Multiple sequence alignment - TraesCS1D01G332400

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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 TraesCS1D01G332400 chr1D 100.000 2411 0 0 1 2411 423014374 423011964 0.000000e+00 4453
1 TraesCS1D01G332400 chr1D 97.506 2125 48 4 1 2123 422998686 422996565 0.000000e+00 3626
2 TraesCS1D01G332400 chr1D 98.282 291 5 0 2121 2411 423025790 423025500 5.950000e-141 510
3 TraesCS1D01G332400 chr7D 96.678 1445 47 1 1 1444 630500665 630502109 0.000000e+00 2401
4 TraesCS1D01G332400 chr7B 94.552 1450 69 4 1 1444 62395405 62393960 0.000000e+00 2231
5 TraesCS1D01G332400 chr7B 93.494 830 49 4 620 1444 605363632 605364461 0.000000e+00 1229
6 TraesCS1D01G332400 chr7B 92.330 678 52 0 1446 2123 727658963 727659640 0.000000e+00 965
7 TraesCS1D01G332400 chr7B 94.118 629 34 2 1 627 605362689 605363316 0.000000e+00 953
8 TraesCS1D01G332400 chr7B 94.576 295 11 3 2122 2411 62400273 62399979 3.660000e-123 451
9 TraesCS1D01G332400 chrUn 97.484 1113 24 4 333 1444 94889386 94888277 0.000000e+00 1897
10 TraesCS1D01G332400 chrUn 95.880 534 21 1 910 1443 75322003 75322535 0.000000e+00 863
11 TraesCS1D01G332400 chrUn 95.880 534 21 1 910 1443 287805837 287806369 0.000000e+00 863
12 TraesCS1D01G332400 chrUn 97.251 291 8 0 2121 2411 94904276 94903986 5.990000e-136 494
13 TraesCS1D01G332400 chr4D 95.277 741 34 1 705 1445 452673505 452674244 0.000000e+00 1173
14 TraesCS1D01G332400 chr2A 92.625 678 49 1 1446 2123 744941801 744941125 0.000000e+00 974
15 TraesCS1D01G332400 chr6D 89.386 603 63 1 1463 2065 303616998 303617599 0.000000e+00 758
16 TraesCS1D01G332400 chr3B 78.598 813 165 9 27 834 788218660 788219468 1.640000e-146 529
17 TraesCS1D01G332400 chr1B 78.598 813 165 9 27 834 569877965 569878773 1.640000e-146 529
18 TraesCS1D01G332400 chr1B 86.902 397 42 7 999 1389 634327909 634327517 1.020000e-118 436
19 TraesCS1D01G332400 chr5B 78.405 815 163 13 27 834 663125734 663126542 3.550000e-143 518
20 TraesCS1D01G332400 chr7A 78.282 815 165 11 27 834 735512919 735512110 4.600000e-142 514
21 TraesCS1D01G332400 chr1A 94.558 294 16 0 2118 2411 99365515 99365808 2.830000e-124 455


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 TraesCS1D01G332400 chr1D 423011964 423014374 2410 True 4453 4453 100.000 1 2411 1 chr1D.!!$R2 2410
1 TraesCS1D01G332400 chr1D 422996565 422998686 2121 True 3626 3626 97.506 1 2123 1 chr1D.!!$R1 2122
2 TraesCS1D01G332400 chr7D 630500665 630502109 1444 False 2401 2401 96.678 1 1444 1 chr7D.!!$F1 1443
3 TraesCS1D01G332400 chr7B 62393960 62395405 1445 True 2231 2231 94.552 1 1444 1 chr7B.!!$R1 1443
4 TraesCS1D01G332400 chr7B 605362689 605364461 1772 False 1091 1229 93.806 1 1444 2 chr7B.!!$F2 1443
5 TraesCS1D01G332400 chr7B 727658963 727659640 677 False 965 965 92.330 1446 2123 1 chr7B.!!$F1 677
6 TraesCS1D01G332400 chrUn 94888277 94889386 1109 True 1897 1897 97.484 333 1444 1 chrUn.!!$R1 1111
7 TraesCS1D01G332400 chrUn 75322003 75322535 532 False 863 863 95.880 910 1443 1 chrUn.!!$F1 533
8 TraesCS1D01G332400 chrUn 287805837 287806369 532 False 863 863 95.880 910 1443 1 chrUn.!!$F2 533
9 TraesCS1D01G332400 chr4D 452673505 452674244 739 False 1173 1173 95.277 705 1445 1 chr4D.!!$F1 740
10 TraesCS1D01G332400 chr2A 744941125 744941801 676 True 974 974 92.625 1446 2123 1 chr2A.!!$R1 677
11 TraesCS1D01G332400 chr6D 303616998 303617599 601 False 758 758 89.386 1463 2065 1 chr6D.!!$F1 602
12 TraesCS1D01G332400 chr3B 788218660 788219468 808 False 529 529 78.598 27 834 1 chr3B.!!$F1 807
13 TraesCS1D01G332400 chr1B 569877965 569878773 808 False 529 529 78.598 27 834 1 chr1B.!!$F1 807
14 TraesCS1D01G332400 chr5B 663125734 663126542 808 False 518 518 78.405 27 834 1 chr5B.!!$F1 807
15 TraesCS1D01G332400 chr7A 735512110 735512919 809 True 514 514 78.282 27 834 1 chr7A.!!$R1 807

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
146 147 0.257039 GGATGGACATGGAGCTTGGT 59.743 55.0 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1618 1955 0.608035 GGTTCGGTTGGGATGCTTGA 60.608 55.0 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
146 147 0.257039 GGATGGACATGGAGCTTGGT 59.743 55.000 0.00 0.00 0.00 3.67
