Multiple sequence alignment - TraesCS4A01G312700

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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 TraesCS4A01G312700 chr4A 100.000 2876 0 0 1 2876 603665136 603668011 0.000000e+00 5312.0
1 TraesCS4A01G312700 chr5D 87.723 1629 111 32 880 2471 561573189 561571613 0.000000e+00 1818.0
2 TraesCS4A01G312700 chr5D 86.528 1247 122 23 790 2001 556273789 556272554 0.000000e+00 1330.0
3 TraesCS4A01G312700 chr5D 88.143 447 47 4 299 739 561574610 561574164 7.060000e-146 527.0
4 TraesCS4A01G312700 chr5D 90.310 258 25 0 2 259 561574950 561574693 3.550000e-89 339.0
5 TraesCS4A01G312700 chr5D 86.842 152 12 6 2680 2828 561571388 561571242 2.290000e-36 163.0
6 TraesCS4A01G312700 chr5D 100.000 31 0 0 259 289 536531434 536531404 1.110000e-04 58.4
7 TraesCS4A01G312700 chr7B 86.627 1660 145 30 772 2415 1482076 1483674 0.000000e+00 1764.0
8 TraesCS4A01G312700 chr7B 93.792 1047 61 3 861 1905 1436874 1437918 0.000000e+00 1570.0
9 TraesCS4A01G312700 chr5B 89.546 1234 96 15 970 2194 711268979 711267770 0.000000e+00 1533.0
10 TraesCS4A01G312700 chr5B 90.747 1124 84 11 773 1894 711281153 711280048 0.000000e+00 1482.0
11 TraesCS4A01G312700 chr5B 89.931 288 23 5 2175 2461 711279673 711279391 1.630000e-97 366.0
12 TraesCS4A01G312700 chr5B 82.899 345 35 7 2246 2566 711267759 711267415 3.630000e-74 289.0
13 TraesCS4A01G312700 chr5B 88.177 203 16 6 1982 2176 711280033 711279831 4.790000e-58 235.0
14 TraesCS4A01G312700 chr5B 80.858 303 33 17 2576 2858 711267369 711267072 6.240000e-52 215.0
15 TraesCS4A01G312700 chr5B 77.972 286 38 9 300 564 711285799 711285518 3.840000e-34 156.0
16 TraesCS4A01G312700 chr5B 100.000 31 0 0 259 289 312912177 312912207 1.110000e-04 58.4
17 TraesCS4A01G312700 chr4D 86.842 836 106 4 1002 1837 504597399 504598230 0.000000e+00 931.0
18 TraesCS4A01G312700 chr4D 88.462 78 8 1 625 701 381145379 381145302 3.050000e-15 93.5
19 TraesCS4A01G312700 chr4B 88.151 768 91 0 1070 1837 651514487 651515254 0.000000e+00 915.0
20 TraesCS4A01G312700 chr5A 86.058 832 113 3 1006 1837 689251868 689252696 0.000000e+00 891.0
21 TraesCS4A01G312700 chr2D 74.747 297 44 18 298 568 202165816 202166107 1.410000e-18 104.0
22 TraesCS4A01G312700 chr6A 88.158 76 9 0 423 498 151464387 151464462 1.100000e-14 91.6
23 TraesCS4A01G312700 chr6A 92.105 38 3 0 260 297 517522579 517522616 1.000000e-03 54.7
24 TraesCS4A01G312700 chr3B 75.714 140 30 4 421 560 9436567 9436702 1.850000e-07 67.6
25 TraesCS4A01G312700 chr7A 100.000 32 0 0 260 291 15834534 15834565 3.090000e-05 60.2
26 TraesCS4A01G312700 chr2A 100.000 32 0 0 258 289 498108368 498108337 3.090000e-05 60.2
27 TraesCS4A01G312700 chr2A 100.000 31 0 0 259 289 447158369 447158339 1.110000e-04 58.4
28 TraesCS4A01G312700 chr1D 100.000 32 0 0 260 291 6199330 6199361 3.090000e-05 60.2
29 TraesCS4A01G312700 chr7D 94.595 37 2 0 253 289 44648274 44648310 1.110000e-04 58.4
30 TraesCS4A01G312700 chr6D 100.000 31 0 0 259 289 159381076 159381046 1.110000e-04 58.4


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 TraesCS4A01G312700 chr4A 603665136 603668011 2875 False 5312.000000 5312 100.000000 1 2876 1 chr4A.!!$F1 2875
1 TraesCS4A01G312700 chr5D 556272554 556273789 1235 True 1330.000000 1330 86.528000 790 2001 1 chr5D.!!$R2 1211
2 TraesCS4A01G312700 chr5D 561571242 561574950 3708 True 711.750000 1818 88.254500 2 2828 4 chr5D.!!$R3 2826
3 TraesCS4A01G312700 chr7B 1482076 1483674 1598 False 1764.000000 1764 86.627000 772 2415 1 chr7B.!!$F2 1643
4 TraesCS4A01G312700 chr7B 1436874 1437918 1044 False 1570.000000 1570 93.792000 861 1905 1 chr7B.!!$F1 1044
5 TraesCS4A01G312700 chr5B 711279391 711281153 1762 True 694.333333 1482 89.618333 773 2461 3 chr5B.!!$R3 1688
6 TraesCS4A01G312700 chr5B 711267072 711268979 1907 True 679.000000 1533 84.434333 970 2858 3 chr5B.!!$R2 1888
7 TraesCS4A01G312700 chr4D 504597399 504598230 831 False 931.000000 931 86.842000 1002 1837 1 chr4D.!!$F1 835
