATGTAGTCACTTGTTGA 58.418 45.455 0.00 0.00 0.00 3.18
3084 3669 3.991773 GCCGTATGTAGTCACTTGTTGAA 59.008 43.478 0.00 0.00 35.39 2.69
3085 3670 4.449743 GCCGTATGTAGTCACTTGTTGAAA 59.550 41.667 0.00 0.00 35.39 2.69
3086 3671 5.121768 GCCGTATGTAGTCACTTGTTGAAAT 59.878 40.000 0.00 0.00 35.39 2.17
3087 3672 6.672357 GCCGTATGTAGTCACTTGTTGAAATC 60.672 42.308 0.00 0.00 35.39 2.17
3088 3673 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
3089 3674 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
3090 3675 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
3091 3676 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
3092 3677 8.764524 ATGTAGTCACTTGTTGAAATCTCTAC 57.235 34.615 0.00 0.00 35.39 2.59
3093 3678 7.722363 TGTAGTCACTTGTTGAAATCTCTACA 58.278 34.615 0.00 0.00 36.87 2.74
3094 3679 8.201464 TGTAGTCACTTGTTGAAATCTCTACAA 58.799 33.333 0.00 0.00 42.53 2.41
3095 3680 9.042008 GTAGTCACTTGTTGAAATCTCTACAAA 57.958 33.333 0.00 0.00 43.56 2.83
3096 3681 8.147642 AGTCACTTGTTGAAATCTCTACAAAG 57.852 34.615 0.00 0.00 43.56 2.77
3097 3682 7.987458 AGTCACTTGTTGAAATCTCTACAAAGA 59.013 33.333 0.00 0.00 43.56 2.52
3098 3683 8.064814 GTCACTTGTTGAAATCTCTACAAAGAC 58.935 37.037 10.49 10.49 43.56 3.01
3099 3684 7.768582 TCACTTGTTGAAATCTCTACAAAGACA 59.231 33.333 0.00 0.00 43.56 3.41
3100 3685 8.397906 CACTTGTTGAAATCTCTACAAAGACAA 58.602 33.333 0.00 0.00 43.56 3.18
3101 3686 8.956426 ACTTGTTGAAATCTCTACAAAGACAAA 58.044 29.630 0.00 0.00 43.56 2.83
3102 3687 9.956720 CTTGTTGAAATCTCTACAAAGACAAAT 57.043 29.630 0.00 0.00 43.56 2.32
3114 3699 9.158233 TCTACAAAGACAAATATTTAGGAACGG 57.842 33.333 0.00 0.00 0.00 4.44
3115 3700 7.989416 ACAAAGACAAATATTTAGGAACGGA 57.011 32.000 0.00 0.00 0.00 4.69
3116 3701 8.040716 ACAAAGACAAATATTTAGGAACGGAG 57.959 34.615 0.00 0.00 0.00 4.63
3117 3702 7.120726 ACAAAGACAAATATTTAGGAACGGAGG 59.879 37.037 0.00 0.00 0.00 4.30
3118 3703 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
3119 3704 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
3120 3705 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
3121 3706 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
3122 3707 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
3246 3833 9.610705 TTGAGATTGATCTTGGAGATAGAAAAG 57.389 33.333 0.00 0.00 34.53 2.27
3315 3902 1.587613 GCGCGCAGGTTTTGTTCAA 60.588 52.632 29.10 0.00 0.00 2.69
3316 3903 1.142778 GCGCGCAGGTTTTGTTCAAA 61.143 50.000 29.10 0.00 0.00 2.69
3317 3904 1.272781 CGCGCAGGTTTTGTTCAAAA 58.727 45.000 8.75 6.61 0.00 2.44
3318 3905 1.656095 CGCGCAGGTTTTGTTCAAAAA 59.344 42.857 8.75 0.00 0.00 1.94
