Multiple sequence alignment - TraesCS4B01G322600

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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 TraesCS4B01G322600 chr4B 100.000 4296 0 0 1 4296 613154369 613158664 0.000000e+00 7934.0
1 TraesCS4B01G322600 chr4B 86.316 190 24 2 2883 3072 135218220 135218033 5.630000e-49 206.0
2 TraesCS4B01G322600 chr4B 82.222 135 24 0 4162 4296 612873050 612872916 2.710000e-22 117.0
3 TraesCS4B01G322600 chr4B 95.455 44 2 0 2152 2195 476362275 476362318 2.140000e-08 71.3
4 TraesCS4B01G322600 chr5A 91.556 2925 152 58 1 2894 663212309 663215169 0.000000e+00 3945.0
5 TraesCS4B01G322600 chr5A 93.349 1248 67 8 3054 4296 663215168 663216404 0.000000e+00 1831.0
6 TraesCS4B01G322600 chr5A 81.679 131 24 0 4162 4292 663173581 663173451 4.540000e-20 110.0
7 TraesCS4B01G322600 chr5A 97.222 36 0 1 2194 2228 594323316 594323281 4.640000e-05 60.2
8 TraesCS4B01G322600 chr4D 86.517 1921 155 54 201 2082 483062329 483064184 0.000000e+00 2017.0
9 TraesCS4B01G322600 chr4D 95.052 1253 50 9 3054 4296 483064977 483066227 0.000000e+00 1960.0
10 TraesCS4B01G322600 chr4D 89.888 623 43 12 2276 2894 483064372 483064978 0.000000e+00 784.0
11 TraesCS4B01G322600 chr4D 90.964 166 14 1 2890 3055 401422912 401422748 5.590000e-54 222.0
12 TraesCS4B01G322600 chr4D 90.058 171 16 1 2888 3058 334164557 334164388 2.010000e-53 220.0
13 TraesCS4B01G322600 chr4D 95.455 44 2 0 2152 2195 388125172 388125215 2.140000e-08 71.3
14 TraesCS4B01G322600 chr4D 94.595 37 2 0 2197 2233 438145635 438145671 1.670000e-04 58.4
15 TraesCS4B01G322600 chr2A 87.061 541 45 11 777 1297 23479419 23478884 4.790000e-164 588.0
16 TraesCS4B01G322600 chr2A 96.970 33 1 0 141 173 761126421 761126389 6.000000e-04 56.5
17 TraesCS4B01G322600 chr6D 92.025 163 12 1 2893 3055 145462463 145462624 1.200000e-55 228.0
18 TraesCS4B01G322600 chr6D 91.411 163 12 2 2893 3055 431160828 431160668 5.590000e-54 222.0
19 TraesCS4B01G322600 chr6D 97.297 37 0 1 2197 2233 363033197 363033162 1.290000e-05 62.1
20 TraesCS4B01G322600 chr5B 91.515 165 11 3 2893 3056 144586474 144586312 1.550000e-54 224.0
21 TraesCS4B01G322600 chr3B 90.533 169 14 2 2891 3059 529407952 529407786 5.590000e-54 222.0
22 TraesCS4B01G322600 chr3B 88.462 52 5 1 2151 2202 778340713 778340663 1.290000e-05 62.1
23 TraesCS4B01G322600 chr3B 100.000 32 0 0 2197 2228 794596334 794596303 4.640000e-05 60.2
24 TraesCS4B01G322600 chr7A 90.909 165 14 1 2892 3056 494786828 494786991 2.010000e-53 220.0
25 TraesCS4B01G322600 chr7A 93.333 45 3 0 2152 2196 328987844 328987800 2.770000e-07 67.6
26 TraesCS4B01G322600 chr2D 88.525 183 18 3 2889 3069 134301484 134301665 7.230000e-53 219.0
27 TraesCS4B01G322600 chr2D 87.629 97 9 1 94 190 370630270 370630363 4.540000e-20 110.0
28 TraesCS4B01G322600 chr3A 80.272 147 23 6 191 333 269231365 269231221 5.880000e-19 106.0
29 TraesCS4B01G322600 chr3A 79.730 148 23 7 191 333 53299180 53299325 2.730000e-17 100.0
30 TraesCS4B01G322600 chr3A 95.455 44 2 0 2152 2195 59953311 59953354 2.140000e-08 71.3
31 TraesCS4B01G322600 chr3A 96.875 32 0 1 2201 2231 690193452 690193483 8.000000e-03 52.8
32 TraesCS4B01G322600 chr1A 84.466 103 6 4 92 193 526752001 526751908 4.570000e-15 93.5
33 TraesCS4B01G322600 chr1A 100.000 33 0 0 2200 2232 490313471 490313439 1.290000e-05 62.1
34 TraesCS4B01G322600 chr6B 87.805 82 4 3 2152 2228 351345735 351345815 1.650000e-14 91.6
35 TraesCS4B01G322600 chr6B 97.297 37 0 1 2197 2233 545202867 545202832 1.290000e-05 62.1
36 TraesCS4B01G322600 chr4A 95.455 44 2 0 2152 2195 69320887 69320930 2.140000e-08 71.3
37 TraesCS4B01G322600 chr7D 93.333 45 3 0 2152 2196 290544897 290544853 2.770000e-07 67.6
38 TraesCS4B01G322600 chr7B 87.500 48 4 2 2149 2195 720572143 720572189 2.000000e-03 54.7
39 TraesCS4B01G322600 chr5D 87.755 49 3 1 143 191 440652066 440652021 2.000000e-03 54.7