182 183 2.434336 CGACAGTATTTCCTCCCCATCA 59.566 50.000 0.00 0.00 0.00 3.07
240 241 1.617947 GCCCCTGAGGATGTTCTCGT 61.618 60.000 0.00 0.00 38.24 4.18
423 424 1.522580 TTTTTGCTTGGCGGTTGGC 60.523 52.632 0.00 0.00 42.51 4.52
955 1286 3.366883 CGCTGGCTGGCTTAAATTAAACA 60.367 43.478 2.00 0.00 0.00 2.83
1090 1422 1.377725 CTGGAGGCGGAACTGCAAT 60.378 57.895 7.91 0.00 38.38 3.56
1326 1659 2.744494 GCTTGCTAGGATTGGGAGAGTG 60.744 54.545 0.00 0.00 0.00 3.51
1339 1672 3.396276 TGGGAGAGTGGATGTTAAAACCA 59.604 43.478 0.00 0.00 0.00 3.67
1360 1693 2.847234 TCTGGTTGTGGTCCGGCT 60.847 61.111 0.00 0.00 0.00 5.52
1367 1700 1.523154 TTGTGGTCCGGCTCAAATGC 61.523 55.000 0.00 0.00 0.00 3.56
1371 1704 2.745884 TCCGGCTCAAATGCGGTG 60.746 61.111 0.00 0.00 0.00 4.94
1393 1726 6.493802 GGTGGTAGAACTATGTGAGATGGATA 59.506 42.308 0.00 0.00 0.00 2.59
1720 2057 4.349342 AGGGATTGGCTAGAAGGACATTAG 59.651 45.833 0.00 0.00 0.00 1.73
1798 2135 0.456312 GTGGTCTGACGTGGATCGAC 60.456 60.000 0.00 0.00 42.86 4.20
1913 2250 4.212716 TGGTTAGACCATGTATAGCGACT 58.787 43.478 0.00 0.00 44.79 4.18
1955 2292 3.641436 TGTAGTCGCATGGATTGGATAGT 59.359 43.478 0.00 0.00 0.00 2.12
2079 2416 6.208007 TGGTAATTGTCGAAGAGAGACTTACA 59.792 38.462 0.00 0.00 38.87 2.41
2133 2470 2.668632 CAAGGGCGTCCTGGCTAA 59.331 61.111 10.71 0.00 44.07 3.09
2134 2471 1.450312 CAAGGGCGTCCTGGCTAAG 60.450 63.158 10.71 0.00 44.07 2.18
2135 2472 1.612442 AAGGGCGTCCTGGCTAAGA 60.612 57.895 10.71 0.00 44.07 2.10
2136 2473 1.198759 AAGGGCGTCCTGGCTAAGAA 61.199 55.000 10.71 0.00 44.07 2.52
2137 2474 1.198759 AGGGCGTCCTGGCTAAGAAA 61.199 55.000 8.41 0.00 42.98 2.52
2138 2475 1.025113 GGGCGTCCTGGCTAAGAAAC 61.025 60.000 0.00 0.00 44.11 2.78
2139 2476 0.321298 GGCGTCCTGGCTAAGAAACA 60.321 55.000 0.00 0.00 40.72 2.83
2140 2477 1.079503 GCGTCCTGGCTAAGAAACAG 58.920 55.000 0.00 0.00 0.00 3.16
2141 2478 1.337823 GCGTCCTGGCTAAGAAACAGA 60.338 52.381 0.00 0.00 34.21 3.41
2142 2479 2.678190 GCGTCCTGGCTAAGAAACAGAT 60.678 50.000 0.00 0.00 34.21 2.90
2143 2480 2.932614 CGTCCTGGCTAAGAAACAGATG 59.067 50.000 0.00 0.00 34.21 2.90
2144 2481 3.368427 CGTCCTGGCTAAGAAACAGATGA 60.368 47.826 0.00 0.00 34.21 2.92
2145 2482 4.579869 GTCCTGGCTAAGAAACAGATGAA 58.420 43.478 0.00 0.00 34.21 2.57
2146 2483 4.633565 GTCCTGGCTAAGAAACAGATGAAG 59.366 45.833 0.00 0.00 34.21 3.02
2147 2484 3.944015 CCTGGCTAAGAAACAGATGAAGG 59.056 47.826 0.00 0.00 34.21 3.46
2148 2485 3.347216 TGGCTAAGAAACAGATGAAGGC 58.653 45.455 0.00 0.00 0.00 4.35
2149 2486 2.685388 GGCTAAGAAACAGATGAAGGCC 59.315 50.000 0.00 0.00 0.00 5.19
2150 2487 2.352960 GCTAAGAAACAGATGAAGGCCG 59.647 50.000 0.00 0.00 0.00 6.13
2151 2488 2.859165 AAGAAACAGATGAAGGCCGA 57.141 45.000 0.00 0.00 0.00 5.54
2152 2489 2.393271 AGAAACAGATGAAGGCCGAG 57.607 50.000 0.00 0.00 0.00 4.63
2153 2490 1.625818 AGAAACAGATGAAGGCCGAGT 59.374 47.619 0.00 0.00 0.00 4.18
2154 2491 2.832129 AGAAACAGATGAAGGCCGAGTA 59.168 45.455 0.00 0.00 0.00 2.59
2155 2492 2.674796 AACAGATGAAGGCCGAGTAC 57.325 50.000 0.00 0.00 0.00 2.73
2156 2493 1.557099 ACAGATGAAGGCCGAGTACA 58.443 50.000 0.00 0.00 0.00 2.90
2157 2494 1.478510 ACAGATGAAGGCCGAGTACAG 59.521 52.381 0.00 0.00 0.00 2.74
2158 2495 1.751351 CAGATGAAGGCCGAGTACAGA 59.249 52.381 0.00 0.00 0.00 3.41
2159 2496 2.363680 CAGATGAAGGCCGAGTACAGAT 59.636 50.000 0.00 0.00 0.00 2.90
2160 2497 2.625790 AGATGAAGGCCGAGTACAGATC 59.374 50.000 0.00 0.00 0.00 2.75
2161 2498 1.847328 TGAAGGCCGAGTACAGATCA 58.153 50.000 0.00 0.00 0.00 2.92
2162 2499 2.176045 TGAAGGCCGAGTACAGATCAA 58.824 47.619 0.00 0.00 0.00 2.57
2163 2500 2.565391 TGAAGGCCGAGTACAGATCAAA 59.435 45.455 0.00 0.00 0.00 2.69
2164 2501 3.197766 TGAAGGCCGAGTACAGATCAAAT 59.802 43.478 0.00 0.00 0.00 2.32
2165 2502 3.460857 AGGCCGAGTACAGATCAAATC 57.539 47.619 0.00 0.00 0.00 2.17
2166 2503 3.034635 AGGCCGAGTACAGATCAAATCT 58.965 45.455 0.00 0.00 41.15 2.40
2167 2504 3.068873 AGGCCGAGTACAGATCAAATCTC 59.931 47.826 0.00 0.00 37.58 2.75
2168 2505 3.181475 GGCCGAGTACAGATCAAATCTCA 60.181 47.826 0.00 0.00 37.58 3.27
2169 2506 4.047822 GCCGAGTACAGATCAAATCTCAG 58.952 47.826 0.00 0.00 37.58 3.35
2170 2507 4.047822 CCGAGTACAGATCAAATCTCAGC 58.952 47.826 0.00 0.00 37.58 4.26
