Multiple sequence alignment - TraesCS7B01G004600

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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 TraesCS7B01G004600 chr7B 100.000 3257 0 0 1 3257 2333197 2336453 0.000000e+00 6015.0
1 TraesCS7B01G004600 chr7B 90.650 984 74 9 1298 2266 2329366 2328386 0.000000e+00 1291.0
2 TraesCS7B01G004600 chr7B 99.401 167 1 0 348 514 145697528 145697362 1.470000e-78 303.0
3 TraesCS7B01G004600 chr7B 88.079 151 17 1 516 665 636461735 636461585 9.290000e-41 178.0
4 TraesCS7B01G004600 chr4A 94.902 1726 70 9 668 2375 677732084 677730359 0.000000e+00 2684.0
5 TraesCS7B01G004600 chr4A 87.385 872 83 13 1420 2265 677735635 677736505 0.000000e+00 976.0
6 TraesCS7B01G004600 chr4A 95.402 348 16 0 1 348 677732963 677732616 3.670000e-154 555.0
7 TraesCS7B01G004600 chr4A 100.000 165 0 0 348 512 678221929 678221765 4.080000e-79 305.0
8 TraesCS7B01G004600 chr4A 98.256 172 3 0 347 518 606418131 606417960 5.280000e-78 302.0
9 TraesCS7B01G004600 chr4A 98.810 168 2 0 348 515 678221371 678221204 1.900000e-77 300.0
10 TraesCS7B01G004600 chr4A 93.333 165 10 1 512 675 677732630 677732466 3.250000e-60 243.0
11 TraesCS7B01G004600 chr4A 88.816 152 16 1 515 665 505496913 505497064 5.550000e-43 185.0
12 TraesCS7B01G004600 chr7A 91.365 1297 75 12 1033 2307 64210825 64209544 0.000000e+00 1740.0
13 TraesCS7B01G004600 chr7A 93.253 415 22 5 1280 1688 64268936 64269350 9.990000e-170 606.0
14 TraesCS7B01G004600 chr7A 81.089 661 61 27 669 1284 64256435 64257076 1.370000e-128 470.0
15 TraesCS7B01G004600 chr7A 98.824 170 2 0 348 517 29316910 29317079 1.470000e-78 303.0
16 TraesCS7B01G004600 chr7A 91.111 135 12 0 1144 1278 64217960 64217826 2.000000e-42 183.0
17 TraesCS7B01G004600 chr7A 97.143 35 1 0 2399 2433 64255303 64255269 3.510000e-05 60.2
18 TraesCS7B01G004600 chr6D 87.457 1459 130 35 948 2373 62425362 62423924 0.000000e+00 1631.0
19 TraesCS7B01G004600 chr6D 88.675 1351 115 20 948 2267 62325549 62324206 0.000000e+00 1613.0
20 TraesCS7B01G004600 chr6D 89.362 47 5 0 302 348 455310117 455310071 3.510000e-05 60.2
21 TraesCS7B01G004600 chr6B 88.058 1390 129 24 948 2307 135996717 135995335 0.000000e+00 1613.0
22 TraesCS7B01G004600 chr6B 87.908 1348 124 25 992 2310 136101405 136100068 0.000000e+00 1550.0
23 TraesCS7B01G004600 chr6B 89.375 640 65 3 2620 3257 681840292 681839654 0.000000e+00 802.0
24 TraesCS7B01G004600 chr6A 87.284 1392 126 33 948 2307 79815193 79813821 0.000000e+00 1543.0
25 TraesCS7B01G004600 chr6A 87.355 1376 132 22 964 2307 79703897 79702532 0.000000e+00 1539.0
26 TraesCS7B01G004600 chr2D 86.637 681 77 7 2584 3257 629482101 629482774 0.000000e+00 741.0
27 TraesCS7B01G004600 chr5B 86.719 640 69 7 2625 3257 102585943 102585313 0.000000e+00 697.0
28 TraesCS7B01G004600 chr5B 86.572 633 73 6 2632 3257 16626142 16626769 0.000000e+00 688.0
29 TraesCS7B01G004600 chr5B 86.414 633 70 7 2632 3257 16674306 16674929 0.000000e+00 678.0
30 TraesCS7B01G004600 chr5B 85.059 676 90 8 2584 3257 648685412 648684746 0.000000e+00 678.0
31 TraesCS7B01G004600 chr5B 86.169 629 75 6 2632 3253 16593982 16594605 0.000000e+00 669.0
32 TraesCS7B01G004600 chr5B 99.405 168 1 0 345 512 328243841 328244008 4.080000e-79 305.0
33 TraesCS7B01G004600 chr5B 87.417 151 17 2 516 665 479823693 479823544 4.320000e-39 172.0
34 TraesCS7B01G004600 chr5B 86.184 152 18 3 516 665 339424011 339424161 9.350000e-36 161.0
35 TraesCS7B01G004600 chr4B 85.866 658 84 7 2606 3257 25966276 25965622 0.000000e+00 691.0
36 TraesCS7B01G004600 chr2A 84.816 652 83 12 2611 3251 673147707 673147061 2.740000e-180 641.0
37 TraesCS7B01G004600 chr2A 86.755 151 19 1 516 665 36005187 36005337 2.010000e-37 167.0
38 TraesCS7B01G004600 chr3B 99.401 167 1 0 349 515 791088606 791088772 1.470000e-78 303.0
39 TraesCS7B01G004600 chr3B 86.755 151 19 1 516 665 707027102 707026952 2.010000e-37 167.0
40 TraesCS7B01G004600 chr1B 97.714 175 2 2 339 511 550674781 550674955 1.900000e-77 300.0
41 TraesCS7B01G004600 chr2B 97.688 173 4 0 339 511 465649581 465649753 6.830000e-77 298.0
42 TraesCS7B01G004600 chrUn 87.417 151 18 1 516 665 38971818 38971668 4.320000e-39 172.0
43 TraesCS7B01G004600 chr3D 87.417 151 17 2 516 665 295551689 295551540 4.320000e-39 172.0


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 TraesCS7B01G004600 chr7B 2333197 2336453 3256 False 6015.000000 6015 100.000000 1 3257 1 chr7B.!!$F1 3256
