Multiple sequence alignment - TraesCS1D01G048600

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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 TraesCS1D01G048600 chr1D 100.000 6194 0 0 1 6194 28484732 28490925 0.000000e+00 11439.0
1 TraesCS1D01G048600 chr1D 97.800 4772 53 12 939 5699 28500528 28505258 0.000000e+00 8183.0
2 TraesCS1D01G048600 chr1D 94.963 2045 79 15 3260 5288 28969508 28967472 0.000000e+00 3184.0
3 TraesCS1D01G048600 chr1D 92.542 1247 44 11 915 2131 28978864 28977637 0.000000e+00 1742.0
4 TraesCS1D01G048600 chr1D 94.050 437 21 2 2829 3265 28975874 28975443 0.000000e+00 658.0
5 TraesCS1D01G048600 chr1D 84.765 617 86 8 4611 5223 29479057 29479669 4.100000e-171 612.0
6 TraesCS1D01G048600 chr1D 89.205 352 22 7 2178 2522 28977622 28977280 5.740000e-115 425.0
7 TraesCS1D01G048600 chr1D 93.502 277 18 0 1 277 28979303 28979027 4.470000e-111 412.0
8 TraesCS1D01G048600 chr1D 85.231 325 27 11 5863 6172 28506591 28506909 1.300000e-81 315.0
9 TraesCS1D01G048600 chr1D 86.194 268 25 5 5828 6086 28966378 28966114 4.730000e-71 279.0
10 TraesCS1D01G048600 chr1D 88.485 165 9 7 2520 2682 28977170 28977014 2.280000e-44 191.0
11 TraesCS1D01G048600 chr1D 86.339 183 9 6 290 456 28979043 28978861 1.060000e-42 185.0
12 TraesCS1D01G048600 chr1D 85.816 141 15 4 5689 5827 28506087 28506224 1.800000e-30 145.0
13 TraesCS1D01G048600 chr1D 100.000 42 0 0 915 956 28499022 28499063 1.850000e-10 78.7
14 TraesCS1D01G048600 chr1A 94.632 3316 113 18 2021 5304 29608750 29612032 0.000000e+00 5077.0
15 TraesCS1D01G048600 chr1A 94.091 1117 46 7 915 2023 29607621 29608725 0.000000e+00 1679.0
16 TraesCS1D01G048600 chr1A 93.561 528 24 6 5302 5827 29612178 29612697 0.000000e+00 778.0
17 TraesCS1D01G048600 chr1A 88.864 449 33 8 455 902 571339452 571339884 2.540000e-148 536.0
18 TraesCS1D01G048600 chr1A 92.162 370 25 2 455 820 8266867 8266498 2.560000e-143 520.0
19 TraesCS1D01G048600 chr1A 76.080 602 119 16 4562 5152 29995654 29996241 2.180000e-74 291.0
20 TraesCS1D01G048600 chr1A 73.990 792 155 38 1326 2106 50845316 50844565 2.200000e-69 274.0
21 TraesCS1D01G048600 chr1A 81.897 348 39 15 5863 6194 29612890 29613229 7.910000e-69 272.0
22 TraesCS1D01G048600 chr1A 74.501 702 134 33 1326 2014 29883621 29882952 4.760000e-66 263.0
23 TraesCS1D01G048600 chr1A 83.598 189 25 6 1321 1506 50841071 50840886 8.250000e-39 172.0
24 TraesCS1D01G048600 chr1B 95.486 2304 81 14 2132 4429 47161545 47163831 0.000000e+00 3657.0
25 TraesCS1D01G048600 chr1B 94.908 1139 32 7 899 2023 47160120 47161246 0.000000e+00 1759.0
26 TraesCS1D01G048600 chr1B 97.887 852 15 1 4456 5304 47163923 47164774 0.000000e+00 1471.0
27 TraesCS1D01G048600 chr1B 91.714 531 34 7 5302 5827 47164920 47165445 0.000000e+00 728.0
28 TraesCS1D01G048600 chr1B 86.577 447 55 3 4435 4877 46914897 46914452 7.220000e-134 488.0
29 TraesCS1D01G048600 chr1B 75.264 663 135 21 1326 1984 47509945 47509308 7.860000e-74 289.0
30 TraesCS1D01G048600 chr1B 88.820 161 18 0 79 239 47129264 47129424 1.360000e-46 198.0
31 TraesCS1D01G048600 chr1B 95.000 120 4 2 2020 2139 47161270 47161387 2.950000e-43 187.0
32 TraesCS1D01G048600 chr1B 79.848 263 39 12 1326 1583 47392975 47392722 4.930000e-41 180.0
33 TraesCS1D01G048600 chr1B 87.742 155 13 6 297 449 47129433 47129583 6.380000e-40 176.0
34 TraesCS1D01G048600 chr1B 85.714 133 17 2 1321 1452 47544326 47544457 8.370000e-29 139.0
35 TraesCS1D01G048600 chr1B 97.403 77 2 0 1 77 46979026 46979102 1.400000e-26 132.0
36 TraesCS1D01G048600 chr1B 100.000 30 0 0 4324 4353 47163828 47163857 8.670000e-04 56.5
37 TraesCS1D01G048600 chr3B 90.000 460 20 8 452 902 225460490 225460932 6.970000e-159 571.0
38 TraesCS1D01G048600 chr3B 89.035 456 30 9 450 902 457430243 457429805 1.170000e-151 547.0
39 TraesCS1D01G048600 chr7B 89.381 452 26 9 454 898 246018450 246018886 3.260000e-152 549.0