8 TraesCS4A01G312700 chr4B 651514487 651515254 767 False 915.000000 915 88.151000 1070 1837 1 chr4B.!!$F1 767
9 TraesCS4A01G312700 chr5A 689251868 689252696 828 False 891.000000 891 86.058000 1006 1837 1 chr5A.!!$F1 831

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
689 738 0.042731 TTCACCCCCTCTAGGTCCAG 59.957 60.0 0.0 0.0 34.56 3.86 F
727 776 0.681733 CCTATCTCCATCACCACCCG 59.318 60.0 0.0 0.0 0.00 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1865 2787 0.456221 TGGAAGTAGCTAGACTGCGC 59.544 55.0 0.00 0.0 35.89 6.09 R
2696 3913 0.248012 CCACCTGCATGTACGTGGTA 59.752 55.0 19.14 0.0 40.77 3.25 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
47 48 4.297768 CTCCCATACCCCATTTTCCAAAT 58.702 43.478 0.00 0.00 0.00 2.32
70 71 4.630069 TCGCAAAAGCTTCATAACCTCTAC 59.370 41.667 0.00 0.00 0.00 2.59
102 103 5.243730 GGTCAAATCATTCCACTCCTTTGAA 59.756 40.000 0.00 0.00 35.21 2.69
121 122 1.633774 AGGAAAAGAGAGACGAGCCA 58.366 50.000 0.00 0.00 0.00 4.75
125 126 1.878656 AAAGAGAGACGAGCCACCGG 61.879 60.000 0.00 0.00 0.00 5.28
134 135 2.035576 GACGAGCCACCGGTCTATATTT 59.964 50.000 2.59 0.00 34.19 1.40
135 136 2.035576 ACGAGCCACCGGTCTATATTTC 59.964 50.000 2.59 0.00 34.19 2.17
143 144 5.470098 CCACCGGTCTATATTTCCAATGAAG 59.530 44.000 2.59 0.00 0.00 3.02
147 148 6.942576 CCGGTCTATATTTCCAATGAAGGAAT 59.057 38.462 0.00 0.00 46.45 3.01
159 160 1.203001 TGAAGGAATTTGGGTTCGCCT 60.203 47.619 0.00 0.00 37.45 5.52
169 170 3.149005 TGGGTTCGCCTTTGAGTTTAT 57.851 42.857 0.00 0.00 37.45 1.40
194 195 6.362248 TGAGTAATTGTTATTCTTAGGGGGC 58.638 40.000 0.00 0.00 0.00 5.80
206 207 3.013188 TCTTAGGGGGCTAAACCTCTGTA 59.987 47.826 0.00 0.00 42.70 2.74
221 222 5.187687 ACCTCTGTACTAGCTGAGACTAAC 58.812 45.833 0.00 0.00 36.82 2.34
226 227 2.379972 ACTAGCTGAGACTAACGGCAT 58.620 47.619 0.00 0.00 41.48 4.40
238 239 6.972722 AGACTAACGGCATAGATTTCTAGTC 58.027 40.000 1.71 0.00 36.06 2.59
241 242 7.203910 ACTAACGGCATAGATTTCTAGTCTTG 58.796 38.462 1.71 0.00 0.00 3.02
244 245 7.291411 ACGGCATAGATTTCTAGTCTTGTAT 57.709 36.000 0.00 0.00 0.00 2.29
245 246 7.371936 ACGGCATAGATTTCTAGTCTTGTATC 58.628 38.462 0.00 0.00 0.00 2.24
259 260 9.442047 CTAGTCTTGTATCAGAAATTGTCCTTT 57.558 33.333 0.00 0.00 0.00 3.11
260 261 8.103948 AGTCTTGTATCAGAAATTGTCCTTTG 57.896 34.615 0.00 0.00 0.00 2.77
261 262 7.721399 AGTCTTGTATCAGAAATTGTCCTTTGT 59.279 33.333 0.00 0.00 0.00 2.83
262 263 8.352942 GTCTTGTATCAGAAATTGTCCTTTGTT 58.647 33.333 0.00 0.00 0.00 2.83
263 264 8.352201 TCTTGTATCAGAAATTGTCCTTTGTTG 58.648 33.333 0.00 0.00 0.00 3.33
265 266 8.231692 TGTATCAGAAATTGTCCTTTGTTGAA 57.768 30.769 0.00 0.00 0.00 2.69
267 268 9.696917 GTATCAGAAATTGTCCTTTGTTGAAAT 57.303 29.630 0.00 0.00 0.00 2.17
276 277 6.872920 TGTCCTTTGTTGAAATATATTGCCC 58.127 36.000 0.00 0.00 0.00 5.36
277 278 5.977129 GTCCTTTGTTGAAATATATTGCCCG 59.023 40.000 0.00 0.00 0.00 6.13
279 280 4.314740 TTGTTGAAATATATTGCCCGCC 57.685 40.909 0.00 0.00 0.00 6.13
280 281 3.561143 TGTTGAAATATATTGCCCGCCT 58.439 40.909 0.00 0.00 0.00 5.52
281 282 3.568007 TGTTGAAATATATTGCCCGCCTC 59.432 43.478 0.00 0.00 0.00 4.70
282 283 3.788227 TGAAATATATTGCCCGCCTCT 57.212 42.857 0.00 0.00 0.00 3.69
283 284 3.674997 TGAAATATATTGCCCGCCTCTC 58.325 45.455 0.00 0.00 0.00 3.20
286 287 1.267121 TATATTGCCCGCCTCTCTCC 58.733 55.000 0.00 0.00 0.00 3.71
287 288 0.764369 ATATTGCCCGCCTCTCTCCA 60.764 55.000 0.00 0.00 0.00 3.86
288 289 0.764369 TATTGCCCGCCTCTCTCCAT 60.764 55.000 0.00 0.00 0.00 3.41
291 292 1.069935 GCCCGCCTCTCTCCATAAC 59.930 63.158 0.00 0.00 0.00 1.89
294 295 0.249073 CCGCCTCTCTCCATAACACG 60.249 60.000 0.00 0.00 0.00 4.49
295 296 0.872021 CGCCTCTCTCCATAACACGC 60.872 60.000 0.00 0.00 0.00 5.34
296 297 0.175760 GCCTCTCTCCATAACACGCA 59.824 55.000 0.00 0.00 0.00 5.24
301 345 2.101415 TCTCTCCATAACACGCATCCAG 59.899 50.000 0.00 0.00 0.00 3.86
324 368 5.544176 AGGAGAGGAATCAACTTGTGACTTA 59.456 40.000 0.00 0.00 39.72 2.24
331 375 2.171027 TCAACTTGTGACTTACCCCGTT 59.829 45.455 0.00 0.00 0.00 4.44
332 376 2.249844 ACTTGTGACTTACCCCGTTG 57.750 50.000 0.00 0.00 0.00 4.10