1 TraesCS7B01G004600 chr7B 2328386 2329366 980 True 1291.000000 1291 90.650000 1298 2266 1 chr7B.!!$R1 968
2 TraesCS7B01G004600 chr4A 677730359 677732963 2604 True 1160.666667 2684 94.545667 1 2375 3 chr4A.!!$R2 2374
3 TraesCS7B01G004600 chr4A 677735635 677736505 870 False 976.000000 976 87.385000 1420 2265 1 chr4A.!!$F2 845
4 TraesCS7B01G004600 chr4A 678221204 678221929 725 True 302.500000 305 99.405000 348 515 2 chr4A.!!$R3 167
5 TraesCS7B01G004600 chr7A 64209544 64210825 1281 True 1740.000000 1740 91.365000 1033 2307 1 chr7A.!!$R1 1274
6 TraesCS7B01G004600 chr7A 64256435 64257076 641 False 470.000000 470 81.089000 669 1284 1 chr7A.!!$F2 615
7 TraesCS7B01G004600 chr6D 62423924 62425362 1438 True 1631.000000 1631 87.457000 948 2373 1 chr6D.!!$R2 1425
8 TraesCS7B01G004600 chr6D 62324206 62325549 1343 True 1613.000000 1613 88.675000 948 2267 1 chr6D.!!$R1 1319
9 TraesCS7B01G004600 chr6B 135995335 135996717 1382 True 1613.000000 1613 88.058000 948 2307 1 chr6B.!!$R1 1359
10 TraesCS7B01G004600 chr6B 136100068 136101405 1337 True 1550.000000 1550 87.908000 992 2310 1 chr6B.!!$R2 1318
11 TraesCS7B01G004600 chr6B 681839654 681840292 638 True 802.000000 802 89.375000 2620 3257 1 chr6B.!!$R3 637
12 TraesCS7B01G004600 chr6A 79813821 79815193 1372 True 1543.000000 1543 87.284000 948 2307 1 chr6A.!!$R2 1359
13 TraesCS7B01G004600 chr6A 79702532 79703897 1365 True 1539.000000 1539 87.355000 964 2307 1 chr6A.!!$R1 1343
14 TraesCS7B01G004600 chr2D 629482101 629482774 673 False 741.000000 741 86.637000 2584 3257 1 chr2D.!!$F1 673
15 TraesCS7B01G004600 chr5B 102585313 102585943 630 True 697.000000 697 86.719000 2625 3257 1 chr5B.!!$R1 632
16 TraesCS7B01G004600 chr5B 16626142 16626769 627 False 688.000000 688 86.572000 2632 3257 1 chr5B.!!$F2 625
17 TraesCS7B01G004600 chr5B 16674306 16674929 623 False 678.000000 678 86.414000 2632 3257 1 chr5B.!!$F3 625
18 TraesCS7B01G004600 chr5B 648684746 648685412 666 True 678.000000 678 85.059000 2584 3257 1 chr5B.!!$R3 673
19 TraesCS7B01G004600 chr5B 16593982 16594605 623 False 669.000000 669 86.169000 2632 3253 1 chr5B.!!$F1 621
20 TraesCS7B01G004600 chr4B 25965622 25966276 654 True 691.000000 691 85.866000 2606 3257 1 chr4B.!!$R1 651
21 TraesCS7B01G004600 chr2A 673147061 673147707 646 True 641.000000 641 84.816000 2611 3251 1 chr2A.!!$R1 640

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
285 286 0.109735 GTCTTTGCTTGGGCGCTTAC 60.110 55.0 7.64 0.0 42.25 2.34 F
952 1380 0.391793 GCTTACCAGTCCAGTCCAGC 60.392 60.0 0.00 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1917 2491 0.399091 TCTCCCCAGAGCCGATGAAT 60.399 55.0 0.00 0.0 40.22 2.57 R
2577 3165 0.038166 GGAGTGGCTCCCAAATGTGA 59.962 55.0 3.89 0.0 44.36 3.58 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 2.642254 CCGTTCCACCACCGAGCTA 61.642 63.158 0.00 0.00 0.00 3.32
44 45 1.470996 GGTTTGCTGCCCATCCAACA 61.471 55.000 0.00 0.00 0.00 3.33
48 49 2.440147 CTGCCCATCCAACACCCA 59.560 61.111 0.00 0.00 0.00 4.51
98 99 1.895020 TTCATACGCTTGGCCGAGGT 61.895 55.000 22.06 18.46 0.00 3.85
165 166 2.558378 TCTGTACCGACTACCTCATCG 58.442 52.381 0.00 0.00 38.08 3.84
166 167 2.169144 TCTGTACCGACTACCTCATCGA 59.831 50.000 0.00 0.00 40.86 3.59
193 194 0.251165 GCTTTTGCCCAGGGTAGACA 60.251 55.000 7.55 0.00 40.15 3.41
213 214 0.560193 TAGCTCCTCCTCTGCCATCT 59.440 55.000 0.00 0.00 0.00 2.90
285 286 0.109735 GTCTTTGCTTGGGCGCTTAC 60.110 55.000 7.64 0.00 42.25 2.34
302 303 4.442706 GCTTACAGATTTGATCCTTCCGA 58.557 43.478 0.00 0.00 0.00 4.55
308 309 6.183347 ACAGATTTGATCCTTCCGATCTTTT 58.817 36.000 1.77 0.00 46.65 2.27
341 342 4.081420 ACTCTCTTCATTGGCGATAGTTGT 60.081 41.667 0.00 0.00 39.35 3.32
542 543 3.767673 TGTTCTAGTTCGCTGGTCCTATT 59.232 43.478 0.00 0.00 0.00 1.73
565 566 1.560923 CCTTAGCACGATGACTTCCG 58.439 55.000 0.00 0.00 0.00 4.30
567 568 2.223829 CCTTAGCACGATGACTTCCGAT 60.224 50.000 0.00 0.00 0.00 4.18
577 578 5.531659 ACGATGACTTCCGATTGTCTACTAT 59.468 40.000 0.00 0.00 34.57 2.12
580 581 7.534578 CGATGACTTCCGATTGTCTACTATAAC 59.465 40.741 0.00 0.00 34.57 1.89
599 600 1.073199 AAGGTTTGTCCGGCTCTGG 59.927 57.895 0.00 0.00 41.99 3.86
663 664 2.029290 AGTGTTGGTAGTCGTTGCTAGG 60.029 50.000 0.00 0.00 0.00 3.02
792 1195 2.690497 TCAAACCACAATTCTCGGCAAA 59.310 40.909 0.00 0.00 0.00 3.68
812 1233 1.780309 AGGAATTGACCCAGACCAACA 59.220 47.619 0.00 0.00 0.00 3.33
847 1268 2.284625 ATCACCCACTCCTCCGCA 60.285 61.111 0.00 0.00 0.00 5.69
952 1380 0.391793 GCTTACCAGTCCAGTCCAGC 60.392 60.000 0.00 0.00 0.00 4.85