40 TraesCS1D01G048600 chr4A 94.886 352 14 3 457 805 689845297 689845647 1.170000e-151 547.0
41 TraesCS1D01G048600 chr4A 89.011 455 27 12 454 902 617910055 617910492 5.460000e-150 542.0
42 TraesCS1D01G048600 chr4A 89.163 406 24 10 502 903 674355821 674355432 7.220000e-134 488.0
43 TraesCS1D01G048600 chr2D 89.111 450 19 12 455 898 93092930 93093355 3.290000e-147 532.0
44 TraesCS1D01G048600 chr3A 91.270 378 25 4 454 825 471375035 471374660 5.540000e-140 508.0
45 TraesCS1D01G048600 chr3A 89.655 406 22 11 502 903 431863646 431863257 3.330000e-137 499.0
46 TraesCS1D01G048600 chr2A 90.123 405 21 10 502 903 25350979 25350591 5.540000e-140 508.0
47 TraesCS1D01G048600 chr2B 89.901 406 22 10 502 904 676743040 676743429 7.170000e-139 505.0
48 TraesCS1D01G048600 chr2B 85.484 186 8 9 719 903 303101011 303100844 6.380000e-40 176.0
49 TraesCS1D01G048600 chr2B 95.946 74 3 0 825 898 677017753 677017680 3.030000e-23 121.0
50 TraesCS1D01G048600 chr3D 89.901 406 20 10 502 904 345069262 345068875 2.580000e-138 503.0
51 TraesCS1D01G048600 chr5A 81.560 423 39 21 502 903 340446969 340447373 4.660000e-81 313.0
52 TraesCS1D01G048600 chr7A 80.622 418 42 20 506 903 49946827 49946429 2.830000e-73 287.0


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 TraesCS1D01G048600 chr1D 28484732 28490925 6193 False 11439.000000 11439 100.000000 1 6194 1 chr1D.!!$F1 6193
1 TraesCS1D01G048600 chr1D 28499022 28506909 7887 False 2180.425000 8183 92.211750 915 6172 4 chr1D.!!$F3 5257
2 TraesCS1D01G048600 chr1D 28966114 28969508 3394 True 1731.500000 3184 90.578500 3260 6086 2 chr1D.!!$R1 2826
3 TraesCS1D01G048600 chr1D 29479057 29479669 612 False 612.000000 612 84.765000 4611 5223 1 chr1D.!!$F2 612
4 TraesCS1D01G048600 chr1D 28975443 28979303 3860 True 602.166667 1742 90.687167 1 3265 6 chr1D.!!$R2 3264
5 TraesCS1D01G048600 chr1A 29607621 29613229 5608 False 1951.500000 5077 91.045250 915 6194 4 chr1A.!!$F3 5279
6 TraesCS1D01G048600 chr1A 29995654 29996241 587 False 291.000000 291 76.080000 4562 5152 1 chr1A.!!$F1 590
7 TraesCS1D01G048600 chr1A 29882952 29883621 669 True 263.000000 263 74.501000 1326 2014 1 chr1A.!!$R2 688
8 TraesCS1D01G048600 chr1A 50840886 50845316 4430 True 223.000000 274 78.794000 1321 2106 2 chr1A.!!$R3 785
9 TraesCS1D01G048600 chr1B 47160120 47165445 5325 False 1309.750000 3657 95.832500 899 5827 6 chr1B.!!$F4 4928
10 TraesCS1D01G048600 chr1B 47509308 47509945 637 True 289.000000 289 75.264000 1326 1984 1 chr1B.!!$R3 658

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
137 138 0.034896 AATCCGTTGTCTCCTGCGTT 59.965 50.0 0.0 0.0 0.0 4.84 F
201 202 0.035439 CAGGGCAATGGTAGAACGGT 60.035 55.0 0.0 0.0 0.0 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1485 2993 2.503061 CTCAGGGCCTCCATGTCG 59.497 66.667 0.95 0.0 34.83 4.35 R
5817 10540 7.223058 CTACTTGTTAAGGAGTTTATGCTCG 57.777 40.000 0.00 0.0 34.59 5.03 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
77 78 3.876320 GTCAGAAGCCATCAGAGATTTCC 59.124 47.826 0.00 0.00 0.00 3.13
82 83 3.054576 AGCCATCAGAGATTTCCATCCT 58.945 45.455 0.00 0.00 0.00 3.24
94 95 1.117749 TCCATCCTGGCTGAGATCGG 61.118 60.000 0.00 0.61 37.47 4.18
98 99 1.175347 TCCTGGCTGAGATCGGATCG 61.175 60.000 12.08 0.11 0.00 3.69
105 106 0.178961 TGAGATCGGATCGGGATGGT 60.179 55.000 12.08 0.00 0.00 3.55
132 133 2.249309 ACCCTAATCCGTTGTCTCCT 57.751 50.000 0.00 0.00 0.00 3.69
137 138 0.034896 AATCCGTTGTCTCCTGCGTT 59.965 50.000 0.00 0.00 0.00 4.84
141 142 1.337821 CGTTGTCTCCTGCGTTCTAC 58.662 55.000 0.00 0.00 0.00 2.59
170 171 2.169789 CGCAATCCAGAGACCGCAG 61.170 63.158 0.00 0.00 0.00 5.18
175 176 3.753434 CCAGAGACCGCAGCGACT 61.753 66.667 18.75 15.21 0.00 4.18
190 191 0.606401 CGACTCACAACCAGGGCAAT 60.606 55.000 0.00 0.00 0.00 3.56
201 202 0.035439 CAGGGCAATGGTAGAACGGT 60.035 55.000 0.00 0.00 0.00 4.83
219 220 1.150536 TGGCAGGGACAACCAACTC 59.849 57.895 0.00 0.00 43.89 3.01
223 224 1.348036 GCAGGGACAACCAACTCTAGT 59.652 52.381 0.00 0.00 43.89 2.57
