Multiple sequence alignment - TraesCS6D01G346300

Loading Multiple Alignment...

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 TraesCS6D01G346300 chr6D 100.000 4311 0 0 1 4311 445800515 445796205 0.000000e+00 7962.0
1 TraesCS6D01G346300 chr6D 87.706 911 103 6 1664 2566 445839184 445840093 0.000000e+00 1053.0
2 TraesCS6D01G346300 chr6D 87.755 882 95 9 1692 2562 445819464 445818585 0.000000e+00 1018.0
3 TraesCS6D01G346300 chr6D 85.904 830 96 13 1638 2460 445910156 445910971 0.000000e+00 865.0
4 TraesCS6D01G346300 chr6D 85.098 510 66 9 2698 3204 445810795 445810293 2.970000e-141 512.0
5 TraesCS6D01G346300 chr6D 84.431 501 68 9 2722 3214 445823659 445823161 6.480000e-133 484.0
6 TraesCS6D01G346300 chr6D 84.431 501 66 8 470 967 445825755 445825264 2.330000e-132 483.0
7 TraesCS6D01G346300 chr6D 86.779 416 55 0 1111 1526 445852807 445853222 8.440000e-127 464.0
8 TraesCS6D01G346300 chr6D 83.711 485 56 13 470 953 445812944 445812482 1.840000e-118 436.0
9 TraesCS6D01G346300 chr6D 82.424 495 74 8 1095 1584 445893229 445893715 1.850000e-113 420.0
10 TraesCS6D01G346300 chr6D 82.340 470 52 17 470 931 445852273 445852719 3.150000e-101 379.0
11 TraesCS6D01G346300 chr6D 78.759 532 65 26 3360 3882 445854906 445855398 3.240000e-81 313.0
12 TraesCS6D01G346300 chr6D 76.342 503 66 27 3721 4216 445822667 445822211 2.020000e-53 220.0
13 TraesCS6D01G346300 chr6D 76.250 480 62 29 3467 3926 445810145 445809698 1.570000e-49 207.0
14 TraesCS6D01G346300 chr6D 81.731 104 13 3 4113 4216 445846677 445846774 9.940000e-12 82.4
15 TraesCS6D01G346300 chr6B 97.368 1596 27 3 991 2571 673756955 673758550 0.000000e+00 2700.0
16 TraesCS6D01G346300 chr6B 94.872 741 26 6 92 822 673756137 673756875 0.000000e+00 1147.0
17 TraesCS6D01G346300 chr6B 87.060 881 103 8 1692 2562 673689767 673690646 0.000000e+00 985.0
18 TraesCS6D01G346300 chr6B 86.698 857 57 18 3405 4241 673759341 673760160 0.000000e+00 898.0
19 TraesCS6D01G346300 chr6B 90.065 614 37 9 3708 4310 672502959 672502359 0.000000e+00 774.0
20 TraesCS6D01G346300 chr6B 96.112 463 18 0 2721 3183 673758730 673759192 0.000000e+00 756.0
21 TraesCS6D01G346300 chr6B 90.244 451 35 5 470 920 672507958 672507517 8.040000e-162 580.0
22 TraesCS6D01G346300 chr6B 86.299 489 63 4 2717 3204 673698562 673699047 2.950000e-146 529.0
23 TraesCS6D01G346300 chr6B 86.122 490 62 6 2717 3204 672619483 672618998 1.370000e-144 523.0
24 TraesCS6D01G346300 chr6B 83.738 535 71 11 2692 3214 672634371 672633841 3.870000e-135 492.0
25 TraesCS6D01G346300 chr6B 85.775 471 58 5 455 925 672883328 672883789 1.390000e-134 490.0
26 TraesCS6D01G346300 chr6B 83.460 526 71 11 2692 3205 673677689 673678210 3.900000e-130 475.0
27 TraesCS6D01G346300 chr6B 85.065 462 60 5 470 931 672636450 672635998 3.040000e-126 462.0
28 TraesCS6D01G346300 chr6B 87.786 393 48 0 1112 1504 672883854 672884246 1.090000e-125 460.0
29 TraesCS6D01G346300 chr6B 87.073 410 50 2 1098 1504 673609342 673608933 1.090000e-125 460.0
30 TraesCS6D01G346300 chr6B 85.782 422 60 0 1111 1532 673616195 673615774 8.500000e-122 448.0
31 TraesCS6D01G346300 chr6B 82.592 517 73 9 3289 3802 673614157 673613655 1.420000e-119 440.0
32 TraesCS6D01G346300 chr6B 83.436 489 56 15 470 956 673696420 673696885 8.560000e-117 431.0
33 TraesCS6D01G346300 chr6B 82.626 495 73 8 1095 1584 672944356 672944842 3.980000e-115 425.0
34 TraesCS6D01G346300 chr6B 85.079 315 26 10 92 387 672508482 672508170 7.010000e-78 302.0
35 TraesCS6D01G346300 chr6B 83.735 332 23 12 3373 3703 672503304 672503003 7.060000e-73 285.0
36 TraesCS6D01G346300 chr6B 87.727 220 18 6 196 412 672509455 672509242 9.260000e-62 248.0
37 TraesCS6D01G346300 chr6B 74.194 651 112 37 3443 4073 672625573 672624959 2.020000e-53 220.0
38 TraesCS6D01G346300 chr6B 76.122 490 71 24 3467 3942 672618839 672618382 9.390000e-52 215.0
39 TraesCS6D01G346300 chr6B 75.252 497 80 24 3465 3943 673699196 673699667 3.400000e-46 196.0
