Multiple sequence alignment - TraesCS2D01G107500

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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 TraesCS2D01G107500 chr2D 100.000 3532 0 0 1 3532 59722932 59726463 0.000000e+00 6523.0
1 TraesCS2D01G107500 chr2D 89.278 970 89 12 1641 2599 60167048 60166083 0.000000e+00 1201.0
2 TraesCS2D01G107500 chr2D 93.509 570 30 3 2224 2786 59836615 59837184 0.000000e+00 841.0
3 TraesCS2D01G107500 chr2D 84.966 745 65 23 2808 3532 59837640 59838357 0.000000e+00 712.0
4 TraesCS2D01G107500 chr2D 92.000 500 36 3 936 1432 59835318 59835816 0.000000e+00 699.0
5 TraesCS2D01G107500 chr2D 96.988 332 7 3 609 938 59830477 59830807 3.980000e-154 555.0
6 TraesCS2D01G107500 chr2D 83.246 573 74 15 656 1209 60167935 60167366 1.130000e-139 507.0
7 TraesCS2D01G107500 chr2D 92.557 309 20 2 1646 1952 59836265 59836572 1.160000e-119 440.0
8 TraesCS2D01G107500 chr2D 86.275 204 26 2 1695 1897 60065082 60064880 1.650000e-53 220.0
9 TraesCS2D01G107500 chr2D 90.265 113 9 2 1543 1655 59836135 59836245 2.840000e-31 147.0
10 TraesCS2D01G107500 chr2D 87.692 130 11 2 3361 3490 60139709 60139585 2.840000e-31 147.0
11 TraesCS2D01G107500 chr2D 79.769 173 27 5 60 230 614646670 614646836 6.190000e-23 119.0
12 TraesCS2D01G107500 chr2D 100.000 42 0 0 1441 1482 59724242 59724283 1.050000e-10 78.7
13 TraesCS2D01G107500 chr2D 100.000 42 0 0 1311 1352 59724372 59724413 1.050000e-10 78.7
14 TraesCS2D01G107500 chr2D 100.000 42 0 0 1441 1482 59835693 59835734 1.050000e-10 78.7
15 TraesCS2D01G107500 chr2A 92.757 2140 118 21 672 2786 59717169 59719296 0.000000e+00 3059.0
16 TraesCS2D01G107500 chr2A 87.393 1055 104 21 1565 2599 60283638 60282593 0.000000e+00 1184.0
17 TraesCS2D01G107500 chr2A 87.735 1011 99 14 1609 2599 60760346 60759341 0.000000e+00 1157.0
18 TraesCS2D01G107500 chr2A 84.948 764 74 19 2784 3532 59720694 59721431 0.000000e+00 736.0
19 TraesCS2D01G107500 chr2A 87.992 533 42 11 1 522 59834745 59835266 8.380000e-171 610.0
20 TraesCS2D01G107500 chr2A 82.168 572 80 14 657 1209 60761506 60760938 4.130000e-129 472.0
21 TraesCS2D01G107500 chr2A 90.988 344 25 3 871 1209 60284132 60283790 3.210000e-125 459.0
22 TraesCS2D01G107500 chr2A 83.302 539 47 15 1 537 59705879 59706376 1.160000e-124 457.0
23 TraesCS2D01G107500 chr2A 93.431 274 12 4 603 872 59835263 59835534 5.490000e-108 401.0
24 TraesCS2D01G107500 chr2A 85.348 273 10 10 603 874 59706393 59706636 4.520000e-64 255.0
25 TraesCS2D01G107500 chr2A 81.132 212 17 13 2543 2745 60731722 60731525 7.900000e-32 148.0
26 TraesCS2D01G107500 chr2A 87.500 80 9 1 2933 3011 474783169 474783090 1.350000e-14 91.6
27 TraesCS2D01G107500 chr2A 100.000 42 0 0 1441 1482 59717809 59717850 1.050000e-10 78.7
28 TraesCS2D01G107500 chr2B 92.554 1155 61 9 1653 2786 93408784 93409934 0.000000e+00 1633.0
29 TraesCS2D01G107500 chr2B 92.263 1034 65 6 1765 2786 93109161 93110191 0.000000e+00 1452.0
30 TraesCS2D01G107500 chr2B 92.806 834 50 8 603 1430 93407710 93408539 0.000000e+00 1199.0
31 TraesCS2D01G107500 chr2B 88.669 962 93 11 1650 2599 94089959 94089002 0.000000e+00 1158.0
32 TraesCS2D01G107500 chr2B 87.316 1017 107 16 1597 2599 94251153 94250145 0.000000e+00 1144.0
33 TraesCS2D01G107500 chr2B 93.121 785 38 11 607 1388 93108090 93108861 0.000000e+00 1136.0
34 TraesCS2D01G107500 chr2B 85.967 734 71 17 2808 3532 93110631 93111341 0.000000e+00 756.0
35 TraesCS2D01G107500 chr2B 83.673 539 53 14 1 537 93107565 93108070 3.190000e-130 475.0
36 TraesCS2D01G107500 chr2B 87.966 349 30 7 870 1207 94251864 94251517 5.490000e-108 401.0
37 TraesCS2D01G107500 chr2B 92.647 272 17 3 1514 1785 93108867 93109135 4.280000e-104 388.0
38 TraesCS2D01G107500 chr2B 76.087 782 143 30 1779 2532 93112366 93113131 5.570000e-98 368.0
39 TraesCS2D01G107500 chr2B 87.456 287 28 4 930 1209 94090598 94090313 1.220000e-84 324.0
