Multiple sequence alignment - TraesCS4A01G412500

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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 TraesCS4A01G412500 chr4A 100.000 3897 0 0 1 3897 684272353 684268457 0.000000e+00 7197
1 TraesCS4A01G412500 chr4A 94.784 671 29 5 3231 3897 684398296 684398964 0.000000e+00 1040
2 TraesCS4A01G412500 chr4A 89.583 96 10 0 3721 3816 494048069 494048164 5.290000e-24 122
3 TraesCS4A01G412500 chr4D 88.884 2303 112 59 39 2247 477509653 477507401 0.000000e+00 2702
4 TraesCS4A01G412500 chr4D 88.084 1519 116 33 2332 3815 477507404 477505916 0.000000e+00 1742
5 TraesCS4A01G412500 chr4D 80.570 561 95 9 1020 1573 504328866 504329419 1.670000e-113 420
6 TraesCS4A01G412500 chr4D 78.261 253 53 2 2626 2877 504330524 504330775 1.120000e-35 161
7 TraesCS4A01G412500 chr4D 87.931 116 11 2 3701 3816 49782854 49782742 2.440000e-27 134
8 TraesCS4A01G412500 chr4B 91.193 1794 86 35 494 2252 602451099 602449343 0.000000e+00 2372
9 TraesCS4A01G412500 chr4B 88.584 911 57 27 2323 3227 602449251 602448382 0.000000e+00 1062
10 TraesCS4A01G412500 chr4B 89.873 395 32 5 3301 3692 602448365 602447976 5.810000e-138 501
11 TraesCS4A01G412500 chr4B 81.273 534 44 22 6 499 602451639 602451122 7.900000e-102 381
12 TraesCS4A01G412500 chr4B 80.684 497 84 7 1020 1510 650960791 650961281 3.680000e-100 375
13 TraesCS4A01G412500 chr4B 79.051 253 51 2 2626 2877 650962541 650962792 5.180000e-39 172
14 TraesCS4A01G412500 chr1A 80.540 1259 182 42 999 2248 243162872 243161668 0.000000e+00 909
15 TraesCS4A01G412500 chr1D 80.509 1257 184 42 999 2247 194927340 194926137 0.000000e+00 907
16 TraesCS4A01G412500 chr1B 80.515 1242 181 42 1015 2248 270792746 270793934 0.000000e+00 896
17 TraesCS4A01G412500 chr6A 81.373 714 121 10 1022 1732 610203852 610204556 4.370000e-159 571
18 TraesCS4A01G412500 chr6A 81.818 275 46 4 2626 2898 610205979 610206251 1.090000e-55 228
19 TraesCS4A01G412500 chr6A 89.623 106 8 1 3711 3816 596770078 596770180 8.790000e-27 132
20 TraesCS4A01G412500 chr6D 80.668 719 123 12 1022 1732 463549412 463548702 9.520000e-151 544
21 TraesCS4A01G412500 chr3B 95.789 95 4 0 3721 3815 29352563 29352657 1.880000e-33 154
22 TraesCS4A01G412500 chr6B 76.838 272 57 6 2612 2878 706900656 706900386 8.720000e-32 148
23 TraesCS4A01G412500 chr5A 77.344 256 50 5 2626 2877 688975390 688975641 1.130000e-30 145
24 TraesCS4A01G412500 chr3D 88.596 114 11 1 3703 3816 14825966 14825855 1.890000e-28 137
25 TraesCS4A01G412500 chr7A 89.623 106 11 0 3711 3816 650413560 650413455 6.790000e-28 135
26 TraesCS4A01G412500 chrUn 89.583 96 10 0 3721 3816 431971619 431971714 5.290000e-24 122
27 TraesCS4A01G412500 chr2A 89.583 96 10 0 3721 3816 682500765 682500670 5.290000e-24 122


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 TraesCS4A01G412500 chr4A 684268457 684272353 3896 True 7197.0 7197 100.00000 1 3897 1 chr4A.!!$R1 3896
1 TraesCS4A01G412500 chr4A 684398296 684398964 668 False 1040.0 1040 94.78400 3231 3897 1 chr4A.!!$F2 666
2 TraesCS4A01G412500 chr4D 477505916 477509653 3737 True 2222.0 2702 88.48400 39 3815 2 chr4D.!!$R2 3776
3 TraesCS4A01G412500 chr4D 504328866 504330775 1909 False 290.5 420 79.41550 1020 2877 2 chr4D.!!$F1 1857
4 TraesCS4A01G412500 chr4B 602447976 602451639 3663 True 1079.0 2372 87.73075 6 3692 4 chr4B.!!$R1 3686
5 TraesCS4A01G412500 chr4B 650960791 650962792 2001 False 273.5 375 79.86750 1020 2877 2 chr4B.!!$F1 1857
6 TraesCS4A01G412500 chr1A 243161668 243162872 1204 True 909.0 909 80.54000 999 2248 1 chr1A.!!$R1 1249
7 TraesCS4A01G412500 chr1D 194926137 194927340 1203 True 907.0 907 80.50900 999 2247 1 chr1D.!!$R1 1248
8 TraesCS4A01G412500 chr1B 270792746 270793934 1188 False 896.0 896 80.51500 1015 2248 1 chr1B.!!$F1 1233
9 TraesCS4A01G412500 chr6A 610203852 610206251 2399 False 399.5 571 81.59550 1022 2898 2 chr6A.!!$F2 1876
10 TraesCS4A01G412500 chr6D 463548702 463549412 710 True 544.0 544 80.66800 1022 1732 1 chr6D.!!$R1 710

