Multiple sequence alignment - TraesCS6A01G154200

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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 TraesCS6A01G154200 chr6A 100.000 7268 0 0 1 7268 142791124 142783857 0.000000e+00 13422.0
1 TraesCS6A01G154200 chr6A 94.872 39 2 0 5022 5060 142786045 142786007 2.190000e-05 62.1
2 TraesCS6A01G154200 chr6A 94.872 39 2 0 5080 5118 142786103 142786065 2.190000e-05 62.1
3 TraesCS6A01G154200 chr6D 95.698 4649 125 32 2096 6715 114237713 114233111 0.000000e+00 7408.0
4 TraesCS6A01G154200 chr6D 93.419 2112 83 18 1 2091 114240205 114238129 0.000000e+00 3079.0
5 TraesCS6A01G154200 chr6D 93.029 373 18 2 6904 7268 114233081 114232709 8.300000e-149 538.0
6 TraesCS6A01G154200 chr6D 94.872 39 2 0 5022 5060 114234747 114234709 2.190000e-05 62.1
7 TraesCS6A01G154200 chr6D 94.872 39 2 0 5080 5118 114234805 114234767 2.190000e-05 62.1
8 TraesCS6A01G154200 chr6B 93.616 4903 214 46 1 4843 203932057 203927194 0.000000e+00 7228.0
9 TraesCS6A01G154200 chr6B 93.920 1908 62 20 4834 6715 203925386 203923507 0.000000e+00 2832.0
10 TraesCS6A01G154200 chr6B 92.877 365 19 1 6904 7268 203923477 203923120 2.320000e-144 523.0
11 TraesCS6A01G154200 chr6B 93.000 100 6 1 6808 6906 8925432 8925531 2.110000e-30 145.0
12 TraesCS6A01G154200 chr6B 94.872 39 2 0 5022 5060 203925138 203925100 2.190000e-05 62.1
13 TraesCS6A01G154200 chr7D 77.838 370 75 5 1020 1384 587833058 587833425 9.490000e-54 222.0
14 TraesCS6A01G154200 chr7D 94.898 98 4 1 6804 6901 506141359 506141455 1.260000e-32 152.0
15 TraesCS6A01G154200 chr7A 77.297 370 77 4 1020 1384 679760799 679761166 2.050000e-50 211.0
16 TraesCS6A01G154200 chr7A 93.000 100 6 1 6811 6910 705701523 705701621 2.110000e-30 145.0
17 TraesCS6A01G154200 chr7B 96.809 94 1 2 6815 6907 208276708 208276800 9.760000e-34 156.0
18 TraesCS6A01G154200 chr7B 92.381 105 7 1 6811 6915 440325600 440325703 1.630000e-31 148.0
19 TraesCS6A01G154200 chr3D 95.699 93 3 1 6811 6903 509255109 509255200 1.630000e-31 148.0
20 TraesCS6A01G154200 chr3B 94.737 95 5 0 6813 6907 642815846 642815940 1.630000e-31 148.0
21 TraesCS6A01G154200 chr2A 93.137 102 6 1 6799 6899 10843316 10843215 1.630000e-31 148.0
22 TraesCS6A01G154200 chr1B 93.069 101 5 2 6809 6907 53076315 53076215 5.880000e-31 147.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G154200 chr6A 142783857 142791124 7267 True 13422.000 13422 100.00000 1 7268 1 chr6A.!!$R1 7267