40 TraesCS2D01G107500 chr2B 92.350 183 10 1 3350 3532 93426172 93426350 1.260000e-64 257.0
41 TraesCS2D01G107500 chr2B 92.262 168 13 0 347 514 93407422 93407589 4.560000e-59 239.0
42 TraesCS2D01G107500 chr2B 85.345 232 22 3 3139 3358 93425847 93426078 2.740000e-56 230.0
43 TraesCS2D01G107500 chr2B 84.434 212 14 10 2543 2745 94248195 94247994 1.290000e-44 191.0
44 TraesCS2D01G107500 chr2B 98.889 90 1 0 516 605 85695659 85695570 1.010000e-35 161.0
45 TraesCS2D01G107500 chr2B 97.802 91 2 0 518 608 638002712 638002802 1.310000e-34 158.0
46 TraesCS2D01G107500 chr2B 78.400 250 42 10 4 251 26559508 26559269 6.110000e-33 152.0
47 TraesCS2D01G107500 chr2B 83.140 172 15 5 2553 2720 94040131 94039970 1.020000e-30 145.0
48 TraesCS2D01G107500 chr2B 88.983 118 8 2 3373 3490 94035103 94034991 1.320000e-29 141.0
49 TraesCS2D01G107500 chr2B 88.136 118 9 2 3373 3490 94225746 94225634 6.150000e-28 135.0
50 TraesCS2D01G107500 chr2B 96.970 33 1 0 656 688 94252048 94252016 4.930000e-04 56.5
51 TraesCS2D01G107500 chr5A 96.939 98 2 1 519 615 526398938 526398841 2.820000e-36 163.0
52 TraesCS2D01G107500 chr5A 95.146 103 4 1 511 612 38128941 38128839 1.010000e-35 161.0
53 TraesCS2D01G107500 chr5A 96.875 96 2 1 512 606 27637144 27637049 3.650000e-35 159.0
54 TraesCS2D01G107500 chr5A 84.706 85 11 2 2944 3027 2361590 2361507 2.260000e-12 84.2
55 TraesCS2D01G107500 chr7D 80.269 223 34 9 60 278 530843512 530843296 3.650000e-35 159.0
56 TraesCS2D01G107500 chr5D 95.918 98 3 1 509 605 252117411 252117314 1.310000e-34 158.0
57 TraesCS2D01G107500 chr5D 81.633 98 17 1 2935 3031 421232426 421232329 2.920000e-11 80.5
58 TraesCS2D01G107500 chr3A 95.876 97 4 0 515 611 86792946 86793042 1.310000e-34 158.0
59 TraesCS2D01G107500 chr3A 95.833 96 4 0 511 606 100888812 100888717 4.720000e-34 156.0
60 TraesCS2D01G107500 chr3D 95.833 96 4 0 509 604 535746847 535746942 4.720000e-34 156.0
61 TraesCS2D01G107500 chr3D 80.663 181 26 9 44 221 478741681 478741507 7.960000e-27 132.0
62 TraesCS2D01G107500 chr3D 76.585 205 39 5 92 296 346642801 346642996 1.730000e-18 104.0
63 TraesCS2D01G107500 chr3D 88.889 72 8 0 2932 3003 340437410 340437481 4.860000e-14 89.8
64 TraesCS2D01G107500 chr4A 77.155 232 28 19 8 229 624463270 624463486 1.040000e-20 111.0
65 TraesCS2D01G107500 chr4A 77.297 185 40 2 1026 1209 191375780 191375963 1.340000e-19 108.0
66 TraesCS2D01G107500 chr4A 78.344 157 27 6 63 215 552820681 552820834 1.040000e-15 95.3
67 TraesCS2D01G107500 chr4A 100.000 31 0 0 2003 2033 478302198 478302168 1.370000e-04 58.4
68 TraesCS2D01G107500 chr6A 81.538 130 18 5 95 221 399876441 399876315 6.240000e-18 102.0
69 TraesCS2D01G107500 chr6A 80.180 111 21 1 2933 3042 97005457 97005567 8.130000e-12 82.4
70 TraesCS2D01G107500 chr3B 87.500 80 8 2 2928 3006 22603850 22603772 1.350000e-14 91.6
71 TraesCS2D01G107500 chr3B 77.640 161 29 7 66 225 638963455 638963301 1.350000e-14 91.6
72 TraesCS2D01G107500 chr1A 85.714 84 12 0 2933 3016 498449806 498449723 4.860000e-14 89.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G107500 chr2D 59722932 59726463 3531 False 2226.800000 6523 100.000000 1 3532 3 chr2D.!!$F3 3531
1 TraesCS2D01G107500 chr2D 60166083 60167935 1852 True 854.000000 1201 86.262000 656 2599 2 chr2D.!!$R3 1943
2 TraesCS2D01G107500 chr2D 59835318 59838357 3039 False 486.283333 841 92.216167 936 3532 6 chr2D.!!$F4 2596
3 TraesCS2D01G107500 chr2A 59717169 59721431 4262 False 1291.233333 3059 92.568333 672 3532 3 chr2A.!!$F2 2860
4 TraesCS2D01G107500 chr2A 60282593 60284132 1539 True 821.500000 1184 89.190500 871 2599 2 chr2A.!!$R3 1728
5 TraesCS2D01G107500 chr2A 60759341 60761506 2165 True 814.500000 1157 84.951500 657 2599 2 chr2A.!!$R4 1942
6 TraesCS2D01G107500 chr2A 59834745 59835534 789 False 505.500000 610 90.711500 1 872 2 chr2A.!!$F3 871