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
254 301 0.103208 CCGCACTGTGGACTATCCTC 59.897 60.0 10.21 0.00 37.46 3.71 F
255 302 0.103208 CGCACTGTGGACTATCCTCC 59.897 60.0 10.21 0.00 37.46 4.30 F
677 817 0.109319 CCCGGCCAAAATCAAACTCG 60.109 55.0 2.24 0.00 0.00 4.18 F
885 1033 0.608640 AACCTAGTCTGACTTGGCCG 59.391 55.0 29.86 13.23 43.50 6.13 F
2377 3213 0.107703 TCTGCGGGATGTTCATCACC 60.108 55.0 13.64 11.03 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1221 1402 0.107459 GCTCCAGGAAGATGGACACC 60.107 60.000 0.00 0.0 44.56 4.16 R
1741 1970 1.443872 CGAAGTCGTCCGGGTTGAG 60.444 63.158 0.00 0.0 34.11 3.02 R
2313 2970 0.387929 CTGCCAATGCCATGGTGATC 59.612 55.000 14.67 0.0 42.75 2.92 R
2695 4369 0.032130 CGTACGCCAGTATCAGCCAT 59.968 55.000 0.52 0.0 35.01 4.40 R
3673 5377 1.464997 CTTTGCCGAAGTTCTACCAGC 59.535 52.381 0.56 0.0 0.00 4.85 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
34 35 2.877154 TCCTAGGAGGAGCCTCAATT 57.123 50.000 17.68 5.90 46.97 2.32
35 36 2.683768 TCCTAGGAGGAGCCTCAATTC 58.316 52.381 17.68 1.08 46.97 2.17
107 119 4.148825 GACCGCCGCTCTCATGGT 62.149 66.667 0.00 0.00 35.14 3.55
108 120 4.457496 ACCGCCGCTCTCATGGTG 62.457 66.667 0.00 0.00 35.50 4.17
140 152 3.344515 CCCCTCGCCTTTATTTATAGCC 58.655 50.000 0.00 0.00 0.00 3.93
147 159 2.041216 CCTTTATTTATAGCCGGCCCCT 59.959 50.000 26.15 10.85 0.00 4.79
148 160 3.344515 CTTTATTTATAGCCGGCCCCTC 58.655 50.000 26.15 0.00 0.00 4.30
180 203 1.153823 CGCCTCCACTTACAGACCG 60.154 63.158 0.00 0.00 0.00 4.79
191 222 0.251653 TACAGACCGCCTCCACTTCT 60.252 55.000 0.00 0.00 0.00 2.85
196 227 2.266055 CGCCTCCACTTCTCCACC 59.734 66.667 0.00 0.00 0.00 4.61
213 244 2.904866 CGCTCCTCCTCCTCCTCG 60.905 72.222 0.00 0.00 0.00 4.63
214 245 2.598467 GCTCCTCCTCCTCCTCGA 59.402 66.667 0.00 0.00 0.00 4.04
215 246 1.152830 GCTCCTCCTCCTCCTCGAT 59.847 63.158 0.00 0.00 0.00 3.59
216 247 0.893727 GCTCCTCCTCCTCCTCGATC 60.894 65.000 0.00 0.00 0.00 3.69
217 248 0.771127 CTCCTCCTCCTCCTCGATCT 59.229 60.000 0.00 0.00 0.00 2.75
218 249 0.768622 TCCTCCTCCTCCTCGATCTC 59.231 60.000 0.00 0.00 0.00 2.75
219 250 0.605319 CCTCCTCCTCCTCGATCTCG 60.605 65.000 0.00 0.00 41.45 4.04
220 251 1.228003 TCCTCCTCCTCGATCTCGC 60.228 63.158 0.00 0.00 39.60 5.03
253 300 0.614979 ACCGCACTGTGGACTATCCT 60.615 55.000 15.85 0.00 37.46 3.24
254 301 0.103208 CCGCACTGTGGACTATCCTC 59.897 60.000 10.21 0.00 37.46 3.71
255 302 0.103208 CGCACTGTGGACTATCCTCC 59.897 60.000 10.21 0.00 37.46 4.30
272 319 3.528370 CTCCACGCCCCTACTCCG 61.528 72.222 0.00 0.00 0.00 4.63
290 337 1.519455 GGTCCGAGGTCAGCAATCG 60.519 63.158 0.00 0.00 36.24 3.34
314 366 2.235016 CCCAACCCGAGTTCAATTTCA 58.765 47.619 0.00 0.00 32.45 2.69
327 379 9.091784 CGAGTTCAATTTCATAGATTTCTCTCA 57.908 33.333 0.00 0.00 32.66 3.27
357 409 5.457140 CAGTCTATCTAGAACGCAAGATCC 58.543 45.833 0.00 0.00 40.46 3.36
359 411 2.802787 ATCTAGAACGCAAGATCCCG 57.197 50.000 0.00 0.00 40.46 5.14
365 417 2.511600 CGCAAGATCCCGTGTCCC 60.512 66.667 0.00 0.00 43.02 4.46
368 420 1.447838 CAAGATCCCGTGTCCCGTG 60.448 63.158 0.00 0.00 33.66 4.94
369 421 3.310860 AAGATCCCGTGTCCCGTGC 62.311 63.158 0.00 0.00 33.66 5.34
459 538 0.394352 ATTTGGGTCCCGAGCATGTC 60.394 55.000 2.65 0.00 0.00 3.06
472 551 3.799281 AGCATGTCTAGAACAGAGCTC 57.201 47.619 5.27 5.27 45.02 4.09
565 700 2.345244 CGGTGGTGCTCTGCTTCT 59.655 61.111 0.00 0.00 0.00 2.85
566 701 2.031516 CGGTGGTGCTCTGCTTCTG 61.032 63.158 0.00 0.00 0.00 3.02
567 702 2.331132 GGTGGTGCTCTGCTTCTGC 61.331 63.158 0.00 0.00 40.20 4.26
568 703 1.302351 GTGGTGCTCTGCTTCTGCT 60.302 57.895 0.00 0.00 40.48 4.24
569 704 0.888285 GTGGTGCTCTGCTTCTGCTT 60.888 55.000 0.00 0.00 40.48 3.91
570 705 0.604780 TGGTGCTCTGCTTCTGCTTC 60.605 55.000 0.00 0.00 40.48 3.86
571 706 0.321475 GGTGCTCTGCTTCTGCTTCT 60.321 55.000 0.00 0.00 40.48 2.85
572 707 0.797542 GTGCTCTGCTTCTGCTTCTG 59.202 55.000 0.00 0.00 40.48 3.02
573 708 0.954449 TGCTCTGCTTCTGCTTCTGC 60.954 55.000 0.00 0.00 40.48 4.26
