Multiple sequence alignment - TraesCS6D01G174300

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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 TraesCS6D01G174300 chr6D 100.000 5146 0 0 1 5146 163333741 163338886 0.000000e+00 9503.0
1 TraesCS6D01G174300 chr6D 89.877 2282 201 14 1167 3426 441769846 441767573 0.000000e+00 2907.0
2 TraesCS6D01G174300 chr6D 95.327 428 20 0 3742 4169 441759830 441759403 0.000000e+00 680.0
3 TraesCS6D01G174300 chr6D 92.988 328 23 0 3422 3749 441765306 441764979 3.600000e-131 479.0
4 TraesCS6D01G174300 chr6D 82.828 297 26 10 4604 4898 441752015 441751742 5.150000e-60 243.0
5 TraesCS6D01G174300 chr6D 86.598 97 8 4 4918 5009 450140453 450140549 9.120000e-18 102.0
6 TraesCS6D01G174300 chr6B 90.560 3284 271 19 1167 4421 667781338 667778065 0.000000e+00 4311.0
7 TraesCS6D01G174300 chr6B 96.249 1893 62 4 2587 4472 298822172 298820282 0.000000e+00 3094.0
8 TraesCS6D01G174300 chr6B 92.419 1451 89 5 1167 2596 298823975 298822525 0.000000e+00 2050.0
9 TraesCS6D01G174300 chr6B 94.939 494 22 3 4460 4950 298820266 298819773 0.000000e+00 771.0
10 TraesCS6D01G174300 chr6B 93.000 100 7 0 5047 5146 298818493 298818394 4.150000e-31 147.0
11 TraesCS6D01G174300 chr6A 95.396 2411 89 7 1169 3558 223555335 223557744 0.000000e+00 3818.0
12 TraesCS6D01G174300 chr6A 91.347 1849 132 15 2585 4421 591021544 591019712 0.000000e+00 2503.0
13 TraesCS6D01G174300 chr6A 86.564 1429 154 18 1197 2589 591024620 591023194 0.000000e+00 1541.0
14 TraesCS6D01G174300 chr6A 95.515 758 15 8 3554 4311 223560010 223560748 0.000000e+00 1194.0
15 TraesCS6D01G174300 chr6A 94.016 635 24 7 4329 4951 223561006 223561638 0.000000e+00 950.0
16 TraesCS6D01G174300 chr6A 95.255 569 18 2 6 567 223554211 223554777 0.000000e+00 893.0
17 TraesCS6D01G174300 chr6A 94.265 279 15 1 851 1128 223555070 223555348 4.760000e-115 425.0
18 TraesCS6D01G174300 chr6A 88.889 261 15 7 585 845 223554763 223555009 5.000000e-80 309.0
19 TraesCS6D01G174300 chr6A 85.714 154 6 4 5009 5146 223562889 223563042 1.150000e-31 148.0
20 TraesCS6D01G174300 chr6A 90.323 93 9 0 4916 5008 472342498 472342590 7.000000e-24 122.0
21 TraesCS6D01G174300 chr1B 89.510 143 10 2 5009 5146 345419974 345419832 5.300000e-40 176.0
22 TraesCS6D01G174300 chr1B 91.919 99 8 0 5047 5145 553027507 553027605 6.950000e-29 139.0
23 TraesCS6D01G174300 chr1B 89.535 86 9 0 4923 5008 639944077 639943992 5.450000e-20 110.0
24 TraesCS6D01G174300 chr1B 97.368 38 1 0 5009 5046 553027453 553027490 1.200000e-06 65.8
25 TraesCS6D01G174300 chr4D 94.118 102 4 2 5046 5145 324402801 324402902 2.480000e-33 154.0
26 TraesCS6D01G174300 chr7A 93.069 101 5 2 5047 5146 218206905 218207004 4.150000e-31 147.0
27 TraesCS6D01G174300 chr7B 92.157 102 6 1 5047 5146 196392887 196392786 5.370000e-30 143.0
28 TraesCS6D01G174300 chr7B 89.655 58 3 3 1111 1168 697430919 697430973 2.570000e-08 71.3
29 TraesCS6D01G174300 chr2D 92.079 101 8 0 5046 5146 642369142 642369242 5.370000e-30 143.0
30 TraesCS6D01G174300 chr2D 81.690 142 10 3 5009 5134 560982891 560983032 2.530000e-18 104.0
31 TraesCS6D01G174300 chr2D 100.000 44 0 0 1125 1168 74988622 74988665 1.190000e-11 82.4
32 TraesCS6D01G174300 chr2D 95.238 42 0 2 174 215 247830358 247830397 1.200000e-06 65.8
33 TraesCS6D01G174300 chr3B 91.919 99 8 0 5047 5145 664934715 664934813 6.950000e-29 139.0
34 TraesCS6D01G174300 chr3B 95.455 44 1 1 172 215 237334286 237334328 9.250000e-08 69.4
35 TraesCS6D01G174300 chr3D 83.766 154 9 6 5009 5146 14120399 14120246 1.160000e-26 132.0
36 TraesCS6D01G174300 chr3D 82.707 133 7 6 5009 5125 346339214 346339346 2.530000e-18 104.0
37 TraesCS6D01G174300 chr3D 84.783 92 14 0 4918 5009 169472163 169472072 5.490000e-15 93.5
38 TraesCS6D01G174300 chr3D 83.505 97 14 2 4914 5010 14074553 14074459 7.100000e-14 89.8
39 TraesCS6D01G174300 chr7D 90.217 92 9 0 4918 5009 131785144 131785053 2.520000e-23 121.0
40 TraesCS6D01G174300 chr7D 78.710 155 16 6 5009 5146 167701173 167701327 2.550000e-13 87.9
41 TraesCS6D01G174300 chr7D 95.238 42 0 2 174 215 602266424 602266385 1.200000e-06 65.8