3450 4037 5.346522 GTCGTTATAGTTTTCGTCCATCCT 58.653 41.667 0.00 0.00 0.00 3.24
3488 4075 9.449719 ACGAGGTTATTCTGATTTTCATAAGTT 57.550 29.630 0.00 0.00 0.00 2.66
3710 4324 6.594937 TGTTGAACTAGTAAAAAGAACCGTGT 59.405 34.615 0.00 0.00 0.00 4.49
3711 4325 6.592798 TGAACTAGTAAAAAGAACCGTGTG 57.407 37.500 0.00 0.00 0.00 3.82
3802 4421 2.580783 AGCTAGGGCCCAAACAAAGATA 59.419 45.455 27.56 2.56 39.73 1.98
3929 4550 3.921119 TGTTCATGTCATGTTTGGAGC 57.079 42.857 12.54 0.00 0.00 4.70
4062 4684 9.747293 AACTAACTTAGAGTAACTCTTGAACAC 57.253 33.333 2.65 0.00 41.50 3.32
4063 4685 9.134055 ACTAACTTAGAGTAACTCTTGAACACT 57.866 33.333 2.65 0.00 41.50 3.55
4064 4686 9.968870 CTAACTTAGAGTAACTCTTGAACACTT 57.031 33.333 0.00 0.00 41.50 3.16
4066 4688 9.668497 AACTTAGAGTAACTCTTGAACACTTTT 57.332 29.630 0.00 0.00 41.50 2.27
4067 4689 9.668497 ACTTAGAGTAACTCTTGAACACTTTTT 57.332 29.630 0.00 0.00 41.50 1.94
4376 5017 4.813296 TGTCCGCTTTTTCTTCTTCTTC 57.187 40.909 0.00 0.00 0.00 2.87
4377 5018 4.451900 TGTCCGCTTTTTCTTCTTCTTCT 58.548 39.130 0.00 0.00 0.00 2.85
4378 5019 4.881850 TGTCCGCTTTTTCTTCTTCTTCTT 59.118 37.500 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 7.531857 TTGGCAAAAGATTCACATAGGTTTA 57.468 32.000 0.00 0.00 0.00 2.01
26 27 8.370940 TGTTCATATATGGTCTTTTTGGCAAAA 58.629 29.630 20.81 20.81 0.00 2.44
46 47 9.685276 TCATCAGGTCACTAATTTATTGTTCAT 57.315 29.630 0.00 0.00 0.00 2.57
47 48 9.513906 TTCATCAGGTCACTAATTTATTGTTCA 57.486 29.630 0.00 0.00 0.00 3.18
68 71 7.361542 GTGAGGCCACACATGAATATATTCATC 60.362 40.741 29.88 20.08 46.20 2.92
72 77 5.072741 GGTGAGGCCACACATGAATATATT 58.927 41.667 30.65 0.00 44.93 1.28
78 83 1.842714 TGGTGAGGCCACACATGAA 59.157 52.632 30.65 13.11 43.61 2.57
131 136 5.401531 TTCATTGTTCGCTAGTTCCTAGT 57.598 39.130 0.00 0.00 36.53 2.57
133 138 5.975344 CGTATTCATTGTTCGCTAGTTCCTA 59.025 40.000 0.00 0.00 0.00 2.94
134 139 4.804139 CGTATTCATTGTTCGCTAGTTCCT 59.196 41.667 0.00 0.00 0.00 3.36
135 140 4.565564 ACGTATTCATTGTTCGCTAGTTCC 59.434 41.667 0.00 0.00 0.00 3.62
136 141 5.481472 CACGTATTCATTGTTCGCTAGTTC 58.519 41.667 0.00 0.00 0.00 3.01
137 142 4.201685 GCACGTATTCATTGTTCGCTAGTT 60.202 41.667 0.00 0.00 0.00 2.24
138 143 3.306166 GCACGTATTCATTGTTCGCTAGT 59.694 43.478 0.00 0.00 0.00 2.57
139 144 3.305897 TGCACGTATTCATTGTTCGCTAG 59.694 43.478 0.00 0.00 0.00 3.42
140 145 3.061563 GTGCACGTATTCATTGTTCGCTA 59.938 43.478 0.00 0.00 0.00 4.26
141 146 2.073056 TGCACGTATTCATTGTTCGCT 58.927 42.857 0.00 0.00 0.00 4.93
157 162 1.537202 GTTGATCCAGAGTTGGTGCAC 59.463 52.381 8.80 8.80 45.26 4.57