229 230 2.224606 ACAACCAACTCTAGTCGTCGA 58.775 47.619 0.00 0.00 0.00 4.20
231 232 0.795085 ACCAACTCTAGTCGTCGACG 59.205 55.000 31.30 31.30 37.67 5.12
299 300 3.320610 TTTTTGAGGGAACATGTGGGA 57.679 42.857 0.00 0.00 0.00 4.37
300 301 3.320610 TTTTGAGGGAACATGTGGGAA 57.679 42.857 0.00 0.00 0.00 3.97
306 307 4.202620 TGAGGGAACATGTGGGAAATGTTA 60.203 41.667 0.00 0.00 45.81 2.41
324 325 9.651718 GAAATGTTACTTATATCTTTTGGAGCG 57.348 33.333 0.00 0.00 0.00 5.03
326 327 8.958119 ATGTTACTTATATCTTTTGGAGCGAA 57.042 30.769 0.00 0.00 0.00 4.70
437 454 1.228154 AAGCCCAACCGAACACTCC 60.228 57.895 0.00 0.00 0.00 3.85
456 473 4.471386 ACTCCAGATGTTTGTACTGCCTAT 59.529 41.667 0.00 0.00 0.00 2.57
457 474 5.661312 ACTCCAGATGTTTGTACTGCCTATA 59.339 40.000 0.00 0.00 0.00 1.31
458 475 6.156256 ACTCCAGATGTTTGTACTGCCTATAA 59.844 38.462 0.00 0.00 0.00 0.98
459 476 6.582636 TCCAGATGTTTGTACTGCCTATAAG 58.417 40.000 0.00 0.00 0.00 1.73
460 477 6.156256 TCCAGATGTTTGTACTGCCTATAAGT 59.844 38.462 0.00 0.00 0.00 2.24
461 478 6.258727 CCAGATGTTTGTACTGCCTATAAGTG 59.741 42.308 0.00 0.00 0.00 3.16
462 479 6.258727 CAGATGTTTGTACTGCCTATAAGTGG 59.741 42.308 0.00 0.00 0.00 4.00
470 487 1.021968 GCCTATAAGTGGCCAAACGG 58.978 55.000 7.24 3.51 44.32 4.44
471 488 1.675552 CCTATAAGTGGCCAAACGGG 58.324 55.000 7.24 1.17 40.85 5.28
480 497 2.203153 CCAAACGGGCCGGGATAG 60.203 66.667 31.78 14.48 0.00 2.08
481 498 2.900337 CAAACGGGCCGGGATAGC 60.900 66.667 31.78 0.00 0.00 2.97
482 499 3.087906 AAACGGGCCGGGATAGCT 61.088 61.111 31.78 3.51 0.00 3.32
483 500 3.400599 AAACGGGCCGGGATAGCTG 62.401 63.158 31.78 0.00 0.00 4.24
489 506 3.946201 CCGGGATAGCTGGGCCAG 61.946 72.222 29.44 29.44 34.12 4.85
532 549 3.440415 GTGCTAAACGGGCCAGGC 61.440 66.667 8.08 1.26 0.00 4.85
574 591 3.971702 GTGCCTGGGCCTGAAGGT 61.972 66.667 12.58 0.00 41.09 3.50
575 592 3.650950 TGCCTGGGCCTGAAGGTC 61.651 66.667 12.58 11.85 41.09 3.85
576 593 4.785453 GCCTGGGCCTGAAGGTCG 62.785 72.222 12.58 0.00 41.79 4.79
577 594 3.003173 CCTGGGCCTGAAGGTCGA 61.003 66.667 12.58 0.00 41.79 4.20
578 595 2.581354 CTGGGCCTGAAGGTCGAG 59.419 66.667 4.53 0.00 41.79 4.04
579 596 3.672295 CTGGGCCTGAAGGTCGAGC 62.672 68.421 6.48 6.48 41.79 5.03
580 597 3.706373 GGGCCTGAAGGTCGAGCA 61.706 66.667 18.15 0.00 41.79 4.26
581 598 2.435059 GGCCTGAAGGTCGAGCAC 60.435 66.667 18.15 10.83 37.57 4.40
582 599 2.811317 GCCTGAAGGTCGAGCACG 60.811 66.667 18.15 0.00 37.57 5.34
583 600 2.811317 CCTGAAGGTCGAGCACGC 60.811 66.667 18.15 5.93 39.58 5.34
584 601 3.175240 CTGAAGGTCGAGCACGCG 61.175 66.667 18.15 3.53 39.58 6.01
585 602 3.610791 CTGAAGGTCGAGCACGCGA 62.611 63.158 15.93 0.00 39.58 5.87
586 603 2.876645 GAAGGTCGAGCACGCGAG 60.877 66.667 15.93 5.97 41.49 5.03
612 629 3.243128 GGCACGGCCCGATTATATT 57.757 52.632 11.71 0.00 44.06 1.28
613 630 1.530323 GGCACGGCCCGATTATATTT 58.470 50.000 11.71 0.00 44.06 1.40
614 631 1.883926 GGCACGGCCCGATTATATTTT 59.116 47.619 11.71 0.00 44.06 1.82
615 632 2.295070 GGCACGGCCCGATTATATTTTT 59.705 45.455 11.71 0.00 44.06 1.94
644 661 6.969993 TTTTTATGTATCCTAATGTGGCCC 57.030 37.500 0.00 0.00 0.00 5.80
645 662 5.654901 TTTATGTATCCTAATGTGGCCCA 57.345 39.130 0.00 0.00 0.00 5.36
646 663 5.654901 TTATGTATCCTAATGTGGCCCAA 57.345 39.130 0.00 0.00 0.00 4.12
647 664 3.290948 TGTATCCTAATGTGGCCCAAC 57.709 47.619 0.00 0.00 0.00 3.77
648 665 2.578480 TGTATCCTAATGTGGCCCAACA 59.422 45.455 0.00 0.00 0.00 3.33
649 666 2.442236 ATCCTAATGTGGCCCAACAG 57.558 50.000 0.00 0.00 32.52 3.16
650 667 0.331278 TCCTAATGTGGCCCAACAGG 59.669 55.000 0.00 8.93 39.47 4.00
651 668 0.039618 CCTAATGTGGCCCAACAGGT 59.960 55.000 0.00 0.00 38.26 4.00
652 669 1.283613 CCTAATGTGGCCCAACAGGTA 59.716 52.381 0.00 0.00 38.26 3.08
653 670 2.291282 CCTAATGTGGCCCAACAGGTAA 60.291 50.000 0.00 0.00 38.26 2.85
654 671 2.390225 AATGTGGCCCAACAGGTAAA 57.610 45.000 0.00 0.00 38.26 2.01
655 672 2.390225 ATGTGGCCCAACAGGTAAAA 57.610 45.000 0.00 0.00 38.26 1.52
