Multiple sequence alignment - TraesCS4D01G250700

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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 TraesCS4D01G250700 chr4D 100.000 4493 0 0 1 4493 419304246 419299754 0.000000e+00 8298.0
1 TraesCS4D01G250700 chr4D 95.105 286 12 2 4126 4410 419258020 419257736 2.470000e-122 449.0
2 TraesCS4D01G250700 chr4A 93.285 3902 178 24 528 4410 45346539 45350375 0.000000e+00 5677.0
3 TraesCS4D01G250700 chr4A 89.944 358 20 4 1 354 45344723 45345068 8.870000e-122 448.0
4 TraesCS4D01G250700 chr4B 95.174 1782 76 4 833 2614 517216072 517214301 0.000000e+00 2806.0
5 TraesCS4D01G250700 chr4B 97.118 1041 22 3 3098 4137 517213613 517212580 0.000000e+00 1749.0
6 TraesCS4D01G250700 chr4B 96.074 484 18 1 2617 3100 517214252 517213770 0.000000e+00 787.0
7 TraesCS4D01G250700 chr4B 94.764 191 9 1 4140 4330 517212235 517212046 3.400000e-76 296.0
8 TraesCS4D01G250700 chr4B 100.000 46 0 0 4365 4410 517212049 517212004 8.010000e-13 86.1
9 TraesCS4D01G250700 chr2B 95.556 45 0 1 4285 4329 23024433 23024391 2.240000e-08 71.3


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 TraesCS4D01G250700 chr4D 419299754 419304246 4492 True 8298.00 8298 100.0000 1 4493 1 chr4D.!!$R2 4492
1 TraesCS4D01G250700 chr4A 45344723 45350375 5652 False 3062.50 5677 91.6145 1 4410 2 chr4A.!!$F1 4409
2 TraesCS4D01G250700 chr4B 517212004 517216072 4068 True 1144.82 2806 96.6260 833 4410 5 chr4B.!!$R1 3577

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
781 2108 0.044702 TCATCTCCACCCATCACCCT 59.955 55.0 0.00 0.00 0.00 4.34 F
829 2156 0.243907 TCTTCCTTTCTCCTCGCGTG 59.756 55.0 5.77 2.75 0.00 5.34 F
2400 3727 0.242017 GCGGACTGCAAATTTCAGCT 59.758 50.0 13.98 0.00 45.45 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 3442 0.603975 GCTCGTCTTCACCAGCCTTT 60.604 55.000 0.0 0.0 0.00 3.11 R
2676 4049 4.742438 TCGAAGCACCAAATGTTTAGAC 57.258 40.909 0.0 0.0 30.18 2.59 R
3845 5394 0.031178 AAGCGAGCAAAAGCAACCAG 59.969 50.000 0.0 0.0 35.48 4.00 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
59 60 6.377146 GGAGCTTTATATTTTCTCAACCCACA 59.623 38.462 0.00 0.00 0.00 4.17
65 66 2.818751 TTTCTCAACCCACACTTGGT 57.181 45.000 0.00 0.00 42.10 3.67
100 101 0.955905 GATAGCTCCCACTCGACCTC 59.044 60.000 0.00 0.00 0.00 3.85
123 124 2.365617 TCCCATCAATAGTCTTCCTCGC 59.634 50.000 0.00 0.00 0.00 5.03
127 128 1.065701 TCAATAGTCTTCCTCGCTCGC 59.934 52.381 0.00 0.00 0.00 5.03
139 140 4.719616 GCTCGCGGCGAACAACAC 62.720 66.667 26.28 7.84 34.74 3.32
140 141 3.036084 CTCGCGGCGAACAACACT 61.036 61.111 26.28 0.00 34.74 3.55
147 148 1.299089 GCGAACAACACTGCAACCC 60.299 57.895 0.00 0.00 0.00 4.11
166 167 2.504175 CCCCTCGTCATCCTTTTCCTAA 59.496 50.000 0.00 0.00 0.00 2.69
169 170 4.434520 CCTCGTCATCCTTTTCCTAACTC 58.565 47.826 0.00 0.00 0.00 3.01
170 171 4.081642 CCTCGTCATCCTTTTCCTAACTCA 60.082 45.833 0.00 0.00 0.00 3.41
171 172 5.395768 CCTCGTCATCCTTTTCCTAACTCAT 60.396 44.000 0.00 0.00 0.00 2.90
172 173 6.183360 CCTCGTCATCCTTTTCCTAACTCATA 60.183 42.308 0.00 0.00 0.00 2.15
173 174 7.361457 TCGTCATCCTTTTCCTAACTCATAT 57.639 36.000 0.00 0.00 0.00 1.78
174 175 7.434492 TCGTCATCCTTTTCCTAACTCATATC 58.566 38.462 0.00 0.00 0.00 1.63
175 176 6.647067 CGTCATCCTTTTCCTAACTCATATCC 59.353 42.308 0.00 0.00 0.00 2.59
176 177 7.472100 CGTCATCCTTTTCCTAACTCATATCCT 60.472 40.741 0.00 0.00 0.00 3.24
177 178 8.871125 GTCATCCTTTTCCTAACTCATATCCTA 58.129 37.037 0.00 0.00 0.00 2.94
178 179 9.447279 TCATCCTTTTCCTAACTCATATCCTAA 57.553 33.333 0.00 0.00 0.00 2.69
179 180 9.495572 CATCCTTTTCCTAACTCATATCCTAAC 57.504 37.037 0.00 0.00 0.00 2.34
180 181 8.855804 TCCTTTTCCTAACTCATATCCTAACT 57.144 34.615 0.00 0.00 0.00 2.24
181 182 8.925338 TCCTTTTCCTAACTCATATCCTAACTC 58.075 37.037 0.00 0.00 0.00 3.01
196 197 1.726853 AACTCAGTTGTAGCCATCGC 58.273 50.000 0.00 0.00 0.00 4.58
206 207 3.457560 AGCCATCGCTGGTCCTATA 57.542 52.632 7.21 0.00 46.19 1.31
225 226 1.758440 ATCCGTCCATGGTCATCCCG 61.758 60.000 12.58 5.77 35.15 5.14
226 227 2.431454 CCGTCCATGGTCATCCCGA 61.431 63.158 12.58 0.00 35.15 5.14
255 256 2.350522 GCCGACAACTCATCACTTCAT 58.649 47.619 0.00 0.00 0.00 2.57