574 709 0.674269 GCTCTGCTTCTGCTTCTGCT 60.674 55.000 0.00 0.00 40.48 4.24
575 710 1.810959 CTCTGCTTCTGCTTCTGCTT 58.189 50.000 0.00 0.00 40.48 3.91
576 711 1.465387 CTCTGCTTCTGCTTCTGCTTG 59.535 52.381 0.00 0.00 40.48 4.01
577 712 1.071228 TCTGCTTCTGCTTCTGCTTGA 59.929 47.619 0.00 0.00 40.48 3.02
588 723 3.367025 GCTTCTGCTTGATTGATTGTTGC 59.633 43.478 0.00 0.00 36.03 4.17
597 732 6.420008 GCTTGATTGATTGTTGCTATCCATTC 59.580 38.462 0.00 0.00 0.00 2.67
598 733 6.395426 TGATTGATTGTTGCTATCCATTCC 57.605 37.500 0.00 0.00 0.00 3.01
599 734 5.892686 TGATTGATTGTTGCTATCCATTCCA 59.107 36.000 0.00 0.00 0.00 3.53
600 735 6.551975 TGATTGATTGTTGCTATCCATTCCAT 59.448 34.615 0.00 0.00 0.00 3.41
601 736 6.395426 TTGATTGTTGCTATCCATTCCATC 57.605 37.500 0.00 0.00 0.00 3.51
641 779 1.350665 CCGGTTTTCGCTAATCCGC 59.649 57.895 11.71 0.00 44.24 5.54
646 784 0.674269 TTTTCGCTAATCCGCCCGTT 60.674 50.000 0.00 0.00 0.00 4.44
664 802 2.134933 TTTTTGTGTTCCCCCGGCC 61.135 57.895 0.00 0.00 0.00 6.13
677 817 0.109319 CCCGGCCAAAATCAAACTCG 60.109 55.000 2.24 0.00 0.00 4.18
689 829 2.198406 TCAAACTCGTTTCGTCCACAG 58.802 47.619 0.00 0.00 0.00 3.66
690 830 0.935196 AAACTCGTTTCGTCCACAGC 59.065 50.000 0.00 0.00 0.00 4.40
715 861 4.380339 GGATCTTTGCTTTCCTTTCTGCTC 60.380 45.833 0.00 0.00 0.00 4.26
717 863 3.316308 TCTTTGCTTTCCTTTCTGCTCAC 59.684 43.478 0.00 0.00 0.00 3.51
723 869 4.321718 CTTTCCTTTCTGCTCACTGATCA 58.678 43.478 0.00 0.00 0.00 2.92
725 871 5.682234 TTCCTTTCTGCTCACTGATCATA 57.318 39.130 0.00 0.00 0.00 2.15
737 883 5.918608 TCACTGATCATACCTTCTTTAGCC 58.081 41.667 0.00 0.00 0.00 3.93
750 896 5.297029 CCTTCTTTAGCCTCCGGATTTAAAG 59.703 44.000 23.37 23.37 0.00 1.85
791 937 5.527033 GGATTTTGCAGGATATTCTTGAGC 58.473 41.667 0.00 0.00 0.00 4.26
819 966 2.020131 CGTGCATGGAGAGATTGCC 58.980 57.895 0.00 0.00 35.51 4.52
838 985 4.854784 TCGCTGCTGCCGATCGAC 62.855 66.667 18.66 5.29 35.36 4.20
839 986 4.862092 CGCTGCTGCCGATCGACT 62.862 66.667 18.66 0.00 35.36 4.18
840 987 2.959071 GCTGCTGCCGATCGACTC 60.959 66.667 18.66 5.86 0.00 3.36
841 988 2.279120 CTGCTGCCGATCGACTCC 60.279 66.667 18.66 0.52 0.00 3.85
842 989 3.068064 TGCTGCCGATCGACTCCA 61.068 61.111 18.66 3.47 0.00 3.86
843 990 2.279120 GCTGCCGATCGACTCCAG 60.279 66.667 18.66 16.76 0.00 3.86
848 996 2.780094 CCGATCGACTCCAGCAGCT 61.780 63.158 18.66 0.00 0.00 4.24
860 1008 2.588314 GCAGCTGGATCGCTCCTG 60.588 66.667 17.12 7.34 42.59 3.86
885 1033 0.608640 AACCTAGTCTGACTTGGCCG 59.391 55.000 29.86 13.23 43.50 6.13
886 1034 1.153549 CCTAGTCTGACTTGGCCGC 60.154 63.158 22.05 0.00 34.57 6.53
888 1036 2.579684 CTAGTCTGACTTGGCCGCCC 62.580 65.000 16.53 0.00 0.00 6.13
907 1055 1.006832 CGGGGATAACTTGCTGTTCG 58.993 55.000 0.00 0.00 39.89 3.95
913 1061 3.552294 GGATAACTTGCTGTTCGCTCTAC 59.448 47.826 0.00 0.00 39.89 2.59
917 1065 2.224066 ACTTGCTGTTCGCTCTACTGTT 60.224 45.455 0.00 0.00 40.11 3.16
920 1068 2.035961 TGCTGTTCGCTCTACTGTTCTT 59.964 45.455 0.00 0.00 40.11 2.52
921 1069 2.410053 GCTGTTCGCTCTACTGTTCTTG 59.590 50.000 0.00 0.00 35.14 3.02
922 1070 3.857383 GCTGTTCGCTCTACTGTTCTTGA 60.857 47.826 0.00 0.00 35.14 3.02
923 1071 3.902150 TGTTCGCTCTACTGTTCTTGAG 58.098 45.455 0.00 0.00 0.00 3.02
927 1075 5.700722 TCGCTCTACTGTTCTTGAGTTTA 57.299 39.130 0.00 0.00 0.00 2.01
928 1076 5.700846 TCGCTCTACTGTTCTTGAGTTTAG 58.299 41.667 0.00 0.00 0.00 1.85
933 1091 2.802816 ACTGTTCTTGAGTTTAGCTGCG 59.197 45.455 0.00 0.00 0.00 5.18
944 1105 2.080286 TTAGCTGCGACAGGTTCTTC 57.920 50.000 14.87 0.00 42.44 2.87
950 1111 2.414481 CTGCGACAGGTTCTTCATCTTG 59.586 50.000 0.00 0.00 0.00 3.02
972 1137 1.478510 TCCAAGTGCAGAGTAGCTAGC 59.521 52.381 6.62 6.62 34.99 3.42
973 1138 1.480137 CCAAGTGCAGAGTAGCTAGCT 59.520 52.381 23.12 23.12 34.99 3.32
974 1139 2.690497 CCAAGTGCAGAGTAGCTAGCTA 59.310 50.000 20.67 20.67 34.99 3.32
975 1140 3.243367 CCAAGTGCAGAGTAGCTAGCTAG 60.243 52.174 24.78 16.84 34.99 3.42
1741 1970 3.685214 ATGTCGCACGTCTCCTCGC 62.685 63.158 0.00 0.00 0.00 5.03