40 TraesCS6D01G346300 chr6B 74.528 530 95 28 3443 3949 673691381 673691893 1.220000e-45 195.0
41 TraesCS6D01G346300 chr6B 75.210 476 66 27 3751 4216 672633446 672633013 1.230000e-40 178.0
42 TraesCS6D01G346300 chr6B 81.022 137 24 2 3737 3872 672896258 672896393 1.640000e-19 108.0
43 TraesCS6D01G346300 chr6B 81.022 137 24 2 3737 3872 672946926 672947061 1.640000e-19 108.0
44 TraesCS6D01G346300 chr6B 81.343 134 23 2 3740 3872 673606876 673606744 1.640000e-19 108.0
45 TraesCS6D01G346300 chr6B 83.036 112 16 3 3968 4078 672896433 672896542 9.870000e-17 99.0
46 TraesCS6D01G346300 chr6B 83.036 112 16 3 3968 4078 672947101 672947210 9.870000e-17 99.0
47 TraesCS6D01G346300 chr6B 85.714 77 6 2 4140 4216 673606493 673606422 4.620000e-10 76.8
48 TraesCS6D01G346300 chr6A 92.026 1091 56 9 2733 3805 592476230 592475153 0.000000e+00 1504.0
49 TraesCS6D01G346300 chr6A 94.928 966 39 4 1615 2571 592477383 592476419 0.000000e+00 1504.0
50 TraesCS6D01G346300 chr6A 87.070 959 103 16 1622 2566 592549691 592550642 0.000000e+00 1064.0
51 TraesCS6D01G346300 chr6A 90.201 796 54 15 228 1010 592478817 592478033 0.000000e+00 1016.0
52 TraesCS6D01G346300 chr6A 86.121 879 100 15 1704 2571 592560125 592560992 0.000000e+00 928.0
53 TraesCS6D01G346300 chr6A 85.404 507 68 5 2698 3204 592492954 592492454 4.940000e-144 521.0
54 TraesCS6D01G346300 chr6A 88.509 409 47 0 1110 1518 592477986 592477578 2.990000e-136 496.0
55 TraesCS6D01G346300 chr6A 87.019 416 54 0 1111 1526 592537149 592537564 1.810000e-128 470.0
56 TraesCS6D01G346300 chr6A 80.000 595 85 16 3293 3882 592539220 592539785 4.010000e-110 409.0
57 TraesCS6D01G346300 chr6A 89.632 299 22 6 122 413 592480178 592479882 5.260000e-99 372.0
58 TraesCS6D01G346300 chr6A 93.304 224 12 1 3840 4063 592475159 592474939 1.160000e-85 327.0
59 TraesCS6D01G346300 chr6A 90.336 238 14 4 4081 4310 592474950 592474714 1.950000e-78 303.0
60 TraesCS6D01G346300 chr6A 81.250 256 40 6 3467 3719 592492294 592492044 2.630000e-47 200.0
61 TraesCS6D01G346300 chr7B 86.158 838 108 5 1700 2533 48050339 48049506 0.000000e+00 898.0


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 TraesCS6D01G346300 chr6D 445796205 445800515 4310 True 7962.000000 7962 100.000000 1 4311 1 chr6D.!!$R1 4310
1 TraesCS6D01G346300 chr6D 445839184 445840093 909 False 1053.000000 1053 87.706000 1664 2566 1 chr6D.!!$F1 902
2 TraesCS6D01G346300 chr6D 445910156 445910971 815 False 865.000000 865 85.904000 1638 2460 1 chr6D.!!$F4 822
3 TraesCS6D01G346300 chr6D 445818585 445825755 7170 True 551.250000 1018 83.239750 470 4216 4 chr6D.!!$R3 3746
4 TraesCS6D01G346300 chr6D 445852273 445855398 3125 False 385.333333 464 82.626000 470 3882 3 chr6D.!!$F5 3412
5 TraesCS6D01G346300 chr6D 445809698 445812944 3246 True 385.000000 512 81.686333 470 3926 3 chr6D.!!$R2 3456
6 TraesCS6D01G346300 chr6B 673756137 673760160 4023 False 1375.250000 2700 93.762500 92 4241 4 chr6B.!!$F7 4149
7 TraesCS6D01G346300 chr6B 673689767 673691893 2126 False 590.000000 985 80.794000 1692 3949 2 chr6B.!!$F5 2257
8 TraesCS6D01G346300 chr6B 672502359 672503304 945 True 529.500000 774 86.900000 3373 4310 2 chr6B.!!$R2 937
9 TraesCS6D01G346300 chr6B 672883328 672884246 918 False 475.000000 490 86.780500 455 1504 2 chr6B.!!$F2 1049
10 TraesCS6D01G346300 chr6B 673677689 673678210 521 False 475.000000 475 83.460000 2692 3205 1 chr6B.!!$F1 513
11 TraesCS6D01G346300 chr6B 673613655 673616195 2540 True 444.000000 448 84.187000 1111 3802 2 chr6B.!!$R7 2691
12 TraesCS6D01G346300 chr6B 673696420 673699667 3247 False 385.333333 529 81.662333 470 3943 3 chr6B.!!$F6 3473
13 TraesCS6D01G346300 chr6B 672633013 672636450 3437 True 377.333333 492 81.337667 470 4216 3 chr6B.!!$R5 3746
14 TraesCS6D01G346300 chr6B 672507517 672509455 1938 True 376.666667 580 87.683333 92 920 3 chr6B.!!$R3 828