1521 1999 2.208349 AGGCTGTGGAGGGAGGTT 59.792 61.111 0.00 0.00 0.00 3.50
1788 2362 2.725008 GAGGACGAGATGCGAGGG 59.275 66.667 0.00 0.00 44.57 4.30
1929 2503 0.389391 CCACGGTATTCATCGGCTCT 59.611 55.000 0.00 0.00 0.00 4.09
1932 2506 0.319900 CGGTATTCATCGGCTCTGGG 60.320 60.000 0.00 0.00 0.00 4.45
1936 2510 0.399091 ATTCATCGGCTCTGGGGAGA 60.399 55.000 0.00 0.00 41.86 3.71
2267 2848 2.530701 ACTCTTCTGATCCACCGACTT 58.469 47.619 0.00 0.00 0.00 3.01
2331 2918 9.847224 TCTCTTGTAAAGGTAGAAACTGAAATT 57.153 29.630 0.00 0.00 46.24 1.82
2383 2971 5.961396 TTCAATCCCAATTTTTGCAATGG 57.039 34.783 9.45 9.45 0.00 3.16
2386 2974 2.203470 CCCAATTTTTGCAATGGGCT 57.797 45.000 20.20 0.00 45.56 5.19
2387 2975 1.813786 CCCAATTTTTGCAATGGGCTG 59.186 47.619 20.20 6.10 45.56 4.85
2388 2976 2.552591 CCCAATTTTTGCAATGGGCTGA 60.553 45.455 20.20 0.00 45.56 4.26
2389 2977 2.745281 CCAATTTTTGCAATGGGCTGAG 59.255 45.455 8.66 0.00 45.15 3.35
2390 2978 2.103537 ATTTTTGCAATGGGCTGAGC 57.896 45.000 0.00 0.00 45.15 4.26
2391 2979 0.319727 TTTTTGCAATGGGCTGAGCG 60.320 50.000 0.00 0.00 45.15 5.03
2392 2980 2.157305 TTTTGCAATGGGCTGAGCGG 62.157 55.000 0.00 0.00 45.15 5.52
2395 2983 3.063704 CAATGGGCTGAGCGGCAA 61.064 61.111 1.45 0.00 40.61 4.52
2396 2984 2.283101 AATGGGCTGAGCGGCAAA 60.283 55.556 1.45 0.00 40.61 3.68
2397 2985 2.345760 AATGGGCTGAGCGGCAAAG 61.346 57.895 1.45 0.00 40.61 2.77
2398 2986 2.769652 AATGGGCTGAGCGGCAAAGA 62.770 55.000 1.45 0.00 40.61 2.52
2399 2987 2.439156 GGGCTGAGCGGCAAAGAT 60.439 61.111 1.45 0.00 40.61 2.40
2400 2988 2.768492 GGGCTGAGCGGCAAAGATG 61.768 63.158 1.45 0.00 40.61 2.90
2409 2997 3.667087 GCAAAGATGCGGTCCACA 58.333 55.556 0.00 0.00 43.83 4.17
2410 2998 1.210155 GCAAAGATGCGGTCCACAC 59.790 57.895 0.00 0.00 43.83 3.82
2411 2999 1.497278 CAAAGATGCGGTCCACACG 59.503 57.895 0.00 0.00 0.00 4.49
2418 3006 2.279851 CGGTCCACACGCACAAGA 60.280 61.111 0.00 0.00 0.00 3.02
2419 3007 1.885388 CGGTCCACACGCACAAGAA 60.885 57.895 0.00 0.00 0.00 2.52
2420 3008 1.647084 GGTCCACACGCACAAGAAC 59.353 57.895 0.00 0.00 0.00 3.01
2421 3009 1.092921 GGTCCACACGCACAAGAACA 61.093 55.000 0.00 0.00 0.00 3.18
2422 3010 0.944386 GTCCACACGCACAAGAACAT 59.056 50.000 0.00 0.00 0.00 2.71
2423 3011 0.943673 TCCACACGCACAAGAACATG 59.056 50.000 0.00 0.00 0.00 3.21
2424 3012 0.040157 CCACACGCACAAGAACATGG 60.040 55.000 0.00 0.00 0.00 3.66
2425 3013 0.040157 CACACGCACAAGAACATGGG 60.040 55.000 0.00 0.00 35.06 4.00
2426 3014 1.081242 CACGCACAAGAACATGGGC 60.081 57.895 0.00 0.00 46.37 5.36
2428 3016 3.354678 GCACAAGAACATGGGCGT 58.645 55.556 0.00 0.00 40.41 5.68
2429 3017 1.081242 GCACAAGAACATGGGCGTG 60.081 57.895 0.00 0.00 40.41 5.34
2430 3018 1.081242 CACAAGAACATGGGCGTGC 60.081 57.895 0.00 0.00 0.00 5.34
2431 3019 1.228245 ACAAGAACATGGGCGTGCT 60.228 52.632 0.00 0.00 0.00 4.40
2432 3020 0.823356 ACAAGAACATGGGCGTGCTT 60.823 50.000 0.00 0.00 34.93 3.91
2433 3021 0.387622 CAAGAACATGGGCGTGCTTG 60.388 55.000 0.00 0.00 44.21 4.01
2434 3022 1.526575 AAGAACATGGGCGTGCTTGG 61.527 55.000 0.00 0.00 33.24 3.61
2435 3023 1.971167 GAACATGGGCGTGCTTGGA 60.971 57.895 0.00 0.00 0.00 3.53
2436 3024 1.523154 GAACATGGGCGTGCTTGGAA 61.523 55.000 0.00 0.00 0.00 3.53
2437 3025 1.526575 AACATGGGCGTGCTTGGAAG 61.527 55.000 0.00 0.00 0.00 3.46
2438 3026 1.675310 CATGGGCGTGCTTGGAAGA 60.675 57.895 0.00 0.00 0.00 2.87
2439 3027 1.377725 ATGGGCGTGCTTGGAAGAG 60.378 57.895 0.00 0.00 0.00 2.85
2440 3028 3.435186 GGGCGTGCTTGGAAGAGC 61.435 66.667 0.00 0.00 43.00 4.09
2441 3029 3.435186 GGCGTGCTTGGAAGAGCC 61.435 66.667 5.58 5.58 42.01 4.70
2449 3037 3.636231 TGGAAGAGCCACCCACCG 61.636 66.667 0.00 0.00 43.33 4.94
2450 3038 3.637273 GGAAGAGCCACCCACCGT 61.637 66.667 0.00 0.00 36.34 4.83
2451 3039 2.047179 GAAGAGCCACCCACCGTC 60.047 66.667 0.00 0.00 0.00 4.79
2452 3040 2.526873 AAGAGCCACCCACCGTCT 60.527 61.111 0.00 0.00 0.00 4.18
2453 3041 2.508586 GAAGAGCCACCCACCGTCTC 62.509 65.000 0.00 0.00 0.00 3.36
2454 3042 3.311110 GAGCCACCCACCGTCTCA 61.311 66.667 0.00 0.00 0.00 3.27
2455 3043 3.591254 GAGCCACCCACCGTCTCAC 62.591 68.421 0.00 0.00 0.00 3.51
2456 3044 3.936203 GCCACCCACCGTCTCACA 61.936 66.667 0.00 0.00 0.00 3.58
2457 3045 2.030562 CCACCCACCGTCTCACAC 59.969 66.667 0.00 0.00 0.00 3.82
2458 3046 2.507854 CCACCCACCGTCTCACACT 61.508 63.158 0.00 0.00 0.00 3.55
2459 3047 1.183030 CCACCCACCGTCTCACACTA 61.183 60.000 0.00 0.00 0.00 2.74
2460 3048 0.243907 CACCCACCGTCTCACACTAG 59.756 60.000 0.00 0.00 0.00 2.57