40 TraesCS4B01G322600 chr1B 87.500 48 4 2 2149 2195 48112018 48111972 2.000000e-03 54.7


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 TraesCS4B01G322600 chr4B 613154369 613158664 4295 False 7934 7934 100.000000 1 4296 1 chr4B.!!$F2 4295
1 TraesCS4B01G322600 chr5A 663212309 663216404 4095 False 2888 3945 92.452500 1 4296 2 chr5A.!!$F1 4295
2 TraesCS4B01G322600 chr4D 483062329 483066227 3898 False 1587 2017 90.485667 201 4296 3 chr4D.!!$F3 4095
3 TraesCS4B01G322600 chr2A 23478884 23479419 535 True 588 588 87.061000 777 1297 1 chr2A.!!$R1 520

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
678 694 0.170561 GACGTGTGTGTAGCCGAGAT 59.829 55.0 0.00 0.00 0.0 2.75 F
782 813 0.179111 CCTTTCTCGCATCGCTACCA 60.179 55.0 0.00 0.00 0.0 3.25 F
2238 2424 0.030638 GCAGTTCAACACGTGGCATT 59.969 50.0 21.57 1.76 0.0 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2036 2113 1.000385 GCACAGCAAATGCCACTTACA 60.000 47.619 0.94 0.00 43.38 2.41 R
2323 2509 1.442520 CAAACTGCAATCCCACGCG 60.443 57.895 3.53 3.53 0.00 6.01 R
3730 3932 0.961358 ACAGGAGAAGGTCGGTCTCG 60.961 60.000 0.00 0.00 42.13 4.04 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
34 35 3.004524 GGCCTCAGATTCATGAAATGCTC 59.995 47.826 13.09 5.43 46.21 4.26
45 46 6.426980 TCATGAAATGCTCACTACATGAAC 57.573 37.500 0.00 0.00 46.21 3.18
59 60 0.736636 ATGAACCACATCGCAGCATG 59.263 50.000 0.00 0.00 33.46 4.06
68 69 1.002792 CATCGCAGCATGTCAATCAGG 60.003 52.381 0.00 0.00 39.31 3.86
96 97 2.287308 TGACACGCACAAAAGCATTACC 60.287 45.455 0.00 0.00 0.00 2.85
106 107 0.541863 AAGCATTACCACTCCCTCCG 59.458 55.000 0.00 0.00 0.00 4.63
109 110 1.486211 CATTACCACTCCCTCCGTCT 58.514 55.000 0.00 0.00 0.00 4.18
110 111 1.137086 CATTACCACTCCCTCCGTCTG 59.863 57.143 0.00 0.00 0.00 3.51
134 135 7.295201 TGACAATATAAGAGCGTTTTTGACAC 58.705 34.615 0.00 0.00 0.00 3.67
165 166 3.987868 CACTAGTGTCAAAAGCGCTCTTA 59.012 43.478 12.06 0.00 31.02 2.10
171 172 5.643777 AGTGTCAAAAGCGCTCTTATATTGT 59.356 36.000 12.06 0.00 31.02 2.71
172 173 5.734498 GTGTCAAAAGCGCTCTTATATTGTG 59.266 40.000 12.06 0.00 31.02 3.33
173 174 5.411361 TGTCAAAAGCGCTCTTATATTGTGT 59.589 36.000 12.06 0.00 31.02 3.72
180 181 3.245284 CGCTCTTATATTGTGTTGGGACG 59.755 47.826 0.00 0.00 0.00 4.79
337 341 0.243636 TGCAACGCGAGAGAAGATCA 59.756 50.000 15.93 0.00 0.00 2.92
340 344 2.328473 CAACGCGAGAGAAGATCACAA 58.672 47.619 15.93 0.00 0.00 3.33
342 346 2.329379 ACGCGAGAGAAGATCACAAAC 58.671 47.619 15.93 0.00 0.00 2.93
367 371 1.530323 TCAGATCCGAGACGTCAACA 58.470 50.000 19.50 0.00 0.00 3.33
399 403 3.532155 GATCTGAGGAGCGGGCGT 61.532 66.667 0.00 0.00 0.00 5.68
657 673 2.168496 CCGTGGGAGAAGACAAGAGTA 58.832 52.381 0.00 0.00 0.00 2.59
667 683 4.278669 AGAAGACAAGAGTATGACGTGTGT 59.721 41.667 0.00 0.00 31.12 3.72
668 684 3.902150 AGACAAGAGTATGACGTGTGTG 58.098 45.455 0.00 0.00 31.12 3.82
669 685 3.318275 AGACAAGAGTATGACGTGTGTGT 59.682 43.478 0.00 0.00 31.12 3.72
670 686 4.517832 AGACAAGAGTATGACGTGTGTGTA 59.482 41.667 0.00 0.00 31.12 2.90
678 694 0.170561 GACGTGTGTGTAGCCGAGAT 59.829 55.000 0.00 0.00 0.00 2.75
723 739 2.811317 CTGCGACTTCCGACTGGC 60.811 66.667 0.00 0.00 41.76 4.85
725 741 1.934220 CTGCGACTTCCGACTGGCTA 61.934 60.000 0.00 0.00 41.76 3.93
726 742 1.320344 TGCGACTTCCGACTGGCTAT 61.320 55.000 0.00 0.00 41.76 2.97
782 813 0.179111 CCTTTCTCGCATCGCTACCA 60.179 55.000 0.00 0.00 0.00 3.25
878 911 0.471191 TCGCCGTGGGAGATAGAGTA 59.529 55.000 0.00 0.00 0.00 2.59
879 912 0.875728 CGCCGTGGGAGATAGAGTAG 59.124 60.000 0.00 0.00 0.00 2.57
885 918 1.210672 GGAGATAGAGTAGGCGCGC 59.789 63.158 25.94 25.94 0.00 6.86
1147 1195 1.828660 CTCCGCCTCCTCGTGGTAT 60.829 63.158 2.99 0.00 34.83 2.73
1313 1367 3.953612 TGTTGCATCAACTGTTTCTTCCT 59.046 39.130 10.52 0.00 43.85 3.36
1316 1370 3.953612 TGCATCAACTGTTTCTTCCTGTT 59.046 39.130 0.00 0.00 0.00 3.16
1317 1371 4.036734 TGCATCAACTGTTTCTTCCTGTTC 59.963 41.667 0.00 0.00 0.00 3.18
