Multiple sequence alignment - TraesCS6B01G426300

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G426300 chr6B 100.000 3353 0 0 3551 6903 694676963 694680315 0.000000e+00 6192
1 TraesCS6B01G426300 chr6B 100.000 3322 0 0 1 3322 694673413 694676734 0.000000e+00 6135
2 TraesCS6B01G426300 chr6B 79.013 1601 320 12 4289 5884 151129791 151131380 0.000000e+00 1081
3 TraesCS6B01G426300 chr6B 81.597 288 29 16 2553 2825 694675536 694675814 4.190000e-52 217
4 TraesCS6B01G426300 chr6B 81.597 288 29 16 2124 2402 694675965 694676237 4.190000e-52 217
5 TraesCS6B01G426300 chr6B 84.699 183 20 5 1144 1325 151127292 151127467 7.120000e-40 176
6 TraesCS6B01G426300 chr7D 94.147 3383 114 33 3551 6903 543727419 543730747 0.000000e+00 5073
7 TraesCS6B01G426300 chr7D 89.757 1318 91 24 573 1878 543724713 543725998 0.000000e+00 1646
8 TraesCS6B01G426300 chr7D 89.757 781 61 9 2553 3322 543726593 543727365 0.000000e+00 981
9 TraesCS6B01G426300 chr7D 89.894 564 30 8 2004 2558 543726008 543726553 0.000000e+00 701
10 TraesCS6B01G426300 chr7D 82.272 581 75 20 1 560 543724086 543724659 1.740000e-130 477
11 TraesCS6B01G426300 chr7D 92.174 115 9 0 6787 6901 548324005 548324119 5.540000e-36 163
12 TraesCS6B01G426300 chr7A 95.692 2925 102 11 3551 6455 625638203 625641123 0.000000e+00 4682
13 TraesCS6B01G426300 chr7A 90.207 2032 141 27 562 2558 625635424 625637432 0.000000e+00 2597
14 TraesCS6B01G426300 chr7A 91.560 782 36 17 5741 6499 625673079 625673853 0.000000e+00 1051
15 TraesCS6B01G426300 chr7A 86.897 725 47 18 2553 3244 625637470 625638179 0.000000e+00 769
16 TraesCS6B01G426300 chr7A 90.217 368 29 2 6539 6903 625641151 625641514 2.250000e-129 473
17 TraesCS6B01G426300 chr7A 80.043 461 52 22 1968 2406 625637312 625637754 8.700000e-79 305
18 TraesCS6B01G426300 chr7A 79.000 500 56 28 1 469 625634795 625635276 5.240000e-76 296
19 TraesCS6B01G426300 chr7A 82.105 285 30 14 2553 2825 625637001 625637276 2.510000e-54 224
20 TraesCS6B01G426300 chr7A 88.690 168 19 0 6723 6890 631653554 631653387 9.080000e-49 206
21 TraesCS6B01G426300 chr7A 91.250 80 6 1 2437 2516 625636840 625636918 2.630000e-19 108
22 TraesCS6B01G426300 chr6A 79.438 1600 315 12 4289 5884 93813292 93814881 0.000000e+00 1120
23 TraesCS6B01G426300 chr6A 84.699 183 20 5 1144 1325 93810416 93810591 7.120000e-40 176
24 TraesCS6B01G426300 chr1B 90.361 332 18 3 6584 6901 169013501 169013832 2.300000e-114 424
25 TraesCS6B01G426300 chr1B 90.857 175 10 3 6208 6376 169011256 169011430 5.390000e-56 230
26 TraesCS6B01G426300 chr1D 92.241 232 12 2 6676 6901 110904277 110904508 2.400000e-84 324
27 TraesCS6B01G426300 chr1D 89.030 237 17 9 5980 6212 110838409 110838640 1.130000e-72 285
28 TraesCS6B01G426300 chr2A 87.624 202 25 0 6700 6901 701849094 701848893 1.160000e-57 235
29 TraesCS6B01G426300 chr6D 84.492 187 22 4 1144 1330 78264794 78264973 1.980000e-40 178


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 TraesCS6B01G426300 chr6B 694673413 694680315 6902 False 3190.25 6192 90.798500 1 6903 4 chr6B.!!$F2 6902
1 TraesCS6B01G426300 chr6B 151127292 151131380 4088 False 628.50 1081 81.856000 1144 5884 2 chr6B.!!$F1 4740
2 TraesCS6B01G426300 chr7D 543724086 543730747 6661 False 1775.60 5073 89.165400 1 6903 5 chr7D.!!$F2 6902
3 TraesCS6B01G426300 chr7A 625634795 625641514 6719 False 1181.75 4682 86.926375 1 6903 8 chr7A.!!$F2 6902
4 TraesCS6B01G426300 chr7A 625673079 625673853 774 False 1051.00 1051 91.560000 5741 6499 1 chr7A.!!$F1 758
5 TraesCS6B01G426300 chr6A 93810416 93814881 4465 False 648.00 1120 82.068500 1144 5884 2 chr6A.!!$F1 4740
6 TraesCS6B01G426300 chr1B 169011256 169013832 2576 False 327.00 424 90.609000 6208 6901 2 chr1B.!!$F1 693

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
20 22 0.457035 CAAATTGATGAGGCCACCGG 59.543 55.000 5.01 0.0 0.00 5.28 F
1091 1235 0.034089 GGAGAGATGGTTGTTGGGGG 60.034 60.000 0.00 0.0 0.00 5.40 F
1843 2328 0.727398 GTAACTGCTGAACCGCATCC 59.273 55.000 0.00 0.0 39.52 3.51 F
2231 2736 0.620556 ATGTCCAGTCTGCCGGAATT 59.379 50.000 5.05 0.0 31.67 2.17 F
2600 3164 0.698238 CAGAATGGGGGTGAACCTGA 59.302 55.000 0.00 0.0 40.03 3.86 F
3281 3900 0.811281 GTGCCAATCTTGCTGGGTAC 59.189 55.000 0.00 0.0 34.25 3.34 F
3596 4215 1.130777 AAACCTGGTTGCCTTGCATT 58.869 45.000 13.79 0.0 38.76 3.56 F
3970 4592 1.201647 CTGTCTTTGGCTGGCATTCTG 59.798 52.381 4.22 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1838 2323 0.037877 AGCATATCAGGCCAGGATGC 59.962 55.000 20.91 20.91 42.57 3.91 R
2156 2661 1.003118 TGATCAGGTTCACCCCTTTCG 59.997 52.381 0.00 0.00 36.42 3.46 R