42 TraesCS6D01G174300 chr2B 88.172 93 11 0 4916 5008 48217103 48217195 1.510000e-20 111.0
43 TraesCS6D01G174300 chr2B 91.525 59 1 4 1113 1168 636177659 636177716 1.540000e-10 78.7
44 TraesCS6D01G174300 chr2B 92.453 53 2 2 1117 1168 291598947 291598998 1.990000e-09 75.0
45 TraesCS6D01G174300 chr2B 95.238 42 0 2 174 215 323085372 323085411 1.200000e-06 65.8
46 TraesCS6D01G174300 chr5B 82.143 140 9 3 5009 5132 282263522 282263661 7.050000e-19 106.0
47 TraesCS6D01G174300 chr5B 84.946 93 12 2 4918 5009 207065551 207065642 5.490000e-15 93.5
48 TraesCS6D01G174300 chr5B 95.833 48 2 0 1121 1168 473657023 473657070 1.540000e-10 78.7
49 TraesCS6D01G174300 chr5B 95.349 43 1 1 174 216 428128994 428128953 3.330000e-07 67.6
50 TraesCS6D01G174300 chr5B 97.368 38 1 0 5009 5046 403515039 403515076 1.200000e-06 65.8
51 TraesCS6D01G174300 chr1D 87.640 89 10 1 4918 5005 415126329 415126417 9.120000e-18 102.0
52 TraesCS6D01G174300 chr2A 100.000 45 0 0 1124 1168 605131198 605131242 3.300000e-12 84.2
53 TraesCS6D01G174300 chr2A 95.238 42 0 2 174 215 285622300 285622339 1.200000e-06 65.8
54 TraesCS6D01G174300 chr4A 97.826 46 1 0 1123 1168 740287692 740287647 4.270000e-11 80.5
55 TraesCS6D01G174300 chr4A 97.826 46 1 0 1123 1168 740322469 740322424 4.270000e-11 80.5
56 TraesCS6D01G174300 chr4A 97.826 46 1 0 1123 1168 740368792 740368747 4.270000e-11 80.5
57 TraesCS6D01G174300 chrUn 100.000 38 0 0 174 211 19198768 19198805 2.570000e-08 71.3
58 TraesCS6D01G174300 chr4B 97.500 40 0 1 172 210 615160735 615160774 3.330000e-07 67.6


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 TraesCS6D01G174300 chr6D 163333741 163338886 5145 False 9503.000000 9503 100.000000 1 5146 1 chr6D.!!$F1 5145
1 TraesCS6D01G174300 chr6D 441764979 441769846 4867 True 1693.000000 2907 91.432500 1167 3749 2 chr6D.!!$R3 2582
2 TraesCS6D01G174300 chr6B 667778065 667781338 3273 True 4311.000000 4311 90.560000 1167 4421 1 chr6B.!!$R1 3254
3 TraesCS6D01G174300 chr6B 298818394 298823975 5581 True 1515.500000 3094 94.151750 1167 5146 4 chr6B.!!$R2 3979
4 TraesCS6D01G174300 chr6A 591019712 591024620 4908 True 2022.000000 2503 88.955500 1197 4421 2 chr6A.!!$R1 3224
5 TraesCS6D01G174300 chr6A 223554211 223563042 8831 False 1105.285714 3818 92.721429 6 5146 7 chr6A.!!$F2 5140

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
265 273 0.101759 CGGCATCCTTCTGGCATTTG 59.898 55.000 0.00 0.00 41.51 2.32 F
684 692 0.115349 AGTAGTGTGGCCAGGAGACT 59.885 55.000 5.11 8.85 46.44 3.24 F
1891 1990 0.028637 GCAGCATAAGAAGCTTCGGC 59.971 55.000 20.43 20.41 41.14 5.54 F
2478 2577 0.037697 TCACGCGCCTTGACATAAGT 60.038 50.000 5.73 0.00 0.00 2.24 F
2757 4873 1.079490 ACCATCCTTGACCTCTCCTCA 59.921 52.381 0.00 0.00 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1493 1557 0.181587 TGCGAGTTTCCCACCAAAGA 59.818 50.000 0.00 0.00 0.00 2.52 R
1936 2035 0.531090 AAGTTTACGGCGCTGACACA 60.531 50.000 25.98 1.51 0.00 3.72 R
2762 4878 0.178950 TGGGATCTCGCCAGATAGCT 60.179 55.000 0.00 0.00 39.71 3.32 R
3802 10466 1.751924 AGCTGTAGACATCGACCTTCC 59.248 52.381 0.00 0.00 0.00 3.46 R
4504 11447 2.233676 GCTAATTTCCCACCCACTTTGG 59.766 50.000 0.00 0.00 37.25 3.28 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
91 99 5.336213 GGATTAAACCTCCTTTTCGGGAAAC 60.336 44.000 0.00 0.00 34.66 2.78
265 273 0.101759 CGGCATCCTTCTGGCATTTG 59.898 55.000 0.00 0.00 41.51 2.32
335 343 3.325135 AGAGGAAATAATACCAGGCGAGG 59.675 47.826 0.00 0.00 0.00 4.63
360 368 6.866770 GTCGACGGATATCCATGAAAGAATAA 59.133 38.462 21.70 0.00 35.14 1.40
361 369 7.384115 GTCGACGGATATCCATGAAAGAATAAA 59.616 37.037 21.70 0.00 35.14 1.40
363 371 7.148573 CGACGGATATCCATGAAAGAATAAAGG 60.149 40.741 21.70 1.95 35.14 3.11
364 372 6.942576 ACGGATATCCATGAAAGAATAAAGGG 59.057 38.462 21.70 1.58 35.14 3.95
365 373 6.127897 CGGATATCCATGAAAGAATAAAGGGC 60.128 42.308 21.70 0.00 35.14 5.19
366 374 6.721208 GGATATCCATGAAAGAATAAAGGGCA 59.279 38.462 17.34 0.00 35.64 5.36
367 375 7.398332 GGATATCCATGAAAGAATAAAGGGCAT 59.602 37.037 17.34 0.00 35.64 4.40