271 272 4.932200 CACTTCATTGAGTCTAACCACTCC 59.068 45.833 0.00 0.00 42.04 3.85
292 293 4.339530 TCCGAAGATGACATCTACCTTGAG 59.660 45.833 18.24 4.26 39.08 3.02
336 341 2.158900 ACATCAGTAATTGCCTCCCTCG 60.159 50.000 0.00 0.00 0.00 4.63
354 359 3.064324 GCTTCCGTGCCATTGCCT 61.064 61.111 0.00 0.00 36.33 4.75
355 360 2.879907 CTTCCGTGCCATTGCCTG 59.120 61.111 0.00 0.00 36.33 4.85
360 365 1.377202 CGTGCCATTGCCTGTACCT 60.377 57.895 0.00 0.00 36.33 3.08
361 366 0.960364 CGTGCCATTGCCTGTACCTT 60.960 55.000 0.00 0.00 36.33 3.50
362 367 0.527565 GTGCCATTGCCTGTACCTTG 59.472 55.000 0.00 0.00 36.33 3.61
363 368 0.403655 TGCCATTGCCTGTACCTTGA 59.596 50.000 0.00 0.00 36.33 3.02
364 369 0.811281 GCCATTGCCTGTACCTTGAC 59.189 55.000 0.00 0.00 0.00 3.18
365 370 1.614317 GCCATTGCCTGTACCTTGACT 60.614 52.381 0.00 0.00 0.00 3.41
366 371 2.086869 CCATTGCCTGTACCTTGACTG 58.913 52.381 0.00 0.00 0.00 3.51
367 372 2.086869 CATTGCCTGTACCTTGACTGG 58.913 52.381 0.00 0.00 40.46 4.00
369 374 4.598257 CCTGTACCTTGACTGGCG 57.402 61.111 0.00 0.00 32.45 5.69
370 375 1.972198 CCTGTACCTTGACTGGCGA 59.028 57.895 0.00 0.00 32.45 5.54
374 379 0.108756 GTACCTTGACTGGCGACTCC 60.109 60.000 0.00 0.00 0.00 3.85
376 381 1.079543 CCTTGACTGGCGACTCCTG 60.080 63.158 0.00 0.00 39.46 3.86
377 382 1.739562 CTTGACTGGCGACTCCTGC 60.740 63.158 0.00 0.00 37.30 4.85
378 383 2.164865 CTTGACTGGCGACTCCTGCT 62.165 60.000 0.00 0.00 37.30 4.24
380 385 3.691744 GACTGGCGACTCCTGCTCG 62.692 68.421 0.00 0.00 37.30 5.03
386 391 1.373497 CGACTCCTGCTCGCAAACT 60.373 57.895 0.00 0.00 0.00 2.66
387 392 0.109272 CGACTCCTGCTCGCAAACTA 60.109 55.000 0.00 0.00 0.00 2.24
388 393 1.668919 CGACTCCTGCTCGCAAACTAA 60.669 52.381 0.00 0.00 0.00 2.24
389 394 2.622436 GACTCCTGCTCGCAAACTAAT 58.378 47.619 0.00 0.00 0.00 1.73
390 395 3.733988 CGACTCCTGCTCGCAAACTAATA 60.734 47.826 0.00 0.00 0.00 0.98
391 396 4.181578 GACTCCTGCTCGCAAACTAATAA 58.818 43.478 0.00 0.00 0.00 1.40
392 397 3.933332 ACTCCTGCTCGCAAACTAATAAC 59.067 43.478 0.00 0.00 0.00 1.89
393 398 4.184629 CTCCTGCTCGCAAACTAATAACT 58.815 43.478 0.00 0.00 0.00 2.24
395 400 3.309954 CCTGCTCGCAAACTAATAACTCC 59.690 47.826 0.00 0.00 0.00 3.85
396 401 4.184629 CTGCTCGCAAACTAATAACTCCT 58.815 43.478 0.00 0.00 0.00 3.69
400 405 4.181578 TCGCAAACTAATAACTCCTGCTC 58.818 43.478 0.00 0.00 0.00 4.26
401 406 3.000322 CGCAAACTAATAACTCCTGCTCG 60.000 47.826 0.00 0.00 0.00 5.03
402 407 3.242446 GCAAACTAATAACTCCTGCTCGC 60.242 47.826 0.00 0.00 0.00 5.03
403 408 3.887621 AACTAATAACTCCTGCTCGCA 57.112 42.857 0.00 0.00 0.00 5.10
404 409 3.887621 ACTAATAACTCCTGCTCGCAA 57.112 42.857 0.00 0.00 0.00 4.85
405 410 4.202245 ACTAATAACTCCTGCTCGCAAA 57.798 40.909 0.00 0.00 0.00 3.68
406 411 3.933332 ACTAATAACTCCTGCTCGCAAAC 59.067 43.478 0.00 0.00 0.00 2.93
407 412 2.770164 ATAACTCCTGCTCGCAAACT 57.230 45.000 0.00 0.00 0.00 2.66
408 413 3.887621 ATAACTCCTGCTCGCAAACTA 57.112 42.857 0.00 0.00 0.00 2.24
409 414 2.086054 AACTCCTGCTCGCAAACTAG 57.914 50.000 0.00 0.00 0.00 2.57
410 415 0.969894 ACTCCTGCTCGCAAACTAGT 59.030 50.000 0.00 0.00 0.00 2.57
411 416 1.067495 ACTCCTGCTCGCAAACTAGTC 60.067 52.381 0.00 0.00 0.00 2.59
412 417 0.966179 TCCTGCTCGCAAACTAGTCA 59.034 50.000 0.00 0.00 0.00 3.41
413 418 1.550524 TCCTGCTCGCAAACTAGTCAT 59.449 47.619 0.00 0.00 0.00 3.06
414 419 2.028112 TCCTGCTCGCAAACTAGTCATT 60.028 45.455 0.00 0.00 0.00 2.57
415 420 2.349886 CCTGCTCGCAAACTAGTCATTC 59.650 50.000 0.00 0.00 0.00 2.67
416 421 2.995939 CTGCTCGCAAACTAGTCATTCA 59.004 45.455 0.00 0.00 0.00 2.57
417 422 2.995939 TGCTCGCAAACTAGTCATTCAG 59.004 45.455 0.00 0.00 0.00 3.02
418 423 2.349886 GCTCGCAAACTAGTCATTCAGG 59.650 50.000 0.00 0.00 0.00 3.86
419 424 2.932614 CTCGCAAACTAGTCATTCAGGG 59.067 50.000 0.00 0.00 0.00 4.45
420 425 2.565391 TCGCAAACTAGTCATTCAGGGA 59.435 45.455 0.00 0.00 0.00 4.20
421 426 3.007506 TCGCAAACTAGTCATTCAGGGAA 59.992 43.478 0.00 0.00 0.00 3.97
422 427 3.372206 CGCAAACTAGTCATTCAGGGAAG 59.628 47.826 0.00 0.00 0.00 3.46
423 428 3.127721 GCAAACTAGTCATTCAGGGAAGC 59.872 47.826 0.00 0.00 0.00 3.86
424 429 4.583871 CAAACTAGTCATTCAGGGAAGCT 58.416 43.478 0.00 0.00 0.00 3.74