2067 2492 1.068352 ACAAGGACAAGGGGGAGCTT 61.068 55.000 0.00 0.00 0.00 3.74
2270 2913 1.407618 CCACCATGAACCATGAGCATG 59.592 52.381 8.38 12.57 43.81 4.06
2284 2941 0.747255 AGCATGGCCTACTACTCGTG 59.253 55.000 3.32 0.00 0.00 4.35
2310 2967 7.492352 CTGATCTAGCATGAATGAACAATGA 57.508 36.000 0.00 0.00 0.00 2.57
2312 2969 8.095937 TGATCTAGCATGAATGAACAATGATC 57.904 34.615 0.00 0.00 0.00 2.92
2313 2970 6.535274 TCTAGCATGAATGAACAATGATCG 57.465 37.500 0.00 0.00 0.00 3.69
2314 2971 6.282930 TCTAGCATGAATGAACAATGATCGA 58.717 36.000 0.00 0.00 0.00 3.59
2315 2972 6.932960 TCTAGCATGAATGAACAATGATCGAT 59.067 34.615 0.00 0.00 0.00 3.59
2316 2973 5.998553 AGCATGAATGAACAATGATCGATC 58.001 37.500 18.72 18.72 0.00 3.69
2318 2975 5.624081 GCATGAATGAACAATGATCGATCAC 59.376 40.000 29.49 16.86 40.03 3.06
2319 2976 5.739752 TGAATGAACAATGATCGATCACC 57.260 39.130 29.49 16.01 40.03 4.02
2320 2977 5.184711 TGAATGAACAATGATCGATCACCA 58.815 37.500 29.49 20.34 40.03 4.17
2321 2978 5.824097 TGAATGAACAATGATCGATCACCAT 59.176 36.000 29.49 21.43 40.03 3.55
2377 3213 0.107703 TCTGCGGGATGTTCATCACC 60.108 55.000 13.64 11.03 0.00 4.02
2497 3333 2.580962 CTCGTCATCCTCATCCTCTCA 58.419 52.381 0.00 0.00 0.00 3.27
2518 3354 0.802494 ACGTCGCATCAAATGTTCCC 59.198 50.000 0.00 0.00 0.00 3.97
2528 3874 3.492337 TCAAATGTTCCCACAGGTAACC 58.508 45.455 0.00 0.00 35.94 2.85
2567 3937 2.242043 CTTTGGTTCACTCCTGGCAAT 58.758 47.619 0.00 0.00 0.00 3.56
2575 3945 0.681175 ACTCCTGGCAATTGCAAACC 59.319 50.000 30.32 14.40 44.36 3.27
2609 4085 6.934083 TGCTCTGAACAATACATACTTGTGAA 59.066 34.615 0.00 0.00 36.95 3.18
2618 4094 7.284489 ACAATACATACTTGTGAACTTTGGTGT 59.716 33.333 0.00 0.00 35.57 4.16
2621 4097 6.560711 ACATACTTGTGAACTTTGGTGTTTC 58.439 36.000 0.00 0.00 33.85 2.78
2695 4369 3.760035 GCGTCGGAGAGGAAGGCA 61.760 66.667 0.00 0.00 46.48 4.75
2767 4441 4.077184 TCGGCGGCGAACCTGATT 62.077 61.111 32.93 0.00 0.00 2.57
2812 4486 2.069273 CAGTTCTTCGGCTACAACCTG 58.931 52.381 0.00 0.00 0.00 4.00
2917 4591 6.321181 ACTGAATTCAACCAAGCAAGAAACTA 59.679 34.615 9.88 0.00 0.00 2.24
2920 4594 8.037758 TGAATTCAACCAAGCAAGAAACTAAAA 58.962 29.630 5.45 0.00 0.00 1.52
2921 4595 8.424274 AATTCAACCAAGCAAGAAACTAAAAG 57.576 30.769 0.00 0.00 0.00 2.27
2922 4596 6.767524 TCAACCAAGCAAGAAACTAAAAGA 57.232 33.333 0.00 0.00 0.00 2.52
2923 4597 7.346751 TCAACCAAGCAAGAAACTAAAAGAT 57.653 32.000 0.00 0.00 0.00 2.40
2925 4599 6.959639 ACCAAGCAAGAAACTAAAAGATGA 57.040 33.333 0.00 0.00 0.00 2.92
2926 4600 6.739112 ACCAAGCAAGAAACTAAAAGATGAC 58.261 36.000 0.00 0.00 0.00 3.06
2927 4601 6.321181 ACCAAGCAAGAAACTAAAAGATGACA 59.679 34.615 0.00 0.00 0.00 3.58
2928 4602 6.638468 CCAAGCAAGAAACTAAAAGATGACAC 59.362 38.462 0.00 0.00 0.00 3.67
2929 4603 7.420800 CAAGCAAGAAACTAAAAGATGACACT 58.579 34.615 0.00 0.00 0.00 3.55
2930 4604 8.559536 CAAGCAAGAAACTAAAAGATGACACTA 58.440 33.333 0.00 0.00 0.00 2.74
2931 4605 8.316640 AGCAAGAAACTAAAAGATGACACTAG 57.683 34.615 0.00 0.00 0.00 2.57
2932 4606 7.934120 AGCAAGAAACTAAAAGATGACACTAGT 59.066 33.333 0.00 0.00 0.00 2.57
2933 4607 8.012241 GCAAGAAACTAAAAGATGACACTAGTG 58.988 37.037 21.44 21.44 0.00 2.74
2934 4608 7.659652 AGAAACTAAAAGATGACACTAGTGC 57.340 36.000 22.90 15.35 0.00 4.40
2937 4611 5.482908 ACTAAAAGATGACACTAGTGCCTG 58.517 41.667 22.90 0.00 0.00 4.85
2940 4614 0.539051 GATGACACTAGTGCCTGCCT 59.461 55.000 22.90 1.55 0.00 4.75
2944 4618 2.046892 ACTAGTGCCTGCCTTGCG 60.047 61.111 0.00 0.00 0.00 4.85
2949 4623 4.704833 TGCCTGCCTTGCGAGGAC 62.705 66.667 25.25 15.10 46.74 3.85
2960 4634 0.459585 TGCGAGGACCATAGCGAAAC 60.460 55.000 0.00 0.00 0.00 2.78
2963 4637 0.831307 GAGGACCATAGCGAAACCCT 59.169 55.000 0.00 0.00 0.00 4.34
2985 4662 8.118600 ACCCTTTTCTTCTTCAATAATGGAGAT 58.881 33.333 0.00 0.00 40.94 2.75
2986 4663 8.975295 CCCTTTTCTTCTTCAATAATGGAGATT 58.025 33.333 0.00 0.00 40.94 2.40
3016 4693 6.582636 TCATGTAAAATCGATAGGCTTGTCT 58.417 36.000 0.00 0.00 0.00 3.41
3026 4703 0.763035 AGGCTTGTCTTGTAACCCGT 59.237 50.000 0.00 0.00 0.00 5.28