1 TraesCS6A01G154200 chr6D 114232709 114240205 7496 True 2229.840 7408 94.37800 1 7268 5 chr6D.!!$R1 7267
2 TraesCS6A01G154200 chr6B 203923120 203932057 8937 True 2661.275 7228 93.82125 1 7268 4 chr6B.!!$R1 7267

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
235 243 0.933791 AGTCCTCCTCCTCCTCCCAT 60.934 60.000 0.00 0.00 0.00 4.00 F
1665 1683 0.535335 TCCACACGTCTAATCAGGCC 59.465 55.000 0.00 0.00 0.00 5.19 F
2715 3173 1.138464 AGTCATGCATGCGAGATGAGT 59.862 47.619 22.25 16.98 0.00 3.41 F
3920 4395 0.249741 AACTGTCCACCTTTCGGTCG 60.250 55.000 0.00 0.00 43.24 4.79 F
4293 4768 0.035739 GGGTACAACCTTCGCCTTCA 59.964 55.000 0.00 0.00 38.64 3.02 F
4297 4772 0.535102 ACAACCTTCGCCTTCACAGG 60.535 55.000 0.00 0.00 44.28 4.00 F
6002 8350 2.037772 AGACCGCTATCCAATGGACATC 59.962 50.000 3.09 0.00 32.98 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2192 2629 1.169661 GGCGTTGATGAACCACCACA 61.170 55.000 0.00 0.00 0.00 4.17 R
3492 3965 1.992667 CGATGACGTATGTGCTGTGTT 59.007 47.619 0.00 0.00 34.56 3.32 R
4279 4754 0.535102 ACCTGTGAAGGCGAAGGTTG 60.535 55.000 0.00 0.00 40.14 3.77 R
4995 7318 2.355108 GCCACACTGCTGAAATAGGAGA 60.355 50.000 2.40 0.00 46.90 3.71 R
6043 8391 3.797039 TCGCTGAACTATTGGAATGGAG 58.203 45.455 0.00 0.00 0.00 3.86 R
6063 8411 8.391106 ACACGACTATTTGCATCTAGAAATTTC 58.609 33.333 10.33 10.33 0.00 2.17 R
7102 9452 0.667993 TGCTCCTTCAAAACAAGGCG 59.332 50.000 0.00 0.00 42.63 5.52 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
39 40 4.263572 CGCCCACTTCCACCACCA 62.264 66.667 0.00 0.00 0.00 4.17
40 41 2.597510 GCCCACTTCCACCACCAC 60.598 66.667 0.00 0.00 0.00 4.16
41 42 2.115266 CCCACTTCCACCACCACC 59.885 66.667 0.00 0.00 0.00 4.61
42 43 2.762554 CCCACTTCCACCACCACCA 61.763 63.158 0.00 0.00 0.00 4.17
43 44 1.528309 CCACTTCCACCACCACCAC 60.528 63.158 0.00 0.00 0.00 4.16
44 45 1.528309 CACTTCCACCACCACCACC 60.528 63.158 0.00 0.00 0.00 4.61
230 238 1.341187 CGTGTAAGTCCTCCTCCTCCT 60.341 57.143 0.00 0.00 0.00 3.69
231 239 2.380941 GTGTAAGTCCTCCTCCTCCTC 58.619 57.143 0.00 0.00 0.00 3.71
232 240 1.288335 TGTAAGTCCTCCTCCTCCTCC 59.712 57.143 0.00 0.00 0.00 4.30
235 243 0.933791 AGTCCTCCTCCTCCTCCCAT 60.934 60.000 0.00 0.00 0.00 4.00
616 626 6.914259 TCTAATCGTCTAGACATGCCATTAG 58.086 40.000 22.37 19.91 0.00 1.73
663 673 1.400142 TGCCAAACTTCGTTGTCACAG 59.600 47.619 0.00 0.00 0.00 3.66
692 703 5.660460 ACAAGTGGCAAAGGTAAGAAAAAG 58.340 37.500 0.00 0.00 0.00 2.27
716 727 9.926158 AAGCAGTAGATCTCATAGAATAACATG 57.074 33.333 0.00 0.00 0.00 3.21