15 TraesCS6D01G346300 chr6B 672618382 672619483 1101 True 369.000000 523 81.122000 2717 3942 2 chr6B.!!$R4 1225
16 TraesCS6D01G346300 chr6B 672624959 672625573 614 True 220.000000 220 74.194000 3443 4073 1 chr6B.!!$R1 630
17 TraesCS6D01G346300 chr6B 673606422 673609342 2920 True 214.933333 460 84.710000 1098 4216 3 chr6B.!!$R6 3118
18 TraesCS6D01G346300 chr6B 672944356 672947210 2854 False 210.666667 425 82.228000 1095 4078 3 chr6B.!!$F4 2983
19 TraesCS6D01G346300 chr6A 592549691 592550642 951 False 1064.000000 1064 87.070000 1622 2566 1 chr6A.!!$F1 944
20 TraesCS6D01G346300 chr6A 592560125 592560992 867 False 928.000000 928 86.121000 1704 2571 1 chr6A.!!$F2 867
21 TraesCS6D01G346300 chr6A 592474714 592480178 5464 True 788.857143 1504 91.276571 122 4310 7 chr6A.!!$R1 4188
22 TraesCS6D01G346300 chr6A 592537149 592539785 2636 False 439.500000 470 83.509500 1111 3882 2 chr6A.!!$F3 2771
23 TraesCS6D01G346300 chr6A 592492044 592492954 910 True 360.500000 521 83.327000 2698 3719 2 chr6A.!!$R2 1021
24 TraesCS6D01G346300 chr7B 48049506 48050339 833 True 898.000000 898 86.158000 1700 2533 1 chr7B.!!$R1 833

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
986 2519 0.109597 CGGCATGCCAACTCTGAAAC 60.110 55.000 34.93 4.81 35.37 2.78 F
1027 2602 1.021202 CTCTGAAACCAACAACGGCA 58.979 50.000 0.00 0.00 0.00 5.69 F
1981 3859 1.142465 CTGGAGGCAGCCATGATACTT 59.858 52.381 15.80 0.00 37.30 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2215 4114 1.615424 GAAGCCACCAGGAGGGGTA 60.615 63.158 4.89 0.0 39.79 3.69 R
2885 4931 2.050836 TTGTGCATCACCGGGTCACT 62.051 55.000 6.32 0.0 32.73 3.41 R
3435 5561 0.106268 TAGAGCAGGGAGAGAGCAGG 60.106 60.000 0.00 0.0 0.00 4.85 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
24 25 7.589958 CTACTACTCTCCCACTACAATTCAT 57.410 40.000 0.00 0.00 0.00 2.57
25 26 6.472686 ACTACTCTCCCACTACAATTCATC 57.527 41.667 0.00 0.00 0.00 2.92
26 27 4.762289 ACTCTCCCACTACAATTCATCC 57.238 45.455 0.00 0.00 0.00 3.51
27 28 4.104086 ACTCTCCCACTACAATTCATCCA 58.896 43.478 0.00 0.00 0.00 3.41
28 29 4.723789 ACTCTCCCACTACAATTCATCCAT 59.276 41.667 0.00 0.00 0.00 3.41
29 30 5.039920 TCTCCCACTACAATTCATCCATG 57.960 43.478 0.00 0.00 0.00 3.66
30 31 4.474651 TCTCCCACTACAATTCATCCATGT 59.525 41.667 0.00 0.00 0.00 3.21
31 32 4.525996 TCCCACTACAATTCATCCATGTG 58.474 43.478 0.00 0.00 0.00 3.21
32 33 4.018506 TCCCACTACAATTCATCCATGTGT 60.019 41.667 0.00 0.00 0.00 3.72
33 34 4.336433 CCCACTACAATTCATCCATGTGTC 59.664 45.833 0.00 0.00 0.00 3.67
34 35 5.188434 CCACTACAATTCATCCATGTGTCT 58.812 41.667 0.00 0.00 0.00 3.41
35 36 6.348498 CCACTACAATTCATCCATGTGTCTA 58.652 40.000 0.00 0.00 0.00 2.59
36 37 6.994496 CCACTACAATTCATCCATGTGTCTAT 59.006 38.462 0.00 0.00 0.00 1.98
37 38 7.500227 CCACTACAATTCATCCATGTGTCTATT 59.500 37.037 0.00 0.00 0.00 1.73
38 39 9.546428 CACTACAATTCATCCATGTGTCTATTA 57.454 33.333 0.00 0.00 0.00 0.98
39 40 9.770097 ACTACAATTCATCCATGTGTCTATTAG 57.230 33.333 0.00 0.00 0.00 1.73
40 41 7.502120 ACAATTCATCCATGTGTCTATTAGC 57.498 36.000 0.00 0.00 0.00 3.09
41 42 7.056006 ACAATTCATCCATGTGTCTATTAGCA 58.944 34.615 0.00 0.00 0.00 3.49
42 43 7.228108 ACAATTCATCCATGTGTCTATTAGCAG 59.772 37.037 0.00 0.00 0.00 4.24
43 44 4.635223 TCATCCATGTGTCTATTAGCAGC 58.365 43.478 0.00 0.00 0.00 5.25
44 45 4.346127 TCATCCATGTGTCTATTAGCAGCT 59.654 41.667 0.00 0.00 0.00 4.24
45 46 5.539955 TCATCCATGTGTCTATTAGCAGCTA 59.460 40.000 0.00 0.00 0.00 3.32
46 47 5.201713 TCCATGTGTCTATTAGCAGCTAC 57.798 43.478 0.00 0.00 0.00 3.58
47 48 4.895889 TCCATGTGTCTATTAGCAGCTACT 59.104 41.667 0.00 0.00 0.00 2.57
48 49 5.363868 TCCATGTGTCTATTAGCAGCTACTT 59.636 40.000 0.00 0.00 0.00 2.24
49 50 5.464722 CCATGTGTCTATTAGCAGCTACTTG 59.535 44.000 0.00 0.00 0.00 3.16
50 51 5.661056 TGTGTCTATTAGCAGCTACTTGT 57.339 39.130 0.00 0.00 0.00 3.16
51 52 6.769134 TGTGTCTATTAGCAGCTACTTGTA 57.231 37.500 0.00 0.00 0.00 2.41
