Multiple sequence alignment - TraesCS6D01G294500

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 TraesCS6D01G294500 chr6D 100.000 3824 0 0 1 3824 405471151 405474974 0.000000e+00 7062.0
1 TraesCS6D01G294500 chr6A 95.373 2896 96 11 574 3435 551834306 551837197 0.000000e+00 4571.0
2 TraesCS6D01G294500 chr6A 90.110 182 7 3 3434 3604 551837254 551837435 3.840000e-55 226.0
3 TraesCS6D01G294500 chr6A 94.643 56 3 0 2879 2934 551836684 551836739 1.890000e-13 87.9
4 TraesCS6D01G294500 chr6B 95.359 2887 92 17 589 3435 609372443 609375327 0.000000e+00 4551.0
5 TraesCS6D01G294500 chr6B 87.719 399 23 11 3434 3810 609375384 609375778 3.510000e-120 442.0
6 TraesCS6D01G294500 chr5B 90.440 523 39 3 2 524 217708550 217708039 0.000000e+00 678.0
7 TraesCS6D01G294500 chr5B 95.714 70 3 0 3 72 217708614 217708545 3.120000e-21 113.0
8 TraesCS6D01G294500 chr1A 90.230 522 40 3 2 523 500077763 500078273 0.000000e+00 671.0
9 TraesCS6D01G294500 chr1A 97.183 71 2 0 2 72 500077163 500077233 1.870000e-23 121.0
10 TraesCS6D01G294500 chr1A 95.714 70 3 0 3 72 500077099 500077168 3.120000e-21 113.0
11 TraesCS6D01G294500 chr1A 94.366 71 4 0 2 72 500077698 500077768 4.040000e-20 110.0
12 TraesCS6D01G294500 chr7A 94.322 317 18 0 1 317 12755043 12754727 1.600000e-133 486.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G294500 chr6D 405471151 405474974 3823 False 7062.00 7062 100.000000 1 3824 1 chr6D.!!$F1 3823
1 TraesCS6D01G294500 chr6A 551834306 551837435 3129 False 1628.30 4571 93.375333 574 3604 3 chr6A.!!$F1 3030
2 TraesCS6D01G294500 chr6B 609372443 609375778 3335 False 2496.50 4551 91.539000 589 3810 2 chr6B.!!$F1 3221
3 TraesCS6D01G294500 chr5B 217708039 217708614 575 True 395.50 678 93.077000 2 524 2 chr5B.!!$R1 522
4 TraesCS6D01G294500 chr1A 500077099 500078273 1174 False 253.75 671 94.373250 2 523 4 chr1A.!!$F1 521

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
388 1052 0.032815 GATAAGGTGAGCGAGAGGGC 59.967 60.0 0.00 0.0 0.00 5.19 F
1554 2237 0.159554 CGACGCATGATTCGGAATCG 59.840 55.0 22.01 14.8 40.84 3.34 F
1644 2327 0.465705 GGATGTCGGAGATGGCTTCA 59.534 55.0 3.03 0.0 40.67 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1653 2336 0.310854 GCTTGAACTTTGGTGGGTCG 59.689 55.0 0.00 0.0 0.00 4.79 R
2583 3301 0.606604 TCTCTGGAGCACCGGTAAAC 59.393 55.0 6.87 0.0 42.77 2.01 R
3389 4126 0.698238 CATCAACCCCTCCACCAGAA 59.302 55.0 0.00 0.0 0.00 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
35 699 2.186125 CGCCAGATGCAGCTCTGA 59.814 61.111 17.15 0.00 44.48 3.27
40 704 0.108472 CAGATGCAGCTCTGACCGAA 60.108 55.000 11.21 0.00 44.48 4.30
84 748 1.466950 CGGTTCCAAAATCTTGCGCTA 59.533 47.619 9.73 0.00 0.00 4.26
87 751 3.057526 GGTTCCAAAATCTTGCGCTAGTT 60.058 43.478 18.20 7.68 0.00 2.24
187 851 4.564110 GGCCATGGCTACGGACCC 62.564 72.222 34.70 13.03 41.60 4.46
189 853 3.151710 CCATGGCTACGGACCCGA 61.152 66.667 16.07 0.00 42.83 5.14
191 855 2.363276 ATGGCTACGGACCCGACA 60.363 61.111 16.07 8.59 42.83 4.35
200 864 2.033448 GACCCGACACCATGGCAA 59.967 61.111 13.04 0.00 0.00 4.52
208 872 2.238521 GACACCATGGCAAAAGAGGAA 58.761 47.619 13.04 0.00 0.00 3.36
288 952 4.268644 CAGCACGACAACAGAGTATATTGG 59.731 45.833 0.00 0.00 0.00 3.16
289 953 3.555956 GCACGACAACAGAGTATATTGGG 59.444 47.826 0.00 0.00 0.00 4.12
290 954 4.119862 CACGACAACAGAGTATATTGGGG 58.880 47.826 0.00 0.00 0.00 4.96
291 955 3.131396 CGACAACAGAGTATATTGGGGC 58.869 50.000 0.00 0.00 0.00 5.80
292 956 3.181465 CGACAACAGAGTATATTGGGGCT 60.181 47.826 0.00 0.00 0.00 5.19
293 957 4.130118 GACAACAGAGTATATTGGGGCTG 58.870 47.826 0.00 0.00 0.00 4.85
294 958 3.780294 ACAACAGAGTATATTGGGGCTGA 59.220 43.478 0.00 0.00 0.00 4.26
295 959 4.141620 ACAACAGAGTATATTGGGGCTGAG 60.142 45.833 0.00 0.00 0.00 3.35
296 960 2.370189 ACAGAGTATATTGGGGCTGAGC 59.630 50.000 0.00 0.00 0.00 4.26
297 961 2.369860 CAGAGTATATTGGGGCTGAGCA 59.630 50.000 6.82 0.00 0.00 4.26
298 962 2.370189 AGAGTATATTGGGGCTGAGCAC 59.630 50.000 6.82 0.74 0.00 4.40
299 963 1.070758 AGTATATTGGGGCTGAGCACG 59.929 52.381 6.82 0.00 29.41 5.34
300 964 0.396435 TATATTGGGGCTGAGCACGG 59.604 55.000 6.82 0.00 29.41 4.94
301 965 2.343475 ATATTGGGGCTGAGCACGGG 62.343 60.000 6.82 0.00 29.41 5.28
304 968 4.785453 GGGGCTGAGCACGGGAAG 62.785 72.222 6.82 0.00 29.41 3.46
305 969 3.706373 GGGCTGAGCACGGGAAGA 61.706 66.667 6.82 0.00 0.00 2.87
306 970 2.347490 GGCTGAGCACGGGAAGAA 59.653 61.111 6.82 0.00 0.00 2.52
307 971 1.302511 GGCTGAGCACGGGAAGAAA 60.303 57.895 6.82 0.00 0.00 2.52
308 972 1.578206 GGCTGAGCACGGGAAGAAAC 61.578 60.000 6.82 0.00 0.00 2.78
309 973 0.603975 GCTGAGCACGGGAAGAAACT 60.604 55.000 0.00 0.00 0.00 2.66
310 974 1.433534 CTGAGCACGGGAAGAAACTC 58.566 55.000 0.00 0.00 0.00 3.01
311 975 0.319555 TGAGCACGGGAAGAAACTCG 60.320 55.000 0.00 0.00 39.85 4.18
313 977 0.319641 AGCACGGGAAGAAACTCGTC 60.320 55.000 0.00 0.00 45.45 4.20
314 978 1.615107 GCACGGGAAGAAACTCGTCG 61.615 60.000 0.00 0.00 45.45 5.12
315 979 1.007336 CACGGGAAGAAACTCGTCGG 61.007 60.000 0.00 0.00 45.45 4.79
316 980 2.092882 CGGGAAGAAACTCGTCGGC 61.093 63.158 0.00 0.00 0.00 5.54
317 981 2.092882 GGGAAGAAACTCGTCGGCG 61.093 63.158 1.15 1.15 39.92 6.46
318 982 2.092882 GGAAGAAACTCGTCGGCGG 61.093 63.158 10.62 2.38 38.89 6.13