383 391 5.972107 AGGGCATCATTATTGCTAATGTC 57.028 39.130 5.81 0.00 43.15 3.06
409 417 2.169352 TCTAAGAGCAACTCCATCAGGC 59.831 50.000 0.00 0.00 33.74 4.85
412 420 1.919600 GAGCAACTCCATCAGGCCCT 61.920 60.000 0.00 0.00 33.74 5.19
504 512 6.399743 TGTTTGAAAGGAGGTTAAACCAAAC 58.600 36.000 11.56 11.56 41.95 2.93
515 523 5.362430 AGGTTAAACCAAACATTCAGCTTCA 59.638 36.000 0.00 0.00 41.95 3.02
521 529 1.542492 AACATTCAGCTTCAGCAGGG 58.458 50.000 0.75 0.00 45.16 4.45
554 562 1.414181 GAAGGAAGATGCCGGATGAGA 59.586 52.381 5.05 0.00 0.00 3.27
567 575 3.493350 CCGGATGAGACCAGGAATAACAG 60.493 52.174 0.00 0.00 0.00 3.16
568 576 3.471680 GGATGAGACCAGGAATAACAGC 58.528 50.000 0.00 0.00 0.00 4.40
569 577 3.118261 GGATGAGACCAGGAATAACAGCA 60.118 47.826 0.00 0.00 0.00 4.41
570 578 4.445448 GGATGAGACCAGGAATAACAGCAT 60.445 45.833 0.00 0.00 0.00 3.79
571 579 4.142609 TGAGACCAGGAATAACAGCATC 57.857 45.455 0.00 0.00 0.00 3.91
572 580 3.776969 TGAGACCAGGAATAACAGCATCT 59.223 43.478 0.00 0.00 0.00 2.90
573 581 4.141846 TGAGACCAGGAATAACAGCATCTC 60.142 45.833 0.00 0.00 0.00 2.75
574 582 4.036518 AGACCAGGAATAACAGCATCTCT 58.963 43.478 0.00 0.00 0.00 3.10
575 583 4.100808 AGACCAGGAATAACAGCATCTCTC 59.899 45.833 0.00 0.00 0.00 3.20
576 584 3.776969 ACCAGGAATAACAGCATCTCTCA 59.223 43.478 0.00 0.00 0.00 3.27
577 585 4.225942 ACCAGGAATAACAGCATCTCTCAA 59.774 41.667 0.00 0.00 0.00 3.02
578 586 5.188434 CCAGGAATAACAGCATCTCTCAAA 58.812 41.667 0.00 0.00 0.00 2.69
579 587 5.649395 CCAGGAATAACAGCATCTCTCAAAA 59.351 40.000 0.00 0.00 0.00 2.44
580 588 6.151648 CCAGGAATAACAGCATCTCTCAAAAA 59.848 38.462 0.00 0.00 0.00 1.94
609 617 6.551227 AGTCCAGGAATAACAAGAAAGCTTTT 59.449 34.615 14.05 0.00 30.14 2.27
612 620 9.747898 TCCAGGAATAACAAGAAAGCTTTTATA 57.252 29.630 14.05 3.36 30.14 0.98
634 642 3.674997 TCCTGTTTGAAAGGAATCTCGG 58.325 45.455 0.00 0.00 40.95 4.63
648 656 5.010213 AGGAATCTCGGCTAGTCTTATGAAC 59.990 44.000 0.00 0.00 0.00 3.18
684 692 0.115349 AGTAGTGTGGCCAGGAGACT 59.885 55.000 5.11 8.85 46.44 3.24
722 730 1.894466 CTCCAAAATGTGTGGATGCCA 59.106 47.619 0.00 0.00 44.19 4.92
755 763 3.966543 CCACCGTGGCCCCTCTTT 61.967 66.667 4.16 0.00 0.00 2.52
756 764 2.359975 CACCGTGGCCCCTCTTTC 60.360 66.667 0.00 0.00 0.00 2.62
759 767 1.074951 CCGTGGCCCCTCTTTCTTT 59.925 57.895 0.00 0.00 0.00 2.52
788 796 1.302192 GGTCAACGCTGGGCTTACA 60.302 57.895 0.00 0.00 0.00 2.41
791 799 2.358247 AACGCTGGGCTTACACCG 60.358 61.111 0.00 0.00 0.00 4.94
805 813 2.910688 ACACCGGCCTGAACATATAG 57.089 50.000 0.00 0.00 0.00 1.31
809 817 4.347000 ACACCGGCCTGAACATATAGTAAT 59.653 41.667 0.00 0.00 0.00 1.89
845 853 8.515414 GCCAATTACAAAAACAGAGTAGAGATT 58.485 33.333 0.00 0.00 0.00 2.40
846 854 9.831737 CCAATTACAAAAACAGAGTAGAGATTG 57.168 33.333 0.00 0.00 0.00 2.67
847 855 9.831737 CAATTACAAAAACAGAGTAGAGATTGG 57.168 33.333 0.00 0.00 0.00 3.16
848 856 7.979444 TTACAAAAACAGAGTAGAGATTGGG 57.021 36.000 0.00 0.00 0.00 4.12
849 857 5.941788 ACAAAAACAGAGTAGAGATTGGGT 58.058 37.500 0.00 0.00 0.00 4.51
883 946 1.618888 CCCGAGTCCCTCTCTAACCAA 60.619 57.143 0.00 0.00 40.75 3.67
890 953 0.991920 CCTCTCTAACCAAAGCCCCA 59.008 55.000 0.00 0.00 0.00 4.96
905 968 1.289160 CCCCATGAGTTCCTCTTCCA 58.711 55.000 0.00 0.00 0.00 3.53
906 969 1.635487 CCCCATGAGTTCCTCTTCCAA 59.365 52.381 0.00 0.00 0.00 3.53
911 974 3.943671 TGAGTTCCTCTTCCAACCAAA 57.056 42.857 0.00 0.00 0.00 3.28
912 975 4.243793 TGAGTTCCTCTTCCAACCAAAA 57.756 40.909 0.00 0.00 0.00 2.44
914 977 4.644685 TGAGTTCCTCTTCCAACCAAAAAG 59.355 41.667 0.00 0.00 0.00 2.27
915 978 3.384789 AGTTCCTCTTCCAACCAAAAAGC 59.615 43.478 0.00 0.00 0.00 3.51
916 979 3.312736 TCCTCTTCCAACCAAAAAGCT 57.687 42.857 0.00 0.00 0.00 3.74
917 980 3.222603 TCCTCTTCCAACCAAAAAGCTC 58.777 45.455 0.00 0.00 0.00 4.09
919 982 1.953686 TCTTCCAACCAAAAAGCTCCG 59.046 47.619 0.00 0.00 0.00 4.63
953 1017 8.665685 CCTGTTCTTTACAACAATACTGGTATC 58.334 37.037 0.00 0.00 35.83 2.24
971 1035 3.939740 ATCTCTGCTGCCCAAATCTTA 57.060 42.857 0.00 0.00 0.00 2.10
984 1048 4.750098 CCCAAATCTTACCTATACAGTGCG 59.250 45.833 0.00 0.00 0.00 5.34