52 53 6.561614 TGTGTCTATTAGCAGCTACTTGTAC 58.438 40.000 0.00 3.68 0.00 2.90
53 54 6.377429 TGTGTCTATTAGCAGCTACTTGTACT 59.623 38.462 0.00 0.00 0.00 2.73
54 55 7.093902 TGTGTCTATTAGCAGCTACTTGTACTT 60.094 37.037 0.00 0.00 0.00 2.24
55 56 7.760340 GTGTCTATTAGCAGCTACTTGTACTTT 59.240 37.037 0.00 0.00 0.00 2.66
56 57 8.311836 TGTCTATTAGCAGCTACTTGTACTTTT 58.688 33.333 0.00 0.00 0.00 2.27
57 58 9.152595 GTCTATTAGCAGCTACTTGTACTTTTT 57.847 33.333 0.00 0.00 0.00 1.94
84 85 2.922234 GGCTTGGCCCAGCTCTAT 59.078 61.111 26.56 0.00 44.06 1.98
85 86 2.145865 GGCTTGGCCCAGCTCTATA 58.854 57.895 26.56 0.00 44.06 1.31
86 87 0.474184 GGCTTGGCCCAGCTCTATAA 59.526 55.000 26.56 0.00 44.06 0.98
87 88 1.074566 GGCTTGGCCCAGCTCTATAAT 59.925 52.381 26.56 0.00 44.06 1.28
88 89 2.489802 GGCTTGGCCCAGCTCTATAATT 60.490 50.000 26.56 0.00 44.06 1.40
89 90 3.225940 GCTTGGCCCAGCTCTATAATTT 58.774 45.455 21.29 0.00 36.79 1.82
90 91 3.005155 GCTTGGCCCAGCTCTATAATTTG 59.995 47.826 21.29 0.00 36.79 2.32
111 112 8.785329 ATTTGGCAGTAAAGAACAAAGAAAAA 57.215 26.923 0.00 0.00 34.91 1.94
112 113 7.589574 TTGGCAGTAAAGAACAAAGAAAAAC 57.410 32.000 0.00 0.00 0.00 2.43
113 114 6.692486 TGGCAGTAAAGAACAAAGAAAAACA 58.308 32.000 0.00 0.00 0.00 2.83
114 115 7.327214 TGGCAGTAAAGAACAAAGAAAAACAT 58.673 30.769 0.00 0.00 0.00 2.71
118 119 7.277539 CAGTAAAGAACAAAGAAAAACATGCCA 59.722 33.333 0.00 0.00 0.00 4.92
126 127 1.739338 AAAAACATGCCACGGCCGAA 61.739 50.000 35.90 14.80 41.09 4.30
188 189 6.538381 ACGATGTTTCCAAATGCTTTTCTTTT 59.462 30.769 0.00 0.00 0.00 2.27
189 190 7.065683 ACGATGTTTCCAAATGCTTTTCTTTTT 59.934 29.630 0.00 0.00 0.00 1.94
223 1564 5.235850 TGCTTTCCTAGTTTATGTGACCA 57.764 39.130 0.00 0.00 0.00 4.02
224 1565 5.626142 TGCTTTCCTAGTTTATGTGACCAA 58.374 37.500 0.00 0.00 0.00 3.67
226 1567 6.016610 TGCTTTCCTAGTTTATGTGACCAAAC 60.017 38.462 2.70 2.70 35.36 2.93
247 1588 2.555325 CAAGAGTTGATTGCTGCTTCCA 59.445 45.455 0.00 0.00 0.00 3.53
309 1664 1.306568 GAGCACCTTCCTCCCTCCT 60.307 63.158 0.00 0.00 0.00 3.69
313 1668 0.545309 CACCTTCCTCCCTCCTGACA 60.545 60.000 0.00 0.00 0.00 3.58
354 1713 4.091800 TCGTTTTATAACCACGCAGCTTAC 59.908 41.667 10.32 0.00 33.85 2.34
823 2350 3.699894 CTGCTCAGCCTCGTGGGT 61.700 66.667 1.61 1.61 46.37 4.51
831 2358 4.814294 CCTCGTGGGTGCCTACGC 62.814 72.222 19.93 0.00 39.94 4.42
855 2388 1.446366 GAACCTGCCGGGATAGGAC 59.554 63.158 20.54 11.94 37.52 3.85
964 2497 2.835431 TCCGGCTCTAGCTCCAGC 60.835 66.667 8.09 8.09 41.70 4.85
978 2511 4.465512 CAGCGTCGGCATGCCAAC 62.466 66.667 34.93 27.20 43.41 3.77
979 2512 4.704833 AGCGTCGGCATGCCAACT 62.705 61.111 34.93 22.25 43.41 3.16
980 2513 4.166011 GCGTCGGCATGCCAACTC 62.166 66.667 34.93 20.10 39.62 3.01
981 2514 2.434884 CGTCGGCATGCCAACTCT 60.435 61.111 34.93 0.00 35.37 3.24
982 2515 2.743752 CGTCGGCATGCCAACTCTG 61.744 63.158 34.93 18.32 35.37 3.35
983 2516 1.375908 GTCGGCATGCCAACTCTGA 60.376 57.895 34.93 20.36 35.37 3.27
984 2517 0.955428 GTCGGCATGCCAACTCTGAA 60.955 55.000 34.93 7.65 35.37 3.02
985 2518 0.250684 TCGGCATGCCAACTCTGAAA 60.251 50.000 34.93 6.60 35.37 2.69
986 2519 0.109597 CGGCATGCCAACTCTGAAAC 60.110 55.000 34.93 4.81 35.37 2.78
987 2520 1.251251 GGCATGCCAACTCTGAAACT 58.749 50.000 32.08 0.00 35.81 2.66
988 2521 1.068055 GGCATGCCAACTCTGAAACTG 60.068 52.381 32.08 0.00 35.81 3.16
989 2522 1.881973 GCATGCCAACTCTGAAACTGA 59.118 47.619 6.36 0.00 0.00 3.41
990 2523 2.351157 GCATGCCAACTCTGAAACTGAC 60.351 50.000 6.36 0.00 0.00 3.51
1027 2602 1.021202 CTCTGAAACCAACAACGGCA 58.979 50.000 0.00 0.00 0.00 5.69
1100 2690 1.672145 GGTCGAAGAAAAGGAGTCCCG 60.672 57.143 5.25 0.00 39.69 5.14
1293 2904 3.314357 GCCTGACGGTGTTTTTACTCTTT 59.686 43.478 0.00 0.00 0.00 2.52
1323 2934 2.992689 TTCGTGGCGTCCCTGCTA 60.993 61.111 0.00 0.00 34.52 3.49
1491 3105 2.515901 GTGGTCAGCCTGGTTGGT 59.484 61.111 10.80 0.00 38.35 3.67
1981 3859 1.142465 CTGGAGGCAGCCATGATACTT 59.858 52.381 15.80 0.00 37.30 2.24