319 983 2.727684 GAAGAAACTCGTCGGCGGC 61.728 63.158 10.62 3.25 38.89 6.53
322 986 4.651008 AAACTCGTCGGCGGCGAA 62.651 61.111 36.19 20.65 37.93 4.70
331 995 3.423154 GGCGGCGAACAGTGGAAG 61.423 66.667 12.98 0.00 0.00 3.46
332 996 4.090057 GCGGCGAACAGTGGAAGC 62.090 66.667 12.98 0.00 0.00 3.86
333 997 3.777925 CGGCGAACAGTGGAAGCG 61.778 66.667 0.00 0.00 0.00 4.68
334 998 2.357034 GGCGAACAGTGGAAGCGA 60.357 61.111 0.00 0.00 0.00 4.93
335 999 2.383527 GGCGAACAGTGGAAGCGAG 61.384 63.158 0.00 0.00 0.00 5.03
336 1000 3.016474 GCGAACAGTGGAAGCGAGC 62.016 63.158 0.00 0.00 0.00 5.03
337 1001 1.664649 CGAACAGTGGAAGCGAGCA 60.665 57.895 0.00 0.00 0.00 4.26
338 1002 1.221466 CGAACAGTGGAAGCGAGCAA 61.221 55.000 0.00 0.00 0.00 3.91
339 1003 0.514691 GAACAGTGGAAGCGAGCAAG 59.485 55.000 0.00 0.00 0.00 4.01
340 1004 0.106708 AACAGTGGAAGCGAGCAAGA 59.893 50.000 0.00 0.00 0.00 3.02
341 1005 0.320247 ACAGTGGAAGCGAGCAAGAG 60.320 55.000 0.00 0.00 0.00 2.85
342 1006 0.037882 CAGTGGAAGCGAGCAAGAGA 60.038 55.000 0.00 0.00 0.00 3.10
343 1007 0.246086 AGTGGAAGCGAGCAAGAGAG 59.754 55.000 0.00 0.00 0.00 3.20
344 1008 0.244994 GTGGAAGCGAGCAAGAGAGA 59.755 55.000 0.00 0.00 0.00 3.10
345 1009 0.529833 TGGAAGCGAGCAAGAGAGAG 59.470 55.000 0.00 0.00 0.00 3.20
346 1010 0.814457 GGAAGCGAGCAAGAGAGAGA 59.186 55.000 0.00 0.00 0.00 3.10
347 1011 1.202290 GGAAGCGAGCAAGAGAGAGAG 60.202 57.143 0.00 0.00 0.00 3.20
348 1012 1.742831 GAAGCGAGCAAGAGAGAGAGA 59.257 52.381 0.00 0.00 0.00 3.10
349 1013 1.832883 AGCGAGCAAGAGAGAGAGAA 58.167 50.000 0.00 0.00 0.00 2.87
350 1014 1.745087 AGCGAGCAAGAGAGAGAGAAG 59.255 52.381 0.00 0.00 0.00 2.85
351 1015 1.742831 GCGAGCAAGAGAGAGAGAAGA 59.257 52.381 0.00 0.00 0.00 2.87
352 1016 2.223340 GCGAGCAAGAGAGAGAGAAGAG 60.223 54.545 0.00 0.00 0.00 2.85
353 1017 3.270027 CGAGCAAGAGAGAGAGAAGAGA 58.730 50.000 0.00 0.00 0.00 3.10
354 1018 3.310774 CGAGCAAGAGAGAGAGAAGAGAG 59.689 52.174 0.00 0.00 0.00 3.20
355 1019 3.624777 AGCAAGAGAGAGAGAAGAGAGG 58.375 50.000 0.00 0.00 0.00 3.69
356 1020 3.010584 AGCAAGAGAGAGAGAAGAGAGGT 59.989 47.826 0.00 0.00 0.00 3.85
357 1021 3.763897 GCAAGAGAGAGAGAAGAGAGGTT 59.236 47.826 0.00 0.00 0.00 3.50
358 1022 4.380867 GCAAGAGAGAGAGAAGAGAGGTTG 60.381 50.000 0.00 0.00 0.00 3.77
359 1023 3.968265 AGAGAGAGAGAAGAGAGGTTGG 58.032 50.000 0.00 0.00 0.00 3.77
360 1024 3.591527 AGAGAGAGAGAAGAGAGGTTGGA 59.408 47.826 0.00 0.00 0.00 3.53
361 1025 3.947834 GAGAGAGAGAAGAGAGGTTGGAG 59.052 52.174 0.00 0.00 0.00 3.86
362 1026 3.591527 AGAGAGAGAAGAGAGGTTGGAGA 59.408 47.826 0.00 0.00 0.00 3.71
363 1027 4.230502 AGAGAGAGAAGAGAGGTTGGAGAT 59.769 45.833 0.00 0.00 0.00 2.75
364 1028 5.431731 AGAGAGAGAAGAGAGGTTGGAGATA 59.568 44.000 0.00 0.00 0.00 1.98
365 1029 6.069088 AGAGAGAGAAGAGAGGTTGGAGATAA 60.069 42.308 0.00 0.00 0.00 1.75
366 1030 6.498538 AGAGAGAAGAGAGGTTGGAGATAAA 58.501 40.000 0.00 0.00 0.00 1.40
367 1031 6.607198 AGAGAGAAGAGAGGTTGGAGATAAAG 59.393 42.308 0.00 0.00 0.00 1.85
368 1032 5.128663 AGAGAAGAGAGGTTGGAGATAAAGC 59.871 44.000 0.00 0.00 0.00 3.51
369 1033 3.810310 AGAGAGGTTGGAGATAAAGCG 57.190 47.619 0.00 0.00 0.00 4.68
370 1034 3.366396 AGAGAGGTTGGAGATAAAGCGA 58.634 45.455 0.00 0.00 0.00 4.93
371 1035 3.964031 AGAGAGGTTGGAGATAAAGCGAT 59.036 43.478 0.00 0.00 0.00 4.58
372 1036 5.141182 AGAGAGGTTGGAGATAAAGCGATA 58.859 41.667 0.00 0.00 0.00 2.92
373 1037 5.598830 AGAGAGGTTGGAGATAAAGCGATAA 59.401 40.000 0.00 0.00 0.00 1.75
374 1038 5.848406 AGAGGTTGGAGATAAAGCGATAAG 58.152 41.667 0.00 0.00 0.00 1.73
375 1039 4.962155 AGGTTGGAGATAAAGCGATAAGG 58.038 43.478 0.00 0.00 0.00 2.69
376 1040 4.409247 AGGTTGGAGATAAAGCGATAAGGT 59.591 41.667 0.00 0.00 0.00 3.50
377 1041 4.511826 GGTTGGAGATAAAGCGATAAGGTG 59.488 45.833 0.00 0.00 0.00 4.00
378 1042 5.357257 GTTGGAGATAAAGCGATAAGGTGA 58.643 41.667 0.00 0.00 0.00 4.02
379 1043 5.201713 TGGAGATAAAGCGATAAGGTGAG 57.798 43.478 0.00 0.00 0.00 3.51
380 1044 3.991121 GGAGATAAAGCGATAAGGTGAGC 59.009 47.826 0.00 0.00 0.00 4.26
381 1045 3.643763 AGATAAAGCGATAAGGTGAGCG 58.356 45.455 0.00 0.00 34.34 5.03
382 1046 3.318275 AGATAAAGCGATAAGGTGAGCGA 59.682 43.478 0.00 0.00 34.34 4.93
383 1047 1.927895 AAAGCGATAAGGTGAGCGAG 58.072 50.000 0.00 0.00 34.34 5.03
384 1048 1.103803 AAGCGATAAGGTGAGCGAGA 58.896 50.000 0.00 0.00 34.34 4.04
385 1049 0.665835 AGCGATAAGGTGAGCGAGAG 59.334 55.000 0.00 0.00 34.34 3.20
386 1050 0.318275 GCGATAAGGTGAGCGAGAGG 60.318 60.000 0.00 0.00 0.00 3.69
387 1051 0.312416 CGATAAGGTGAGCGAGAGGG 59.688 60.000 0.00 0.00 0.00 4.30
388 1052 0.032815 GATAAGGTGAGCGAGAGGGC 59.967 60.000 0.00 0.00 0.00 5.19
389 1053 0.687757 ATAAGGTGAGCGAGAGGGCA 60.688 55.000 0.00 0.00 34.64 5.36
390 1054 1.323271 TAAGGTGAGCGAGAGGGCAG 61.323 60.000 0.00 0.00 34.64 4.85
391 1055 4.828925 GGTGAGCGAGAGGGCAGC 62.829 72.222 0.00 0.00 34.64 5.25
392 1056 4.074526 GTGAGCGAGAGGGCAGCA 62.075 66.667 0.00 0.00 34.64 4.41
393 1057 4.074526 TGAGCGAGAGGGCAGCAC 62.075 66.667 0.00 0.00 34.64 4.40
394 1058 4.074526 GAGCGAGAGGGCAGCACA 62.075 66.667 0.00 0.00 34.64 4.57
395 1059 3.382803 GAGCGAGAGGGCAGCACAT 62.383 63.158 0.00 0.00 34.64 3.21
396 1060 2.894387 GCGAGAGGGCAGCACATC 60.894 66.667 0.00 0.00 0.00 3.06