992 1056 2.288666 CCTATACAGTGCGCAAACCAT 58.711 47.619 14.00 6.34 0.00 3.55
1093 1157 7.334421 GCTTCTTCCTGTTATTCACAATACTGA 59.666 37.037 0.00 0.00 33.87 3.41
1095 1159 9.739276 TTCTTCCTGTTATTCACAATACTGATT 57.261 29.630 0.00 0.00 33.87 2.57
1120 1184 1.382692 GCTGCCCAGATCTTCTTGCC 61.383 60.000 0.00 0.00 0.00 4.52
1121 1185 0.255318 CTGCCCAGATCTTCTTGCCT 59.745 55.000 0.00 0.00 0.00 4.75
1122 1186 1.487976 CTGCCCAGATCTTCTTGCCTA 59.512 52.381 0.00 0.00 0.00 3.93
1123 1187 1.210478 TGCCCAGATCTTCTTGCCTAC 59.790 52.381 0.00 0.00 0.00 3.18
1124 1188 1.210478 GCCCAGATCTTCTTGCCTACA 59.790 52.381 0.00 0.00 0.00 2.74
1125 1189 2.744494 GCCCAGATCTTCTTGCCTACAG 60.744 54.545 0.00 0.00 0.00 2.74
1126 1190 2.503356 CCCAGATCTTCTTGCCTACAGT 59.497 50.000 0.00 0.00 0.00 3.55
1127 1191 3.054802 CCCAGATCTTCTTGCCTACAGTT 60.055 47.826 0.00 0.00 0.00 3.16
1128 1192 4.162320 CCCAGATCTTCTTGCCTACAGTTA 59.838 45.833 0.00 0.00 0.00 2.24
1129 1193 5.112686 CCAGATCTTCTTGCCTACAGTTAC 58.887 45.833 0.00 0.00 0.00 2.50
1130 1194 5.112686 CAGATCTTCTTGCCTACAGTTACC 58.887 45.833 0.00 0.00 0.00 2.85
1131 1195 3.587797 TCTTCTTGCCTACAGTTACCG 57.412 47.619 0.00 0.00 0.00 4.02
1132 1196 3.159472 TCTTCTTGCCTACAGTTACCGA 58.841 45.455 0.00 0.00 0.00 4.69
1133 1197 3.575256 TCTTCTTGCCTACAGTTACCGAA 59.425 43.478 0.00 0.00 0.00 4.30
1134 1198 4.039488 TCTTCTTGCCTACAGTTACCGAAA 59.961 41.667 0.00 0.00 0.00 3.46
1135 1199 4.339872 TCTTGCCTACAGTTACCGAAAA 57.660 40.909 0.00 0.00 0.00 2.29
1136 1200 4.706035 TCTTGCCTACAGTTACCGAAAAA 58.294 39.130 0.00 0.00 0.00 1.94
1137 1201 4.753107 TCTTGCCTACAGTTACCGAAAAAG 59.247 41.667 0.00 0.00 0.00 2.27
1138 1202 3.404899 TGCCTACAGTTACCGAAAAAGG 58.595 45.455 0.00 0.00 37.30 3.11
1139 1203 2.745821 GCCTACAGTTACCGAAAAAGGG 59.254 50.000 0.00 0.00 35.02 3.95
1140 1204 3.808265 GCCTACAGTTACCGAAAAAGGGT 60.808 47.826 0.00 0.00 41.62 4.34
1141 1205 4.392047 CCTACAGTTACCGAAAAAGGGTT 58.608 43.478 0.00 0.00 38.99 4.11
1142 1206 4.823442 CCTACAGTTACCGAAAAAGGGTTT 59.177 41.667 0.00 0.00 38.99 3.27
1143 1207 4.906065 ACAGTTACCGAAAAAGGGTTTC 57.094 40.909 0.00 0.00 38.99 2.78
1144 1208 3.633525 ACAGTTACCGAAAAAGGGTTTCC 59.366 43.478 0.00 0.00 38.99 3.13
1145 1209 3.005050 CAGTTACCGAAAAAGGGTTTCCC 59.995 47.826 0.00 0.00 45.90 3.97
1257 1321 1.372683 GAGCTCACCTGTGCTTGGA 59.627 57.895 9.40 0.00 43.90 3.53
1265 1329 1.004044 ACCTGTGCTTGGAAGATGGAG 59.996 52.381 0.00 0.00 0.00 3.86
1399 1463 3.181329 TGCCTCCTCAAGAATCTTACCA 58.819 45.455 0.00 0.00 0.00 3.25
1493 1557 4.724279 ACCTAGACCTTTCCAACAATGT 57.276 40.909 0.00 0.00 0.00 2.71
1525 1589 2.751166 ACTCGCAGCTGACATAAACT 57.249 45.000 20.43 0.00 0.00 2.66
1635 1713 1.442857 GTCACTGCTCCTCGACACG 60.443 63.158 0.00 0.00 0.00 4.49
1709 1787 2.125512 GGTGCTGACACTAGCGGG 60.126 66.667 0.00 0.00 46.61 6.13
1830 1929 3.755905 CTGAGCTCAGTCTCTTGAGTGTA 59.244 47.826 31.71 0.00 45.07 2.90
1860 1959 0.828762 TGCTGCAAGGCACAATTCCT 60.829 50.000 0.00 0.00 37.29 3.36
1891 1990 0.028637 GCAGCATAAGAAGCTTCGGC 59.971 55.000 20.43 20.41 41.14 5.54
1912 2011 3.001939 GCGCTTGTACATGTATACCAACC 59.998 47.826 9.18 0.06 0.00 3.77
1913 2012 4.185394 CGCTTGTACATGTATACCAACCA 58.815 43.478 9.18 0.00 0.00 3.67
1936 2035 1.833630 TCACAGGCGAGATTTCATCCT 59.166 47.619 0.00 0.00 0.00 3.24
1943 2042 2.606725 GCGAGATTTCATCCTGTGTCAG 59.393 50.000 0.00 0.00 0.00 3.51
1971 2070 3.788227 AACTTGGTGGAGCTTGATGTA 57.212 42.857 0.00 0.00 0.00 2.29
2032 2131 2.772515 GGTAGGCTCATCAACCTTACCT 59.227 50.000 0.00 0.00 37.50 3.08
2049 2148 6.053005 CCTTACCTTGTTGTTTCTCTACACA 58.947 40.000 0.00 0.00 32.22 3.72
2071 2170 7.178983 ACACAAATCAACTTCATGGGTCAATAT 59.821 33.333 0.00 0.00 0.00 1.28
2082 2181 1.537202 GGGTCAATATCGCCAAGCATC 59.463 52.381 0.00 0.00 0.00 3.91
2212 2311 0.460311 CAATAACCTCTCGGGCGAGT 59.540 55.000 0.00 0.00 42.49 4.18
2415 2514 5.067283 GCTAACGGTGGTTATGATCCAAAAT 59.933 40.000 0.00 0.00 37.94 1.82
2466 2565 1.017177 TACCATGGAACTTCACGCGC 61.017 55.000 21.47 0.00 0.00 6.86
