Multiple sequence alignment - TraesCS1D01G024500

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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 TraesCS1D01G024500 chr1D 100.000 2987 0 0 1 2987 10296497 10293511 0.000000e+00 5517.0
1 TraesCS1D01G024500 chr1D 90.323 93 9 0 2654 2746 404263566 404263474 4.040000e-24 122.0
2 TraesCS1D01G024500 chr1A 98.229 1186 18 2 895 2079 12006757 12005574 0.000000e+00 2071.0
3 TraesCS1D01G024500 chr1A 95.316 427 18 2 1882 2307 12000992 12000567 0.000000e+00 676.0
4 TraesCS1D01G024500 chr1A 89.264 326 23 6 1 325 12008300 12007986 6.000000e-107 398.0
5 TraesCS1D01G024500 chr1A 94.672 244 13 0 2744 2987 11991447 11991204 2.170000e-101 379.0
6 TraesCS1D01G024500 chr1A 95.781 237 5 2 549 783 12007464 12007231 7.820000e-101 377.0
7 TraesCS1D01G024500 chr1A 94.286 175 7 1 323 494 12007637 12007463 6.350000e-67 265.0
8 TraesCS1D01G024500 chr1A 96.296 135 2 2 761 895 12006994 12006863 5.010000e-53 219.0
9 TraesCS1D01G024500 chr2D 83.390 584 87 8 2083 2662 463240571 463239994 1.580000e-147 532.0
10 TraesCS1D01G024500 chr2D 82.712 590 83 9 2076 2662 423335425 423335998 9.550000e-140 507.0
11 TraesCS1D01G024500 chr2D 86.598 388 44 5 2278 2662 99960091 99960473 3.560000e-114 422.0
12 TraesCS1D01G024500 chr2D 78.082 584 111 13 2084 2662 344962052 344962623 1.320000e-93 353.0
13 TraesCS1D01G024500 chr2D 87.264 212 21 6 2741 2949 423335993 423336201 1.380000e-58 237.0
14 TraesCS1D01G024500 chr2D 84.000 250 35 5 2741 2987 284312896 284312649 4.980000e-58 235.0
15 TraesCS1D01G024500 chr2D 84.834 211 28 4 2741 2949 239846257 239846049 3.020000e-50 209.0
16 TraesCS1D01G024500 chr2D 82.203 236 38 4 2744 2976 223966991 223966757 1.820000e-47 200.0
17 TraesCS1D01G024500 chr2D 81.600 250 36 9 2744 2987 231735986 231736231 6.530000e-47 198.0
18 TraesCS1D01G024500 chr3D 82.877 584 86 11 2083 2662 258357395 258356822 2.050000e-141 512.0
19 TraesCS1D01G024500 chr3D 82.236 501 77 9 2166 2662 257458107 257457615 3.560000e-114 422.0
20 TraesCS1D01G024500 chr3D 90.217 92 9 0 2659 2750 12525789 12525698 1.450000e-23 121.0
21 TraesCS1D01G024500 chr3D 94.118 34 2 0 499 532 8265531 8265564 5.000000e-03 52.8
22 TraesCS1D01G024500 chr5D 81.399 586 93 13 2082 2662 342600807 342601381 5.830000e-127 464.0
23 TraesCS1D01G024500 chr5D 83.936 249 37 3 2741 2987 342601376 342601623 4.980000e-58 235.0
24 TraesCS1D01G024500 chr4D 80.623 578 100 10 2085 2658 253130106 253129537 1.270000e-118 436.0
25 TraesCS1D01G024500 chr4D 86.640 247 31 2 2740 2985 410796236 410796481 3.790000e-69 272.0
26 TraesCS1D01G024500 chr4D 93.023 86 6 0 2661 2746 484679154 484679239 3.130000e-25 126.0
27 TraesCS1D01G024500 chr6B 82.004 489 71 12 2171 2653 367253774 367254251 1.670000e-107 399.0
28 TraesCS1D01G024500 chr6D 80.321 498 85 10 2171 2662 344695078 344695568 6.080000e-97 364.0
29 TraesCS1D01G024500 chr7A 82.258 248 38 6 2741 2985 213793488 213793732 3.020000e-50 209.0
30 TraesCS1D01G024500 chr7A 93.182 88 6 0 2660 2747 67676747 67676660 2.420000e-26 130.0
31 TraesCS1D01G024500 chr4A 93.182 88 6 0 2658 2745 743759385 743759298 2.420000e-26 130.0
32 TraesCS1D01G024500 chr2A 92.391 92 6 1 2658 2748 569281159 569281068 2.420000e-26 130.0
33 TraesCS1D01G024500 chr2A 94.118 85 5 0 2661 2745 709027584 709027668 2.420000e-26 130.0
34 TraesCS1D01G024500 chr7B 92.222 90 7 0 2656 2745 700274408 700274497 8.690000e-26 128.0
35 TraesCS1D01G024500 chr7B 94.231 52 3 0 499 550 388175851 388175902 2.470000e-11 80.5
36 TraesCS1D01G024500 chr2B 92.222 90 7 0 2659 2748 764060870 764060781 8.690000e-26 128.0


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 TraesCS1D01G024500 chr1D 10293511 10296497 2986 True 5517.0 5517 100.0000 1 2987 1 chr1D.!!$R1 2986
1 TraesCS1D01G024500 chr1A 12005574 12008300 2726 True 666.0 2071 94.7712 1 2079 5 chr1A.!!$R3 2078