656 673 2.160721 TGTGGCCCAACAGGTAAAAA 57.839 45.000 0.00 0.00 38.26 1.94
657 674 2.683768 TGTGGCCCAACAGGTAAAAAT 58.316 42.857 0.00 0.00 38.26 1.82
658 675 3.845860 TGTGGCCCAACAGGTAAAAATA 58.154 40.909 0.00 0.00 38.26 1.40
659 676 3.829601 TGTGGCCCAACAGGTAAAAATAG 59.170 43.478 0.00 0.00 38.26 1.73
660 677 3.194755 GTGGCCCAACAGGTAAAAATAGG 59.805 47.826 0.00 0.00 38.26 2.57
661 678 2.167693 GGCCCAACAGGTAAAAATAGGC 59.832 50.000 0.00 0.00 38.26 3.93
662 679 3.096852 GCCCAACAGGTAAAAATAGGCT 58.903 45.455 0.00 0.00 38.26 4.58
663 680 4.274978 GCCCAACAGGTAAAAATAGGCTA 58.725 43.478 0.00 0.00 38.26 3.93
664 681 4.707934 GCCCAACAGGTAAAAATAGGCTAA 59.292 41.667 0.00 0.00 38.26 3.09
665 682 5.186215 GCCCAACAGGTAAAAATAGGCTAAA 59.814 40.000 0.00 0.00 38.26 1.85
666 683 6.295405 GCCCAACAGGTAAAAATAGGCTAAAA 60.295 38.462 0.00 0.00 38.26 1.52
667 684 7.094631 CCCAACAGGTAAAAATAGGCTAAAAC 58.905 38.462 0.00 0.00 0.00 2.43
668 685 6.804783 CCAACAGGTAAAAATAGGCTAAAACG 59.195 38.462 0.00 0.00 0.00 3.60
669 686 5.946298 ACAGGTAAAAATAGGCTAAAACGC 58.054 37.500 0.00 0.00 0.00 4.84
676 693 2.566529 GGCTAAAACGCCCAGTGC 59.433 61.111 0.00 0.00 44.41 4.40
685 702 4.792106 GCCCAGTGCGCAAAATAG 57.208 55.556 14.00 0.75 0.00 1.73
686 703 1.139520 GCCCAGTGCGCAAAATAGG 59.860 57.895 14.00 10.39 0.00 2.57
687 704 1.312371 GCCCAGTGCGCAAAATAGGA 61.312 55.000 14.00 0.00 0.00 2.94
688 705 0.734889 CCCAGTGCGCAAAATAGGAG 59.265 55.000 14.00 0.69 0.00 3.69
689 706 0.734889 CCAGTGCGCAAAATAGGAGG 59.265 55.000 14.00 1.16 0.00 4.30
690 707 0.099436 CAGTGCGCAAAATAGGAGGC 59.901 55.000 14.00 0.00 0.00 4.70
691 708 0.322456 AGTGCGCAAAATAGGAGGCA 60.322 50.000 14.00 0.00 0.00 4.75
692 709 0.099436 GTGCGCAAAATAGGAGGCAG 59.901 55.000 14.00 0.00 0.00 4.85
693 710 0.035534 TGCGCAAAATAGGAGGCAGA 60.036 50.000 8.16 0.00 0.00 4.26
694 711 1.312815 GCGCAAAATAGGAGGCAGAT 58.687 50.000 0.30 0.00 0.00 2.90
695 712 1.678101 GCGCAAAATAGGAGGCAGATT 59.322 47.619 0.30 0.00 0.00 2.40
696 713 2.878406 GCGCAAAATAGGAGGCAGATTA 59.122 45.455 0.30 0.00 0.00 1.75
697 714 3.058639 GCGCAAAATAGGAGGCAGATTAG 60.059 47.826 0.30 0.00 0.00 1.73
698 715 3.058639 CGCAAAATAGGAGGCAGATTAGC 60.059 47.826 0.00 0.00 0.00 3.09
699 716 3.058639 GCAAAATAGGAGGCAGATTAGCG 60.059 47.826 0.00 0.00 34.64 4.26
700 717 3.409026 AAATAGGAGGCAGATTAGCGG 57.591 47.619 0.00 0.00 34.64 5.52
701 718 1.270907 ATAGGAGGCAGATTAGCGGG 58.729 55.000 0.00 0.00 34.64 6.13
702 719 1.472662 TAGGAGGCAGATTAGCGGGC 61.473 60.000 0.00 0.00 37.52 6.13
703 720 2.281139 GAGGCAGATTAGCGGGCC 60.281 66.667 0.00 0.00 46.77 5.80
705 722 3.148084 GGCAGATTAGCGGGCCTA 58.852 61.111 0.84 0.00 43.09 3.93
706 723 1.004440 GGCAGATTAGCGGGCCTAG 60.004 63.158 0.84 0.00 43.09 3.02
707 724 1.669437 GCAGATTAGCGGGCCTAGC 60.669 63.158 14.49 14.49 0.00 3.42
708 725 1.748403 CAGATTAGCGGGCCTAGCA 59.252 57.895 22.10 6.42 37.01 3.49
709 726 0.322975 CAGATTAGCGGGCCTAGCAT 59.677 55.000 22.10 10.43 37.01 3.79
710 727 0.322975 AGATTAGCGGGCCTAGCATG 59.677 55.000 22.10 0.00 37.01 4.06
711 728 1.301677 GATTAGCGGGCCTAGCATGC 61.302 60.000 22.10 10.51 37.01 4.06
734 751 4.643387 GGCCGGCCCGATTAGCAT 62.643 66.667 36.64 0.00 0.00 3.79
735 752 2.345991 GCCGGCCCGATTAGCATA 59.654 61.111 18.11 0.00 0.00 3.14
736 753 1.078426 GCCGGCCCGATTAGCATAT 60.078 57.895 18.11 0.00 0.00 1.78
737 754 1.369091 GCCGGCCCGATTAGCATATG 61.369 60.000 18.11 0.00 0.00 1.78
738 755 0.744414 CCGGCCCGATTAGCATATGG 60.744 60.000 3.71 0.00 0.00 2.74
739 756 0.744414 CGGCCCGATTAGCATATGGG 60.744 60.000 0.00 0.00 43.02 4.00
741 758 3.175133 CCCGATTAGCATATGGGCC 57.825 57.895 4.56 0.00 32.09 5.80
742 759 0.744414 CCCGATTAGCATATGGGCCG 60.744 60.000 4.56 0.00 32.09 6.13
743 760 0.036388 CCGATTAGCATATGGGCCGT 60.036 55.000 2.58 2.58 0.00 5.68
744 761 1.078709 CGATTAGCATATGGGCCGTG 58.921 55.000 8.97 3.59 0.00 4.94
745 762 0.804989 GATTAGCATATGGGCCGTGC 59.195 55.000 17.44 17.44 39.10 5.34