2215 4114 2.933834 ACCTACCAAGCCGGCCTT 60.934 61.111 26.15 14.30 39.03 4.35
2651 4667 3.459828 TCCATACCCATTGAACAGGAGA 58.540 45.455 0.00 0.00 0.00 3.71
2653 4669 4.290985 TCCATACCCATTGAACAGGAGAAA 59.709 41.667 0.00 0.00 0.00 2.52
2654 4670 4.641989 CCATACCCATTGAACAGGAGAAAG 59.358 45.833 0.00 0.00 0.00 2.62
2655 4671 5.500234 CATACCCATTGAACAGGAGAAAGA 58.500 41.667 0.00 0.00 0.00 2.52
2661 4677 6.000219 CCATTGAACAGGAGAAAGAAGAAGA 59.000 40.000 0.00 0.00 0.00 2.87
2662 4678 6.488006 CCATTGAACAGGAGAAAGAAGAAGAA 59.512 38.462 0.00 0.00 0.00 2.52
2664 4680 7.938140 TTGAACAGGAGAAAGAAGAAGAAAA 57.062 32.000 0.00 0.00 0.00 2.29
2666 4682 6.543831 TGAACAGGAGAAAGAAGAAGAAAAGG 59.456 38.462 0.00 0.00 0.00 3.11
2667 4683 4.824537 ACAGGAGAAAGAAGAAGAAAAGGC 59.175 41.667 0.00 0.00 0.00 4.35
2669 4685 5.300286 CAGGAGAAAGAAGAAGAAAAGGCAA 59.700 40.000 0.00 0.00 0.00 4.52
2670 4686 5.893824 AGGAGAAAGAAGAAGAAAAGGCAAA 59.106 36.000 0.00 0.00 0.00 3.68
2672 4688 6.039829 GGAGAAAGAAGAAGAAAAGGCAAAGA 59.960 38.462 0.00 0.00 0.00 2.52
2674 4690 7.487484 AGAAAGAAGAAGAAAAGGCAAAGAAG 58.513 34.615 0.00 0.00 0.00 2.85
2675 4691 5.781210 AGAAGAAGAAAAGGCAAAGAAGG 57.219 39.130 0.00 0.00 0.00 3.46
2678 4694 5.521906 AGAAGAAAAGGCAAAGAAGGAAC 57.478 39.130 0.00 0.00 0.00 3.62
2680 4696 5.422012 AGAAGAAAAGGCAAAGAAGGAACAA 59.578 36.000 0.00 0.00 0.00 2.83
2684 4700 4.926140 AAGGCAAAGAAGGAACAAGAAG 57.074 40.909 0.00 0.00 0.00 2.85
2685 4701 4.170468 AGGCAAAGAAGGAACAAGAAGA 57.830 40.909 0.00 0.00 0.00 2.87
2687 4703 4.956075 AGGCAAAGAAGGAACAAGAAGAAA 59.044 37.500 0.00 0.00 0.00 2.52
2689 4705 6.070824 AGGCAAAGAAGGAACAAGAAGAAAAA 60.071 34.615 0.00 0.00 0.00 1.94
2691 4707 6.237942 GCAAAGAAGGAACAAGAAGAAAAAGC 60.238 38.462 0.00 0.00 0.00 3.51
2692 4708 6.530019 AAGAAGGAACAAGAAGAAAAAGCA 57.470 33.333 0.00 0.00 0.00 3.91
2693 4709 6.530019 AGAAGGAACAAGAAGAAAAAGCAA 57.470 33.333 0.00 0.00 0.00 3.91
2694 4710 6.935167 AGAAGGAACAAGAAGAAAAAGCAAA 58.065 32.000 0.00 0.00 0.00 3.68
2695 4711 7.038048 AGAAGGAACAAGAAGAAAAAGCAAAG 58.962 34.615 0.00 0.00 0.00 2.77
2696 4712 6.530019 AGGAACAAGAAGAAAAAGCAAAGA 57.470 33.333 0.00 0.00 0.00 2.52
2701 4729 8.831715 AACAAGAAGAAAAAGCAAAGAAGAAA 57.168 26.923 0.00 0.00 0.00 2.52
2715 4743 7.123397 AGCAAAGAAGAAAGAAGAAGAAAAGGT 59.877 33.333 0.00 0.00 0.00 3.50
2716 4744 8.406297 GCAAAGAAGAAAGAAGAAGAAAAGGTA 58.594 33.333 0.00 0.00 0.00 3.08
2723 4751 9.126151 AGAAAGAAGAAGAAAAGGTAAAGAAGG 57.874 33.333 0.00 0.00 0.00 3.46
2724 4752 9.121658 GAAAGAAGAAGAAAAGGTAAAGAAGGA 57.878 33.333 0.00 0.00 0.00 3.36
2725 4753 9.475620 AAAGAAGAAGAAAAGGTAAAGAAGGAA 57.524 29.630 0.00 0.00 0.00 3.36
2726 4754 8.684386 AGAAGAAGAAAAGGTAAAGAAGGAAG 57.316 34.615 0.00 0.00 0.00 3.46
2727 4755 8.495260 AGAAGAAGAAAAGGTAAAGAAGGAAGA 58.505 33.333 0.00 0.00 0.00 2.87
2728 4756 9.121658 GAAGAAGAAAAGGTAAAGAAGGAAGAA 57.878 33.333 0.00 0.00 0.00 2.52
2729 4757 8.684386 AGAAGAAAAGGTAAAGAAGGAAGAAG 57.316 34.615 0.00 0.00 0.00 2.85
2730 4758 8.495260 AGAAGAAAAGGTAAAGAAGGAAGAAGA 58.505 33.333 0.00 0.00 0.00 2.87
2731 4759 9.121658 GAAGAAAAGGTAAAGAAGGAAGAAGAA 57.878 33.333 0.00 0.00 0.00 2.52
2885 4931 3.443045 GGAACGGGTACGAGGCGA 61.443 66.667 0.00 0.00 44.60 5.54
2929 4975 2.530916 AGGCCCCGGTACCTTGTT 60.531 61.111 10.90 0.00 29.74 2.83
3219 5324 3.396260 TTGTCAAGGTAAGAAGACCCG 57.604 47.619 0.00 0.00 40.74 5.28
3435 5561 2.433970 AGCTTAGCTCTGTCCAATCTCC 59.566 50.000 0.00 0.00 30.62 3.71
3436 5562 2.484594 GCTTAGCTCTGTCCAATCTCCC 60.485 54.545 0.00 0.00 0.00 4.30
3437 5563 2.856760 TAGCTCTGTCCAATCTCCCT 57.143 50.000 0.00 0.00 0.00 4.20
3438 5564 1.202330 AGCTCTGTCCAATCTCCCTG 58.798 55.000 0.00 0.00 0.00 4.45
3439 5565 0.463474 GCTCTGTCCAATCTCCCTGC 60.463 60.000 0.00 0.00 0.00 4.85
3440 5566 1.202330 CTCTGTCCAATCTCCCTGCT 58.798 55.000 0.00 0.00 0.00 4.24
3441 5567 1.138661 CTCTGTCCAATCTCCCTGCTC 59.861 57.143 0.00 0.00 0.00 4.26