3579 4198 1.618343 GTAAATGCAAGGCAACCAGGT 59.382 47.619 0.00 0.00 43.62 4.00 R
3819 4441 4.079961 ATCCCTTGGGGCCTTGGC 62.080 66.667 0.84 2.49 43.94 4.52 R
4376 6230 3.128242 CGGAACTGAGTACCGTTGTCTAT 59.872 47.826 0.00 0.00 41.47 1.98 R
4870 6724 1.623811 GTGGTTAGTTCTCTGGCCAGA 59.376 52.381 33.04 33.04 32.58 3.86 R
5749 7603 3.131478 GGTCGCCCGGGAACATTG 61.131 66.667 29.31 5.75 0.00 2.82 R
5999 7857 0.039617 TTCCGAGCGCCAAACATTTG 60.040 50.000 2.29 0.00 37.90 2.32 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
20 22 0.457035 CAAATTGATGAGGCCACCGG 59.543 55.000 5.01 0.00 0.00 5.28
55 57 3.283751 GAGAATGAGACGAAGGAGGAGA 58.716 50.000 0.00 0.00 0.00 3.71
59 61 0.745128 GAGACGAAGGAGGAGAGCGA 60.745 60.000 0.00 0.00 0.00 4.93
74 76 3.161866 AGAGCGAGAAAGGAAGAAGAGT 58.838 45.455 0.00 0.00 0.00 3.24
75 77 4.337145 AGAGCGAGAAAGGAAGAAGAGTA 58.663 43.478 0.00 0.00 0.00 2.59
76 78 4.953579 AGAGCGAGAAAGGAAGAAGAGTAT 59.046 41.667 0.00 0.00 0.00 2.12
77 79 6.123651 AGAGCGAGAAAGGAAGAAGAGTATA 58.876 40.000 0.00 0.00 0.00 1.47
107 109 2.019408 CAATGTGACGACGCCGACA 61.019 57.895 0.00 0.00 38.05 4.35
127 129 0.547712 ATGAGGCCAGTGGTGTAGGT 60.548 55.000 11.74 0.00 0.00 3.08
155 158 2.441750 TGCTAGAATGGTAATGACCCCC 59.558 50.000 0.00 0.00 46.32 5.40
158 161 0.822121 GAATGGTAATGACCCCCGCC 60.822 60.000 0.00 0.00 46.32 6.13
210 215 1.071471 CGACACCTTGACTTGCCCT 59.929 57.895 0.00 0.00 0.00 5.19
223 228 2.124736 GCCCTGCTTACGATGGCA 60.125 61.111 0.00 0.00 41.76 4.92
230 235 1.153647 CTTACGATGGCAGCGGTGA 60.154 57.895 29.60 11.33 0.00 4.02
245 250 2.230266 GCGGTGAAAAATCAAGGCCTAA 59.770 45.455 5.16 0.00 0.00 2.69
250 255 5.355910 GGTGAAAAATCAAGGCCTAATACGA 59.644 40.000 5.16 0.00 0.00 3.43
256 261 2.496871 TCAAGGCCTAATACGACGGAAA 59.503 45.455 5.16 0.00 0.00 3.13
272 277 2.779506 GGAAAGAAGAAAAGGAGGCGA 58.220 47.619 0.00 0.00 0.00 5.54
275 280 3.425162 AAGAAGAAAAGGAGGCGACAT 57.575 42.857 0.00 0.00 0.00 3.06
286 291 2.433239 GGAGGCGACATAAGAGGGTAAA 59.567 50.000 0.00 0.00 0.00 2.01
291 296 2.770232 CGACATAAGAGGGTAAAGGGGT 59.230 50.000 0.00 0.00 0.00 4.95
292 297 3.431766 CGACATAAGAGGGTAAAGGGGTG 60.432 52.174 0.00 0.00 0.00 4.61
293 298 2.850568 ACATAAGAGGGTAAAGGGGTGG 59.149 50.000 0.00 0.00 0.00 4.61
294 299 1.292085 TAAGAGGGTAAAGGGGTGGC 58.708 55.000 0.00 0.00 0.00 5.01
295 300 0.774491 AAGAGGGTAAAGGGGTGGCA 60.774 55.000 0.00 0.00 0.00 4.92
296 301 1.208165 AGAGGGTAAAGGGGTGGCAG 61.208 60.000 0.00 0.00 0.00 4.85
297 302 1.465387 AGGGTAAAGGGGTGGCAGT 60.465 57.895 0.00 0.00 0.00 4.40
298 303 1.304134 GGGTAAAGGGGTGGCAGTG 60.304 63.158 0.00 0.00 0.00 3.66
299 304 1.458927 GGTAAAGGGGTGGCAGTGT 59.541 57.895 0.00 0.00 0.00 3.55
323 328 4.402793 GGCACTACTAGAGGAACAAGATGA 59.597 45.833 0.00 0.00 0.00 2.92
324 329 5.105310 GGCACTACTAGAGGAACAAGATGAA 60.105 44.000 0.00 0.00 0.00 2.57
326 331 6.350612 GCACTACTAGAGGAACAAGATGAAGT 60.351 42.308 0.00 0.00 0.00 3.01
356 379 1.396996 GGTCATCACCATGTACAACGC 59.603 52.381 0.00 0.00 43.17 4.84
357 380 1.060553 GTCATCACCATGTACAACGCG 59.939 52.381 3.53 3.53 0.00 6.01
358 381 1.075542 CATCACCATGTACAACGCGT 58.924 50.000 5.58 5.58 0.00 6.01
359 382 1.463056 CATCACCATGTACAACGCGTT 59.537 47.619 20.79 20.79 0.00 4.84
426 457 1.464198 GGGCTCCTGATACCCCCAT 60.464 63.158 0.00 0.00 37.70 4.00
430 461 0.842467 CTCCTGATACCCCCATCCCC 60.842 65.000 0.00 0.00 0.00 4.81
431 462 1.852626 CCTGATACCCCCATCCCCC 60.853 68.421 0.00 0.00 0.00 5.40
492 556 4.842139 ATACGACGAATTGAGCTGAAAC 57.158 40.909 0.00 0.00 0.00 2.78
517 581 2.552315 ACTCATTTGTAAAGCGGGTGTG 59.448 45.455 0.00 0.00 0.00 3.82
560 624 3.330720 CCGAGGGGAGCCAAACCT 61.331 66.667 0.00 0.00 37.31 3.50
561 625 2.757077 CGAGGGGAGCCAAACCTT 59.243 61.111 0.00 0.00 34.02 3.50
562 626 1.074951 CGAGGGGAGCCAAACCTTT 59.925 57.895 0.00 0.00 34.02 3.11
768 882 1.271656 TCGTTCGTCTTCCCTCTTTCC 59.728 52.381 0.00 0.00 0.00 3.13
835 959 2.526046 CCACCACCTCCTCCCGTTT 61.526 63.158 0.00 0.00 0.00 3.60
838 962 2.264794 CACCTCCTCCCGTTTCCG 59.735 66.667 0.00 0.00 0.00 4.30
839 963 3.703127 ACCTCCTCCCGTTTCCGC 61.703 66.667 0.00 0.00 0.00 5.54
841 965 3.391382 CTCCTCCCGTTTCCGCCT 61.391 66.667 0.00 0.00 0.00 5.52
844 968 4.468689 CTCCCGTTTCCGCCTCCC 62.469 72.222 0.00 0.00 0.00 4.30
849 973 4.735358 GTTTCCGCCTCCCCACCC 62.735 72.222 0.00 0.00 0.00 4.61
859 983 3.339093 CCCCACCCCCAGAACCTC 61.339 72.222 0.00 0.00 0.00 3.85
860 984 3.717294 CCCACCCCCAGAACCTCG 61.717 72.222 0.00 0.00 0.00 4.63
861 985 4.410400 CCACCCCCAGAACCTCGC 62.410 72.222 0.00 0.00 0.00 5.03
866 990 4.410400 CCCAGAACCTCGCCCCAC 62.410 72.222 0.00 0.00 0.00 4.61