268 288 0.179100 CTTGTCGTGCCATCGAGGAT 60.179 55.000 0.00 0.00 41.22 3.24
337 373 4.037923 GCATTAAATAGCTAAGCAAGGGCA 59.962 41.667 0.00 0.00 44.61 5.36
340 376 5.766222 CAGGCATTAAATAGCTAAGCAAGG 58.234 41.667 0.00 0.00 0.00 3.61
366 402 0.970640 TGACTACCGCTGTTAGCCAA 59.029 50.000 0.00 0.00 38.18 4.52
389 425 5.023533 AGTATGTGTTATGGAATGCGAGT 57.976 39.130 0.00 0.00 0.00 4.18
426 464 2.129823 AGTCGACCTTGTAACACGTG 57.870 50.000 15.48 15.48 0.00 4.49
449 487 3.567164 CCTGTCATTGCTCTTGACACTTT 59.433 43.478 11.29 0.00 46.31 2.66
467 505 0.542232 AGCACCCTTCTACGTCCTGT 60.542 55.000 0.00 0.00 0.00 4.00
478 516 3.308473 GGAGGAGAAATGTAAGCACCCTT 60.308 47.826 0.00 0.00 35.05 3.95
1168 1239 1.246649 ATCCGAAACAAGCATGCACA 58.753 45.000 21.98 0.00 0.00 4.57
1196 1268 9.778741 AGTTGATATTTTCCACGACATATATGT 57.221 29.630 18.31 18.31 45.16 2.29
1304 1381 8.773404 TCCAAAGCAATTAGAAGAGTAGTTAC 57.227 34.615 0.00 0.00 0.00 2.50
1426 1660 1.476291 CCCCGAACCCATAAACTAGCC 60.476 57.143 0.00 0.00 0.00 3.93
1447 1681 7.120923 TCCGTAAAAATAGGTAGATCAAGCT 57.879 36.000 0.00 0.00 0.00 3.74
1544 2094 2.061773 CGCTTCTCAAACGTCACTGAT 58.938 47.619 0.00 0.00 0.00 2.90
1721 2271 1.963190 GCGTCGGGTTGGATCGAAAC 61.963 60.000 0.00 0.00 37.14 2.78
2153 2714 2.379972 GAGTCCTCAGATTTCCCGAGA 58.620 52.381 0.00 0.00 0.00 4.04
2743 3322 5.685599 GCCCGGATCAAACCAACTTACTATA 60.686 44.000 0.73 0.00 0.00 1.31
2744 3323 4.777463 CCCGGATCAAACCAACTTACTAT 58.223 43.478 0.73 0.00 0.00 2.12
2780 3365 5.652014 TCAGAACAATAGCCAAACCATAAGG 59.348 40.000 0.00 0.00 42.21 2.69
2890 3475 6.803154 AAAGTCTAACCTGTAGCAAATCAC 57.197 37.500 0.00 0.00 0.00 3.06
2961 3546 1.838077 AGTATTTGGGAACGGAGGGAG 59.162 52.381 0.00 0.00 0.00 4.30
2962 3547 1.961133 AGTATTTGGGAACGGAGGGA 58.039 50.000 0.00 0.00 0.00 4.20
2963 3548 2.290705 ACAAGTATTTGGGAACGGAGGG 60.291 50.000 2.81 0.00 38.66 4.30
2964 3549 3.007635 GACAAGTATTTGGGAACGGAGG 58.992 50.000 2.81 0.00 38.66 4.30
2965 3550 3.939066 AGACAAGTATTTGGGAACGGAG 58.061 45.455 2.81 0.00 38.66 4.63
2966 3551 4.360951 AAGACAAGTATTTGGGAACGGA 57.639 40.909 2.81 0.00 38.66 4.69
2967 3552 4.760204 AGAAAGACAAGTATTTGGGAACGG 59.240 41.667 2.81 0.00 38.66 4.44
2968 3553 5.941948 AGAAAGACAAGTATTTGGGAACG 57.058 39.130 2.81 0.00 38.66 3.95
2969 3554 6.127980 GCCTAGAAAGACAAGTATTTGGGAAC 60.128 42.308 2.81 0.00 38.66 3.62
2970 3555 5.944007 GCCTAGAAAGACAAGTATTTGGGAA 59.056 40.000 2.81 0.00 38.66 3.97
2971 3556 5.013704 TGCCTAGAAAGACAAGTATTTGGGA 59.986 40.000 2.81 0.00 38.66 4.37
2972 3557 5.253330 TGCCTAGAAAGACAAGTATTTGGG 58.747 41.667 2.81 0.00 38.66 4.12