2461 3049 0.178970 ACCCACCGTCTCACACTAGT 60.179 55.000 0.00 0.00 0.00 2.57
2462 3050 0.966920 CCCACCGTCTCACACTAGTT 59.033 55.000 0.00 0.00 0.00 2.24
2463 3051 1.343465 CCCACCGTCTCACACTAGTTT 59.657 52.381 0.00 0.00 0.00 2.66
2464 3052 2.404215 CCACCGTCTCACACTAGTTTG 58.596 52.381 2.43 2.43 0.00 2.93
2465 3053 2.223971 CCACCGTCTCACACTAGTTTGT 60.224 50.000 8.81 0.00 0.00 2.83
2466 3054 3.454375 CACCGTCTCACACTAGTTTGTT 58.546 45.455 8.81 0.00 0.00 2.83
2467 3055 3.869246 CACCGTCTCACACTAGTTTGTTT 59.131 43.478 8.81 0.00 0.00 2.83
2468 3056 4.025979 CACCGTCTCACACTAGTTTGTTTC 60.026 45.833 8.81 0.85 0.00 2.78
2469 3057 4.142004 ACCGTCTCACACTAGTTTGTTTCT 60.142 41.667 8.81 0.00 0.00 2.52
2470 3058 4.209288 CCGTCTCACACTAGTTTGTTTCTG 59.791 45.833 8.81 0.00 0.00 3.02
2471 3059 4.804139 CGTCTCACACTAGTTTGTTTCTGT 59.196 41.667 8.81 0.00 0.00 3.41
2472 3060 5.291128 CGTCTCACACTAGTTTGTTTCTGTT 59.709 40.000 8.81 0.00 0.00 3.16
2473 3061 6.508088 CGTCTCACACTAGTTTGTTTCTGTTC 60.508 42.308 8.81 0.00 0.00 3.18
2474 3062 6.312918 GTCTCACACTAGTTTGTTTCTGTTCA 59.687 38.462 8.81 0.00 0.00 3.18
2475 3063 7.011482 GTCTCACACTAGTTTGTTTCTGTTCAT 59.989 37.037 8.81 0.00 0.00 2.57
2476 3064 8.201464 TCTCACACTAGTTTGTTTCTGTTCATA 58.799 33.333 8.81 0.00 0.00 2.15
2477 3065 8.138365 TCACACTAGTTTGTTTCTGTTCATAC 57.862 34.615 8.81 0.00 0.00 2.39
2478 3066 7.766738 TCACACTAGTTTGTTTCTGTTCATACA 59.233 33.333 8.81 0.00 0.00 2.29
2479 3067 8.394877 CACACTAGTTTGTTTCTGTTCATACAA 58.605 33.333 0.60 0.00 32.92 2.41
2480 3068 8.952278 ACACTAGTTTGTTTCTGTTCATACAAA 58.048 29.630 0.00 0.00 37.95 2.83
2481 3069 9.950680 CACTAGTTTGTTTCTGTTCATACAAAT 57.049 29.630 0.00 0.00 41.06 2.32
2517 3105 8.677300 TCATTTACAAGAGAATTTGTAGATGGC 58.323 33.333 20.09 0.00 46.07 4.40
2518 3106 7.391148 TTTACAAGAGAATTTGTAGATGGCC 57.609 36.000 0.00 0.00 42.59 5.36
2519 3107 5.184892 ACAAGAGAATTTGTAGATGGCCT 57.815 39.130 3.32 0.00 39.40 5.19
2520 3108 5.574188 ACAAGAGAATTTGTAGATGGCCTT 58.426 37.500 3.32 0.00 39.40 4.35
2521 3109 5.416952 ACAAGAGAATTTGTAGATGGCCTTG 59.583 40.000 3.32 0.00 39.40 3.61
2522 3110 3.950395 AGAGAATTTGTAGATGGCCTTGC 59.050 43.478 3.32 0.00 0.00 4.01
2523 3111 3.696051 GAGAATTTGTAGATGGCCTTGCA 59.304 43.478 3.32 0.00 0.00 4.08
2524 3112 3.698040 AGAATTTGTAGATGGCCTTGCAG 59.302 43.478 3.32 0.00 0.00 4.41
2525 3113 2.584835 TTTGTAGATGGCCTTGCAGT 57.415 45.000 3.32 0.00 0.00 4.40
2526 3114 2.113860 TTGTAGATGGCCTTGCAGTC 57.886 50.000 3.32 0.00 0.00 3.51
2527 3115 0.253044 TGTAGATGGCCTTGCAGTCC 59.747 55.000 3.32 0.00 0.00 3.85
2528 3116 0.811616 GTAGATGGCCTTGCAGTCCG 60.812 60.000 3.32 0.00 0.00 4.79
2529 3117 1.264749 TAGATGGCCTTGCAGTCCGT 61.265 55.000 3.32 0.00 0.00 4.69
2530 3118 2.045926 ATGGCCTTGCAGTCCGTC 60.046 61.111 3.32 0.00 0.00 4.79
2531 3119 2.803155 GATGGCCTTGCAGTCCGTCA 62.803 60.000 3.32 0.97 36.25 4.35
2532 3120 2.743928 GGCCTTGCAGTCCGTCAG 60.744 66.667 0.00 0.00 0.00 3.51
2533 3121 2.343758 GCCTTGCAGTCCGTCAGA 59.656 61.111 0.00 0.00 0.00 3.27
2534 3122 1.739562 GCCTTGCAGTCCGTCAGAG 60.740 63.158 0.00 0.00 0.00 3.35
2535 3123 1.967535 CCTTGCAGTCCGTCAGAGA 59.032 57.895 0.00 0.00 0.00 3.10
2536 3124 0.389166 CCTTGCAGTCCGTCAGAGAC 60.389 60.000 0.00 0.00 34.31 3.36
2547 3135 1.535833 GTCAGAGACGAGGACAAGGA 58.464 55.000 0.00 0.00 0.00 3.36
2548 3136 1.887198 GTCAGAGACGAGGACAAGGAA 59.113 52.381 0.00 0.00 0.00 3.36
2549 3137 2.494073 GTCAGAGACGAGGACAAGGAAT 59.506 50.000 0.00 0.00 0.00 3.01
2550 3138 3.056465 GTCAGAGACGAGGACAAGGAATT 60.056 47.826 0.00 0.00 0.00 2.17
2551 3139 3.578716 TCAGAGACGAGGACAAGGAATTT 59.421 43.478 0.00 0.00 0.00 1.82
2552 3140 3.681897 CAGAGACGAGGACAAGGAATTTG 59.318 47.826 0.00 0.00 42.68 2.32
2553 3141 2.416893 GAGACGAGGACAAGGAATTTGC 59.583 50.000 0.00 0.00 40.59 3.68
2554 3142 1.468914 GACGAGGACAAGGAATTTGCC 59.531 52.381 0.00 0.00 40.59 4.52
2555 3143 0.447801 CGAGGACAAGGAATTTGCCG 59.552 55.000 0.00 0.00 40.59 5.69
2556 3144 0.811281 GAGGACAAGGAATTTGCCGG 59.189 55.000 0.00 0.00 40.59 6.13
2557 3145 0.611896 AGGACAAGGAATTTGCCGGG 60.612 55.000 2.18 0.00 40.59 5.73
2558 3146 0.610785 GGACAAGGAATTTGCCGGGA 60.611 55.000 2.18 0.00 40.59 5.14
2559 3147 1.253100 GACAAGGAATTTGCCGGGAA 58.747 50.000 3.37 3.37 40.59 3.97
2560 3148 1.824852 GACAAGGAATTTGCCGGGAAT 59.175 47.619 10.01 0.00 40.59 3.01
2561 3149 1.824852 ACAAGGAATTTGCCGGGAATC 59.175 47.619 10.01 4.81 40.59 2.52
2562 3150 2.102578 CAAGGAATTTGCCGGGAATCT 58.897 47.619 10.01 0.00 0.00 2.40