1320 1374 3.053991 TCAACTGTTTCTTCCTGTTCCCA 60.054 43.478 0.00 0.00 0.00 4.37
1327 1381 3.713826 TCTTCCTGTTCCCATACCAAC 57.286 47.619 0.00 0.00 0.00 3.77
1328 1382 3.256704 TCTTCCTGTTCCCATACCAACT 58.743 45.455 0.00 0.00 0.00 3.16
1330 1384 4.847512 TCTTCCTGTTCCCATACCAACTAA 59.152 41.667 0.00 0.00 0.00 2.24
1331 1385 5.311121 TCTTCCTGTTCCCATACCAACTAAA 59.689 40.000 0.00 0.00 0.00 1.85
1332 1386 5.789574 TCCTGTTCCCATACCAACTAAAT 57.210 39.130 0.00 0.00 0.00 1.40
1333 1387 6.894735 TCCTGTTCCCATACCAACTAAATA 57.105 37.500 0.00 0.00 0.00 1.40
1334 1388 7.460214 TCCTGTTCCCATACCAACTAAATAT 57.540 36.000 0.00 0.00 0.00 1.28
1335 1389 8.570038 TCCTGTTCCCATACCAACTAAATATA 57.430 34.615 0.00 0.00 0.00 0.86
1424 1491 1.387295 GCTTGGCTTGCCCATAGGTC 61.387 60.000 9.35 0.00 44.89 3.85
1440 1507 1.294659 GGTCAGTTCTCCTTGCTGCG 61.295 60.000 0.00 0.00 0.00 5.18
1456 1523 3.863681 GCGTTTGCACTTTGATCCA 57.136 47.368 0.00 0.00 42.15 3.41
1498 1566 4.712337 AGACTTCTATCCGGTGTGAAGAAT 59.288 41.667 26.69 17.02 39.17 2.40
1500 1568 6.551601 AGACTTCTATCCGGTGTGAAGAATAT 59.448 38.462 26.69 13.13 39.17 1.28
1506 1575 2.632377 CGGTGTGAAGAATATGGTGCT 58.368 47.619 0.00 0.00 0.00 4.40
1565 1634 7.935520 TGAATCTGAGTCATTAGCTAGTACTG 58.064 38.462 5.39 0.00 0.00 2.74
1625 1695 2.354259 CAAGAGGCCAAGCTGAGTTAG 58.646 52.381 5.01 0.00 0.00 2.34
1627 1697 2.821437 AGAGGCCAAGCTGAGTTAGTA 58.179 47.619 5.01 0.00 0.00 1.82
1628 1698 3.379452 AGAGGCCAAGCTGAGTTAGTAT 58.621 45.455 5.01 0.00 0.00 2.12
1629 1699 3.133721 AGAGGCCAAGCTGAGTTAGTATG 59.866 47.826 5.01 0.00 0.00 2.39
1736 1813 0.597118 GTGCAATTGTTCTTGGCGCA 60.597 50.000 10.83 0.00 0.00 6.09
1838 1915 8.198109 AGTCATCACTAGAATAACCATGTACAC 58.802 37.037 0.00 0.00 0.00 2.90
1858 1935 9.386010 TGTACACTGTTAGTTGAACATTAGTTT 57.614 29.630 0.00 0.00 46.95 2.66
1883 1960 5.995565 TTATAATACCTCATCTGACGGGG 57.004 43.478 0.00 0.00 0.00 5.73
1933 2010 8.862325 ACATAAAAGACTCATACCAACAATGA 57.138 30.769 0.00 0.00 32.56 2.57
1971 2048 6.899393 AAAACTAATGCCTTGTCTGATGAA 57.101 33.333 0.00 0.00 0.00 2.57
2036 2113 4.593206 TCAAGTCTTATGTCCCTGTTCACT 59.407 41.667 0.00 0.00 0.00 3.41
2138 2324 1.884579 CTTGCTGGTCTTGTGCTCATT 59.115 47.619 0.00 0.00 0.00 2.57
2145 2331 4.464008 TGGTCTTGTGCTCATTCTTCTTT 58.536 39.130 0.00 0.00 0.00 2.52
2148 2334 2.975410 TGTGCTCATTCTTCTTTGCG 57.025 45.000 0.00 0.00 0.00 4.85
2149 2335 1.536766 TGTGCTCATTCTTCTTTGCGG 59.463 47.619 0.00 0.00 0.00 5.69
2156 2342 5.294552 GCTCATTCTTCTTTGCGGTTACTAT 59.705 40.000 0.00 0.00 0.00 2.12
2172 2358 8.239998 GCGGTTACTATCTCCGTAAGTAAATAT 58.760 37.037 0.00 0.00 45.11 1.28
2228 2414 8.502161 AATATAAGACGTTTTTGCAGTTCAAC 57.498 30.769 0.00 0.00 33.73 3.18
2229 2415 3.840890 AGACGTTTTTGCAGTTCAACA 57.159 38.095 0.00 0.00 33.73 3.33
2230 2416 3.498082 AGACGTTTTTGCAGTTCAACAC 58.502 40.909 0.00 0.00 33.73 3.32
2232 2418 2.246789 CGTTTTTGCAGTTCAACACGT 58.753 42.857 0.00 0.00 37.08 4.49
2233 2419 2.026272 CGTTTTTGCAGTTCAACACGTG 59.974 45.455 15.48 15.48 37.08 4.49
2234 2420 2.270275 TTTTGCAGTTCAACACGTGG 57.730 45.000 21.57 2.57 33.73 4.94
2235 2421 0.179150 TTTGCAGTTCAACACGTGGC 60.179 50.000 21.57 11.98 33.73 5.01
2236 2422 1.308783 TTGCAGTTCAACACGTGGCA 61.309 50.000 21.57 14.60 32.29 4.92
2237 2423 1.100463 TGCAGTTCAACACGTGGCAT 61.100 50.000 21.57 2.39 30.12 4.40
2238 2424 0.030638 GCAGTTCAACACGTGGCATT 59.969 50.000 21.57 1.76 0.00 3.56
2240 2426 2.095263 GCAGTTCAACACGTGGCATTAT 60.095 45.455 21.57 0.00 0.00 1.28
2241 2427 3.611530 GCAGTTCAACACGTGGCATTATT 60.612 43.478 21.57 0.09 0.00 1.40
2242 2428 4.545610 CAGTTCAACACGTGGCATTATTT 58.454 39.130 21.57 0.00 0.00 1.40
2243 2429 5.694816 CAGTTCAACACGTGGCATTATTTA 58.305 37.500 21.57 0.00 0.00 1.40
2244 2430 5.567534 CAGTTCAACACGTGGCATTATTTAC 59.432 40.000 21.57 4.68 0.00 2.01
2246 2432 6.651643 AGTTCAACACGTGGCATTATTTACTA 59.348 34.615 21.57 0.00 0.00 1.82