397 1061 2.898738 CGAGAGGGCAGCACATCT 59.101 61.111 0.00 0.00 0.00 2.90
398 1062 1.227205 CGAGAGGGCAGCACATCTC 60.227 63.158 12.82 12.82 35.82 2.75
399 1063 1.227205 GAGAGGGCAGCACATCTCG 60.227 63.158 0.00 0.00 0.00 4.04
400 1064 2.894387 GAGGGCAGCACATCTCGC 60.894 66.667 0.00 0.00 0.00 5.03
401 1065 3.382803 GAGGGCAGCACATCTCGCT 62.383 63.158 0.00 0.00 41.47 4.93
402 1066 2.894387 GGGCAGCACATCTCGCTC 60.894 66.667 0.00 0.00 37.72 5.03
403 1067 2.186384 GGCAGCACATCTCGCTCT 59.814 61.111 0.00 0.00 37.72 4.09
404 1068 1.449246 GGCAGCACATCTCGCTCTT 60.449 57.895 0.00 0.00 37.72 2.85
405 1069 0.179100 GGCAGCACATCTCGCTCTTA 60.179 55.000 0.00 0.00 37.72 2.10
406 1070 1.539929 GGCAGCACATCTCGCTCTTAT 60.540 52.381 0.00 0.00 37.72 1.73
407 1071 1.791785 GCAGCACATCTCGCTCTTATC 59.208 52.381 0.00 0.00 37.72 1.75
408 1072 2.545532 GCAGCACATCTCGCTCTTATCT 60.546 50.000 0.00 0.00 37.72 1.98
409 1073 3.051327 CAGCACATCTCGCTCTTATCTG 58.949 50.000 0.00 0.00 37.72 2.90
410 1074 2.692557 AGCACATCTCGCTCTTATCTGT 59.307 45.455 0.00 0.00 33.35 3.41
411 1075 3.131933 AGCACATCTCGCTCTTATCTGTT 59.868 43.478 0.00 0.00 33.35 3.16
412 1076 3.489047 GCACATCTCGCTCTTATCTGTTC 59.511 47.826 0.00 0.00 0.00 3.18
413 1077 4.047822 CACATCTCGCTCTTATCTGTTCC 58.952 47.826 0.00 0.00 0.00 3.62
414 1078 3.957497 ACATCTCGCTCTTATCTGTTCCT 59.043 43.478 0.00 0.00 0.00 3.36
415 1079 4.404073 ACATCTCGCTCTTATCTGTTCCTT 59.596 41.667 0.00 0.00 0.00 3.36
416 1080 4.640789 TCTCGCTCTTATCTGTTCCTTC 57.359 45.455 0.00 0.00 0.00 3.46
417 1081 3.381908 TCTCGCTCTTATCTGTTCCTTCC 59.618 47.826 0.00 0.00 0.00 3.46
418 1082 3.096852 TCGCTCTTATCTGTTCCTTCCA 58.903 45.455 0.00 0.00 0.00 3.53
419 1083 3.706594 TCGCTCTTATCTGTTCCTTCCAT 59.293 43.478 0.00 0.00 0.00 3.41
420 1084 4.054671 CGCTCTTATCTGTTCCTTCCATC 58.945 47.826 0.00 0.00 0.00 3.51
421 1085 4.442052 CGCTCTTATCTGTTCCTTCCATCA 60.442 45.833 0.00 0.00 0.00 3.07
422 1086 4.813697 GCTCTTATCTGTTCCTTCCATCAC 59.186 45.833 0.00 0.00 0.00 3.06
423 1087 5.011090 TCTTATCTGTTCCTTCCATCACG 57.989 43.478 0.00 0.00 0.00 4.35
424 1088 2.029838 ATCTGTTCCTTCCATCACGC 57.970 50.000 0.00 0.00 0.00 5.34
425 1089 0.389817 TCTGTTCCTTCCATCACGCG 60.390 55.000 3.53 3.53 0.00 6.01
426 1090 0.670546 CTGTTCCTTCCATCACGCGT 60.671 55.000 5.58 5.58 0.00 6.01
427 1091 0.948623 TGTTCCTTCCATCACGCGTG 60.949 55.000 32.76 32.76 0.00 5.34
428 1092 0.949105 GTTCCTTCCATCACGCGTGT 60.949 55.000 35.74 21.74 0.00 4.49
430 1094 1.667830 CCTTCCATCACGCGTGTGT 60.668 57.895 35.74 23.76 46.49 3.72
431 1095 1.492873 CTTCCATCACGCGTGTGTG 59.507 57.895 35.74 31.22 46.49 3.82
446 1110 3.442167 GTGATGCGCACCATGGCA 61.442 61.111 14.90 3.92 41.78 4.92
447 1111 3.442167 TGATGCGCACCATGGCAC 61.442 61.111 14.90 2.59 42.76 5.01
448 1112 4.541482 GATGCGCACCATGGCACG 62.541 66.667 14.90 19.77 42.76 5.34
461 1125 3.670377 GCACGTGGGCCAGGAAAC 61.670 66.667 31.26 16.01 0.00 2.78
462 1126 3.353836 CACGTGGGCCAGGAAACG 61.354 66.667 31.26 21.23 41.64 3.60
463 1127 3.552384 ACGTGGGCCAGGAAACGA 61.552 61.111 31.26 0.00 39.27 3.85
464 1128 2.046314 CGTGGGCCAGGAAACGAT 60.046 61.111 21.34 0.00 38.27 3.73
465 1129 2.398554 CGTGGGCCAGGAAACGATG 61.399 63.158 21.34 0.00 38.27 3.84
466 1130 2.361104 TGGGCCAGGAAACGATGC 60.361 61.111 0.00 0.00 0.00 3.91
467 1131 3.508840 GGGCCAGGAAACGATGCG 61.509 66.667 4.39 0.00 0.00 4.73
468 1132 3.508840 GGCCAGGAAACGATGCGG 61.509 66.667 0.00 0.00 0.00 5.69
469 1133 2.435938 GCCAGGAAACGATGCGGA 60.436 61.111 0.00 0.00 0.00 5.54
470 1134 2.038269 GCCAGGAAACGATGCGGAA 61.038 57.895 0.00 0.00 0.00 4.30
471 1135 1.982073 GCCAGGAAACGATGCGGAAG 61.982 60.000 0.00 0.00 0.00 3.46
494 1158 2.594541 GCGTGGCGAAGAGATAAGG 58.405 57.895 0.00 0.00 0.00 2.69
495 1159 0.876342 GCGTGGCGAAGAGATAAGGG 60.876 60.000 0.00 0.00 0.00 3.95
496 1160 0.249489 CGTGGCGAAGAGATAAGGGG 60.249 60.000 0.00 0.00 0.00 4.79
497 1161 1.120530 GTGGCGAAGAGATAAGGGGA 58.879 55.000 0.00 0.00 0.00 4.81
498 1162 1.485066 GTGGCGAAGAGATAAGGGGAA 59.515 52.381 0.00 0.00 0.00 3.97
499 1163 2.093128 GTGGCGAAGAGATAAGGGGAAA 60.093 50.000 0.00 0.00 0.00 3.13
500 1164 2.574369 TGGCGAAGAGATAAGGGGAAAA 59.426 45.455 0.00 0.00 0.00 2.29
501 1165 3.206964 GGCGAAGAGATAAGGGGAAAAG 58.793 50.000 0.00 0.00 0.00 2.27
502 1166 3.206964 GCGAAGAGATAAGGGGAAAAGG 58.793 50.000 0.00 0.00 0.00 3.11
503 1167 3.118371 GCGAAGAGATAAGGGGAAAAGGA 60.118 47.826 0.00 0.00 0.00 3.36
504 1168 4.443621 CGAAGAGATAAGGGGAAAAGGAC 58.556 47.826 0.00 0.00 0.00 3.85
505 1169 4.162509 CGAAGAGATAAGGGGAAAAGGACT 59.837 45.833 0.00 0.00 0.00 3.85
506 1170 5.676552 GAAGAGATAAGGGGAAAAGGACTC 58.323 45.833 0.00 0.00 0.00 3.36
507 1171 3.707102 AGAGATAAGGGGAAAAGGACTCG 59.293 47.826 0.00 0.00 0.00 4.18
508 1172 2.772515 AGATAAGGGGAAAAGGACTCGG 59.227 50.000 0.00 0.00 0.00 4.63
509 1173 0.616891 TAAGGGGAAAAGGACTCGGC 59.383 55.000 0.00 0.00 0.00 5.54
510 1174 2.045242 GGGGAAAAGGACTCGGCC 60.045 66.667 0.00 0.00 0.00 6.13
511 1175 2.436115 GGGAAAAGGACTCGGCCG 60.436 66.667 22.12 22.12 0.00 6.13
512 1176 2.436115 GGAAAAGGACTCGGCCGG 60.436 66.667 27.83 18.67 0.00 6.13
513 1177 3.125573 GAAAAGGACTCGGCCGGC 61.126 66.667 27.83 21.18 0.00 6.13
514 1178 3.894547 GAAAAGGACTCGGCCGGCA 62.895 63.158 30.85 7.71 0.00 5.69