3033 4710 2.937799 TGTCTTGTAACCCGTTTGTGTC 59.062 45.455 0.00 0.00 0.00 3.67
3043 4720 3.181458 ACCCGTTTGTGTCTTGTGTATCT 60.181 43.478 0.00 0.00 0.00 1.98
3045 4722 4.055360 CCGTTTGTGTCTTGTGTATCTCA 58.945 43.478 0.00 0.00 0.00 3.27
3046 4723 4.150627 CCGTTTGTGTCTTGTGTATCTCAG 59.849 45.833 0.00 0.00 0.00 3.35
3047 4724 4.982295 CGTTTGTGTCTTGTGTATCTCAGA 59.018 41.667 0.00 0.00 0.00 3.27
3048 4725 5.462068 CGTTTGTGTCTTGTGTATCTCAGAA 59.538 40.000 0.00 0.00 0.00 3.02
3056 4734 7.095060 TGTCTTGTGTATCTCAGAAAAATCAGC 60.095 37.037 0.00 0.00 0.00 4.26
3070 4748 4.935885 AAATCAGCGTTGTCATCTTCTC 57.064 40.909 0.00 0.00 0.00 2.87
3125 4803 2.103042 GCAGACCAAGTAGCCTGCG 61.103 63.158 0.00 0.00 41.86 5.18
3160 4847 2.386661 ACTTGGAGTTGCAGATACGG 57.613 50.000 0.00 0.00 0.00 4.02
3161 4848 1.623811 ACTTGGAGTTGCAGATACGGT 59.376 47.619 0.00 0.00 0.00 4.83
3162 4849 2.829720 ACTTGGAGTTGCAGATACGGTA 59.170 45.455 0.00 0.00 0.00 4.02
3169 4856 3.130693 AGTTGCAGATACGGTAGGTTCTC 59.869 47.826 0.00 0.00 0.00 2.87
3227 4914 6.929625 TGATTTCAGTTTTGGTGTTTCAGAA 58.070 32.000 0.00 0.00 0.00 3.02
3228 4915 7.555087 TGATTTCAGTTTTGGTGTTTCAGAAT 58.445 30.769 0.00 0.00 0.00 2.40
3229 4916 7.492020 TGATTTCAGTTTTGGTGTTTCAGAATG 59.508 33.333 0.00 0.00 37.54 2.67
3291 4987 6.952773 AGTTTACTTTTACATCCACTTGCA 57.047 33.333 0.00 0.00 0.00 4.08
3373 5069 1.671704 AGAAGTCTGCTGCTGCTGC 60.672 57.895 22.51 22.51 40.48 5.25
3374 5070 1.671704 GAAGTCTGCTGCTGCTGCT 60.672 57.895 27.67 13.60 40.48 4.24
3375 5071 1.913451 GAAGTCTGCTGCTGCTGCTG 61.913 60.000 27.67 26.32 40.48 4.41
3376 5072 2.668889 GTCTGCTGCTGCTGCTGT 60.669 61.111 27.67 0.00 39.81 4.40
3390 5088 5.525378 GCTGCTGCTGTGTAAGATAATAGTT 59.475 40.000 8.53 0.00 36.03 2.24
3494 5192 0.667184 GCTTCAATTGTGGCCAACCG 60.667 55.000 7.24 0.00 39.70 4.44
3542 5243 6.064717 ACTTCCTAAAGTCTGCTTCATTTGT 58.935 36.000 0.00 0.00 42.10 2.83
3552 5253 4.898861 TCTGCTTCATTTGTAAAACCCCTT 59.101 37.500 0.00 0.00 0.00 3.95
3602 5303 1.044790 ATAAGCCAATGCCCACTGCC 61.045 55.000 0.00 0.00 40.16 4.85
3609 5310 1.788518 AATGCCCACTGCCCAGTACA 61.789 55.000 0.00 1.12 40.20 2.90
3610 5311 1.788518 ATGCCCACTGCCCAGTACAA 61.789 55.000 0.00 0.00 40.20 2.41
3661 5365 7.113658 TCTTCCATATTGAGGTAGAAGACAC 57.886 40.000 0.00 0.00 35.91 3.67
3673 5377 4.389077 GGTAGAAGACACGAATGAAAGTGG 59.611 45.833 0.00 0.00 42.25 4.00
3692 5396 1.519408 GCTGGTAGAACTTCGGCAAA 58.481 50.000 0.00 0.00 33.35 3.68
3700 5404 1.181098 AACTTCGGCAAAGCAGGCAT 61.181 50.000 0.00 0.00 38.67 4.40
3794 5503 0.863144 CGACCCGAAACAACGACATT 59.137 50.000 0.00 0.00 35.09 2.71
3830 5539 6.373005 TGTGACATGGAAGAAAGGAGATTA 57.627 37.500 0.00 0.00 0.00 1.75
3889 5598 0.323178 CAACTTGCATCCCTCCAGCT 60.323 55.000 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 0.189822 GGCTCCTCCTAGGATCACCT 59.810 60.000 13.12 0.00 44.81 4.00
26 27 2.609459 ACGACGATGAATGAATTGAGGC 59.391 45.455 0.00 0.00 0.00 4.70
32 33 1.209128 GCCGACGACGATGAATGAAT 58.791 50.000 9.28 0.00 42.66 2.57
34 35 1.585261 CGCCGACGACGATGAATGA 60.585 57.895 9.28 0.00 43.93 2.57
35 36 2.576893 CCGCCGACGACGATGAATG 61.577 63.158 9.28 0.00 43.93 2.67
72 74 0.391661 TCAGCTTTCGTGGATGAGGC 60.392 55.000 0.00 0.00 0.00 4.70
125 137 1.816835 GGGCCGGCTATAAATAAAGGC 59.183 52.381 28.56 3.90 42.10 4.35
140 152 2.325393 AATAAAGCGAGGAGGGGCCG 62.325 60.000 0.00 0.00 43.43 6.13
147 159 1.067212 GAGGCGAGAATAAAGCGAGGA 59.933 52.381 0.00 0.00 0.00 3.71
148 160 1.492720 GAGGCGAGAATAAAGCGAGG 58.507 55.000 0.00 0.00 0.00 4.63
180 203 2.266055 CGGTGGAGAAGTGGAGGC 59.734 66.667 0.00 0.00 0.00 4.70
191 222 3.663815 GAGGAGGAGGAGCGGTGGA 62.664 68.421 0.00 0.00 0.00 4.02
196 227 2.690653 ATCGAGGAGGAGGAGGAGCG 62.691 65.000 0.00 0.00 0.00 5.03
213 244 2.657944 CTCTGCTGCGGCGAGATC 60.658 66.667 25.51 0.00 42.25 2.75
214 245 3.136345 CTCTCTGCTGCGGCGAGAT 62.136 63.158 29.35 0.00 42.35 2.75
215 246 3.819920 CTCTCTGCTGCGGCGAGA 61.820 66.667 28.17 28.17 41.69 4.04