3500 5668 6.127026 GGTTCCTGGTCTAGTTGATGTAATCT 60.127 42.308 0.00 0.00 45.81 2.40
3785 6258 5.766150 AGTAATCACTGATCGAGAGGAAG 57.234 43.478 0.00 0.00 32.25 3.46
3824 6298 4.451150 GACCATCGGACGCCAGCA 62.451 66.667 0.00 0.00 0.00 4.41
3825 6299 3.950794 GACCATCGGACGCCAGCAA 62.951 63.158 0.00 0.00 0.00 3.91
3827 6301 2.434884 CATCGGACGCCAGCAACT 60.435 61.111 0.00 0.00 0.00 3.16
4010 6501 0.248702 GAGAGGATTCCACGAGCGTC 60.249 60.000 5.29 0.00 0.00 5.19
4120 6643 2.683465 GCAGGAGGGAGAATGGCCA 61.683 63.158 8.56 8.56 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.255660 GGATGAATTGTAGTGGGAGAGTAGTAG 60.256 44.444 0.00 0.00 0.00 2.57
1 2 6.550108 GGATGAATTGTAGTGGGAGAGTAGTA 59.450 42.308 0.00 0.00 0.00 1.82
2 3 5.364157 GGATGAATTGTAGTGGGAGAGTAGT 59.636 44.000 0.00 0.00 0.00 2.73
3 4 5.363868 TGGATGAATTGTAGTGGGAGAGTAG 59.636 44.000 0.00 0.00 0.00 2.57
4 5 5.277250 TGGATGAATTGTAGTGGGAGAGTA 58.723 41.667 0.00 0.00 0.00 2.59
5 6 4.104086 TGGATGAATTGTAGTGGGAGAGT 58.896 43.478 0.00 0.00 0.00 3.24
6 7 4.760530 TGGATGAATTGTAGTGGGAGAG 57.239 45.455 0.00 0.00 0.00 3.20
7 8 4.474651 ACATGGATGAATTGTAGTGGGAGA 59.525 41.667 0.00 0.00 0.00 3.71
9 10 4.018506 ACACATGGATGAATTGTAGTGGGA 60.019 41.667 0.00 0.00 0.00 4.37
10 11 4.272489 ACACATGGATGAATTGTAGTGGG 58.728 43.478 0.00 0.00 0.00 4.61
11 12 5.188434 AGACACATGGATGAATTGTAGTGG 58.812 41.667 0.00 0.00 0.00 4.00
12 13 8.442632 AATAGACACATGGATGAATTGTAGTG 57.557 34.615 0.00 0.00 0.00 2.74
13 14 9.770097 CTAATAGACACATGGATGAATTGTAGT 57.230 33.333 0.00 0.00 0.00 2.73
14 15 8.715998 GCTAATAGACACATGGATGAATTGTAG 58.284 37.037 0.00 0.00 0.00 2.74
15 16 8.210265 TGCTAATAGACACATGGATGAATTGTA 58.790 33.333 0.00 0.00 0.00 2.41
16 17 7.056006 TGCTAATAGACACATGGATGAATTGT 58.944 34.615 0.00 0.00 0.00 2.71
17 18 7.500720 TGCTAATAGACACATGGATGAATTG 57.499 36.000 0.00 0.00 0.00 2.32
18 19 6.206243 GCTGCTAATAGACACATGGATGAATT 59.794 38.462 0.00 0.00 0.00 2.17
19 20 5.704515 GCTGCTAATAGACACATGGATGAAT 59.295 40.000 0.00 0.00 0.00 2.57
20 21 5.059161 GCTGCTAATAGACACATGGATGAA 58.941 41.667 0.00 0.00 0.00 2.57
21 22 4.346127 AGCTGCTAATAGACACATGGATGA 59.654 41.667 0.00 0.00 0.00 2.92
22 23 4.639334 AGCTGCTAATAGACACATGGATG 58.361 43.478 0.00 0.00 0.00 3.51
23 24 4.970860 AGCTGCTAATAGACACATGGAT 57.029 40.909 0.00 0.00 0.00 3.41
24 25 4.895889 AGTAGCTGCTAATAGACACATGGA 59.104 41.667 11.57 0.00 0.00 3.41
25 26 5.207110 AGTAGCTGCTAATAGACACATGG 57.793 43.478 11.57 0.00 0.00 3.66
26 27 6.045318 ACAAGTAGCTGCTAATAGACACATG 58.955 40.000 11.57 6.10 0.00 3.21
27 28 6.227298 ACAAGTAGCTGCTAATAGACACAT 57.773 37.500 11.57 0.00 0.00 3.21
28 29 5.661056 ACAAGTAGCTGCTAATAGACACA 57.339 39.130 11.57 0.00 0.00 3.72
29 30 6.797454 AGTACAAGTAGCTGCTAATAGACAC 58.203 40.000 11.57 6.91 0.00 3.67
30 31 7.406031 AAGTACAAGTAGCTGCTAATAGACA 57.594 36.000 11.57 0.00 0.00 3.41
31 32 8.705048 AAAAGTACAAGTAGCTGCTAATAGAC 57.295 34.615 11.57 9.03 0.00 2.59
68 69 2.575805 ATTATAGAGCTGGGCCAAGC 57.424 50.000 25.93 25.93 43.88 4.01
69 70 3.571401 CCAAATTATAGAGCTGGGCCAAG 59.429 47.826 8.04 1.30 0.00 3.61
70 71 3.565307 CCAAATTATAGAGCTGGGCCAA 58.435 45.455 8.04 0.00 0.00 4.52
71 72 2.752829 GCCAAATTATAGAGCTGGGCCA 60.753 50.000 5.85 5.85 34.17 5.36
72 73 1.889170 GCCAAATTATAGAGCTGGGCC 59.111 52.381 0.00 0.00 34.17 5.80
73 74 2.555757 CTGCCAAATTATAGAGCTGGGC 59.444 50.000 0.00 0.00 40.51 5.36
74 75 3.825328 ACTGCCAAATTATAGAGCTGGG 58.175 45.455 0.00 0.00 0.00 4.45
75 76 6.767902 TCTTTACTGCCAAATTATAGAGCTGG 59.232 38.462 0.00 0.00 0.00 4.85
76 77 7.792374 TCTTTACTGCCAAATTATAGAGCTG 57.208 36.000 0.00 0.00 0.00 4.24
77 78 7.829211 TGTTCTTTACTGCCAAATTATAGAGCT 59.171 33.333 0.00 0.00 0.00 4.09
78 79 7.985476 TGTTCTTTACTGCCAAATTATAGAGC 58.015 34.615 0.00 0.00 0.00 4.09
84 85 9.877178 TTTTCTTTGTTCTTTACTGCCAAATTA 57.123 25.926 0.00 0.00 0.00 1.40
85 86 8.785329 TTTTCTTTGTTCTTTACTGCCAAATT 57.215 26.923 0.00 0.00 0.00 1.82