2 TraesCS1D01G024500 chr2D 463239994 463240571 577 True 532.0 532 83.3900 2083 2662 1 chr2D.!!$R4 579
3 TraesCS1D01G024500 chr2D 423335425 423336201 776 False 372.0 507 84.9880 2076 2949 2 chr2D.!!$F4 873
4 TraesCS1D01G024500 chr2D 344962052 344962623 571 False 353.0 353 78.0820 2084 2662 1 chr2D.!!$F3 578
5 TraesCS1D01G024500 chr3D 258356822 258357395 573 True 512.0 512 82.8770 2083 2662 1 chr3D.!!$R3 579
6 TraesCS1D01G024500 chr5D 342600807 342601623 816 False 349.5 464 82.6675 2082 2987 2 chr5D.!!$F1 905
7 TraesCS1D01G024500 chr4D 253129537 253130106 569 True 436.0 436 80.6230 2085 2658 1 chr4D.!!$R1 573

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
99 100 0.10412 CACCGGTATGGATTGAGCGA 59.896 55.0 6.87 0.0 42.0 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2072 2792 1.007734 GCACCGACACGTCTCAAGA 60.008 57.895 0.0 0.0 0.0 3.02 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
27 28 9.877178 TGTAATTCCTTTGCAAAAGTTTTTAGA 57.123 25.926 13.84 4.29 0.00 2.10
32 33 9.665719 TTCCTTTGCAAAAGTTTTTAGAAATCT 57.334 25.926 13.84 0.00 0.00 2.40
34 35 9.706846 CCTTTGCAAAAGTTTTTAGAAATCTTG 57.293 29.630 13.84 0.00 0.00 3.02
49 50 2.741759 TCTTGAATAGTGTCAGCGCA 57.258 45.000 11.47 0.00 0.00 6.09
50 51 3.038788 TCTTGAATAGTGTCAGCGCAA 57.961 42.857 11.47 0.00 0.00 4.85
52 53 3.812609 TCTTGAATAGTGTCAGCGCAAAA 59.187 39.130 11.47 0.00 0.00 2.44
53 54 4.274705 TCTTGAATAGTGTCAGCGCAAAAA 59.725 37.500 11.47 0.00 0.00 1.94
99 100 0.104120 CACCGGTATGGATTGAGCGA 59.896 55.000 6.87 0.00 42.00 4.93
134 135 4.790790 AGAGTTTCTTTCCCACCCATAGAT 59.209 41.667 0.00 0.00 0.00 1.98
137 138 7.036863 AGAGTTTCTTTCCCACCCATAGATAAA 60.037 37.037 0.00 0.00 0.00 1.40
140 141 8.758829 GTTTCTTTCCCACCCATAGATAAATTT 58.241 33.333 0.00 0.00 0.00 1.82
141 142 7.896383 TCTTTCCCACCCATAGATAAATTTG 57.104 36.000 0.00 0.00 0.00 2.32
142 143 7.418378 TCTTTCCCACCCATAGATAAATTTGT 58.582 34.615 0.00 0.00 0.00 2.83
185 186 5.014228 ACCCTTGCTAGGACTATTTCAAACT 59.986 40.000 16.43 0.00 45.05 2.66
186 187 6.214819 ACCCTTGCTAGGACTATTTCAAACTA 59.785 38.462 16.43 0.00 45.05 2.24
187 188 6.763610 CCCTTGCTAGGACTATTTCAAACTAG 59.236 42.308 16.43 0.00 45.05 2.57
234 235 0.955428 TCAGTTCCGACCATTGCAGC 60.955 55.000 0.00 0.00 0.00 5.25
240 241 1.718757 CCGACCATTGCAGCTAAGCC 61.719 60.000 0.00 0.00 0.00 4.35
242 243 1.176527 GACCATTGCAGCTAAGCCAA 58.823 50.000 0.00 0.00 0.00 4.52
248 249 3.348647 TTGCAGCTAAGCCAAGATACA 57.651 42.857 0.00 0.00 0.00 2.29
264 265 8.897752 GCCAAGATACATATCATTAAGGGATTC 58.102 37.037 1.88 0.00 35.17 2.52
334 686 2.369394 CCCCAACATTTAGAGTCAGCC 58.631 52.381 0.00 0.00 0.00 4.85
401 753 1.438814 GGCCAATCCATTCTTGCCG 59.561 57.895 0.00 0.00 34.01 5.69
412 764 1.246649 TTCTTGCCGCATCAACACAT 58.753 45.000 0.00 0.00 0.00 3.21
447 802 1.545428 GCTTCAATGACACTCCACCCA 60.545 52.381 0.00 0.00 0.00 4.51
458 813 1.965754 CTCCACCCACTCTGCTAGGC 61.966 65.000 0.00 0.00 0.00 3.93
474 829 0.107456 AGGCCTAGCATCATGAACGG 59.893 55.000 1.29 0.00 0.00 4.44
492 847 4.336889 ACGGACGAATCCAATGTGATAT 57.663 40.909 0.00 0.00 46.67 1.63
493 848 5.462530 ACGGACGAATCCAATGTGATATA 57.537 39.130 0.00 0.00 46.67 0.86
494 849 5.227908 ACGGACGAATCCAATGTGATATAC 58.772 41.667 0.00 0.00 46.67 1.47
495 850 5.010719 ACGGACGAATCCAATGTGATATACT 59.989 40.000 0.00 0.00 46.67 2.12
496 851 5.573282 CGGACGAATCCAATGTGATATACTC 59.427 44.000 0.00 0.00 46.67 2.59
497 852 6.455647 GGACGAATCCAATGTGATATACTCA 58.544 40.000 0.00 0.00 45.47 3.41
498 853 7.099764 GGACGAATCCAATGTGATATACTCAT 58.900 38.462 0.00 0.00 45.47 2.90
499 854 7.276658 GGACGAATCCAATGTGATATACTCATC 59.723 40.741 0.00 0.00 45.47 2.92
500 855 7.099764 ACGAATCCAATGTGATATACTCATCC 58.900 38.462 0.00 0.00 35.97 3.51
501 856 6.536582 CGAATCCAATGTGATATACTCATCCC 59.463 42.308 0.00 0.00 35.97 3.85