781 792 4.042398 CGTATTCCCTTCGTACATGACAG 58.958 47.826 0.00 0.00 0.00 3.51
831 842 8.684386 TTGTTTCTTGTAGATGAATGTGGTTA 57.316 30.769 0.00 0.00 0.00 2.85
906 918 4.099419 GGACAATTTTGTTCTCACCCTGTT 59.901 41.667 0.00 0.00 42.43 3.16
919 931 1.512156 CCCTGTTTGGTACGTGGCAC 61.512 60.000 7.79 7.79 0.00 5.01
946 958 5.938125 AGTTTTGGCGTTCTGAAGTATATGT 59.062 36.000 0.00 0.00 0.00 2.29
947 959 6.430000 AGTTTTGGCGTTCTGAAGTATATGTT 59.570 34.615 0.00 0.00 0.00 2.71
948 960 5.794687 TTGGCGTTCTGAAGTATATGTTG 57.205 39.130 0.00 0.00 0.00 3.33
949 961 4.188462 TGGCGTTCTGAAGTATATGTTGG 58.812 43.478 0.00 0.00 0.00 3.77
1128 1140 6.587990 TGTCAATTGTTTGTGTTTCGTTGATT 59.412 30.769 5.13 0.00 34.32 2.57
1200 1212 4.023963 GCTTCAAGTGTTTGTACTCCCTTC 60.024 45.833 0.00 0.00 35.73 3.46
1299 1311 1.334869 CTTTCAATGCCTATGCCCGTC 59.665 52.381 0.00 0.00 36.33 4.79
1371 1383 4.265073 CCTTCGAGAAATTGTGGGAGAAT 58.735 43.478 0.00 0.00 0.00 2.40
1534 1552 8.312564 CGATATTCCATCTATATCCATGCATCT 58.687 37.037 0.00 0.00 33.39 2.90
1655 1673 5.104374 TCCGTTTATCTTAATCCACACGTC 58.896 41.667 0.00 0.00 0.00 4.34
1665 1683 0.535335 TCCACACGTCTAATCAGGCC 59.465 55.000 0.00 0.00 0.00 5.19
1771 1790 7.180748 GCTCGTGTTTTCCTACATTCTTAATC 58.819 38.462 0.00 0.00 0.00 1.75
1794 1813 4.447054 CGATATGCAAAACTGGCAAAACAA 59.553 37.500 0.00 0.00 45.60 2.83
1830 1849 6.313905 GGATCATACCGCAGTTAGAAATATGG 59.686 42.308 0.00 0.00 0.00 2.74
1847 1866 2.032965 TGGACAAGGGTGTAAGGCTA 57.967 50.000 0.00 0.00 38.41 3.93
1868 1887 4.301072 ACATTTGGGCAGTAGTACATGT 57.699 40.909 2.69 2.69 0.00 3.21
1889 1912 8.764558 ACATGTATAAAGGGTACTGTACAATGA 58.235 33.333 18.79 1.52 0.00 2.57
2032 2055 3.722147 CCCAAGTCTCATAATCTGACCG 58.278 50.000 0.00 0.00 0.00 4.79
2206 2643 1.774254 AGAGGTTGTGGTGGTTCATCA 59.226 47.619 0.00 0.00 0.00 3.07
2275 2716 7.085052 ACAGAAAGAAAACTAACCAACTCAC 57.915 36.000 0.00 0.00 0.00 3.51
2501 2942 9.905713 ACATTGGTTTAACATGATCAGTATAGT 57.094 29.630 0.00 0.00 0.00 2.12
2715 3173 1.138464 AGTCATGCATGCGAGATGAGT 59.862 47.619 22.25 16.98 0.00 3.41
2748 3206 4.037690 GCTGTAACTTGCTGTCTTTTGTG 58.962 43.478 0.00 0.00 0.00 3.33
2805 3263 3.359654 CAACTTCCTGTGTTTTGTACGC 58.640 45.455 0.00 0.00 37.77 4.42
3093 3557 4.354587 GTCTTGCTTTCTGACAGGTTTTG 58.645 43.478 1.81 0.00 0.00 2.44
3286 3752 6.395629 TGGATACCTGTAAGAAGAGAAAACG 58.604 40.000 0.00 0.00 34.07 3.60
3377 3843 5.386958 TGATGACAATACCTATACTCCGC 57.613 43.478 0.00 0.00 0.00 5.54