797 814 3.610637 GGCACGGCCCGTATAATAA 57.389 52.632 9.25 0.00 44.06 1.40
798 815 2.103537 GGCACGGCCCGTATAATAAT 57.896 50.000 9.25 0.00 44.06 1.28
799 816 2.004733 GGCACGGCCCGTATAATAATC 58.995 52.381 9.25 0.00 44.06 1.75
800 817 1.657094 GCACGGCCCGTATAATAATCG 59.343 52.381 9.25 0.00 38.32 3.34
801 818 2.927871 GCACGGCCCGTATAATAATCGT 60.928 50.000 9.25 0.00 38.32 3.73
802 819 2.664568 CACGGCCCGTATAATAATCGTG 59.335 50.000 9.25 0.00 38.32 4.35
803 820 1.657094 CGGCCCGTATAATAATCGTGC 59.343 52.381 0.00 0.00 0.00 5.34
804 821 2.004733 GGCCCGTATAATAATCGTGCC 58.995 52.381 0.00 0.00 40.23 5.01
805 822 2.354403 GGCCCGTATAATAATCGTGCCT 60.354 50.000 0.00 0.00 42.74 4.75
806 823 2.928116 GCCCGTATAATAATCGTGCCTC 59.072 50.000 0.00 0.00 0.00 4.70
807 824 3.615592 GCCCGTATAATAATCGTGCCTCA 60.616 47.826 0.00 0.00 0.00 3.86
808 825 4.174009 CCCGTATAATAATCGTGCCTCAG 58.826 47.826 0.00 0.00 0.00 3.35
809 826 3.612860 CCGTATAATAATCGTGCCTCAGC 59.387 47.826 0.00 0.00 40.48 4.26
810 827 3.300853 CGTATAATAATCGTGCCTCAGCG 59.699 47.826 0.00 0.00 44.31 5.18
811 828 2.148916 TAATAATCGTGCCTCAGCGG 57.851 50.000 0.00 0.00 44.31 5.52
812 829 0.532862 AATAATCGTGCCTCAGCGGG 60.533 55.000 0.00 0.00 44.31 6.13
855 872 1.667236 TGCCAGGCACGATTAAGATG 58.333 50.000 11.22 0.00 31.71 2.90
856 873 0.947244 GCCAGGCACGATTAAGATGG 59.053 55.000 6.55 0.00 0.00 3.51
857 874 1.597742 CCAGGCACGATTAAGATGGG 58.402 55.000 0.00 0.00 0.00 4.00
858 875 0.947244 CAGGCACGATTAAGATGGGC 59.053 55.000 0.00 0.00 0.00 5.36
859 876 0.179018 AGGCACGATTAAGATGGGCC 60.179 55.000 9.09 9.09 40.18 5.80
860 877 1.507141 GGCACGATTAAGATGGGCCG 61.507 60.000 0.00 0.00 0.00 6.13
861 878 1.507141 GCACGATTAAGATGGGCCGG 61.507 60.000 0.00 0.00 0.00 6.13
862 879 0.884704 CACGATTAAGATGGGCCGGG 60.885 60.000 2.18 0.00 0.00 5.73
863 880 1.966451 CGATTAAGATGGGCCGGGC 60.966 63.158 22.00 22.00 0.00 6.13
901 918 0.462047 CCCGTTTGGCCAGCTAGTAG 60.462 60.000 5.11 0.00 0.00 2.57
1485 2993 1.519455 CAAGGAGTGGATCGCGGAC 60.519 63.158 6.13 0.00 0.00 4.79
3319 6199 0.037877 AGCTCTTGCAAGCAGTGGAT 59.962 50.000 21.99 5.05 45.00 3.41
5773 10495 3.735746 GCAAACTTGACTTATTGTGCCAC 59.264 43.478 0.00 0.00 0.00 5.01
5777 10499 4.067896 ACTTGACTTATTGTGCCACTCAG 58.932 43.478 0.00 0.00 0.00 3.35
5780 10502 4.713553 TGACTTATTGTGCCACTCAGAAA 58.286 39.130 0.00 0.00 31.33 2.52
5782 10504 5.769662 TGACTTATTGTGCCACTCAGAAAAT 59.230 36.000 0.00 0.00 31.33 1.82
5786 10508 8.806146 ACTTATTGTGCCACTCAGAAAATAAAT 58.194 29.630 0.00 0.00 31.33 1.40
5839 11077 4.935808 CCGAGCATAAACTCCTTAACAAGT 59.064 41.667 0.00 0.00 32.79 3.16
5975 11240 7.260603 GCTGGCATGAGTAAAAGTTCATAAAT 58.739 34.615 0.00 0.00 32.96 1.40
6168 11446 8.628280 GGATTTGGTTTGGAATTTGATGAAAAA 58.372 29.630 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 0.975135 ATCCGATCTCAGCCAGGATG 59.025 55.000 0.00 0.00 39.94 3.51
82 83 2.203082 CCCGATCCGATCTCAGCCA 61.203 63.158 6.81 0.00 0.00 4.75
94 95 2.289565 GTTTCTTCCACCATCCCGATC 58.710 52.381 0.00 0.00 0.00 3.69
98 99 0.704664 AGGGTTTCTTCCACCATCCC 59.295 55.000 0.00 0.00 35.80 3.85
105 106 3.073356 ACAACGGATTAGGGTTTCTTCCA 59.927 43.478 0.00 0.00 0.00 3.53
132 133 2.288025 GGTCCTGGGGTAGAACGCA 61.288 63.158 0.00 0.00 32.03 5.24
155 156 2.185350 CGCTGCGGTCTCTGGATT 59.815 61.111 15.40 0.00 0.00 3.01
158 159 3.691744 GAGTCGCTGCGGTCTCTGG 62.692 68.421 27.00 1.75 0.00 3.86
170 171 3.050275 GCCCTGGTTGTGAGTCGC 61.050 66.667 0.00 0.00 0.00 5.19
175 176 4.517663 CCATTGCCCTGGTTGTGA 57.482 55.556 0.00 0.00 0.00 3.58
190 191 2.589157 CCCTGCCACCGTTCTACCA 61.589 63.158 0.00 0.00 0.00 3.25
201 202 1.150536 GAGTTGGTTGTCCCTGCCA 59.849 57.895 0.00 0.00 0.00 4.92
219 220 0.591741 GGGATTGCGTCGACGACTAG 60.592 60.000 39.74 12.67 43.02 2.57
223 224 3.060020 GAGGGGATTGCGTCGACGA 62.060 63.158 39.74 21.78 43.02 4.20
279 280 3.320610 TCCCACATGTTCCCTCAAAAA 57.679 42.857 0.00 0.00 0.00 1.94