336 380 2.290464 TGTGACTTACCCCGTTGTTTG 58.710 47.619 0.00 0.00 0.00 2.93
349 393 4.563580 CCCGTTGTTTGTAAAAGTTTGGAC 59.436 41.667 0.00 0.00 0.00 4.02
353 397 5.585820 TGTTTGTAAAAGTTTGGACTCCC 57.414 39.130 0.00 0.00 34.21 4.30
354 398 4.403113 TGTTTGTAAAAGTTTGGACTCCCC 59.597 41.667 0.00 0.00 34.21 4.81
369 413 0.252558 TCCCCCTCAAGGTCTACCAC 60.253 60.000 1.26 0.00 38.89 4.16
370 414 0.252742 CCCCCTCAAGGTCTACCACT 60.253 60.000 1.26 0.00 38.89 4.00
402 446 5.698104 AGAATTGCCTTCATGGTGATATCA 58.302 37.500 0.00 0.00 36.24 2.15
462 507 3.458189 CTCTGACGGTGACAAGTTTTCT 58.542 45.455 0.00 0.00 0.00 2.52
482 527 4.065088 TCTTTCAAGGAAGTGAACATCGG 58.935 43.478 0.00 0.00 37.24 4.18
496 541 5.041287 TGAACATCGGAATACATCTTCGTC 58.959 41.667 0.00 0.00 0.00 4.20
501 546 3.442625 TCGGAATACATCTTCGTCTGTGT 59.557 43.478 0.00 0.00 0.00 3.72
513 558 1.202132 CGTCTGTGTGGTGTTTGGTTG 60.202 52.381 0.00 0.00 0.00 3.77
544 589 6.523840 ACCGTAACTCATTTACTTGTGGTTA 58.476 36.000 0.00 0.00 38.40 2.85
545 590 6.991531 ACCGTAACTCATTTACTTGTGGTTAA 59.008 34.615 0.00 0.00 38.40 2.01
578 623 2.684374 TGACCTTGCATGCATCATGTAC 59.316 45.455 23.37 10.01 43.10 2.90
587 632 7.368480 TGCATGCATCATGTACTTGTATATC 57.632 36.000 18.46 0.00 43.10 1.63
589 634 7.332678 TGCATGCATCATGTACTTGTATATCTC 59.667 37.037 18.46 0.00 43.10 2.75
590 635 7.332678 GCATGCATCATGTACTTGTATATCTCA 59.667 37.037 14.21 0.78 43.10 3.27
591 636 8.654215 CATGCATCATGTACTTGTATATCTCAC 58.346 37.037 0.00 0.00 37.12 3.51
596 641 8.095937 TCATGTACTTGTATATCTCACCGTAG 57.904 38.462 8.46 0.00 0.00 3.51
597 642 6.309712 TGTACTTGTATATCTCACCGTAGC 57.690 41.667 0.00 0.00 0.00 3.58
617 662 2.211806 CATTGTTTTGGCCCACACTTG 58.788 47.619 0.00 0.00 0.00 3.16
618 663 1.270907 TTGTTTTGGCCCACACTTGT 58.729 45.000 0.00 0.00 0.00 3.16
619 664 0.820871 TGTTTTGGCCCACACTTGTC 59.179 50.000 0.00 0.00 0.00 3.18
624 673 2.203153 GCCCACACTTGTCCACGT 60.203 61.111 0.00 0.00 0.00 4.49
633 682 2.735134 CACTTGTCCACGTAGCCTAAAC 59.265 50.000 0.00 0.00 0.00 2.01
676 725 5.945144 TTAGTAGTTGTCCCTATTCACCC 57.055 43.478 0.00 0.00 0.00 4.61
680 729 1.212195 GTTGTCCCTATTCACCCCCTC 59.788 57.143 0.00 0.00 0.00 4.30
689 738 0.042731 TTCACCCCCTCTAGGTCCAG 59.957 60.000 0.00 0.00 34.56 3.86
690 739 1.153695 TCACCCCCTCTAGGTCCAGT 61.154 60.000 0.00 0.00 34.56 4.00
703 752 3.756117 AGGTCCAGTTTGATCCTTTCAC 58.244 45.455 0.00 0.00 32.84 3.18
717 766 5.418692 TCCTTTCACTATCCCTATCTCCA 57.581 43.478 0.00 0.00 0.00 3.86
718 767 5.982391 TCCTTTCACTATCCCTATCTCCAT 58.018 41.667 0.00 0.00 0.00 3.41
722 771 4.678256 TCACTATCCCTATCTCCATCACC 58.322 47.826 0.00 0.00 0.00 4.02
725 774 2.103153 TCCCTATCTCCATCACCACC 57.897 55.000 0.00 0.00 0.00 4.61
727 776 0.681733 CCTATCTCCATCACCACCCG 59.318 60.000 0.00 0.00 0.00 5.28
728 777 1.704641 CTATCTCCATCACCACCCGA 58.295 55.000 0.00 0.00 0.00 5.14
729 778 2.251818 CTATCTCCATCACCACCCGAT 58.748 52.381 0.00 0.00 0.00 4.18
733 782 2.072487 CCATCACCACCCGATCCCT 61.072 63.158 0.00 0.00 0.00 4.20
734 783 1.447643 CATCACCACCCGATCCCTC 59.552 63.158 0.00 0.00 0.00 4.30
735 784 1.050988 CATCACCACCCGATCCCTCT 61.051 60.000 0.00 0.00 0.00 3.69
736 785 1.050988 ATCACCACCCGATCCCTCTG 61.051 60.000 0.00 0.00 0.00 3.35
737 786 3.083997 ACCACCCGATCCCTCTGC 61.084 66.667 0.00 0.00 0.00 4.26
738 787 2.765807 CCACCCGATCCCTCTGCT 60.766 66.667 0.00 0.00 0.00 4.24
739 788 2.503061 CACCCGATCCCTCTGCTG 59.497 66.667 0.00 0.00 0.00 4.41
740 789 2.765807 ACCCGATCCCTCTGCTGG 60.766 66.667 0.00 0.00 0.00 4.85
756 1259 3.758172 GGCTCCGCCTTTTGTTGA 58.242 55.556 0.00 0.00 46.69 3.18
757 1260 2.267045 GGCTCCGCCTTTTGTTGAT 58.733 52.632 0.00 0.00 46.69 2.57
759 1262 1.402852 GGCTCCGCCTTTTGTTGATTC 60.403 52.381 0.00 0.00 46.69 2.52
761 1264 1.202348 CTCCGCCTTTTGTTGATTCCC 59.798 52.381 0.00 0.00 0.00 3.97
762 1265 0.965439 CCGCCTTTTGTTGATTCCCA 59.035 50.000 0.00 0.00 0.00 4.37
765 1268 3.059166 CGCCTTTTGTTGATTCCCAAAG 58.941 45.455 0.00 0.00 36.36 2.77
766 1269 3.492482 CGCCTTTTGTTGATTCCCAAAGT 60.492 43.478 0.00 0.00 36.36 2.66