3441 3907 2.812591 GTGAATATGGCAGATGCTCCAG 59.187 50.000 1.13 0.00 41.70 3.86
3612 4085 7.645340 CACTTTGTATGGCAGAGTAAAATATGC 59.355 37.037 0.00 0.00 40.11 3.14
3884 4359 1.713078 ACCTCCAGCCATTCCTTTCTT 59.287 47.619 0.00 0.00 0.00 2.52
3886 4361 3.054065 ACCTCCAGCCATTCCTTTCTTAG 60.054 47.826 0.00 0.00 0.00 2.18
3897 4372 6.360618 CATTCCTTTCTTAGCCTCCAACTAT 58.639 40.000 0.00 0.00 0.00 2.12
3920 4395 0.249741 AACTGTCCACCTTTCGGTCG 60.250 55.000 0.00 0.00 43.24 4.79
4062 4537 0.679640 TGATGATGGGGGCGTTTGTC 60.680 55.000 0.00 0.00 0.00 3.18
4110 4585 3.325870 ACATGTAGTGTCACATCAACCG 58.674 45.455 5.62 0.87 37.02 4.44
4256 4731 4.974645 AGATTTAGTTGTGGTGACCTGA 57.025 40.909 2.11 0.00 0.00 3.86
4279 4754 2.511659 GGTTTTGAGTTGAGGGGGTAC 58.488 52.381 0.00 0.00 0.00 3.34
4280 4755 2.158579 GGTTTTGAGTTGAGGGGGTACA 60.159 50.000 0.00 0.00 0.00 2.90
4281 4756 3.558033 GTTTTGAGTTGAGGGGGTACAA 58.442 45.455 0.00 0.00 0.00 2.41
4282 4757 2.943036 TTGAGTTGAGGGGGTACAAC 57.057 50.000 0.00 0.00 44.27 3.32
4283 4758 1.061546 TGAGTTGAGGGGGTACAACC 58.938 55.000 0.00 0.00 44.79 3.77
4284 4759 1.359168 GAGTTGAGGGGGTACAACCT 58.641 55.000 7.25 7.25 44.79 3.50
4285 4760 1.703513 GAGTTGAGGGGGTACAACCTT 59.296 52.381 8.76 0.00 44.79 3.50
4286 4761 1.703513 AGTTGAGGGGGTACAACCTTC 59.296 52.381 8.76 9.42 44.79 3.46
4287 4762 0.688487 TTGAGGGGGTACAACCTTCG 59.312 55.000 8.76 0.00 37.37 3.79
4288 4763 1.078637 GAGGGGGTACAACCTTCGC 60.079 63.158 8.76 0.00 37.37 4.70
4289 4764 2.045634 GGGGGTACAACCTTCGCC 60.046 66.667 5.89 0.00 38.64 5.54
4290 4765 2.599757 GGGGGTACAACCTTCGCCT 61.600 63.158 5.89 0.00 38.64 5.52
4291 4766 1.377612 GGGGTACAACCTTCGCCTT 59.622 57.895 0.00 0.00 38.64 4.35
4292 4767 0.675837 GGGGTACAACCTTCGCCTTC 60.676 60.000 0.00 0.00 38.64 3.46
4293 4768 0.035739 GGGTACAACCTTCGCCTTCA 59.964 55.000 0.00 0.00 38.64 3.02
4294 4769 1.154197 GGTACAACCTTCGCCTTCAC 58.846 55.000 0.00 0.00 34.73 3.18
4295 4770 1.541670 GGTACAACCTTCGCCTTCACA 60.542 52.381 0.00 0.00 34.73 3.58
4296 4771 1.798813 GTACAACCTTCGCCTTCACAG 59.201 52.381 0.00 0.00 0.00 3.66
4297 4772 0.535102 ACAACCTTCGCCTTCACAGG 60.535 55.000 0.00 0.00 44.28 4.00
4298 4773 0.535102 CAACCTTCGCCTTCACAGGT 60.535 55.000 0.00 0.00 43.18 4.00
4338 4838 2.812658 AGGTACAGCGGTAACTTAGGT 58.187 47.619 8.92 0.00 45.23 3.08
4661 5163 6.425210 ACAAGAAGGCATGCTATACTGATA 57.575 37.500 18.92 0.00 0.00 2.15
4960 7283 2.787956 TGGAATCATGGGGGATAGTGT 58.212 47.619 0.00 0.00 0.00 3.55