502 857 6.957853 ATCCAATGTGATATACTCATCCCA 57.042 37.500 0.00 0.00 35.97 4.37
503 858 6.114187 TCCAATGTGATATACTCATCCCAC 57.886 41.667 0.00 0.00 35.97 4.61
504 859 5.606329 TCCAATGTGATATACTCATCCCACA 59.394 40.000 0.00 0.00 38.63 4.17
505 860 6.101005 TCCAATGTGATATACTCATCCCACAA 59.899 38.462 0.00 0.00 37.93 3.33
506 861 6.944290 CCAATGTGATATACTCATCCCACAAT 59.056 38.462 0.00 0.00 37.93 2.71
507 862 8.102676 CCAATGTGATATACTCATCCCACAATA 58.897 37.037 0.00 0.00 37.93 1.90
508 863 9.676861 CAATGTGATATACTCATCCCACAATAT 57.323 33.333 0.00 0.00 37.93 1.28
516 871 8.964533 ATACTCATCCCACAATATAAGAGAGT 57.035 34.615 0.00 0.00 36.65 3.24
517 872 7.682787 ACTCATCCCACAATATAAGAGAGTT 57.317 36.000 0.00 0.00 29.12 3.01
518 873 8.095452 ACTCATCCCACAATATAAGAGAGTTT 57.905 34.615 0.00 0.00 29.12 2.66
519 874 8.552296 ACTCATCCCACAATATAAGAGAGTTTT 58.448 33.333 0.00 0.00 29.12 2.43
520 875 9.401058 CTCATCCCACAATATAAGAGAGTTTTT 57.599 33.333 0.00 0.00 0.00 1.94
538 893 3.389925 TTTTACACTACACTGGGACGG 57.610 47.619 0.00 0.00 42.99 4.79
539 894 2.291209 TTACACTACACTGGGACGGA 57.709 50.000 0.00 0.00 38.67 4.69
540 895 1.830279 TACACTACACTGGGACGGAG 58.170 55.000 0.00 0.00 38.67 4.63
541 896 0.898789 ACACTACACTGGGACGGAGG 60.899 60.000 0.00 0.00 38.67 4.30
542 897 1.305046 ACTACACTGGGACGGAGGG 60.305 63.158 0.00 0.00 38.67 4.30
543 898 1.000019 CTACACTGGGACGGAGGGA 60.000 63.158 0.00 0.00 38.67 4.20
544 899 1.000019 TACACTGGGACGGAGGGAG 60.000 63.158 0.00 0.00 38.67 4.30
545 900 1.797018 TACACTGGGACGGAGGGAGT 61.797 60.000 0.00 0.00 38.67 3.85
546 901 1.000019 CACTGGGACGGAGGGAGTA 60.000 63.158 0.00 0.00 38.67 2.59
547 902 1.038130 CACTGGGACGGAGGGAGTAG 61.038 65.000 0.00 0.00 38.67 2.57
569 924 2.905075 AGTTTTGAAGGCAAGGCAAAC 58.095 42.857 0.00 0.00 35.04 2.93
633 988 9.315525 GTACTCCTATTATTGACAAGGACTTTC 57.684 37.037 0.00 0.00 34.45 2.62
650 1005 4.063689 ACTTTCAATGAGTGAGCTGTGAG 58.936 43.478 0.00 0.00 37.61 3.51
749 1106 7.811117 AACTATGAGTGATCTAGTAGGTGAC 57.189 40.000 0.00 0.00 0.00 3.67
794 1407 2.204059 AGCCAGCTCCCTCCTTGT 60.204 61.111 0.00 0.00 0.00 3.16
1178 1897 2.264480 CCTCATCAACGGCGACCA 59.736 61.111 16.62 0.00 0.00 4.02
1491 2210 2.202676 CGCTCCTCCAGACTTCGC 60.203 66.667 0.00 0.00 0.00 4.70
1530 2249 1.270414 ACAGCCTGGTGGGAGAGATG 61.270 60.000 0.00 0.00 37.23 2.90
1541 2260 1.817099 GAGAGATGCCCGCCAACTG 60.817 63.158 0.00 0.00 0.00 3.16
1669 2388 2.380084 TCGCCTCTACACCAACAATC 57.620 50.000 0.00 0.00 0.00 2.67
1884 2603 2.756840 TCCAGCTGAGTCACAATGAG 57.243 50.000 17.39 0.00 0.00 2.90
1936 2655 1.135333 CTACTCTCCCAAACCTCGAGC 59.865 57.143 6.99 0.00 0.00 5.03
2042 2762 3.284617 CAACAATCAGCTCCATGGATCA 58.715 45.455 16.63 0.00 0.00 2.92
2060 2780 1.133823 TCAGTGCCACTCAACATTGGT 60.134 47.619 0.00 0.00 35.09 3.67
2072 2792 6.006449 ACTCAACATTGGTAGCTTGAGAAAT 58.994 36.000 21.58 4.00 41.42 2.17
2075 2795 6.716628 TCAACATTGGTAGCTTGAGAAATCTT 59.283 34.615 0.00 0.00 0.00 2.40
2079 2799 5.745312 TGGTAGCTTGAGAAATCTTGAGA 57.255 39.130 0.00 0.00 0.00 3.27
2080 2800 5.482908 TGGTAGCTTGAGAAATCTTGAGAC 58.517 41.667 0.00 0.00 0.00 3.36
2092 2812 1.278172 CTTGAGACGTGTCGGTGCAG 61.278 60.000 8.31 0.00 34.09 4.41
2096 2816 3.223435 GACGTGTCGGTGCAGCAAC 62.223 63.158 17.33 8.61 0.00 4.17
2111 2831 1.080569 CAACCATGGGCGTTTGCTC 60.081 57.895 18.09 0.00 44.05 4.26
2113 2833 2.361610 CCATGGGCGTTTGCTCCT 60.362 61.111 2.85 0.00 42.67 3.69
2161 2882 2.112815 CCCCCGGCAAGAATCGAAC 61.113 63.158 0.00 0.00 0.00 3.95
2179 2900 4.876679 TCGAACTTCATACACAACCAAACA 59.123 37.500 0.00 0.00 0.00 2.83
2206 2927 3.462021 AGCCGCTCTTCATAAGATCAAC 58.538 45.455 0.00 0.00 36.82 3.18
2233 2954 3.758554 GCATTAAGAAGACCAAGGCTTGA 59.241 43.478 28.18 5.37 0.00 3.02
2242 2963 1.410153 ACCAAGGCTTGAAACAAGCTG 59.590 47.619 28.18 20.66 42.62 4.24
2334 3055 1.452145 GCACGGACTTCCTGCCAAAA 61.452 55.000 7.94 0.00 35.53 2.44