515 1179 4.699522 AAAGGACTCGGCCGGCAC 62.700 66.667 30.85 16.91 0.00 5.01
519 1183 4.760047 GACTCGGCCGGCACATGT 62.760 66.667 30.85 20.28 0.00 3.21
526 1190 3.055719 CCGGCACATGTGTGGGTC 61.056 66.667 26.01 9.58 45.72 4.46
527 1191 2.032528 CGGCACATGTGTGGGTCT 59.967 61.111 26.01 0.00 45.72 3.85
528 1192 2.327343 CGGCACATGTGTGGGTCTG 61.327 63.158 26.01 10.82 45.72 3.51
529 1193 1.073025 GGCACATGTGTGGGTCTGA 59.927 57.895 26.01 0.00 45.72 3.27
530 1194 1.237285 GGCACATGTGTGGGTCTGAC 61.237 60.000 26.01 6.73 45.72 3.51
531 1195 1.237285 GCACATGTGTGGGTCTGACC 61.237 60.000 26.01 18.65 45.72 4.02
532 1196 0.950555 CACATGTGTGGGTCTGACCG 60.951 60.000 19.98 7.35 39.83 4.79
533 1197 1.375908 CATGTGTGGGTCTGACCGG 60.376 63.158 19.98 0.00 39.83 5.28
534 1198 1.841556 ATGTGTGGGTCTGACCGGT 60.842 57.895 19.98 6.92 39.83 5.28
535 1199 1.827399 ATGTGTGGGTCTGACCGGTC 61.827 60.000 28.17 28.17 39.83 4.79
536 1200 3.299977 TGTGGGTCTGACCGGTCG 61.300 66.667 28.70 22.28 39.83 4.79
537 1201 2.987547 GTGGGTCTGACCGGTCGA 60.988 66.667 28.70 24.05 39.83 4.20
538 1202 2.203523 TGGGTCTGACCGGTCGAA 60.204 61.111 28.70 16.84 39.83 3.71
539 1203 2.273179 TGGGTCTGACCGGTCGAAG 61.273 63.158 28.70 21.21 39.83 3.79
540 1204 1.975407 GGGTCTGACCGGTCGAAGA 60.975 63.158 28.70 23.11 39.83 2.87
541 1205 1.321074 GGGTCTGACCGGTCGAAGAT 61.321 60.000 28.70 0.00 39.83 2.40
542 1206 0.531200 GGTCTGACCGGTCGAAGATT 59.469 55.000 28.70 0.00 40.67 2.40
543 1207 1.469423 GGTCTGACCGGTCGAAGATTC 60.469 57.143 28.70 17.73 40.67 2.52
552 1216 2.509336 CGAAGATTCGGCAGGCGT 60.509 61.111 17.01 0.00 46.30 5.68
553 1217 2.802667 CGAAGATTCGGCAGGCGTG 61.803 63.158 17.01 1.01 46.30 5.34
554 1218 1.741770 GAAGATTCGGCAGGCGTGT 60.742 57.895 17.01 6.11 0.00 4.49
555 1219 0.459585 GAAGATTCGGCAGGCGTGTA 60.460 55.000 17.01 3.71 0.00 2.90
556 1220 0.460284 AAGATTCGGCAGGCGTGTAG 60.460 55.000 17.01 2.76 0.00 2.74
557 1221 1.883084 GATTCGGCAGGCGTGTAGG 60.883 63.158 17.01 0.00 0.00 3.18
569 1233 3.317449 GTGTAGGCACGAAGGGTTT 57.683 52.632 0.00 0.00 35.75 3.27
570 1234 0.872388 GTGTAGGCACGAAGGGTTTG 59.128 55.000 0.00 0.00 35.75 2.93
571 1235 0.887387 TGTAGGCACGAAGGGTTTGC 60.887 55.000 0.00 0.00 35.40 3.68
710 1381 2.271800 GATACGTTGTCCTGAAGCCTG 58.728 52.381 0.00 0.00 0.00 4.85
720 1391 2.103094 TCCTGAAGCCTGATAACATCCG 59.897 50.000 0.00 0.00 0.00 4.18
883 1559 2.292257 GGCAACCTCCCTATCCCTTTTT 60.292 50.000 0.00 0.00 0.00 1.94
1044 1727 4.047059 TCGCCCAAGACGTCGTCC 62.047 66.667 21.40 5.20 32.18 4.79
1443 2126 0.463204 TCGAGGACGAGGAGTACGAT 59.537 55.000 0.00 0.00 43.81 3.73
1470 2153 0.894184 TCGAGGAGACCAAAGAGCGT 60.894 55.000 0.00 0.00 0.00 5.07
1554 2237 0.159554 CGACGCATGATTCGGAATCG 59.840 55.000 22.01 14.80 40.84 3.34
1644 2327 0.465705 GGATGTCGGAGATGGCTTCA 59.534 55.000 3.03 0.00 40.67 3.02
1653 2336 2.299867 GGAGATGGCTTCAGATCCTCTC 59.700 54.545 3.03 0.00 0.00 3.20
1731 2414 3.490759 GTGATGCACTCGCCACCG 61.491 66.667 0.00 0.00 37.32 4.94
1782 2465 1.064463 TGGAAGATCCCACCTTGCATC 60.064 52.381 0.00 0.00 37.12 3.91
2625 3343 1.269517 GCTGGCAAGAGAGATAGACCG 60.270 57.143 0.00 0.00 0.00 4.79
2652 3370 2.685388 GTTTGATAAGCAAGAGGAGGCC 59.315 50.000 0.00 0.00 37.87 5.19
2697 3415 1.352083 TGACTGAGGTGAAGAAGGGG 58.648 55.000 0.00 0.00 0.00 4.79
2727 3445 1.303317 GGACAAGATTGGTGGCGGT 60.303 57.895 0.00 0.00 0.00 5.68
2757 3475 0.036010 AGGCAAGTGGTGGATCTTCG 60.036 55.000 0.00 0.00 0.00 3.79
3039 3763 3.255642 GGCTGCTTGTTCTATTTCAACCA 59.744 43.478 0.00 0.00 0.00 3.67
3040 3764 4.082026 GGCTGCTTGTTCTATTTCAACCAT 60.082 41.667 0.00 0.00 0.00 3.55
3041 3765 5.473039 GCTGCTTGTTCTATTTCAACCATT 58.527 37.500 0.00 0.00 0.00 3.16
3095 3819 5.407691 CCTATGATGCTTGTATGCTGTGTAG 59.592 44.000 0.00 0.00 0.00 2.74
3182 3906 8.564574 TGTTAATTTCAAAGCTGTATCGAAGTT 58.435 29.630 0.00 0.00 0.00 2.66
3236 3960 7.065443 TGTCTCATCTCTTGTTTATCATGCTTG 59.935 37.037 0.00 0.00 0.00 4.01
3276 4000 5.221342 TGTGGTCGTTTTCCAAAATAAGCAT 60.221 36.000 0.00 0.00 36.68 3.79
3327 4052 4.233789 CCTTGCTTGCGCTTGTTTTATTA 58.766 39.130 9.73 0.00 36.97 0.98
3340 4065 7.276658 CGCTTGTTTTATTAATTTGTATGGGCA 59.723 33.333 0.00 0.00 0.00 5.36
3389 4126 3.118956 TGGCGGTTTGTTGTCAAATCTTT 60.119 39.130 3.17 0.00 43.92 2.52
3401 4145 3.507622 GTCAAATCTTTTCTGGTGGAGGG 59.492 47.826 0.00 0.00 0.00 4.30
3410 4154 1.852157 TGGTGGAGGGGTTGATGCT 60.852 57.895 0.00 0.00 0.00 3.79
3477 4284 4.599047 TTAGCTGGGTTTGTTGATTTGG 57.401 40.909 0.00 0.00 0.00 3.28
3611 4433 5.691754 GCAGACCCAATTCAAAACAAACTAG 59.308 40.000 0.00 0.00 0.00 2.57
3636 4458 9.821240 AGATGATTTGTCTCTATAGGAGTACAT 57.179 33.333 0.00 0.00 42.40 2.29
3670 4492 3.670625 TCGAGGAGTACAATTTTGGGTG 58.329 45.455 0.00 0.00 0.00 4.61
3679 4501 4.193240 ACAATTTTGGGTGGGAAGTAGT 57.807 40.909 0.00 0.00 0.00 2.73
3709 4531 4.994282 TCCCAGAGAGTACAGTTTCTGTA 58.006 43.478 5.64 5.64 43.46 2.74
3710 4532 5.580998 TCCCAGAGAGTACAGTTTCTGTAT 58.419 41.667 11.83 3.28 46.56 2.29
3739 4561 9.366216 GAAAATAATATTCCTGTGAAAACCACC 57.634 33.333 0.00 0.00 45.09 4.61
3740 4562 6.693315 ATAATATTCCTGTGAAAACCACCG 57.307 37.500 0.00 0.00 45.09 4.94
3741 4563 2.649531 ATTCCTGTGAAAACCACCGA 57.350 45.000 0.00 0.00 45.09 4.69