867 991 3.322466 CCAGAACCTCGCCCCACT 61.322 66.667 0.00 0.00 0.00 4.00
870 994 3.003763 GAACCTCGCCCCACTCCT 61.004 66.667 0.00 0.00 0.00 3.69
1083 1227 1.022903 AGGAGGGAGGAGAGATGGTT 58.977 55.000 0.00 0.00 0.00 3.67
1084 1228 1.127343 GGAGGGAGGAGAGATGGTTG 58.873 60.000 0.00 0.00 0.00 3.77
1091 1235 0.034089 GGAGAGATGGTTGTTGGGGG 60.034 60.000 0.00 0.00 0.00 5.40
1325 1475 2.222013 GGAACTGGTTCGTCCCCCT 61.222 63.158 7.28 0.00 40.37 4.79
1330 1480 2.926242 GGTTCGTCCCCCTGTCCA 60.926 66.667 0.00 0.00 0.00 4.02
1333 1483 2.355986 TTCGTCCCCCTGTCCATCG 61.356 63.158 0.00 0.00 0.00 3.84
1336 1486 1.987855 GTCCCCCTGTCCATCGTCA 60.988 63.158 0.00 0.00 0.00 4.35
1341 1491 2.594131 CCCCTGTCCATCGTCATACTA 58.406 52.381 0.00 0.00 0.00 1.82
1354 1504 5.133941 TCGTCATACTATTGCTCTCCTTCT 58.866 41.667 0.00 0.00 0.00 2.85
1367 1517 2.632996 TCTCCTTCTGTTGGATTCGTGT 59.367 45.455 0.00 0.00 32.56 4.49
1372 1522 4.330074 CCTTCTGTTGGATTCGTGTATGTC 59.670 45.833 0.00 0.00 0.00 3.06
1401 1551 1.399714 TCGATGCCACTTAGGATCGT 58.600 50.000 13.74 0.00 42.69 3.73
1413 1885 5.289675 CACTTAGGATCGTGCAGAACTTAAG 59.710 44.000 16.06 16.06 42.74 1.85
1464 1944 2.668457 GCTTCGATAGTGGTGACTTGTG 59.332 50.000 0.00 0.00 33.21 3.33
1474 1954 3.189287 GTGGTGACTTGTGGCAATAGAAG 59.811 47.826 4.32 0.66 0.00 2.85
1554 2035 3.355378 TGGACCAAATATCAAGCTGTGG 58.645 45.455 0.00 0.00 0.00 4.17
1555 2036 3.245229 TGGACCAAATATCAAGCTGTGGT 60.245 43.478 0.00 0.00 41.99 4.16
1558 2039 3.758554 ACCAAATATCAAGCTGTGGTGTC 59.241 43.478 0.00 0.00 37.95 3.67
1569 2050 2.671914 GCTGTGGTGTCGGTTCGTTATA 60.672 50.000 0.00 0.00 0.00 0.98
1585 2066 4.280174 TCGTTATAGTGTAGGATTCCCTGC 59.720 45.833 0.00 0.00 44.15 4.85
1691 2174 3.938963 ACTTCCTATATTTGTGTGCACCG 59.061 43.478 15.69 0.00 0.00 4.94
1728 2211 7.012989 AGTTAGTAACTTAGCACCAAAAAGTGG 59.987 37.037 9.85 0.00 46.49 4.00
1741 2224 4.501915 CCAAAAAGTGGCATGATGTCTTGT 60.502 41.667 0.00 0.00 41.72 3.16
1747 2230 5.443283 AGTGGCATGATGTCTTGTATCATT 58.557 37.500 0.00 0.00 41.91 2.57
1774 2257 4.202577 CCCAGGAGAAGTTTTCCTACCTTT 60.203 45.833 14.33 0.00 43.17 3.11
1838 2323 6.040247 TCTATATGTTGTAACTGCTGAACCG 58.960 40.000 0.00 0.00 0.00 4.44
1843 2328 0.727398 GTAACTGCTGAACCGCATCC 59.273 55.000 0.00 0.00 39.52 3.51
1878 2366 6.272318 TGCTAGTTTTGGAATGTTGTTTGAG 58.728 36.000 0.00 0.00 0.00 3.02
1887 2375 5.067674 TGGAATGTTGTTTGAGTTCTCCTTG 59.932 40.000 0.00 0.00 0.00 3.61
1889 2377 3.963129 TGTTGTTTGAGTTCTCCTTGGT 58.037 40.909 0.00 0.00 0.00 3.67
1891 2379 4.157656 TGTTGTTTGAGTTCTCCTTGGTTG 59.842 41.667 0.00 0.00 0.00 3.77
1892 2380 3.287222 TGTTTGAGTTCTCCTTGGTTGG 58.713 45.455 0.00 0.00 0.00 3.77
1893 2381 1.981256 TTGAGTTCTCCTTGGTTGGC 58.019 50.000 0.00 0.00 0.00 4.52
1894 2382 1.140312 TGAGTTCTCCTTGGTTGGCT 58.860 50.000 0.00 0.00 0.00 4.75
1895 2383 1.072331 TGAGTTCTCCTTGGTTGGCTC 59.928 52.381 0.00 0.00 0.00 4.70
1912 2401 3.871006 TGGCTCACTTTGTATCTAATGCG 59.129 43.478 0.00 0.00 0.00 4.73
1916 2405 5.339008 TCACTTTGTATCTAATGCGACCT 57.661 39.130 0.00 0.00 0.00 3.85
1918 2407 5.810587 TCACTTTGTATCTAATGCGACCTTC 59.189 40.000 0.00 0.00 0.00 3.46
1945 2438 8.808529 CAAGATTGACTTAACATACTTCTACGG 58.191 37.037 0.00 0.00 37.03 4.02
2019 2512 9.410556 ACATAAGTAATGACAAACAAAAGCATC 57.589 29.630 0.00 0.00 39.07 3.91
2105 2602 5.783111 AGCAAACATATTGGTTGGAACTTC 58.217 37.500 7.34 0.00 44.83 3.01
2106 2603 5.304101 AGCAAACATATTGGTTGGAACTTCA 59.696 36.000 7.34 0.00 44.83 3.02
2231 2736 0.620556 ATGTCCAGTCTGCCGGAATT 59.379 50.000 5.05 0.00 31.67 2.17
2248 2753 2.999185 ATTCCCCAGGTGTTTGATGT 57.001 45.000 0.00 0.00 0.00 3.06
2261 2766 6.596888 AGGTGTTTGATGTTCTGATCATACAG 59.403 38.462 14.00 0.00 41.80 2.74
2288 2793 6.746364 GCTATTTTGCACTCTTCTTCAATGAG 59.254 38.462 0.00 0.00 0.00 2.90
2393 2898 2.695359 GTGCATAACACGAAAGGGAGA 58.305 47.619 0.00 0.00 40.07 3.71
2396 2901 3.071479 GCATAACACGAAAGGGAGAACA 58.929 45.455 0.00 0.00 38.45 3.18
2397 2902 3.120304 GCATAACACGAAAGGGAGAACAC 60.120 47.826 0.00 0.00 38.45 3.32
2398 2903 1.578583 AACACGAAAGGGAGAACACG 58.421 50.000 0.00 0.00 38.45 4.49
2420 2939 5.647658 ACGAAATAGTGATGCCTTGAAATGA 59.352 36.000 0.00 0.00 0.00 2.57
2565 3129 8.593945 TCCTTTGAGGTTTGAGCATATATTTT 57.406 30.769 0.00 0.00 36.53 1.82
2590 3154 5.247792 TCATGATCTCTATGACAGAATGGGG 59.752 44.000 0.00 0.00 43.62 4.96
2600 3164 0.698238 CAGAATGGGGGTGAACCTGA 59.302 55.000 0.00 0.00 40.03 3.86
2648 3212 9.683069 ATCAAATTTTGTCTGTCATGTTAAGTC 57.317 29.630 8.89 0.00 0.00 3.01
2747 3320 4.149598 TGTAGAGTTAGAGCAGGTTGTGA 58.850 43.478 0.00 0.00 0.00 3.58