2973 3558 7.396540 AATGCCTAGAAAGACAAGTATTTGG 57.603 36.000 2.81 0.00 38.66 3.28
2974 3559 8.514594 TGAAATGCCTAGAAAGACAAGTATTTG 58.485 33.333 0.00 0.00 40.24 2.32
2975 3560 8.635765 TGAAATGCCTAGAAAGACAAGTATTT 57.364 30.769 0.00 0.00 0.00 1.40
2976 3561 8.635765 TTGAAATGCCTAGAAAGACAAGTATT 57.364 30.769 0.00 0.00 0.00 1.89
2977 3562 8.635765 TTTGAAATGCCTAGAAAGACAAGTAT 57.364 30.769 0.00 0.00 0.00 2.12
2978 3563 8.514594 CATTTGAAATGCCTAGAAAGACAAGTA 58.485 33.333 4.82 0.00 0.00 2.24
2979 3564 6.959639 TTTGAAATGCCTAGAAAGACAAGT 57.040 33.333 0.00 0.00 0.00 3.16
2980 3565 6.810182 CCATTTGAAATGCCTAGAAAGACAAG 59.190 38.462 12.26 0.00 0.00 3.16
2981 3566 6.493115 TCCATTTGAAATGCCTAGAAAGACAA 59.507 34.615 12.26 0.00 0.00 3.18
2982 3567 6.009589 TCCATTTGAAATGCCTAGAAAGACA 58.990 36.000 12.26 0.00 0.00 3.41
2983 3568 6.151817 AGTCCATTTGAAATGCCTAGAAAGAC 59.848 38.462 12.26 10.86 0.00 3.01
2984 3569 6.248433 AGTCCATTTGAAATGCCTAGAAAGA 58.752 36.000 12.26 0.00 0.00 2.52
2985 3570 6.151648 TGAGTCCATTTGAAATGCCTAGAAAG 59.848 38.462 12.26 0.00 0.00 2.62
2986 3571 6.009589 TGAGTCCATTTGAAATGCCTAGAAA 58.990 36.000 12.26 0.00 0.00 2.52
2987 3572 5.569355 TGAGTCCATTTGAAATGCCTAGAA 58.431 37.500 12.26 0.00 0.00 2.10
2988 3573 5.178096 TGAGTCCATTTGAAATGCCTAGA 57.822 39.130 12.26 1.83 0.00 2.43
2989 3574 5.183713 TGTTGAGTCCATTTGAAATGCCTAG 59.816 40.000 12.26 0.00 0.00 3.02
2990 3575 5.076182 TGTTGAGTCCATTTGAAATGCCTA 58.924 37.500 12.26 0.00 0.00 3.93
2991 3576 3.896888 TGTTGAGTCCATTTGAAATGCCT 59.103 39.130 12.26 9.70 0.00 4.75
2992 3577 4.255833 TGTTGAGTCCATTTGAAATGCC 57.744 40.909 12.26 5.23 0.00 4.40
2993 3578 5.512788 CGTATGTTGAGTCCATTTGAAATGC 59.487 40.000 12.26 0.23 0.00 3.56
2994 3579 6.029607 CCGTATGTTGAGTCCATTTGAAATG 58.970 40.000 10.84 10.84 0.00 2.32
2995 3580 5.943416 TCCGTATGTTGAGTCCATTTGAAAT 59.057 36.000 0.00 0.00 0.00 2.17
2996 3581 5.309638 TCCGTATGTTGAGTCCATTTGAAA 58.690 37.500 0.00 0.00 0.00 2.69
2997 3582 4.900684 TCCGTATGTTGAGTCCATTTGAA 58.099 39.130 0.00 0.00 0.00 2.69
2998 3583 4.545208 TCCGTATGTTGAGTCCATTTGA 57.455 40.909 0.00 0.00 0.00 2.69
2999 3584 4.635765 ACATCCGTATGTTGAGTCCATTTG 59.364 41.667 0.00 0.00 44.07 2.32
3000 3585 4.843728 ACATCCGTATGTTGAGTCCATTT 58.156 39.130 0.00 0.00 44.07 2.32
3001 3586 4.487714 ACATCCGTATGTTGAGTCCATT 57.512 40.909 0.00 0.00 44.07 3.16
3002 3587 5.541845 CATACATCCGTATGTTGAGTCCAT 58.458 41.667 0.00 0.00 46.70 3.41
3003 3588 4.944048 CATACATCCGTATGTTGAGTCCA 58.056 43.478 0.00 0.00 46.70 4.02
3036 3621 8.397906 CGCAAAATGAGTGAATCTATCCTTTAA 58.602 33.333 0.00 0.00 0.00 1.52