3747 4571 1.146485 TGAAAACCACCGAGGCGAA 59.854 52.632 0.00 0.00 43.14 4.70
3756 4580 1.234615 ACCGAGGCGAAAACATGTGG 61.235 55.000 0.00 0.00 0.00 4.17
3758 4582 0.443869 CGAGGCGAAAACATGTGGAG 59.556 55.000 0.00 0.00 0.00 3.86
3787 4611 6.229733 TCCATTCCTTTTGGCTACATTTTTG 58.770 36.000 0.00 0.00 40.12 2.44
3798 4622 5.695816 TGGCTACATTTTTGTTGAATGAAGC 59.304 36.000 4.05 0.00 37.79 3.86
3810 4634 5.125900 TGTTGAATGAAGCCATATCACCAAG 59.874 40.000 0.00 0.00 31.59 3.61
3811 4635 4.209538 TGAATGAAGCCATATCACCAAGG 58.790 43.478 0.00 0.00 31.59 3.61
3812 4636 3.959495 ATGAAGCCATATCACCAAGGT 57.041 42.857 0.00 0.00 0.00 3.50
3813 4637 5.104151 TGAATGAAGCCATATCACCAAGGTA 60.104 40.000 0.00 0.00 31.59 3.08
3814 4638 4.150897 TGAAGCCATATCACCAAGGTAC 57.849 45.455 0.00 0.00 0.00 3.34
3815 4639 3.118038 TGAAGCCATATCACCAAGGTACC 60.118 47.826 2.73 2.73 0.00 3.34
3816 4640 2.487775 AGCCATATCACCAAGGTACCA 58.512 47.619 15.94 0.00 0.00 3.25
3817 4641 2.849943 AGCCATATCACCAAGGTACCAA 59.150 45.455 15.94 0.00 0.00 3.67
3818 4642 3.463329 AGCCATATCACCAAGGTACCAAT 59.537 43.478 15.94 0.00 0.00 3.16
3819 4643 4.079212 AGCCATATCACCAAGGTACCAATT 60.079 41.667 15.94 0.00 0.00 2.32
3820 4644 4.278419 GCCATATCACCAAGGTACCAATTC 59.722 45.833 15.94 0.00 0.00 2.17
3821 4645 5.694995 CCATATCACCAAGGTACCAATTCT 58.305 41.667 15.94 0.00 0.00 2.40
3822 4646 5.765182 CCATATCACCAAGGTACCAATTCTC 59.235 44.000 15.94 0.00 0.00 2.87
3823 4647 3.328382 TCACCAAGGTACCAATTCTCG 57.672 47.619 15.94 0.00 0.00 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 686 0.108424 GTTCGGTCAGAGCTGCATCT 60.108 55.000 1.02 0.00 0.00 2.90
40 704 4.379243 CCTCGAGCTGCAACCGGT 62.379 66.667 6.99 0.00 0.00 5.28
65 729 2.488153 ACTAGCGCAAGATTTTGGAACC 59.512 45.455 11.47 0.00 43.02 3.62
84 748 1.980772 GCCCCAAGATGCTGCAACT 60.981 57.895 6.36 6.49 0.00 3.16
87 751 3.305619 ATGGCCCCAAGATGCTGCA 62.306 57.895 4.13 4.13 0.00 4.41
185 849 0.893270 TCTTTTGCCATGGTGTCGGG 60.893 55.000 14.67 0.16 0.00 5.14
187 851 0.523072 CCTCTTTTGCCATGGTGTCG 59.477 55.000 14.67 0.00 0.00 4.35
189 853 2.242043 CTTCCTCTTTTGCCATGGTGT 58.758 47.619 14.67 0.00 0.00 4.16
191 855 2.629617 CAACTTCCTCTTTTGCCATGGT 59.370 45.455 14.67 0.00 0.00 3.55
198 862 0.969149 GGCCCCAACTTCCTCTTTTG 59.031 55.000 0.00 0.00 0.00 2.44
200 864 1.074951 CGGCCCCAACTTCCTCTTT 59.925 57.895 0.00 0.00 0.00 2.52
288 952 2.748058 TTTCTTCCCGTGCTCAGCCC 62.748 60.000 0.00 0.00 0.00 5.19
289 953 1.302511 TTTCTTCCCGTGCTCAGCC 60.303 57.895 0.00 0.00 0.00 4.85
290 954 0.603975 AGTTTCTTCCCGTGCTCAGC 60.604 55.000 0.00 0.00 0.00 4.26
291 955 1.433534 GAGTTTCTTCCCGTGCTCAG 58.566 55.000 0.00 0.00 0.00 3.35
292 956 0.319555 CGAGTTTCTTCCCGTGCTCA 60.320 55.000 0.00 0.00 0.00 4.26
293 957 0.319641 ACGAGTTTCTTCCCGTGCTC 60.320 55.000 0.00 0.00 33.69 4.26
294 958 0.319641 GACGAGTTTCTTCCCGTGCT 60.320 55.000 0.00 0.00 35.22 4.40
295 959 1.615107 CGACGAGTTTCTTCCCGTGC 61.615 60.000 0.00 0.00 35.22 5.34
296 960 1.007336 CCGACGAGTTTCTTCCCGTG 61.007 60.000 0.00 0.00 35.22 4.94
297 961 1.288127 CCGACGAGTTTCTTCCCGT 59.712 57.895 0.00 0.00 38.01 5.28
298 962 2.092882 GCCGACGAGTTTCTTCCCG 61.093 63.158 0.00 0.00 0.00 5.14
299 963 2.092882 CGCCGACGAGTTTCTTCCC 61.093 63.158 0.00 0.00 43.93 3.97
300 964 2.092882 CCGCCGACGAGTTTCTTCC 61.093 63.158 0.00 0.00 43.93 3.46
301 965 2.727684 GCCGCCGACGAGTTTCTTC 61.728 63.158 0.00 0.00 43.93 2.87
302 966 2.737376 GCCGCCGACGAGTTTCTT 60.737 61.111 0.00 0.00 43.93 2.52
305 969 4.651008 TTCGCCGCCGACGAGTTT 62.651 61.111 0.00 0.00 44.30 2.66
314 978 3.423154 CTTCCACTGTTCGCCGCC 61.423 66.667 0.00 0.00 0.00 6.13
315 979 4.090057 GCTTCCACTGTTCGCCGC 62.090 66.667 0.00 0.00 0.00 6.53
316 980 3.777925 CGCTTCCACTGTTCGCCG 61.778 66.667 0.00 0.00 0.00 6.46
317 981 2.357034 TCGCTTCCACTGTTCGCC 60.357 61.111 0.00 0.00 0.00 5.54
318 982 3.016474 GCTCGCTTCCACTGTTCGC 62.016 63.158 0.00 0.00 0.00 4.70
319 983 1.221466 TTGCTCGCTTCCACTGTTCG 61.221 55.000 0.00 0.00 0.00 3.95
320 984 0.514691 CTTGCTCGCTTCCACTGTTC 59.485 55.000 0.00 0.00 0.00 3.18
321 985 0.106708 TCTTGCTCGCTTCCACTGTT 59.893 50.000 0.00 0.00 0.00 3.16
322 986 0.320247 CTCTTGCTCGCTTCCACTGT 60.320 55.000 0.00 0.00 0.00 3.55
323 987 0.037882 TCTCTTGCTCGCTTCCACTG 60.038 55.000 0.00 0.00 0.00 3.66
324 988 0.246086 CTCTCTTGCTCGCTTCCACT 59.754 55.000 0.00 0.00 0.00 4.00
325 989 0.244994 TCTCTCTTGCTCGCTTCCAC 59.755 55.000 0.00 0.00 0.00 4.02
326 990 0.529833 CTCTCTCTTGCTCGCTTCCA 59.470 55.000 0.00 0.00 0.00 3.53
327 991 0.814457 TCTCTCTCTTGCTCGCTTCC 59.186 55.000 0.00 0.00 0.00 3.46
328 992 1.742831 TCTCTCTCTCTTGCTCGCTTC 59.257 52.381 0.00 0.00 0.00 3.86
329 993 1.832883 TCTCTCTCTCTTGCTCGCTT 58.167 50.000 0.00 0.00 0.00 4.68
330 994 1.745087 CTTCTCTCTCTCTTGCTCGCT 59.255 52.381 0.00 0.00 0.00 4.93
331 995 1.742831 TCTTCTCTCTCTCTTGCTCGC 59.257 52.381 0.00 0.00 0.00 5.03
332 996 3.270027 TCTCTTCTCTCTCTCTTGCTCG 58.730 50.000 0.00 0.00 0.00 5.03
333 997 3.629398 CCTCTCTTCTCTCTCTCTTGCTC 59.371 52.174 0.00 0.00 0.00 4.26
334 998 3.010584 ACCTCTCTTCTCTCTCTCTTGCT 59.989 47.826 0.00 0.00 0.00 3.91
335 999 3.356290 ACCTCTCTTCTCTCTCTCTTGC 58.644 50.000 0.00 0.00 0.00 4.01
336 1000 4.158394 CCAACCTCTCTTCTCTCTCTCTTG 59.842 50.000 0.00 0.00 0.00 3.02