2247 2433 7.335924 AGTTCAACACGTGGCATTATTTACTAT 59.664 33.333 21.57 0.00 0.00 2.12
2248 2434 8.605746 GTTCAACACGTGGCATTATTTACTATA 58.394 33.333 21.57 0.00 0.00 1.31
2249 2435 8.719560 TCAACACGTGGCATTATTTACTATAA 57.280 30.769 21.57 0.00 0.00 0.98
2250 2436 9.332502 TCAACACGTGGCATTATTTACTATAAT 57.667 29.630 21.57 0.00 0.00 1.28
2251 2437 9.381027 CAACACGTGGCATTATTTACTATAATG 57.619 33.333 21.57 11.36 42.10 1.90
2252 2438 8.671384 ACACGTGGCATTATTTACTATAATGT 57.329 30.769 21.57 0.00 41.56 2.71
2253 2439 9.767228 ACACGTGGCATTATTTACTATAATGTA 57.233 29.630 21.57 6.16 41.56 2.29
2323 2509 3.077359 ACTGAGGCATGACAAGCTAAAC 58.923 45.455 0.00 0.00 0.00 2.01
2326 2512 0.521242 GGCATGACAAGCTAAACGCG 60.521 55.000 3.53 3.53 45.59 6.01
2564 2757 4.528206 TGTTGTGGACTACATGATCTCTGT 59.472 41.667 0.00 6.71 39.48 3.41
2596 2789 1.409427 GAGCTGTAATAGGAGCGTGGT 59.591 52.381 0.00 0.00 40.34 4.16
2656 2849 4.737855 TGGCAGGTAAAGATACTGACTC 57.262 45.455 0.00 0.00 32.36 3.36
2657 2850 4.353777 TGGCAGGTAAAGATACTGACTCT 58.646 43.478 0.00 0.00 32.36 3.24
2707 2900 3.181490 CCGGACGAGTATCATGAAAGACA 60.181 47.826 0.00 0.00 33.17 3.41
2714 2907 6.148948 CGAGTATCATGAAAGACAGGATCTC 58.851 44.000 0.00 0.00 45.08 2.75
2788 2981 4.096682 GCTCGTGGACTAACTATTCAGAGT 59.903 45.833 0.00 0.00 0.00 3.24
2833 3026 1.470494 TCTGATGCTCTCTCGTGTGTC 59.530 52.381 0.00 0.00 0.00 3.67
2874 3067 6.640925 ACTAGTCTATATTACCACCCCCATT 58.359 40.000 0.00 0.00 0.00 3.16
2875 3068 7.086920 ACTAGTCTATATTACCACCCCCATTT 58.913 38.462 0.00 0.00 0.00 2.32
2900 3093 6.515272 TTTTTCCATGCATTCTACTTCCTC 57.485 37.500 0.00 0.00 0.00 3.71
2901 3094 3.845781 TCCATGCATTCTACTTCCTCC 57.154 47.619 0.00 0.00 0.00 4.30
2902 3095 2.103094 TCCATGCATTCTACTTCCTCCG 59.897 50.000 0.00 0.00 0.00 4.63
2903 3096 2.158900 CCATGCATTCTACTTCCTCCGT 60.159 50.000 0.00 0.00 0.00 4.69
2904 3097 3.535561 CATGCATTCTACTTCCTCCGTT 58.464 45.455 0.00 0.00 0.00 4.44
2905 3098 3.247006 TGCATTCTACTTCCTCCGTTC 57.753 47.619 0.00 0.00 0.00 3.95
2906 3099 2.093658 TGCATTCTACTTCCTCCGTTCC 60.094 50.000 0.00 0.00 0.00 3.62
2907 3100 2.168728 GCATTCTACTTCCTCCGTTCCT 59.831 50.000 0.00 0.00 0.00 3.36
2908 3101 3.383825 GCATTCTACTTCCTCCGTTCCTA 59.616 47.826 0.00 0.00 0.00 2.94
2909 3102 4.142004 GCATTCTACTTCCTCCGTTCCTAA 60.142 45.833 0.00 0.00 0.00 2.69
2910 3103 5.626116 GCATTCTACTTCCTCCGTTCCTAAA 60.626 44.000 0.00 0.00 0.00 1.85
2911 3104 6.583562 CATTCTACTTCCTCCGTTCCTAAAT 58.416 40.000 0.00 0.00 0.00 1.40
2912 3105 7.686127 GCATTCTACTTCCTCCGTTCCTAAATA 60.686 40.741 0.00 0.00 0.00 1.40
2913 3106 7.909485 TTCTACTTCCTCCGTTCCTAAATAT 57.091 36.000 0.00 0.00 0.00 1.28
2914 3107 9.597681 ATTCTACTTCCTCCGTTCCTAAATATA 57.402 33.333 0.00 0.00 0.00 0.86
2915 3108 9.425248 TTCTACTTCCTCCGTTCCTAAATATAA 57.575 33.333 0.00 0.00 0.00 0.98
2916 3109 9.075678 TCTACTTCCTCCGTTCCTAAATATAAG 57.924 37.037 0.00 0.00 0.00 1.73
2917 3110 7.672122 ACTTCCTCCGTTCCTAAATATAAGT 57.328 36.000 0.00 0.00 0.00 2.24
2918 3111 7.724287 ACTTCCTCCGTTCCTAAATATAAGTC 58.276 38.462 0.00 0.00 0.00 3.01
2919 3112 6.661304 TCCTCCGTTCCTAAATATAAGTCC 57.339 41.667 0.00 0.00 0.00 3.85
2920 3113 6.379579 TCCTCCGTTCCTAAATATAAGTCCT 58.620 40.000 0.00 0.00 0.00 3.85
2921 3114 6.842807 TCCTCCGTTCCTAAATATAAGTCCTT 59.157 38.462 0.00 0.00 0.00 3.36
2922 3115 7.346436 TCCTCCGTTCCTAAATATAAGTCCTTT 59.654 37.037 0.00 0.00 0.00 3.11
2923 3116 7.991460 CCTCCGTTCCTAAATATAAGTCCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
2940 3133 9.720769 AAGTCCTTTTAGAGATTTCAATACGAA 57.279 29.630 0.00 0.00 0.00 3.85
2941 3134 9.152595 AGTCCTTTTAGAGATTTCAATACGAAC 57.847 33.333 0.00 0.00 31.73 3.95
2942 3135 9.152595 GTCCTTTTAGAGATTTCAATACGAACT 57.847 33.333 0.00 0.00 31.73 3.01
2949 3142 8.783999 AGAGATTTCAATACGAACTACATACG 57.216 34.615 0.00 0.00 31.73 3.06
2950 3143 7.861372 AGAGATTTCAATACGAACTACATACGG 59.139 37.037 0.00 0.00 31.73 4.02
2951 3144 7.709947 AGATTTCAATACGAACTACATACGGA 58.290 34.615 0.00 0.00 31.73 4.69