2755 3328 3.152341 AGAGCAGGTTGTGAAATGGAAG 58.848 45.455 0.00 0.00 0.00 3.46
2759 3332 4.892934 AGCAGGTTGTGAAATGGAAGTTTA 59.107 37.500 0.00 0.00 0.00 2.01
2828 3401 7.821846 AGCACAAAAGGAAGAACACAAAAATAA 59.178 29.630 0.00 0.00 0.00 1.40
2979 3552 8.667076 TTGTAGAATGACCTCACATATGATTG 57.333 34.615 10.38 0.00 33.22 2.67
3087 3687 2.519377 TGGTGACAGTAACTTGGACG 57.481 50.000 0.00 0.00 35.01 4.79
3156 3756 5.874895 AAGTTTGGAAGGCTTAATCGTAC 57.125 39.130 0.00 0.00 0.00 3.67
3162 3781 3.877508 GGAAGGCTTAATCGTACATGCTT 59.122 43.478 0.00 0.00 0.00 3.91
3218 3837 3.066342 CCTGCTCAGTTATCATGCTTTGG 59.934 47.826 0.00 0.00 0.00 3.28
3232 3851 4.916983 TGCTTTGGCATACATGTAATCC 57.083 40.909 10.14 13.73 44.28 3.01
3281 3900 0.811281 GTGCCAATCTTGCTGGGTAC 59.189 55.000 0.00 0.00 34.25 3.34
3584 4203 6.816640 TGTTCTCTCGTAATCATAAAACCTGG 59.183 38.462 0.00 0.00 0.00 4.45
3596 4215 1.130777 AAACCTGGTTGCCTTGCATT 58.869 45.000 13.79 0.00 38.76 3.56
3607 4226 5.008514 GGTTGCCTTGCATTTACAAATTTGT 59.991 36.000 25.99 25.99 40.87 2.83
3640 4259 5.229423 TGTGCAATTTCCAAGTTCAATAGC 58.771 37.500 0.00 0.00 0.00 2.97
3641 4260 5.221402 TGTGCAATTTCCAAGTTCAATAGCA 60.221 36.000 0.00 0.00 0.00 3.49
3672 4291 7.611467 TGATAACTCATGCAAACTTTATGGACT 59.389 33.333 0.00 0.00 0.00 3.85
3717 4336 8.462589 TTGATTATCTTGTGCTATATTGGCAA 57.537 30.769 0.68 0.68 41.54 4.52
3772 4391 4.716784 TCACAATTACCTCAGCCTGTAGAT 59.283 41.667 0.00 0.00 0.00 1.98
3787 4406 5.452636 GCCTGTAGATCTTTGTCCTAGGAAG 60.453 48.000 14.65 7.92 0.00 3.46
3970 4592 1.201647 CTGTCTTTGGCTGGCATTCTG 59.798 52.381 4.22 0.00 0.00 3.02
3992 4614 7.471721 TCTGCATCATTATTAACCTCAAAACG 58.528 34.615 0.00 0.00 0.00 3.60
4087 4709 1.492176 ACTACATGGCATTCCTGGGAG 59.508 52.381 0.00 0.00 0.00 4.30
4124 4746 9.445878 TTGCATGCTAATTAAATTTGGAAATGA 57.554 25.926 20.33 0.00 0.00 2.57
4125 4747 9.616156 TGCATGCTAATTAAATTTGGAAATGAT 57.384 25.926 20.33 0.00 0.00 2.45
4196 5008 6.569418 GCTCTTTTCTTGAACCATTTCTCCTC 60.569 42.308 0.00 0.00 32.36 3.71
4453 6307 3.006940 TCCGTTGATGAATAGGTTGCAC 58.993 45.455 0.00 0.00 0.00 4.57
4870 6724 1.789576 AAAGATTGGGCTGGGGTCGT 61.790 55.000 0.00 0.00 0.00 4.34
5866 7720 0.036952 AGTGGATGCTCACCGAAGTG 60.037 55.000 0.00 0.00 46.00 3.16
5920 7777 7.011109 TCTGTTTGAAGTCTTAAAGGTCTTTCG 59.989 37.037 0.00 0.00 34.23 3.46
5945 7803 4.453136 CCAAGCTTCCATGAAAACAAATGG 59.547 41.667 0.00 0.00 44.06 3.16
5955 7813 5.885449 TGAAAACAAATGGGACCTTTCAT 57.115 34.783 0.00 0.00 30.13 2.57
5961 7819 0.409092 ATGGGACCTTTCATGTGGCA 59.591 50.000 0.00 0.00 0.00 4.92
5971 7829 3.872511 TTCATGTGGCATTAAGCTTGG 57.127 42.857 9.86 0.00 44.79 3.61
5986 7844 2.021723 GCTTGGTTGTCTTCACCACCA 61.022 52.381 0.00 0.00 44.71 4.17
5999 7857 4.729918 CACCAGGGCCAGAGCACC 62.730 72.222 6.18 0.00 46.94 5.01
6030 7888 2.290641 GCGCTCGGAATGGATGTATTTT 59.709 45.455 0.00 0.00 0.00 1.82
6039 7897 6.318648 CGGAATGGATGTATTTTCTTGGAAGA 59.681 38.462 0.00 0.00 0.00 2.87
6044 7902 7.689299 TGGATGTATTTTCTTGGAAGAGAGAA 58.311 34.615 0.00 0.00 36.22 2.87
6057 7915 3.710209 AGAGAGAAATGGTTGGGTCTG 57.290 47.619 0.00 0.00 0.00 3.51
6091 7950 1.546998 CCTCTTAAACCGGGGTTGCTT 60.547 52.381 7.79 0.00 38.47 3.91
6095 7954 0.400975 TAAACCGGGGTTGCTTGCTA 59.599 50.000 7.79 0.00 38.47 3.49
6189 8053 9.593134 GTATAATTCATAAGCTACTCTCATGGG 57.407 37.037 0.00 0.00 0.00 4.00
6219 8083 9.737427 AGTATCAGTTTTATGTATTCTCAGACG 57.263 33.333 0.00 0.00 0.00 4.18
6247 8111 7.331026 TCTGACATCCATTCTGTTAGGTTAAG 58.669 38.462 0.00 0.00 32.67 1.85
6399 8277 4.253685 TCAGGTGAGCTTATTAGTTGTGC 58.746 43.478 0.00 0.00 0.00 4.57
6423 8301 6.311723 CGTGTGTTAACTTTGTCTGTTTTCT 58.688 36.000 7.22 0.00 0.00 2.52
6485 8372 6.582295 GTGTAACAATGCTTAACTTGTCATGG 59.418 38.462 0.00 0.00 34.61 3.66
6495 8982 3.895232 ACTTGTCATGGTCTAATCGCT 57.105 42.857 0.00 0.00 0.00 4.93
6499 8986 7.050970 ACTTGTCATGGTCTAATCGCTATTA 57.949 36.000 0.00 0.00 0.00 0.98
6500 8987 7.671302 ACTTGTCATGGTCTAATCGCTATTAT 58.329 34.615 0.00 0.00 0.00 1.28
6501 8988 7.815068 ACTTGTCATGGTCTAATCGCTATTATC 59.185 37.037 0.00 0.00 0.00 1.75
6502 8989 7.468141 TGTCATGGTCTAATCGCTATTATCT 57.532 36.000 0.00 0.00 0.00 1.98
6504 8991 7.814587 TGTCATGGTCTAATCGCTATTATCTTG 59.185 37.037 0.00 0.00 0.00 3.02
6506 8993 8.585018 TCATGGTCTAATCGCTATTATCTTGAA 58.415 33.333 0.00 0.00 0.00 2.69
6508 8995 8.589335 TGGTCTAATCGCTATTATCTTGAAAC 57.411 34.615 0.00 0.00 0.00 2.78
6510 8997 9.909644 GGTCTAATCGCTATTATCTTGAAACTA 57.090 33.333 0.00 0.00 0.00 2.24
6514 9001 8.508800 AATCGCTATTATCTTGAAACTACGAG 57.491 34.615 0.00 0.00 0.00 4.18