86 87 8.664798 GTTTTTCTTTGTTCTTTACTGCCAAAT 58.335 29.630 0.00 0.00 0.00 2.32
87 88 7.657761 TGTTTTTCTTTGTTCTTTACTGCCAAA 59.342 29.630 0.00 0.00 0.00 3.28
88 89 7.155328 TGTTTTTCTTTGTTCTTTACTGCCAA 58.845 30.769 0.00 0.00 0.00 4.52
89 90 6.692486 TGTTTTTCTTTGTTCTTTACTGCCA 58.308 32.000 0.00 0.00 0.00 4.92
90 91 7.621102 CATGTTTTTCTTTGTTCTTTACTGCC 58.379 34.615 0.00 0.00 0.00 4.85
111 112 2.196925 TTTTTCGGCCGTGGCATGT 61.197 52.632 27.15 0.00 44.11 3.21
112 113 2.647875 TTTTTCGGCCGTGGCATG 59.352 55.556 27.15 0.00 44.11 4.06
140 141 1.347378 GGGGCACACATTTTTGGATGT 59.653 47.619 0.00 0.00 40.76 3.06
206 1547 6.833041 TCTTGTTTGGTCACATAAACTAGGA 58.167 36.000 13.99 6.07 38.91 2.94
223 1564 4.500375 GGAAGCAGCAATCAACTCTTGTTT 60.500 41.667 0.00 0.00 33.52 2.83
224 1565 3.005155 GGAAGCAGCAATCAACTCTTGTT 59.995 43.478 0.00 0.00 36.75 2.83
226 1567 2.555325 TGGAAGCAGCAATCAACTCTTG 59.445 45.455 0.00 0.00 0.00 3.02
247 1588 1.473278 GGAAGTCAGTCGTCGGAGAAT 59.527 52.381 0.00 0.00 39.69 2.40
354 1713 2.170187 AGCCATAGAAGAGTCAGCAAGG 59.830 50.000 0.00 0.00 0.00 3.61
855 2388 0.866061 CGCGGTGTAGACGATGGAAG 60.866 60.000 0.00 0.00 0.00 3.46
966 2499 0.250684 TTTCAGAGTTGGCATGCCGA 60.251 50.000 30.87 27.42 39.42 5.54
967 2500 0.109597 GTTTCAGAGTTGGCATGCCG 60.110 55.000 30.87 16.00 39.42 5.69
968 2501 1.068055 CAGTTTCAGAGTTGGCATGCC 60.068 52.381 30.54 30.54 0.00 4.40
969 2502 1.881973 TCAGTTTCAGAGTTGGCATGC 59.118 47.619 9.90 9.90 0.00 4.06
970 2503 2.880268 TGTCAGTTTCAGAGTTGGCATG 59.120 45.455 0.00 0.00 0.00 4.06
971 2504 3.213206 TGTCAGTTTCAGAGTTGGCAT 57.787 42.857 0.00 0.00 0.00 4.40
972 2505 2.682856 GTTGTCAGTTTCAGAGTTGGCA 59.317 45.455 0.00 0.00 0.00 4.92
973 2506 2.286418 CGTTGTCAGTTTCAGAGTTGGC 60.286 50.000 0.00 0.00 0.00 4.52
974 2507 2.287915 CCGTTGTCAGTTTCAGAGTTGG 59.712 50.000 0.00 0.00 0.00 3.77
975 2508 2.286418 GCCGTTGTCAGTTTCAGAGTTG 60.286 50.000 0.00 0.00 0.00 3.16
976 2509 1.940613 GCCGTTGTCAGTTTCAGAGTT 59.059 47.619 0.00 0.00 0.00 3.01
977 2510 1.583054 GCCGTTGTCAGTTTCAGAGT 58.417 50.000 0.00 0.00 0.00 3.24
978 2511 0.508641 CGCCGTTGTCAGTTTCAGAG 59.491 55.000 0.00 0.00 0.00 3.35
979 2512 0.878523 CCGCCGTTGTCAGTTTCAGA 60.879 55.000 0.00 0.00 0.00 3.27
980 2513 1.569493 CCGCCGTTGTCAGTTTCAG 59.431 57.895 0.00 0.00 0.00 3.02
981 2514 2.539338 GCCGCCGTTGTCAGTTTCA 61.539 57.895 0.00 0.00 0.00 2.69
982 2515 1.852067 ATGCCGCCGTTGTCAGTTTC 61.852 55.000 0.00 0.00 0.00 2.78
983 2516 1.896660 ATGCCGCCGTTGTCAGTTT 60.897 52.632 0.00 0.00 0.00 2.66
984 2517 2.281484 ATGCCGCCGTTGTCAGTT 60.281 55.556 0.00 0.00 0.00 3.16
985 2518 3.049674 CATGCCGCCGTTGTCAGT 61.050 61.111 0.00 0.00 0.00 3.41
986 2519 4.465512 GCATGCCGCCGTTGTCAG 62.466 66.667 6.36 0.00 32.94 3.51
1037 2612 3.269347 CGGGAATTACGCTGGCGG 61.269 66.667 18.99 0.00 44.69 6.13
1046 2621 2.188469 GGTCAGCGGCGGGAATTA 59.812 61.111 9.78 0.00 0.00 1.40
1057 2632 0.460987 CGGTCAGATTCAGGGTCAGC 60.461 60.000 0.00 0.00 0.00 4.26
1100 2690 1.807142 CTTCGGTTTTCAGCCTCTTCC 59.193 52.381 0.00 0.00 0.00 3.46
1323 2934 2.124983 ATGAGCAGCACGGCGATT 60.125 55.556 16.62 0.00 39.27 3.34
1491 3105 1.561076 AGGATGTATGCCAGAACAGCA 59.439 47.619 1.42 0.00 45.94 4.41
2025 3903 4.260866 CGTAAATGGAGGTGTTCACGTTTT 60.261 41.667 0.00 0.85 0.00 2.43
2215 4114 1.615424 GAAGCCACCAGGAGGGGTA 60.615 63.158 4.89 0.00 39.79 3.69
2589 4605 5.787380 AGATGCCATTTTTGTTTTCTCCTC 58.213 37.500 0.00 0.00 0.00 3.71
2592 4608 4.622740 CCGAGATGCCATTTTTGTTTTCTC 59.377 41.667 0.00 0.00 0.00 2.87
2651 4667 6.381133 TCCTTCTTTGCCTTTTCTTCTTCTTT 59.619 34.615 0.00 0.00 0.00 2.52
2653 4669 5.449553 TCCTTCTTTGCCTTTTCTTCTTCT 58.550 37.500 0.00 0.00 0.00 2.85
2654 4670 5.774498 TCCTTCTTTGCCTTTTCTTCTTC 57.226 39.130 0.00 0.00 0.00 2.87
2655 4671 5.422012 TGTTCCTTCTTTGCCTTTTCTTCTT 59.578 36.000 0.00 0.00 0.00 2.52
2661 4677 5.422012 TCTTCTTGTTCCTTCTTTGCCTTTT 59.578 36.000 0.00 0.00 0.00 2.27