425 430 4.917906 AACTAGTCATTCAGGGAAGCTT 57.082 40.909 0.00 0.00 0.00 3.74
426 431 4.479786 ACTAGTCATTCAGGGAAGCTTC 57.520 45.455 18.54 18.54 0.00 3.86
427 432 3.840666 ACTAGTCATTCAGGGAAGCTTCA 59.159 43.478 27.02 7.35 0.00 3.02
428 433 3.795688 AGTCATTCAGGGAAGCTTCAA 57.204 42.857 27.02 13.50 0.00 2.69
429 434 3.416156 AGTCATTCAGGGAAGCTTCAAC 58.584 45.455 27.02 18.69 0.00 3.18
440 445 5.412904 AGGGAAGCTTCAACTCGAATTTAAG 59.587 40.000 27.02 0.00 31.69 1.85
473 478 9.461312 ACAGTTGCATTTACTATGGAAGATAAA 57.539 29.630 0.00 0.00 30.15 1.40
531 772 8.147244 AGTAGATAGTTTAAAGCCTTCTTGGA 57.853 34.615 0.00 0.00 38.35 3.53
532 773 8.261522 AGTAGATAGTTTAAAGCCTTCTTGGAG 58.738 37.037 0.00 0.00 38.35 3.86
533 774 7.259088 AGATAGTTTAAAGCCTTCTTGGAGA 57.741 36.000 0.00 0.00 38.35 3.71
541 1868 3.749226 AGCCTTCTTGGAGAAACTTCAG 58.251 45.455 0.00 0.00 38.35 3.02
546 1873 6.000219 CCTTCTTGGAGAAACTTCAGATTCA 59.000 40.000 0.29 0.00 38.35 2.57
555 1882 8.478877 GGAGAAACTTCAGATTCAACTCCTATA 58.521 37.037 0.00 0.00 38.49 1.31
589 1916 7.145985 GGAATCAAAAGAAACCTGAGGTAAAC 58.854 38.462 3.68 0.00 33.12 2.01
598 1925 5.340439 AACCTGAGGTAAACGGAAGATAG 57.660 43.478 3.68 0.00 33.12 2.08
607 1934 4.467198 AAACGGAAGATAGATGTTCGGT 57.533 40.909 6.74 6.74 42.53 4.69
624 1951 4.341199 TGGGGCCCACTGTAAAGA 57.659 55.556 24.76 0.00 0.00 2.52
644 1971 9.420551 GTAAAGAGAGATAGAGAAACGGAAAAA 57.579 33.333 0.00 0.00 0.00 1.94
657 1984 1.400494 CGGAAAAAGGGATAAGGCACG 59.600 52.381 0.00 0.00 0.00 5.34
715 2042 1.743252 GCGAGCTTCTCTGTTGGGG 60.743 63.158 0.00 0.00 0.00 4.96
761 2088 4.883354 CCCTCCATTCCCGCAGCC 62.883 72.222 0.00 0.00 0.00 4.85
781 2108 0.044702 TCATCTCCACCCATCACCCT 59.955 55.000 0.00 0.00 0.00 4.34
798 2125 1.010013 CTAGCTACGCGCATCGACA 60.010 57.895 5.73 0.00 42.61 4.35
813 2140 4.154918 GCATCGACATCAACCTTTTCTCTT 59.845 41.667 0.00 0.00 0.00 2.85
814 2141 5.672321 GCATCGACATCAACCTTTTCTCTTC 60.672 44.000 0.00 0.00 0.00 2.87
815 2142 4.315803 TCGACATCAACCTTTTCTCTTCC 58.684 43.478 0.00 0.00 0.00 3.46
816 2143 4.040461 TCGACATCAACCTTTTCTCTTCCT 59.960 41.667 0.00 0.00 0.00 3.36
817 2144 4.757149 CGACATCAACCTTTTCTCTTCCTT 59.243 41.667 0.00 0.00 0.00 3.36
818 2145 5.239525 CGACATCAACCTTTTCTCTTCCTTT 59.760 40.000 0.00 0.00 0.00 3.11
819 2146 6.566753 CGACATCAACCTTTTCTCTTCCTTTC 60.567 42.308 0.00 0.00 0.00 2.62
820 2147 6.368805 ACATCAACCTTTTCTCTTCCTTTCT 58.631 36.000 0.00 0.00 0.00 2.52
821 2148 6.488344 ACATCAACCTTTTCTCTTCCTTTCTC 59.512 38.462 0.00 0.00 0.00 2.87
822 2149 5.377478 TCAACCTTTTCTCTTCCTTTCTCC 58.623 41.667 0.00 0.00 0.00 3.71
823 2150 5.132816 TCAACCTTTTCTCTTCCTTTCTCCT 59.867 40.000 0.00 0.00 0.00 3.69
824 2151 5.235850 ACCTTTTCTCTTCCTTTCTCCTC 57.764 43.478 0.00 0.00 0.00 3.71
825 2152 4.249661 CCTTTTCTCTTCCTTTCTCCTCG 58.750 47.826 0.00 0.00 0.00 4.63
826 2153 3.320673 TTTCTCTTCCTTTCTCCTCGC 57.679 47.619 0.00 0.00 0.00 5.03
827 2154 0.811915 TCTCTTCCTTTCTCCTCGCG 59.188 55.000 0.00 0.00 0.00 5.87
828 2155 0.528470 CTCTTCCTTTCTCCTCGCGT 59.472 55.000 5.77 0.00 0.00 6.01
829 2156 0.243907 TCTTCCTTTCTCCTCGCGTG 59.756 55.000 5.77 2.75 0.00 5.34
830 2157 0.243907 CTTCCTTTCTCCTCGCGTGA 59.756 55.000 10.21 5.32 0.00 4.35
831 2158 0.243907 TTCCTTTCTCCTCGCGTGAG 59.756 55.000 19.15 19.15 42.18 3.51
954 2281 2.487428 CTCCGTCCACTGCTCGAG 59.513 66.667 8.45 8.45 0.00 4.04
956 2283 1.867919 CTCCGTCCACTGCTCGAGTT 61.868 60.000 15.13 0.00 29.75 3.01
973 2300 3.119495 CGAGTTTGGTGATTGAAATCCCC 60.119 47.826 0.72 0.00 34.05 4.81
975 2302 1.181786 TTGGTGATTGAAATCCCCGC 58.818 50.000 0.72 0.00 35.94 6.13
1188 2515 3.349006 CGTGTTTGCAGAGCGGCT 61.349 61.111 0.00 0.00 34.04 5.52
1228 2555 2.203788 TCACCGGCAAGGAGGAGT 60.204 61.111 0.00 0.00 45.00 3.85
1257 2584 2.267961 GTTCGGGGCGTGGAAGAT 59.732 61.111 0.00 0.00 0.00 2.40
1406 2733 1.487231 CGGCGGATAAATTCGAGCG 59.513 57.895 0.00 0.00 31.74 5.03
1443 2770 2.476199 CACTTCCTGGAAGAGAGGGAT 58.524 52.381 36.38 14.43 41.71 3.85
1482 2809 1.093159 GGTTGATGAAGCTGAGCCAG 58.907 55.000 0.00 0.00 34.12 4.85
1533 2860 1.825090 TTGATTCAATGCTGGCGTCT 58.175 45.000 0.00 0.00 0.00 4.18