6516 9003 7.872881 TCGCTATTATCTTGAAACTACGAGAT 58.127 34.615 0.00 0.00 41.91 2.75
6518 9005 8.420945 CGCTATTATCTTGAAACTACGAGATTG 58.579 37.037 0.00 0.00 40.32 2.67
6519 9006 9.250624 GCTATTATCTTGAAACTACGAGATTGT 57.749 33.333 0.00 0.00 40.32 2.71
6522 9009 8.630278 TTATCTTGAAACTACGAGATTGTAGC 57.370 34.615 7.09 0.00 44.55 3.58
6556 10362 5.133941 TGATAGGAAATAGCTGTCGACTCT 58.866 41.667 17.92 15.45 0.00 3.24
6591 10397 1.694133 GGAGATCCCAGCCTCCACAG 61.694 65.000 0.00 0.00 46.28 3.66
6721 10543 3.006859 TGATGATGTAGAATGGCGGTAGG 59.993 47.826 0.00 0.00 0.00 3.18
6740 10572 3.178592 CACGCATCGTACGCAGCA 61.179 61.111 24.34 4.89 38.32 4.41
6741 10573 2.880879 ACGCATCGTACGCAGCAG 60.881 61.111 24.34 19.64 38.73 4.24
6742 10574 2.579518 CGCATCGTACGCAGCAGA 60.580 61.111 24.34 3.85 0.00 4.26
6743 10575 2.571562 CGCATCGTACGCAGCAGAG 61.572 63.158 24.34 10.25 0.00 3.35
6744 10576 2.233654 GCATCGTACGCAGCAGAGG 61.234 63.158 21.49 3.68 0.00 3.69
6745 10577 2.105128 ATCGTACGCAGCAGAGGC 59.895 61.111 11.24 0.00 41.61 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 22 4.830046 TCTCATTCTCCTACCATCTAGTGC 59.170 45.833 0.00 0.00 0.00 4.40
24 26 5.306114 TCGTCTCATTCTCCTACCATCTA 57.694 43.478 0.00 0.00 0.00 1.98
55 57 6.777213 TTATACTCTTCTTCCTTTCTCGCT 57.223 37.500 0.00 0.00 0.00 4.93
74 76 7.919091 GTCGTCACATTGAGGTCAACTATTATA 59.081 37.037 0.00 0.00 38.86 0.98
75 77 6.757010 GTCGTCACATTGAGGTCAACTATTAT 59.243 38.462 0.00 0.00 38.86 1.28
76 78 6.097356 GTCGTCACATTGAGGTCAACTATTA 58.903 40.000 0.00 0.00 38.86 0.98
77 79 4.929808 GTCGTCACATTGAGGTCAACTATT 59.070 41.667 0.00 0.00 38.86 1.73
91 93 1.080093 ATTGTCGGCGTCGTCACAT 60.080 52.632 9.23 3.92 34.54 3.21
107 109 0.620556 CCTACACCACTGGCCTCATT 59.379 55.000 3.32 0.00 0.00 2.57
127 129 6.318648 GGTCATTACCATTCTAGCAACAATGA 59.681 38.462 3.98 0.00 45.98 2.57
196 201 0.771127 TAAGCAGGGCAAGTCAAGGT 59.229 50.000 0.00 0.00 0.00 3.50
210 215 2.511373 CCGCTGCCATCGTAAGCA 60.511 61.111 0.00 0.00 36.73 3.91
223 228 0.603065 GGCCTTGATTTTTCACCGCT 59.397 50.000 0.00 0.00 0.00 5.52
230 235 4.334481 CCGTCGTATTAGGCCTTGATTTTT 59.666 41.667 12.58 0.00 0.00 1.94
245 250 5.143376 TCCTTTTCTTCTTTCCGTCGTAT 57.857 39.130 0.00 0.00 0.00 3.06
250 255 2.505405 GCCTCCTTTTCTTCTTTCCGT 58.495 47.619 0.00 0.00 0.00 4.69
256 261 4.223032 TCTTATGTCGCCTCCTTTTCTTCT 59.777 41.667 0.00 0.00 0.00 2.85
272 277 2.850568 CCACCCCTTTACCCTCTTATGT 59.149 50.000 0.00 0.00 0.00 2.29
275 280 1.292085 GCCACCCCTTTACCCTCTTA 58.708 55.000 0.00 0.00 0.00 2.10
291 296 0.608130 CTAGTAGTGCCACACTGCCA 59.392 55.000 10.42 0.00 45.71 4.92
292 297 0.895530 TCTAGTAGTGCCACACTGCC 59.104 55.000 10.42 1.42 45.71 4.85
293 298 1.134965 CCTCTAGTAGTGCCACACTGC 60.135 57.143 10.42 8.98 45.01 4.40
294 299 2.447443 TCCTCTAGTAGTGCCACACTG 58.553 52.381 10.42 0.00 45.01 3.66
296 301 2.561419 TGTTCCTCTAGTAGTGCCACAC 59.439 50.000 0.00 0.00 34.10 3.82
297 302 2.884320 TGTTCCTCTAGTAGTGCCACA 58.116 47.619 0.00 0.00 0.00 4.17
298 303 3.510360 TCTTGTTCCTCTAGTAGTGCCAC 59.490 47.826 0.00 0.00 0.00 5.01
299 304 3.774734 TCTTGTTCCTCTAGTAGTGCCA 58.225 45.455 0.00 0.00 0.00 4.92
323 328 3.573967 GGTGATGACCATGAAAACCACTT 59.426 43.478 0.00 0.00 42.59 3.16
324 329 3.157087 GGTGATGACCATGAAAACCACT 58.843 45.455 0.00 0.00 42.59 4.00
349 372 2.735478 CGCTCCCAACGCGTTGTA 60.735 61.111 40.30 29.58 45.13 2.41
392 423 1.229145 CCCCCAAAAGCATGGACCA 60.229 57.895 0.00 0.00 43.54 4.02
436 467 8.129496 TGTTTGAAACTTCTAGAAGGGTTTTT 57.871 30.769 30.98 22.63 42.53 1.94
438 469 7.712204 TTGTTTGAAACTTCTAGAAGGGTTT 57.288 32.000 30.98 24.12 42.53 3.27
439 470 7.712204 TTTGTTTGAAACTTCTAGAAGGGTT 57.288 32.000 30.98 24.41 42.53 4.11
440 471 7.014326 GGATTTGTTTGAAACTTCTAGAAGGGT 59.986 37.037 30.98 20.35 42.53 4.34
441 472 7.231519 AGGATTTGTTTGAAACTTCTAGAAGGG 59.768 37.037 30.98 12.93 42.53 3.95
442 473 8.171164 AGGATTTGTTTGAAACTTCTAGAAGG 57.829 34.615 30.98 16.28 42.53 3.46
474 505 2.731451 TGAGTTTCAGCTCAATTCGTCG 59.269 45.455 0.00 0.00 41.93 5.12
492 556 3.502211 ACCCGCTTTACAAATGAGTTGAG 59.498 43.478 0.00 0.00 39.87 3.02
517 581 3.350612 TAGCACGCCGCAAACACC 61.351 61.111 0.00 0.00 46.13 4.16
560 624 2.968156 CACGCGTGGAACCGGAAA 60.968 61.111 31.15 0.00 35.33 3.13
736 850 2.572284 GAACGAGTGGACGGGGAG 59.428 66.667 0.00 0.00 37.61 4.30
832 956 4.735358 GGGTGGGGAGGCGGAAAC 62.735 72.222 0.00 0.00 0.00 2.78
839 963 3.339093 GTTCTGGGGGTGGGGAGG 61.339 72.222 0.00 0.00 0.00 4.30
841 965 3.882670 AGGTTCTGGGGGTGGGGA 61.883 66.667 0.00 0.00 0.00 4.81
844 968 4.410400 GCGAGGTTCTGGGGGTGG 62.410 72.222 0.00 0.00 0.00 4.61