236 280 0.103208 GGAGGATAGTCCACAGTGCG 59.897 60.000 0.00 0.00 39.61 5.34
253 300 2.043248 GAGTAGGGGCGTGGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
254 301 3.155167 GGAGTAGGGGCGTGGAGG 61.155 72.222 0.00 0.00 0.00 4.30
255 302 3.528370 CGGAGTAGGGGCGTGGAG 61.528 72.222 0.00 0.00 0.00 3.86
272 319 1.519455 CGATTGCTGACCTCGGACC 60.519 63.158 0.00 0.00 0.00 4.46
290 337 0.326927 TTGAACTCGGGTTGGGGATC 59.673 55.000 4.77 0.00 35.58 3.36
314 366 6.671779 AGACTGGTTTCCTGAGAGAAATCTAT 59.328 38.462 7.74 0.00 37.67 1.98
327 379 4.098196 GCGTTCTAGATAGACTGGTTTCCT 59.902 45.833 0.00 0.00 30.81 3.36
376 428 4.293626 AAGAACACGCACGCACGC 62.294 61.111 0.00 0.00 36.19 5.34
377 429 2.423517 CAAGAACACGCACGCACG 60.424 61.111 0.00 0.00 39.50 5.34
378 430 2.052237 CCAAGAACACGCACGCAC 60.052 61.111 0.00 0.00 0.00 5.34
379 431 3.947841 GCCAAGAACACGCACGCA 61.948 61.111 0.00 0.00 0.00 5.24
380 432 3.947841 TGCCAAGAACACGCACGC 61.948 61.111 0.00 0.00 0.00 5.34
381 433 2.052237 GTGCCAAGAACACGCACG 60.052 61.111 0.00 0.00 43.00 5.34
444 523 0.755698 TCTAGACATGCTCGGGACCC 60.756 60.000 0.00 0.00 0.00 4.46
459 538 5.297547 ACTAGATCTCGAGCTCTGTTCTAG 58.702 45.833 27.80 27.80 36.74 2.43
472 551 5.508153 CCCTACACATCCAAACTAGATCTCG 60.508 48.000 0.00 0.00 0.00 4.04
565 700 4.552355 CAACAATCAATCAAGCAGAAGCA 58.448 39.130 0.00 0.00 45.49 3.91
566 701 3.367025 GCAACAATCAATCAAGCAGAAGC 59.633 43.478 0.00 0.00 42.56 3.86
567 702 4.806330 AGCAACAATCAATCAAGCAGAAG 58.194 39.130 0.00 0.00 0.00 2.85
568 703 4.859304 AGCAACAATCAATCAAGCAGAA 57.141 36.364 0.00 0.00 0.00 3.02
569 704 5.066893 GGATAGCAACAATCAATCAAGCAGA 59.933 40.000 0.00 0.00 0.00 4.26
570 705 5.163591 TGGATAGCAACAATCAATCAAGCAG 60.164 40.000 0.00 0.00 0.00 4.24
571 706 4.705991 TGGATAGCAACAATCAATCAAGCA 59.294 37.500 0.00 0.00 0.00 3.91
572 707 5.252969 TGGATAGCAACAATCAATCAAGC 57.747 39.130 0.00 0.00 0.00 4.01
573 708 6.921857 GGAATGGATAGCAACAATCAATCAAG 59.078 38.462 0.00 0.00 0.00 3.02
574 709 6.380560 TGGAATGGATAGCAACAATCAATCAA 59.619 34.615 0.00 0.00 0.00 2.57
575 710 5.892686 TGGAATGGATAGCAACAATCAATCA 59.107 36.000 0.00 0.00 0.00 2.57
576 711 6.395426 TGGAATGGATAGCAACAATCAATC 57.605 37.500 0.00 0.00 0.00 2.67
577 712 6.014840 GGATGGAATGGATAGCAACAATCAAT 60.015 38.462 0.00 0.00 0.00 2.57
588 723 4.132336 CGCATATGGGATGGAATGGATAG 58.868 47.826 14.32 0.00 0.00 2.08
597 732 1.859427 GCACAGCGCATATGGGATGG 61.859 60.000 32.82 24.28 46.64 3.51
599 734 1.601759 GGCACAGCGCATATGGGAT 60.602 57.895 22.86 14.50 45.17 3.85
600 735 2.203195 GGCACAGCGCATATGGGA 60.203 61.111 22.86 0.00 45.17 4.37
601 736 2.203252 AGGCACAGCGCATATGGG 60.203 61.111 11.47 15.11 45.17 4.00
646 784 2.134933 GGCCGGGGGAACACAAAAA 61.135 57.895 2.18 0.00 0.00 1.94
660 798 2.415697 AACGAGTTTGATTTTGGCCG 57.584 45.000 0.00 0.00 0.00 6.13
662 800 3.368495 ACGAAACGAGTTTGATTTTGGC 58.632 40.909 5.89 0.00 32.11 4.52
664 802 4.436523 GTGGACGAAACGAGTTTGATTTTG 59.563 41.667 5.89 0.00 32.11 2.44
677 817 1.079503 GATCCTGCTGTGGACGAAAC 58.920 55.000 0.00 0.00 39.17 2.78
689 829 3.509184 AGAAAGGAAAGCAAAGATCCTGC 59.491 43.478 8.95 8.95 42.72 4.85
690 830 4.617762 GCAGAAAGGAAAGCAAAGATCCTG 60.618 45.833 0.00 0.00 42.72 3.86
715 861 5.923204 AGGCTAAAGAAGGTATGATCAGTG 58.077 41.667 0.09 0.00 0.00 3.66
717 863 5.546526 GGAGGCTAAAGAAGGTATGATCAG 58.453 45.833 0.09 0.00 0.00 2.90
737 883 6.072452 ACAAAAGAAGAGCTTTAAATCCGGAG 60.072 38.462 11.34 0.00 45.85 4.63
750 896 1.873591 TCCGAGCAACAAAAGAAGAGC 59.126 47.619 0.00 0.00 0.00 4.09
854 1002 2.362717 AGACTAGGTTAATCGCAGGAGC 59.637 50.000 0.00 0.00 37.42 4.70
860 1008 4.113354 CCAAGTCAGACTAGGTTAATCGC 58.887 47.826 2.64 0.00 0.00 4.58
885 1033 1.823899 CAGCAAGTTATCCCCGGGC 60.824 63.158 17.73 0.00 0.00 6.13
886 1034 0.034477 AACAGCAAGTTATCCCCGGG 60.034 55.000 15.80 15.80 39.09 5.73
888 1036 1.006832 CGAACAGCAAGTTATCCCCG 58.993 55.000 0.00 0.00 41.51 5.73
907 1055 5.347364 CAGCTAAACTCAAGAACAGTAGAGC 59.653 44.000 0.00 0.00 34.26 4.09