4963 7286 4.016666 TGGAATCATGGGGGATAGTGTTTT 60.017 41.667 0.00 0.00 0.00 2.43
5617 7958 6.537453 AGTGATGAGTCTGTAAGCATAACT 57.463 37.500 0.00 0.00 29.57 2.24
5624 7965 8.762481 TGAGTCTGTAAGCATAACTATTCCTA 57.238 34.615 0.00 0.00 0.00 2.94
5676 8017 7.786046 TTTCTGTTACTAGGACTTGGTGATA 57.214 36.000 0.00 0.00 0.00 2.15
5709 8057 5.483685 TGTTGTGATCTAGTACTTGCCTT 57.516 39.130 0.00 0.00 0.00 4.35
5988 8336 4.281182 CACTAATCCTATTACCAGACCGCT 59.719 45.833 0.00 0.00 0.00 5.52
6002 8350 2.037772 AGACCGCTATCCAATGGACATC 59.962 50.000 3.09 0.00 32.98 3.06
6043 8391 4.934001 TCATCAGCAGTCATTCTGAAGAAC 59.066 41.667 0.00 0.00 46.27 3.01
6063 8411 3.535561 ACTCCATTCCAATAGTTCAGCG 58.464 45.455 0.00 0.00 0.00 5.18
6101 8449 6.675486 GCAAATAGTCGTGTTGTAGCATTGAT 60.675 38.462 0.00 0.00 0.00 2.57
6102 8450 5.973651 ATAGTCGTGTTGTAGCATTGATG 57.026 39.130 0.00 0.00 0.00 3.07
6113 8461 8.089597 TGTTGTAGCATTGATGTGAATGATTTT 58.910 29.630 0.00 0.00 35.65 1.82
6388 8736 1.073964 CCAGAGACATGTCGTTGCTG 58.926 55.000 19.85 21.63 34.09 4.41
6389 8737 1.606480 CCAGAGACATGTCGTTGCTGT 60.606 52.381 25.15 9.72 34.09 4.40
6391 8739 2.919859 CAGAGACATGTCGTTGCTGTAG 59.080 50.000 19.85 2.33 34.09 2.74
6407 8755 4.171005 GCTGTAGCAACTATAACGACACA 58.829 43.478 0.00 0.00 41.59 3.72
6483 8831 2.684881 CACTGCCCTCATTGTAATCCAC 59.315 50.000 0.00 0.00 0.00 4.02
6521 8869 5.769662 TGTTTCTGTTAGCTGTCCATTTCAT 59.230 36.000 0.00 0.00 0.00 2.57
6527 8875 7.231317 TCTGTTAGCTGTCCATTTCATCTTTTT 59.769 33.333 0.00 0.00 0.00 1.94
6554 8902 8.703604 TCTCATTCCTGTATTTCTAACTTTCG 57.296 34.615 0.00 0.00 0.00 3.46
6559 8907 7.360575 TCCTGTATTTCTAACTTTCGCTTTC 57.639 36.000 0.00 0.00 0.00 2.62
6560 8908 6.370718 TCCTGTATTTCTAACTTTCGCTTTCC 59.629 38.462 0.00 0.00 0.00 3.13
6587 8935 2.515853 TCCTAGCTCCCATCTCTTGAGA 59.484 50.000 2.59 2.59 0.00 3.27
6594 8942 3.517100 CTCCCATCTCTTGAGAAACAGGA 59.483 47.826 4.33 7.52 33.64 3.86
6612 8960 2.173569 AGGAGTTTTGTCCAGTTCAGCT 59.826 45.455 0.00 0.00 39.34 4.24
6613 8961 2.291741 GGAGTTTTGTCCAGTTCAGCTG 59.708 50.000 7.63 7.63 44.63 4.24
6614 8962 2.945668 GAGTTTTGTCCAGTTCAGCTGT 59.054 45.455 14.67 0.00 43.55 4.40
6616 8964 4.523083 AGTTTTGTCCAGTTCAGCTGTTA 58.477 39.130 14.67 0.00 43.55 2.41
6617 8965 4.335594 AGTTTTGTCCAGTTCAGCTGTTAC 59.664 41.667 14.67 13.07 43.55 2.50
6618 8966 3.838244 TTGTCCAGTTCAGCTGTTACT 57.162 42.857 14.67 15.12 43.55 2.24
6619 8967 4.948341 TTGTCCAGTTCAGCTGTTACTA 57.052 40.909 14.67 2.25 43.55 1.82