767 1270 4.261825 CGCCTTTTGTTGATTCCCAAAGTA 60.262 41.667 0.00 0.00 36.36 2.24
768 1271 5.566627 CGCCTTTTGTTGATTCCCAAAGTAT 60.567 40.000 0.00 0.00 36.36 2.12
770 1273 6.811665 GCCTTTTGTTGATTCCCAAAGTATAC 59.188 38.462 0.00 0.00 36.36 1.47
796 1676 6.819397 AAAAGAGAGGTATGGCTTGTAAAC 57.181 37.500 0.00 0.00 0.00 2.01
802 1682 5.099042 AGGTATGGCTTGTAAACCAGTAG 57.901 43.478 0.00 0.00 39.88 2.57
803 1683 4.534897 AGGTATGGCTTGTAAACCAGTAGT 59.465 41.667 0.00 0.00 39.88 2.73
804 1684 5.722923 AGGTATGGCTTGTAAACCAGTAGTA 59.277 40.000 0.00 0.00 39.88 1.82
819 1723 3.000727 AGTAGTAAATGGCACTTGTCGC 58.999 45.455 0.00 0.00 0.00 5.19
831 1735 4.851558 GGCACTTGTCGCAGTAATAAAAAG 59.148 41.667 0.00 0.00 0.00 2.27
878 1785 2.408333 GGCACCCATACATGCTCAC 58.592 57.895 0.00 0.00 41.74 3.51
1167 2089 1.443702 CGTCATCGCCGAGTTCACA 60.444 57.895 0.00 0.00 0.00 3.58
1170 2092 1.446792 CATCGCCGAGTTCACAGCT 60.447 57.895 0.00 0.00 0.00 4.24
1185 2107 2.071688 CAGCTACACTGCTCTTCGTT 57.928 50.000 0.00 0.00 41.98 3.85
1195 2117 0.731855 GCTCTTCGTTTACGTCGCCT 60.732 55.000 0.00 0.00 40.80 5.52
1362 2284 2.665185 GTGACGTTCGGGCTGCTT 60.665 61.111 0.00 0.00 0.00 3.91
1770 2692 3.387716 TGGGACGACCAGTGGATG 58.612 61.111 18.40 10.09 46.80 3.51
1865 2787 0.533491 TTCCGGTCCAACTACGATGG 59.467 55.000 0.00 0.00 39.41 3.51
1869 2791 1.447140 GTCCAACTACGATGGCGCA 60.447 57.895 10.83 0.00 42.48 6.09
1909 2843 0.308684 CCATCCATTGATGCGTTCCG 59.691 55.000 1.16 0.00 45.86 4.30
1975 2920 1.602191 CGTGTGGCTGTTAAAATCGC 58.398 50.000 0.00 0.00 0.00 4.58
2042 2989 6.503589 TTGTATTGTATGTTAGTGTTGGGC 57.496 37.500 0.00 0.00 0.00 5.36
2075 3024 6.531503 AGCTAGTTACTGCAAGAGATAACA 57.468 37.500 0.00 0.00 37.43 2.41
2089 3038 2.025037 AGATAACACACCCCATGCATGT 60.025 45.455 24.58 4.90 0.00 3.21
2090 3039 1.832883 TAACACACCCCATGCATGTC 58.167 50.000 24.58 0.00 0.00 3.06
2146 3095 6.981722 ACTTCCCATGATTTTTGTACTTGTC 58.018 36.000 0.00 0.00 0.00 3.18
2150 3099 6.775142 TCCCATGATTTTTGTACTTGTCTTCA 59.225 34.615 0.00 0.00 0.00 3.02
2152 3101 7.255590 CCCATGATTTTTGTACTTGTCTTCACT 60.256 37.037 0.00 0.00 0.00 3.41
2153 3102 8.137437 CCATGATTTTTGTACTTGTCTTCACTT 58.863 33.333 0.00 0.00 0.00 3.16
2155 3104 9.736023 ATGATTTTTGTACTTGTCTTCACTTTC 57.264 29.630 0.00 0.00 0.00 2.62
2156 3105 8.188139 TGATTTTTGTACTTGTCTTCACTTTCC 58.812 33.333 0.00 0.00 0.00 3.13
2158 3107 7.455641 TTTTGTACTTGTCTTCACTTTCCAA 57.544 32.000 0.00 0.00 0.00 3.53
2262 3378 6.559810 TCACGTCACATTCATGTTTTCTTTT 58.440 32.000 0.00 0.00 39.39 2.27
2282 3398 7.030165 TCTTTTTCTATGTCACGTCATCTCTC 58.970 38.462 0.00 0.00 0.00 3.20
2346 3462 4.363138 TGAATGATTGCTAGTCTACTGCG 58.637 43.478 0.00 0.00 0.00 5.18
2358 3481 7.710907 TGCTAGTCTACTGCGATAAAATTCAAT 59.289 33.333 0.00 0.00 0.00 2.57
2365 3488 9.340695 CTACTGCGATAAAATTCAATTTTGTCA 57.659 29.630 24.08 11.29 45.14 3.58
2370 3493 7.160776 GCGATAAAATTCAATTTTGTCAATGCG 59.839 33.333 24.08 15.27 45.14 4.73
2382 3505 0.958091 TCAATGCGGTTTGAGTTGGG 59.042 50.000 0.00 0.00 32.07 4.12
2388 3511 0.944386 CGGTTTGAGTTGGGACACAG 59.056 55.000 0.00 0.00 39.29 3.66
2405 3528 6.213677 GGACACAGGATTTGAAGTTAAAACC 58.786 40.000 0.00 0.00 33.94 3.27
2408 3531 7.264947 ACACAGGATTTGAAGTTAAAACCAAG 58.735 34.615 0.00 0.00 35.59 3.61
2418 3553 5.756195 AGTTAAAACCAAGACGTTAACCC 57.244 39.130 0.00 0.00 37.21 4.11
2425 3560 3.836562 ACCAAGACGTTAACCCTATGTCT 59.163 43.478 7.13 7.13 41.40 3.41
2453 3588 6.791303 TCGTATGAAATTTAACCAGATTGGC 58.209 36.000 0.00 0.00 42.67 4.52
2471 3606 3.340034 TGGCCGGTCACTAAATTACTTG 58.660 45.455 3.51 0.00 0.00 3.16
2472 3607 2.096980 GGCCGGTCACTAAATTACTTGC 59.903 50.000 0.00 0.00 0.00 4.01
2481 3616 5.019498 CACTAAATTACTTGCGCTTTACGG 58.981 41.667 9.73 0.00 43.93 4.02
2493 3628 3.365565 GCGCTTTACGGGAATCTTTCAAA 60.366 43.478 0.00 0.00 43.93 2.69
2498 3633 7.410407 CGCTTTACGGGAATCTTTCAAATTTTC 60.410 37.037 0.00 0.00 38.44 2.29
2562 3701 6.893583 AGCTAATACATCATGTGGTTTCTCT 58.106 36.000 0.00 0.00 0.00 3.10
2569 3708 3.486383 TCATGTGGTTTCTCTCAAACCC 58.514 45.455 12.62 5.98 46.93 4.11