7 TraesCS2D01G107500 chr2A 59705879 59706636 757 False 356.000000 457 84.325000 1 874 2 chr2A.!!$F1 873
8 TraesCS2D01G107500 chr2B 93407422 93409934 2512 False 1023.666667 1633 92.540667 347 2786 3 chr2B.!!$F3 2439
9 TraesCS2D01G107500 chr2B 93107565 93113131 5566 False 762.500000 1452 87.293000 1 3532 6 chr2B.!!$F2 3531
10 TraesCS2D01G107500 chr2B 94089002 94090598 1596 True 741.000000 1158 88.062500 930 2599 2 chr2B.!!$R6 1669
11 TraesCS2D01G107500 chr2B 94247994 94252048 4054 True 448.125000 1144 89.171500 656 2745 4 chr2B.!!$R7 2089
12 TraesCS2D01G107500 chr2B 93425847 93426350 503 False 243.500000 257 88.847500 3139 3532 2 chr2B.!!$F4 393

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
609 754 0.108281 GAACGGAGGGAGTACTTGGC 60.108 60.0 0.00 0.00 0.00 4.52 F
610 755 0.834687 AACGGAGGGAGTACTTGGCA 60.835 55.0 0.00 0.00 0.00 4.92 F
613 758 0.910088 GGAGGGAGTACTTGGCAGGT 60.910 60.0 7.61 7.61 0.00 4.00 F
2233 3514 1.005340 GCCTTCGCAACATCTCTCAG 58.995 55.0 0.00 0.00 34.03 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1475 1971 0.680921 CGGGGCAACATGGATGACTT 60.681 55.000 6.57 0.00 39.74 3.01 R
1712 2933 1.139734 CCGTGTCGCTCAGCAGTAT 59.860 57.895 0.00 0.00 0.00 2.12 R
2399 3680 1.371337 CCGACGAGTATGTCCGGACA 61.371 60.000 37.79 37.79 46.44 4.02 R
3061 8117 0.036164 CCACACTGATGGGTTTCGGA 59.964 55.000 0.00 0.00 35.95 4.55 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
35 36 1.321474 ATGTGCTTGGGTGAACAGTG 58.679 50.000 0.00 0.00 0.00 3.66
130 132 6.680874 TTTCAGTGCTTGCAAAATTTCATT 57.319 29.167 0.00 0.00 0.00 2.57
131 133 5.660629 TCAGTGCTTGCAAAATTTCATTG 57.339 34.783 0.00 1.71 0.00 2.82
243 246 8.738645 TTTATTTTATGTTTTGCCACCACTTT 57.261 26.923 0.00 0.00 0.00 2.66
246 249 5.543507 TTATGTTTTGCCACCACTTTCAT 57.456 34.783 0.00 0.00 0.00 2.57
247 251 3.176552 TGTTTTGCCACCACTTTCATG 57.823 42.857 0.00 0.00 0.00 3.07
267 272 6.359804 TCATGAATACCATTCCAGGAAGAAG 58.640 40.000 8.20 1.30 31.94 2.85
268 273 5.779241 TGAATACCATTCCAGGAAGAAGT 57.221 39.130 8.20 7.33 0.00 3.01
284 289 3.406764 AGAAGTTTTGCGAGCTCTGAAT 58.593 40.909 12.85 0.00 0.00 2.57
297 302 7.065683 TGCGAGCTCTGAATATATTTGTCAAAA 59.934 33.333 12.85 0.00 0.00 2.44
298 303 7.374491 GCGAGCTCTGAATATATTTGTCAAAAC 59.626 37.037 12.85 0.00 0.00 2.43
372 401 2.845019 CTCATTTGAGCTCGCCACA 58.155 52.632 9.64 0.00 35.13 4.17
413 442 1.768870 GCTGCCCATTTCCCTACTAGA 59.231 52.381 0.00 0.00 0.00 2.43
422 451 6.326583 CCCATTTCCCTACTAGACATACTTCA 59.673 42.308 0.00 0.00 0.00 3.02
526 671 1.684450 GCCTCTAACAGCTACTCCCTC 59.316 57.143 0.00 0.00 0.00 4.30
534 679 0.252103 AGCTACTCCCTCCGTTCCAA 60.252 55.000 0.00 0.00 0.00 3.53
536 681 1.209747 GCTACTCCCTCCGTTCCAAAT 59.790 52.381 0.00 0.00 0.00 2.32
539 684 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
540 685 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
541 686 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
543 688 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
544 689 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
545 690 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
546 691 2.030007 TCCGTTCCAAATTACTCGTCGT 60.030 45.455 0.00 0.00 0.00 4.34
547 692 2.091588 CCGTTCCAAATTACTCGTCGTG 59.908 50.000 0.00 0.00 0.00 4.35
548 693 2.091588 CGTTCCAAATTACTCGTCGTGG 59.908 50.000 0.00 0.00 0.00 4.94
552 697 4.128643 TCCAAATTACTCGTCGTGGTTTT 58.871 39.130 0.00 0.00 0.00 2.43
554 699 5.406175 TCCAAATTACTCGTCGTGGTTTTAG 59.594 40.000 0.00 0.00 0.00 1.85
555 700 5.178067 CCAAATTACTCGTCGTGGTTTTAGT 59.822 40.000 0.00 0.00 0.00 2.24
556 701 6.293027 CCAAATTACTCGTCGTGGTTTTAGTT 60.293 38.462 0.00 0.00 0.00 2.24
557 702 6.457851 AATTACTCGTCGTGGTTTTAGTTC 57.542 37.500 0.00 0.00 0.00 3.01
558 703 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
559 704 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
560 705 4.183101 ACTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