845 969 4.410400 GGCGAGGTTCTGGGGGTG 62.410 72.222 0.00 0.00 0.00 4.61
849 973 4.410400 GTGGGGCGAGGTTCTGGG 62.410 72.222 0.00 0.00 0.00 4.45
852 976 3.003763 GGAGTGGGGCGAGGTTCT 61.004 66.667 0.00 0.00 0.00 3.01
853 977 3.003763 AGGAGTGGGGCGAGGTTC 61.004 66.667 0.00 0.00 0.00 3.62
854 978 3.003763 GAGGAGTGGGGCGAGGTT 61.004 66.667 0.00 0.00 0.00 3.50
861 985 3.775654 GTGGCTCGAGGAGTGGGG 61.776 72.222 15.58 0.00 31.39 4.96
872 996 4.115199 ATTGGGGCTCGGTGGCTC 62.115 66.667 3.62 0.00 42.84 4.70
999 1137 1.153489 CTCGCTGTCCCACTCCATG 60.153 63.158 0.00 0.00 0.00 3.66
1041 1179 3.144120 CTCCATCTCGTCCCCGCTG 62.144 68.421 0.00 0.00 0.00 5.18
1325 1475 4.584743 AGAGCAATAGTATGACGATGGACA 59.415 41.667 0.00 0.00 0.00 4.02
1330 1480 5.772672 AGAAGGAGAGCAATAGTATGACGAT 59.227 40.000 0.00 0.00 0.00 3.73
1333 1483 6.155475 ACAGAAGGAGAGCAATAGTATGAC 57.845 41.667 0.00 0.00 0.00 3.06
1336 1486 5.663106 TCCAACAGAAGGAGAGCAATAGTAT 59.337 40.000 0.00 0.00 0.00 2.12
1341 1491 4.268359 GAATCCAACAGAAGGAGAGCAAT 58.732 43.478 0.00 0.00 38.83 3.56
1354 1504 4.637276 ACAAGACATACACGAATCCAACA 58.363 39.130 0.00 0.00 0.00 3.33
1367 1517 3.876914 GGCATCGATTCCAACAAGACATA 59.123 43.478 9.39 0.00 0.00 2.29
1372 1522 2.086869 AGTGGCATCGATTCCAACAAG 58.913 47.619 18.68 0.00 33.57 3.16
1401 1551 7.095439 CCAAACAAACAAAACTTAAGTTCTGCA 60.095 33.333 20.78 0.00 37.25 4.41
1413 1885 5.177142 ACGTAACAACCCAAACAAACAAAAC 59.823 36.000 0.00 0.00 0.00 2.43
1464 1944 3.543680 TCTAGCCACACTTCTATTGCC 57.456 47.619 0.00 0.00 0.00 4.52
1474 1954 2.736670 ATTCCCCAATCTAGCCACAC 57.263 50.000 0.00 0.00 0.00 3.82
1554 2035 4.094887 TCCTACACTATAACGAACCGACAC 59.905 45.833 0.00 0.00 0.00 3.67
1555 2036 4.260985 TCCTACACTATAACGAACCGACA 58.739 43.478 0.00 0.00 0.00 4.35
1558 2039 5.218139 GGAATCCTACACTATAACGAACCG 58.782 45.833 0.00 0.00 0.00 4.44
1569 2050 1.522569 GCGCAGGGAATCCTACACT 59.477 57.895 0.30 0.00 42.67 3.55
1585 2066 2.327568 CCAAATAAGCACAAACAGGCG 58.672 47.619 0.00 0.00 34.54 5.52
1675 2157 7.713073 TCAATCTATTCGGTGCACACAAATATA 59.287 33.333 20.43 11.31 0.00 0.86
1728 2211 6.148480 GGGACTAATGATACAAGACATCATGC 59.852 42.308 0.00 0.00 41.24 4.06
1741 2224 7.365652 GGAAAACTTCTCCTGGGACTAATGATA 60.366 40.741 0.00 0.00 0.00 2.15
1747 2230 3.870559 AGGAAAACTTCTCCTGGGACTA 58.129 45.455 0.00 0.00 41.96 2.59
1774 2257 8.739039 CAAGATATGGTCCAAACTCAACAATTA 58.261 33.333 0.00 0.00 0.00 1.40
1821 2306 0.941542 TGCGGTTCAGCAGTTACAAC 59.058 50.000 0.00 0.00 42.92 3.32
1822 2307 3.388272 TGCGGTTCAGCAGTTACAA 57.612 47.368 0.00 0.00 42.92 2.41
1838 2323 0.037877 AGCATATCAGGCCAGGATGC 59.962 55.000 20.91 20.91 42.57 3.91
1843 2328 3.567164 CCAAAACTAGCATATCAGGCCAG 59.433 47.826 5.01 0.00 0.00 4.85
1878 2366 1.202818 AGTGAGCCAACCAAGGAGAAC 60.203 52.381 0.00 0.00 0.00 3.01
1887 2375 5.449177 GCATTAGATACAAAGTGAGCCAACC 60.449 44.000 0.00 0.00 0.00 3.77
1889 2377 4.332543 CGCATTAGATACAAAGTGAGCCAA 59.667 41.667 0.00 0.00 0.00 4.52
1891 2379 4.025647 GTCGCATTAGATACAAAGTGAGCC 60.026 45.833 0.00 0.00 0.00 4.70
1892 2380 4.025647 GGTCGCATTAGATACAAAGTGAGC 60.026 45.833 0.00 0.00 0.00 4.26
1893 2381 5.352284 AGGTCGCATTAGATACAAAGTGAG 58.648 41.667 0.00 0.00 0.00 3.51
1894 2382 5.339008 AGGTCGCATTAGATACAAAGTGA 57.661 39.130 0.00 0.00 0.00 3.41
1895 2383 5.006746 GGAAGGTCGCATTAGATACAAAGTG 59.993 44.000 0.00 0.00 0.00 3.16
1912 2401 7.824779 AGTATGTTAAGTCAATCTTGGAAGGTC 59.175 37.037 0.00 0.00 37.56 3.85
1918 2407 8.808529 CGTAGAAGTATGTTAAGTCAATCTTGG 58.191 37.037 0.00 0.00 37.56 3.61
2072 2569 7.902920 ACCAATATGTTTGCTCAAAGGATAT 57.097 32.000 0.00 0.00 0.00 1.63
2092 2589 4.082463 GTGAAGTTGTGAAGTTCCAACCAA 60.082 41.667 22.81 12.70 41.42 3.67
2094 2591 3.442273 TGTGAAGTTGTGAAGTTCCAACC 59.558 43.478 22.81 14.56 41.42 3.77
2105 2602 7.522901 TTGTTCATTTTCATGTGAAGTTGTG 57.477 32.000 0.00 0.00 35.22 3.33
2106 2603 8.721019 ATTTGTTCATTTTCATGTGAAGTTGT 57.279 26.923 0.00 0.00 35.22 3.32
2145 2642 2.766828 CACCCCTTTCGGTTCTAGAGAT 59.233 50.000 0.00 0.00 32.17 2.75
2156 2661 1.003118 TGATCAGGTTCACCCCTTTCG 59.997 52.381 0.00 0.00 36.42 3.46
2195 2700 7.102346 ACTGGACATGACAAACAAATTTTGAA 58.898 30.769 15.81 0.00 33.83 2.69
2231 2736 1.780309 AGAACATCAAACACCTGGGGA 59.220 47.619 1.10 0.00 0.00 4.81
2248 2753 6.598850 TGCAAAATAGCACTGTATGATCAGAA 59.401 34.615 0.09 0.00 40.11 3.02
2276 2781 7.387119 TCATTTCCATGACTCATTGAAGAAG 57.613 36.000 0.00 2.19 34.22 2.85
2277 2782 7.949690 ATCATTTCCATGACTCATTGAAGAA 57.050 32.000 0.00 0.00 42.46 2.52
2288 2793 6.821388 ACTCTACAGGTATCATTTCCATGAC 58.179 40.000 0.00 0.00 42.46 3.06