3037 3622 7.467267 GCGCAAAATGAGTGAATCTATCCTTTA 60.467 37.037 0.30 0.00 0.00 1.85
3038 3623 6.678900 GCGCAAAATGAGTGAATCTATCCTTT 60.679 38.462 0.30 0.00 0.00 3.11
3039 3624 5.220931 GCGCAAAATGAGTGAATCTATCCTT 60.221 40.000 0.30 0.00 0.00 3.36
3040 3625 4.274459 GCGCAAAATGAGTGAATCTATCCT 59.726 41.667 0.30 0.00 0.00 3.24
3041 3626 4.531332 GCGCAAAATGAGTGAATCTATCC 58.469 43.478 0.30 0.00 0.00 2.59
3042 3627 4.531332 GGCGCAAAATGAGTGAATCTATC 58.469 43.478 10.83 0.00 0.00 2.08
3043 3628 3.002656 CGGCGCAAAATGAGTGAATCTAT 59.997 43.478 10.83 0.00 0.00 1.98
3044 3629 2.351418 CGGCGCAAAATGAGTGAATCTA 59.649 45.455 10.83 0.00 0.00 1.98
3045 3630 1.131126 CGGCGCAAAATGAGTGAATCT 59.869 47.619 10.83 0.00 0.00 2.40
3046 3631 1.135689 ACGGCGCAAAATGAGTGAATC 60.136 47.619 10.83 0.00 0.00 2.52
3047 3632 0.881118 ACGGCGCAAAATGAGTGAAT 59.119 45.000 10.83 0.00 0.00 2.57
3048 3633 1.514003 TACGGCGCAAAATGAGTGAA 58.486 45.000 10.83 0.00 0.00 3.18
3049 3634 1.396648 CATACGGCGCAAAATGAGTGA 59.603 47.619 10.83 0.00 0.00 3.41
3050 3635 1.130373 ACATACGGCGCAAAATGAGTG 59.870 47.619 10.83 0.00 0.00 3.51
3051 3636 1.448985 ACATACGGCGCAAAATGAGT 58.551 45.000 10.83 0.00 0.00 3.41
3052 3637 2.607635 ACTACATACGGCGCAAAATGAG 59.392 45.455 10.83 10.39 0.00 2.90
3053 3638 2.605818 GACTACATACGGCGCAAAATGA 59.394 45.455 10.83 0.00 0.00 2.57
3054 3639 2.350192 TGACTACATACGGCGCAAAATG 59.650 45.455 10.83 11.57 0.00 2.32
3055 3640 2.350498 GTGACTACATACGGCGCAAAAT 59.650 45.455 10.83 0.00 0.00 1.82
3056 3641 1.727880 GTGACTACATACGGCGCAAAA 59.272 47.619 10.83 0.00 0.00 2.44
3057 3642 1.067425 AGTGACTACATACGGCGCAAA 60.067 47.619 10.83 0.00 0.00 3.68
3058 3643 0.528924 AGTGACTACATACGGCGCAA 59.471 50.000 10.83 0.00 0.00 4.85
3059 3644 0.528924 AAGTGACTACATACGGCGCA 59.471 50.000 10.83 0.00 0.00 6.09
3060 3645 0.921347 CAAGTGACTACATACGGCGC 59.079 55.000 6.90 0.00 0.00 6.53
3061 3646 2.273370 ACAAGTGACTACATACGGCG 57.727 50.000 4.80 4.80 0.00 6.46
3062 3647 3.581755 TCAACAAGTGACTACATACGGC 58.418 45.455 0.00 0.00 0.00 5.68
3063 3648 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
3064 3649 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
3065 3650 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
3066 3651 9.856488 GTAGAGATTTCAACAAGTGACTACATA 57.144 33.333 0.00 0.00 35.39 2.29
3067 3652 8.367911 TGTAGAGATTTCAACAAGTGACTACAT 58.632 33.333 0.00 0.00 36.58 2.29
3068 3653 7.722363 TGTAGAGATTTCAACAAGTGACTACA 58.278 34.615 0.00 0.00 37.97 2.74
3069 3654 8.589335 TTGTAGAGATTTCAACAAGTGACTAC 57.411 34.615 0.00 0.00 35.39 2.73
3070 3655 9.261180 CTTTGTAGAGATTTCAACAAGTGACTA 57.739 33.333 0.00 0.00 35.39 2.59