561 706 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
562 707 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
563 708 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
564 709 5.966503 TCGTCGTGGTTTTAGTTCAAATTTG 59.033 36.000 12.15 12.15 0.00 2.32
565 710 5.966503 CGTCGTGGTTTTAGTTCAAATTTGA 59.033 36.000 16.91 16.91 34.92 2.69
566 711 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
579 724 7.743520 TTCAAATTTGAACTAAAACCACGAC 57.256 32.000 26.01 0.00 41.88 4.34
580 725 7.090953 TCAAATTTGAACTAAAACCACGACT 57.909 32.000 18.45 0.00 33.55 4.18
581 726 8.211116 TCAAATTTGAACTAAAACCACGACTA 57.789 30.769 18.45 0.00 33.55 2.59
582 727 8.339714 TCAAATTTGAACTAAAACCACGACTAG 58.660 33.333 18.45 0.00 33.55 2.57
583 728 7.797038 AATTTGAACTAAAACCACGACTAGT 57.203 32.000 0.00 0.00 0.00 2.57
584 729 8.891671 AATTTGAACTAAAACCACGACTAGTA 57.108 30.769 0.00 0.00 0.00 1.82
585 730 8.891671 ATTTGAACTAAAACCACGACTAGTAA 57.108 30.769 0.00 0.00 0.00 2.24
586 731 8.891671 TTTGAACTAAAACCACGACTAGTAAT 57.108 30.769 0.00 0.00 0.00 1.89
587 732 8.891671 TTGAACTAAAACCACGACTAGTAATT 57.108 30.769 0.00 0.00 0.00 1.40
588 733 8.891671 TGAACTAAAACCACGACTAGTAATTT 57.108 30.769 0.00 0.00 0.00 1.82
589 734 8.767085 TGAACTAAAACCACGACTAGTAATTTG 58.233 33.333 0.00 0.00 0.00 2.32
590 735 7.662604 ACTAAAACCACGACTAGTAATTTGG 57.337 36.000 0.00 2.67 0.00 3.28
591 736 7.444299 ACTAAAACCACGACTAGTAATTTGGA 58.556 34.615 15.15 0.00 0.00 3.53
592 737 7.933033 ACTAAAACCACGACTAGTAATTTGGAA 59.067 33.333 15.15 1.95 0.00 3.53
593 738 6.549912 AAACCACGACTAGTAATTTGGAAC 57.450 37.500 15.15 0.00 0.00 3.62
594 739 4.240096 ACCACGACTAGTAATTTGGAACG 58.760 43.478 15.15 6.05 0.00 3.95
595 740 3.615496 CCACGACTAGTAATTTGGAACGG 59.385 47.826 0.00 0.00 0.00 4.44
596 741 4.487948 CACGACTAGTAATTTGGAACGGA 58.512 43.478 0.00 0.00 0.00 4.69
597 742 4.561606 CACGACTAGTAATTTGGAACGGAG 59.438 45.833 0.00 0.00 0.00 4.63
598 743 4.110482 CGACTAGTAATTTGGAACGGAGG 58.890 47.826 0.00 0.00 0.00 4.30
599 744 4.439968 GACTAGTAATTTGGAACGGAGGG 58.560 47.826 0.00 0.00 0.00 4.30
600 745 4.098894 ACTAGTAATTTGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
601 746 3.629142 AGTAATTTGGAACGGAGGGAG 57.371 47.619 0.00 0.00 0.00 4.30
602 747 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
603 748 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
604 749 3.345508 AATTTGGAACGGAGGGAGTAC 57.654 47.619 0.00 0.00 0.00 2.73
605 750 2.019807 TTTGGAACGGAGGGAGTACT 57.980 50.000 0.00 0.00 0.00 2.73
606 751 2.019807 TTGGAACGGAGGGAGTACTT 57.980 50.000 0.00 0.00 0.00 2.24
607 752 1.263356 TGGAACGGAGGGAGTACTTG 58.737 55.000 0.00 0.00 0.00 3.16
608 753 0.535797 GGAACGGAGGGAGTACTTGG 59.464 60.000 0.00 0.00 0.00 3.61
609 754 0.108281 GAACGGAGGGAGTACTTGGC 60.108 60.000 0.00 0.00 0.00 4.52
610 755 0.834687 AACGGAGGGAGTACTTGGCA 60.835 55.000 0.00 0.00 0.00 4.92
611 756 1.258445 ACGGAGGGAGTACTTGGCAG 61.258 60.000 0.00 0.00 0.00 4.85
612 757 1.908483 GGAGGGAGTACTTGGCAGG 59.092 63.158 0.00 0.00 0.00 4.85
613 758 0.910088 GGAGGGAGTACTTGGCAGGT 60.910 60.000 7.61 7.61 0.00 4.00
811 963 4.142447 CCAACCGTACTATATCCATCTCCG 60.142 50.000 0.00 0.00 0.00 4.63
1080 1281 1.134560 CTTTCGCCTAGGTTCTACGCT 59.865 52.381 11.31 0.00 0.00 5.07
1229 1450 5.336531 CCTCACGCCTTCTCTCTTTACTTAA 60.337 44.000 0.00 0.00 0.00 1.85
1266 1648 5.199024 CATACACTGCTGCTAATCTCTCT 57.801 43.478 0.00 0.00 0.00 3.10
1272 1654 5.695816 CACTGCTGCTAATCTCTCTAATTCC 59.304 44.000 0.00 0.00 0.00 3.01
1273 1655 5.365025 ACTGCTGCTAATCTCTCTAATTCCA 59.635 40.000 0.00 0.00 0.00 3.53
1432 1928 8.687242 AGTTGACACTCTTTAGATCGATAATCA 58.313 33.333 0.00 0.00 36.79 2.57
1433 1929 9.302345 GTTGACACTCTTTAGATCGATAATCAA 57.698 33.333 0.00 0.00 36.79 2.57
1434 1930 8.858003 TGACACTCTTTAGATCGATAATCAAC 57.142 34.615 0.00 0.00 36.79 3.18