2574 3749 6.636454 TGTGGTTTCTCTCAAACCCTATAT 57.364 37.500 12.62 0.00 46.93 0.86
2646 3821 2.322830 CCGGATCCGCATCTGCATG 61.323 63.158 29.12 7.77 42.21 4.06
2649 3824 1.151668 GGATCCGCATCTGCATGTAC 58.848 55.000 0.00 0.00 42.21 2.90
2651 3826 2.420642 GATCCGCATCTGCATGTACAT 58.579 47.619 1.41 1.41 42.21 2.29
2652 3827 1.585297 TCCGCATCTGCATGTACATG 58.415 50.000 28.07 28.07 42.21 3.21
2678 3895 3.402186 GCCATACAGCATACAGGCA 57.598 52.632 0.00 0.00 41.63 4.75
2697 3914 2.738480 GGTGCAGTGACCACCGTA 59.262 61.111 4.41 0.00 42.86 4.02
2699 3916 1.666872 GTGCAGTGACCACCGTACC 60.667 63.158 0.00 0.00 0.00 3.34
2700 3917 2.134933 TGCAGTGACCACCGTACCA 61.135 57.895 0.00 0.00 0.00 3.25
2701 3918 1.666872 GCAGTGACCACCGTACCAC 60.667 63.158 0.00 0.00 0.00 4.16
2703 3920 1.829533 AGTGACCACCGTACCACGT 60.830 57.895 0.00 0.00 40.58 4.49
2745 3962 0.888736 CGCAGGGTTGTGAATGTGGA 60.889 55.000 0.00 0.00 36.95 4.02
2754 3971 5.236263 GGGTTGTGAATGTGGACAAATTTTC 59.764 40.000 0.00 0.00 33.96 2.29
2760 3977 7.012138 TGTGAATGTGGACAAATTTTCAATTGG 59.988 33.333 5.42 0.00 0.00 3.16
2775 3992 7.837202 TTTCAATTGGATCTGAATTTGATGC 57.163 32.000 5.42 6.85 31.85 3.91
2776 3993 5.584442 TCAATTGGATCTGAATTTGATGCG 58.416 37.500 5.42 0.00 35.46 4.73
2778 3995 4.359971 TTGGATCTGAATTTGATGCGTG 57.640 40.909 0.00 0.00 35.46 5.34
2780 3997 4.009002 TGGATCTGAATTTGATGCGTGAA 58.991 39.130 0.00 0.00 35.46 3.18
2781 3998 4.641541 TGGATCTGAATTTGATGCGTGAAT 59.358 37.500 0.00 0.00 35.46 2.57
2782 3999 5.125900 TGGATCTGAATTTGATGCGTGAATT 59.874 36.000 0.00 0.00 35.46 2.17
2783 4000 6.318396 TGGATCTGAATTTGATGCGTGAATTA 59.682 34.615 0.00 0.00 35.46 1.40
2784 4001 7.148103 TGGATCTGAATTTGATGCGTGAATTAA 60.148 33.333 0.00 0.00 35.46 1.40
2793 4010 4.094739 TGATGCGTGAATTAATGTGTCAGG 59.905 41.667 4.63 4.63 0.00 3.86
2794 4011 3.407698 TGCGTGAATTAATGTGTCAGGT 58.592 40.909 9.07 0.00 31.45 4.00
2818 4035 7.013274 GGTCATATATATACATGGCGCCAAATT 59.987 37.037 36.33 22.42 0.00 1.82
2820 4037 9.620259 TCATATATATACATGGCGCCAAATTAA 57.380 29.630 36.33 19.65 0.00 1.40
2830 4048 4.109766 GGCGCCAAATTAACTGAATTACC 58.890 43.478 24.80 0.00 36.71 2.85
2831 4049 4.142249 GGCGCCAAATTAACTGAATTACCT 60.142 41.667 24.80 0.00 36.71 3.08
2858 4076 5.696270 CGTGCAATGCATAGTAATTCTCCTA 59.304 40.000 12.38 0.00 41.91 2.94
2859 4077 6.128715 CGTGCAATGCATAGTAATTCTCCTAG 60.129 42.308 12.38 0.00 41.91 3.02
2860 4078 6.708054 GTGCAATGCATAGTAATTCTCCTAGT 59.292 38.462 12.38 0.00 41.91 2.57
2861 4079 7.872993 GTGCAATGCATAGTAATTCTCCTAGTA 59.127 37.037 12.38 0.00 41.91 1.82
2862 4080 8.597167 TGCAATGCATAGTAATTCTCCTAGTAT 58.403 33.333 2.72 0.00 31.71 2.12
2863 4081 9.442047 GCAATGCATAGTAATTCTCCTAGTATT 57.558 33.333 0.00 0.00 0.00 1.89
2867 4085 9.982651 TGCATAGTAATTCTCCTAGTATTTGAC 57.017 33.333 0.00 0.00 0.00 3.18
2868 4086 9.982651 GCATAGTAATTCTCCTAGTATTTGACA 57.017 33.333 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 3.047115 TGGGGTATGGGAGCGTAAATAA 58.953 45.455 0.00 0.00 0.00 1.40
24 25 1.063266 TGGAAAATGGGGTATGGGAGC 60.063 52.381 0.00 0.00 0.00 4.70
70 71 4.025360 TGGAATGATTTGACCAAGGGATG 58.975 43.478 0.00 0.00 0.00 3.51
102 103 1.273886 GTGGCTCGTCTCTCTTTTCCT 59.726 52.381 0.00 0.00 0.00 3.36
121 122 5.368523 TCCTTCATTGGAAATATAGACCGGT 59.631 40.000 6.92 6.92 32.39 5.28
134 135 3.509575 CGAACCCAAATTCCTTCATTGGA 59.490 43.478 5.38 0.00 45.14 3.53
135 136 3.848726 CGAACCCAAATTCCTTCATTGG 58.151 45.455 0.00 0.00 42.59 3.16
143 144 1.616374 TCAAAGGCGAACCCAAATTCC 59.384 47.619 0.00 0.00 36.11 3.01
147 148 1.770294 AACTCAAAGGCGAACCCAAA 58.230 45.000 0.00 0.00 36.11 3.28
169 170 6.831868 GCCCCCTAAGAATAACAATTACTCAA 59.168 38.462 0.00 0.00 0.00 3.02
183 184 2.844348 CAGAGGTTTAGCCCCCTAAGAA 59.156 50.000 0.00 0.00 38.26 2.52
188 189 1.080666 AGTACAGAGGTTTAGCCCCCT 59.919 52.381 0.00 0.00 38.26 4.79
194 195 5.883673 AGTCTCAGCTAGTACAGAGGTTTAG 59.116 44.000 0.00 0.00 0.00 1.85
206 207 1.835494 TGCCGTTAGTCTCAGCTAGT 58.165 50.000 0.00 0.00 0.00 2.57