3071 3656 7.987458 TCTTTGTAGAGATTTCAACAAGTGACT 59.013 33.333 0.00 0.00 35.39 3.41
3072 3657 8.064814 GTCTTTGTAGAGATTTCAACAAGTGAC 58.935 37.037 0.00 0.00 35.39 3.67
3073 3658 7.768582 TGTCTTTGTAGAGATTTCAACAAGTGA 59.231 33.333 0.00 0.00 33.70 3.41
3074 3659 7.919690 TGTCTTTGTAGAGATTTCAACAAGTG 58.080 34.615 0.00 0.00 33.70 3.16
3075 3660 8.506168 TTGTCTTTGTAGAGATTTCAACAAGT 57.494 30.769 0.00 0.00 33.70 3.16
3076 3661 9.956720 ATTTGTCTTTGTAGAGATTTCAACAAG 57.043 29.630 0.00 0.00 33.70 3.16
3088 3673 9.158233 CCGTTCCTAAATATTTGTCTTTGTAGA 57.842 33.333 11.05 0.00 0.00 2.59
3089 3674 9.158233 TCCGTTCCTAAATATTTGTCTTTGTAG 57.842 33.333 11.05 0.00 0.00 2.74
3090 3675 9.158233 CTCCGTTCCTAAATATTTGTCTTTGTA 57.842 33.333 11.05 0.00 0.00 2.41
3091 3676 7.120726 CCTCCGTTCCTAAATATTTGTCTTTGT 59.879 37.037 11.05 0.00 0.00 2.83
3092 3677 7.415206 CCCTCCGTTCCTAAATATTTGTCTTTG 60.415 40.741 11.05 0.00 0.00 2.77
3093 3678 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
3094 3679 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
3095 3680 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
3096 3681 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
3097 3682 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
3098 3683 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
3099 3684 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
3100 3685 7.628501 ATTACTCCCTCCGTTCCTAAATATT 57.371 36.000 0.00 0.00 0.00 1.28
3101 3686 8.912614 ATATTACTCCCTCCGTTCCTAAATAT 57.087 34.615 0.00 0.00 0.00 1.28
3102 3687 9.827198 TTATATTACTCCCTCCGTTCCTAAATA 57.173 33.333 0.00 0.00 0.00 1.40
3103 3688 8.731591 TTATATTACTCCCTCCGTTCCTAAAT 57.268 34.615 0.00 0.00 0.00 1.40
3104 3689 8.591072 CATTATATTACTCCCTCCGTTCCTAAA 58.409 37.037 0.00 0.00 0.00 1.85
3105 3690 7.179694 CCATTATATTACTCCCTCCGTTCCTAA 59.820 40.741 0.00 0.00 0.00 2.69
3106 3691 6.666546 CCATTATATTACTCCCTCCGTTCCTA 59.333 42.308 0.00 0.00 0.00 2.94
3107 3692 5.484290 CCATTATATTACTCCCTCCGTTCCT 59.516 44.000 0.00 0.00 0.00 3.36
3108 3693 5.731591 CCATTATATTACTCCCTCCGTTCC 58.268 45.833 0.00 0.00 0.00 3.62
3109 3694 5.176592 GCCATTATATTACTCCCTCCGTTC 58.823 45.833 0.00 0.00 0.00 3.95
3110 3695 4.322499 CGCCATTATATTACTCCCTCCGTT 60.322 45.833 0.00 0.00 0.00 4.44
3111 3696 3.194968 CGCCATTATATTACTCCCTCCGT 59.805 47.826 0.00 0.00 0.00 4.69
3112 3697 3.430374 CCGCCATTATATTACTCCCTCCG 60.430 52.174 0.00 0.00 0.00 4.63
3113 3698 3.518303 ACCGCCATTATATTACTCCCTCC 59.482 47.826 0.00 0.00 0.00 4.30
3114 3699 4.820894 ACCGCCATTATATTACTCCCTC 57.179 45.455 0.00 0.00 0.00 4.30