2384 2889 5.235516 TCACTATTTCGTGTTCTCCCTTTC 58.764 41.667 0.00 0.00 36.33 2.62
2385 2890 5.223449 TCACTATTTCGTGTTCTCCCTTT 57.777 39.130 0.00 0.00 36.33 3.11
2387 2892 4.759782 CATCACTATTTCGTGTTCTCCCT 58.240 43.478 0.00 0.00 36.33 4.20
2388 2893 3.309954 GCATCACTATTTCGTGTTCTCCC 59.690 47.826 0.00 0.00 36.33 4.30
2389 2894 3.309954 GGCATCACTATTTCGTGTTCTCC 59.690 47.826 0.00 0.00 36.33 3.71
2390 2895 4.184629 AGGCATCACTATTTCGTGTTCTC 58.815 43.478 0.00 0.00 36.33 2.87
2391 2896 4.207891 AGGCATCACTATTTCGTGTTCT 57.792 40.909 0.00 0.00 36.33 3.01
2392 2897 4.391830 TCAAGGCATCACTATTTCGTGTTC 59.608 41.667 0.00 0.00 36.33 3.18
2393 2898 4.323417 TCAAGGCATCACTATTTCGTGTT 58.677 39.130 0.00 0.00 36.33 3.32
2396 2901 5.647658 TCATTTCAAGGCATCACTATTTCGT 59.352 36.000 0.00 0.00 0.00 3.85
2397 2902 6.122850 TCATTTCAAGGCATCACTATTTCG 57.877 37.500 0.00 0.00 0.00 3.46
2398 2903 7.093322 ACTCATTTCAAGGCATCACTATTTC 57.907 36.000 0.00 0.00 0.00 2.17
2565 3129 6.239800 CCCCATTCTGTCATAGAGATCATGAA 60.240 42.308 0.00 0.00 36.61 2.57
2590 3154 6.935208 ACTACTTTTAACTGATCAGGTTCACC 59.065 38.462 26.08 0.00 0.00 4.02
2648 3212 2.124570 CACCTGGGATTCCGGCAG 60.125 66.667 0.00 0.00 38.11 4.85
2747 3320 7.893833 AGGCTACATACCTTTAAACTTCCATTT 59.106 33.333 0.00 0.00 31.87 2.32
2803 3376 5.854431 TTTTTGTGTTCTTCCTTTTGTGC 57.146 34.783 0.00 0.00 0.00 4.57
2943 3516 4.095483 GGTCATTCTACAAAGCAGATGGTG 59.905 45.833 0.00 0.00 0.00 4.17
2954 3527 8.267183 ACAATCATATGTGAGGTCATTCTACAA 58.733 33.333 1.90 0.00 37.87 2.41
3000 3573 9.872721 CTCTGTACATCTCTATCATATGCAAAT 57.127 33.333 0.00 0.00 0.00 2.32
3001 3574 8.309656 CCTCTGTACATCTCTATCATATGCAAA 58.690 37.037 0.00 0.00 0.00 3.68
3002 3575 7.093596 CCCTCTGTACATCTCTATCATATGCAA 60.094 40.741 0.00 0.00 0.00 4.08
3003 3576 6.379417 CCCTCTGTACATCTCTATCATATGCA 59.621 42.308 0.00 0.00 0.00 3.96
3004 3577 6.605194 TCCCTCTGTACATCTCTATCATATGC 59.395 42.308 0.00 0.00 0.00 3.14
3005 3578 7.068103 GGTCCCTCTGTACATCTCTATCATATG 59.932 44.444 0.00 0.00 0.00 1.78
3006 3579 7.122715 GGTCCCTCTGTACATCTCTATCATAT 58.877 42.308 0.00 0.00 0.00 1.78
3007 3580 6.486056 GGTCCCTCTGTACATCTCTATCATA 58.514 44.000 0.00 0.00 0.00 2.15
3008 3581 5.329399 GGTCCCTCTGTACATCTCTATCAT 58.671 45.833 0.00 0.00 0.00 2.45
3009 3582 4.447908 GGGTCCCTCTGTACATCTCTATCA 60.448 50.000 0.00 0.00 0.00 2.15
3010 3583 4.083565 GGGTCCCTCTGTACATCTCTATC 58.916 52.174 0.00 0.00 0.00 2.08
3011 3584 3.467483 TGGGTCCCTCTGTACATCTCTAT 59.533 47.826 10.00 0.00 0.00 1.98
3012 3585 2.856864 TGGGTCCCTCTGTACATCTCTA 59.143 50.000 10.00 0.00 0.00 2.43
3013 3586 1.646447 TGGGTCCCTCTGTACATCTCT 59.354 52.381 10.00 0.00 0.00 3.10
3014 3587 2.160721 TGGGTCCCTCTGTACATCTC 57.839 55.000 10.00 0.00 0.00 2.75
3015 3588 2.877154 ATGGGTCCCTCTGTACATCT 57.123 50.000 10.00 0.00 0.00 2.90
3016 3589 3.845860 TCTATGGGTCCCTCTGTACATC 58.154 50.000 10.00 0.00 0.00 3.06
3017 3590 3.993658 TCTATGGGTCCCTCTGTACAT 57.006 47.619 10.00 0.00 0.00 2.29
3018 3591 3.993658 ATCTATGGGTCCCTCTGTACA 57.006 47.619 10.00 0.00 0.00 2.90
3019 3592 5.654650 CAGATATCTATGGGTCCCTCTGTAC 59.345 48.000 10.00 0.00 0.00 2.90
3020 3593 5.316183 ACAGATATCTATGGGTCCCTCTGTA 59.684 44.000 20.01 4.55 40.04 2.74
3021 3594 4.108778 ACAGATATCTATGGGTCCCTCTGT 59.891 45.833 17.11 17.11 37.77 3.41
3022 3595 4.682563 ACAGATATCTATGGGTCCCTCTG 58.317 47.826 16.05 16.05 35.99 3.35
3023 3596 6.439487 CATACAGATATCTATGGGTCCCTCT 58.561 44.000 10.00 0.00 0.00 3.69
3568 4187 5.914898 AGGCAACCAGGTTTTATGATTAC 57.085 39.130 0.44 0.00 37.17 1.89
3579 4198 1.618343 GTAAATGCAAGGCAACCAGGT 59.382 47.619 0.00 0.00 43.62 4.00
3584 4203 6.058827 ACAAATTTGTAAATGCAAGGCAAC 57.941 33.333 22.10 0.00 40.17 4.17
3607 4226 8.579850 ACTTGGAAATTGCACATTTAGATCTA 57.420 30.769 0.00 0.00 0.00 1.98
3666 4285 7.061054 TGCAGTACAGTCTACTATAAGTCCAT 58.939 38.462 0.00 0.00 0.00 3.41
3689 4308 7.487189 GCCAATATAGCACAAGATAATCAATGC 59.513 37.037 0.00 0.00 0.00 3.56
3742 4361 6.204301 CAGGCTGAGGTAATTGTGATATCAAG 59.796 42.308 9.42 0.00 0.00 3.02
3772 4391 8.832735 ACCATTATTTACTTCCTAGGACAAAGA 58.167 33.333 12.22 6.92 0.00 2.52
3796 4415 7.040478 TGGCATATGCTTCAGTAAATAATGACC 60.040 37.037 26.12 4.51 41.70 4.02
3819 4441 4.079961 ATCCCTTGGGGCCTTGGC 62.080 66.667 0.84 2.49 43.94 4.52
3970 4592 6.020678 GTGCGTTTTGAGGTTAATAATGATGC 60.021 38.462 0.00 0.00 0.00 3.91
3980 4602 6.751514 ATTATCATGTGCGTTTTGAGGTTA 57.248 33.333 0.00 0.00 0.00 2.85
3992 4614 5.473039 GGCATTCCCTTAATTATCATGTGC 58.527 41.667 0.00 0.00 0.00 4.57