2478 2577 0.037697 TCACGCGCCTTGACATAAGT 60.038 50.000 5.73 0.00 0.00 2.24
2597 4350 4.771114 TGATGGGTATTTCACAGGTAGG 57.229 45.455 0.00 0.00 30.72 3.18
2598 4351 4.108570 TGATGGGTATTTCACAGGTAGGT 58.891 43.478 0.00 0.00 30.72 3.08
2734 4850 2.752903 GCGTTTGGATTTATGTCAGGGT 59.247 45.455 0.00 0.00 0.00 4.34
2757 4873 1.079490 ACCATCCTTGACCTCTCCTCA 59.921 52.381 0.00 0.00 0.00 3.86
2762 4878 3.520696 TCCTTGACCTCTCCTCAAATGA 58.479 45.455 0.00 0.00 0.00 2.57
2783 4899 1.337635 GCTATCTGGCGAGATCCCAAG 60.338 57.143 15.10 8.07 39.76 3.61
2847 4963 3.264706 TGAATCAACTCACGGGGGAAATA 59.735 43.478 0.00 0.00 0.00 1.40
2975 5091 6.346040 GCAAGAGCAAACAACAACAATGATAC 60.346 38.462 0.00 0.00 41.58 2.24
3034 5150 3.758023 CAGTATCATGCTTGTGGGTTTGA 59.242 43.478 0.00 0.00 0.00 2.69
3035 5151 4.400251 CAGTATCATGCTTGTGGGTTTGAT 59.600 41.667 0.00 0.00 0.00 2.57
3055 5171 5.001232 TGATAGTTGGTGGTTTCTTGCTAC 58.999 41.667 0.00 0.00 0.00 3.58
3108 5224 1.425066 TCATGGAAGCTGACCCAGTTT 59.575 47.619 8.45 0.00 37.60 2.66
3272 5389 1.971695 GGAACGCCCAGAACCTTGG 60.972 63.158 0.00 0.00 38.00 3.61
3802 10466 2.702592 TACCGGCTTAAGGTGAATGG 57.297 50.000 0.00 0.00 42.83 3.16
4157 10821 7.811117 TCTAGAATCCTAGACTAACTGAAGC 57.189 40.000 0.00 0.00 44.69 3.86
4175 10839 3.644884 AGCCGTAGAGGAATAACGATG 57.355 47.619 0.00 0.00 45.00 3.84
4242 10915 8.752766 AATGATGTGTGATTTTCAGTTTCATC 57.247 30.769 0.00 0.00 0.00 2.92
4334 11247 1.597937 GCCACAAACTGCTGAAAGACG 60.598 52.381 0.00 0.00 34.07 4.18
4443 11356 8.650143 ATGGATGTTGGACTACAAAATTACTT 57.350 30.769 0.00 0.00 41.58 2.24
4472 11387 2.708865 CTGCGTGTGTGTGTGTGG 59.291 61.111 0.00 0.00 0.00 4.17
4504 11447 4.749976 CTCTTTAGAAGGCTGGTACTGAC 58.250 47.826 0.00 0.00 34.57 3.51
4664 11608 6.324819 ACACAACAAAACATCTGAACTTCTG 58.675 36.000 0.00 0.00 0.00 3.02
4746 11690 7.735917 TCTTCAAGAGAGAAACATAACTGGAA 58.264 34.615 0.00 0.00 0.00 3.53
4902 11847 2.191400 ACTACACATGGCAGGATCTGT 58.809 47.619 5.99 2.26 33.43 3.41
4913 11858 4.125703 GGCAGGATCTGTTTCTGATGTAG 58.874 47.826 0.00 0.00 33.43 2.74
4930 11875 4.650972 TGTAGTTAAGGCCAACTCCAAT 57.349 40.909 11.54 0.00 39.45 3.16
4934 11880 1.544724 TAAGGCCAACTCCAATGCAC 58.455 50.000 5.01 0.00 0.00 4.57
4955 11901 3.451894 CCCAAATGGTCCAGCCGC 61.452 66.667 0.00 0.00 41.21 6.53
4956 11902 2.676121 CCAAATGGTCCAGCCGCA 60.676 61.111 0.00 0.00 41.21 5.69
4959 11905 1.754234 AAATGGTCCAGCCGCATCC 60.754 57.895 0.00 0.00 41.21 3.51
4960 11906 4.552365 ATGGTCCAGCCGCATCCG 62.552 66.667 0.00 0.00 41.21 4.18
4962 11908 4.778143 GGTCCAGCCGCATCCGTT 62.778 66.667 0.00 0.00 0.00 4.44
4964 11910 2.745884 TCCAGCCGCATCCGTTTG 60.746 61.111 0.00 0.00 0.00 2.93
4966 11912 3.814268 CAGCCGCATCCGTTTGGG 61.814 66.667 0.00 0.00 35.24 4.12
4969 11915 4.733542 CCGCATCCGTTTGGGGGT 62.734 66.667 9.33 0.00 43.92 4.95
4970 11916 2.269562 CGCATCCGTTTGGGGGTA 59.730 61.111 0.00 0.00 36.01 3.69
4971 11917 1.377463 CGCATCCGTTTGGGGGTAA 60.377 57.895 0.00 0.00 36.01 2.85
4972 11918 0.961358 CGCATCCGTTTGGGGGTAAA 60.961 55.000 0.00 0.00 36.01 2.01
4978 11924 3.418022 GTTTGGGGGTAAACGGACA 57.582 52.632 0.00 0.00 31.67 4.02
4979 11925 0.953727 GTTTGGGGGTAAACGGACAC 59.046 55.000 0.00 0.00 31.67 3.67
4981 11927 0.549950 TTGGGGGTAAACGGACACAA 59.450 50.000 0.00 0.00 0.00 3.33
4982 11928 0.549950 TGGGGGTAAACGGACACAAA 59.450 50.000 0.00 0.00 0.00 2.83
4983 11929 1.145325 TGGGGGTAAACGGACACAAAT 59.855 47.619 0.00 0.00 0.00 2.32
4985 11931 2.506444 GGGGTAAACGGACACAAATCA 58.494 47.619 0.00 0.00 0.00 2.57
4990 11936 1.512156 AACGGACACAAATCACGGCC 61.512 55.000 0.00 0.00 0.00 6.13
4991 11937 2.686816 CGGACACAAATCACGGCCC 61.687 63.158 0.00 0.00 0.00 5.80
4993 11939 1.175983 GGACACAAATCACGGCCCAA 61.176 55.000 0.00 0.00 0.00 4.12
4995 11941 0.753479 ACACAAATCACGGCCCAACA 60.753 50.000 0.00 0.00 0.00 3.33
4996 11942 0.318614 CACAAATCACGGCCCAACAC 60.319 55.000 0.00 0.00 0.00 3.32
4997 11943 1.081509 CAAATCACGGCCCAACACG 60.082 57.895 0.00 0.00 0.00 4.49
4998 11944 2.914908 AAATCACGGCCCAACACGC 61.915 57.895 0.00 0.00 0.00 5.34