913 1061 3.059884 TCGCAGCTAAACTCAAGAACAG 58.940 45.455 0.00 0.00 0.00 3.16
917 1065 2.610479 CCTGTCGCAGCTAAACTCAAGA 60.610 50.000 0.00 0.00 0.00 3.02
920 1068 0.679505 ACCTGTCGCAGCTAAACTCA 59.320 50.000 0.00 0.00 0.00 3.41
921 1069 1.727335 GAACCTGTCGCAGCTAAACTC 59.273 52.381 0.00 0.00 0.00 3.01
922 1070 1.344763 AGAACCTGTCGCAGCTAAACT 59.655 47.619 0.00 0.00 0.00 2.66
923 1071 1.797025 AGAACCTGTCGCAGCTAAAC 58.203 50.000 0.00 0.00 0.00 2.01
927 1075 0.322975 ATGAAGAACCTGTCGCAGCT 59.677 50.000 1.84 0.00 0.00 4.24
928 1076 0.723981 GATGAAGAACCTGTCGCAGC 59.276 55.000 1.84 0.00 0.00 5.25
933 1091 4.389374 TGGAACAAGATGAAGAACCTGTC 58.611 43.478 0.00 0.00 31.92 3.51
944 1105 9.873655 TAGCTACTCTGCACTTGGAACAAGATG 62.874 44.444 15.23 10.42 38.57 2.90
950 1111 2.464157 AGCTACTCTGCACTTGGAAC 57.536 50.000 0.00 0.00 34.99 3.62
987 1152 3.449737 CCAGCACCATCTTGGAATGAATT 59.550 43.478 0.00 0.00 40.96 2.17
988 1153 3.028850 CCAGCACCATCTTGGAATGAAT 58.971 45.455 0.00 0.00 40.96 2.57
989 1154 2.449464 CCAGCACCATCTTGGAATGAA 58.551 47.619 0.00 0.00 40.96 2.57
990 1155 1.956636 GCCAGCACCATCTTGGAATGA 60.957 52.381 0.00 0.00 40.96 2.57
1221 1402 0.107459 GCTCCAGGAAGATGGACACC 60.107 60.000 0.00 0.00 44.56 4.16
1224 1405 1.522580 GCGCTCCAGGAAGATGGAC 60.523 63.158 0.00 0.00 44.56 4.02
1741 1970 1.443872 CGAAGTCGTCCGGGTTGAG 60.444 63.158 0.00 0.00 34.11 3.02
1848 2201 3.071459 GAACTGCATGTCGGCGTCG 62.071 63.158 1.15 1.15 36.28 5.12
1849 2202 1.687494 GAGAACTGCATGTCGGCGTC 61.687 60.000 6.85 0.72 36.28 5.19
2067 2492 1.609501 CTTCTCCACCACCTCGGGA 60.610 63.158 0.00 0.00 40.22 5.14
2270 2913 1.035932 TCAGCCACGAGTAGTAGGCC 61.036 60.000 0.00 0.00 43.42 5.19
2271 2914 1.001158 GATCAGCCACGAGTAGTAGGC 60.001 57.143 8.19 8.19 43.03 3.93
2272 2915 2.577700 AGATCAGCCACGAGTAGTAGG 58.422 52.381 0.00 0.00 0.00 3.18
2273 2916 3.187637 GCTAGATCAGCCACGAGTAGTAG 59.812 52.174 0.00 0.00 45.23 2.57
2275 2918 1.950909 GCTAGATCAGCCACGAGTAGT 59.049 52.381 0.00 0.00 45.23 2.73
2276 2919 2.697431 GCTAGATCAGCCACGAGTAG 57.303 55.000 0.00 0.00 45.23 2.57
2296 2953 5.824097 TGGTGATCGATCATTGTTCATTCAT 59.176 36.000 29.53 0.00 39.30 2.57
2298 2955 5.739752 TGGTGATCGATCATTGTTCATTC 57.260 39.130 29.53 13.80 39.30 2.67
2299 2956 5.009310 CCATGGTGATCGATCATTGTTCATT 59.991 40.000 29.53 7.81 39.30 2.57
2305 2962 2.223745 TGCCATGGTGATCGATCATTG 58.776 47.619 29.53 24.07 39.30 2.82
2306 2963 2.643995 TGCCATGGTGATCGATCATT 57.356 45.000 29.53 15.51 39.30 2.57
2308 2965 2.223745 CAATGCCATGGTGATCGATCA 58.776 47.619 23.99 23.99 0.00 2.92
2309 2966 1.538512 CCAATGCCATGGTGATCGATC 59.461 52.381 18.72 18.72 35.65 3.69
2310 2967 1.612676 CCAATGCCATGGTGATCGAT 58.387 50.000 14.67 0.00 35.65 3.59
2312 2969 1.361271 GCCAATGCCATGGTGATCG 59.639 57.895 14.67 0.00 42.75 3.69
2313 2970 0.387929 CTGCCAATGCCATGGTGATC 59.612 55.000 14.67 0.00 42.75 2.92
2314 2971 1.046472 CCTGCCAATGCCATGGTGAT 61.046 55.000 14.67 2.88 42.75 3.06
2315 2972 1.683025 CCTGCCAATGCCATGGTGA 60.683 57.895 14.67 0.10 42.75 4.02
2316 2973 1.985662 ACCTGCCAATGCCATGGTG 60.986 57.895 14.67 3.49 42.75 4.17
2318 2975 1.952102 GACACCTGCCAATGCCATGG 61.952 60.000 7.63 7.63 43.70 3.66
2319 2976 1.514087 GACACCTGCCAATGCCATG 59.486 57.895 0.00 0.00 36.33 3.66
2320 2977 1.683365 GGACACCTGCCAATGCCAT 60.683 57.895 0.00 0.00 36.33 4.40
2321 2978 1.496444 TAGGACACCTGCCAATGCCA 61.496 55.000 0.00 0.00 34.61 4.92
2377 3213 0.531090 TCTTGTTGAACCCGTCCACG 60.531 55.000 0.00 0.00 39.44 4.94
2497 3333 2.351350 GGGAACATTTGATGCGACGTTT 60.351 45.455 0.00 0.00 0.00 3.60
2518 3354 9.314321 CAGAAGTACTTATATTGGTTACCTGTG 57.686 37.037 8.42 0.00 0.00 3.66
2609 4085 5.679638 GCAGAACTGAATGAAACACCAAAGT 60.680 40.000 5.97 0.00 0.00 2.66
2695 4369 0.032130 CGTACGCCAGTATCAGCCAT 59.968 55.000 0.52 0.00 35.01 4.40
2812 4486 1.599576 GAGGTGGCTCCAGAAGGAC 59.400 63.158 8.51 0.00 39.61 3.85
2900 4574 7.168135 GTCATCTTTTAGTTTCTTGCTTGGTTG 59.832 37.037 0.00 0.00 0.00 3.77