2952 3145 8.358148 AGATTTCAATACGAACTACATACGGAT 58.642 33.333 0.00 0.00 31.73 4.18
2953 3146 7.688478 TTTCAATACGAACTACATACGGATG 57.312 36.000 5.94 5.94 34.47 3.51
2954 3147 7.259882 TTTCAATACGAACTACATACGGATGT 58.740 34.615 19.12 19.12 40.55 3.06
2955 3148 7.495135 TCAATACGAACTACATACGGATGTA 57.505 36.000 19.32 19.32 44.77 2.29
2956 3149 8.102800 TCAATACGAACTACATACGGATGTAT 57.897 34.615 20.64 7.28 45.42 2.29
2957 3150 9.218440 TCAATACGAACTACATACGGATGTATA 57.782 33.333 20.64 10.32 45.42 1.47
2958 3151 9.999009 CAATACGAACTACATACGGATGTATAT 57.001 33.333 20.64 12.07 45.42 0.86
2962 3155 8.877779 ACGAACTACATACGGATGTATATAGAC 58.122 37.037 20.64 9.63 45.42 2.59
2963 3156 8.333908 CGAACTACATACGGATGTATATAGACC 58.666 40.741 20.64 7.52 45.42 3.85
2964 3157 8.517062 AACTACATACGGATGTATATAGACCC 57.483 38.462 20.64 0.00 45.42 4.46
2965 3158 7.636579 ACTACATACGGATGTATATAGACCCA 58.363 38.462 20.64 0.00 45.42 4.51
2966 3159 6.770746 ACATACGGATGTATATAGACCCAC 57.229 41.667 12.79 0.00 44.77 4.61
2967 3160 6.491383 ACATACGGATGTATATAGACCCACT 58.509 40.000 12.79 0.00 44.77 4.00
2968 3161 6.952358 ACATACGGATGTATATAGACCCACTT 59.048 38.462 12.79 0.00 44.77 3.16
2969 3162 7.453752 ACATACGGATGTATATAGACCCACTTT 59.546 37.037 12.79 0.00 44.77 2.66
2970 3163 8.963725 CATACGGATGTATATAGACCCACTTTA 58.036 37.037 0.00 0.00 39.28 1.85
2971 3164 7.463961 ACGGATGTATATAGACCCACTTTAG 57.536 40.000 0.00 0.00 0.00 1.85
2972 3165 7.236529 ACGGATGTATATAGACCCACTTTAGA 58.763 38.462 0.00 0.00 0.00 2.10
2973 3166 7.393796 ACGGATGTATATAGACCCACTTTAGAG 59.606 40.741 0.00 0.00 0.00 2.43
2974 3167 7.393796 CGGATGTATATAGACCCACTTTAGAGT 59.606 40.741 0.00 0.00 36.25 3.24
2988 3181 7.840342 CACTTTAGAGTGCAGATTCACTTAT 57.160 36.000 0.00 0.00 46.40 1.73
2989 3182 8.261492 CACTTTAGAGTGCAGATTCACTTATT 57.739 34.615 0.00 0.00 46.40 1.40
2990 3183 8.725148 CACTTTAGAGTGCAGATTCACTTATTT 58.275 33.333 0.00 0.00 46.40 1.40
2991 3184 9.289782 ACTTTAGAGTGCAGATTCACTTATTTT 57.710 29.630 0.00 0.00 46.40 1.82
2992 3185 9.552114 CTTTAGAGTGCAGATTCACTTATTTTG 57.448 33.333 0.00 0.00 46.40 2.44
2993 3186 5.947443 AGAGTGCAGATTCACTTATTTTGC 58.053 37.500 0.00 0.00 46.40 3.68
2994 3187 5.709164 AGAGTGCAGATTCACTTATTTTGCT 59.291 36.000 0.00 0.00 46.40 3.91
2995 3188 5.947443 AGTGCAGATTCACTTATTTTGCTC 58.053 37.500 0.00 0.00 44.26 4.26
2996 3189 5.098211 GTGCAGATTCACTTATTTTGCTCC 58.902 41.667 0.00 0.00 34.29 4.70
2997 3190 5.012239 TGCAGATTCACTTATTTTGCTCCT 58.988 37.500 0.00 0.00 0.00 3.69
2998 3191 5.477984 TGCAGATTCACTTATTTTGCTCCTT 59.522 36.000 0.00 0.00 0.00 3.36
2999 3192 6.015180 TGCAGATTCACTTATTTTGCTCCTTT 60.015 34.615 0.00 0.00 0.00 3.11
3000 3193 7.176515 TGCAGATTCACTTATTTTGCTCCTTTA 59.823 33.333 0.00 0.00 0.00 1.85
3001 3194 8.193438 GCAGATTCACTTATTTTGCTCCTTTAT 58.807 33.333 0.00 0.00 0.00 1.40
3002 3195 9.512435 CAGATTCACTTATTTTGCTCCTTTATG 57.488 33.333 0.00 0.00 0.00 1.90
3003 3196 9.247861 AGATTCACTTATTTTGCTCCTTTATGT 57.752 29.630 0.00 0.00 0.00 2.29
3006 3199 9.515226 TTCACTTATTTTGCTCCTTTATGTAGT 57.485 29.630 0.00 0.00 0.00 2.73
3007 3200 9.162764 TCACTTATTTTGCTCCTTTATGTAGTC 57.837 33.333 0.00 0.00 0.00 2.59
3008 3201 9.167311 CACTTATTTTGCTCCTTTATGTAGTCT 57.833 33.333 0.00 0.00 0.00 3.24
3015 3208 9.778741 TTTGCTCCTTTATGTAGTCTATATTGG 57.221 33.333 0.00 0.00 0.00 3.16
3016 3209 8.721133 TGCTCCTTTATGTAGTCTATATTGGA 57.279 34.615 0.00 1.43 0.00 3.53
3017 3210 9.154632 TGCTCCTTTATGTAGTCTATATTGGAA 57.845 33.333 0.00 0.00 0.00 3.53
3053 3246 9.440761 AGACTTATATTTAGGAATGGAGTGAGT 57.559 33.333 0.00 0.00 0.00 3.41
3064 3257 7.177878 AGGAATGGAGTGAGTATTTTCAATGT 58.822 34.615 0.00 0.00 0.00 2.71
3096 3289 2.559440 GCACATGGATGAGACTTCCTC 58.441 52.381 0.00 0.00 42.30 3.71
3142 3335 2.378547 TGCTCTTATTGTCCCCACCTTT 59.621 45.455 0.00 0.00 0.00 3.11
3143 3336 2.755103 GCTCTTATTGTCCCCACCTTTG 59.245 50.000 0.00 0.00 0.00 2.77