2171 2508 4.440663 CCGAGTACAGATCAAATCTCAGCA 60.441 45.833 0.00 0.00 37.58 4.41
2172 2509 4.739228 CGAGTACAGATCAAATCTCAGCAG 59.261 45.833 0.00 0.00 37.58 4.24
2173 2510 5.021033 AGTACAGATCAAATCTCAGCAGG 57.979 43.478 0.00 0.00 37.58 4.85
2174 2511 3.278668 ACAGATCAAATCTCAGCAGGG 57.721 47.619 0.00 0.00 37.58 4.45
2175 2512 2.092538 ACAGATCAAATCTCAGCAGGGG 60.093 50.000 0.00 0.00 37.58 4.79
2176 2513 1.133853 AGATCAAATCTCAGCAGGGGC 60.134 52.381 0.00 0.00 33.42 5.80
2177 2514 4.704809 AGATCAAATCTCAGCAGGGGCG 62.705 54.545 0.00 0.00 39.46 6.13
2192 2529 2.254471 GGCGACCCTGAGAAAAACC 58.746 57.895 0.00 0.00 0.00 3.27
2193 2530 0.536460 GGCGACCCTGAGAAAAACCA 60.536 55.000 0.00 0.00 0.00 3.67
2194 2531 0.875059 GCGACCCTGAGAAAAACCAG 59.125 55.000 0.00 0.00 0.00 4.00
2195 2532 0.875059 CGACCCTGAGAAAAACCAGC 59.125 55.000 0.00 0.00 0.00 4.85
2196 2533 1.813862 CGACCCTGAGAAAAACCAGCA 60.814 52.381 0.00 0.00 0.00 4.41
2197 2534 2.306847 GACCCTGAGAAAAACCAGCAA 58.693 47.619 0.00 0.00 0.00 3.91
2198 2535 2.031870 ACCCTGAGAAAAACCAGCAAC 58.968 47.619 0.00 0.00 0.00 4.17
2199 2536 1.001378 CCCTGAGAAAAACCAGCAACG 60.001 52.381 0.00 0.00 0.00 4.10
2200 2537 1.600413 CCTGAGAAAAACCAGCAACGC 60.600 52.381 0.00 0.00 0.00 4.84
2201 2538 1.334869 CTGAGAAAAACCAGCAACGCT 59.665 47.619 0.00 0.00 40.77 5.07
2210 2547 3.972227 AGCAACGCTGTGATCCAC 58.028 55.556 0.00 0.00 37.57 4.02
2211 2548 1.672356 AGCAACGCTGTGATCCACC 60.672 57.895 0.00 0.00 37.57 4.61
2212 2549 1.672356 GCAACGCTGTGATCCACCT 60.672 57.895 0.00 0.00 32.73 4.00
2213 2550 1.915614 GCAACGCTGTGATCCACCTG 61.916 60.000 0.00 0.00 32.73 4.00
2214 2551 0.320683 CAACGCTGTGATCCACCTGA 60.321 55.000 0.00 0.00 32.73 3.86
2215 2552 0.615331 AACGCTGTGATCCACCTGAT 59.385 50.000 0.00 0.00 36.01 2.90
2216 2553 1.485124 ACGCTGTGATCCACCTGATA 58.515 50.000 0.00 0.00 32.41 2.15
2217 2554 1.831106 ACGCTGTGATCCACCTGATAA 59.169 47.619 0.00 0.00 32.41 1.75
2218 2555 2.236146 ACGCTGTGATCCACCTGATAAA 59.764 45.455 0.00 0.00 32.41 1.40
2219 2556 3.118261 ACGCTGTGATCCACCTGATAAAT 60.118 43.478 0.00 0.00 32.41 1.40
2220 2557 3.879295 CGCTGTGATCCACCTGATAAATT 59.121 43.478 0.00 0.00 32.41 1.82
2221 2558 4.024556 CGCTGTGATCCACCTGATAAATTC 60.025 45.833 0.00 0.00 32.41 2.17
2222 2559 5.128919 GCTGTGATCCACCTGATAAATTCT 58.871 41.667 0.00 0.00 32.41 2.40
2223 2560 5.591877 GCTGTGATCCACCTGATAAATTCTT 59.408 40.000 0.00 0.00 32.41 2.52
2224 2561 6.767902 GCTGTGATCCACCTGATAAATTCTTA 59.232 38.462 0.00 0.00 32.41 2.10
2225 2562 7.041508 GCTGTGATCCACCTGATAAATTCTTAG 60.042 40.741 0.00 0.00 32.41 2.18
2226 2563 6.767902 TGTGATCCACCTGATAAATTCTTAGC 59.232 38.462 0.00 0.00 32.41 3.09
2227 2564 5.991606 TGATCCACCTGATAAATTCTTAGCG 59.008 40.000 0.00 0.00 32.41 4.26
2228 2565 4.127171 TCCACCTGATAAATTCTTAGCGC 58.873 43.478 0.00 0.00 0.00 5.92
2229 2566 3.251004 CCACCTGATAAATTCTTAGCGCC 59.749 47.826 2.29 0.00 0.00 6.53
2230 2567 3.251004 CACCTGATAAATTCTTAGCGCCC 59.749 47.826 2.29 0.00 0.00 6.13
2231 2568 2.480419 CCTGATAAATTCTTAGCGCCCG 59.520 50.000 2.29 0.00 0.00 6.13
2232 2569 3.131396 CTGATAAATTCTTAGCGCCCGT 58.869 45.455 2.29 0.00 0.00 5.28
2233 2570 2.869801 TGATAAATTCTTAGCGCCCGTG 59.130 45.455 2.29 0.00 0.00 4.94
2234 2571 2.389962 TAAATTCTTAGCGCCCGTGT 57.610 45.000 2.29 0.00 0.00 4.49
2235 2572 1.530323 AAATTCTTAGCGCCCGTGTT 58.470 45.000 2.29 0.00 0.00 3.32
2236 2573 1.530323 AATTCTTAGCGCCCGTGTTT 58.470 45.000 2.29 0.00 0.00 2.83
2237 2574 2.389962 ATTCTTAGCGCCCGTGTTTA 57.610 45.000 2.29 0.00 0.00 2.01
2238 2575 1.431496 TTCTTAGCGCCCGTGTTTAC 58.569 50.000 2.29 0.00 0.00 2.01
2255 2592 2.697425 CGAAGCCGTTGCGATCTG 59.303 61.111 0.00 0.00 44.33 2.90
2256 2593 2.401195 GAAGCCGTTGCGATCTGC 59.599 61.111 3.07 3.07 44.33 4.26
2257 2594 3.100862 GAAGCCGTTGCGATCTGCC 62.101 63.158 7.00 0.00 45.60 4.85
2260 2597 2.202690 CCGTTGCGATCTGCCGTA 60.203 61.111 7.00 0.00 45.60 4.02
2261 2598 1.807981 CCGTTGCGATCTGCCGTAA 60.808 57.895 7.00 0.00 45.60 3.18
2262 2599 1.343821 CGTTGCGATCTGCCGTAAC 59.656 57.895 0.00 0.00 46.50 2.50
2263 2600 4.999212 TTGCGATCTGCCGTAACA 57.001 50.000 7.00 0.00 45.60 2.41
2264 2601 2.451693 TTGCGATCTGCCGTAACAC 58.548 52.632 7.00 0.00 45.60 3.32
2265 2602 1.017177 TTGCGATCTGCCGTAACACC 61.017 55.000 7.00 0.00 45.60 4.16