1600 2927 2.119611 TCCGCAGAGGTTCCTCCA 59.880 61.111 14.40 0.00 41.99 3.86
1608 2935 2.124695 GGTTCCTCCATGGACGCC 60.125 66.667 11.44 6.85 46.14 5.68
1686 3013 2.857186 TGATACTCAAGGCTGTTGCA 57.143 45.000 0.00 0.00 41.91 4.08
1704 3031 1.338200 GCAAGGACCGAGGGCTATATG 60.338 57.143 0.00 0.00 0.00 1.78
1741 3068 2.951726 TCAGTGAGATTGAAGAGTGCG 58.048 47.619 0.00 0.00 0.00 5.34
1742 3069 1.392853 CAGTGAGATTGAAGAGTGCGC 59.607 52.381 0.00 0.00 0.00 6.09
1773 3100 4.178545 GGAAACCCTTGATGTGATTGTG 57.821 45.455 0.00 0.00 0.00 3.33
1848 3175 1.133809 AACTGTGGGGAAGGCTAGCA 61.134 55.000 18.24 0.00 0.00 3.49
1866 3193 4.278975 AGCAGAGAACTCTTTAAGTGGG 57.721 45.455 1.24 0.00 38.58 4.61
1869 3196 4.262678 GCAGAGAACTCTTTAAGTGGGACT 60.263 45.833 1.24 0.00 38.58 3.85
1928 3255 4.800914 GCAATGTGGACAGTCTGAGTTAGT 60.801 45.833 6.91 0.00 0.00 2.24
1929 3256 5.300752 CAATGTGGACAGTCTGAGTTAGTT 58.699 41.667 6.91 0.00 0.00 2.24
2094 3421 7.319646 TGAAGCCCAATATCATTGTGTTTAAC 58.680 34.615 0.00 0.00 0.00 2.01
2115 3442 3.576982 ACTCGGTTATCAACTCACTTGGA 59.423 43.478 0.00 0.00 0.00 3.53
2400 3727 0.242017 GCGGACTGCAAATTTCAGCT 59.758 50.000 13.98 0.00 45.45 4.24
2676 4049 7.988599 ACTATGGACTACTCTAGTGTTCTAGTG 59.011 40.741 2.25 3.32 42.88 2.74
2704 4077 3.438087 ACATTTGGTGCTTCGATTCTCAG 59.562 43.478 0.00 0.00 0.00 3.35
3033 4406 5.771469 TGCACAAATGAAATTCACTTCGAT 58.229 33.333 0.00 0.00 33.67 3.59
3070 4443 5.412526 TTTCTACTTAACTGTTTGGCGTG 57.587 39.130 0.00 0.00 0.00 5.34
3111 4643 4.847198 AGAACTGATACATTGCATGGTCA 58.153 39.130 0.00 0.00 33.60 4.02
3383 4915 2.115911 ACGGGCTTTGTTTGCGTGA 61.116 52.632 0.00 0.00 0.00 4.35
3561 5093 8.582437 GCAATCACATATGTAACCTACCTACTA 58.418 37.037 8.32 0.00 0.00 1.82
3660 5192 5.229887 GCGCATTTTATGTTCACTGTAATGG 59.770 40.000 0.30 0.00 0.00 3.16
3692 5224 3.058777 GGTCAAACAAACGCGAGGAATAA 60.059 43.478 15.93 0.00 0.00 1.40
3833 5365 3.926616 AGTCGGAAAATGTACTGTCCAG 58.073 45.455 0.00 0.00 0.00 3.86
3834 5366 3.323979 AGTCGGAAAATGTACTGTCCAGT 59.676 43.478 5.15 5.15 45.02 4.00
3835 5367 3.432252 GTCGGAAAATGTACTGTCCAGTG 59.568 47.826 10.15 0.00 42.52 3.66
3836 5368 3.070446 TCGGAAAATGTACTGTCCAGTGT 59.930 43.478 10.15 0.00 42.52 3.55
3837 5369 3.432252 CGGAAAATGTACTGTCCAGTGTC 59.568 47.826 10.15 4.29 42.52 3.67
3839 5371 4.385825 GAAAATGTACTGTCCAGTGTCCA 58.614 43.478 10.15 4.80 42.52 4.02
3840 5372 3.402628 AATGTACTGTCCAGTGTCCAC 57.597 47.619 10.15 1.14 42.52 4.02
3841 5373 1.045407 TGTACTGTCCAGTGTCCACC 58.955 55.000 10.15 0.00 42.52 4.61
3845 5394 1.692519 ACTGTCCAGTGTCCACCTAAC 59.307 52.381 0.00 0.00 40.75 2.34
3996 5545 6.419484 AAGAAGGGAAAATTAGGTTTGTGG 57.581 37.500 0.00 0.00 0.00 4.17
4040 5590 1.302431 TGGATGTGCCACCAACTCG 60.302 57.895 0.00 0.00 43.33 4.18
4058 5608 2.337583 TCGAGCGAAGAAATTGGACTG 58.662 47.619 0.00 0.00 0.00 3.51
4064 5614 3.077359 CGAAGAAATTGGACTGAAGCCT 58.923 45.455 0.00 0.00 0.00 4.58
4070 5620 0.546122 TTGGACTGAAGCCTGTGTGT 59.454 50.000 0.00 0.00 0.00 3.72
4174 6066 7.341512 TCACTTTGCCACATCATTAATAATGGA 59.658 33.333 12.51 1.28 39.38 3.41
4176 6068 8.145767 ACTTTGCCACATCATTAATAATGGATG 58.854 33.333 12.51 14.95 39.38 3.51
4178 6070 6.313324 TGCCACATCATTAATAATGGATGGA 58.687 36.000 23.12 12.55 37.55 3.41
4190 6082 3.981071 ATGGATGGAAGACTCGTTTGA 57.019 42.857 0.00 0.00 0.00 2.69
4191 6083 3.981071 TGGATGGAAGACTCGTTTGAT 57.019 42.857 0.00 0.00 0.00 2.57
4283 6175 0.463654 GTCCATTGAGGCGCATGGTA 60.464 55.000 20.31 8.01 37.29 3.25
4331 6223 4.651045 GGGGATTAGGATGCACTTTCAATT 59.349 41.667 0.00 0.00 0.00 2.32
4416 6308 2.703416 TGAGAATCATATGCCGCATCC 58.297 47.619 9.71 0.00 42.56 3.51
4417 6309 2.038820 TGAGAATCATATGCCGCATCCA 59.961 45.455 9.71 0.00 42.56 3.41
4418 6310 2.417933 GAGAATCATATGCCGCATCCAC 59.582 50.000 9.71 0.00 33.17 4.02
4419 6311 2.039480 AGAATCATATGCCGCATCCACT 59.961 45.455 9.71 0.00 0.00 4.00
4420 6312 2.105006 ATCATATGCCGCATCCACTC 57.895 50.000 9.71 0.00 0.00 3.51
4421 6313 1.051008 TCATATGCCGCATCCACTCT 58.949 50.000 9.71 0.00 0.00 3.24
4422 6314 1.417517 TCATATGCCGCATCCACTCTT 59.582 47.619 9.71 0.00 0.00 2.85
4423 6315 1.802960 CATATGCCGCATCCACTCTTC 59.197 52.381 9.71 0.00 0.00 2.87