3144 3337 2.755103 CTCTTATTGTCCCCACCTTTGC 59.245 50.000 0.00 0.00 0.00 3.68
3208 3409 3.004734 GGCCAATATGTGTCACTTATGGC 59.995 47.826 24.95 24.95 34.97 4.40
3406 3607 6.542821 TGGTTAGATTTCCAGTTGAGTCAAT 58.457 36.000 9.18 0.00 0.00 2.57
3434 3635 3.198872 GTGCCTTCCAGTAGCTTGATAC 58.801 50.000 0.00 0.00 0.00 2.24
3457 3658 4.206404 CGTGTATTACATTAGTGGCACTCG 59.794 45.833 25.80 16.11 0.00 4.18
3468 3669 3.284617 AGTGGCACTCGTTTACCTTTTT 58.715 40.909 15.88 0.00 0.00 1.94
3706 3908 0.038166 AGGAAAAATCTGCGCTGGGA 59.962 50.000 14.70 7.56 0.00 4.37
3713 3915 1.960040 ATCTGCGCTGGGAATGTCGA 61.960 55.000 14.70 0.00 0.00 4.20
3742 3944 2.675056 CGACGACGAGACCGACCTT 61.675 63.158 0.00 0.00 42.66 3.50
3744 3946 1.297456 GACGACGAGACCGACCTTCT 61.297 60.000 0.00 0.00 39.50 2.85
3772 3974 2.304180 AGCAGGATTTAGTCTGTGCACT 59.696 45.455 19.41 0.00 38.47 4.40
3886 4088 0.820891 CCTTGTGAAGCAGGTGCACT 60.821 55.000 17.98 0.00 45.16 4.40
4012 4214 3.284449 GCCGTGTTCCGCCAGTTT 61.284 61.111 0.00 0.00 34.38 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 4.882427 AGTGAGCATTTCATGAATCTGAGG 59.118 41.667 18.02 4.38 38.29 3.86
34 35 2.345876 TGCGATGTGGTTCATGTAGTG 58.654 47.619 0.00 0.00 36.83 2.74
45 46 0.736636 ATTGACATGCTGCGATGTGG 59.263 50.000 17.99 0.00 36.67 4.17
59 60 1.601903 TGTCACGTTTGCCTGATTGAC 59.398 47.619 0.00 0.00 35.08 3.18
89 90 0.179081 GACGGAGGGAGTGGTAATGC 60.179 60.000 0.00 0.00 0.00 3.56
90 91 1.137086 CAGACGGAGGGAGTGGTAATG 59.863 57.143 0.00 0.00 0.00 1.90
96 97 0.898320 ATTGTCAGACGGAGGGAGTG 59.102 55.000 0.00 0.00 0.00 3.51
106 107 7.688578 GTCAAAAACGCTCTTATATTGTCAGAC 59.311 37.037 0.00 0.00 0.00 3.51
109 110 7.172532 AGTGTCAAAAACGCTCTTATATTGTCA 59.827 33.333 0.00 0.00 45.69 3.58
110 111 7.478667 CAGTGTCAAAAACGCTCTTATATTGTC 59.521 37.037 0.00 0.00 45.69 3.18
153 154 5.393027 CCCAACACAATATAAGAGCGCTTTT 60.393 40.000 17.98 17.98 35.56 2.27
157 158 3.002348 GTCCCAACACAATATAAGAGCGC 59.998 47.826 0.00 0.00 0.00 5.92
165 166 1.211949 CCCTCCGTCCCAACACAATAT 59.788 52.381 0.00 0.00 0.00 1.28
171 172 0.901580 GTACTCCCTCCGTCCCAACA 60.902 60.000 0.00 0.00 0.00 3.33
172 173 0.614134 AGTACTCCCTCCGTCCCAAC 60.614 60.000 0.00 0.00 0.00 3.77
173 174 0.115745 AAGTACTCCCTCCGTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
180 181 2.817665 ACCTACACAAGTACTCCCTCC 58.182 52.381 0.00 0.00 0.00 4.30
337 341 1.548719 TCGGATCTGATGGTCGTTTGT 59.451 47.619 0.00 0.00 0.00 2.83
340 344 1.405821 GTCTCGGATCTGATGGTCGTT 59.594 52.381 4.28 0.00 0.00 3.85
342 346 0.040870 CGTCTCGGATCTGATGGTCG 60.041 60.000 4.28 0.55 0.00 4.79
377 381 1.363443 CCGCTCCTCAGATCTCAGC 59.637 63.158 0.00 0.00 0.00 4.26
413 417 1.153349 GGATCGGAAGGTCAGTGCC 60.153 63.158 0.00 0.00 45.13 5.01
476 487 3.164011 CTCGTCGTCGTTGTCGCC 61.164 66.667 1.33 0.00 38.33 5.54
482 493 4.755614 GCGCTCCTCGTCGTCGTT 62.756 66.667 0.00 0.00 41.07 3.85
657 673 0.109272 CTCGGCTACACACACGTCAT 60.109 55.000 0.00 0.00 0.00 3.06
667 683 1.339631 CCACCCAAAATCTCGGCTACA 60.340 52.381 0.00 0.00 0.00 2.74
668 684 1.339727 ACCACCCAAAATCTCGGCTAC 60.340 52.381 0.00 0.00 0.00 3.58
669 685 0.988832 ACCACCCAAAATCTCGGCTA 59.011 50.000 0.00 0.00 0.00 3.93
670 686 0.609131 CACCACCCAAAATCTCGGCT 60.609 55.000 0.00 0.00 0.00 5.52
678 694 2.902846 CGGTCGCACCACCCAAAA 60.903 61.111 6.21 0.00 38.47 2.44
723 739 1.742768 GTGGAGCCAGACCGGATAG 59.257 63.158 9.46 0.00 36.56 2.08
725 741 3.083997 GGTGGAGCCAGACCGGAT 61.084 66.667 9.46 0.00 36.56 4.18
766 782 1.141019 GGTGGTAGCGATGCGAGAA 59.859 57.895 0.00 0.00 0.00 2.87
1147 1195 1.151810 AGAAGTGGGGAAGGGAGCA 60.152 57.895 0.00 0.00 0.00 4.26
1199 1252 2.795329 ACAGAAAAAGCATCCATCCGT 58.205 42.857 0.00 0.00 0.00 4.69
1204 1257 4.202461 ACAGACCTACAGAAAAAGCATCCA 60.202 41.667 0.00 0.00 0.00 3.41
1350 1417 7.542130 GCAATCGAAGAAACAAAATCACCTTAT 59.458 33.333 0.00 0.00 43.58 1.73
1351 1418 6.861055 GCAATCGAAGAAACAAAATCACCTTA 59.139 34.615 0.00 0.00 43.58 2.69