2266 2603 2.514013 GCGATCTGCCGTAACACCG 61.514 63.158 0.00 0.00 37.76 4.94
2267 2604 1.138036 CGATCTGCCGTAACACCGA 59.862 57.895 0.00 0.00 0.00 4.69
2268 2605 0.248907 CGATCTGCCGTAACACCGAT 60.249 55.000 0.00 0.00 0.00 4.18
2269 2606 1.209128 GATCTGCCGTAACACCGATG 58.791 55.000 0.00 0.00 0.00 3.84
2270 2607 0.535335 ATCTGCCGTAACACCGATGT 59.465 50.000 0.00 0.00 42.46 3.06
2271 2608 0.108992 TCTGCCGTAACACCGATGTC 60.109 55.000 0.00 0.00 38.45 3.06
2272 2609 1.410737 CTGCCGTAACACCGATGTCG 61.411 60.000 0.00 0.00 38.45 4.35
2273 2610 1.444895 GCCGTAACACCGATGTCGT 60.445 57.895 1.44 0.00 38.45 4.34
2274 2611 1.408474 GCCGTAACACCGATGTCGTC 61.408 60.000 1.44 0.00 38.45 4.20
2289 2626 2.733593 GTCGTCGACGCCTGCTTT 60.734 61.111 32.19 0.00 39.60 3.51
2290 2627 1.443194 GTCGTCGACGCCTGCTTTA 60.443 57.895 32.19 10.45 39.60 1.85
2291 2628 1.154093 TCGTCGACGCCTGCTTTAG 60.154 57.895 32.19 3.14 39.60 1.85
2300 2637 2.873797 CCTGCTTTAGGGAAGGTGC 58.126 57.895 0.00 0.00 43.33 5.01
2301 2638 0.681243 CCTGCTTTAGGGAAGGTGCC 60.681 60.000 0.00 0.00 43.33 5.01
2302 2639 1.002624 TGCTTTAGGGAAGGTGCCG 60.003 57.895 0.00 0.00 35.82 5.69
2303 2640 1.749258 GCTTTAGGGAAGGTGCCGG 60.749 63.158 0.00 0.00 35.82 6.13
2304 2641 1.683441 CTTTAGGGAAGGTGCCGGT 59.317 57.895 1.90 0.00 30.73 5.28
2305 2642 0.676782 CTTTAGGGAAGGTGCCGGTG 60.677 60.000 1.90 0.00 30.73 4.94
2306 2643 2.132089 TTTAGGGAAGGTGCCGGTGG 62.132 60.000 1.90 0.00 30.73 4.61
2307 2644 3.857521 TAGGGAAGGTGCCGGTGGT 62.858 63.158 1.90 0.00 30.73 4.16
2308 2645 4.280019 GGGAAGGTGCCGGTGGTT 62.280 66.667 1.90 0.00 0.00 3.67
2309 2646 2.203437 GGAAGGTGCCGGTGGTTT 60.203 61.111 1.90 0.00 0.00 3.27
2310 2647 2.265904 GGAAGGTGCCGGTGGTTTC 61.266 63.158 1.90 2.83 0.00 2.78
2311 2648 1.228154 GAAGGTGCCGGTGGTTTCT 60.228 57.895 1.90 0.00 0.00 2.52
2312 2649 1.515521 GAAGGTGCCGGTGGTTTCTG 61.516 60.000 1.90 0.00 0.00 3.02
2313 2650 1.990160 AAGGTGCCGGTGGTTTCTGA 61.990 55.000 1.90 0.00 0.00 3.27
2314 2651 1.966451 GGTGCCGGTGGTTTCTGAG 60.966 63.158 1.90 0.00 0.00 3.35
2315 2652 1.966451 GTGCCGGTGGTTTCTGAGG 60.966 63.158 1.90 0.00 0.00 3.86
2316 2653 2.359975 GCCGGTGGTTTCTGAGGG 60.360 66.667 1.90 0.00 0.00 4.30
2317 2654 2.351276 CCGGTGGTTTCTGAGGGG 59.649 66.667 0.00 0.00 0.00 4.79
2318 2655 2.221299 CCGGTGGTTTCTGAGGGGA 61.221 63.158 0.00 0.00 0.00 4.81
2319 2656 1.758592 CGGTGGTTTCTGAGGGGAA 59.241 57.895 0.00 0.00 0.00 3.97
2320 2657 0.605589 CGGTGGTTTCTGAGGGGAAC 60.606 60.000 0.00 0.00 0.00 3.62
2321 2658 0.771755 GGTGGTTTCTGAGGGGAACT 59.228 55.000 0.00 0.00 0.00 3.01
2322 2659 1.271434 GGTGGTTTCTGAGGGGAACTC 60.271 57.143 0.00 0.00 46.78 3.01
2329 2666 3.471806 GAGGGGAACTCGGAGGGC 61.472 72.222 10.23 0.40 36.29 5.19
2333 2670 4.452733 GGAACTCGGAGGGCGGTG 62.453 72.222 10.23 0.00 0.00 4.94
2334 2671 4.452733 GAACTCGGAGGGCGGTGG 62.453 72.222 10.23 0.00 0.00 4.61
2344 2681 3.809013 GGCGGTGGGGGTGATCAT 61.809 66.667 0.00 0.00 0.00 2.45
2345 2682 2.516930 GCGGTGGGGGTGATCATG 60.517 66.667 0.00 0.00 0.00 3.07
2346 2683 2.192979 CGGTGGGGGTGATCATGG 59.807 66.667 0.00 0.00 0.00 3.66
2347 2684 2.603008 GGTGGGGGTGATCATGGG 59.397 66.667 0.00 0.00 0.00 4.00
2348 2685 2.603008 GTGGGGGTGATCATGGGG 59.397 66.667 0.00 0.00 0.00 4.96
2349 2686 3.428664 TGGGGGTGATCATGGGGC 61.429 66.667 0.00 0.00 0.00 5.80
2350 2687 4.224609 GGGGGTGATCATGGGGCC 62.225 72.222 0.00 0.00 0.00 5.80
2351 2688 4.224609 GGGGTGATCATGGGGCCC 62.225 72.222 18.17 18.17 38.61 5.80
2352 2689 4.224609 GGGTGATCATGGGGCCCC 62.225 72.222 36.14 36.14 33.40 5.80
2353 2690 4.224609 GGTGATCATGGGGCCCCC 62.225 72.222 38.81 22.67 45.71 5.40
2354 2691 3.105928 GTGATCATGGGGCCCCCT 61.106 66.667 38.81 27.33 45.70 4.79
2355 2692 2.287896 TGATCATGGGGCCCCCTT 60.288 61.111 38.81 23.30 45.70 3.95
2356 2693 1.940742 TGATCATGGGGCCCCCTTT 60.941 57.895 38.81 20.44 45.70 3.11
2357 2694 1.458209 GATCATGGGGCCCCCTTTG 60.458 63.158 38.81 29.96 45.70 2.77
2358 2695 3.701760 ATCATGGGGCCCCCTTTGC 62.702 63.158 38.81 12.96 45.70 3.68
2387 2724 3.423154 GCCCAAAGCCGTCGACTG 61.423 66.667 14.70 8.48 34.35 3.51
2388 2725 2.342279 CCCAAAGCCGTCGACTGA 59.658 61.111 14.70 0.00 0.00 3.41
2389 2726 1.738099 CCCAAAGCCGTCGACTGAG 60.738 63.158 14.70 3.33 0.00 3.35