2563 3151 2.058593 AGGAATTTGCCGGGAATCTC 57.941 50.000 10.01 9.09 0.00 2.75
2564 3152 1.566231 AGGAATTTGCCGGGAATCTCT 59.434 47.619 10.01 2.37 0.00 3.10
2565 3153 2.024941 AGGAATTTGCCGGGAATCTCTT 60.025 45.455 10.01 2.66 0.00 2.85
2566 3154 2.760650 GGAATTTGCCGGGAATCTCTTT 59.239 45.455 10.01 0.00 0.00 2.52
2567 3155 3.195610 GGAATTTGCCGGGAATCTCTTTT 59.804 43.478 10.01 0.00 0.00 2.27
2568 3156 4.401202 GGAATTTGCCGGGAATCTCTTTTA 59.599 41.667 10.01 0.00 0.00 1.52
2569 3157 5.450550 GGAATTTGCCGGGAATCTCTTTTAG 60.451 44.000 10.01 0.00 0.00 1.85
2570 3158 2.710096 TGCCGGGAATCTCTTTTAGG 57.290 50.000 2.18 0.00 0.00 2.69
2571 3159 1.309950 GCCGGGAATCTCTTTTAGGC 58.690 55.000 2.18 0.00 36.32 3.93
2572 3160 1.583054 CCGGGAATCTCTTTTAGGCG 58.417 55.000 0.00 0.00 0.00 5.52
2573 3161 1.138266 CCGGGAATCTCTTTTAGGCGA 59.862 52.381 0.00 0.00 0.00 5.54
2574 3162 2.202566 CGGGAATCTCTTTTAGGCGAC 58.797 52.381 0.00 0.00 0.00 5.19
2575 3163 2.562635 GGGAATCTCTTTTAGGCGACC 58.437 52.381 0.00 0.00 0.00 4.79
2576 3164 2.562635 GGAATCTCTTTTAGGCGACCC 58.437 52.381 0.00 0.00 0.00 4.46
2577 3165 2.170817 GGAATCTCTTTTAGGCGACCCT 59.829 50.000 0.00 0.00 45.61 4.34
2578 3166 3.459145 GAATCTCTTTTAGGCGACCCTC 58.541 50.000 0.00 0.00 41.75 4.30
2579 3167 1.933021 TCTCTTTTAGGCGACCCTCA 58.067 50.000 0.00 0.00 41.75 3.86
2580 3168 1.549170 TCTCTTTTAGGCGACCCTCAC 59.451 52.381 0.00 0.00 41.75 3.51
2581 3169 1.275291 CTCTTTTAGGCGACCCTCACA 59.725 52.381 0.00 0.00 41.75 3.58
2582 3170 1.906574 TCTTTTAGGCGACCCTCACAT 59.093 47.619 0.00 0.00 41.75 3.21
2588 3176 1.002624 GCGACCCTCACATTTGGGA 60.003 57.895 4.93 0.00 46.15 4.37
2591 3179 0.681243 GACCCTCACATTTGGGAGCC 60.681 60.000 4.22 0.00 44.07 4.70
2603 3191 2.434359 GGAGCCACTCCGTTTCCG 60.434 66.667 0.00 0.00 41.08 4.30
2604 3192 2.654877 GAGCCACTCCGTTTCCGA 59.345 61.111 0.00 0.00 35.63 4.55
2616 3204 2.933401 TTTCCGATCGTCGCCCACA 61.933 57.895 15.09 0.00 38.82 4.17
2618 3206 2.433491 CCGATCGTCGCCCACAAA 60.433 61.111 15.09 0.00 38.82 2.83
2676 3266 1.933853 GCAAACTCGGCGATCTGTTAT 59.066 47.619 11.27 0.19 0.00 1.89
2747 3346 3.302365 AACTACGGCAAACTACGCTAA 57.698 42.857 0.00 0.00 0.00 3.09
2762 3362 1.444895 CTAACCACTACGCCGCGTT 60.445 57.895 25.47 7.29 41.54 4.84
2765 3365 2.508439 CCACTACGCCGCGTTCAT 60.508 61.111 25.47 7.09 41.54 2.57
2766 3366 2.695055 CACTACGCCGCGTTCATG 59.305 61.111 25.47 15.55 41.54 3.07
2873 3488 1.384643 GAGCTACCCCCATCCCTGT 60.385 63.158 0.00 0.00 0.00 4.00
2962 3582 2.748647 TCGAGGACGATGACGCCA 60.749 61.111 0.00 0.00 43.81 5.69
3099 3720 1.667830 CCACCATGTCGACGTGCTT 60.668 57.895 28.61 16.45 0.00 3.91
3108 3729 2.094659 CGACGTGCTTCGGCTTCAT 61.095 57.895 0.00 0.00 46.75 2.57
3253 3875 1.006571 GGCTTGACGTGACGGAGAA 60.007 57.895 10.66 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.388499 CTCGGTGGTGGAACGGGG 62.388 72.222 0.00 0.00 38.12 5.73
13 14 1.003718 GCAAACCTAGCTCGGTGGT 60.004 57.895 11.25 2.73 37.36 4.16
24 25 1.155859 TTGGATGGGCAGCAAACCT 59.844 52.632 0.00 0.00 0.00 3.50
165 166 1.735571 CTGGGCAAAAGCAATGCAATC 59.264 47.619 8.35 0.00 45.60 2.67
166 167 1.612199 CCTGGGCAAAAGCAATGCAAT 60.612 47.619 8.35 0.00 45.60 3.56
193 194 1.149711 AGATGGCAGAGGAGGAGCTAT 59.850 52.381 0.00 0.00 31.88 2.97
308 309 4.273724 CCAATGAAGAGAGTCGTAGATCGA 59.726 45.833 0.00 0.00 46.83 3.59
316 317 2.215907 ATCGCCAATGAAGAGAGTCG 57.784 50.000 0.00 0.00 0.00 4.18
341 342 1.070786 GCCCACGTCCTCAGAACAA 59.929 57.895 0.00 0.00 0.00 2.83
509 510 6.145534 CAGCGAACTAGAACAACAACTATCAA 59.854 38.462 0.00 0.00 0.00 2.57
510 511 5.633601 CAGCGAACTAGAACAACAACTATCA 59.366 40.000 0.00 0.00 0.00 2.15
511 512 5.062308 CCAGCGAACTAGAACAACAACTATC 59.938 44.000 0.00 0.00 0.00 2.08
512 513 4.929808 CCAGCGAACTAGAACAACAACTAT 59.070 41.667 0.00 0.00 0.00 2.12
513 514 4.202182 ACCAGCGAACTAGAACAACAACTA 60.202 41.667 0.00 0.00 0.00 2.24
514 515 3.131396 CCAGCGAACTAGAACAACAACT 58.869 45.455 0.00 0.00 0.00 3.16
515 516 2.870411 ACCAGCGAACTAGAACAACAAC 59.130 45.455 0.00 0.00 0.00 3.32
542 543 1.220749 GTCATCGTGCTAAGGCCCA 59.779 57.895 0.00 0.00 37.74 5.36
565 566 8.880750 GGACAAACCTTGTTATAGTAGACAATC 58.119 37.037 3.23 0.00 45.52 2.67
567 568 6.869913 CGGACAAACCTTGTTATAGTAGACAA 59.130 38.462 0.00 2.90 45.52 3.18
577 578 1.418637 AGAGCCGGACAAACCTTGTTA 59.581 47.619 5.05 0.00 45.52 2.41
580 581 1.237285 CCAGAGCCGGACAAACCTTG 61.237 60.000 5.05 0.00 36.31 3.61
599 600 1.663074 GTCATCGCCCATCTCTCGC 60.663 63.158 0.00 0.00 0.00 5.03