6620 8968 5.483685 TTGTCCAGTTCAGCTGTTACTAT 57.516 39.130 14.67 0.00 43.55 2.12
6621 8969 6.599356 TTGTCCAGTTCAGCTGTTACTATA 57.401 37.500 14.67 7.23 43.55 1.31
6622 8970 5.962433 TGTCCAGTTCAGCTGTTACTATAC 58.038 41.667 14.67 17.04 43.55 1.47
6623 8971 5.105473 TGTCCAGTTCAGCTGTTACTATACC 60.105 44.000 14.67 7.86 43.55 2.73
6624 8972 4.404715 TCCAGTTCAGCTGTTACTATACCC 59.595 45.833 14.67 0.00 43.55 3.69
6625 8973 4.161565 CCAGTTCAGCTGTTACTATACCCA 59.838 45.833 14.67 0.00 43.55 4.51
6626 8974 5.163301 CCAGTTCAGCTGTTACTATACCCAT 60.163 44.000 14.67 0.00 43.55 4.00
6627 8975 5.986135 CAGTTCAGCTGTTACTATACCCATC 59.014 44.000 14.67 0.00 40.27 3.51
6696 9044 1.400242 GCTCAGTTTTGCCGACATGTC 60.400 52.381 16.21 16.21 0.00 3.06
6706 9054 7.985184 AGTTTTGCCGACATGTCTATATTTCTA 59.015 33.333 22.95 0.00 0.00 2.10
6708 9056 8.902540 TTTGCCGACATGTCTATATTTCTAAT 57.097 30.769 22.95 0.00 0.00 1.73
6729 9077 9.436957 TCTAATCTCTTTGTTTTCCAGATACAC 57.563 33.333 0.00 0.00 0.00 2.90
6731 9079 8.641498 AATCTCTTTGTTTTCCAGATACACAT 57.359 30.769 0.00 0.00 0.00 3.21
6732 9080 9.739276 AATCTCTTTGTTTTCCAGATACACATA 57.261 29.630 0.00 0.00 0.00 2.29
6733 9081 8.547967 TCTCTTTGTTTTCCAGATACACATAC 57.452 34.615 0.00 0.00 0.00 2.39
6734 9082 7.330946 TCTCTTTGTTTTCCAGATACACATACG 59.669 37.037 0.00 0.00 0.00 3.06
6735 9083 5.539582 TTGTTTTCCAGATACACATACGC 57.460 39.130 0.00 0.00 0.00 4.42
6736 9084 4.570930 TGTTTTCCAGATACACATACGCA 58.429 39.130 0.00 0.00 0.00 5.24
6753 9101 3.793559 ACGCAGTAGTTTAGGCTTATGG 58.206 45.455 0.00 0.00 41.94 2.74
6754 9102 2.544267 CGCAGTAGTTTAGGCTTATGGC 59.456 50.000 0.00 0.00 40.90 4.40
6755 9103 2.544267 GCAGTAGTTTAGGCTTATGGCG 59.456 50.000 0.00 0.00 44.18 5.69
6756 9104 3.740141 GCAGTAGTTTAGGCTTATGGCGA 60.740 47.826 0.00 0.00 44.18 5.54
6757 9105 4.051922 CAGTAGTTTAGGCTTATGGCGAG 58.948 47.826 0.00 0.00 44.18 5.03
6758 9106 3.705072 AGTAGTTTAGGCTTATGGCGAGT 59.295 43.478 0.00 0.00 44.18 4.18
6759 9107 3.629142 AGTTTAGGCTTATGGCGAGTT 57.371 42.857 0.00 0.00 44.18 3.01
6760 9108 4.748277 AGTTTAGGCTTATGGCGAGTTA 57.252 40.909 0.00 0.00 44.18 2.24
6761 9109 4.694339 AGTTTAGGCTTATGGCGAGTTAG 58.306 43.478 0.00 0.00 44.18 2.34
6762 9110 4.161754 AGTTTAGGCTTATGGCGAGTTAGT 59.838 41.667 0.00 0.00 44.18 2.24
6763 9111 5.361857 AGTTTAGGCTTATGGCGAGTTAGTA 59.638 40.000 0.00 0.00 44.18 1.82
6764 9112 6.041751 AGTTTAGGCTTATGGCGAGTTAGTAT 59.958 38.462 0.00 0.00 44.18 2.12
6765 9113 4.258702 AGGCTTATGGCGAGTTAGTATG 57.741 45.455 0.00 0.00 44.18 2.39