2917 4591 3.077359 GCAGGCACTAGTGTCATCTTTT 58.923 45.455 28.22 4.48 37.73 2.27
2920 4594 0.539051 GGCAGGCACTAGTGTCATCT 59.461 55.000 28.22 15.24 37.73 2.90
2921 4595 0.539051 AGGCAGGCACTAGTGTCATC 59.461 55.000 28.22 18.23 37.73 2.92
2922 4596 0.987294 AAGGCAGGCACTAGTGTCAT 59.013 50.000 28.22 13.58 37.73 3.06
2923 4597 0.035317 CAAGGCAGGCACTAGTGTCA 59.965 55.000 28.22 0.00 37.73 3.58
2925 4599 1.302832 GCAAGGCAGGCACTAGTGT 60.303 57.895 23.44 2.22 36.02 3.55
2926 4600 2.393768 CGCAAGGCAGGCACTAGTG 61.394 63.158 18.93 18.93 36.02 2.74
2927 4601 2.046892 CGCAAGGCAGGCACTAGT 60.047 61.111 0.00 0.00 36.02 2.57
2928 4602 1.812922 CTCGCAAGGCAGGCACTAG 60.813 63.158 0.00 0.00 34.99 2.57
2929 4603 2.265739 CTCGCAAGGCAGGCACTA 59.734 61.111 0.00 0.00 34.99 2.74
2930 4604 4.711949 CCTCGCAAGGCAGGCACT 62.712 66.667 0.00 0.00 35.37 4.40
2931 4605 4.704833 TCCTCGCAAGGCAGGCAC 62.705 66.667 0.00 0.00 43.02 5.01
2932 4606 4.704833 GTCCTCGCAAGGCAGGCA 62.705 66.667 0.00 0.00 43.02 4.75
2934 4608 1.971505 TATGGTCCTCGCAAGGCAGG 61.972 60.000 0.00 0.00 43.02 4.85
2937 4611 1.889573 GCTATGGTCCTCGCAAGGC 60.890 63.158 0.00 0.00 43.02 4.35
2940 4614 0.248012 TTTCGCTATGGTCCTCGCAA 59.752 50.000 0.00 0.00 0.00 4.85
2944 4618 0.831307 AGGGTTTCGCTATGGTCCTC 59.169 55.000 0.00 0.00 0.00 3.71
2949 4623 4.010349 AGAAGAAAAGGGTTTCGCTATGG 58.990 43.478 0.00 0.00 46.56 2.74
2960 4634 7.944729 TCTCCATTATTGAAGAAGAAAAGGG 57.055 36.000 0.00 0.00 0.00 3.95
2987 4664 8.993121 CAAGCCTATCGATTTTACATGAGTAAT 58.007 33.333 1.71 0.00 39.78 1.89
2988 4665 7.985184 ACAAGCCTATCGATTTTACATGAGTAA 59.015 33.333 1.71 0.00 38.40 2.24
3016 4693 3.127203 CACAAGACACAAACGGGTTACAA 59.873 43.478 0.00 0.00 0.00 2.41
3026 4703 7.857734 TTTTCTGAGATACACAAGACACAAA 57.142 32.000 0.00 0.00 0.00 2.83
3033 4710 6.128445 ACGCTGATTTTTCTGAGATACACAAG 60.128 38.462 0.00 0.00 0.00 3.16
3043 4720 4.756642 AGATGACAACGCTGATTTTTCTGA 59.243 37.500 0.00 0.00 0.00 3.27
3045 4722 5.471456 AGAAGATGACAACGCTGATTTTTCT 59.529 36.000 0.00 0.00 0.00 2.52
3046 4723 5.693814 AGAAGATGACAACGCTGATTTTTC 58.306 37.500 0.00 0.00 0.00 2.29
3047 4724 5.471456 AGAGAAGATGACAACGCTGATTTTT 59.529 36.000 0.00 0.00 0.00 1.94
3048 4725 4.999950 AGAGAAGATGACAACGCTGATTTT 59.000 37.500 0.00 0.00 0.00 1.82
3056 4734 2.091277 GCGACAAGAGAAGATGACAACG 59.909 50.000 0.00 0.00 0.00 4.10
3070 4748 0.716108 CCGTCTGCTTTAGCGACAAG 59.284 55.000 19.09 10.73 45.83 3.16
3125 4803 7.032377 ACTCCAAGTTGAGAAATCTGAAAAC 57.968 36.000 3.87 0.00 36.22 2.43
3211 4898 7.652909 TGATTCATCATTCTGAAACACCAAAAC 59.347 33.333 0.00 0.00 38.55 2.43
3227 4914 3.942829 ACAGACCACGTTGATTCATCAT 58.057 40.909 0.00 0.00 36.56 2.45
3228 4915 3.401033 ACAGACCACGTTGATTCATCA 57.599 42.857 0.00 0.00 34.44 3.07
3229 4916 5.276395 CGATTACAGACCACGTTGATTCATC 60.276 44.000 0.00 0.00 0.00 2.92
3291 4987 5.034152 CGTGCAGTGAACAAAACAAACTAT 58.966 37.500 1.23 0.00 0.00 2.12
3390 5088 6.126997 TGTTTTCCAACTTGAGTACTACCAGA 60.127 38.462 0.00 0.00 33.58 3.86
3402 5100 6.154445 CCTGATCAATCTGTTTTCCAACTTG 58.846 40.000 0.00 0.00 33.58 3.16
3542 5243 3.370104 CATATGGTGGCAAGGGGTTTTA 58.630 45.455 0.00 0.00 0.00 1.52
3602 5303 3.259876 TGTTAGCACTACCCTTGTACTGG 59.740 47.826 0.00 0.00 0.00 4.00
3609 5310 2.302157 GTCCACTGTTAGCACTACCCTT 59.698 50.000 0.00 0.00 0.00 3.95
3610 5311 1.900486 GTCCACTGTTAGCACTACCCT 59.100 52.381 0.00 0.00 0.00 4.34
3661 5365 2.972625 TCTACCAGCCACTTTCATTCG 58.027 47.619 0.00 0.00 0.00 3.34
3673 5377 1.464997 CTTTGCCGAAGTTCTACCAGC 59.535 52.381 0.56 0.00 0.00 4.85
3756 5465 5.809051 GGGTCGATCGTAACAAACTCTATTT 59.191 40.000 15.94 0.00 0.00 1.40
3761 5470 1.916000 CGGGTCGATCGTAACAAACTC 59.084 52.381 15.94 3.47 0.00 3.01
3794 5503 8.539544 TCTTCCATGTCACAAGAGTAATAATCA 58.460 33.333 0.00 0.00 0.00 2.57
3807 5516 4.916041 ATCTCCTTTCTTCCATGTCACA 57.084 40.909 0.00 0.00 0.00 3.58
3830 5539 2.012236 ACCTCCTCTAACCTCTTCCCT 58.988 52.381 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.