672 673 9.530129 CAGTTTGACAAAGTATCTATTTCGTTC 57.470 33.333 7.93 0.00 0.00 3.95
792 1195 1.780309 TGTTGGTCTGGGTCAATTCCT 59.220 47.619 0.00 0.00 0.00 3.36
812 1233 2.292267 GATGGATTTGACCGAGCATGT 58.708 47.619 0.00 0.00 0.00 3.21
847 1268 1.636148 TATTTATAGGTCGGGCGCCT 58.364 50.000 28.56 8.66 40.00 5.52
850 1271 3.389925 TGGTTATTTATAGGTCGGGCG 57.610 47.619 0.00 0.00 0.00 6.13
952 1380 1.135575 GCTTCGTTTGCTTCCTGGATG 60.136 52.381 0.00 0.31 0.00 3.51
1547 2025 4.814294 CCCTGGTCGTAGGTGCGC 62.814 72.222 0.00 0.00 36.02 6.09
1548 2026 4.814294 GCCCTGGTCGTAGGTGCG 62.814 72.222 0.00 0.00 36.02 5.34
1550 2028 4.143333 CGGCCCTGGTCGTAGGTG 62.143 72.222 1.15 0.00 38.54 4.00
1695 2257 1.166531 AGTTGTTGGGCTGCTTCGAC 61.167 55.000 0.00 3.49 0.00 4.20
1788 2362 1.202746 GCCTTGATGACCCTCAGGATC 60.203 57.143 0.00 0.00 36.73 3.36
1917 2491 0.399091 TCTCCCCAGAGCCGATGAAT 60.399 55.000 0.00 0.00 40.22 2.57
2055 2629 2.366916 CTCCTGGATCTTGCGGTAGAAT 59.633 50.000 0.00 0.00 0.00 2.40
2226 2807 1.663695 TCCCGGCGAATTCTTTGATC 58.336 50.000 9.30 0.00 0.00 2.92
2232 2813 0.613777 AGAGTTTCCCGGCGAATTCT 59.386 50.000 9.30 3.51 0.00 2.40
2375 2963 3.063704 CCGCTCAGCCCATTGCAA 61.064 61.111 0.00 0.00 44.83 4.08
2378 2966 2.552585 CTTTGCCGCTCAGCCCATTG 62.553 60.000 0.00 0.00 0.00 2.82
2379 2967 2.283101 TTTGCCGCTCAGCCCATT 60.283 55.556 0.00 0.00 0.00 3.16
2380 2968 2.563013 ATCTTTGCCGCTCAGCCCAT 62.563 55.000 0.00 0.00 0.00 4.00
2381 2969 3.272364 ATCTTTGCCGCTCAGCCCA 62.272 57.895 0.00 0.00 0.00 5.36
2382 2970 2.439156 ATCTTTGCCGCTCAGCCC 60.439 61.111 0.00 0.00 0.00 5.19
2383 2971 2.796651 CATCTTTGCCGCTCAGCC 59.203 61.111 0.00 0.00 0.00 4.85
2384 2972 2.101770 GCATCTTTGCCGCTCAGC 59.898 61.111 0.00 0.00 43.38 4.26
2385 2973 2.402388 CGCATCTTTGCCGCTCAG 59.598 61.111 0.00 0.00 46.57 3.35
2386 2974 3.126879 CCGCATCTTTGCCGCTCA 61.127 61.111 0.00 0.00 46.57 4.26
2387 2975 3.100862 GACCGCATCTTTGCCGCTC 62.101 63.158 0.00 0.00 46.57 5.03
2388 2976 3.127533 GACCGCATCTTTGCCGCT 61.128 61.111 0.00 0.00 46.57 5.52
2389 2977 4.179579 GGACCGCATCTTTGCCGC 62.180 66.667 0.00 0.00 46.57 6.53
2390 2978 2.745884 TGGACCGCATCTTTGCCG 60.746 61.111 0.00 0.00 46.57 5.69
2391 2979 1.971167 TGTGGACCGCATCTTTGCC 60.971 57.895 2.83 0.00 46.57 4.52
2392 2980 1.210155 GTGTGGACCGCATCTTTGC 59.790 57.895 11.69 0.00 45.78 3.68
2393 2981 1.497278 CGTGTGGACCGCATCTTTG 59.503 57.895 11.69 0.00 0.00 2.77
2394 2982 3.966215 CGTGTGGACCGCATCTTT 58.034 55.556 11.69 0.00 0.00 2.52
2401 2989 1.885388 TTCTTGTGCGTGTGGACCG 60.885 57.895 0.00 0.00 35.21 4.79
2402 2990 1.092921 TGTTCTTGTGCGTGTGGACC 61.093 55.000 0.00 0.00 35.21 4.46
2403 2991 0.944386 ATGTTCTTGTGCGTGTGGAC 59.056 50.000 0.00 0.00 36.89 4.02
2404 2992 0.943673 CATGTTCTTGTGCGTGTGGA 59.056 50.000 0.00 0.00 0.00 4.02
2405 2993 0.040157 CCATGTTCTTGTGCGTGTGG 60.040 55.000 0.00 0.00 0.00 4.17
2406 2994 0.040157 CCCATGTTCTTGTGCGTGTG 60.040 55.000 0.00 0.00 0.00 3.82
2407 2995 1.795170 GCCCATGTTCTTGTGCGTGT 61.795 55.000 0.00 0.00 0.00 4.49
2408 2996 1.081242 GCCCATGTTCTTGTGCGTG 60.081 57.895 0.00 0.00 0.00 5.34
2409 2997 2.616330 CGCCCATGTTCTTGTGCGT 61.616 57.895 7.20 0.00 37.44 5.24
2410 2998 2.176546 CGCCCATGTTCTTGTGCG 59.823 61.111 0.00 2.13 35.81 5.34
2411 2999 1.081242 CACGCCCATGTTCTTGTGC 60.081 57.895 0.00 0.00 0.00 4.57
2412 3000 1.081242 GCACGCCCATGTTCTTGTG 60.081 57.895 0.00 0.00 0.00 3.33
2413 3001 0.823356 AAGCACGCCCATGTTCTTGT 60.823 50.000 0.00 0.00 0.00 3.16
2414 3002 0.387622 CAAGCACGCCCATGTTCTTG 60.388 55.000 0.00 0.00 36.91 3.02
2415 3003 1.526575 CCAAGCACGCCCATGTTCTT 61.527 55.000 0.00 0.00 0.00 2.52
2416 3004 1.973281 CCAAGCACGCCCATGTTCT 60.973 57.895 0.00 0.00 0.00 3.01
2417 3005 1.523154 TTCCAAGCACGCCCATGTTC 61.523 55.000 0.00 0.00 0.00 3.18
2418 3006 1.526575 CTTCCAAGCACGCCCATGTT 61.527 55.000 0.00 0.00 0.00 2.71
2419 3007 1.973281 CTTCCAAGCACGCCCATGT 60.973 57.895 0.00 0.00 0.00 3.21
2420 3008 1.651240 CTCTTCCAAGCACGCCCATG 61.651 60.000 0.00 0.00 0.00 3.66
2421 3009 1.377725 CTCTTCCAAGCACGCCCAT 60.378 57.895 0.00 0.00 0.00 4.00
2422 3010 2.032528 CTCTTCCAAGCACGCCCA 59.967 61.111 0.00 0.00 0.00 5.36
2423 3011 3.435186 GCTCTTCCAAGCACGCCC 61.435 66.667 0.00 0.00 42.05 6.13
2424 3012 3.435186 GGCTCTTCCAAGCACGCC 61.435 66.667 0.00 0.00 44.35 5.68
2425 3013 2.669569 TGGCTCTTCCAAGCACGC 60.670 61.111 0.00 0.00 43.21 5.34
2432 3020 3.636231 CGGTGGGTGGCTCTTCCA 61.636 66.667 0.00 0.00 44.18 3.53
2433 3021 3.607370 GACGGTGGGTGGCTCTTCC 62.607 68.421 0.00 0.00 0.00 3.46