1438 1934 7.644157 CACTCTTTAGATCGATAATCAACGACA 59.356 37.037 0.00 0.00 41.17 4.35
1440 1936 8.729529 TCTTTAGATCGATAATCAACGACATC 57.270 34.615 0.00 0.00 41.17 3.06
1441 1937 8.568794 TCTTTAGATCGATAATCAACGACATCT 58.431 33.333 0.00 0.00 41.17 2.90
1442 1938 9.186323 CTTTAGATCGATAATCAACGACATCTT 57.814 33.333 0.00 0.00 41.17 2.40
1446 1942 9.698309 AGATCGATAATCAACGACATCTTAATT 57.302 29.630 0.00 0.00 41.17 1.40
1455 1951 8.475331 TCAACGACATCTTAATTTAGAAGGTC 57.525 34.615 14.67 14.67 33.07 3.85
1456 1952 8.311836 TCAACGACATCTTAATTTAGAAGGTCT 58.688 33.333 18.98 9.67 33.69 3.85
1458 1954 7.837863 ACGACATCTTAATTTAGAAGGTCTCA 58.162 34.615 18.98 0.00 33.69 3.27
1459 1955 7.976734 ACGACATCTTAATTTAGAAGGTCTCAG 59.023 37.037 18.98 11.31 33.69 3.35
1460 1956 7.976734 CGACATCTTAATTTAGAAGGTCTCAGT 59.023 37.037 18.98 3.63 33.69 3.41
1461 1957 9.660180 GACATCTTAATTTAGAAGGTCTCAGTT 57.340 33.333 16.27 0.00 33.37 3.16
1579 2342 6.357367 ACTTGACAGTGACTTTCCAACTTAT 58.643 36.000 0.00 0.00 0.00 1.73
1615 2713 5.942872 ACTTTGACAGTGACTTTTCAGTTG 58.057 37.500 0.00 0.00 32.63 3.16
2087 3368 2.426023 GACGTGGCCAACCTCACT 59.574 61.111 7.24 0.00 36.63 3.41
2120 3401 4.379243 AAGGGGCTCAGCGTGACG 62.379 66.667 0.00 0.00 0.00 4.35
2233 3514 1.005340 GCCTTCGCAACATCTCTCAG 58.995 55.000 0.00 0.00 34.03 3.35
2595 3881 3.629142 AGGCTGTGGAGTTATTGTACC 57.371 47.619 0.00 0.00 0.00 3.34
2648 5953 5.178996 CCATTTCTCGGATCATCATCAAGTC 59.821 44.000 0.00 0.00 0.00 3.01
2730 6036 6.781138 TGGATGAGTTGCATACGTATTTTTC 58.219 36.000 5.03 0.95 41.01 2.29
2747 6057 7.489113 CGTATTTTTCCTTTGCTTAATCATGCT 59.511 33.333 0.00 0.00 0.00 3.79
2764 6074 4.701171 TCATGCTCAGTTGCACATAATCAA 59.299 37.500 0.00 0.00 46.33 2.57
2835 7882 3.459598 AGGGGATTAGAGCATTTACAGCA 59.540 43.478 0.00 0.00 0.00 4.41
2836 7883 4.079787 AGGGGATTAGAGCATTTACAGCAA 60.080 41.667 0.00 0.00 0.00 3.91
2855 7902 1.600916 GGTGCCTCAAACCGCTCTT 60.601 57.895 0.00 0.00 0.00 2.85
2868 7915 2.322081 GCTCTTAAACGCCCACGCA 61.322 57.895 0.00 0.00 45.53 5.24
2922 7969 1.151450 CCACACCCAAGCTTGACCT 59.849 57.895 28.05 6.35 0.00 3.85
2923 7970 0.890996 CCACACCCAAGCTTGACCTC 60.891 60.000 28.05 0.00 0.00 3.85
2924 7971 0.179020 CACACCCAAGCTTGACCTCA 60.179 55.000 28.05 0.00 0.00 3.86
2927 7974 1.062488 ACCCAAGCTTGACCTCACCT 61.062 55.000 28.05 0.00 0.00 4.00
2930 7977 0.607489 CAAGCTTGACCTCACCTGGG 60.607 60.000 22.31 0.00 0.00 4.45
2964 8011 3.552384 AAACGTCCGGGCTGACCA 61.552 61.111 3.66 0.00 40.22 4.02
2983 8030 0.401105 AGCACCCCTCATATCCAGCT 60.401 55.000 0.00 0.00 0.00 4.24
2994 8050 7.461749 CCCTCATATCCAGCTTAAATAAAGGA 58.538 38.462 0.00 0.00 35.58 3.36
3006 8062 6.935208 GCTTAAATAAAGGACGGATATGAGGT 59.065 38.462 0.00 0.00 35.58 3.85
3012 8068 1.410004 GACGGATATGAGGTGGTCCA 58.590 55.000 0.00 0.00 35.89 4.02
3017 8073 3.041946 GGATATGAGGTGGTCCAGACTT 58.958 50.000 0.00 0.00 35.89 3.01
3028 8084 2.022129 CCAGACTTGTCCGACACGC 61.022 63.158 0.00 0.00 0.00 5.34
3060 8116 1.223187 CGGGTCCCGCATGTAAATAC 58.777 55.000 19.48 0.00 41.17 1.89
3061 8117 1.202604 CGGGTCCCGCATGTAAATACT 60.203 52.381 19.48 0.00 41.17 2.12
3063 8119 2.490991 GGTCCCGCATGTAAATACTCC 58.509 52.381 0.00 0.00 0.00 3.85
3074 8138 5.423704 TGTAAATACTCCGAAACCCATCA 57.576 39.130 0.00 0.00 0.00 3.07
3077 8141 3.543680 ATACTCCGAAACCCATCAGTG 57.456 47.619 0.00 0.00 0.00 3.66
3097 8161 4.131088 GTGGGCGTCTCCTCCGAC 62.131 72.222 0.00 0.00 34.39 4.79
3103 8167 3.450115 GTCTCCTCCGACGGGGTG 61.450 72.222 13.92 13.93 37.00 4.61
3106 8175 4.289101 TCCTCCGACGGGGTGTGA 62.289 66.667 13.92 0.00 37.00 3.58
3162 8237 0.664466 CGCTGAGCACGAACTCTTGA 60.664 55.000 4.88 0.00 37.58 3.02
3232 8322 1.227002 GACTAGTAGCCGGCACAGC 60.227 63.158 31.54 15.15 0.00 4.40
3279 8369 5.048434 TGCATGTCGTGGTCATTTGATTAAA 60.048 36.000 0.00 0.00 0.00 1.52
3328 8422 0.984230 TTCGAGCCAAGACCAATCCT 59.016 50.000 0.00 0.00 0.00 3.24