4424 6316 1.123077 TATGCCGCATCCACTCTTCT 58.877 50.000 9.71 0.00 0.00 2.85
4425 6317 1.123077 ATGCCGCATCCACTCTTCTA 58.877 50.000 0.00 0.00 0.00 2.10
4426 6318 0.461548 TGCCGCATCCACTCTTCTAG 59.538 55.000 0.00 0.00 0.00 2.43
4427 6319 0.249657 GCCGCATCCACTCTTCTAGG 60.250 60.000 0.00 0.00 0.00 3.02
4428 6320 1.115467 CCGCATCCACTCTTCTAGGT 58.885 55.000 0.00 0.00 0.00 3.08
4429 6321 2.307768 CCGCATCCACTCTTCTAGGTA 58.692 52.381 0.00 0.00 0.00 3.08
4430 6322 2.894126 CCGCATCCACTCTTCTAGGTAT 59.106 50.000 0.00 0.00 0.00 2.73
4431 6323 4.079970 CCGCATCCACTCTTCTAGGTATA 58.920 47.826 0.00 0.00 0.00 1.47
4432 6324 4.707448 CCGCATCCACTCTTCTAGGTATAT 59.293 45.833 0.00 0.00 0.00 0.86
4433 6325 5.393569 CCGCATCCACTCTTCTAGGTATATG 60.394 48.000 0.00 0.00 0.00 1.78
4434 6326 5.393569 CGCATCCACTCTTCTAGGTATATGG 60.394 48.000 0.00 0.00 0.00 2.74
4435 6327 5.105146 GCATCCACTCTTCTAGGTATATGGG 60.105 48.000 0.00 0.00 0.00 4.00
4436 6328 5.942977 TCCACTCTTCTAGGTATATGGGA 57.057 43.478 0.00 0.00 0.00 4.37
4437 6329 5.642165 TCCACTCTTCTAGGTATATGGGAC 58.358 45.833 0.00 0.00 0.00 4.46
4452 6344 3.931907 TGGGACATTACCTCCTCAATG 57.068 47.619 0.00 0.00 37.99 2.82
4453 6345 2.092429 TGGGACATTACCTCCTCAATGC 60.092 50.000 0.00 0.00 35.91 3.56
4454 6346 2.576615 GGACATTACCTCCTCAATGCC 58.423 52.381 0.00 0.00 35.91 4.40
4455 6347 2.092429 GGACATTACCTCCTCAATGCCA 60.092 50.000 0.00 0.00 35.91 4.92
4456 6348 3.620488 GACATTACCTCCTCAATGCCAA 58.380 45.455 0.00 0.00 35.91 4.52
4457 6349 4.210331 GACATTACCTCCTCAATGCCAAT 58.790 43.478 0.00 0.00 35.91 3.16
4458 6350 4.613437 ACATTACCTCCTCAATGCCAATT 58.387 39.130 0.00 0.00 35.91 2.32
4459 6351 4.403432 ACATTACCTCCTCAATGCCAATTG 59.597 41.667 0.00 0.00 43.94 2.32
4460 6352 2.610438 ACCTCCTCAATGCCAATTGT 57.390 45.000 4.43 0.00 43.21 2.71
4461 6353 2.173519 ACCTCCTCAATGCCAATTGTG 58.826 47.619 4.43 0.00 43.21 3.33
4462 6354 1.134907 CCTCCTCAATGCCAATTGTGC 60.135 52.381 4.43 8.21 43.21 4.57
4463 6355 0.896923 TCCTCAATGCCAATTGTGCC 59.103 50.000 13.99 0.02 43.21 5.01
4464 6356 0.108041 CCTCAATGCCAATTGTGCCC 60.108 55.000 13.99 0.00 43.21 5.36
4465 6357 0.899720 CTCAATGCCAATTGTGCCCT 59.100 50.000 13.99 2.27 43.21 5.19
4466 6358 2.101783 CTCAATGCCAATTGTGCCCTA 58.898 47.619 13.99 0.00 43.21 3.53
4467 6359 2.696707 CTCAATGCCAATTGTGCCCTAT 59.303 45.455 13.99 1.92 43.21 2.57
4468 6360 2.431419 TCAATGCCAATTGTGCCCTATG 59.569 45.455 13.99 8.97 43.21 2.23
4469 6361 0.754472 ATGCCAATTGTGCCCTATGC 59.246 50.000 13.99 4.69 41.77 3.14
4470 6362 5.554384 CAATGCCAATTGTGCCCTATGCA 62.554 47.826 13.99 9.56 40.24 3.96
4484 6376 6.061231 GCCCTATGCAGTATACAAGTTTTC 57.939 41.667 5.50 0.00 40.77 2.29
4485 6377 5.588648 GCCCTATGCAGTATACAAGTTTTCA 59.411 40.000 5.50 0.00 40.77 2.69
4486 6378 6.263168 GCCCTATGCAGTATACAAGTTTTCAT 59.737 38.462 5.50 0.82 40.77 2.57
4487 6379 7.444183 GCCCTATGCAGTATACAAGTTTTCATA 59.556 37.037 5.50 1.83 40.77 2.15
4488 6380 8.993121 CCCTATGCAGTATACAAGTTTTCATAG 58.007 37.037 5.50 9.67 33.91 2.23
4489 6381 9.764363 CCTATGCAGTATACAAGTTTTCATAGA 57.236 33.333 5.50 0.00 35.28 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 8.616942 GGTTGAGAAAATATAAAGCTCCTCTTC 58.383 37.037 0.00 0.00 32.88 2.87
59 60 5.127491 TCGAAAGGTATGTCAAAACCAAGT 58.873 37.500 9.68 0.00 38.30 3.16
65 66 5.815740 GGAGCTATCGAAAGGTATGTCAAAA 59.184 40.000 0.00 0.00 0.00 2.44
100 101 4.564041 CGAGGAAGACTATTGATGGGATG 58.436 47.826 0.00 0.00 0.00 3.51
123 124 3.036084 AGTGTTGTTCGCCGCGAG 61.036 61.111 16.14 0.24 37.14 5.03
127 128 1.654137 GTTGCAGTGTTGTTCGCCG 60.654 57.895 0.00 0.00 0.00 6.46
130 131 1.101049 AGGGGTTGCAGTGTTGTTCG 61.101 55.000 0.00 0.00 0.00 3.95
139 140 1.450312 GGATGACGAGGGGTTGCAG 60.450 63.158 0.00 0.00 0.00 4.41
140 141 1.488705 AAGGATGACGAGGGGTTGCA 61.489 55.000 0.00 0.00 0.00 4.08
147 148 4.081642 TGAGTTAGGAAAAGGATGACGAGG 60.082 45.833 0.00 0.00 0.00 4.63
166 167 6.041069 GGCTACAACTGAGTTAGGATATGAGT 59.959 42.308 0.00 0.00 0.00 3.41
169 170 6.161855 TGGCTACAACTGAGTTAGGATATG 57.838 41.667 0.00 0.00 0.00 1.78
170 171 6.294787 CGATGGCTACAACTGAGTTAGGATAT 60.295 42.308 0.00 0.00 0.00 1.63