5050 13213 2.094234 GCCCGGCATAAGAACAACATTT 60.094 45.455 3.91 0.00 0.00 2.32
5111 13274 5.755375 TCAATATGCCGCTCTAAAGAAGAAG 59.245 40.000 0.00 0.00 32.46 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.301346 AGGGCCTAATTGCAGATTTCG 58.699 47.619 2.82 0.00 0.00 3.46
1 2 4.889995 ACTTAGGGCCTAATTGCAGATTTC 59.110 41.667 25.57 0.00 0.00 2.17
2 3 4.871822 ACTTAGGGCCTAATTGCAGATTT 58.128 39.130 25.57 0.00 0.00 2.17
3 4 4.526438 ACTTAGGGCCTAATTGCAGATT 57.474 40.909 25.57 0.00 0.00 2.40
4 5 5.515534 CCATACTTAGGGCCTAATTGCAGAT 60.516 44.000 25.57 8.41 0.00 2.90
67 68 3.959293 TCCCGAAAAGGAGGTTTAATCC 58.041 45.455 0.00 0.00 45.00 3.01
69 70 5.141910 TGTTTCCCGAAAAGGAGGTTTAAT 58.858 37.500 0.00 0.00 45.00 1.40
70 71 4.534797 TGTTTCCCGAAAAGGAGGTTTAA 58.465 39.130 0.00 0.00 45.00 1.52
71 72 4.139038 CTGTTTCCCGAAAAGGAGGTTTA 58.861 43.478 0.00 0.00 45.00 2.01
73 74 2.173996 TCTGTTTCCCGAAAAGGAGGTT 59.826 45.455 0.00 0.00 45.00 3.50
74 75 1.772453 TCTGTTTCCCGAAAAGGAGGT 59.228 47.619 0.00 0.00 45.00 3.85
163 171 6.042897 AGAGGGAGTAATTATTAAGGGTTCGG 59.957 42.308 0.00 0.00 0.00 4.30
205 213 5.780984 AGTTTAGTACTCCCTCTGAAAACG 58.219 41.667 0.00 0.00 32.35 3.60
265 273 6.465084 ACTAGGTGGAAGAAACTGTGTAATC 58.535 40.000 0.00 0.00 0.00 1.75
335 343 4.238761 TCTTTCATGGATATCCGTCGAC 57.761 45.455 13.91 5.18 39.43 4.20
360 368 5.834742 TGACATTAGCAATAATGATGCCCTT 59.165 36.000 13.43 0.00 44.91 3.95
361 369 5.387788 TGACATTAGCAATAATGATGCCCT 58.612 37.500 13.43 0.00 44.91 5.19
363 371 7.600065 AGAATGACATTAGCAATAATGATGCC 58.400 34.615 13.43 2.84 44.91 4.40
364 372 8.512956 AGAGAATGACATTAGCAATAATGATGC 58.487 33.333 13.43 0.00 44.15 3.91
383 391 5.668471 TGATGGAGTTGCTCTTAGAGAATG 58.332 41.667 14.14 0.00 0.00 2.67
409 417 1.303282 GGGGGCTGTGTTTAGAGGG 59.697 63.158 0.00 0.00 0.00 4.30
412 420 1.215673 TGTTTGGGGGCTGTGTTTAGA 59.784 47.619 0.00 0.00 0.00 2.10
470 478 1.545841 CTTTCAAACAGTAGGGGCCC 58.454 55.000 17.12 17.12 0.00 5.80
504 512 1.664321 GGCCCTGCTGAAGCTGAATG 61.664 60.000 10.43 1.12 41.71 2.67
521 529 2.039879 TCTTCCTTCAAACAGTAGGGGC 59.960 50.000 0.00 0.00 35.61 5.80
554 562 3.776969 TGAGAGATGCTGTTATTCCTGGT 59.223 43.478 0.00 0.00 0.00 4.00
580 588 7.069950 AGCTTTCTTGTTATTCCTGGACTTTTT 59.930 33.333 0.00 0.00 0.00 1.94
581 589 6.551227 AGCTTTCTTGTTATTCCTGGACTTTT 59.449 34.615 0.00 0.00 0.00 2.27
582 590 6.071320 AGCTTTCTTGTTATTCCTGGACTTT 58.929 36.000 0.00 0.00 0.00 2.66
583 591 5.635120 AGCTTTCTTGTTATTCCTGGACTT 58.365 37.500 0.00 0.00 0.00 3.01
584 592 5.248380 AGCTTTCTTGTTATTCCTGGACT 57.752 39.130 0.00 0.00 0.00 3.85
585 593 5.966742 AAGCTTTCTTGTTATTCCTGGAC 57.033 39.130 0.00 0.00 0.00 4.02
586 594 6.976934 AAAAGCTTTCTTGTTATTCCTGGA 57.023 33.333 13.10 0.00 31.78 3.86
595 603 9.696917 CAAACAGGATATAAAAGCTTTCTTGTT 57.303 29.630 13.10 14.80 37.97 2.83
596 604 9.077885 TCAAACAGGATATAAAAGCTTTCTTGT 57.922 29.630 13.10 9.47 31.78 3.16
597 605 9.912634 TTCAAACAGGATATAAAAGCTTTCTTG 57.087 29.630 13.10 8.80 31.78 3.02
600 608 9.358872 CCTTTCAAACAGGATATAAAAGCTTTC 57.641 33.333 13.10 0.00 32.41 2.62
609 617 7.217200 CCGAGATTCCTTTCAAACAGGATATA 58.783 38.462 0.00 0.00 40.31 0.86
612 620 4.265073 CCGAGATTCCTTTCAAACAGGAT 58.735 43.478 0.00 0.00 40.31 3.24
634 642 4.890581 TCCTCCTCTGTTCATAAGACTAGC 59.109 45.833 0.00 0.00 0.00 3.42
648 656 3.835395 ACTACTCAAGGTTTCCTCCTCTG 59.165 47.826 0.00 0.00 36.74 3.35
769 777 2.047655 TAAGCCCAGCGTTGACCG 60.048 61.111 0.00 0.00 40.40 4.79
770 778 1.302192 TGTAAGCCCAGCGTTGACC 60.302 57.895 0.00 0.00 0.00 4.02
788 796 5.562298 AATTACTATATGTTCAGGCCGGT 57.438 39.130 1.90 0.00 0.00 5.28
791 799 8.947115 GGTGATTAATTACTATATGTTCAGGCC 58.053 37.037 9.92 0.00 0.00 5.19
805 813 9.646427 TTTTGTAATTGGCTGGTGATTAATTAC 57.354 29.630 1.80 1.80 41.27 1.89
809 817 7.500992 TGTTTTTGTAATTGGCTGGTGATTAA 58.499 30.769 0.00 0.00 0.00 1.40
827 835 9.099454 GTATACCCAATCTCTACTCTGTTTTTG 57.901 37.037 0.00 0.00 0.00 2.44
832 840 6.895756 TGTTGTATACCCAATCTCTACTCTGT 59.104 38.462 0.00 0.00 0.00 3.41
845 853 1.493022 GGGCTCCATGTTGTATACCCA 59.507 52.381 0.00 0.00 36.07 4.51