3469 8665 3.517901 CGGCCCAACCATCTTATCCTATA 59.482 47.826 0.00 0.00 39.03 1.31
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.136298 TTTCACTGTTCACCCAAGCA 57.864 45.000 0.00 0.00 0.00 3.91
89 91 7.637132 GCACTGAAAACATTTTGTCAATCTTTG 59.363 33.333 0.00 0.00 27.88 2.77
93 95 6.833342 AGCACTGAAAACATTTTGTCAATC 57.167 33.333 0.00 0.00 27.88 2.67
130 132 3.575256 ACTACCACGAATGTTACTCCACA 59.425 43.478 0.00 0.00 0.00 4.17
131 133 4.171754 GACTACCACGAATGTTACTCCAC 58.828 47.826 0.00 0.00 0.00 4.02
228 231 3.451141 TCATGAAAGTGGTGGCAAAAC 57.549 42.857 0.00 0.00 0.00 2.43
243 246 5.974156 TCTTCCTGGAATGGTATTCATGA 57.026 39.130 10.03 0.00 35.99 3.07
246 249 5.779241 ACTTCTTCCTGGAATGGTATTCA 57.221 39.130 10.03 0.00 0.00 2.57
247 251 7.315890 CAAAACTTCTTCCTGGAATGGTATTC 58.684 38.462 10.03 0.00 0.00 1.75
267 272 7.189512 ACAAATATATTCAGAGCTCGCAAAAC 58.810 34.615 8.37 0.00 0.00 2.43
268 273 7.065683 TGACAAATATATTCAGAGCTCGCAAAA 59.934 33.333 8.37 1.89 0.00 2.44
316 338 9.430623 CAGTAAAATCCGGGTAAAAATTGATTT 57.569 29.630 0.00 0.00 34.79 2.17
317 339 8.590204 ACAGTAAAATCCGGGTAAAAATTGATT 58.410 29.630 0.00 0.00 0.00 2.57
318 340 8.129496 ACAGTAAAATCCGGGTAAAAATTGAT 57.871 30.769 0.00 0.00 0.00 2.57
319 341 7.527568 ACAGTAAAATCCGGGTAAAAATTGA 57.472 32.000 0.00 0.00 0.00 2.57
320 342 7.868415 TGAACAGTAAAATCCGGGTAAAAATTG 59.132 33.333 0.00 0.00 0.00 2.32
321 343 7.953752 TGAACAGTAAAATCCGGGTAAAAATT 58.046 30.769 0.00 0.00 0.00 1.82
322 344 7.527568 TGAACAGTAAAATCCGGGTAAAAAT 57.472 32.000 0.00 0.00 0.00 1.82
323 345 6.956202 TGAACAGTAAAATCCGGGTAAAAA 57.044 33.333 0.00 0.00 0.00 1.94
324 346 8.513774 GTTATGAACAGTAAAATCCGGGTAAAA 58.486 33.333 0.00 0.00 0.00 1.52
325 347 7.148440 CGTTATGAACAGTAAAATCCGGGTAAA 60.148 37.037 0.00 0.00 0.00 2.01
326 348 6.313411 CGTTATGAACAGTAAAATCCGGGTAA 59.687 38.462 0.00 0.00 0.00 2.85
327 349 5.811613 CGTTATGAACAGTAAAATCCGGGTA 59.188 40.000 0.00 0.00 0.00 3.69
328 350 4.632688 CGTTATGAACAGTAAAATCCGGGT 59.367 41.667 0.00 0.00 0.00 5.28
329 351 4.871557 TCGTTATGAACAGTAAAATCCGGG 59.128 41.667 0.00 0.00 0.00 5.73
372 401 6.127786 GCAGCATTTGAGAAAGTCCTTATCTT 60.128 38.462 0.00 0.00 0.00 2.40
413 442 9.357652 GTTGCATGTTTGAAATATGAAGTATGT 57.642 29.630 17.19 0.00 32.37 2.29
422 451 6.392354 CACCTCTGTTGCATGTTTGAAATAT 58.608 36.000 0.00 0.00 0.00 1.28
526 671 2.091588 CACGACGAGTAATTTGGAACGG 59.908 50.000 0.00 0.00 0.00 4.44
534 679 5.984926 TGAACTAAAACCACGACGAGTAATT 59.015 36.000 0.00 1.08 0.00 1.40
536 681 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
539 684 4.782252 TTTGAACTAAAACCACGACGAG 57.218 40.909 0.00 0.00 0.00 4.18
540 685 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
541 686 5.966503 TCAAATTTGAACTAAAACCACGACG 59.033 36.000 18.45 0.00 33.55 5.12
555 700 7.540299 AGTCGTGGTTTTAGTTCAAATTTGAA 58.460 30.769 26.01 26.01 44.31 2.69
556 701 7.090953 AGTCGTGGTTTTAGTTCAAATTTGA 57.909 32.000 16.91 16.91 34.92 2.69
557 702 8.126700 ACTAGTCGTGGTTTTAGTTCAAATTTG 58.873 33.333 12.15 12.15 0.00 2.32
558 703 8.217131 ACTAGTCGTGGTTTTAGTTCAAATTT 57.783 30.769 0.00 0.00 0.00 1.82
559 704 7.797038 ACTAGTCGTGGTTTTAGTTCAAATT 57.203 32.000 0.00 0.00 0.00 1.82
560 705 8.891671 TTACTAGTCGTGGTTTTAGTTCAAAT 57.108 30.769 0.00 0.00 0.00 2.32
561 706 8.891671 ATTACTAGTCGTGGTTTTAGTTCAAA 57.108 30.769 0.00 0.00 0.00 2.69
562 707 8.891671 AATTACTAGTCGTGGTTTTAGTTCAA 57.108 30.769 0.00 0.00 0.00 2.69
563 708 8.767085 CAAATTACTAGTCGTGGTTTTAGTTCA 58.233 33.333 0.00 0.00 0.00 3.18
564 709 8.225777 CCAAATTACTAGTCGTGGTTTTAGTTC 58.774 37.037 0.00 0.00 0.00 3.01
565 710 7.933033 TCCAAATTACTAGTCGTGGTTTTAGTT 59.067 33.333 0.00 0.00 0.00 2.24
566 711 7.444299 TCCAAATTACTAGTCGTGGTTTTAGT 58.556 34.615 0.00 0.00 0.00 2.24
567 712 7.894376 TCCAAATTACTAGTCGTGGTTTTAG 57.106 36.000 0.00 0.00 0.00 1.85
568 713 7.095691 CGTTCCAAATTACTAGTCGTGGTTTTA 60.096 37.037 0.00 0.00 0.00 1.52