2434 3022 2.047179 GACGGTGGGTGGCTCTTC 60.047 66.667 0.00 0.00 0.00 2.87
2435 3023 2.526873 AGACGGTGGGTGGCTCTT 60.527 61.111 0.00 0.00 0.00 2.85
2436 3024 2.997897 GAGACGGTGGGTGGCTCT 60.998 66.667 0.00 0.00 0.00 4.09
2437 3025 3.311110 TGAGACGGTGGGTGGCTC 61.311 66.667 0.00 0.00 0.00 4.70
2438 3026 3.626924 GTGAGACGGTGGGTGGCT 61.627 66.667 0.00 0.00 0.00 4.75
2439 3027 3.936203 TGTGAGACGGTGGGTGGC 61.936 66.667 0.00 0.00 0.00 5.01
2440 3028 1.183030 TAGTGTGAGACGGTGGGTGG 61.183 60.000 0.00 0.00 0.00 4.61
2441 3029 0.243907 CTAGTGTGAGACGGTGGGTG 59.756 60.000 0.00 0.00 0.00 4.61
2442 3030 0.178970 ACTAGTGTGAGACGGTGGGT 60.179 55.000 0.00 0.00 0.00 4.51
2443 3031 0.966920 AACTAGTGTGAGACGGTGGG 59.033 55.000 0.00 0.00 0.00 4.61
2444 3032 2.223971 ACAAACTAGTGTGAGACGGTGG 60.224 50.000 20.22 0.00 0.00 4.61
2445 3033 3.093717 ACAAACTAGTGTGAGACGGTG 57.906 47.619 20.22 0.00 0.00 4.94
2446 3034 3.814005 AACAAACTAGTGTGAGACGGT 57.186 42.857 20.22 0.00 0.00 4.83
2447 3035 4.209288 CAGAAACAAACTAGTGTGAGACGG 59.791 45.833 20.22 6.90 0.00 4.79
2448 3036 4.804139 ACAGAAACAAACTAGTGTGAGACG 59.196 41.667 20.22 6.41 0.00 4.18
2449 3037 6.312918 TGAACAGAAACAAACTAGTGTGAGAC 59.687 38.462 20.22 9.48 0.00 3.36
2450 3038 6.403049 TGAACAGAAACAAACTAGTGTGAGA 58.597 36.000 20.22 0.00 0.00 3.27
2451 3039 6.662414 TGAACAGAAACAAACTAGTGTGAG 57.338 37.500 20.22 6.40 0.00 3.51
2452 3040 7.766738 TGTATGAACAGAAACAAACTAGTGTGA 59.233 33.333 20.22 0.00 0.00 3.58
2453 3041 7.915508 TGTATGAACAGAAACAAACTAGTGTG 58.084 34.615 11.74 11.74 0.00 3.82
2454 3042 8.500753 TTGTATGAACAGAAACAAACTAGTGT 57.499 30.769 0.00 0.00 36.83 3.55
2455 3043 9.950680 ATTTGTATGAACAGAAACAAACTAGTG 57.049 29.630 0.00 0.00 42.66 2.74
2491 3079 8.677300 GCCATCTACAAATTCTCTTGTAAATGA 58.323 33.333 10.08 0.80 40.41 2.57
2492 3080 7.917505 GGCCATCTACAAATTCTCTTGTAAATG 59.082 37.037 0.00 3.78 40.38 2.32
2493 3081 7.836183 AGGCCATCTACAAATTCTCTTGTAAAT 59.164 33.333 5.01 0.00 40.38 1.40
2494 3082 7.175104 AGGCCATCTACAAATTCTCTTGTAAA 58.825 34.615 5.01 0.00 40.38 2.01
2495 3083 6.721318 AGGCCATCTACAAATTCTCTTGTAA 58.279 36.000 5.01 0.00 40.38 2.41
2496 3084 6.313519 AGGCCATCTACAAATTCTCTTGTA 57.686 37.500 5.01 0.00 40.08 2.41
2497 3085 5.184892 AGGCCATCTACAAATTCTCTTGT 57.815 39.130 5.01 0.00 42.20 3.16
2498 3086 5.678107 GCAAGGCCATCTACAAATTCTCTTG 60.678 44.000 5.01 0.00 0.00 3.02
2499 3087 4.400567 GCAAGGCCATCTACAAATTCTCTT 59.599 41.667 5.01 0.00 0.00 2.85
2500 3088 3.950395 GCAAGGCCATCTACAAATTCTCT 59.050 43.478 5.01 0.00 0.00 3.10
2501 3089 3.696051 TGCAAGGCCATCTACAAATTCTC 59.304 43.478 5.01 0.00 0.00 2.87
2502 3090 3.698040 CTGCAAGGCCATCTACAAATTCT 59.302 43.478 5.01 0.00 0.00 2.40
2503 3091 3.445096 ACTGCAAGGCCATCTACAAATTC 59.555 43.478 5.01 0.00 39.30 2.17
2504 3092 3.434309 ACTGCAAGGCCATCTACAAATT 58.566 40.909 5.01 0.00 39.30 1.82
2505 3093 3.019564 GACTGCAAGGCCATCTACAAAT 58.980 45.455 5.01 0.00 33.95 2.32
2506 3094 2.436417 GACTGCAAGGCCATCTACAAA 58.564 47.619 5.01 0.00 33.95 2.83
2507 3095 2.113860 GACTGCAAGGCCATCTACAA 57.886 50.000 5.01 0.00 33.95 2.41
2508 3096 3.861341 GACTGCAAGGCCATCTACA 57.139 52.632 5.01 0.00 33.95 2.74
2509 3097 3.445331 ACGGACTGCAAGGCCATCTAC 62.445 57.143 5.01 0.00 0.00 2.59
2510 3098 1.264749 ACGGACTGCAAGGCCATCTA 61.265 55.000 5.01 0.00 0.00 1.98
2511 3099 2.527951 GACGGACTGCAAGGCCATCT 62.528 60.000 5.01 0.00 0.00 2.90
2512 3100 2.045926 ACGGACTGCAAGGCCATC 60.046 61.111 5.01 0.00 0.00 3.51
2516 3104 1.739562 CTCTGACGGACTGCAAGGC 60.740 63.158 0.00 0.00 46.31 4.35
2517 3105 0.389166 GTCTCTGACGGACTGCAAGG 60.389 60.000 0.00 0.00 39.30 3.61
2518 3106 3.114558 GTCTCTGACGGACTGCAAG 57.885 57.895 0.00 0.00 42.29 4.01
2528 3116 1.535833 TCCTTGTCCTCGTCTCTGAC 58.464 55.000 0.00 0.00 0.00 3.51
2529 3117 2.287977 TTCCTTGTCCTCGTCTCTGA 57.712 50.000 0.00 0.00 0.00 3.27
2530 3118 3.601443 AATTCCTTGTCCTCGTCTCTG 57.399 47.619 0.00 0.00 0.00 3.35
2531 3119 3.866449 GCAAATTCCTTGTCCTCGTCTCT 60.866 47.826 0.00 0.00 37.36 3.10
2532 3120 2.416893 GCAAATTCCTTGTCCTCGTCTC 59.583 50.000 0.00 0.00 37.36 3.36
2533 3121 2.427506 GCAAATTCCTTGTCCTCGTCT 58.572 47.619 0.00 0.00 37.36 4.18
2534 3122 1.468914 GGCAAATTCCTTGTCCTCGTC 59.531 52.381 0.00 0.00 37.36 4.20
2535 3123 1.534729 GGCAAATTCCTTGTCCTCGT 58.465 50.000 0.00 0.00 37.36 4.18
2536 3124 0.447801 CGGCAAATTCCTTGTCCTCG 59.552 55.000 0.00 0.00 36.17 4.63
2537 3125 0.811281 CCGGCAAATTCCTTGTCCTC 59.189 55.000 0.00 0.00 36.17 3.71