280 281 3.320610 TTCCCACATGTTCCCTCAAAA 57.679 42.857 0.00 0.00 0.00 2.44
281 282 3.320610 TTTCCCACATGTTCCCTCAAA 57.679 42.857 0.00 0.00 0.00 2.69
282 283 3.164268 CATTTCCCACATGTTCCCTCAA 58.836 45.455 0.00 0.00 0.00 3.02
283 284 2.109834 ACATTTCCCACATGTTCCCTCA 59.890 45.455 0.00 0.00 30.22 3.86
284 285 2.807676 ACATTTCCCACATGTTCCCTC 58.192 47.619 0.00 0.00 30.22 4.30
285 286 2.999185 ACATTTCCCACATGTTCCCT 57.001 45.000 0.00 0.00 30.22 4.20
286 287 4.086457 AGTAACATTTCCCACATGTTCCC 58.914 43.478 0.00 0.00 42.63 3.97
287 288 5.722021 AAGTAACATTTCCCACATGTTCC 57.278 39.130 0.00 0.00 42.63 3.62
289 290 9.920946 AGATATAAGTAACATTTCCCACATGTT 57.079 29.630 0.00 3.90 45.05 2.71
290 291 9.920946 AAGATATAAGTAACATTTCCCACATGT 57.079 29.630 0.00 0.00 36.36 3.21
295 296 9.983024 TCCAAAAGATATAAGTAACATTTCCCA 57.017 29.630 0.00 0.00 0.00 4.37
297 298 9.952188 GCTCCAAAAGATATAAGTAACATTTCC 57.048 33.333 0.00 0.00 0.00 3.13
298 299 9.651718 CGCTCCAAAAGATATAAGTAACATTTC 57.348 33.333 0.00 0.00 0.00 2.17
299 300 9.391006 TCGCTCCAAAAGATATAAGTAACATTT 57.609 29.630 0.00 0.00 0.00 2.32
300 301 8.958119 TCGCTCCAAAAGATATAAGTAACATT 57.042 30.769 0.00 0.00 0.00 2.71
306 307 7.067494 AGCATTTTCGCTCCAAAAGATATAAGT 59.933 33.333 0.00 0.00 37.91 2.24
345 346 1.067706 TGTGGCATTTTCGCTCCAATG 60.068 47.619 0.00 0.00 34.09 2.82
346 347 1.067635 GTGTGGCATTTTCGCTCCAAT 60.068 47.619 0.00 0.00 0.00 3.16
347 348 0.313672 GTGTGGCATTTTCGCTCCAA 59.686 50.000 0.00 0.00 0.00 3.53
348 349 0.821301 TGTGTGGCATTTTCGCTCCA 60.821 50.000 0.00 0.00 0.00 3.86
398 415 0.178975 TCCGCTTTGGATTTGGGTGT 60.179 50.000 0.00 0.00 43.74 4.16
437 454 6.258727 CCACTTATAGGCAGTACAAACATCTG 59.741 42.308 0.00 0.00 0.00 2.90
463 480 2.203153 CTATCCCGGCCCGTTTGG 60.203 66.667 0.85 0.00 37.09 3.28
464 481 2.900337 GCTATCCCGGCCCGTTTG 60.900 66.667 0.85 0.00 0.00 2.93
465 482 3.087906 AGCTATCCCGGCCCGTTT 61.088 61.111 0.85 0.00 0.00 3.60
466 483 3.861797 CAGCTATCCCGGCCCGTT 61.862 66.667 0.85 0.00 0.00 4.44
472 489 3.946201 CTGGCCCAGCTATCCCGG 61.946 72.222 0.00 0.00 0.00 5.73
510 527 4.097863 GCCCGTTTAGCACGTGCC 62.098 66.667 35.51 19.74 45.60 5.01
515 532 3.440415 GCCTGGCCCGTTTAGCAC 61.440 66.667 7.66 0.00 0.00 4.40
516 533 4.733542 GGCCTGGCCCGTTTAGCA 62.734 66.667 27.77 0.00 44.06 3.49
557 574 3.927481 GACCTTCAGGCCCAGGCAC 62.927 68.421 11.50 0.00 44.11 5.01
558 575 3.650950 GACCTTCAGGCCCAGGCA 61.651 66.667 11.50 0.00 44.11 4.75
559 576 4.785453 CGACCTTCAGGCCCAGGC 62.785 72.222 12.33 0.00 39.32 4.85
560 577 3.003173 TCGACCTTCAGGCCCAGG 61.003 66.667 11.06 11.06 39.32 4.45
561 578 2.581354 CTCGACCTTCAGGCCCAG 59.419 66.667 0.00 0.00 39.32 4.45
562 579 3.706373 GCTCGACCTTCAGGCCCA 61.706 66.667 0.00 0.00 39.32 5.36
563 580 3.706373 TGCTCGACCTTCAGGCCC 61.706 66.667 0.00 0.00 39.32 5.80
564 581 2.435059 GTGCTCGACCTTCAGGCC 60.435 66.667 0.00 0.00 39.32 5.19
565 582 2.811317 CGTGCTCGACCTTCAGGC 60.811 66.667 1.00 0.00 39.32 4.85
566 583 2.811317 GCGTGCTCGACCTTCAGG 60.811 66.667 13.13 0.00 39.71 3.86
567 584 3.175240 CGCGTGCTCGACCTTCAG 61.175 66.667 13.13 0.00 39.71 3.02
568 585 3.610791 CTCGCGTGCTCGACCTTCA 62.611 63.158 13.13 0.00 39.71 3.02
569 586 2.876645 CTCGCGTGCTCGACCTTC 60.877 66.667 13.13 0.00 39.71 3.46
595 612 3.636282 AAAAATATAATCGGGCCGTGC 57.364 42.857 27.32 0.00 0.00 5.34
621 638 6.436027 TGGGCCACATTAGGATACATAAAAA 58.564 36.000 0.00 0.00 41.41 1.94
622 639 6.019656 TGGGCCACATTAGGATACATAAAA 57.980 37.500 0.00 0.00 41.41 1.52
623 640 5.654901 TGGGCCACATTAGGATACATAAA 57.345 39.130 0.00 0.00 41.41 1.40
624 641 5.103898 TGTTGGGCCACATTAGGATACATAA 60.104 40.000 5.23 0.00 41.41 1.90
625 642 4.413851 TGTTGGGCCACATTAGGATACATA 59.586 41.667 5.23 0.00 41.41 2.29
626 643 3.204158 TGTTGGGCCACATTAGGATACAT 59.796 43.478 5.23 0.00 41.41 2.29
627 644 2.578480 TGTTGGGCCACATTAGGATACA 59.422 45.455 5.23 0.78 41.41 2.29
628 645 3.214328 CTGTTGGGCCACATTAGGATAC 58.786 50.000 5.23 0.00 0.00 2.24