569 714 6.293027 CGTTCCAAATTACTAGTCGTGGTTTT 60.293 38.462 0.00 0.00 0.00 2.43
570 715 5.178067 CGTTCCAAATTACTAGTCGTGGTTT 59.822 40.000 0.00 0.00 0.00 3.27
571 716 4.687483 CGTTCCAAATTACTAGTCGTGGTT 59.313 41.667 0.00 0.00 0.00 3.67
572 717 4.240096 CGTTCCAAATTACTAGTCGTGGT 58.760 43.478 0.00 0.00 0.00 4.16
573 718 3.615496 CCGTTCCAAATTACTAGTCGTGG 59.385 47.826 0.00 3.15 0.00 4.94
574 719 4.487948 TCCGTTCCAAATTACTAGTCGTG 58.512 43.478 0.00 0.00 0.00 4.35
575 720 4.381292 CCTCCGTTCCAAATTACTAGTCGT 60.381 45.833 0.00 0.00 0.00 4.34
576 721 4.110482 CCTCCGTTCCAAATTACTAGTCG 58.890 47.826 0.00 0.00 0.00 4.18
577 722 4.161001 TCCCTCCGTTCCAAATTACTAGTC 59.839 45.833 0.00 0.00 0.00 2.59
578 723 4.098894 TCCCTCCGTTCCAAATTACTAGT 58.901 43.478 0.00 0.00 0.00 2.57
579 724 4.161754 ACTCCCTCCGTTCCAAATTACTAG 59.838 45.833 0.00 0.00 0.00 2.57
580 725 4.098894 ACTCCCTCCGTTCCAAATTACTA 58.901 43.478 0.00 0.00 0.00 1.82
581 726 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
582 727 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
583 728 4.098894 AGTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
584 729 2.910977 AGTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
585 730 2.547990 AGTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
586 731 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
587 732 1.621814 CAAGTACTCCCTCCGTTCCAA 59.378 52.381 0.00 0.00 0.00 3.53
588 733 1.263356 CAAGTACTCCCTCCGTTCCA 58.737 55.000 0.00 0.00 0.00 3.53
589 734 0.535797 CCAAGTACTCCCTCCGTTCC 59.464 60.000 0.00 0.00 0.00 3.62
590 735 0.108281 GCCAAGTACTCCCTCCGTTC 60.108 60.000 0.00 0.00 0.00 3.95
591 736 0.834687 TGCCAAGTACTCCCTCCGTT 60.835 55.000 0.00 0.00 0.00 4.44
592 737 1.229082 TGCCAAGTACTCCCTCCGT 60.229 57.895 0.00 0.00 0.00 4.69
593 738 1.517832 CTGCCAAGTACTCCCTCCG 59.482 63.158 0.00 0.00 0.00 4.63
594 739 0.910088 ACCTGCCAAGTACTCCCTCC 60.910 60.000 0.00 0.00 0.00 4.30
595 740 0.984995 AACCTGCCAAGTACTCCCTC 59.015 55.000 0.00 0.00 0.00 4.30
596 741 0.984995 GAACCTGCCAAGTACTCCCT 59.015 55.000 0.00 0.00 0.00 4.20
597 742 0.984995 AGAACCTGCCAAGTACTCCC 59.015 55.000 0.00 0.00 0.00 4.30
598 743 2.100605 CAGAACCTGCCAAGTACTCC 57.899 55.000 0.00 0.00 0.00 3.85
1100 1301 1.773391 CCCCTCCTGATGATGGCCT 60.773 63.158 3.32 0.00 0.00 5.19
1295 1677 7.420029 TCTAAATTAAGTACTCCCTCCAGTCT 58.580 38.462 0.00 0.00 0.00 3.24
1298 1680 7.125963 ACCTTCTAAATTAAGTACTCCCTCCAG 59.874 40.741 0.00 0.00 0.00 3.86
1356 1797 7.505585 AGATCCACTCCATTAACTTTTTGACAA 59.494 33.333 0.00 0.00 0.00 3.18
1432 1928 8.311836 TGAGACCTTCTAAATTAAGATGTCGTT 58.688 33.333 0.00 0.00 34.91 3.85
1433 1929 7.837863 TGAGACCTTCTAAATTAAGATGTCGT 58.162 34.615 0.00 0.00 34.91 4.34
1434 1930 7.976734 ACTGAGACCTTCTAAATTAAGATGTCG 59.023 37.037 0.00 0.00 34.91 4.35
1458 1954 7.990886 TGGATGACTTTGACTACAGTTTAAACT 59.009 33.333 15.22 15.22 40.60 2.66
1459 1955 8.149973 TGGATGACTTTGACTACAGTTTAAAC 57.850 34.615 10.47 10.47 0.00 2.01
1460 1956 8.783093 CATGGATGACTTTGACTACAGTTTAAA 58.217 33.333 0.00 0.00 0.00 1.52
1461 1957 7.936847 ACATGGATGACTTTGACTACAGTTTAA 59.063 33.333 0.00 0.00 0.00 1.52
1462 1958 7.450074 ACATGGATGACTTTGACTACAGTTTA 58.550 34.615 0.00 0.00 0.00 2.01
1463 1959 6.299141 ACATGGATGACTTTGACTACAGTTT 58.701 36.000 0.00 0.00 0.00 2.66
1464 1960 5.869579 ACATGGATGACTTTGACTACAGTT 58.130 37.500 0.00 0.00 0.00 3.16
1465 1961 5.489792 ACATGGATGACTTTGACTACAGT 57.510 39.130 0.00 0.00 0.00 3.55
1466 1962 5.391310 GCAACATGGATGACTTTGACTACAG 60.391 44.000 0.00 0.00 0.00 2.74
1467 1963 4.455533 GCAACATGGATGACTTTGACTACA 59.544 41.667 0.00 0.00 0.00 2.74
1468 1964 4.142600 GGCAACATGGATGACTTTGACTAC 60.143 45.833 0.00 0.00 0.00 2.73
1469 1965 4.009675 GGCAACATGGATGACTTTGACTA 58.990 43.478 0.00 0.00 0.00 2.59
1470 1966 2.821969 GGCAACATGGATGACTTTGACT 59.178 45.455 0.00 0.00 0.00 3.41