846 854 1.542547 CGGGCTCCATGTTGTATACCC 60.543 57.143 0.00 0.00 0.00 3.69
847 855 1.414919 TCGGGCTCCATGTTGTATACC 59.585 52.381 0.00 0.00 0.00 2.73
848 856 2.102588 ACTCGGGCTCCATGTTGTATAC 59.897 50.000 0.00 0.00 0.00 1.47
849 857 2.364324 GACTCGGGCTCCATGTTGTATA 59.636 50.000 0.00 0.00 0.00 1.47
914 977 1.003233 AACAGGAAGAAGCCGGAGC 60.003 57.895 5.05 0.00 40.32 4.70
915 978 0.610687 AGAACAGGAAGAAGCCGGAG 59.389 55.000 5.05 0.00 0.00 4.63
916 979 1.056660 AAGAACAGGAAGAAGCCGGA 58.943 50.000 5.05 0.00 0.00 5.14
917 980 1.897560 AAAGAACAGGAAGAAGCCGG 58.102 50.000 0.00 0.00 0.00 6.13
919 982 4.578928 TGTTGTAAAGAACAGGAAGAAGCC 59.421 41.667 0.00 0.00 39.87 4.35
953 1017 2.019984 GGTAAGATTTGGGCAGCAGAG 58.980 52.381 0.00 0.00 0.00 3.35
971 1035 1.002659 TGGTTTGCGCACTGTATAGGT 59.997 47.619 11.12 0.00 0.00 3.08
992 1056 6.139679 AGGATTTGGAGTTCATAACCAGAA 57.860 37.500 0.00 0.00 35.08 3.02
999 1063 5.285401 TCCCAGTAGGATTTGGAGTTCATA 58.715 41.667 0.00 0.00 40.93 2.15
1093 1157 1.845143 AGATCTGGGCAGCAGAGAAAT 59.155 47.619 0.00 0.00 31.61 2.17
1095 1159 1.209019 GAAGATCTGGGCAGCAGAGAA 59.791 52.381 0.00 0.00 31.61 2.87
1120 1184 5.049198 GGAAACCCTTTTTCGGTAACTGTAG 60.049 44.000 0.00 0.00 31.69 2.74
1121 1185 4.821260 GGAAACCCTTTTTCGGTAACTGTA 59.179 41.667 0.00 0.00 31.69 2.74
1122 1186 3.633525 GGAAACCCTTTTTCGGTAACTGT 59.366 43.478 0.00 0.00 31.69 3.55
1123 1187 4.233123 GGAAACCCTTTTTCGGTAACTG 57.767 45.455 0.00 0.00 31.69 3.16
1162 1226 9.752362 GTTTGTGAACTGTAGGCAAGATTGCTT 62.752 40.741 16.49 12.02 41.88 3.91
1163 1227 8.389405 GTTTGTGAACTGTAGGCAAGATTGCT 62.389 42.308 16.49 6.21 41.88 3.91
1164 1228 6.294591 GTTTGTGAACTGTAGGCAAGATTGC 61.295 44.000 9.06 9.06 41.68 3.56
1165 1229 5.215160 GTTTGTGAACTGTAGGCAAGATTG 58.785 41.667 0.00 0.00 32.91 2.67
1172 1236 3.821033 AGATTGGTTTGTGAACTGTAGGC 59.179 43.478 0.00 0.00 36.03 3.93
1257 1321 3.180507 AGAAGAAGTGAGGCTCCATCTT 58.819 45.455 19.93 19.93 0.00 2.40
1265 1329 3.244249 ACAGTGGTTAGAAGAAGTGAGGC 60.244 47.826 0.00 0.00 0.00 4.70
1399 1463 5.785940 AGTTATTGTAGGAGAGGTCCAAGTT 59.214 40.000 0.00 0.00 46.80 2.66
1493 1557 0.181587 TGCGAGTTTCCCACCAAAGA 59.818 50.000 0.00 0.00 0.00 2.52
1525 1589 2.416547 GCTCGAGCTTTGCTGATAAACA 59.583 45.455 29.88 0.00 39.88 2.83
1635 1713 6.108097 GGATAACTTCCGTCAAACTGATTC 57.892 41.667 0.00 0.00 33.93 2.52
1709 1787 2.100418 GGAGCTGGCAGAAATGGATTTC 59.900 50.000 20.86 4.23 44.91 2.17
1830 1929 5.069383 TGTGCCTTGCAGCATATTATTTGAT 59.931 36.000 3.73 0.00 46.24 2.57
1860 1959 3.650461 TCTTATGCTGCCATACCCATGTA 59.350 43.478 0.00 0.00 33.79 2.29
1891 1990 4.185394 TGGTTGGTATACATGTACAAGCG 58.815 43.478 21.83 0.00 0.00 4.68
1912 2011 4.497006 GGATGAAATCTCGCCTGTGAAATG 60.497 45.833 0.00 0.00 44.71 2.32
1913 2012 3.629398 GGATGAAATCTCGCCTGTGAAAT 59.371 43.478 0.00 0.00 44.71 2.17
1936 2035 0.531090 AAGTTTACGGCGCTGACACA 60.531 50.000 25.98 1.51 0.00 3.72
1943 2042 1.908066 CTCCACCAAGTTTACGGCGC 61.908 60.000 6.90 0.00 0.00 6.53
1971 2070 5.014123 TGTCCCTGTTAGATTGTTTGAGGAT 59.986 40.000 0.00 0.00 0.00 3.24
2032 2131 8.050778 AGTTGATTTGTGTAGAGAAACAACAA 57.949 30.769 19.40 10.21 36.08 2.83
2049 2148 6.460123 GCGATATTGACCCATGAAGTTGATTT 60.460 38.462 0.00 0.00 0.00 2.17
2071 2170 2.745884 CAACCCGATGCTTGGCGA 60.746 61.111 0.00 0.00 0.00 5.54
2082 2181 2.436646 AGATTCGGCAGCAACCCG 60.437 61.111 0.00 3.64 46.88 5.28
2212 2311 1.171308 GAGCAAAGATCAGCTGGCAA 58.829 50.000 15.13 0.00 42.04 4.52
2415 2514 5.774690 AGGAAATGTGCCAGAGAAATTGTTA 59.225 36.000 0.00 0.00 0.00 2.41
2597 4350 5.299279 TGATTTCCAGAAAGGTCAAGTTCAC 59.701 40.000 0.00 0.00 39.02 3.18
2598 4351 5.445069 TGATTTCCAGAAAGGTCAAGTTCA 58.555 37.500 0.00 0.00 39.02 3.18
2734 4850 3.775316 GAGGAGAGGTCAAGGATGGTTAA 59.225 47.826 0.00 0.00 0.00 2.01
2757 4873 3.306641 GGATCTCGCCAGATAGCTCATTT 60.307 47.826 0.00 0.00 39.71 2.32
2762 4878 0.178950 TGGGATCTCGCCAGATAGCT 60.179 55.000 0.00 0.00 39.71 3.32
2783 4899 6.408858 TCAGTTTCAACTTATTGATCGCTC 57.591 37.500 0.00 0.00 44.36 5.03
2847 4963 3.724508 TCGTTTTGCAATGATGTTGGT 57.275 38.095 0.00 0.00 0.00 3.67