629 646 2.174639 CCTGTTGGGCCACATTAGGATA 59.825 50.000 5.23 0.00 35.62 2.59
630 647 1.063717 CCTGTTGGGCCACATTAGGAT 60.064 52.381 5.23 0.00 35.62 3.24
631 648 0.331278 CCTGTTGGGCCACATTAGGA 59.669 55.000 5.23 0.00 35.62 2.94
632 649 0.039618 ACCTGTTGGGCCACATTAGG 59.960 55.000 5.23 14.08 38.09 2.69
633 650 2.799126 TACCTGTTGGGCCACATTAG 57.201 50.000 5.23 1.80 39.10 1.73
634 651 3.527507 TTTACCTGTTGGGCCACATTA 57.472 42.857 5.23 0.03 39.10 1.90
635 652 2.390225 TTTACCTGTTGGGCCACATT 57.610 45.000 5.23 0.98 39.10 2.71
636 653 2.390225 TTTTACCTGTTGGGCCACAT 57.610 45.000 5.23 0.00 39.10 3.21
637 654 2.160721 TTTTTACCTGTTGGGCCACA 57.839 45.000 5.23 7.21 39.10 4.17
638 655 3.194755 CCTATTTTTACCTGTTGGGCCAC 59.805 47.826 5.23 1.85 39.10 5.01
639 656 3.436243 CCTATTTTTACCTGTTGGGCCA 58.564 45.455 0.00 0.00 39.10 5.36
640 657 2.167693 GCCTATTTTTACCTGTTGGGCC 59.832 50.000 0.00 0.00 39.10 5.80
641 658 3.096852 AGCCTATTTTTACCTGTTGGGC 58.903 45.455 0.00 0.00 39.10 5.36
642 659 6.844097 TTTAGCCTATTTTTACCTGTTGGG 57.156 37.500 0.00 0.00 41.89 4.12
643 660 6.804783 CGTTTTAGCCTATTTTTACCTGTTGG 59.195 38.462 0.00 0.00 39.83 3.77
644 661 6.307077 GCGTTTTAGCCTATTTTTACCTGTTG 59.693 38.462 0.00 0.00 0.00 3.33
645 662 6.384224 GCGTTTTAGCCTATTTTTACCTGTT 58.616 36.000 0.00 0.00 0.00 3.16
646 663 5.946298 GCGTTTTAGCCTATTTTTACCTGT 58.054 37.500 0.00 0.00 0.00 4.00
668 685 1.139520 CCTATTTTGCGCACTGGGC 59.860 57.895 11.12 11.07 41.94 5.36
669 686 0.734889 CTCCTATTTTGCGCACTGGG 59.265 55.000 11.12 9.87 0.00 4.45
670 687 0.734889 CCTCCTATTTTGCGCACTGG 59.265 55.000 11.12 8.33 0.00 4.00
671 688 0.099436 GCCTCCTATTTTGCGCACTG 59.901 55.000 11.12 0.00 0.00 3.66
672 689 0.322456 TGCCTCCTATTTTGCGCACT 60.322 50.000 11.12 0.00 0.00 4.40
673 690 0.099436 CTGCCTCCTATTTTGCGCAC 59.901 55.000 11.12 0.00 0.00 5.34
674 691 0.035534 TCTGCCTCCTATTTTGCGCA 60.036 50.000 5.66 5.66 0.00 6.09
675 692 1.312815 ATCTGCCTCCTATTTTGCGC 58.687 50.000 0.00 0.00 0.00 6.09
676 693 3.058639 GCTAATCTGCCTCCTATTTTGCG 60.059 47.826 0.00 0.00 0.00 4.85
677 694 3.058639 CGCTAATCTGCCTCCTATTTTGC 60.059 47.826 0.00 0.00 0.00 3.68
678 695 3.499918 CCGCTAATCTGCCTCCTATTTTG 59.500 47.826 0.00 0.00 0.00 2.44
679 696 3.496870 CCCGCTAATCTGCCTCCTATTTT 60.497 47.826 0.00 0.00 0.00 1.82
680 697 2.039084 CCCGCTAATCTGCCTCCTATTT 59.961 50.000 0.00 0.00 0.00 1.40
681 698 1.625818 CCCGCTAATCTGCCTCCTATT 59.374 52.381 0.00 0.00 0.00 1.73
682 699 1.270907 CCCGCTAATCTGCCTCCTAT 58.729 55.000 0.00 0.00 0.00 2.57
683 700 1.472662 GCCCGCTAATCTGCCTCCTA 61.473 60.000 0.00 0.00 0.00 2.94
684 701 2.812619 GCCCGCTAATCTGCCTCCT 61.813 63.158 0.00 0.00 0.00 3.69
685 702 2.281139 GCCCGCTAATCTGCCTCC 60.281 66.667 0.00 0.00 0.00 4.30
686 703 2.281139 GGCCCGCTAATCTGCCTC 60.281 66.667 0.00 0.00 40.77 4.70
688 705 1.004440 CTAGGCCCGCTAATCTGCC 60.004 63.158 0.00 0.00 44.35 4.85
689 706 1.669437 GCTAGGCCCGCTAATCTGC 60.669 63.158 0.00 0.00 0.00 4.26
690 707 0.322975 ATGCTAGGCCCGCTAATCTG 59.677 55.000 14.89 0.00 0.00 2.90
691 708 0.322975 CATGCTAGGCCCGCTAATCT 59.677 55.000 14.89 0.00 0.00 2.40
692 709 1.301677 GCATGCTAGGCCCGCTAATC 61.302 60.000 11.37 0.10 0.00 1.75
693 710 1.302832 GCATGCTAGGCCCGCTAAT 60.303 57.895 11.37 0.00 0.00 1.73
694 711 2.111043 GCATGCTAGGCCCGCTAA 59.889 61.111 11.37 0.00 0.00 3.09
695 712 3.941188 GGCATGCTAGGCCCGCTA 61.941 66.667 18.92 3.33 45.87 4.26
717 734 2.536997 ATATGCTAATCGGGCCGGCC 62.537 60.000 38.57 38.57 0.00 6.13
718 735 1.078426 ATATGCTAATCGGGCCGGC 60.078 57.895 27.98 21.18 0.00 6.13
719 736 0.744414 CCATATGCTAATCGGGCCGG 60.744 60.000 27.98 11.17 0.00 6.13
720 737 0.744414 CCCATATGCTAATCGGGCCG 60.744 60.000 22.51 22.51 0.00 6.13
721 738 3.175133 CCCATATGCTAATCGGGCC 57.825 57.895 0.00 0.00 0.00 5.80
723 740 0.744414 CGGCCCATATGCTAATCGGG 60.744 60.000 0.00 0.00 40.11 5.14
724 741 0.036388 ACGGCCCATATGCTAATCGG 60.036 55.000 0.00 0.00 0.00 4.18