2662 4678 4.956075 TCTTCTTGTTCCTTCTTTGCCTTT 59.044 37.500 0.00 0.00 0.00 3.11
2664 4680 4.170468 TCTTCTTGTTCCTTCTTTGCCT 57.830 40.909 0.00 0.00 0.00 4.75
2666 4682 6.237942 GCTTTTTCTTCTTGTTCCTTCTTTGC 60.238 38.462 0.00 0.00 0.00 3.68
2667 4683 6.813152 TGCTTTTTCTTCTTGTTCCTTCTTTG 59.187 34.615 0.00 0.00 0.00 2.77
2669 4685 6.530019 TGCTTTTTCTTCTTGTTCCTTCTT 57.470 33.333 0.00 0.00 0.00 2.52
2670 4686 6.530019 TTGCTTTTTCTTCTTGTTCCTTCT 57.470 33.333 0.00 0.00 0.00 2.85
2672 4688 6.935167 TCTTTGCTTTTTCTTCTTGTTCCTT 58.065 32.000 0.00 0.00 0.00 3.36
2674 4690 7.035612 TCTTCTTTGCTTTTTCTTCTTGTTCC 58.964 34.615 0.00 0.00 0.00 3.62
2675 4691 8.466086 TTCTTCTTTGCTTTTTCTTCTTGTTC 57.534 30.769 0.00 0.00 0.00 3.18
2678 4694 8.693542 TCTTTCTTCTTTGCTTTTTCTTCTTG 57.306 30.769 0.00 0.00 0.00 3.02
2680 4696 8.743714 TCTTCTTTCTTCTTTGCTTTTTCTTCT 58.256 29.630 0.00 0.00 0.00 2.85
2684 4700 8.917415 TCTTCTTCTTTCTTCTTTGCTTTTTC 57.083 30.769 0.00 0.00 0.00 2.29
2685 4701 9.710900 TTTCTTCTTCTTTCTTCTTTGCTTTTT 57.289 25.926 0.00 0.00 0.00 1.94
2687 4703 9.363763 CTTTTCTTCTTCTTTCTTCTTTGCTTT 57.636 29.630 0.00 0.00 0.00 3.51
2689 4705 7.123397 ACCTTTTCTTCTTCTTTCTTCTTTGCT 59.877 33.333 0.00 0.00 0.00 3.91
2694 4710 9.907229 TCTTTACCTTTTCTTCTTCTTTCTTCT 57.093 29.630 0.00 0.00 0.00 2.85
2701 4729 8.495260 TCTTCCTTCTTTACCTTTTCTTCTTCT 58.505 33.333 0.00 0.00 0.00 2.85
2716 4744 9.467796 TTTTCTTCTTCTTCTTCTTCCTTCTTT 57.532 29.630 0.00 0.00 0.00 2.52
2723 4751 8.917415 TTTGCTTTTTCTTCTTCTTCTTCTTC 57.083 30.769 0.00 0.00 0.00 2.87
2724 4752 8.743714 TCTTTGCTTTTTCTTCTTCTTCTTCTT 58.256 29.630 0.00 0.00 0.00 2.52
2725 4753 8.286191 TCTTTGCTTTTTCTTCTTCTTCTTCT 57.714 30.769 0.00 0.00 0.00 2.85
2726 4754 8.917415 TTCTTTGCTTTTTCTTCTTCTTCTTC 57.083 30.769 0.00 0.00 0.00 2.87
2727 4755 7.978414 CCTTCTTTGCTTTTTCTTCTTCTTCTT 59.022 33.333 0.00 0.00 0.00 2.52
2728 4756 7.340487 TCCTTCTTTGCTTTTTCTTCTTCTTCT 59.660 33.333 0.00 0.00 0.00 2.85
2729 4757 7.484140 TCCTTCTTTGCTTTTTCTTCTTCTTC 58.516 34.615 0.00 0.00 0.00 2.87
2730 4758 7.410120 TCCTTCTTTGCTTTTTCTTCTTCTT 57.590 32.000 0.00 0.00 0.00 2.52
2731 4759 7.410120 TTCCTTCTTTGCTTTTTCTTCTTCT 57.590 32.000 0.00 0.00 0.00 2.85
2885 4931 2.050836 TTGTGCATCACCGGGTCACT 62.051 55.000 6.32 0.00 32.73 3.41
2929 4975 5.473504 GGAAATGGAGTTGCTGTAGAAGAAA 59.526 40.000 0.00 0.00 0.00 2.52
3259 5373 0.674895 GATTCTGGTTGCCGCTCTGT 60.675 55.000 0.00 0.00 0.00 3.41
3260 5374 1.372087 GGATTCTGGTTGCCGCTCTG 61.372 60.000 0.00 0.00 0.00 3.35
3266 5380 1.034292 GCTGGAGGATTCTGGTTGCC 61.034 60.000 0.00 0.00 0.00 4.52
3435 5561 0.106268 TAGAGCAGGGAGAGAGCAGG 60.106 60.000 0.00 0.00 0.00 4.85
3436 5562 1.321474 CTAGAGCAGGGAGAGAGCAG 58.679 60.000 0.00 0.00 0.00 4.24
3437 5563 0.754957 GCTAGAGCAGGGAGAGAGCA 60.755 60.000 0.00 0.00 41.59 4.26
3438 5564 0.468029 AGCTAGAGCAGGGAGAGAGC 60.468 60.000 4.01 0.00 45.16 4.09
3439 5565 2.783135 CTAGCTAGAGCAGGGAGAGAG 58.217 57.143 16.15 0.00 45.16 3.20
3440 5566 1.202879 GCTAGCTAGAGCAGGGAGAGA 60.203 57.143 25.15 0.00 45.16 3.10
3441 5567 1.202927 AGCTAGCTAGAGCAGGGAGAG 60.203 57.143 25.15 0.00 45.43 3.20
3500 5668 3.581265 TGGGATGCAGCTTATTCATCA 57.419 42.857 0.22 0.00 38.58 3.07
3678 5884 4.336433 ACAAAATGCTCAGTATCCGGAATG 59.664 41.667 9.01 8.41 0.00 2.67
3785 6258 2.469516 CCCCGCGTTCAAGGTATGC 61.470 63.158 4.92 0.00 0.00 3.14
3824 6298 2.427245 CCGCTGGGGAGATCGAGTT 61.427 63.158 4.46 0.00 38.47 3.01
3825 6299 2.835431 CCGCTGGGGAGATCGAGT 60.835 66.667 4.46 0.00 38.47 4.18
3945 6430 2.233654 GCCAGCGCACGTCTCTATG 61.234 63.158 11.47 0.00 34.03 2.23
4063 6571 3.449737 CGACCTCTTAAACCACCTGGATA 59.550 47.826 0.00 0.00 38.94 2.59
4174 6723 2.482333 CCTTCTCTCCGGCGATCGT 61.482 63.158 17.81 0.00 37.11 3.73
4281 6838 1.234821 TTGTTGCTCTAGCCGGTTTG 58.765 50.000 1.90 0.00 41.18 2.93


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

AutoCloner maintained by Alex Coulton.