3034 5150 5.242795 AGTAGCAAGAAACCACCAACTAT 57.757 39.130 0.00 0.00 0.00 2.12
3035 5151 4.699925 AGTAGCAAGAAACCACCAACTA 57.300 40.909 0.00 0.00 0.00 2.24
3055 5171 6.659242 TCTTGGGTATTCTTTTGCCTCTTTAG 59.341 38.462 0.00 0.00 0.00 1.85
3129 5245 5.104193 ACAGAGCCCAGAAAGAACATCATAT 60.104 40.000 0.00 0.00 0.00 1.78
3272 5389 3.579335 AGTCCTTCTCGAGCTTGTTAC 57.421 47.619 7.81 1.13 0.00 2.50
3325 5442 2.738000 GCTTGACAATGTTTGTGTGCCA 60.738 45.455 0.00 0.00 45.52 4.92
3615 10279 3.895232 TTGAGAAGAATCCGAGGAAGG 57.105 47.619 0.00 0.00 0.00 3.46
3619 10283 2.673368 CGGTTTTGAGAAGAATCCGAGG 59.327 50.000 0.00 0.00 40.19 4.63
3802 10466 1.751924 AGCTGTAGACATCGACCTTCC 59.248 52.381 0.00 0.00 0.00 3.46
4157 10821 4.202080 TGGAACATCGTTATTCCTCTACGG 60.202 45.833 5.21 0.00 44.13 4.02
4194 10858 6.428083 TTGCACCCGGAAATTCTATAGATA 57.572 37.500 0.73 0.00 0.00 1.98
4242 10915 5.491982 AGGTAAACTAGCATGTGAAAGAGG 58.508 41.667 0.00 0.00 0.00 3.69
4458 11373 4.589700 GCGCCACACACACACACG 62.590 66.667 0.00 0.00 0.00 4.49
4504 11447 2.233676 GCTAATTTCCCACCCACTTTGG 59.766 50.000 0.00 0.00 37.25 3.28
4691 11635 8.200792 AGTTGCAATTTATGTTTACCTTGTGAA 58.799 29.630 0.59 0.00 0.00 3.18
4746 11690 4.469227 AGACTCTTCCATACATGCTCTTGT 59.531 41.667 0.00 0.00 0.00 3.16
4840 11785 9.924650 TGATTAAACTTAGTTCACCTCTTCTAC 57.075 33.333 0.00 0.00 0.00 2.59
4902 11847 5.876357 AGTTGGCCTTAACTACATCAGAAA 58.124 37.500 6.68 0.00 39.03 2.52
4913 11858 1.892474 TGCATTGGAGTTGGCCTTAAC 59.108 47.619 3.32 0.00 0.00 2.01
4930 11875 2.518426 ACCATTTGGGGTCGTGCA 59.482 55.556 0.96 0.00 42.91 4.57
4952 11898 2.823376 TTACCCCCAAACGGATGCGG 62.823 60.000 12.44 0.00 0.00 5.69
4960 11906 0.953727 GTGTCCGTTTACCCCCAAAC 59.046 55.000 0.00 0.00 35.49 2.93
4961 11907 0.549950 TGTGTCCGTTTACCCCCAAA 59.450 50.000 0.00 0.00 0.00 3.28
4962 11908 0.549950 TTGTGTCCGTTTACCCCCAA 59.450 50.000 0.00 0.00 0.00 4.12
4964 11910 1.814394 GATTTGTGTCCGTTTACCCCC 59.186 52.381 0.00 0.00 0.00 5.40
4966 11912 2.096119 CGTGATTTGTGTCCGTTTACCC 60.096 50.000 0.00 0.00 0.00 3.69
4967 11913 2.096119 CCGTGATTTGTGTCCGTTTACC 60.096 50.000 0.00 0.00 0.00 2.85
4968 11914 2.663606 GCCGTGATTTGTGTCCGTTTAC 60.664 50.000 0.00 0.00 0.00 2.01
4969 11915 1.532007 GCCGTGATTTGTGTCCGTTTA 59.468 47.619 0.00 0.00 0.00 2.01
4970 11916 0.309612 GCCGTGATTTGTGTCCGTTT 59.690 50.000 0.00 0.00 0.00 3.60
4971 11917 1.512156 GGCCGTGATTTGTGTCCGTT 61.512 55.000 0.00 0.00 0.00 4.44
4972 11918 1.964373 GGCCGTGATTTGTGTCCGT 60.964 57.895 0.00 0.00 0.00 4.69
4974 11920 1.175983 TTGGGCCGTGATTTGTGTCC 61.176 55.000 0.00 0.00 0.00 4.02
4975 11921 0.039527 GTTGGGCCGTGATTTGTGTC 60.040 55.000 0.00 0.00 0.00 3.67
4976 11922 0.753479 TGTTGGGCCGTGATTTGTGT 60.753 50.000 0.00 0.00 0.00 3.72
4977 11923 0.318614 GTGTTGGGCCGTGATTTGTG 60.319 55.000 0.00 0.00 0.00 3.33
4978 11924 1.791103 CGTGTTGGGCCGTGATTTGT 61.791 55.000 0.00 0.00 0.00 2.83
4979 11925 1.081509 CGTGTTGGGCCGTGATTTG 60.082 57.895 0.00 0.00 0.00 2.32
4981 11927 3.361977 GCGTGTTGGGCCGTGATT 61.362 61.111 0.00 0.00 0.00 2.57
4990 11936 3.283684 TTTGCTCCCGCGTGTTGG 61.284 61.111 4.92 0.00 39.65 3.77
4991 11937 2.051345 GTTTGCTCCCGCGTGTTG 60.051 61.111 4.92 0.00 39.65 3.33
4993 11939 1.852067 GATTGTTTGCTCCCGCGTGT 61.852 55.000 4.92 0.00 39.65 4.49
4995 11941 0.889186 AAGATTGTTTGCTCCCGCGT 60.889 50.000 4.92 0.00 39.65 6.01
4996 11942 0.240945 AAAGATTGTTTGCTCCCGCG 59.759 50.000 0.00 0.00 39.65 6.46
4997 11943 1.669795 CCAAAGATTGTTTGCTCCCGC 60.670 52.381 0.88 0.00 0.00 6.13
4998 11944 1.885887 TCCAAAGATTGTTTGCTCCCG 59.114 47.619 0.88 0.00 0.00 5.14
4999 11945 3.862264 GCTTCCAAAGATTGTTTGCTCCC 60.862 47.826 0.88 0.00 0.00 4.30
5002 11948 2.967887 AGGCTTCCAAAGATTGTTTGCT 59.032 40.909 0.88 0.00 0.00 3.91
5004 11950 4.947645 TGAAGGCTTCCAAAGATTGTTTG 58.052 39.130 23.68 0.00 0.00 2.93
5006 11952 4.039609 CCTTGAAGGCTTCCAAAGATTGTT 59.960 41.667 23.68 0.00 0.00 2.83
5050 13213 3.820467 ACAATCTTTGATGAGCGACCAAA 59.180 39.130 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.