2335 3056 0.310854 CACGGACTTCCTGCCAAAAC 59.689 55.000 0.00 0.00 0.00 2.43
2336 3057 0.106918 ACGGACTTCCTGCCAAAACA 60.107 50.000 0.00 0.00 0.00 2.83
2338 3059 0.673985 GGACTTCCTGCCAAAACACC 59.326 55.000 0.00 0.00 0.00 4.16
2339 3060 1.398692 GACTTCCTGCCAAAACACCA 58.601 50.000 0.00 0.00 0.00 4.17
2340 3061 1.338020 GACTTCCTGCCAAAACACCAG 59.662 52.381 0.00 0.00 0.00 4.00
2341 3062 0.032540 CTTCCTGCCAAAACACCAGC 59.967 55.000 0.00 0.00 0.00 4.85
2343 3064 2.192861 CCTGCCAAAACACCAGCGA 61.193 57.895 0.00 0.00 0.00 4.93
2344 3065 1.283793 CTGCCAAAACACCAGCGAG 59.716 57.895 0.00 0.00 0.00 5.03
2362 3085 1.986757 GACCTCTCTGGCCAGCTGA 60.987 63.158 28.91 24.45 40.22 4.26
2380 3103 3.961480 TGATCGTTGATCAGTGAGGTT 57.039 42.857 5.42 0.00 43.11 3.50
2412 3138 1.472188 GTAGTTAGGTGGAGACGGCT 58.528 55.000 0.00 0.00 0.00 5.52
2445 3171 4.643784 CAGCTTGCTGGAAAGAAGGATTAT 59.356 41.667 14.25 0.00 0.00 1.28
2463 3189 5.176958 GGATTATCTTTATTGACACCCGTCG 59.823 44.000 0.00 0.00 45.80 5.12
2464 3190 3.604875 ATCTTTATTGACACCCGTCGT 57.395 42.857 0.00 0.00 45.80 4.34
2465 3191 2.950433 TCTTTATTGACACCCGTCGTC 58.050 47.619 0.00 0.00 45.80 4.20
2469 3195 0.529378 ATTGACACCCGTCGTCCTAC 59.471 55.000 0.00 0.00 45.80 3.18
2471 3197 0.324614 TGACACCCGTCGTCCTACTA 59.675 55.000 0.00 0.00 45.80 1.82
2501 3227 2.973406 AGCTAATAGGAGGTAGTTGGGC 59.027 50.000 0.00 0.00 0.00 5.36
2548 3274 1.472662 CCTCCTCCACACGACACCTT 61.473 60.000 0.00 0.00 0.00 3.50
2602 3328 8.770010 ACTAGCAGAGTTAGGTATGATAGTTT 57.230 34.615 0.00 0.00 40.83 2.66
2653 3380 0.259065 TTTGCCACTGTGGTAACCCA 59.741 50.000 26.72 13.92 41.82 4.51
2658 3385 2.870175 CCACTGTGGTAACCCATTGAA 58.130 47.619 18.76 0.00 44.35 2.69
2662 3389 4.454504 CACTGTGGTAACCCATTGAACTAC 59.545 45.833 0.00 0.00 44.35 2.73
2663 3390 4.349930 ACTGTGGTAACCCATTGAACTACT 59.650 41.667 0.00 0.00 44.35 2.57
2664 3391 4.901868 TGTGGTAACCCATTGAACTACTC 58.098 43.478 0.00 0.00 44.35 2.59
2665 3392 4.259356 GTGGTAACCCATTGAACTACTCC 58.741 47.826 0.00 0.00 44.35 3.85
2666 3393 3.264964 TGGTAACCCATTGAACTACTCCC 59.735 47.826 0.00 0.00 35.17 4.30
2667 3394 3.522343 GGTAACCCATTGAACTACTCCCT 59.478 47.826 0.00 0.00 0.00 4.20
2668 3395 4.383880 GGTAACCCATTGAACTACTCCCTC 60.384 50.000 0.00 0.00 0.00 4.30
2669 3396 2.197465 ACCCATTGAACTACTCCCTCC 58.803 52.381 0.00 0.00 0.00 4.30
2670 3397 1.139058 CCCATTGAACTACTCCCTCCG 59.861 57.143 0.00 0.00 0.00 4.63
2671 3398 1.831736 CCATTGAACTACTCCCTCCGT 59.168 52.381 0.00 0.00 0.00 4.69
2672 3399 2.159085 CCATTGAACTACTCCCTCCGTC 60.159 54.545 0.00 0.00 0.00 4.79
2673 3400 1.553706 TTGAACTACTCCCTCCGTCC 58.446 55.000 0.00 0.00 0.00 4.79
2674 3401 0.324091 TGAACTACTCCCTCCGTCCC 60.324 60.000 0.00 0.00 0.00 4.46
2675 3402 1.379576 AACTACTCCCTCCGTCCCG 60.380 63.158 0.00 0.00 0.00 5.14
2676 3403 2.147433 AACTACTCCCTCCGTCCCGT 62.147 60.000 0.00 0.00 0.00 5.28
2677 3404 1.274703 ACTACTCCCTCCGTCCCGTA 61.275 60.000 0.00 0.00 0.00 4.02
2678 3405 0.107017 CTACTCCCTCCGTCCCGTAA 60.107 60.000 0.00 0.00 0.00 3.18
2679 3406 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
2680 3407 0.552848 ACTCCCTCCGTCCCGTAATA 59.447 55.000 0.00 0.00 0.00 0.98
2681 3408 1.146566 ACTCCCTCCGTCCCGTAATAT 59.853 52.381 0.00 0.00 0.00 1.28
2682 3409 2.376518 ACTCCCTCCGTCCCGTAATATA 59.623 50.000 0.00 0.00 0.00 0.86
2683 3410 3.181429 ACTCCCTCCGTCCCGTAATATAA 60.181 47.826 0.00 0.00 0.00 0.98
2684 3411 3.424703 TCCCTCCGTCCCGTAATATAAG 58.575 50.000 0.00 0.00 0.00 1.73
2685 3412 3.074390 TCCCTCCGTCCCGTAATATAAGA 59.926 47.826 0.00 0.00 0.00 2.10
2686 3413 3.828451 CCCTCCGTCCCGTAATATAAGAA 59.172 47.826 0.00 0.00 0.00 2.52
2687 3414 4.321527 CCCTCCGTCCCGTAATATAAGAAC 60.322 50.000 0.00 0.00 0.00 3.01
2688 3415 4.470462 CTCCGTCCCGTAATATAAGAACG 58.530 47.826 0.00 0.00 36.42 3.95
2689 3416 3.882888 TCCGTCCCGTAATATAAGAACGT 59.117 43.478 0.00 0.00 34.90 3.99