337 1001 4.044065 TCCAACCTCTCTTCTCTCTCTCTT 59.956 45.833 0.00 0.00 0.00 2.85
338 1002 3.591527 TCCAACCTCTCTTCTCTCTCTCT 59.408 47.826 0.00 0.00 0.00 3.10
339 1003 3.947834 CTCCAACCTCTCTTCTCTCTCTC 59.052 52.174 0.00 0.00 0.00 3.20
340 1004 3.591527 TCTCCAACCTCTCTTCTCTCTCT 59.408 47.826 0.00 0.00 0.00 3.10
341 1005 3.963129 TCTCCAACCTCTCTTCTCTCTC 58.037 50.000 0.00 0.00 0.00 3.20
342 1006 4.608170 ATCTCCAACCTCTCTTCTCTCT 57.392 45.455 0.00 0.00 0.00 3.10
343 1007 6.682861 GCTTTATCTCCAACCTCTCTTCTCTC 60.683 46.154 0.00 0.00 0.00 3.20
344 1008 5.128663 GCTTTATCTCCAACCTCTCTTCTCT 59.871 44.000 0.00 0.00 0.00 3.10
345 1009 5.356426 GCTTTATCTCCAACCTCTCTTCTC 58.644 45.833 0.00 0.00 0.00 2.87
346 1010 4.142049 CGCTTTATCTCCAACCTCTCTTCT 60.142 45.833 0.00 0.00 0.00 2.85
347 1011 4.116238 CGCTTTATCTCCAACCTCTCTTC 58.884 47.826 0.00 0.00 0.00 2.87
348 1012 3.769844 TCGCTTTATCTCCAACCTCTCTT 59.230 43.478 0.00 0.00 0.00 2.85
349 1013 3.366396 TCGCTTTATCTCCAACCTCTCT 58.634 45.455 0.00 0.00 0.00 3.10
350 1014 3.802948 TCGCTTTATCTCCAACCTCTC 57.197 47.619 0.00 0.00 0.00 3.20
351 1015 5.221541 CCTTATCGCTTTATCTCCAACCTCT 60.222 44.000 0.00 0.00 0.00 3.69
352 1016 4.991687 CCTTATCGCTTTATCTCCAACCTC 59.008 45.833 0.00 0.00 0.00 3.85
353 1017 4.409247 ACCTTATCGCTTTATCTCCAACCT 59.591 41.667 0.00 0.00 0.00 3.50
354 1018 4.511826 CACCTTATCGCTTTATCTCCAACC 59.488 45.833 0.00 0.00 0.00 3.77
355 1019 5.357257 TCACCTTATCGCTTTATCTCCAAC 58.643 41.667 0.00 0.00 0.00 3.77
356 1020 5.601662 CTCACCTTATCGCTTTATCTCCAA 58.398 41.667 0.00 0.00 0.00 3.53
357 1021 4.501571 GCTCACCTTATCGCTTTATCTCCA 60.502 45.833 0.00 0.00 0.00 3.86
358 1022 3.991121 GCTCACCTTATCGCTTTATCTCC 59.009 47.826 0.00 0.00 0.00 3.71
359 1023 3.670991 CGCTCACCTTATCGCTTTATCTC 59.329 47.826 0.00 0.00 0.00 2.75
360 1024 3.318275 TCGCTCACCTTATCGCTTTATCT 59.682 43.478 0.00 0.00 0.00 1.98
361 1025 3.639538 TCGCTCACCTTATCGCTTTATC 58.360 45.455 0.00 0.00 0.00 1.75
362 1026 3.318275 TCTCGCTCACCTTATCGCTTTAT 59.682 43.478 0.00 0.00 0.00 1.40
363 1027 2.686405 TCTCGCTCACCTTATCGCTTTA 59.314 45.455 0.00 0.00 0.00 1.85
364 1028 1.476891 TCTCGCTCACCTTATCGCTTT 59.523 47.619 0.00 0.00 0.00 3.51
365 1029 1.066303 CTCTCGCTCACCTTATCGCTT 59.934 52.381 0.00 0.00 0.00 4.68
366 1030 0.665835 CTCTCGCTCACCTTATCGCT 59.334 55.000 0.00 0.00 0.00 4.93
367 1031 0.318275 CCTCTCGCTCACCTTATCGC 60.318 60.000 0.00 0.00 0.00 4.58
368 1032 0.312416 CCCTCTCGCTCACCTTATCG 59.688 60.000 0.00 0.00 0.00 2.92
369 1033 0.032815 GCCCTCTCGCTCACCTTATC 59.967 60.000 0.00 0.00 0.00 1.75
370 1034 0.687757 TGCCCTCTCGCTCACCTTAT 60.688 55.000 0.00 0.00 0.00 1.73
371 1035 1.304962 TGCCCTCTCGCTCACCTTA 60.305 57.895 0.00 0.00 0.00 2.69
372 1036 2.604686 TGCCCTCTCGCTCACCTT 60.605 61.111 0.00 0.00 0.00 3.50
373 1037 3.073735 CTGCCCTCTCGCTCACCT 61.074 66.667 0.00 0.00 0.00 4.00
374 1038 4.828925 GCTGCCCTCTCGCTCACC 62.829 72.222 0.00 0.00 0.00 4.02
375 1039 4.074526 TGCTGCCCTCTCGCTCAC 62.075 66.667 0.00 0.00 0.00 3.51
376 1040 4.074526 GTGCTGCCCTCTCGCTCA 62.075 66.667 0.00 0.00 0.00 4.26
377 1041 3.382803 ATGTGCTGCCCTCTCGCTC 62.383 63.158 0.00 0.00 0.00 5.03
378 1042 3.382803 GATGTGCTGCCCTCTCGCT 62.383 63.158 0.00 0.00 0.00 4.93
379 1043 2.894387 GATGTGCTGCCCTCTCGC 60.894 66.667 0.00 0.00 0.00 5.03
380 1044 1.227205 GAGATGTGCTGCCCTCTCG 60.227 63.158 0.00 0.00 0.00 4.04
381 1045 1.227205 CGAGATGTGCTGCCCTCTC 60.227 63.158 11.14 11.14 0.00 3.20
382 1046 2.898738 CGAGATGTGCTGCCCTCT 59.101 61.111 0.00 0.00 0.00 3.69
383 1047 2.894387 GCGAGATGTGCTGCCCTC 60.894 66.667 0.00 0.00 0.00 4.30
384 1048 3.382803 GAGCGAGATGTGCTGCCCT 62.383 63.158 0.00 0.00 44.18 5.19
385 1049 2.866085 AAGAGCGAGATGTGCTGCCC 62.866 60.000 0.00 0.00 44.18 5.36
386 1050 0.179100 TAAGAGCGAGATGTGCTGCC 60.179 55.000 0.00 0.00 44.18 4.85
387 1051 1.791785 GATAAGAGCGAGATGTGCTGC 59.208 52.381 0.00 0.00 44.18 5.25
388 1052 3.051327 CAGATAAGAGCGAGATGTGCTG 58.949 50.000 0.00 0.00 44.18 4.41
390 1054 3.090952 ACAGATAAGAGCGAGATGTGC 57.909 47.619 0.00 0.00 0.00 4.57
391 1055 4.047822 GGAACAGATAAGAGCGAGATGTG 58.952 47.826 0.00 0.00 0.00 3.21
392 1056 3.957497 AGGAACAGATAAGAGCGAGATGT 59.043 43.478 0.00 0.00 0.00 3.06
393 1057 4.582701 AGGAACAGATAAGAGCGAGATG 57.417 45.455 0.00 0.00 0.00 2.90
394 1058 4.038642 GGAAGGAACAGATAAGAGCGAGAT 59.961 45.833 0.00 0.00 0.00 2.75
395 1059 3.381908 GGAAGGAACAGATAAGAGCGAGA 59.618 47.826 0.00 0.00 0.00 4.04
396 1060 3.131223 TGGAAGGAACAGATAAGAGCGAG 59.869 47.826 0.00 0.00 0.00 5.03
397 1061 3.096852 TGGAAGGAACAGATAAGAGCGA 58.903 45.455 0.00 0.00 0.00 4.93
398 1062 3.526931 TGGAAGGAACAGATAAGAGCG 57.473 47.619 0.00 0.00 0.00 5.03
399 1063 4.813697 GTGATGGAAGGAACAGATAAGAGC 59.186 45.833 0.00 0.00 0.00 4.09
400 1064 5.046529 CGTGATGGAAGGAACAGATAAGAG 58.953 45.833 0.00 0.00 0.00 2.85
401 1065 4.680708 GCGTGATGGAAGGAACAGATAAGA 60.681 45.833 0.00 0.00 0.00 2.10
402 1066 3.557595 GCGTGATGGAAGGAACAGATAAG 59.442 47.826 0.00 0.00 0.00 1.73
403 1067 3.531538 GCGTGATGGAAGGAACAGATAA 58.468 45.455 0.00 0.00 0.00 1.75
404 1068 2.481276 CGCGTGATGGAAGGAACAGATA 60.481 50.000 0.00 0.00 0.00 1.98
405 1069 1.740380 CGCGTGATGGAAGGAACAGAT 60.740 52.381 0.00 0.00 0.00 2.90