2538 3126 0.611896 CCCGGCAAATTCCTTGTCCT 60.612 55.000 0.00 0.00 36.17 3.85
2539 3127 0.610785 TCCCGGCAAATTCCTTGTCC 60.611 55.000 0.00 0.00 36.17 4.02
2540 3128 1.253100 TTCCCGGCAAATTCCTTGTC 58.747 50.000 0.00 0.00 37.36 3.18
2541 3129 1.824852 GATTCCCGGCAAATTCCTTGT 59.175 47.619 0.00 0.00 37.36 3.16
2542 3130 2.099756 GAGATTCCCGGCAAATTCCTTG 59.900 50.000 0.00 0.00 38.15 3.61
2543 3131 2.024941 AGAGATTCCCGGCAAATTCCTT 60.025 45.455 0.00 0.00 0.00 3.36
2544 3132 1.566231 AGAGATTCCCGGCAAATTCCT 59.434 47.619 0.00 0.00 0.00 3.36
2545 3133 2.058593 AGAGATTCCCGGCAAATTCC 57.941 50.000 0.00 0.00 0.00 3.01
2546 3134 4.456280 AAAAGAGATTCCCGGCAAATTC 57.544 40.909 0.00 0.00 0.00 2.17
2547 3135 4.402474 CCTAAAAGAGATTCCCGGCAAATT 59.598 41.667 0.00 0.00 0.00 1.82
2548 3136 3.954258 CCTAAAAGAGATTCCCGGCAAAT 59.046 43.478 0.00 0.00 0.00 2.32
2549 3137 3.352648 CCTAAAAGAGATTCCCGGCAAA 58.647 45.455 0.00 0.00 0.00 3.68
2550 3138 2.944094 GCCTAAAAGAGATTCCCGGCAA 60.944 50.000 0.00 0.00 36.37 4.52
2551 3139 1.408266 GCCTAAAAGAGATTCCCGGCA 60.408 52.381 0.00 0.00 36.37 5.69
2552 3140 1.309950 GCCTAAAAGAGATTCCCGGC 58.690 55.000 0.00 0.00 0.00 6.13
2553 3141 1.138266 TCGCCTAAAAGAGATTCCCGG 59.862 52.381 0.00 0.00 0.00 5.73
2554 3142 2.202566 GTCGCCTAAAAGAGATTCCCG 58.797 52.381 0.00 0.00 0.00 5.14
2555 3143 2.562635 GGTCGCCTAAAAGAGATTCCC 58.437 52.381 0.00 0.00 0.00 3.97
2556 3144 2.170817 AGGGTCGCCTAAAAGAGATTCC 59.829 50.000 0.00 0.00 0.00 3.01
2557 3145 3.118738 TGAGGGTCGCCTAAAAGAGATTC 60.119 47.826 0.00 0.00 0.00 2.52
2558 3146 2.838202 TGAGGGTCGCCTAAAAGAGATT 59.162 45.455 0.00 0.00 0.00 2.40
2559 3147 2.168728 GTGAGGGTCGCCTAAAAGAGAT 59.831 50.000 0.00 0.00 0.00 2.75
2560 3148 1.549170 GTGAGGGTCGCCTAAAAGAGA 59.451 52.381 0.00 0.00 0.00 3.10
2561 3149 1.275291 TGTGAGGGTCGCCTAAAAGAG 59.725 52.381 0.00 0.00 0.00 2.85
2562 3150 1.344065 TGTGAGGGTCGCCTAAAAGA 58.656 50.000 0.00 0.00 0.00 2.52
2563 3151 2.403252 ATGTGAGGGTCGCCTAAAAG 57.597 50.000 0.00 0.00 0.00 2.27
2564 3152 2.817258 CAAATGTGAGGGTCGCCTAAAA 59.183 45.455 0.00 0.00 0.00 1.52
2565 3153 2.432444 CAAATGTGAGGGTCGCCTAAA 58.568 47.619 0.00 0.00 0.00 1.85
2566 3154 1.339631 CCAAATGTGAGGGTCGCCTAA 60.340 52.381 0.00 0.00 0.00 2.69
2567 3155 0.251916 CCAAATGTGAGGGTCGCCTA 59.748 55.000 0.00 0.00 0.00 3.93
2568 3156 1.002134 CCAAATGTGAGGGTCGCCT 60.002 57.895 0.00 0.00 0.00 5.52
2569 3157 2.046285 CCCAAATGTGAGGGTCGCC 61.046 63.158 0.00 0.00 40.34 5.54
2570 3158 1.002624 TCCCAAATGTGAGGGTCGC 60.003 57.895 0.00 0.00 45.64 5.19
2571 3159 1.026718 GCTCCCAAATGTGAGGGTCG 61.027 60.000 0.00 0.00 45.64 4.79
2572 3160 0.681243 GGCTCCCAAATGTGAGGGTC 60.681 60.000 0.00 0.00 45.64 4.46
2573 3161 1.384191 GGCTCCCAAATGTGAGGGT 59.616 57.895 0.00 0.00 45.64 4.34
2574 3162 0.967380 GTGGCTCCCAAATGTGAGGG 60.967 60.000 0.00 0.00 46.90 4.30
2575 3163 0.038744 AGTGGCTCCCAAATGTGAGG 59.961 55.000 0.00 0.00 34.18 3.86
2576 3164 1.457346 GAGTGGCTCCCAAATGTGAG 58.543 55.000 0.00 0.00 34.18 3.51
2577 3165 0.038166 GGAGTGGCTCCCAAATGTGA 59.962 55.000 3.89 0.00 44.36 3.58
2578 3166 2.571548 GGAGTGGCTCCCAAATGTG 58.428 57.895 3.89 0.00 44.36 3.21
2599 3187 2.437518 TTTGTGGGCGACGATCGGAA 62.438 55.000 20.98 0.00 40.84 4.30
2600 3188 2.829043 CTTTGTGGGCGACGATCGGA 62.829 60.000 20.98 0.00 40.84 4.55
2603 3191 1.683790 CGACTTTGTGGGCGACGATC 61.684 60.000 0.00 0.00 0.00 3.69
2604 3192 1.736645 CGACTTTGTGGGCGACGAT 60.737 57.895 0.00 0.00 0.00 3.73
2616 3204 3.103911 CGAACTCGCGGCGACTTT 61.104 61.111 22.69 17.00 0.00 2.66
2676 3266 5.915812 TCAATGAAATTTCGTCGAGTTCA 57.084 34.783 13.21 15.88 31.22 3.18
2715 3306 3.891324 TGCCGTAGTTTGCATGTTTTAC 58.109 40.909 0.00 0.00 31.31 2.01
2716 3307 4.569761 TTGCCGTAGTTTGCATGTTTTA 57.430 36.364 0.00 0.00 37.33 1.52
2747 3346 3.291101 ATGAACGCGGCGTAGTGGT 62.291 57.895 29.63 12.92 39.99 4.16
2766 3366 2.980233 GCATGTAGATGGCCGGCC 60.980 66.667 39.40 39.40 0.00 6.13
2859 3474 1.542628 TGCAACAGGGATGGGGGTA 60.543 57.895 0.00 0.00 0.00 3.69
3044 3664 2.807247 CCCTAAAATGGGCGAAGGG 58.193 57.895 0.00 0.00 40.84 3.95
3077 3698 4.082523 CGTCGACATGGTGGGCCT 62.083 66.667 17.16 0.00 35.27 5.19
3080 3701 3.118454 GCACGTCGACATGGTGGG 61.118 66.667 14.16 0.00 32.42 4.61
3099 3720 3.008517 TGCTCCCCATGAAGCCGA 61.009 61.111 10.82 0.00 0.00 5.54
3165 3787 3.319198 ATCAACGAGGGTGCCCGT 61.319 61.111 0.98 0.00 41.95 5.28


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

AutoCloner maintained by Alex Coulton.