2690 3417 4.338118 TCCGTCCCGTAATATAAGAACGTT 59.662 41.667 0.00 0.00 34.90 3.99
2691 3418 5.043248 CCGTCCCGTAATATAAGAACGTTT 58.957 41.667 0.46 0.00 34.90 3.60
2692 3419 5.519927 CCGTCCCGTAATATAAGAACGTTTT 59.480 40.000 0.46 0.00 34.90 2.43
2693 3420 6.035975 CCGTCCCGTAATATAAGAACGTTTTT 59.964 38.462 9.22 9.22 34.90 1.94
2694 3421 6.896088 CGTCCCGTAATATAAGAACGTTTTTG 59.104 38.462 13.87 0.00 34.90 2.44
2695 3422 7.201427 CGTCCCGTAATATAAGAACGTTTTTGA 60.201 37.037 13.87 2.81 34.90 2.69
2696 3423 8.606602 GTCCCGTAATATAAGAACGTTTTTGAT 58.393 33.333 13.87 4.93 34.90 2.57
2697 3424 9.814899 TCCCGTAATATAAGAACGTTTTTGATA 57.185 29.630 13.87 8.23 34.90 2.15
2698 3425 9.853921 CCCGTAATATAAGAACGTTTTTGATAC 57.146 33.333 13.87 9.84 34.90 2.24
2732 3459 9.659830 GTGTAAAAAGCGTTCTTATATTATGGG 57.340 33.333 0.00 0.00 31.02 4.00
2733 3460 9.616156 TGTAAAAAGCGTTCTTATATTATGGGA 57.384 29.630 0.00 0.00 31.02 4.37
2734 3461 9.874215 GTAAAAAGCGTTCTTATATTATGGGAC 57.126 33.333 0.00 0.00 31.02 4.46
2735 3462 6.780706 AAAGCGTTCTTATATTATGGGACG 57.219 37.500 7.50 7.50 31.02 4.79
2736 3463 4.817517 AGCGTTCTTATATTATGGGACGG 58.182 43.478 11.52 0.00 0.00 4.79
2737 3464 4.282703 AGCGTTCTTATATTATGGGACGGT 59.717 41.667 9.58 9.58 0.00 4.83
2738 3465 4.387862 GCGTTCTTATATTATGGGACGGTG 59.612 45.833 11.52 0.00 0.00 4.94
2739 3466 4.927425 CGTTCTTATATTATGGGACGGTGG 59.073 45.833 0.00 0.00 0.00 4.61
2740 3467 5.243207 GTTCTTATATTATGGGACGGTGGG 58.757 45.833 0.00 0.00 0.00 4.61
2741 3468 4.754311 TCTTATATTATGGGACGGTGGGA 58.246 43.478 0.00 0.00 0.00 4.37
2742 3469 4.775780 TCTTATATTATGGGACGGTGGGAG 59.224 45.833 0.00 0.00 0.00 4.30
2743 3470 2.482414 TATTATGGGACGGTGGGAGT 57.518 50.000 0.00 0.00 0.00 3.85
2744 3471 2.482414 ATTATGGGACGGTGGGAGTA 57.518 50.000 0.00 0.00 0.00 2.59
2745 3472 2.482414 TTATGGGACGGTGGGAGTAT 57.518 50.000 0.00 0.00 0.00 2.12
2746 3473 2.482414 TATGGGACGGTGGGAGTATT 57.518 50.000 0.00 0.00 0.00 1.89
2751 3478 2.502947 GGGACGGTGGGAGTATTAAAGT 59.497 50.000 0.00 0.00 0.00 2.66
2795 3522 0.031585 GTTCGAACCCTTTGCAACCC 59.968 55.000 17.68 0.00 0.00 4.11
2838 3566 1.324005 GCCCTCTCCTAGCGACTTGT 61.324 60.000 0.00 0.00 0.00 3.16
2891 3620 2.962421 CAACCACCCAATACACCAAAGT 59.038 45.455 0.00 0.00 0.00 2.66
2914 3643 3.056035 AGGAGTAGGGTTTTACGCTTCTG 60.056 47.826 7.55 0.00 41.82 3.02
2926 3655 3.086733 GCTTCTGAGCGGCCTAAAT 57.913 52.632 0.00 0.00 39.48 1.40
2938 3667 3.004419 GCGGCCTAAATCTGGGTAAAATC 59.996 47.826 0.00 0.00 0.00 2.17
2939 3668 4.204012 CGGCCTAAATCTGGGTAAAATCA 58.796 43.478 0.00 0.00 0.00 2.57
2952 3681 0.392998 AAAATCATGGCGCCTCTCGT 60.393 50.000 29.70 7.39 41.07 4.18
2961 3690 2.347490 GCCTCTCGTTGCCCTTGA 59.653 61.111 0.00 0.00 0.00 3.02
2967 3696 2.675348 CTCTCGTTGCCCTTGATCTTTC 59.325 50.000 0.00 0.00 0.00 2.62
2969 3698 1.351017 TCGTTGCCCTTGATCTTTCCT 59.649 47.619 0.00 0.00 0.00 3.36
2971 3700 2.558359 CGTTGCCCTTGATCTTTCCTTT 59.442 45.455 0.00 0.00 0.00 3.11
2972 3701 3.612479 CGTTGCCCTTGATCTTTCCTTTG 60.612 47.826 0.00 0.00 0.00 2.77
2974 3703 3.424703 TGCCCTTGATCTTTCCTTTGAG 58.575 45.455 0.00 0.00 0.00 3.02
2983 3712 0.112412 TTTCCTTTGAGTGCTCCCCC 59.888 55.000 0.00 0.00 0.00 5.40
2985 3714 0.772124 TCCTTTGAGTGCTCCCCCTT 60.772 55.000 0.00 0.00 0.00 3.95
2986 3715 0.610232 CCTTTGAGTGCTCCCCCTTG 60.610 60.000 0.00 0.00 0.00 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 6.036083 GCGCTGACACTATTCAAGATTTCTAA 59.964 38.462 0.00 0.00 0.00 2.10
27 28 4.002982 TGCGCTGACACTATTCAAGATTT 58.997 39.130 9.73 0.00 0.00 2.17
32 33 4.560136 TTTTTGCGCTGACACTATTCAA 57.440 36.364 9.73 0.00 0.00 2.69
62 63 4.215399 CCGGTGTTTGTGATGACAGTATTT 59.785 41.667 0.00 0.00 32.26 1.40
67 68 1.593196 ACCGGTGTTTGTGATGACAG 58.407 50.000 6.12 0.00 32.26 3.51
83 84 2.607282 GGTAGTCGCTCAATCCATACCG 60.607 54.545 0.00 0.00 0.00 4.02