221 222 7.371159 TGATACAAGACTAGAAATCTATGCCG 58.629 38.462 0.00 0.00 0.00 5.69
238 239 8.352201 TCAACAAAGGACAATTTCTGATACAAG 58.648 33.333 0.00 0.00 0.00 3.16
241 242 9.696917 ATTTCAACAAAGGACAATTTCTGATAC 57.303 29.630 0.00 0.00 0.00 2.24
251 252 7.327214 GGGCAATATATTTCAACAAAGGACAA 58.673 34.615 0.00 0.00 0.00 3.18
254 255 5.451242 GCGGGCAATATATTTCAACAAAGGA 60.451 40.000 0.00 0.00 0.00 3.36
259 260 3.561143 AGGCGGGCAATATATTTCAACA 58.439 40.909 3.78 0.00 0.00 3.33
260 261 3.821033 AGAGGCGGGCAATATATTTCAAC 59.179 43.478 3.78 0.00 0.00 3.18
261 262 4.072131 GAGAGGCGGGCAATATATTTCAA 58.928 43.478 3.78 0.00 0.00 2.69
262 263 3.327757 AGAGAGGCGGGCAATATATTTCA 59.672 43.478 3.78 0.00 0.00 2.69
263 264 3.935828 GAGAGAGGCGGGCAATATATTTC 59.064 47.826 3.78 0.00 0.00 2.17
265 266 2.237392 GGAGAGAGGCGGGCAATATATT 59.763 50.000 3.78 0.00 0.00 1.28
267 268 1.267121 GGAGAGAGGCGGGCAATATA 58.733 55.000 3.78 0.00 0.00 0.86
268 269 0.764369 TGGAGAGAGGCGGGCAATAT 60.764 55.000 3.78 0.00 0.00 1.28
270 271 0.764369 TATGGAGAGAGGCGGGCAAT 60.764 55.000 3.78 0.00 0.00 3.56
271 272 0.980754 TTATGGAGAGAGGCGGGCAA 60.981 55.000 3.78 0.00 0.00 4.52
273 274 1.069935 GTTATGGAGAGAGGCGGGC 59.930 63.158 0.00 0.00 0.00 6.13
274 275 0.105039 GTGTTATGGAGAGAGGCGGG 59.895 60.000 0.00 0.00 0.00 6.13
276 277 0.872021 GCGTGTTATGGAGAGAGGCG 60.872 60.000 0.00 0.00 0.00 5.52
277 278 0.175760 TGCGTGTTATGGAGAGAGGC 59.824 55.000 0.00 0.00 0.00 4.70
279 280 2.101415 TGGATGCGTGTTATGGAGAGAG 59.899 50.000 0.00 0.00 0.00 3.20
280 281 2.101415 CTGGATGCGTGTTATGGAGAGA 59.899 50.000 0.00 0.00 0.00 3.10
281 282 2.477825 CTGGATGCGTGTTATGGAGAG 58.522 52.381 0.00 0.00 0.00 3.20
282 283 1.138859 CCTGGATGCGTGTTATGGAGA 59.861 52.381 0.00 0.00 0.00 3.71
283 284 1.138859 TCCTGGATGCGTGTTATGGAG 59.861 52.381 0.00 0.00 0.00 3.86
286 287 2.477825 CTCTCCTGGATGCGTGTTATG 58.522 52.381 0.00 0.00 0.00 1.90
287 288 1.414181 CCTCTCCTGGATGCGTGTTAT 59.586 52.381 0.00 0.00 0.00 1.89
288 289 0.824109 CCTCTCCTGGATGCGTGTTA 59.176 55.000 0.00 0.00 0.00 2.41
291 292 0.467384 ATTCCTCTCCTGGATGCGTG 59.533 55.000 0.00 0.00 35.83 5.34
294 295 2.172293 AGTTGATTCCTCTCCTGGATGC 59.828 50.000 0.00 0.00 35.83 3.91
295 296 4.197750 CAAGTTGATTCCTCTCCTGGATG 58.802 47.826 0.00 0.00 35.83 3.51
296 297 3.848975 ACAAGTTGATTCCTCTCCTGGAT 59.151 43.478 10.54 0.00 35.83 3.41
301 345 4.278975 AGTCACAAGTTGATTCCTCTCC 57.721 45.455 10.54 0.00 36.32 3.71
324 368 4.496360 CAAACTTTTACAAACAACGGGGT 58.504 39.130 0.00 0.00 0.00 4.95
331 375 4.403113 GGGGAGTCCAAACTTTTACAAACA 59.597 41.667 12.30 0.00 35.28 2.83
332 376 4.202182 GGGGGAGTCCAAACTTTTACAAAC 60.202 45.833 12.30 0.00 35.28 2.93
336 380 3.181437 TGAGGGGGAGTCCAAACTTTTAC 60.181 47.826 12.30 0.00 35.28 2.01
349 393 0.042731 TGGTAGACCTTGAGGGGGAG 59.957 60.000 1.54 0.00 40.27 4.30
353 397 2.761208 CACTAGTGGTAGACCTTGAGGG 59.239 54.545 15.49 0.00 40.27 4.30
354 398 2.761208 CCACTAGTGGTAGACCTTGAGG 59.239 54.545 30.57 3.24 45.53 3.86
369 413 6.183360 CCATGAAGGCAATTCTTAACCACTAG 60.183 42.308 0.00 0.00 38.83 2.57
370 414 5.652014 CCATGAAGGCAATTCTTAACCACTA 59.348 40.000 0.00 0.00 38.83 2.74
378 422 6.040166 GTGATATCACCATGAAGGCAATTCTT 59.960 38.462 22.97 0.00 43.14 2.52
402 446 6.697641 TGAAGGTTACCCTCTTATTCTTGT 57.302 37.500 0.00 0.00 41.56 3.16
439 484 0.393077 AACTTGTCACCGTCAGAGGG 59.607 55.000 7.67 7.67 35.02 4.30
444 489 4.004314 TGAAAGAAAACTTGTCACCGTCA 58.996 39.130 0.00 0.00 0.00 4.35
445 490 4.609691 TGAAAGAAAACTTGTCACCGTC 57.390 40.909 0.00 0.00 0.00 4.79
462 507 4.079980 TCCGATGTTCACTTCCTTGAAA 57.920 40.909 0.00 0.00 37.24 2.69
482 527 4.327357 CACCACACAGACGAAGATGTATTC 59.673 45.833 0.00 0.00 30.80 1.75
496 541 2.416701 GGAACAACCAAACACCACACAG 60.417 50.000 0.00 0.00 38.79 3.66
501 546 3.025262 GGTTAGGAACAACCAAACACCA 58.975 45.455 0.17 0.00 46.14 4.17
513 558 7.386025 ACAAGTAAATGAGTTACGGTTAGGAAC 59.614 37.037 0.00 0.00 45.84 3.62
544 589 2.099756 GCAAGGTCAAGTGAGCAAAGTT 59.900 45.455 12.65 0.00 44.42 2.66
545 590 1.678101 GCAAGGTCAAGTGAGCAAAGT 59.322 47.619 12.65 0.00 44.42 2.66