2390 2727 1.738099 CCAAAGCCGTCGACTGAGG 60.738 63.158 14.70 8.82 0.00 3.86
2391 2728 1.289066 CAAAGCCGTCGACTGAGGA 59.711 57.895 14.70 0.00 31.63 3.71
2392 2729 0.319555 CAAAGCCGTCGACTGAGGAA 60.320 55.000 14.70 0.00 31.63 3.36
2393 2730 0.319641 AAAGCCGTCGACTGAGGAAC 60.320 55.000 14.70 0.00 31.63 3.62
2394 2731 2.126031 GCCGTCGACTGAGGAACC 60.126 66.667 14.70 0.00 31.63 3.62
2395 2732 2.572284 CCGTCGACTGAGGAACCC 59.428 66.667 14.70 0.00 31.63 4.11
2396 2733 2.178521 CGTCGACTGAGGAACCCG 59.821 66.667 14.70 0.00 31.63 5.28
2397 2734 2.330372 CGTCGACTGAGGAACCCGA 61.330 63.158 14.70 0.00 31.63 5.14
2398 2735 1.859427 CGTCGACTGAGGAACCCGAA 61.859 60.000 14.70 0.00 31.63 4.30
2399 2736 0.109226 GTCGACTGAGGAACCCGAAG 60.109 60.000 8.70 0.00 0.00 3.79
2400 2737 1.446272 CGACTGAGGAACCCGAAGC 60.446 63.158 0.00 0.00 0.00 3.86
2401 2738 1.878656 CGACTGAGGAACCCGAAGCT 61.879 60.000 0.00 0.00 0.00 3.74
2402 2739 0.108567 GACTGAGGAACCCGAAGCTC 60.109 60.000 0.00 0.00 0.00 4.09
2403 2740 0.543174 ACTGAGGAACCCGAAGCTCT 60.543 55.000 0.00 0.00 0.00 4.09
2404 2741 0.174617 CTGAGGAACCCGAAGCTCTC 59.825 60.000 0.00 0.00 0.00 3.20
2405 2742 1.258445 TGAGGAACCCGAAGCTCTCC 61.258 60.000 0.00 0.00 0.00 3.71
2406 2743 0.973496 GAGGAACCCGAAGCTCTCCT 60.973 60.000 0.00 0.00 39.27 3.69
2407 2744 1.219393 GGAACCCGAAGCTCTCCTG 59.781 63.158 0.00 0.00 0.00 3.86
2408 2745 1.219393 GAACCCGAAGCTCTCCTGG 59.781 63.158 0.00 0.00 0.00 4.45
2409 2746 2.860972 GAACCCGAAGCTCTCCTGGC 62.861 65.000 0.00 0.00 0.00 4.85
2410 2747 3.393970 CCCGAAGCTCTCCTGGCA 61.394 66.667 0.00 0.00 0.00 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
182 183 1.996292 CTGGTGATGACGTCGATGTT 58.004 50.000 12.40 0.00 0.00 2.71
240 241 2.173356 CCAGATTTCTCAGGTGCCCATA 59.827 50.000 0.00 0.00 0.00 2.74
250 251 4.590647 ACAGAGAAGACACCAGATTTCTCA 59.409 41.667 13.59 0.00 44.94 3.27
423 424 3.448686 CATGTAGCTAACGAGTTGGAGG 58.551 50.000 0.00 0.00 0.00 4.30
481 484 0.842030 TCCCACAGAGAGGGCACATT 60.842 55.000 0.00 0.00 46.36 2.71
933 1264 3.179048 GTTTAATTTAAGCCAGCCAGCG 58.821 45.455 0.00 0.00 38.01 5.18
1090 1422 1.289066 CAACTCCCTCGCGACAAGA 59.711 57.895 3.71 0.64 0.00 3.02
1157 1489 0.807275 CATCATCGCCGCTTCAGTGA 60.807 55.000 0.00 0.00 0.00 3.41
1326 1659 4.766404 CCAGACTGTGGTTTTAACATCC 57.234 45.455 0.93 0.00 42.17 3.51
1339 1672 1.445942 CGGACCACAACCAGACTGT 59.554 57.895 0.93 0.00 0.00 3.55
1351 1684 2.745884 CGCATTTGAGCCGGACCA 60.746 61.111 5.05 0.00 0.00 4.02
1360 1693 2.851263 AGTTCTACCACCGCATTTGA 57.149 45.000 0.00 0.00 0.00 2.69
1367 1700 4.499865 CCATCTCACATAGTTCTACCACCG 60.500 50.000 0.00 0.00 0.00 4.94
1371 1704 9.646427 GAATTATCCATCTCACATAGTTCTACC 57.354 37.037 0.00 0.00 0.00 3.18
1393 1726 8.827832 TTCATTAATCAACCTGGATCAGAATT 57.172 30.769 0.00 0.00 32.44 2.17
1587 1924 1.032794 AGCGAACTCGAGATATGGCA 58.967 50.000 21.68 0.00 43.02 4.92
1618 1955 0.608035 GGTTCGGTTGGGATGCTTGA 60.608 55.000 0.00 0.00 0.00 3.02
1720 2057 1.066587 CCTCGATCTTCCGGCTCAC 59.933 63.158 0.00 0.00 0.00 3.51
1798 2135 3.074999 GCGCTCTCACCTCCTCCAG 62.075 68.421 0.00 0.00 0.00 3.86
1913 2250 3.273654 ACCTCCCCCTCCTCGACA 61.274 66.667 0.00 0.00 0.00 4.35
1955 2292 1.074405 AGGCCATGCTTTTCTCTGACA 59.926 47.619 5.01 0.00 0.00 3.58
2054 2391 5.723672 AAGTCTCTCTTCGACAATTACCA 57.276 39.130 0.00 0.00 33.89 3.25
2079 2416 3.467803 ACGTGCTTTCTTAGACTTGCTT 58.532 40.909 0.00 0.00 0.00 3.91
2123 2460 4.207891 TCATCTGTTTCTTAGCCAGGAC 57.792 45.455 0.00 0.00 0.00 3.85
2124 2461 4.323792 CCTTCATCTGTTTCTTAGCCAGGA 60.324 45.833 0.00 0.00 0.00 3.86
2125 2462 3.944015 CCTTCATCTGTTTCTTAGCCAGG 59.056 47.826 0.00 0.00 0.00 4.45
2126 2463 3.376546 GCCTTCATCTGTTTCTTAGCCAG 59.623 47.826 0.00 0.00 0.00 4.85
2127 2464 3.347216 GCCTTCATCTGTTTCTTAGCCA 58.653 45.455 0.00 0.00 0.00 4.75
2128 2465 2.685388 GGCCTTCATCTGTTTCTTAGCC 59.315 50.000 0.00 0.00 0.00 3.93
2129 2466 2.352960 CGGCCTTCATCTGTTTCTTAGC 59.647 50.000 0.00 0.00 0.00 3.09
2130 2467 3.861840 TCGGCCTTCATCTGTTTCTTAG 58.138 45.455 0.00 0.00 0.00 2.18
2131 2468 3.260884 ACTCGGCCTTCATCTGTTTCTTA 59.739 43.478 0.00 0.00 0.00 2.10
2132 2469 2.039084 ACTCGGCCTTCATCTGTTTCTT 59.961 45.455 0.00 0.00 0.00 2.52