99 100 6.546403 GGGAAAGAAACTCTTTTGAAGGTAGT 59.454 38.462 3.31 0.00 45.85 2.73
186 187 9.120538 TGAGTGATTTGTTTTTAAGAACTAGCT 57.879 29.630 9.96 0.00 0.00 3.32
187 188 9.899226 ATGAGTGATTTGTTTTTAAGAACTAGC 57.101 29.630 9.96 2.65 0.00 3.42
234 235 9.388506 CCCTTAATGATATGTATCTTGGCTTAG 57.611 37.037 2.08 0.00 33.88 2.18
304 305 4.992511 TGTTGGGGCCGCGTACAC 62.993 66.667 19.43 12.25 0.00 2.90
334 686 4.074259 TGGATGGCCAGAAATCATTATCG 58.926 43.478 13.05 0.00 39.92 2.92
391 743 1.068402 TGTGTTGATGCGGCAAGAATG 60.068 47.619 6.82 0.00 0.00 2.67
458 813 1.067060 TCGTCCGTTCATGATGCTAGG 59.933 52.381 0.00 0.00 0.00 3.02
474 829 7.276658 GGATGAGTATATCACATTGGATTCGTC 59.723 40.741 0.00 0.00 41.91 4.20
492 847 8.783660 AACTCTCTTATATTGTGGGATGAGTA 57.216 34.615 0.00 0.00 31.87 2.59
493 848 7.682787 AACTCTCTTATATTGTGGGATGAGT 57.317 36.000 0.00 0.00 33.25 3.41
494 849 8.970859 AAAACTCTCTTATATTGTGGGATGAG 57.029 34.615 0.00 0.00 0.00 2.90
517 872 3.387374 TCCGTCCCAGTGTAGTGTAAAAA 59.613 43.478 0.00 0.00 0.00 1.94
518 873 2.964464 TCCGTCCCAGTGTAGTGTAAAA 59.036 45.455 0.00 0.00 0.00 1.52
519 874 2.559668 CTCCGTCCCAGTGTAGTGTAAA 59.440 50.000 0.00 0.00 0.00 2.01
520 875 2.165167 CTCCGTCCCAGTGTAGTGTAA 58.835 52.381 0.00 0.00 0.00 2.41
521 876 1.615116 CCTCCGTCCCAGTGTAGTGTA 60.615 57.143 0.00 0.00 0.00 2.90
522 877 0.898789 CCTCCGTCCCAGTGTAGTGT 60.899 60.000 0.00 0.00 0.00 3.55
523 878 1.605058 CCCTCCGTCCCAGTGTAGTG 61.605 65.000 0.00 0.00 0.00 2.74
524 879 1.305046 CCCTCCGTCCCAGTGTAGT 60.305 63.158 0.00 0.00 0.00 2.73
525 880 1.000019 TCCCTCCGTCCCAGTGTAG 60.000 63.158 0.00 0.00 0.00 2.74
526 881 1.000019 CTCCCTCCGTCCCAGTGTA 60.000 63.158 0.00 0.00 0.00 2.90
527 882 1.797018 TACTCCCTCCGTCCCAGTGT 61.797 60.000 0.00 0.00 0.00 3.55
528 883 1.000019 TACTCCCTCCGTCCCAGTG 60.000 63.158 0.00 0.00 0.00 3.66
529 884 1.306970 CTACTCCCTCCGTCCCAGT 59.693 63.158 0.00 0.00 0.00 4.00
530 885 0.549950 TACTACTCCCTCCGTCCCAG 59.450 60.000 0.00 0.00 0.00 4.45
531 886 0.549950 CTACTACTCCCTCCGTCCCA 59.450 60.000 0.00 0.00 0.00 4.37
532 887 0.550432 ACTACTACTCCCTCCGTCCC 59.450 60.000 0.00 0.00 0.00 4.46
533 888 2.433662 AACTACTACTCCCTCCGTCC 57.566 55.000 0.00 0.00 0.00 4.79
534 889 3.760684 TCAAAACTACTACTCCCTCCGTC 59.239 47.826 0.00 0.00 0.00 4.79
535 890 3.771216 TCAAAACTACTACTCCCTCCGT 58.229 45.455 0.00 0.00 0.00 4.69
536 891 4.381718 CCTTCAAAACTACTACTCCCTCCG 60.382 50.000 0.00 0.00 0.00 4.63
537 892 4.623409 GCCTTCAAAACTACTACTCCCTCC 60.623 50.000 0.00 0.00 0.00 4.30
538 893 4.020485 TGCCTTCAAAACTACTACTCCCTC 60.020 45.833 0.00 0.00 0.00 4.30
539 894 3.908103 TGCCTTCAAAACTACTACTCCCT 59.092 43.478 0.00 0.00 0.00 4.20
540 895 4.281898 TGCCTTCAAAACTACTACTCCC 57.718 45.455 0.00 0.00 0.00 4.30
541 896 4.695928 CCTTGCCTTCAAAACTACTACTCC 59.304 45.833 0.00 0.00 0.00 3.85
542 897 4.154375 GCCTTGCCTTCAAAACTACTACTC 59.846 45.833 0.00 0.00 0.00 2.59
543 898 4.072839 GCCTTGCCTTCAAAACTACTACT 58.927 43.478 0.00 0.00 0.00 2.57
544 899 3.818773 TGCCTTGCCTTCAAAACTACTAC 59.181 43.478 0.00 0.00 0.00 2.73
545 900 4.093472 TGCCTTGCCTTCAAAACTACTA 57.907 40.909 0.00 0.00 0.00 1.82
546 901 2.944129 TGCCTTGCCTTCAAAACTACT 58.056 42.857 0.00 0.00 0.00 2.57
547 902 3.726291 TTGCCTTGCCTTCAAAACTAC 57.274 42.857 0.00 0.00 0.00 2.73
610 965 8.792830 TTGAAAGTCCTTGTCAATAATAGGAG 57.207 34.615 0.00 0.00 37.46 3.69
611 966 9.177608 CATTGAAAGTCCTTGTCAATAATAGGA 57.822 33.333 12.69 0.00 39.40 2.94
612 967 9.177608 TCATTGAAAGTCCTTGTCAATAATAGG 57.822 33.333 12.69 0.00 39.40 2.57
633 988 1.463831 GTGCTCACAGCTCACTCATTG 59.536 52.381 0.00 0.00 42.97 2.82
689 1044 2.479275 CAGACACAGTCACTGCAGAATG 59.521 50.000 23.35 11.45 39.35 2.67
749 1106 5.121811 CAGTATGAAAGGGATGGAACTGAG 58.878 45.833 0.00 0.00 39.69 3.35
794 1407 4.141274 TCACTCCAATTTCTGGGAAACTGA 60.141 41.667 3.53 0.00 46.44 3.41