1471 1967 2.094545 GGGCAACATGGATGACTTTGAC 60.095 50.000 6.57 0.00 39.74 3.18
1472 1968 2.170166 GGGCAACATGGATGACTTTGA 58.830 47.619 6.57 0.00 39.74 2.69
1474 1970 1.560505 GGGGCAACATGGATGACTTT 58.439 50.000 6.57 0.00 39.74 2.66
1475 1971 0.680921 CGGGGCAACATGGATGACTT 60.681 55.000 6.57 0.00 39.74 3.01
1482 1979 2.581208 TACGTAGCGGGGCAACATGG 62.581 60.000 0.00 0.00 39.74 3.66
1534 2033 7.891183 TCAAGTGAAGAGTCTAAAGAGGAGTAT 59.109 37.037 0.00 0.00 0.00 2.12
1615 2713 8.252964 ACATTCTAGTTCCGTTAGTTGATTTC 57.747 34.615 0.00 0.00 0.00 2.17
1632 2732 7.323895 CGTCAACATAGATTCGGTACATTCTAG 59.676 40.741 0.00 0.00 0.00 2.43
1712 2933 1.139734 CCGTGTCGCTCAGCAGTAT 59.860 57.895 0.00 0.00 0.00 2.12
2396 3677 1.471684 GACGAGTATGTCCGGACAAGT 59.528 52.381 39.04 29.71 45.41 3.16
2399 3680 1.371337 CCGACGAGTATGTCCGGACA 61.371 60.000 37.79 37.79 46.44 4.02
2462 3743 1.825191 CGGGCTGATGTTCCCCATG 60.825 63.158 0.00 0.00 39.39 3.66
2648 5953 2.238144 ACATGACACTCCATCTTCCCAG 59.762 50.000 0.00 0.00 0.00 4.45
2730 6036 4.978083 ACTGAGCATGATTAAGCAAAGG 57.022 40.909 0.00 0.00 0.00 3.11
2747 6057 8.659925 AAACAAAATTGATTATGTGCAACTGA 57.340 26.923 0.00 0.00 38.04 3.41
2835 7882 1.600916 GAGCGGTTTGAGGCACCTT 60.601 57.895 0.00 0.00 31.32 3.50
2836 7883 2.032681 GAGCGGTTTGAGGCACCT 59.967 61.111 0.00 0.00 31.32 4.00
2855 7902 2.735478 CGACTGCGTGGGCGTTTA 60.735 61.111 0.00 0.00 44.10 2.01
2868 7915 1.296715 GTCAATGACCAGGCCGACT 59.703 57.895 1.10 0.00 0.00 4.18
2896 7943 3.525800 AGCTTGGGTGTGGTTAAGATT 57.474 42.857 0.00 0.00 0.00 2.40
2899 7946 2.293399 GTCAAGCTTGGGTGTGGTTAAG 59.707 50.000 25.73 0.00 0.00 1.85
2900 7947 2.303175 GTCAAGCTTGGGTGTGGTTAA 58.697 47.619 25.73 0.00 0.00 2.01
2904 7951 0.890996 GAGGTCAAGCTTGGGTGTGG 60.891 60.000 25.73 0.00 0.00 4.17
2905 7952 0.179020 TGAGGTCAAGCTTGGGTGTG 60.179 55.000 25.73 0.00 0.00 3.82
2906 7953 0.179018 GTGAGGTCAAGCTTGGGTGT 60.179 55.000 25.73 8.76 0.00 4.16
2907 7954 0.890996 GGTGAGGTCAAGCTTGGGTG 60.891 60.000 25.73 1.09 0.00 4.61
2908 7955 1.062488 AGGTGAGGTCAAGCTTGGGT 61.062 55.000 25.73 10.93 0.00 4.51
2909 7956 0.607489 CAGGTGAGGTCAAGCTTGGG 60.607 60.000 25.73 1.60 0.00 4.12
2910 7957 0.607489 CCAGGTGAGGTCAAGCTTGG 60.607 60.000 25.73 8.01 0.00 3.61
2911 7958 0.607489 CCCAGGTGAGGTCAAGCTTG 60.607 60.000 20.81 20.81 0.00 4.01
2922 7969 2.840753 GGTTTGAGGCCCCAGGTGA 61.841 63.158 0.00 0.00 0.00 4.02
2923 7970 2.283173 GGTTTGAGGCCCCAGGTG 60.283 66.667 0.00 0.00 0.00 4.00
2924 7971 3.966543 CGGTTTGAGGCCCCAGGT 61.967 66.667 0.00 0.00 0.00 4.00
2964 8011 0.401105 AGCTGGATATGAGGGGTGCT 60.401 55.000 0.00 0.00 0.00 4.40
2983 8030 7.147444 ACCACCTCATATCCGTCCTTTATTTAA 60.147 37.037 0.00 0.00 0.00 1.52
2994 8050 1.063190 TCTGGACCACCTCATATCCGT 60.063 52.381 0.00 0.00 37.04 4.69
3006 8062 0.757561 TGTCGGACAAGTCTGGACCA 60.758 55.000 8.68 0.00 36.64 4.02
3012 8068 2.338984 GGCGTGTCGGACAAGTCT 59.661 61.111 21.90 0.00 29.66 3.24
3049 8105 3.942748 TGGGTTTCGGAGTATTTACATGC 59.057 43.478 0.00 0.00 0.00 4.06
3052 8108 5.046159 ACTGATGGGTTTCGGAGTATTTACA 60.046 40.000 0.00 0.00 0.00 2.41
3060 8116 1.442769 CACACTGATGGGTTTCGGAG 58.557 55.000 0.00 0.00 0.00 4.63
3061 8117 0.036164 CCACACTGATGGGTTTCGGA 59.964 55.000 0.00 0.00 35.95 4.55
3063 8119 0.874390 CACCACACTGATGGGTTTCG 59.126 55.000 7.46 0.00 44.81 3.46
3074 8138 3.626924 GGAGACGCCCACCACACT 61.627 66.667 0.00 0.00 0.00 3.55
3077 8141 4.083862 GGAGGAGACGCCCACCAC 62.084 72.222 4.62 0.00 45.88 4.16
3162 8237 3.119637 CGTGTTTTGTTGACTGGGTTCTT 60.120 43.478 0.00 0.00 0.00 2.52
3232 8322 2.223340 GCACATACAAATGGAAGGCGAG 60.223 50.000 0.00 0.00 37.43 5.03
3279 8369 3.521126 ACATGGACTGGTAGCTGATTTCT 59.479 43.478 5.76 0.00 0.00 2.52
3328 8422 0.248012 CATGCCAGCCATTCAGCAAA 59.752 50.000 0.00 0.00 38.99 3.68
3469 8665 7.736447 GATATCCATCGTCCTTCAAAATTCT 57.264 36.000 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.