2133 2470 1.625818 ACTCGGCCTTCATCTGTTTCT 59.374 47.619 0.00 0.00 0.00 2.52
2134 2471 2.100605 ACTCGGCCTTCATCTGTTTC 57.899 50.000 0.00 0.00 0.00 2.78
2135 2472 2.301870 TGTACTCGGCCTTCATCTGTTT 59.698 45.455 0.00 0.00 0.00 2.83
2136 2473 1.899814 TGTACTCGGCCTTCATCTGTT 59.100 47.619 0.00 0.00 0.00 3.16
2137 2474 1.478510 CTGTACTCGGCCTTCATCTGT 59.521 52.381 0.00 0.00 0.00 3.41
2138 2475 1.751351 TCTGTACTCGGCCTTCATCTG 59.249 52.381 0.00 0.00 0.00 2.90
2139 2476 2.145397 TCTGTACTCGGCCTTCATCT 57.855 50.000 0.00 0.00 0.00 2.90
2140 2477 2.362397 TGATCTGTACTCGGCCTTCATC 59.638 50.000 0.00 0.00 0.00 2.92
2141 2478 2.388735 TGATCTGTACTCGGCCTTCAT 58.611 47.619 0.00 0.00 0.00 2.57
2142 2479 1.847328 TGATCTGTACTCGGCCTTCA 58.153 50.000 0.00 0.00 0.00 3.02
2143 2480 2.961526 TTGATCTGTACTCGGCCTTC 57.038 50.000 0.00 0.00 0.00 3.46
2144 2481 3.452627 AGATTTGATCTGTACTCGGCCTT 59.547 43.478 0.00 0.00 38.44 4.35
2145 2482 3.034635 AGATTTGATCTGTACTCGGCCT 58.965 45.455 0.00 0.00 38.44 5.19
2146 2483 3.181475 TGAGATTTGATCTGTACTCGGCC 60.181 47.826 0.00 0.00 40.38 6.13
2147 2484 4.046938 TGAGATTTGATCTGTACTCGGC 57.953 45.455 0.00 0.00 40.38 5.54
2148 2485 4.047822 GCTGAGATTTGATCTGTACTCGG 58.952 47.826 0.00 0.00 40.38 4.63
2149 2486 4.676546 TGCTGAGATTTGATCTGTACTCG 58.323 43.478 0.00 0.00 40.38 4.18
2150 2487 5.049167 CCTGCTGAGATTTGATCTGTACTC 58.951 45.833 0.00 0.00 40.38 2.59
2151 2488 4.141756 CCCTGCTGAGATTTGATCTGTACT 60.142 45.833 0.00 0.00 40.38 2.73
2152 2489 4.125703 CCCTGCTGAGATTTGATCTGTAC 58.874 47.826 0.00 0.00 40.38 2.90
2153 2490 3.135348 CCCCTGCTGAGATTTGATCTGTA 59.865 47.826 0.00 0.00 40.38 2.74
2154 2491 2.092538 CCCCTGCTGAGATTTGATCTGT 60.093 50.000 0.00 0.00 40.38 3.41
2155 2492 2.573369 CCCCTGCTGAGATTTGATCTG 58.427 52.381 0.00 0.00 40.38 2.90
2156 2493 1.133853 GCCCCTGCTGAGATTTGATCT 60.134 52.381 0.00 0.00 37.07 2.75
2157 2494 1.316651 GCCCCTGCTGAGATTTGATC 58.683 55.000 0.00 0.00 33.53 2.92
2158 2495 0.465097 CGCCCCTGCTGAGATTTGAT 60.465 55.000 0.00 0.00 34.43 2.57
2159 2496 1.078214 CGCCCCTGCTGAGATTTGA 60.078 57.895 0.00 0.00 34.43 2.69
2160 2497 1.078214 TCGCCCCTGCTGAGATTTG 60.078 57.895 0.00 0.00 34.43 2.32
2161 2498 1.078143 GTCGCCCCTGCTGAGATTT 60.078 57.895 0.00 0.00 34.43 2.17
2162 2499 2.586792 GTCGCCCCTGCTGAGATT 59.413 61.111 0.00 0.00 34.43 2.40
2163 2500 3.474570 GGTCGCCCCTGCTGAGAT 61.475 66.667 0.00 0.00 34.43 2.75
2173 2510 1.241990 GGTTTTTCTCAGGGTCGCCC 61.242 60.000 6.80 6.80 45.90 6.13
2174 2511 0.536460 TGGTTTTTCTCAGGGTCGCC 60.536 55.000 0.00 0.00 0.00 5.54
2175 2512 0.875059 CTGGTTTTTCTCAGGGTCGC 59.125 55.000 0.00 0.00 0.00 5.19
2176 2513 0.875059 GCTGGTTTTTCTCAGGGTCG 59.125 55.000 0.00 0.00 0.00 4.79
2177 2514 1.981256 TGCTGGTTTTTCTCAGGGTC 58.019 50.000 0.00 0.00 0.00 4.46
2178 2515 2.031870 GTTGCTGGTTTTTCTCAGGGT 58.968 47.619 0.00 0.00 0.00 4.34
2179 2516 1.001378 CGTTGCTGGTTTTTCTCAGGG 60.001 52.381 0.00 0.00 0.00 4.45
2180 2517 1.600413 GCGTTGCTGGTTTTTCTCAGG 60.600 52.381 0.00 0.00 0.00 3.86
2181 2518 1.334869 AGCGTTGCTGGTTTTTCTCAG 59.665 47.619 0.00 0.00 37.57 3.35
2182 2519 1.388547 AGCGTTGCTGGTTTTTCTCA 58.611 45.000 0.00 0.00 37.57 3.27
2193 2530 1.672356 GGTGGATCACAGCGTTGCT 60.672 57.895 0.00 0.00 40.77 3.91
2194 2531 2.870372 GGTGGATCACAGCGTTGC 59.130 61.111 0.00 0.00 37.90 4.17
2200 2537 7.041508 GCTAAGAATTTATCAGGTGGATCACAG 60.042 40.741 0.00 0.00 37.44 3.66
2201 2538 6.767902 GCTAAGAATTTATCAGGTGGATCACA 59.232 38.462 0.00 0.00 37.44 3.58
2202 2539 6.073548 CGCTAAGAATTTATCAGGTGGATCAC 60.074 42.308 0.00 0.00 37.44 3.06
2203 2540 5.991606 CGCTAAGAATTTATCAGGTGGATCA 59.008 40.000 0.00 0.00 37.44 2.92
2204 2541 5.106908 GCGCTAAGAATTTATCAGGTGGATC 60.107 44.000 0.00 0.00 37.44 3.36
2205 2542 4.757149 GCGCTAAGAATTTATCAGGTGGAT 59.243 41.667 0.00 0.00 40.14 3.41
2206 2543 4.127171 GCGCTAAGAATTTATCAGGTGGA 58.873 43.478 0.00 0.00 0.00 4.02
2207 2544 3.251004 GGCGCTAAGAATTTATCAGGTGG 59.749 47.826 7.64 0.00 0.00 4.61
2208 2545 3.251004 GGGCGCTAAGAATTTATCAGGTG 59.749 47.826 7.64 0.00 0.00 4.00
2209 2546 3.477530 GGGCGCTAAGAATTTATCAGGT 58.522 45.455 7.64 0.00 0.00 4.00
2210 2547 2.480419 CGGGCGCTAAGAATTTATCAGG 59.520 50.000 7.64 0.00 0.00 3.86