171 172 5.009710 CGATGGCTACAACTGAGTTAGGATA 59.990 44.000 0.00 0.00 0.00 2.59
172 173 4.202161 CGATGGCTACAACTGAGTTAGGAT 60.202 45.833 0.00 0.00 0.00 3.24
173 174 3.130516 CGATGGCTACAACTGAGTTAGGA 59.869 47.826 0.00 0.00 0.00 2.94
174 175 3.448686 CGATGGCTACAACTGAGTTAGG 58.551 50.000 0.00 0.00 0.00 2.69
175 176 2.860735 GCGATGGCTACAACTGAGTTAG 59.139 50.000 0.00 0.00 35.83 2.34
176 177 2.888594 GCGATGGCTACAACTGAGTTA 58.111 47.619 0.00 0.00 35.83 2.24
177 178 1.726853 GCGATGGCTACAACTGAGTT 58.273 50.000 0.00 0.00 35.83 3.01
178 179 3.442996 GCGATGGCTACAACTGAGT 57.557 52.632 0.00 0.00 35.83 3.41
196 197 2.497675 CCATGGACGGATATAGGACCAG 59.502 54.545 5.56 0.00 0.00 4.00
206 207 1.758440 CGGGATGACCATGGACGGAT 61.758 60.000 21.47 2.29 40.22 4.18
243 244 6.312426 GTGGTTAGACTCAATGAAGTGATGAG 59.688 42.308 0.00 0.00 44.77 2.90
255 256 3.493334 TCTTCGGAGTGGTTAGACTCAA 58.507 45.455 0.00 0.00 43.70 3.02
271 272 4.047822 GCTCAAGGTAGATGTCATCTTCG 58.952 47.826 20.27 3.98 40.76 3.79
354 359 0.601558 GAGTCGCCAGTCAAGGTACA 59.398 55.000 0.00 0.00 0.00 2.90
355 360 0.108756 GGAGTCGCCAGTCAAGGTAC 60.109 60.000 0.00 0.00 36.34 3.34
360 365 2.159819 GAGCAGGAGTCGCCAGTCAA 62.160 60.000 0.00 0.00 40.02 3.18
361 366 2.601666 AGCAGGAGTCGCCAGTCA 60.602 61.111 0.00 0.00 40.02 3.41
362 367 2.183046 GAGCAGGAGTCGCCAGTC 59.817 66.667 0.00 0.00 40.02 3.51
363 368 3.753434 CGAGCAGGAGTCGCCAGT 61.753 66.667 0.00 0.00 40.02 4.00
369 374 2.080286 TTAGTTTGCGAGCAGGAGTC 57.920 50.000 0.00 0.00 0.00 3.36
370 375 2.770164 ATTAGTTTGCGAGCAGGAGT 57.230 45.000 0.00 0.00 0.00 3.85
374 379 4.033358 CAGGAGTTATTAGTTTGCGAGCAG 59.967 45.833 0.00 0.00 0.00 4.24
376 381 3.242446 GCAGGAGTTATTAGTTTGCGAGC 60.242 47.826 0.00 0.00 0.00 5.03
377 382 4.184629 AGCAGGAGTTATTAGTTTGCGAG 58.815 43.478 0.00 0.00 35.38 5.03
378 383 4.181578 GAGCAGGAGTTATTAGTTTGCGA 58.818 43.478 0.00 0.00 35.38 5.10
380 385 3.242446 GCGAGCAGGAGTTATTAGTTTGC 60.242 47.826 0.00 0.00 0.00 3.68
381 386 3.932710 TGCGAGCAGGAGTTATTAGTTTG 59.067 43.478 0.00 0.00 0.00 2.93
383 388 3.887621 TGCGAGCAGGAGTTATTAGTT 57.112 42.857 0.00 0.00 0.00 2.24
384 389 3.887621 TTGCGAGCAGGAGTTATTAGT 57.112 42.857 0.00 0.00 0.00 2.24
386 391 4.202245 AGTTTGCGAGCAGGAGTTATTA 57.798 40.909 0.00 0.00 0.00 0.98
387 392 3.059352 AGTTTGCGAGCAGGAGTTATT 57.941 42.857 0.00 0.00 0.00 1.40
388 393 2.770164 AGTTTGCGAGCAGGAGTTAT 57.230 45.000 0.00 0.00 0.00 1.89
389 394 2.561419 ACTAGTTTGCGAGCAGGAGTTA 59.439 45.455 0.00 0.00 0.00 2.24
390 395 1.344763 ACTAGTTTGCGAGCAGGAGTT 59.655 47.619 0.00 0.00 0.00 3.01
391 396 0.969894 ACTAGTTTGCGAGCAGGAGT 59.030 50.000 0.00 0.00 0.00 3.85
392 397 1.067565 TGACTAGTTTGCGAGCAGGAG 60.068 52.381 0.00 0.00 0.00 3.69
393 398 0.966179 TGACTAGTTTGCGAGCAGGA 59.034 50.000 0.00 0.00 0.00 3.86
395 400 2.995939 TGAATGACTAGTTTGCGAGCAG 59.004 45.455 0.00 0.00 0.00 4.24
396 401 2.995939 CTGAATGACTAGTTTGCGAGCA 59.004 45.455 0.00 0.00 0.00 4.26
400 405 2.972625 TCCCTGAATGACTAGTTTGCG 58.027 47.619 0.00 0.00 0.00 4.85
401 406 3.127721 GCTTCCCTGAATGACTAGTTTGC 59.872 47.826 0.00 0.00 0.00 3.68
402 407 4.583871 AGCTTCCCTGAATGACTAGTTTG 58.416 43.478 0.00 0.00 0.00 2.93
403 408 4.917906 AGCTTCCCTGAATGACTAGTTT 57.082 40.909 0.00 0.00 0.00 2.66
404 409 4.287067 TGAAGCTTCCCTGAATGACTAGTT 59.713 41.667 23.42 0.00 0.00 2.24
405 410 3.840666 TGAAGCTTCCCTGAATGACTAGT 59.159 43.478 23.42 0.00 0.00 2.57
406 411 4.478206 TGAAGCTTCCCTGAATGACTAG 57.522 45.455 23.42 0.00 0.00 2.57
407 412 4.287067 AGTTGAAGCTTCCCTGAATGACTA 59.713 41.667 23.42 0.00 0.00 2.59
408 413 3.073650 AGTTGAAGCTTCCCTGAATGACT 59.926 43.478 23.42 10.83 0.00 3.41
409 414 3.416156 AGTTGAAGCTTCCCTGAATGAC 58.584 45.455 23.42 8.99 0.00 3.06
410 415 3.679389 GAGTTGAAGCTTCCCTGAATGA 58.321 45.455 23.42 0.00 0.00 2.57
411 416 2.417933 CGAGTTGAAGCTTCCCTGAATG 59.582 50.000 23.42 4.15 0.00 2.67
412 417 2.303022 TCGAGTTGAAGCTTCCCTGAAT 59.697 45.455 23.42 6.46 0.00 2.57
413 418 1.691976 TCGAGTTGAAGCTTCCCTGAA 59.308 47.619 23.42 8.37 0.00 3.02
414 419 1.338107 TCGAGTTGAAGCTTCCCTGA 58.662 50.000 23.42 14.63 0.00 3.86
415 420 2.169832 TTCGAGTTGAAGCTTCCCTG 57.830 50.000 23.42 12.93 31.44 4.45