968 1687 1.505353 CCTTGTGCAGCTTGCTAGC 59.495 57.895 12.54 12.54 45.31 3.42
969 1688 1.930908 GCCCTTGTGCAGCTTGCTAG 61.931 60.000 9.12 0.00 45.31 3.42
1046 1765 2.093075 AGTAGTAGCACTAGCAGGACGA 60.093 50.000 0.00 0.00 45.49 4.20
1112 1831 3.403057 CGTCTGTGGTGGCGTTCG 61.403 66.667 0.00 0.00 0.00 3.95
1491 2210 2.509336 CGCCCCAGAAGTAGTGCG 60.509 66.667 0.00 0.00 35.81 5.34
1688 2407 5.188751 AGAGATGTAAGGTTTCCAAGAGAGG 59.811 44.000 0.00 0.00 0.00 3.69
1884 2603 2.754946 TCGGGATAACACCAGACAAC 57.245 50.000 0.00 0.00 0.00 3.32
2042 2762 2.783135 CTACCAATGTTGAGTGGCACT 58.217 47.619 22.26 22.26 41.32 4.40
2060 2780 5.164233 CACGTCTCAAGATTTCTCAAGCTA 58.836 41.667 0.00 0.00 0.00 3.32
2072 2792 1.007734 GCACCGACACGTCTCAAGA 60.008 57.895 0.00 0.00 0.00 3.02
2075 2795 2.335011 CTGCACCGACACGTCTCA 59.665 61.111 0.00 0.00 0.00 3.27
2079 2799 3.269347 GTTGCTGCACCGACACGT 61.269 61.111 0.00 0.00 0.00 4.49
2080 2800 4.012895 GGTTGCTGCACCGACACG 62.013 66.667 0.00 0.00 0.00 4.49
2092 2812 2.738139 GCAAACGCCCATGGTTGC 60.738 61.111 18.69 18.69 0.00 4.17
2096 2816 2.361610 AGGAGCAAACGCCCATGG 60.362 61.111 4.14 4.14 36.16 3.66
2111 2831 2.094494 ACGTCTGTGCATAAGTCAGAGG 60.094 50.000 17.48 17.48 44.38 3.69
2113 2833 2.946564 CACGTCTGTGCATAAGTCAGA 58.053 47.619 0.10 0.10 39.67 3.27
2147 2868 3.616821 TGTATGAAGTTCGATTCTTGCCG 59.383 43.478 7.87 0.00 0.00 5.69
2154 2875 6.038825 TGTTTGGTTGTGTATGAAGTTCGATT 59.961 34.615 0.00 0.00 0.00 3.34
2158 2879 6.791303 TCTTGTTTGGTTGTGTATGAAGTTC 58.209 36.000 0.00 0.00 0.00 3.01
2161 2882 6.618287 TCTCTTGTTTGGTTGTGTATGAAG 57.382 37.500 0.00 0.00 0.00 3.02
2198 2919 3.521560 TCTTAATGCGCTCGTTGATCTT 58.478 40.909 9.73 0.00 0.00 2.40
2206 2927 1.640428 TGGTCTTCTTAATGCGCTCG 58.360 50.000 9.73 0.00 0.00 5.03
2233 2954 2.221169 TGTGAATCTCGCAGCTTGTTT 58.779 42.857 0.00 0.00 31.05 2.83
2242 2963 1.800586 TGCTTCTGTTGTGAATCTCGC 59.199 47.619 0.00 0.00 0.00 5.03
2334 3055 3.688086 GAGAGGTCTCGCTGGTGT 58.312 61.111 0.00 0.00 32.78 4.16
2343 3064 1.988956 CAGCTGGCCAGAGAGGTCT 60.989 63.158 37.21 19.35 44.59 3.85
2344 3065 1.336632 ATCAGCTGGCCAGAGAGGTC 61.337 60.000 37.21 17.23 44.53 3.85
2362 3085 3.056821 TCGAAACCTCACTGATCAACGAT 60.057 43.478 0.00 0.00 0.00 3.73
2380 3103 0.966875 TAACTACCTGCGGGCTCGAA 60.967 55.000 12.03 0.00 39.00 3.71
2393 3116 1.404748 GAGCCGTCTCCACCTAACTAC 59.595 57.143 0.00 0.00 33.19 2.73
2394 3117 1.760192 GAGCCGTCTCCACCTAACTA 58.240 55.000 0.00 0.00 33.19 2.24
2395 3118 1.313812 CGAGCCGTCTCCACCTAACT 61.314 60.000 0.00 0.00 35.94 2.24
2398 3121 0.745845 GTACGAGCCGTCTCCACCTA 60.746 60.000 3.45 0.00 41.54 3.08
2412 3138 0.663269 CAGCAAGCTGACACGTACGA 60.663 55.000 24.41 0.00 46.30 3.43
2445 3171 2.353011 GGACGACGGGTGTCAATAAAGA 60.353 50.000 0.00 0.00 45.80 2.52
2463 3189 1.473278 AGCTTGACACGCTAGTAGGAC 59.527 52.381 4.34 0.00 35.63 3.85
2464 3190 1.835494 AGCTTGACACGCTAGTAGGA 58.165 50.000 4.34 0.00 35.63 2.94
2465 3191 3.777465 TTAGCTTGACACGCTAGTAGG 57.223 47.619 12.79 0.00 40.68 3.18
2469 3195 4.541779 CTCCTATTAGCTTGACACGCTAG 58.458 47.826 12.79 4.79 40.68 3.42
2471 3197 2.101582 CCTCCTATTAGCTTGACACGCT 59.898 50.000 11.56 11.56 41.35 5.07
2521 3247 4.779733 GTGGAGGAGGAGCCCCGA 62.780 72.222 0.00 0.00 37.37 5.14
2621 3347 4.588528 ACAGTGGCAAAAAGGTCATTACAT 59.411 37.500 0.00 0.00 0.00 2.29
2653 3380 2.108970 GGACGGAGGGAGTAGTTCAAT 58.891 52.381 0.00 0.00 0.00 2.57
2670 3397 7.962917 TCAAAAACGTTCTTATATTACGGGAC 58.037 34.615 0.00 0.00 39.45 4.46
2671 3398 8.721019 ATCAAAAACGTTCTTATATTACGGGA 57.279 30.769 0.00 0.00 39.45 5.14
2672 3399 9.853921 GTATCAAAAACGTTCTTATATTACGGG 57.146 33.333 0.00 0.00 39.45 5.28
2706 3433 9.659830 CCCATAATATAAGAACGCTTTTTACAC 57.340 33.333 0.00 0.00 35.56 2.90
2707 3434 9.616156 TCCCATAATATAAGAACGCTTTTTACA 57.384 29.630 0.00 0.00 35.56 2.41
2708 3435 9.874215 GTCCCATAATATAAGAACGCTTTTTAC 57.126 33.333 0.00 0.00 35.56 2.01