406 1070 0.389817 CGCGTGATGGAAGGAACAGA 60.390 55.000 0.00 0.00 0.00 3.41
407 1071 0.670546 ACGCGTGATGGAAGGAACAG 60.671 55.000 12.93 0.00 0.00 3.16
408 1072 0.948623 CACGCGTGATGGAAGGAACA 60.949 55.000 34.93 0.00 0.00 3.18
409 1073 0.949105 ACACGCGTGATGGAAGGAAC 60.949 55.000 42.94 0.00 0.00 3.62
410 1074 0.948623 CACACGCGTGATGGAAGGAA 60.949 55.000 42.94 0.00 46.80 3.36
411 1075 1.374125 CACACGCGTGATGGAAGGA 60.374 57.895 42.94 0.00 46.80 3.36
412 1076 1.667830 ACACACGCGTGATGGAAGG 60.668 57.895 42.94 23.28 46.80 3.46
413 1077 0.943835 TCACACACGCGTGATGGAAG 60.944 55.000 42.94 26.52 46.80 3.46
414 1078 1.068250 TCACACACGCGTGATGGAA 59.932 52.632 42.94 24.09 46.80 3.53
415 1079 2.731374 TCACACACGCGTGATGGA 59.269 55.556 42.94 30.42 46.80 3.41
429 1093 3.442167 TGCCATGGTGCGCATCAC 61.442 61.111 28.44 14.52 44.90 3.06
430 1094 3.442167 GTGCCATGGTGCGCATCA 61.442 61.111 28.00 28.00 41.35 3.07
431 1095 4.541482 CGTGCCATGGTGCGCATC 62.541 66.667 15.91 15.63 41.79 3.91
444 1108 3.670377 GTTTCCTGGCCCACGTGC 61.670 66.667 10.91 0.00 0.00 5.34
445 1109 3.353836 CGTTTCCTGGCCCACGTG 61.354 66.667 9.08 9.08 0.00 4.49
446 1110 2.890766 ATCGTTTCCTGGCCCACGT 61.891 57.895 0.00 0.00 34.24 4.49
447 1111 2.046314 ATCGTTTCCTGGCCCACG 60.046 61.111 0.00 0.82 0.00 4.94
448 1112 2.700773 GCATCGTTTCCTGGCCCAC 61.701 63.158 0.00 0.00 0.00 4.61
449 1113 2.361104 GCATCGTTTCCTGGCCCA 60.361 61.111 0.00 0.00 0.00 5.36
450 1114 3.508840 CGCATCGTTTCCTGGCCC 61.509 66.667 0.00 0.00 0.00 5.80
451 1115 3.508840 CCGCATCGTTTCCTGGCC 61.509 66.667 0.00 0.00 0.00 5.36
452 1116 1.982073 CTTCCGCATCGTTTCCTGGC 61.982 60.000 0.00 0.00 0.00 4.85
453 1117 1.982073 GCTTCCGCATCGTTTCCTGG 61.982 60.000 0.00 0.00 35.78 4.45
454 1118 1.425428 GCTTCCGCATCGTTTCCTG 59.575 57.895 0.00 0.00 35.78 3.86
455 1119 1.745489 GGCTTCCGCATCGTTTCCT 60.745 57.895 0.00 0.00 38.10 3.36
456 1120 1.706287 GAGGCTTCCGCATCGTTTCC 61.706 60.000 0.00 0.00 37.20 3.13
457 1121 1.716172 GAGGCTTCCGCATCGTTTC 59.284 57.895 0.00 0.00 37.20 2.78
458 1122 3.890674 GAGGCTTCCGCATCGTTT 58.109 55.556 0.00 0.00 37.20 3.60
476 1140 0.876342 CCCTTATCTCTTCGCCACGC 60.876 60.000 0.00 0.00 0.00 5.34
477 1141 0.249489 CCCCTTATCTCTTCGCCACG 60.249 60.000 0.00 0.00 0.00 4.94
478 1142 1.120530 TCCCCTTATCTCTTCGCCAC 58.879 55.000 0.00 0.00 0.00 5.01
479 1143 1.874129 TTCCCCTTATCTCTTCGCCA 58.126 50.000 0.00 0.00 0.00 5.69
480 1144 3.206964 CTTTTCCCCTTATCTCTTCGCC 58.793 50.000 0.00 0.00 0.00 5.54
481 1145 3.118371 TCCTTTTCCCCTTATCTCTTCGC 60.118 47.826 0.00 0.00 0.00 4.70
482 1146 4.162509 AGTCCTTTTCCCCTTATCTCTTCG 59.837 45.833 0.00 0.00 0.00 3.79
483 1147 5.676552 GAGTCCTTTTCCCCTTATCTCTTC 58.323 45.833 0.00 0.00 0.00 2.87
484 1148 4.162509 CGAGTCCTTTTCCCCTTATCTCTT 59.837 45.833 0.00 0.00 0.00 2.85
485 1149 3.707102 CGAGTCCTTTTCCCCTTATCTCT 59.293 47.826 0.00 0.00 0.00 3.10
486 1150 3.181464 CCGAGTCCTTTTCCCCTTATCTC 60.181 52.174 0.00 0.00 0.00 2.75
487 1151 2.772515 CCGAGTCCTTTTCCCCTTATCT 59.227 50.000 0.00 0.00 0.00 1.98
488 1152 2.745482 GCCGAGTCCTTTTCCCCTTATC 60.745 54.545 0.00 0.00 0.00 1.75
489 1153 1.212195 GCCGAGTCCTTTTCCCCTTAT 59.788 52.381 0.00 0.00 0.00 1.73
490 1154 0.616891 GCCGAGTCCTTTTCCCCTTA 59.383 55.000 0.00 0.00 0.00 2.69
491 1155 1.379146 GCCGAGTCCTTTTCCCCTT 59.621 57.895 0.00 0.00 0.00 3.95
492 1156 2.603652 GGCCGAGTCCTTTTCCCCT 61.604 63.158 0.00 0.00 0.00 4.79
493 1157 2.045242 GGCCGAGTCCTTTTCCCC 60.045 66.667 0.00 0.00 0.00 4.81
494 1158 2.436115 CGGCCGAGTCCTTTTCCC 60.436 66.667 24.07 0.00 0.00 3.97
495 1159 2.436115 CCGGCCGAGTCCTTTTCC 60.436 66.667 30.73 0.00 0.00 3.13
496 1160 3.125573 GCCGGCCGAGTCCTTTTC 61.126 66.667 30.73 0.00 0.00 2.29
497 1161 3.948719 TGCCGGCCGAGTCCTTTT 61.949 61.111 30.73 0.00 0.00 2.27
498 1162 4.699522 GTGCCGGCCGAGTCCTTT 62.700 66.667 30.73 0.00 0.00 3.11
502 1166 4.760047 ACATGTGCCGGCCGAGTC 62.760 66.667 30.73 15.91 0.00 3.36
509 1173 3.055719 GACCCACACATGTGCCGG 61.056 66.667 25.68 24.52 44.34 6.13
510 1174 2.032528 AGACCCACACATGTGCCG 59.967 61.111 25.68 16.44 44.34 5.69
511 1175 1.073025 TCAGACCCACACATGTGCC 59.927 57.895 25.68 9.77 44.34 5.01
512 1176 1.237285 GGTCAGACCCACACATGTGC 61.237 60.000 25.68 8.98 44.34 4.57
513 1177 0.950555 CGGTCAGACCCACACATGTG 60.951 60.000 24.25 24.25 45.23 3.21
514 1178 1.371183 CGGTCAGACCCACACATGT 59.629 57.895 14.46 0.00 33.75 3.21
515 1179 1.375908 CCGGTCAGACCCACACATG 60.376 63.158 14.46 0.00 33.75 3.21
516 1180 1.827399 GACCGGTCAGACCCACACAT 61.827 60.000 29.75 0.00 33.75 3.21
517 1181 2.445085 ACCGGTCAGACCCACACA 60.445 61.111 14.46 0.00 33.75 3.72
518 1182 2.342648 GACCGGTCAGACCCACAC 59.657 66.667 29.75 0.00 33.75 3.82
519 1183 3.299977 CGACCGGTCAGACCCACA 61.300 66.667 32.80 0.00 33.75 4.17
520 1184 2.488087 CTTCGACCGGTCAGACCCAC 62.488 65.000 32.80 5.45 33.75 4.61
521 1185 2.203523 TTCGACCGGTCAGACCCA 60.204 61.111 32.80 13.82 33.75 4.51
522 1186 1.321074 ATCTTCGACCGGTCAGACCC 61.321 60.000 32.80 7.04 33.75 4.46
523 1187 0.531200 AATCTTCGACCGGTCAGACC 59.469 55.000 32.80 9.92 34.05 3.85
524 1188 1.910688 GAATCTTCGACCGGTCAGAC 58.089 55.000 32.80 14.56 0.00 3.51
536 1200 0.459585 TACACGCCTGCCGAATCTTC 60.460 55.000 0.00 0.00 41.02 2.87
537 1201 0.460284 CTACACGCCTGCCGAATCTT 60.460 55.000 0.00 0.00 41.02 2.40