1361 1428 3.882888 AGGAACTGCAATCGAAGAAACAA 59.117 39.130 0.00 0.00 37.45 2.83
1424 1491 0.947244 AAACGCAGCAAGGAGAACTG 59.053 50.000 0.00 0.00 34.48 3.16
1440 1507 2.409378 CGCAATGGATCAAAGTGCAAAC 59.591 45.455 16.89 0.00 34.87 2.93
1472 1539 3.280295 TCACACCGGATAGAAGTCTCTC 58.720 50.000 9.46 0.00 32.70 3.20
1473 1540 3.367646 TCACACCGGATAGAAGTCTCT 57.632 47.619 9.46 0.00 35.52 3.10
1498 1566 3.439129 CGTGATATCCTACGAGCACCATA 59.561 47.826 9.38 0.00 42.54 2.74
1500 1568 1.607148 CGTGATATCCTACGAGCACCA 59.393 52.381 9.38 0.00 42.54 4.17
1506 1575 1.941975 TCAACGCGTGATATCCTACGA 59.058 47.619 14.98 0.00 42.54 3.43
1589 1658 3.626670 CCTCTTGCTATTCCAAAGAGCAG 59.373 47.826 8.75 4.84 46.29 4.24
1625 1695 2.766828 AGACAGGCAGGTCCTAACATAC 59.233 50.000 5.80 0.00 45.52 2.39
1627 1697 1.958288 AGACAGGCAGGTCCTAACAT 58.042 50.000 5.80 0.00 45.52 2.71
1628 1698 1.729586 AAGACAGGCAGGTCCTAACA 58.270 50.000 5.80 0.00 45.52 2.41
1629 1699 2.303311 AGAAAGACAGGCAGGTCCTAAC 59.697 50.000 5.80 0.00 45.52 2.34
1669 1743 6.171921 GGCAGAGAGAAGCATGTATCATAAT 58.828 40.000 0.00 0.00 0.00 1.28
1736 1813 5.070685 GGAACTTACTTGATTCCAACAGGT 58.929 41.667 0.00 0.00 41.40 4.00
1858 1935 7.147444 ACCCCGTCAGATGAGGTATTATAAAAA 60.147 37.037 0.00 0.00 0.00 1.94
1883 1960 8.647226 GTTTAAATTGACATATCCTTGTGCAAC 58.353 33.333 0.00 0.00 37.35 4.17
1933 2010 6.725246 CATTAGTTTTTGACGAAGGACAAGT 58.275 36.000 0.00 0.00 27.86 3.16
2036 2113 1.000385 GCACAGCAAATGCCACTTACA 60.000 47.619 0.94 0.00 43.38 2.41
2138 2324 4.439700 CGGAGATAGTAACCGCAAAGAAGA 60.440 45.833 0.00 0.00 40.19 2.87
2172 2358 7.199766 ACGAATTGAACTGCAAAAACATCTTA 58.800 30.769 0.00 0.00 40.48 2.10
2177 2363 6.326375 AGTTACGAATTGAACTGCAAAAACA 58.674 32.000 0.00 0.00 40.48 2.83
2178 2364 6.806120 AGTTACGAATTGAACTGCAAAAAC 57.194 33.333 0.00 0.00 40.48 2.43
2206 2392 5.741982 GTGTTGAACTGCAAAAACGTCTTAT 59.258 36.000 0.00 0.00 38.44 1.73
2212 2398 2.026272 CACGTGTTGAACTGCAAAAACG 59.974 45.455 7.58 9.48 46.26 3.60
2229 2415 9.991906 AGTACATTATAGTAAATAATGCCACGT 57.008 29.630 14.60 0.00 42.63 4.49
2323 2509 1.442520 CAAACTGCAATCCCACGCG 60.443 57.895 3.53 3.53 0.00 6.01
2326 2512 1.686052 TGGAACAAACTGCAATCCCAC 59.314 47.619 0.00 0.00 31.92 4.61
2330 2516 2.669364 CTGCTGGAACAAACTGCAATC 58.331 47.619 0.00 0.00 41.25 2.67
2513 2706 6.260714 GGATGATGTGCAATAACTGACATACA 59.739 38.462 0.00 0.00 30.62 2.29
2564 2757 1.571955 TACAGCTCCATGAGAAGGCA 58.428 50.000 0.00 0.00 0.00 4.75
2596 2789 2.275880 GCATAGGCCAAGCACCAAA 58.724 52.632 5.01 0.00 0.00 3.28
2707 2900 5.536538 TGCATAAACATCTCTACGAGATCCT 59.463 40.000 3.50 0.00 45.03 3.24
2714 2907 7.093354 ACTGGATATGCATAAACATCTCTACG 58.907 38.462 11.13 2.34 0.00 3.51
2833 3026 0.877071 AGTTCCAACAGCAGCATTCG 59.123 50.000 0.00 0.00 0.00 3.34
2894 3087 7.015389 AGGACTTATATTTAGGAACGGAGGAAG 59.985 40.741 0.00 0.00 0.00 3.46
2895 3088 6.842807 AGGACTTATATTTAGGAACGGAGGAA 59.157 38.462 0.00 0.00 0.00 3.36
2896 3089 6.379579 AGGACTTATATTTAGGAACGGAGGA 58.620 40.000 0.00 0.00 0.00 3.71
2897 3090 6.667558 AGGACTTATATTTAGGAACGGAGG 57.332 41.667 0.00 0.00 0.00 4.30
2898 3091 8.959705 AAAAGGACTTATATTTAGGAACGGAG 57.040 34.615 0.00 0.00 0.00 4.63
2914 3107 9.720769 TTCGTATTGAAATCTCTAAAAGGACTT 57.279 29.630 0.00 0.00 32.37 3.01
2915 3108 9.152595 GTTCGTATTGAAATCTCTAAAAGGACT 57.847 33.333 0.00 0.00 38.60 3.85
2916 3109 9.152595 AGTTCGTATTGAAATCTCTAAAAGGAC 57.847 33.333 0.00 0.00 38.60 3.85
2923 3116 9.874215 CGTATGTAGTTCGTATTGAAATCTCTA 57.126 33.333 0.00 0.00 38.60 2.43
2924 3117 7.861372 CCGTATGTAGTTCGTATTGAAATCTCT 59.139 37.037 0.00 0.00 38.60 3.10
2925 3118 7.859377 TCCGTATGTAGTTCGTATTGAAATCTC 59.141 37.037 0.00 0.00 38.60 2.75
2926 3119 7.709947 TCCGTATGTAGTTCGTATTGAAATCT 58.290 34.615 0.00 0.00 38.60 2.40
2927 3120 7.919313 TCCGTATGTAGTTCGTATTGAAATC 57.081 36.000 0.00 0.00 38.60 2.17