725 742 1.078709 CACGGCCCATATGCTAATCG 58.921 55.000 0.00 0.00 0.00 3.34
726 743 0.804989 GCACGGCCCATATGCTAATC 59.195 55.000 0.00 0.00 36.40 1.75
727 744 0.609131 GGCACGGCCCATATGCTAAT 60.609 55.000 13.74 0.00 44.06 1.73
728 745 1.228124 GGCACGGCCCATATGCTAA 60.228 57.895 13.74 0.00 44.06 3.09
729 746 2.429930 GGCACGGCCCATATGCTA 59.570 61.111 13.74 0.00 44.06 3.49
780 797 1.657094 CGATTATTATACGGGCCGTGC 59.343 52.381 39.80 16.99 41.39 5.34
781 798 2.664568 CACGATTATTATACGGGCCGTG 59.335 50.000 39.80 22.32 41.39 4.94
782 799 2.950433 CACGATTATTATACGGGCCGT 58.050 47.619 35.91 35.91 44.35 5.68
786 803 4.174009 CTGAGGCACGATTATTATACGGG 58.826 47.826 0.00 0.00 0.00 5.28
787 804 3.612860 GCTGAGGCACGATTATTATACGG 59.387 47.826 0.00 0.00 38.54 4.02
788 805 3.300853 CGCTGAGGCACGATTATTATACG 59.699 47.826 0.00 0.00 38.60 3.06
789 806 3.612860 CCGCTGAGGCACGATTATTATAC 59.387 47.826 0.00 0.00 38.60 1.47
790 807 3.368013 CCCGCTGAGGCACGATTATTATA 60.368 47.826 0.00 0.00 39.21 0.98
791 808 2.612972 CCCGCTGAGGCACGATTATTAT 60.613 50.000 0.00 0.00 39.21 1.28
792 809 1.270094 CCCGCTGAGGCACGATTATTA 60.270 52.381 0.00 0.00 39.21 0.98
793 810 0.532862 CCCGCTGAGGCACGATTATT 60.533 55.000 0.00 0.00 39.21 1.40
794 811 1.069765 CCCGCTGAGGCACGATTAT 59.930 57.895 0.00 0.00 39.21 1.28
795 812 2.499205 CCCGCTGAGGCACGATTA 59.501 61.111 0.00 0.00 39.21 1.75
836 853 1.667236 CATCTTAATCGTGCCTGGCA 58.333 50.000 19.30 19.30 35.60 4.92
837 854 0.947244 CCATCTTAATCGTGCCTGGC 59.053 55.000 12.87 12.87 0.00 4.85
838 855 1.597742 CCCATCTTAATCGTGCCTGG 58.402 55.000 0.00 0.00 0.00 4.45
839 856 0.947244 GCCCATCTTAATCGTGCCTG 59.053 55.000 0.00 0.00 0.00 4.85
840 857 0.179018 GGCCCATCTTAATCGTGCCT 60.179 55.000 0.00 0.00 34.61 4.75
841 858 1.507141 CGGCCCATCTTAATCGTGCC 61.507 60.000 0.00 0.00 0.00 5.01
842 859 1.507141 CCGGCCCATCTTAATCGTGC 61.507 60.000 0.00 0.00 0.00 5.34
843 860 0.884704 CCCGGCCCATCTTAATCGTG 60.885 60.000 0.00 0.00 0.00 4.35
844 861 1.450211 CCCGGCCCATCTTAATCGT 59.550 57.895 0.00 0.00 0.00 3.73
845 862 1.966451 GCCCGGCCCATCTTAATCG 60.966 63.158 0.00 0.00 0.00 3.34
846 863 1.603739 GGCCCGGCCCATCTTAATC 60.604 63.158 18.83 0.00 44.06 1.75
847 864 2.520968 GGCCCGGCCCATCTTAAT 59.479 61.111 18.83 0.00 44.06 1.40
882 899 0.462047 CTACTAGCTGGCCAAACGGG 60.462 60.000 7.01 0.00 40.85 5.28
883 900 0.249398 ACTACTAGCTGGCCAAACGG 59.751 55.000 7.01 0.00 0.00 4.44
884 901 1.359848 CACTACTAGCTGGCCAAACG 58.640 55.000 7.01 0.00 0.00 3.60
885 902 1.087501 GCACTACTAGCTGGCCAAAC 58.912 55.000 7.01 1.16 0.00 2.93
886 903 0.035439 GGCACTACTAGCTGGCCAAA 60.035 55.000 7.01 0.00 44.01 3.28
887 904 0.909610 AGGCACTACTAGCTGGCCAA 60.910 55.000 7.01 0.00 46.96 4.52
888 905 0.032515 TAGGCACTACTAGCTGGCCA 60.033 55.000 4.71 4.71 46.96 5.36
889 906 0.676736 CTAGGCACTACTAGCTGGCC 59.323 60.000 0.00 0.00 44.92 5.36
895 912 3.570550 CAGGTTAGGCTAGGCACTACTAG 59.429 52.174 19.70 6.27 42.63 2.57
896 913 3.563223 CAGGTTAGGCTAGGCACTACTA 58.437 50.000 19.70 0.00 41.75 1.82
897 914 2.389715 CAGGTTAGGCTAGGCACTACT 58.610 52.381 19.70 8.31 41.75 2.57
901 918 1.153147 GGCAGGTTAGGCTAGGCAC 60.153 63.158 19.70 8.65 0.00 5.01
1485 2993 2.503061 CTCAGGGCCTCCATGTCG 59.497 66.667 0.95 0.00 34.83 4.35
5817 10540 7.223058 CTACTTGTTAAGGAGTTTATGCTCG 57.777 40.000 0.00 0.00 34.59 5.03
6096 11362 9.672673 TCCAAAACCATTTTAAAATTCACAAGA 57.327 25.926 10.77 1.37 0.00 3.02
6137 11415 6.893583 TCAAATTCCAAACCAAATCCTCAAA 58.106 32.000 0.00 0.00 0.00 2.69
6138 11416 6.491714 TCAAATTCCAAACCAAATCCTCAA 57.508 33.333 0.00 0.00 0.00 3.02
6139 11417 6.269538 TCATCAAATTCCAAACCAAATCCTCA 59.730 34.615 0.00 0.00 0.00 3.86
6140 11418 6.700352 TCATCAAATTCCAAACCAAATCCTC 58.300 36.000 0.00 0.00 0.00 3.71
6141 11419 6.684897 TCATCAAATTCCAAACCAAATCCT 57.315 33.333 0.00 0.00 0.00 3.24
6142 11420 7.742556 TTTCATCAAATTCCAAACCAAATCC 57.257 32.000 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.