538 1202 1.141881 CTACACGCCTGCCGAATCT 59.858 57.895 0.00 0.00 41.02 2.40
539 1203 1.883084 CCTACACGCCTGCCGAATC 60.883 63.158 0.00 0.00 41.02 2.52
540 1204 2.186903 CCTACACGCCTGCCGAAT 59.813 61.111 0.00 0.00 41.02 3.34
541 1205 4.752879 GCCTACACGCCTGCCGAA 62.753 66.667 0.00 0.00 41.02 4.30
551 1215 0.872388 CAAACCCTTCGTGCCTACAC 59.128 55.000 0.00 0.00 43.76 2.90
552 1216 0.887387 GCAAACCCTTCGTGCCTACA 60.887 55.000 0.00 0.00 31.94 2.74
553 1217 1.873863 GCAAACCCTTCGTGCCTAC 59.126 57.895 0.00 0.00 31.94 3.18
554 1218 4.390048 GCAAACCCTTCGTGCCTA 57.610 55.556 0.00 0.00 31.94 3.93
557 1221 0.033366 AAATGGCAAACCCTTCGTGC 59.967 50.000 0.00 0.00 37.55 5.34
558 1222 2.524569 AAAATGGCAAACCCTTCGTG 57.475 45.000 0.00 0.00 33.59 4.35
595 1259 4.578105 ACTCAAAAGAGGCTTGTTTCTCAG 59.422 41.667 0.00 0.00 32.76 3.35
675 1344 7.254455 GGACAACGTATCAATCTTATTCACCTG 60.254 40.741 0.00 0.00 0.00 4.00
678 1347 7.491372 TCAGGACAACGTATCAATCTTATTCAC 59.509 37.037 0.00 0.00 0.00 3.18
679 1348 7.552459 TCAGGACAACGTATCAATCTTATTCA 58.448 34.615 0.00 0.00 0.00 2.57
680 1349 8.420374 TTCAGGACAACGTATCAATCTTATTC 57.580 34.615 0.00 0.00 0.00 1.75
710 1381 6.201806 CCATCTCTTCTTTGTCGGATGTTATC 59.798 42.308 0.00 0.00 31.63 1.75
720 1391 2.363683 CTGGCCCATCTCTTCTTTGTC 58.636 52.381 0.00 0.00 0.00 3.18
840 1511 2.344500 CCGTGGGTTAAGTCGGCA 59.656 61.111 0.00 0.00 36.68 5.69
883 1559 8.887264 ATTTGTGGTACTGTATTATTTTGGGA 57.113 30.769 0.00 0.00 0.00 4.37
951 1634 4.222847 GCTAGGGTTCCGGCGAGG 62.223 72.222 9.30 0.00 42.97 4.63
992 1675 2.694616 GGGTCCCCATGGCTGGTA 60.695 66.667 6.09 0.00 41.37 3.25
1470 2153 2.682136 TGCAGGGCAGCTACGGTA 60.682 61.111 2.89 0.00 33.32 4.02
1554 2237 5.051641 CGACGGCTTATACTTGATGAACTTC 60.052 44.000 0.00 0.00 0.00 3.01
1593 2276 2.892852 CTCCTTGGCACCTGAATTGAAA 59.107 45.455 0.00 0.00 0.00 2.69
1653 2336 0.310854 GCTTGAACTTTGGTGGGTCG 59.689 55.000 0.00 0.00 0.00 4.79
1731 2414 2.280797 TTCACTGTGACAGGCCGC 60.281 61.111 17.92 0.00 35.51 6.53
1899 2582 3.120060 CCTTCTGCTCTGCAACATACAAC 60.120 47.826 0.00 0.00 38.41 3.32
2070 2753 1.862138 TCTCTCCCTCCCACCTCCA 60.862 63.158 0.00 0.00 0.00 3.86
2346 3064 1.064825 ACATGACTTCCCCGGTCTTT 58.935 50.000 0.00 0.00 35.04 2.52
2544 3262 5.413309 ACCTCTCTGTCTTCATAACCTTG 57.587 43.478 0.00 0.00 0.00 3.61
2583 3301 0.606604 TCTCTGGAGCACCGGTAAAC 59.393 55.000 6.87 0.00 42.77 2.01
2625 3343 3.691609 CCTCTTGCTTATCAAACTCCACC 59.308 47.826 0.00 0.00 33.65 4.61
2652 3370 4.194640 ACTGATCAAGACCAAATGGATCG 58.805 43.478 6.42 0.00 37.71 3.69
2697 3415 4.320788 CCAATCTTGTCCACAGCTTTCTTC 60.321 45.833 0.00 0.00 0.00 2.87
2727 3445 2.375174 ACCACTTGCCTTCATAGTTCCA 59.625 45.455 0.00 0.00 0.00 3.53
2757 3475 1.344763 CCACCCTCGTAATCATCCCTC 59.655 57.143 0.00 0.00 0.00 4.30
3039 3763 5.857268 AGTAGGTACACCGTTTAACACAAT 58.143 37.500 0.00 0.00 42.08 2.71
3040 3764 5.275067 AGTAGGTACACCGTTTAACACAA 57.725 39.130 0.00 0.00 42.08 3.33
3041 3765 4.935352 AGTAGGTACACCGTTTAACACA 57.065 40.909 0.00 0.00 42.08 3.72
3095 3819 0.734889 CATGGATCCCGTCACAAAGC 59.265 55.000 9.90 0.00 0.00 3.51
3182 3906 4.041567 CCCAGTCCAGCCACATATATTACA 59.958 45.833 0.00 0.00 0.00 2.41
3236 3960 1.270550 CCACAAACTCATCCAACCAGC 59.729 52.381 0.00 0.00 0.00 4.85
3276 4000 4.021192 GGGCATTTTCTTCAAACATCTCCA 60.021 41.667 0.00 0.00 0.00 3.86
3327 4052 6.358974 AGTTTTAAGCTGCCCATACAAATT 57.641 33.333 0.00 0.00 0.00 1.82
3340 4065 6.936900 TGATCTAACAGAGCAAGTTTTAAGCT 59.063 34.615 0.00 0.00 37.74 3.74
3389 4126 0.698238 CATCAACCCCTCCACCAGAA 59.302 55.000 0.00 0.00 0.00 3.02
3401 4145 4.996788 ATTGAGGATTTCAGCATCAACC 57.003 40.909 0.00 0.00 37.07 3.77
3410 4154 7.555087 ACAAACAAGAACAATTGAGGATTTCA 58.445 30.769 13.59 0.00 34.20 2.69
3477 4284 6.986740 TGCATGGCTTTTGCAAGATCAAAAC 61.987 40.000 0.00 0.00 46.48 2.43
3503 4310 1.090052 GCCGAGGACTAACACATGGC 61.090 60.000 0.00 0.00 0.00 4.40
3639 4461 5.549742 TTGTACTCCTCGAACCCTAAAAA 57.450 39.130 0.00 0.00 0.00 1.94
3641 4463 5.750352 AATTGTACTCCTCGAACCCTAAA 57.250 39.130 0.00 0.00 0.00 1.85
3643 4465 5.484715 CAAAATTGTACTCCTCGAACCCTA 58.515 41.667 0.00 0.00 0.00 3.53
3644 4466 4.324267 CAAAATTGTACTCCTCGAACCCT 58.676 43.478 0.00 0.00 0.00 4.34
3645 4467 3.439129 CCAAAATTGTACTCCTCGAACCC 59.561 47.826 0.00 0.00 0.00 4.11
3646 4468 3.439129 CCCAAAATTGTACTCCTCGAACC 59.561 47.826 0.00 0.00 0.00 3.62
3670 4492 2.838202 TGGGAGATGAACACTACTTCCC 59.162 50.000 0.00 0.00 35.56 3.97
3679 4501 4.019858 CTGTACTCTCTGGGAGATGAACA 58.980 47.826 12.39 8.71 44.45 3.18
3739 4561 0.443869 CTCCACATGTTTTCGCCTCG 59.556 55.000 0.00 0.00 0.00 4.63
3740 4562 0.169009 GCTCCACATGTTTTCGCCTC 59.831 55.000 0.00 0.00 0.00 4.70
3741 4563 1.244019 GGCTCCACATGTTTTCGCCT 61.244 55.000 14.64 0.00 33.47 5.52
3747 4571 3.288099 GGATGGGCTCCACATGTTT 57.712 52.632 0.00 0.00 44.26 2.83
3756 4580 1.758862 CCAAAAGGAATGGATGGGCTC 59.241 52.381 0.00 0.00 40.56 4.70
3758 4582 0.178767 GCCAAAAGGAATGGATGGGC 59.821 55.000 0.00 0.00 40.56 5.36
3787 4611 5.450965 CCTTGGTGATATGGCTTCATTCAAC 60.451 44.000 0.00 0.00 31.96 3.18
3798 4622 5.694995 AGAATTGGTACCTTGGTGATATGG 58.305 41.667 14.36 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.