2709 3436 8.767085 CGTCCCATAATATAAGAACGCTTTTTA 58.233 33.333 0.00 0.00 35.56 1.52
2710 3437 7.255001 CCGTCCCATAATATAAGAACGCTTTTT 60.255 37.037 0.00 0.00 35.56 1.94
2711 3438 6.204108 CCGTCCCATAATATAAGAACGCTTTT 59.796 38.462 0.00 0.00 35.56 2.27
2712 3439 5.699458 CCGTCCCATAATATAAGAACGCTTT 59.301 40.000 0.00 0.00 35.56 3.51
2713 3440 5.221581 ACCGTCCCATAATATAAGAACGCTT 60.222 40.000 0.00 0.00 38.15 4.68
2714 3441 4.282703 ACCGTCCCATAATATAAGAACGCT 59.717 41.667 0.00 0.00 0.00 5.07
2715 3442 4.387862 CACCGTCCCATAATATAAGAACGC 59.612 45.833 0.00 0.00 0.00 4.84
2716 3443 4.927425 CCACCGTCCCATAATATAAGAACG 59.073 45.833 0.00 0.00 0.00 3.95
2717 3444 5.012354 TCCCACCGTCCCATAATATAAGAAC 59.988 44.000 0.00 0.00 0.00 3.01
2718 3445 5.156649 TCCCACCGTCCCATAATATAAGAA 58.843 41.667 0.00 0.00 0.00 2.52
2719 3446 4.754311 TCCCACCGTCCCATAATATAAGA 58.246 43.478 0.00 0.00 0.00 2.10
2720 3447 4.530946 ACTCCCACCGTCCCATAATATAAG 59.469 45.833 0.00 0.00 0.00 1.73
2721 3448 4.495565 ACTCCCACCGTCCCATAATATAA 58.504 43.478 0.00 0.00 0.00 0.98
2722 3449 4.136341 ACTCCCACCGTCCCATAATATA 57.864 45.455 0.00 0.00 0.00 0.86
2723 3450 2.986050 ACTCCCACCGTCCCATAATAT 58.014 47.619 0.00 0.00 0.00 1.28
2724 3451 2.482414 ACTCCCACCGTCCCATAATA 57.518 50.000 0.00 0.00 0.00 0.98
2725 3452 2.482414 TACTCCCACCGTCCCATAAT 57.518 50.000 0.00 0.00 0.00 1.28
2726 3453 2.482414 ATACTCCCACCGTCCCATAA 57.518 50.000 0.00 0.00 0.00 1.90
2727 3454 2.482414 AATACTCCCACCGTCCCATA 57.518 50.000 0.00 0.00 0.00 2.74
2728 3455 2.482414 TAATACTCCCACCGTCCCAT 57.518 50.000 0.00 0.00 0.00 4.00
2729 3456 2.250921 TTAATACTCCCACCGTCCCA 57.749 50.000 0.00 0.00 0.00 4.37
2730 3457 2.502947 ACTTTAATACTCCCACCGTCCC 59.497 50.000 0.00 0.00 0.00 4.46
2731 3458 3.900966 ACTTTAATACTCCCACCGTCC 57.099 47.619 0.00 0.00 0.00 4.79
2732 3459 4.646492 TCCTACTTTAATACTCCCACCGTC 59.354 45.833 0.00 0.00 0.00 4.79
2733 3460 4.403752 GTCCTACTTTAATACTCCCACCGT 59.596 45.833 0.00 0.00 0.00 4.83
2734 3461 4.202192 GGTCCTACTTTAATACTCCCACCG 60.202 50.000 0.00 0.00 0.00 4.94
2735 3462 4.718276 TGGTCCTACTTTAATACTCCCACC 59.282 45.833 0.00 0.00 0.00 4.61
2736 3463 5.945144 TGGTCCTACTTTAATACTCCCAC 57.055 43.478 0.00 0.00 0.00 4.61
2737 3464 5.427481 CCTTGGTCCTACTTTAATACTCCCA 59.573 44.000 0.00 0.00 0.00 4.37
2738 3465 5.686913 GCCTTGGTCCTACTTTAATACTCCC 60.687 48.000 0.00 0.00 0.00 4.30
2739 3466 5.104652 TGCCTTGGTCCTACTTTAATACTCC 60.105 44.000 0.00 0.00 0.00 3.85
2740 3467 5.985911 TGCCTTGGTCCTACTTTAATACTC 58.014 41.667 0.00 0.00 0.00 2.59
2741 3468 6.178324 GTTGCCTTGGTCCTACTTTAATACT 58.822 40.000 0.00 0.00 0.00 2.12
2742 3469 5.356190 GGTTGCCTTGGTCCTACTTTAATAC 59.644 44.000 0.00 0.00 0.00 1.89
2743 3470 5.252164 AGGTTGCCTTGGTCCTACTTTAATA 59.748 40.000 0.00 0.00 0.00 0.98
2744 3471 4.044191 AGGTTGCCTTGGTCCTACTTTAAT 59.956 41.667 0.00 0.00 0.00 1.40
2745 3472 3.396611 AGGTTGCCTTGGTCCTACTTTAA 59.603 43.478 0.00 0.00 0.00 1.52
2746 3473 2.983898 AGGTTGCCTTGGTCCTACTTTA 59.016 45.455 0.00 0.00 0.00 1.85
2751 3478 2.712087 TGTAAAGGTTGCCTTGGTCCTA 59.288 45.455 0.71 0.00 43.92 2.94
2795 3522 1.202521 TGCACAGATACCTATGCGTGG 60.203 52.381 0.00 0.00 45.42 4.94
2891 3620 4.159135 CAGAAGCGTAAAACCCTACTCCTA 59.841 45.833 0.00 0.00 0.00 2.94
2914 3643 0.756903 TACCCAGATTTAGGCCGCTC 59.243 55.000 0.00 0.00 0.00 5.03
2923 3652 3.181476 GCGCCATGATTTTACCCAGATTT 60.181 43.478 0.00 0.00 0.00 2.17
2926 3655 1.388547 GCGCCATGATTTTACCCAGA 58.611 50.000 0.00 0.00 0.00 3.86
2938 3667 3.869272 GCAACGAGAGGCGCCATG 61.869 66.667 31.54 17.22 46.04 3.66
2952 3681 3.828451 CTCAAAGGAAAGATCAAGGGCAA 59.172 43.478 0.00 0.00 0.00 4.52
2961 3690 2.291217 GGGGAGCACTCAAAGGAAAGAT 60.291 50.000 0.00 0.00 0.00 2.40
2967 3696 0.610232 CAAGGGGGAGCACTCAAAGG 60.610 60.000 0.00 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.