2211 2548 3.059597 CACGGGCGCTAAGAATTTATCAG 60.060 47.826 7.64 0.00 0.00 2.90
2212 2549 2.869801 CACGGGCGCTAAGAATTTATCA 59.130 45.455 7.64 0.00 0.00 2.15
2213 2550 2.870411 ACACGGGCGCTAAGAATTTATC 59.130 45.455 7.64 0.00 0.00 1.75
2214 2551 2.914059 ACACGGGCGCTAAGAATTTAT 58.086 42.857 7.64 0.00 0.00 1.40
2215 2552 2.389962 ACACGGGCGCTAAGAATTTA 57.610 45.000 7.64 0.00 0.00 1.40
2216 2553 1.530323 AACACGGGCGCTAAGAATTT 58.470 45.000 7.64 0.00 0.00 1.82
2217 2554 1.530323 AAACACGGGCGCTAAGAATT 58.470 45.000 7.64 0.00 0.00 2.17
2218 2555 2.004733 GTAAACACGGGCGCTAAGAAT 58.995 47.619 7.64 0.00 0.00 2.40
2219 2556 1.431496 GTAAACACGGGCGCTAAGAA 58.569 50.000 7.64 0.00 0.00 2.52
2220 2557 0.733566 CGTAAACACGGGCGCTAAGA 60.734 55.000 7.64 0.00 0.00 2.10
2221 2558 0.733566 TCGTAAACACGGGCGCTAAG 60.734 55.000 7.64 0.98 0.00 2.18
2222 2559 0.319383 TTCGTAAACACGGGCGCTAA 60.319 50.000 7.64 0.00 0.00 3.09
2223 2560 0.733566 CTTCGTAAACACGGGCGCTA 60.734 55.000 7.64 0.00 0.00 4.26
2224 2561 2.025418 CTTCGTAAACACGGGCGCT 61.025 57.895 7.64 0.00 0.00 5.92
2225 2562 2.472934 CTTCGTAAACACGGGCGC 59.527 61.111 0.00 0.00 0.00 6.53
2226 2563 2.472934 GCTTCGTAAACACGGGCG 59.527 61.111 0.00 0.00 0.00 6.13
2227 2564 2.865308 GGCTTCGTAAACACGGGC 59.135 61.111 0.00 3.03 0.00 6.13
2228 2565 1.665599 ACGGCTTCGTAAACACGGG 60.666 57.895 0.00 0.00 46.24 5.28
2229 2566 3.941035 ACGGCTTCGTAAACACGG 58.059 55.556 0.00 0.00 46.24 4.94
2238 2575 2.697425 CAGATCGCAACGGCTTCG 59.303 61.111 0.00 0.00 38.10 3.79
2239 2576 2.401195 GCAGATCGCAACGGCTTC 59.599 61.111 4.93 0.00 41.79 3.86
2240 2577 3.127533 GGCAGATCGCAACGGCTT 61.128 61.111 10.82 0.00 45.17 4.35
2243 2580 1.807981 TTACGGCAGATCGCAACGG 60.808 57.895 10.82 0.00 45.17 4.44
2244 2581 1.343821 GTTACGGCAGATCGCAACG 59.656 57.895 10.82 8.55 45.17 4.10
2245 2582 0.094730 GTGTTACGGCAGATCGCAAC 59.905 55.000 10.82 7.66 45.17 4.17
2246 2583 1.017177 GGTGTTACGGCAGATCGCAA 61.017 55.000 10.82 0.00 45.17 4.85
2247 2584 1.447140 GGTGTTACGGCAGATCGCA 60.447 57.895 10.82 0.00 45.17 5.10
2248 2585 2.514013 CGGTGTTACGGCAGATCGC 61.514 63.158 0.00 1.55 41.28 4.58
2249 2586 0.248907 ATCGGTGTTACGGCAGATCG 60.249 55.000 0.00 0.00 0.00 3.69
2250 2587 1.209128 CATCGGTGTTACGGCAGATC 58.791 55.000 0.00 0.00 0.00 2.75
2251 2588 0.535335 ACATCGGTGTTACGGCAGAT 59.465 50.000 0.00 0.00 34.01 2.90
2252 2589 0.108992 GACATCGGTGTTACGGCAGA 60.109 55.000 1.13 0.00 39.09 4.26
2253 2590 1.410737 CGACATCGGTGTTACGGCAG 61.411 60.000 1.13 0.00 39.09 4.85
2254 2591 1.444724 CGACATCGGTGTTACGGCA 60.445 57.895 1.13 0.00 39.09 5.69
2255 2592 1.408474 GACGACATCGGTGTTACGGC 61.408 60.000 13.61 7.39 44.95 5.68
2256 2593 2.645411 GACGACATCGGTGTTACGG 58.355 57.895 13.61 2.36 44.95 4.02
2273 2610 1.154093 CTAAAGCAGGCGTCGACGA 60.154 57.895 39.74 16.36 43.02 4.20
2274 2611 2.158959 CCTAAAGCAGGCGTCGACG 61.159 63.158 32.57 32.57 37.70 5.12
2275 2612 1.810030 CCCTAAAGCAGGCGTCGAC 60.810 63.158 5.18 5.18 43.98 4.20
2276 2613 1.537814 TTCCCTAAAGCAGGCGTCGA 61.538 55.000 0.00 0.00 43.98 4.20
2277 2614 1.079405 TTCCCTAAAGCAGGCGTCG 60.079 57.895 0.00 0.00 43.98 5.12
2278 2615 0.744771 CCTTCCCTAAAGCAGGCGTC 60.745 60.000 0.00 0.00 43.98 5.19
2279 2616 1.299976 CCTTCCCTAAAGCAGGCGT 59.700 57.895 0.00 0.00 43.98 5.68
2280 2617 1.026718 CACCTTCCCTAAAGCAGGCG 61.027 60.000 0.00 0.00 43.98 5.52
2281 2618 1.315981 GCACCTTCCCTAAAGCAGGC 61.316 60.000 0.00 0.00 43.98 4.85
2282 2619 0.681243 GGCACCTTCCCTAAAGCAGG 60.681 60.000 0.00 0.00 45.07 4.85
2283 2620 1.026718 CGGCACCTTCCCTAAAGCAG 61.027 60.000 0.00 0.00 33.29 4.24
2284 2621 1.002624 CGGCACCTTCCCTAAAGCA 60.003 57.895 0.00 0.00 33.29 3.91
2285 2622 1.749258 CCGGCACCTTCCCTAAAGC 60.749 63.158 0.00 0.00 33.29 3.51
2286 2623 0.676782 CACCGGCACCTTCCCTAAAG 60.677 60.000 0.00 0.00 34.52 1.85
2287 2624 1.377229 CACCGGCACCTTCCCTAAA 59.623 57.895 0.00 0.00 0.00 1.85
2288 2625 2.598787 CCACCGGCACCTTCCCTAA 61.599 63.158 0.00 0.00 0.00 2.69
2289 2626 3.006728 CCACCGGCACCTTCCCTA 61.007 66.667 0.00 0.00 0.00 3.53
2291 2628 3.802852 AAACCACCGGCACCTTCCC 62.803 63.158 0.00 0.00 0.00 3.97
2292 2629 2.203437 AAACCACCGGCACCTTCC 60.203 61.111 0.00 0.00 0.00 3.46