4196 5008 5.121811 AGCTACATCATGGACAGCTAAAAG 58.878 41.667 8.49 0.00 40.67 2.27
4233 5045 9.877178 ATCAAGGATAGTAAGTTCAACAGTAAG 57.123 33.333 0.00 0.00 0.00 2.34
4376 6230 3.128242 CGGAACTGAGTACCGTTGTCTAT 59.872 47.826 0.00 0.00 41.47 1.98
4453 6307 5.781827 TCATCTCCATATATAGGGGTCAGG 58.218 45.833 13.32 0.47 0.00 3.86
4870 6724 1.623811 GTGGTTAGTTCTCTGGCCAGA 59.376 52.381 33.04 33.04 32.58 3.86
5749 7603 3.131478 GGTCGCCCGGGAACATTG 61.131 66.667 29.31 5.75 0.00 2.82
5866 7720 1.000060 CTAGCCAGAGAGAGCTCATGC 60.000 57.143 17.77 8.59 43.81 4.06
5920 7777 4.320608 TTGTTTTCATGGAAGCTTGGTC 57.679 40.909 2.10 0.00 0.00 4.02
5945 7803 3.429410 GCTTAATGCCACATGAAAGGTCC 60.429 47.826 0.00 0.00 35.15 4.46
5955 7813 2.295909 GACAACCAAGCTTAATGCCACA 59.704 45.455 0.00 0.00 44.23 4.17
5961 7819 4.278419 GTGGTGAAGACAACCAAGCTTAAT 59.722 41.667 0.00 0.00 35.05 1.40
5971 7829 1.172812 GCCCTGGTGGTGAAGACAAC 61.173 60.000 0.00 0.00 36.04 3.32
5986 7844 1.304713 CATTTGGTGCTCTGGCCCT 60.305 57.895 0.00 0.00 37.74 5.19
5999 7857 0.039617 TTCCGAGCGCCAAACATTTG 60.040 50.000 2.29 0.00 37.90 2.32
6000 7858 0.887933 ATTCCGAGCGCCAAACATTT 59.112 45.000 2.29 0.00 0.00 2.32
6013 7871 5.750524 TCCAAGAAAATACATCCATTCCGA 58.249 37.500 0.00 0.00 0.00 4.55
6014 7872 6.318648 TCTTCCAAGAAAATACATCCATTCCG 59.681 38.462 0.00 0.00 30.73 4.30
6015 7873 7.557719 TCTCTTCCAAGAAAATACATCCATTCC 59.442 37.037 0.00 0.00 34.03 3.01
6030 7888 4.507335 CCCAACCATTTCTCTCTTCCAAGA 60.507 45.833 0.00 0.00 0.00 3.02
6039 7897 3.395941 ACTTCAGACCCAACCATTTCTCT 59.604 43.478 0.00 0.00 0.00 3.10
6044 7902 4.993705 TCTTACTTCAGACCCAACCATT 57.006 40.909 0.00 0.00 0.00 3.16
6057 7915 8.663025 CCGGTTTAAGAGGTTTAATCTTACTTC 58.337 37.037 0.00 0.00 38.62 3.01
6095 7954 9.494055 ACATATCACTACCCATTAGCTACATAT 57.506 33.333 0.00 0.00 0.00 1.78
6219 8083 6.352516 ACCTAACAGAATGGATGTCAGAATC 58.647 40.000 0.00 0.00 43.62 2.52
6247 8111 7.159322 TCATCTGTACAGAGTAGTCCTTTTC 57.841 40.000 28.29 0.00 41.33 2.29
6399 8277 6.311723 AGAAAACAGACAAAGTTAACACACG 58.688 36.000 8.61 0.00 0.00 4.49
6473 8360 5.339008 AGCGATTAGACCATGACAAGTTA 57.661 39.130 0.00 0.00 0.00 2.24
6477 8364 7.896811 AGATAATAGCGATTAGACCATGACAA 58.103 34.615 5.49 0.00 31.02 3.18
6499 8986 6.531948 GTGCTACAATCTCGTAGTTTCAAGAT 59.468 38.462 0.00 0.00 40.87 2.40
6500 8987 5.862323 GTGCTACAATCTCGTAGTTTCAAGA 59.138 40.000 0.00 0.00 40.87 3.02
6501 8988 5.864474 AGTGCTACAATCTCGTAGTTTCAAG 59.136 40.000 0.00 0.00 40.87 3.02
6502 8989 5.779922 AGTGCTACAATCTCGTAGTTTCAA 58.220 37.500 0.00 0.00 40.87 2.69
6504 8991 5.642686 AGAGTGCTACAATCTCGTAGTTTC 58.357 41.667 0.00 0.00 40.87 2.78
6506 8993 5.220892 GCTAGAGTGCTACAATCTCGTAGTT 60.221 44.000 0.22 0.00 38.15 2.24
6508 8995 4.273724 TGCTAGAGTGCTACAATCTCGTAG 59.726 45.833 0.22 0.00 38.15 3.51
6510 8997 3.017442 TGCTAGAGTGCTACAATCTCGT 58.983 45.455 0.22 0.00 38.15 4.18
6511 8998 3.066064 AGTGCTAGAGTGCTACAATCTCG 59.934 47.826 0.22 0.00 38.15 4.04
6514 9001 4.377839 TCAGTGCTAGAGTGCTACAATC 57.622 45.455 0.00 0.00 0.00 2.67
6516 9003 4.339530 CCTATCAGTGCTAGAGTGCTACAA 59.660 45.833 2.50 0.00 0.00 2.41
6518 9005 4.138290 TCCTATCAGTGCTAGAGTGCTAC 58.862 47.826 2.50 0.00 0.00 3.58
6519 9006 4.439253 TCCTATCAGTGCTAGAGTGCTA 57.561 45.455 2.50 0.00 0.00 3.49
6520 9007 3.304911 TCCTATCAGTGCTAGAGTGCT 57.695 47.619 2.50 0.00 0.00 4.40
6521 9008 4.392921 TTTCCTATCAGTGCTAGAGTGC 57.607 45.455 2.50 0.00 0.00 4.40
6522 9009 6.015519 AGCTATTTCCTATCAGTGCTAGAGTG 60.016 42.308 2.50 0.00 0.00 3.51
6556 10362 4.080863 GGATCTCCCTCTCTGCAACTAAAA 60.081 45.833 0.00 0.00 0.00 1.52
6580 10386 0.543277 TTAGGATGCTGTGGAGGCTG 59.457 55.000 0.00 0.00 0.00 4.85
6586 10392 6.096705 TGGAATTGTAATTTAGGATGCTGTGG 59.903 38.462 0.00 0.00 0.00 4.17
6591 10397 9.683069 CTGTAATGGAATTGTAATTTAGGATGC 57.317 33.333 0.00 0.00 36.99 3.91
6721 10543 3.913573 CTGCGTACGATGCGTGCC 61.914 66.667 21.65 0.00 41.39 5.01
6731 10553 2.510238 CCTGCCTCTGCTGCGTAC 60.510 66.667 0.00 0.00 38.71 3.67
6740 10572 3.394836 GCCGACTTCCCTGCCTCT 61.395 66.667 0.00 0.00 0.00 3.69
6741 10573 4.821589 CGCCGACTTCCCTGCCTC 62.822 72.222 0.00 0.00 0.00 4.70
6743 10575 4.699522 AACGCCGACTTCCCTGCC 62.700 66.667 0.00 0.00 0.00 4.85
6744 10576 3.423154 CAACGCCGACTTCCCTGC 61.423 66.667 0.00 0.00 0.00 4.85
6745 10577 3.423154 GCAACGCCGACTTCCCTG 61.423 66.667 0.00 0.00 0.00 4.45
6759 10591 2.203280 CCCGTGGTTCACTGGCAA 60.203 61.111 0.00 0.00 32.51 4.52
6811 10643 3.723235 CTCCTCACATGCGACCCCG 62.723 68.421 0.00 0.00 39.16 5.73


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

AutoCloner maintained by Alex Coulton.