578 623 6.216569 ACAATGCTACGGTGAGATATACAAG 58.783 40.000 0.00 0.00 0.00 3.16
587 632 2.668279 GCCAAAACAATGCTACGGTGAG 60.668 50.000 0.00 0.00 0.00 3.51
589 634 1.668628 GGCCAAAACAATGCTACGGTG 60.669 52.381 0.00 0.00 0.00 4.94
590 635 0.601057 GGCCAAAACAATGCTACGGT 59.399 50.000 0.00 0.00 0.00 4.83
591 636 0.108851 GGGCCAAAACAATGCTACGG 60.109 55.000 4.39 0.00 0.00 4.02
596 641 0.106521 AGTGTGGGCCAAAACAATGC 59.893 50.000 8.40 0.00 0.00 3.56
597 642 2.211806 CAAGTGTGGGCCAAAACAATG 58.788 47.619 8.40 9.63 0.00 2.82
617 662 1.730612 GCAAGTTTAGGCTACGTGGAC 59.269 52.381 1.81 0.00 0.00 4.02
618 663 1.621814 AGCAAGTTTAGGCTACGTGGA 59.378 47.619 1.81 0.00 38.90 4.02
619 664 2.094762 AGCAAGTTTAGGCTACGTGG 57.905 50.000 0.00 0.00 38.90 4.94
624 673 9.681062 ACTTTGATTATTAGCAAGTTTAGGCTA 57.319 29.630 0.00 0.00 41.41 3.93
656 705 3.113043 GGGGTGAATAGGGACAACTACT 58.887 50.000 0.00 0.00 0.00 2.57
667 716 2.090719 TGGACCTAGAGGGGGTGAATAG 60.091 54.545 0.00 0.00 40.27 1.73
676 725 2.436173 GGATCAAACTGGACCTAGAGGG 59.564 54.545 0.00 0.00 40.27 4.30
680 729 4.938226 GTGAAAGGATCAAACTGGACCTAG 59.062 45.833 0.00 0.00 40.50 3.02
689 738 7.740805 AGATAGGGATAGTGAAAGGATCAAAC 58.259 38.462 0.00 0.00 40.50 2.93
690 739 7.016661 GGAGATAGGGATAGTGAAAGGATCAAA 59.983 40.741 0.00 0.00 40.50 2.69
703 752 3.772025 GGTGGTGATGGAGATAGGGATAG 59.228 52.174 0.00 0.00 0.00 2.08
717 766 1.050988 CAGAGGGATCGGGTGGTGAT 61.051 60.000 0.00 0.00 0.00 3.06
718 767 1.685765 CAGAGGGATCGGGTGGTGA 60.686 63.158 0.00 0.00 0.00 4.02
722 771 2.503061 CAGCAGAGGGATCGGGTG 59.497 66.667 0.00 0.00 0.00 4.61
725 774 3.160047 AGCCAGCAGAGGGATCGG 61.160 66.667 0.00 0.00 0.00 4.18
727 776 2.828145 GGAGCCAGCAGAGGGATC 59.172 66.667 0.00 0.00 40.08 3.36
728 777 3.160047 CGGAGCCAGCAGAGGGAT 61.160 66.667 0.00 0.00 0.00 3.85
796 1676 3.370978 CGACAAGTGCCATTTACTACTGG 59.629 47.826 0.00 0.00 35.53 4.00
802 1682 1.535462 ACTGCGACAAGTGCCATTTAC 59.465 47.619 0.00 0.00 0.00 2.01
803 1683 1.890876 ACTGCGACAAGTGCCATTTA 58.109 45.000 0.00 0.00 0.00 1.40
804 1684 1.890876 TACTGCGACAAGTGCCATTT 58.109 45.000 0.00 0.00 0.00 2.32
858 1764 1.529244 GAGCATGTATGGGTGCCCC 60.529 63.158 4.59 3.42 45.71 5.80
870 1777 1.725557 GGCCAGCATCAGTGAGCATG 61.726 60.000 14.37 3.16 0.00 4.06
878 1785 0.108019 TAGAGCATGGCCAGCATCAG 59.892 55.000 23.46 6.79 0.00 2.90
918 1827 2.509964 GGAGATTGGGTGTCCATAACCT 59.490 50.000 0.00 0.00 43.63 3.50
1116 2038 4.711949 CACTTGCCCAGCTCGCCT 62.712 66.667 0.00 0.00 0.00 5.52
1167 2089 3.913711 CGTAAACGAAGAGCAGTGTAGCT 60.914 47.826 0.00 0.00 44.97 3.32
1170 2092 3.558505 GACGTAAACGAAGAGCAGTGTA 58.441 45.455 9.86 0.00 43.02 2.90
1185 2107 2.357760 GTGGCCAAGGCGACGTAA 60.358 61.111 7.24 0.00 39.77 3.18
1299 2221 4.063967 CCGGCGGTGCAGTAGACA 62.064 66.667 19.97 0.00 0.00 3.41
1362 2284 4.742201 GAGACCTTGCGCGCCAGA 62.742 66.667 31.44 15.58 0.00 3.86
1441 2363 4.947147 GTGCACGGCCCTCACCAA 62.947 66.667 0.00 0.00 0.00 3.67
1698 2620 2.792947 GCTCCTCGCCGGGTTGATA 61.793 63.158 2.18 0.00 0.00 2.15
1865 2787 0.456221 TGGAAGTAGCTAGACTGCGC 59.544 55.000 0.00 0.00 35.89 6.09
1869 2791 4.156477 GGATGGATGGAAGTAGCTAGACT 58.844 47.826 0.00 0.00 0.00 3.24
1975 2920 7.202016 ACACAACAACATACTAATTGACCAG 57.798 36.000 0.00 0.00 0.00 4.00
2042 2989 7.813148 TCTTGCAGTAACTAGCTAACACTTAAG 59.187 37.037 0.00 0.00 0.00 1.85
2089 3038 7.119387 TGGTTTCTCTCACTAGATAGTCATGA 58.881 38.462 0.00 0.00 33.46 3.07
2090 3039 7.340122 TGGTTTCTCTCACTAGATAGTCATG 57.660 40.000 0.00 0.00 33.46 3.07
2120 3069 8.110860 ACAAGTACAAAAATCATGGGAAGTAG 57.889 34.615 0.00 0.00 0.00 2.57
2140 3089 5.710099 TGAAAGTTGGAAAGTGAAGACAAGT 59.290 36.000 0.00 0.00 0.00 3.16
2146 3095 5.289434 GCAAAGTGAAAGTTGGAAAGTGAAG 59.711 40.000 0.00 0.00 0.00 3.02
2150 3099 4.799564 TGCAAAGTGAAAGTTGGAAAGT 57.200 36.364 0.00 0.00 0.00 2.66
2152 3101 5.146010 AGTTGCAAAGTGAAAGTTGGAAA 57.854 34.783 0.00 0.00 36.91 3.13
2153 3102 4.799564 AGTTGCAAAGTGAAAGTTGGAA 57.200 36.364 0.00 0.00 33.36 3.53
2155 3104 7.538303 AAAATAGTTGCAAAGTGAAAGTTGG 57.462 32.000 0.00 0.00 0.00 3.77