2928 3121 7.924412 ACATCCGTATGTAGTTCGTATTGAAAT 59.076 33.333 0.00 0.00 44.66 2.17
2929 3122 7.259882 ACATCCGTATGTAGTTCGTATTGAAA 58.740 34.615 0.00 0.00 44.66 2.69
2930 3123 6.798482 ACATCCGTATGTAGTTCGTATTGAA 58.202 36.000 0.00 0.00 44.66 2.69
2931 3124 6.381481 ACATCCGTATGTAGTTCGTATTGA 57.619 37.500 0.00 0.00 44.66 2.57
2944 3137 7.406031 AAGTGGGTCTATATACATCCGTATG 57.594 40.000 0.00 0.00 38.79 2.39
2945 3138 9.186837 CTAAAGTGGGTCTATATACATCCGTAT 57.813 37.037 0.00 0.00 41.34 3.06
2946 3139 8.385491 TCTAAAGTGGGTCTATATACATCCGTA 58.615 37.037 0.00 0.00 0.00 4.02
2947 3140 7.236529 TCTAAAGTGGGTCTATATACATCCGT 58.763 38.462 0.00 0.00 0.00 4.69
2948 3141 7.393796 ACTCTAAAGTGGGTCTATATACATCCG 59.606 40.741 0.00 0.00 33.32 4.18
2949 3142 8.653036 ACTCTAAAGTGGGTCTATATACATCC 57.347 38.462 0.00 0.00 33.32 3.51
2973 3166 5.098211 GGAGCAAAATAAGTGAATCTGCAC 58.902 41.667 0.00 0.00 39.05 4.57
2974 3167 5.012239 AGGAGCAAAATAAGTGAATCTGCA 58.988 37.500 0.00 0.00 0.00 4.41
2975 3168 5.573337 AGGAGCAAAATAAGTGAATCTGC 57.427 39.130 0.00 0.00 0.00 4.26
2976 3169 9.512435 CATAAAGGAGCAAAATAAGTGAATCTG 57.488 33.333 0.00 0.00 0.00 2.90
2977 3170 9.247861 ACATAAAGGAGCAAAATAAGTGAATCT 57.752 29.630 0.00 0.00 0.00 2.40
2980 3173 9.515226 ACTACATAAAGGAGCAAAATAAGTGAA 57.485 29.630 0.00 0.00 0.00 3.18
2981 3174 9.162764 GACTACATAAAGGAGCAAAATAAGTGA 57.837 33.333 0.00 0.00 0.00 3.41
2982 3175 9.167311 AGACTACATAAAGGAGCAAAATAAGTG 57.833 33.333 0.00 0.00 0.00 3.16
2989 3182 9.778741 CCAATATAGACTACATAAAGGAGCAAA 57.221 33.333 0.00 0.00 0.00 3.68
2990 3183 9.154632 TCCAATATAGACTACATAAAGGAGCAA 57.845 33.333 0.00 0.00 0.00 3.91
2991 3184 8.721133 TCCAATATAGACTACATAAAGGAGCA 57.279 34.615 0.00 0.00 0.00 4.26
3027 3220 9.440761 ACTCACTCCATTCCTAAATATAAGTCT 57.559 33.333 0.00 0.00 0.00 3.24
3035 3228 9.753674 TTGAAAATACTCACTCCATTCCTAAAT 57.246 29.630 0.00 0.00 0.00 1.40
3036 3229 9.753674 ATTGAAAATACTCACTCCATTCCTAAA 57.246 29.630 0.00 0.00 0.00 1.85
3037 3230 9.177608 CATTGAAAATACTCACTCCATTCCTAA 57.822 33.333 0.00 0.00 0.00 2.69
3038 3231 8.328758 ACATTGAAAATACTCACTCCATTCCTA 58.671 33.333 0.00 0.00 0.00 2.94
3039 3232 7.177878 ACATTGAAAATACTCACTCCATTCCT 58.822 34.615 0.00 0.00 0.00 3.36
3040 3233 7.396540 ACATTGAAAATACTCACTCCATTCC 57.603 36.000 0.00 0.00 0.00 3.01
3041 3234 9.167311 ACTACATTGAAAATACTCACTCCATTC 57.833 33.333 0.00 0.00 0.00 2.67
3051 3244 8.557029 GCCGCTAAATACTACATTGAAAATACT 58.443 33.333 0.00 0.00 0.00 2.12
3052 3245 8.339714 TGCCGCTAAATACTACATTGAAAATAC 58.660 33.333 0.00 0.00 0.00 1.89
3053 3246 8.339714 GTGCCGCTAAATACTACATTGAAAATA 58.660 33.333 0.00 0.00 0.00 1.40
3054 3247 7.148154 TGTGCCGCTAAATACTACATTGAAAAT 60.148 33.333 0.00 0.00 0.00 1.82
3064 3257 4.039852 TCATCCATGTGCCGCTAAATACTA 59.960 41.667 0.00 0.00 0.00 1.82
3096 3289 4.516698 ACAGTCAATTGTAAGGCACAGAAG 59.483 41.667 5.13 0.00 38.72 2.85
3142 3335 2.854963 AGAGACATGAGTTGCAAAGCA 58.145 42.857 0.00 2.34 36.47 3.91
3143 3336 3.911661 AAGAGACATGAGTTGCAAAGC 57.088 42.857 0.00 0.00 0.00 3.51
3144 3337 4.518211 AGGAAAGAGACATGAGTTGCAAAG 59.482 41.667 0.00 0.00 0.00 2.77
3434 3635 4.206404 CGAGTGCCACTAATGTAATACACG 59.794 45.833 0.00 0.00 32.22 4.49
3457 3658 3.639561 TCTTCAGCCCCAAAAAGGTAAAC 59.360 43.478 0.00 0.00 34.66 2.01
3537 3738 6.486657 CACAAACAAAAACCCTCTCATCTCTA 59.513 38.462 0.00 0.00 0.00 2.43
3538 3739 5.300286 CACAAACAAAAACCCTCTCATCTCT 59.700 40.000 0.00 0.00 0.00 3.10
3706 3908 3.050703 GGCACTCGATGTCGACATT 57.949 52.632 30.46 13.35 44.22 2.71
3730 3932 0.961358 ACAGGAGAAGGTCGGTCTCG 60.961 60.000 0.00 0.00 42.13 4.04
3772 3974 2.983030 GTTGTGGTGGCGCATCCA 60.983 61.111 16.80 16.80 44.18 3.41
3832 4034 3.785859 GATCCCCAGAGCACGCCA 61.786 66.667 0.00 0.00 0.00 5.69
3837 4039 3.147595 CCGACGATCCCCAGAGCA 61.148 66.667 0.00 0.00 0.00 4.26
4182 4386 1.344438 TGCAGCTATATCACCTTCCCG 59.656 52.381 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.