3115 3700 4.263331 CCAACCGCCATTATATTACTCCCT 60.263 45.833 0.00 0.00 0.00 4.20
3116 3701 4.007659 CCAACCGCCATTATATTACTCCC 58.992 47.826 0.00 0.00 0.00 4.30
3117 3702 4.454504 CACCAACCGCCATTATATTACTCC 59.545 45.833 0.00 0.00 0.00 3.85
3118 3703 5.178809 GTCACCAACCGCCATTATATTACTC 59.821 44.000 0.00 0.00 0.00 2.59
3119 3704 5.061179 GTCACCAACCGCCATTATATTACT 58.939 41.667 0.00 0.00 0.00 2.24
3120 3705 5.061179 AGTCACCAACCGCCATTATATTAC 58.939 41.667 0.00 0.00 0.00 1.89
3121 3706 5.298989 AGTCACCAACCGCCATTATATTA 57.701 39.130 0.00 0.00 0.00 0.98
3122 3707 4.164843 AGTCACCAACCGCCATTATATT 57.835 40.909 0.00 0.00 0.00 1.28
3246 3833 2.612212 CTGGTACACCAAACATATCGCC 59.388 50.000 2.14 0.00 46.97 5.54
3315 3902 6.072948 CGTTCCCTTTTGAACAAAACCTTTTT 60.073 34.615 8.37 0.00 43.84 1.94
3316 3903 5.410132 CGTTCCCTTTTGAACAAAACCTTTT 59.590 36.000 8.37 0.00 43.84 2.27
3317 3904 4.932799 CGTTCCCTTTTGAACAAAACCTTT 59.067 37.500 8.37 0.00 43.84 3.11
3318 3905 4.500127 CGTTCCCTTTTGAACAAAACCTT 58.500 39.130 8.37 0.00 43.84 3.50
3319 3906 3.118920 CCGTTCCCTTTTGAACAAAACCT 60.119 43.478 8.37 0.00 43.84 3.50
3320 3907 3.119065 TCCGTTCCCTTTTGAACAAAACC 60.119 43.478 8.37 0.00 43.84 3.27
3321 3908 4.112716 TCCGTTCCCTTTTGAACAAAAC 57.887 40.909 8.37 0.16 43.84 2.43
3322 3909 4.803098 TTCCGTTCCCTTTTGAACAAAA 57.197 36.364 11.35 11.35 43.84 2.44
3323 3910 5.221283 GGTATTCCGTTCCCTTTTGAACAAA 60.221 40.000 4.96 0.00 43.84 2.83
3324 3911 4.278919 GGTATTCCGTTCCCTTTTGAACAA 59.721 41.667 4.96 0.00 43.84 2.83
3325 3912 3.822167 GGTATTCCGTTCCCTTTTGAACA 59.178 43.478 4.96 0.00 43.84 3.18
3326 3913 4.430137 GGTATTCCGTTCCCTTTTGAAC 57.570 45.455 0.00 0.00 40.96 3.18
3488 4075 5.302360 ACAAAGTTTCATAAGCGAGGTACA 58.698 37.500 0.00 0.00 0.00 2.90
3704 4318 2.029964 CCGGCTGTTACACACGGT 59.970 61.111 12.86 0.00 34.32 4.83
3710 4324 3.478857 TTTTTCTCTCCGGCTGTTACA 57.521 42.857 0.00 0.00 0.00 2.41
3711 4325 4.331992 GGTATTTTTCTCTCCGGCTGTTAC 59.668 45.833 0.00 0.00 0.00 2.50
3717 4333 2.418976 GTGTGGTATTTTTCTCTCCGGC 59.581 50.000 0.00 0.00 0.00 6.13
3779 4398 1.970640 CTTTGTTTGGGCCCTAGCTTT 59.029 47.619 25.70 0.00 39.73 3.51
3780 4399 1.146982 TCTTTGTTTGGGCCCTAGCTT 59.853 47.619 25.70 0.00 39.73 3.74
3802 4421 4.159879 ACTGCGCTTGTATAGGTTAAGACT 59.840 41.667 9.73 0.00 0.00 3.24
3816 4435 5.029650 TGTACAATCTTAAACTGCGCTTG 57.970 39.130 9.73 3.61 0.00 4.01
3910 4531 2.414559 CCGCTCCAAACATGACATGAAC 60.415 50.000 22.19 2.50 0.00 3.18
3929 4550 3.051479 GCCCGTAACAACACCCCG 61.051 66.667 0.00 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.