416 421 3.425162 AATTCGAGTTGAAGCTTCCCT 57.575 42.857 23.42 18.20 40.65 4.20
417 422 5.411669 TCTTAAATTCGAGTTGAAGCTTCCC 59.588 40.000 23.42 13.81 40.65 3.97
418 423 6.481954 TCTTAAATTCGAGTTGAAGCTTCC 57.518 37.500 23.42 9.23 40.65 3.46
514 519 6.392625 AGTTTCTCCAAGAAGGCTTTAAAC 57.607 37.500 0.00 4.66 35.37 2.01
515 520 6.605594 TGAAGTTTCTCCAAGAAGGCTTTAAA 59.394 34.615 0.00 0.00 35.37 1.52
516 521 6.126409 TGAAGTTTCTCCAAGAAGGCTTTAA 58.874 36.000 0.00 0.00 35.37 1.52
529 770 5.555966 AGGAGTTGAATCTGAAGTTTCTCC 58.444 41.667 11.09 11.09 0.00 3.71
555 1882 9.059260 CAGGTTTCTTTTGATTCCATTTCAAAT 57.941 29.630 0.22 0.00 41.36 2.32
580 1907 6.540438 AACATCTATCTTCCGTTTACCTCA 57.460 37.500 0.00 0.00 0.00 3.86
589 1916 2.545952 CCCACCGAACATCTATCTTCCG 60.546 54.545 0.00 0.00 0.00 4.30
598 1925 4.041762 TGGGCCCCACCGAACATC 62.042 66.667 22.27 0.00 40.62 3.06
607 1934 0.474854 TCTCTTTACAGTGGGCCCCA 60.475 55.000 22.27 0.00 0.00 4.96
624 1951 5.484290 TCCCTTTTTCCGTTTCTCTATCTCT 59.516 40.000 0.00 0.00 0.00 3.10
644 1971 2.444256 GGGAGCGTGCCTTATCCCT 61.444 63.158 9.09 0.00 46.72 4.20
761 2088 0.471617 GGGTGATGGGTGGAGATGAG 59.528 60.000 0.00 0.00 0.00 2.90
798 2125 6.007076 GGAGAAAGGAAGAGAAAAGGTTGAT 58.993 40.000 0.00 0.00 0.00 2.57
813 2140 1.883732 CTCACGCGAGGAGAAAGGA 59.116 57.895 22.03 2.49 35.44 3.36
814 2141 1.807573 GCTCACGCGAGGAGAAAGG 60.808 63.158 27.80 9.57 39.88 3.11
815 2142 3.773974 GCTCACGCGAGGAGAAAG 58.226 61.111 27.80 10.08 39.88 2.62
826 2153 4.914420 CGCTAGGGCTCGCTCACG 62.914 72.222 0.00 0.00 42.01 4.35
928 2255 1.070786 GTGGACGGAGCACCTTTGA 59.929 57.895 0.00 0.00 0.00 2.69
929 2256 1.071471 AGTGGACGGAGCACCTTTG 59.929 57.895 0.00 0.00 0.00 2.77
930 2257 1.071471 CAGTGGACGGAGCACCTTT 59.929 57.895 0.00 0.00 0.00 3.11
973 2300 1.292061 CCAAATGCAAATGGGATGCG 58.708 50.000 12.20 0.00 46.76 4.73
975 2302 1.292061 CGCCAAATGCAAATGGGATG 58.708 50.000 19.39 0.27 41.33 3.51
1171 2498 3.300667 GAGCCGCTCTGCAAACACG 62.301 63.158 13.42 0.00 0.00 4.49
1188 2515 2.044555 AGATTCGAGGACGCACGGA 61.045 57.895 0.00 0.00 39.58 4.69
1257 2584 4.687215 GCAGCACCAGGTCGCTCA 62.687 66.667 12.21 0.00 35.96 4.26
1406 2733 1.028868 GTGCAGCCTTGATCCCTCAC 61.029 60.000 0.00 0.00 0.00 3.51
1443 2770 2.290514 CCTTCTGGACAGCAATTCCTCA 60.291 50.000 0.00 0.00 33.84 3.86
1482 2809 1.884235 CACTCCTGACCTTGTTGGAC 58.116 55.000 0.00 0.00 39.71 4.02
1600 2927 3.071457 TCATACATCTTCATGGCGTCCAT 59.929 43.478 5.65 5.65 46.37 3.41
1608 2935 7.041303 CCCTTCATGAACTCATACATCTTCATG 60.041 40.741 3.38 11.37 46.06 3.07
1686 3013 2.158295 AGACATATAGCCCTCGGTCCTT 60.158 50.000 0.00 0.00 0.00 3.36
1704 3031 2.035066 ACTGAACATTTGCAAGGCAGAC 59.965 45.455 17.19 4.63 40.61 3.51
1741 3068 2.781911 GGGTTTCCCTCGATTCAGC 58.218 57.895 0.00 0.00 41.34 4.26
1773 3100 6.400409 CGCATGCAGATATCATAGTGTTGTAC 60.400 42.308 19.57 0.00 0.00 2.90
1848 3175 6.099845 TCAAAGTCCCACTTAAAGAGTTCTCT 59.900 38.462 0.00 0.00 37.47 3.10
1866 3193 8.299570 ACCAACAAATCATAAGTCATCAAAGTC 58.700 33.333 0.00 0.00 0.00 3.01
1928 3255 5.595542 AGCATTTCCTCATAAGCAGCAATAA 59.404 36.000 0.00 0.00 0.00 1.40
1929 3256 5.135383 AGCATTTCCTCATAAGCAGCAATA 58.865 37.500 0.00 0.00 0.00 1.90
2094 3421 4.188247 TCCAAGTGAGTTGATAACCGAG 57.812 45.455 0.68 0.00 38.60 4.63
2115 3442 0.603975 GCTCGTCTTCACCAGCCTTT 60.604 55.000 0.00 0.00 0.00 3.11
2400 3727 5.329493 CGTATCACGTGATTGTAAGAGACA 58.671 41.667 34.06 11.09 36.74 3.41
2614 3941 8.470002 GGAAATTCAAAATCATTACCAGCTAGT 58.530 33.333 0.00 0.00 0.00 2.57
2676 4049 4.742438 TCGAAGCACCAAATGTTTAGAC 57.258 40.909 0.00 0.00 30.18 2.59
2704 4077 9.722056 CATAATGGTAATGTAGCTTTGAAGAAC 57.278 33.333 0.00 0.00 0.00 3.01
3057 4430 0.459489 AATGTGCACGCCAAACAGTT 59.541 45.000 13.13 0.00 0.00 3.16
3383 4915 3.390639 CCTCCTGGCTAATCTGATCTTGT 59.609 47.826 0.00 0.00 0.00 3.16
3478 5010 0.034380 TAGGGCTACTCTGCTGACGT 60.034 55.000 0.00 0.00 0.00 4.34
3508 5040 3.740832 CACGTTCAGATCTGTACAGCAAA 59.259 43.478 26.12 9.42 31.47 3.68
3561 5093 8.850156 AGAAAATGCTTGTTTAAGTGTAGTGAT 58.150 29.630 0.00 0.00 36.27 3.06
3660 5192 4.399978 CGTTTGTTTGACCATATTCGTCC 58.600 43.478 0.00 0.00 0.00 4.79