2293 2630 1.228154 AGAAACCACCGGCACCTTC 60.228 57.895 0.00 0.00 0.00 3.46
2294 2631 1.528309 CAGAAACCACCGGCACCTT 60.528 57.895 0.00 0.00 0.00 3.50
2295 2632 2.113139 CAGAAACCACCGGCACCT 59.887 61.111 0.00 0.00 0.00 4.00
2296 2633 1.966451 CTCAGAAACCACCGGCACC 60.966 63.158 0.00 0.00 0.00 5.01
2297 2634 1.966451 CCTCAGAAACCACCGGCAC 60.966 63.158 0.00 0.00 0.00 5.01
2298 2635 2.429930 CCTCAGAAACCACCGGCA 59.570 61.111 0.00 0.00 0.00 5.69
2299 2636 2.359975 CCCTCAGAAACCACCGGC 60.360 66.667 0.00 0.00 0.00 6.13
2300 2637 1.774894 TTCCCCTCAGAAACCACCGG 61.775 60.000 0.00 0.00 0.00 5.28
2301 2638 0.605589 GTTCCCCTCAGAAACCACCG 60.606 60.000 0.00 0.00 0.00 4.94
2302 2639 0.771755 AGTTCCCCTCAGAAACCACC 59.228 55.000 0.00 0.00 0.00 4.61
2303 2640 1.608283 CGAGTTCCCCTCAGAAACCAC 60.608 57.143 0.00 0.00 40.48 4.16
2304 2641 0.685097 CGAGTTCCCCTCAGAAACCA 59.315 55.000 0.00 0.00 40.48 3.67
2305 2642 0.036294 CCGAGTTCCCCTCAGAAACC 60.036 60.000 0.00 0.00 40.48 3.27
2306 2643 0.974383 TCCGAGTTCCCCTCAGAAAC 59.026 55.000 0.00 0.00 40.48 2.78
2307 2644 1.267121 CTCCGAGTTCCCCTCAGAAA 58.733 55.000 0.00 0.00 40.48 2.52
2308 2645 0.614979 CCTCCGAGTTCCCCTCAGAA 60.615 60.000 0.00 0.00 40.48 3.02
2309 2646 1.000486 CCTCCGAGTTCCCCTCAGA 60.000 63.158 0.00 0.00 40.48 3.27
2310 2647 2.060980 CCCTCCGAGTTCCCCTCAG 61.061 68.421 0.00 0.00 40.48 3.35
2311 2648 2.038975 CCCTCCGAGTTCCCCTCA 59.961 66.667 0.00 0.00 40.48 3.86
2312 2649 3.471806 GCCCTCCGAGTTCCCCTC 61.472 72.222 0.00 0.00 36.80 4.30
2316 2653 4.452733 CACCGCCCTCCGAGTTCC 62.453 72.222 0.00 0.00 40.02 3.62
2317 2654 4.452733 CCACCGCCCTCCGAGTTC 62.453 72.222 0.00 0.00 40.02 3.01
2327 2664 3.809013 ATGATCACCCCCACCGCC 61.809 66.667 0.00 0.00 0.00 6.13
2328 2665 2.516930 CATGATCACCCCCACCGC 60.517 66.667 0.00 0.00 0.00 5.68
2329 2666 2.192979 CCATGATCACCCCCACCG 59.807 66.667 0.00 0.00 0.00 4.94
2330 2667 2.603008 CCCATGATCACCCCCACC 59.397 66.667 0.00 0.00 0.00 4.61
2331 2668 2.603008 CCCCATGATCACCCCCAC 59.397 66.667 0.00 0.00 0.00 4.61
2332 2669 3.428664 GCCCCATGATCACCCCCA 61.429 66.667 0.00 0.00 0.00 4.96
2333 2670 4.224609 GGCCCCATGATCACCCCC 62.225 72.222 0.00 0.00 0.00 5.40
2334 2671 4.224609 GGGCCCCATGATCACCCC 62.225 72.222 12.23 4.65 34.23 4.95
2335 2672 4.224609 GGGGCCCCATGATCACCC 62.225 72.222 37.61 9.41 40.05 4.61
2336 2673 4.224609 GGGGGCCCCATGATCACC 62.225 72.222 41.80 18.68 44.65 4.02
2370 2707 3.423154 CAGTCGACGGCTTTGGGC 61.423 66.667 10.46 0.00 40.90 5.36
2371 2708 1.738099 CTCAGTCGACGGCTTTGGG 60.738 63.158 11.11 0.00 0.00 4.12
2372 2709 1.738099 CCTCAGTCGACGGCTTTGG 60.738 63.158 11.11 0.54 0.00 3.28
2373 2710 0.319555 TTCCTCAGTCGACGGCTTTG 60.320 55.000 11.11 3.02 0.00 2.77
2374 2711 0.319641 GTTCCTCAGTCGACGGCTTT 60.320 55.000 11.11 0.00 0.00 3.51
2375 2712 1.289380 GTTCCTCAGTCGACGGCTT 59.711 57.895 11.11 0.00 0.00 4.35
2376 2713 2.637383 GGTTCCTCAGTCGACGGCT 61.637 63.158 11.11 0.00 0.00 5.52
2377 2714 2.126031 GGTTCCTCAGTCGACGGC 60.126 66.667 11.11 0.00 0.00 5.68
2378 2715 2.572284 GGGTTCCTCAGTCGACGG 59.428 66.667 10.46 10.03 0.00 4.79
2379 2716 1.859427 TTCGGGTTCCTCAGTCGACG 61.859 60.000 10.46 5.48 0.00 5.12
2380 2717 0.109226 CTTCGGGTTCCTCAGTCGAC 60.109 60.000 7.70 7.70 0.00 4.20
2381 2718 1.874345 GCTTCGGGTTCCTCAGTCGA 61.874 60.000 0.00 0.00 0.00 4.20
2382 2719 1.446272 GCTTCGGGTTCCTCAGTCG 60.446 63.158 0.00 0.00 0.00 4.18
2383 2720 0.108567 GAGCTTCGGGTTCCTCAGTC 60.109 60.000 0.00 0.00 0.00 3.51
2384 2721 0.543174 AGAGCTTCGGGTTCCTCAGT 60.543 55.000 0.00 0.00 0.00 3.41
2385 2722 0.174617 GAGAGCTTCGGGTTCCTCAG 59.825 60.000 0.00 0.00 0.00 3.35
2386 2723 1.258445 GGAGAGCTTCGGGTTCCTCA 61.258 60.000 0.00 0.00 0.00 3.86
2387 2724 0.973496 AGGAGAGCTTCGGGTTCCTC 60.973 60.000 0.00 0.00 32.04 3.71
2388 2725 1.079438 AGGAGAGCTTCGGGTTCCT 59.921 57.895 0.00 0.00 32.41 3.36
2389 2726 1.219393 CAGGAGAGCTTCGGGTTCC 59.781 63.158 0.00 0.00 0.00 3.62
2390 2727 1.219393 CCAGGAGAGCTTCGGGTTC 59.781 63.158 0.00 0.00 0.00 3.62
2391 2728 2.960688 GCCAGGAGAGCTTCGGGTT 61.961 63.158 0.00 0.00 0.00 4.11
2392 2729 3.394836 GCCAGGAGAGCTTCGGGT 61.395 66.667 0.00 0.00 0.00 5.28
2393 2730 3.393970 TGCCAGGAGAGCTTCGGG 61.394 66.667 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.