2214 3330 4.518970 GTGACACTGCTGATTAGGGAAAAA 59.481 41.667 0.00 0.00 0.00 1.94
2219 3335 2.234661 TGAGTGACACTGCTGATTAGGG 59.765 50.000 14.14 0.00 0.00 3.53
2247 3363 9.398170 CGTGACATAGAAAAAGAAAACATGAAT 57.602 29.630 0.00 0.00 0.00 2.57
2248 3364 8.402472 ACGTGACATAGAAAAAGAAAACATGAA 58.598 29.630 0.00 0.00 0.00 2.57
2249 3365 7.925993 ACGTGACATAGAAAAAGAAAACATGA 58.074 30.769 0.00 0.00 0.00 3.07
2262 3378 5.648092 TGAAGAGAGATGACGTGACATAGAA 59.352 40.000 0.00 0.00 0.00 2.10
2282 3398 7.678947 ACATCAAATTACAAGGAGAGTGAAG 57.321 36.000 0.00 0.00 0.00 3.02
2346 3462 8.442384 ACCGCATTGACAAAATTGAATTTTATC 58.558 29.630 14.79 13.96 40.27 1.75
2358 3481 3.791973 ACTCAAACCGCATTGACAAAA 57.208 38.095 0.00 0.00 35.55 2.44
2365 3488 0.958822 GTCCCAACTCAAACCGCATT 59.041 50.000 0.00 0.00 0.00 3.56
2370 3493 1.133915 TCCTGTGTCCCAACTCAAACC 60.134 52.381 0.00 0.00 0.00 3.27
2382 3505 6.801575 TGGTTTTAACTTCAAATCCTGTGTC 58.198 36.000 0.00 0.00 31.32 3.67
2388 3511 6.500910 ACGTCTTGGTTTTAACTTCAAATCC 58.499 36.000 0.00 0.00 0.00 3.01
2405 3528 7.043590 CGAAATAGACATAGGGTTAACGTCTTG 60.044 40.741 15.35 6.95 37.98 3.02
2408 3531 6.268566 ACGAAATAGACATAGGGTTAACGTC 58.731 40.000 0.00 1.18 0.00 4.34
2453 3588 2.222953 GCGCAAGTAATTTAGTGACCGG 60.223 50.000 0.30 0.00 41.68 5.28
2471 3606 1.735571 TGAAAGATTCCCGTAAAGCGC 59.264 47.619 0.00 0.00 39.71 5.92
2472 3607 4.413495 TTTGAAAGATTCCCGTAAAGCG 57.587 40.909 0.00 0.00 40.95 4.68
2481 3616 8.360390 ACTACACAGGAAAATTTGAAAGATTCC 58.640 33.333 13.59 13.59 39.85 3.01
2539 3678 6.763135 TGAGAGAAACCACATGATGTATTAGC 59.237 38.462 0.00 0.00 0.00 3.09
2602 3777 6.264518 TGCATGATGCTGATGAATGAACTAAT 59.735 34.615 19.19 0.00 45.31 1.73
2620 3795 2.281070 GCGGATCCGGTGCATGAT 60.281 61.111 33.98 0.00 40.19 2.45
2624 3799 3.469970 AGATGCGGATCCGGTGCA 61.470 61.111 33.98 23.83 43.67 4.57
2628 3803 2.031616 ATGCAGATGCGGATCCGG 59.968 61.111 33.98 18.62 45.83 5.14
2669 3844 1.028330 CACTGCACCCTGCCTGTATG 61.028 60.000 0.00 0.00 44.23 2.39
2670 3845 1.200760 TCACTGCACCCTGCCTGTAT 61.201 55.000 0.00 0.00 44.23 2.29
2671 3846 1.841103 TCACTGCACCCTGCCTGTA 60.841 57.895 0.00 0.00 44.23 2.74
2672 3847 3.170672 TCACTGCACCCTGCCTGT 61.171 61.111 0.00 0.00 44.23 4.00
2673 3848 2.670934 GTCACTGCACCCTGCCTG 60.671 66.667 0.00 0.00 44.23 4.85
2675 3850 4.269523 TGGTCACTGCACCCTGCC 62.270 66.667 0.00 0.00 44.23 4.85
2678 3895 3.941188 CGGTGGTCACTGCACCCT 61.941 66.667 0.00 0.00 35.26 4.34
2695 3912 1.355971 CACCTGCATGTACGTGGTAC 58.644 55.000 16.68 1.00 39.24 3.34
2696 3913 0.248012 CCACCTGCATGTACGTGGTA 59.752 55.000 19.14 0.00 40.77 3.25
2697 3914 1.003839 CCACCTGCATGTACGTGGT 60.004 57.895 19.14 5.73 40.77 4.16
2699 3916 1.067142 AGTACCACCTGCATGTACGTG 60.067 52.381 10.89 10.89 39.77 4.49
2700 3917 1.263356 AGTACCACCTGCATGTACGT 58.737 50.000 0.00 0.00 39.77 3.57
2701 3918 2.426024 AGTAGTACCACCTGCATGTACG 59.574 50.000 0.00 0.00 39.77 3.67
2738 3955 8.158789 AGATCCAATTGAAAATTTGTCCACATT 58.841 29.630 7.12 0.00 0.00 2.71
2741 3958 7.153985 TCAGATCCAATTGAAAATTTGTCCAC 58.846 34.615 7.12 0.00 0.00 4.02
2754 3971 5.231357 CACGCATCAAATTCAGATCCAATTG 59.769 40.000 0.00 0.00 0.00 2.32
2760 3977 8.688184 CATTAATTCACGCATCAAATTCAGATC 58.312 33.333 0.00 0.00 0.00 2.75
2775 3992 5.801350 ATGACCTGACACATTAATTCACG 57.199 39.130 0.00 0.00 0.00 4.35
2784 4001 8.206867 GCCATGTATATATATGACCTGACACAT 58.793 37.037 18.23 2.19 0.00 3.21
2793 4010 6.918892 TTTGGCGCCATGTATATATATGAC 57.081 37.500 33.25 8.11 0.00 3.06
2794 4011 9.620259 TTAATTTGGCGCCATGTATATATATGA 57.380 29.630 33.25 7.34 0.00 2.15
2818 4035 3.403968 TGCACGCAAGGTAATTCAGTTA 58.596 40.909 0.00 0.00 46.39 2.24
2820 4037 1.890876 TGCACGCAAGGTAATTCAGT 58.109 45.000 0.00 0.00 46.39 3.41
2830 4048 3.403613 TTACTATGCATTGCACGCAAG 57.596 42.857 14.66 11.35 43.04 4.01
2831 4049 4.096231 AGAATTACTATGCATTGCACGCAA 59.904 37.500 14.66 6.95 43.04 4.85


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

AutoCloner maintained by Alex Coulton.