3840 5372 2.350772 CGAGCAAAAGCAACCAGTTAGG 60.351 50.000 0.00 0.00 45.67 2.69
3841 5373 2.918131 GCGAGCAAAAGCAACCAGTTAG 60.918 50.000 0.00 0.00 0.00 2.34
3845 5394 0.031178 AAGCGAGCAAAAGCAACCAG 59.969 50.000 0.00 0.00 35.48 4.00
3996 5545 1.412710 TGAACCGGAGATGGATAGTGC 59.587 52.381 9.46 0.00 0.00 4.40
4040 5590 3.425492 GCTTCAGTCCAATTTCTTCGCTC 60.425 47.826 0.00 0.00 0.00 5.03
4058 5608 2.263077 CTATCGTCACACACAGGCTTC 58.737 52.381 0.00 0.00 0.00 3.86
4064 5614 2.823747 ACTTAGGCTATCGTCACACACA 59.176 45.455 0.00 0.00 0.00 3.72
4070 5620 5.543714 TGACAAAAACTTAGGCTATCGTCA 58.456 37.500 0.00 0.00 0.00 4.35
4174 6066 3.981071 TGGATCAAACGAGTCTTCCAT 57.019 42.857 0.00 0.00 0.00 3.41
4176 6068 4.938226 AGAATTGGATCAAACGAGTCTTCC 59.062 41.667 0.00 0.00 0.00 3.46
4178 6070 6.763610 GGATAGAATTGGATCAAACGAGTCTT 59.236 38.462 0.00 0.00 0.00 3.01
4190 6082 2.881403 GCCCGCATGGATAGAATTGGAT 60.881 50.000 0.00 0.00 37.49 3.41
4191 6083 1.545428 GCCCGCATGGATAGAATTGGA 60.545 52.381 0.00 0.00 37.49 3.53
4331 6223 8.568676 TGTAATCGATTACCAAAATGAGGAAA 57.431 30.769 34.19 15.82 41.41 3.13
4410 6302 5.393569 CCATATACCTAGAAGAGTGGATGCG 60.394 48.000 0.00 0.00 0.00 4.73
4411 6303 5.105146 CCCATATACCTAGAAGAGTGGATGC 60.105 48.000 0.00 0.00 0.00 3.91
4412 6304 6.153680 GTCCCATATACCTAGAAGAGTGGATG 59.846 46.154 0.00 0.00 0.00 3.51
4413 6305 6.183361 TGTCCCATATACCTAGAAGAGTGGAT 60.183 42.308 0.00 0.00 0.00 3.41
4414 6306 5.135533 TGTCCCATATACCTAGAAGAGTGGA 59.864 44.000 0.00 0.00 0.00 4.02
4415 6307 5.394738 TGTCCCATATACCTAGAAGAGTGG 58.605 45.833 0.00 0.00 0.00 4.00
4416 6308 7.546250 AATGTCCCATATACCTAGAAGAGTG 57.454 40.000 0.00 0.00 0.00 3.51
4417 6309 7.674772 GGTAATGTCCCATATACCTAGAAGAGT 59.325 40.741 0.00 0.00 35.88 3.24
4418 6310 7.896496 AGGTAATGTCCCATATACCTAGAAGAG 59.104 40.741 1.62 0.00 44.79 2.85
4419 6311 7.776745 AGGTAATGTCCCATATACCTAGAAGA 58.223 38.462 1.62 0.00 44.79 2.87
4420 6312 7.124448 GGAGGTAATGTCCCATATACCTAGAAG 59.876 44.444 3.47 0.00 46.18 2.85
4421 6313 6.958192 GGAGGTAATGTCCCATATACCTAGAA 59.042 42.308 3.47 0.00 46.18 2.10
4422 6314 6.279682 AGGAGGTAATGTCCCATATACCTAGA 59.720 42.308 3.47 0.00 46.18 2.43
4423 6315 6.503944 AGGAGGTAATGTCCCATATACCTAG 58.496 44.000 3.47 0.00 46.18 3.02
4424 6316 6.047479 TGAGGAGGTAATGTCCCATATACCTA 59.953 42.308 3.47 0.00 46.18 3.08
4426 6318 5.091552 TGAGGAGGTAATGTCCCATATACC 58.908 45.833 0.00 0.00 38.45 2.73
4427 6319 6.681729 TTGAGGAGGTAATGTCCCATATAC 57.318 41.667 0.00 0.00 34.21 1.47
4428 6320 6.296432 GCATTGAGGAGGTAATGTCCCATATA 60.296 42.308 0.00 0.00 36.81 0.86
4429 6321 5.515534 GCATTGAGGAGGTAATGTCCCATAT 60.516 44.000 0.00 0.00 36.81 1.78
4430 6322 4.202461 GCATTGAGGAGGTAATGTCCCATA 60.202 45.833 0.00 0.00 36.81 2.74
4431 6323 3.435601 GCATTGAGGAGGTAATGTCCCAT 60.436 47.826 0.00 0.00 36.81 4.00
4432 6324 2.092429 GCATTGAGGAGGTAATGTCCCA 60.092 50.000 0.00 0.00 36.81 4.37
4433 6325 2.576615 GCATTGAGGAGGTAATGTCCC 58.423 52.381 0.00 0.00 36.81 4.46
4434 6326 2.092429 TGGCATTGAGGAGGTAATGTCC 60.092 50.000 0.00 0.00 37.94 4.02
4435 6327 3.281727 TGGCATTGAGGAGGTAATGTC 57.718 47.619 0.00 0.00 38.89 3.06
4436 6328 3.737559 TTGGCATTGAGGAGGTAATGT 57.262 42.857 0.00 0.00 36.81 2.71
4437 6329 4.403432 ACAATTGGCATTGAGGAGGTAATG 59.597 41.667 10.83 0.00 42.35 1.90
4438 6330 4.403432 CACAATTGGCATTGAGGAGGTAAT 59.597 41.667 10.83 0.00 42.35 1.89
4439 6331 3.763360 CACAATTGGCATTGAGGAGGTAA 59.237 43.478 10.83 0.00 42.35 2.85
4440 6332 3.355378 CACAATTGGCATTGAGGAGGTA 58.645 45.455 10.83 0.00 42.35 3.08
4441 6333 2.173519 CACAATTGGCATTGAGGAGGT 58.826 47.619 10.83 0.00 42.35 3.85
4442 6334 1.134907 GCACAATTGGCATTGAGGAGG 60.135 52.381 10.83 3.11 42.35 4.30
4443 6335 2.288961 GCACAATTGGCATTGAGGAG 57.711 50.000 10.83 5.08 42.35 3.69
4461 6353 5.588648 TGAAAACTTGTATACTGCATAGGGC 59.411 40.000 4.17 0.00 45.13 5.19
4462 6354 7.807977 ATGAAAACTTGTATACTGCATAGGG 57.192 36.000 4.17 0.00 0.00 3.53
4463 6355 9.764363 TCTATGAAAACTTGTATACTGCATAGG 57.236 33.333 13.37 0.00 35.57 2.57


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

AutoCloner maintained by Alex Coulton.