6766 9114 3.641906 AGGCTTATGGCGAGTTAGTATGT 59.358 43.478 0.00 0.00 44.18 2.29
6767 9115 3.988517 GGCTTATGGCGAGTTAGTATGTC 59.011 47.826 0.00 0.00 42.94 3.06
6768 9116 4.500887 GGCTTATGGCGAGTTAGTATGTCA 60.501 45.833 0.00 0.00 42.94 3.58
6769 9117 5.230942 GCTTATGGCGAGTTAGTATGTCAT 58.769 41.667 0.00 0.00 0.00 3.06
6770 9118 5.696724 GCTTATGGCGAGTTAGTATGTCATT 59.303 40.000 0.00 0.00 0.00 2.57
6771 9119 6.202954 GCTTATGGCGAGTTAGTATGTCATTT 59.797 38.462 0.00 0.00 0.00 2.32
6772 9120 5.991328 ATGGCGAGTTAGTATGTCATTTG 57.009 39.130 0.00 0.00 0.00 2.32
6773 9121 4.827692 TGGCGAGTTAGTATGTCATTTGT 58.172 39.130 0.00 0.00 0.00 2.83
6774 9122 4.629634 TGGCGAGTTAGTATGTCATTTGTG 59.370 41.667 0.00 0.00 0.00 3.33
6775 9123 4.494199 GGCGAGTTAGTATGTCATTTGTGC 60.494 45.833 0.00 0.00 0.00 4.57
6776 9124 4.092821 GCGAGTTAGTATGTCATTTGTGCA 59.907 41.667 0.00 0.00 0.00 4.57
6777 9125 5.390461 GCGAGTTAGTATGTCATTTGTGCAA 60.390 40.000 0.00 0.00 0.00 4.08
6778 9126 6.675486 GCGAGTTAGTATGTCATTTGTGCAAT 60.675 38.462 0.00 0.00 0.00 3.56
6779 9127 7.243487 CGAGTTAGTATGTCATTTGTGCAATT 58.757 34.615 0.00 0.00 0.00 2.32
6780 9128 7.750458 CGAGTTAGTATGTCATTTGTGCAATTT 59.250 33.333 0.00 0.00 0.00 1.82
6781 9129 8.970691 AGTTAGTATGTCATTTGTGCAATTTC 57.029 30.769 0.00 0.00 0.00 2.17
6782 9130 8.796475 AGTTAGTATGTCATTTGTGCAATTTCT 58.204 29.630 0.00 0.00 0.00 2.52
6783 9131 9.410556 GTTAGTATGTCATTTGTGCAATTTCTT 57.589 29.630 0.00 0.00 0.00 2.52
6785 9133 8.970691 AGTATGTCATTTGTGCAATTTCTTAC 57.029 30.769 0.00 0.00 0.00 2.34
6786 9134 8.028938 AGTATGTCATTTGTGCAATTTCTTACC 58.971 33.333 0.00 0.00 0.00 2.85
6787 9135 6.403866 TGTCATTTGTGCAATTTCTTACCT 57.596 33.333 0.00 0.00 0.00 3.08
6788 9136 6.215121 TGTCATTTGTGCAATTTCTTACCTG 58.785 36.000 0.00 0.00 0.00 4.00
6789 9137 6.183360 TGTCATTTGTGCAATTTCTTACCTGT 60.183 34.615 0.00 0.00 0.00 4.00
6790 9138 7.013750 TGTCATTTGTGCAATTTCTTACCTGTA 59.986 33.333 0.00 0.00 0.00 2.74
6791 9139 7.538678 GTCATTTGTGCAATTTCTTACCTGTAG 59.461 37.037 0.00 0.00 0.00 2.74
6792 9140 5.371115 TTGTGCAATTTCTTACCTGTAGC 57.629 39.130 0.00 0.00 0.00 3.58
6793 9141 4.393834 TGTGCAATTTCTTACCTGTAGCA 58.606 39.130 0.00 0.00 0.00 3.49
6794 9142 5.009631 TGTGCAATTTCTTACCTGTAGCAT 58.990 37.500 0.00 0.00 0.00 3.79
6795 9143 5.476599 TGTGCAATTTCTTACCTGTAGCATT 59.523 36.000 0.00 0.00 0.00 3.56
6796 9144 6.015519 TGTGCAATTTCTTACCTGTAGCATTT 60.016 34.615 0.00 0.00 0.00 2.32
6797 9145 6.868339 GTGCAATTTCTTACCTGTAGCATTTT 59.132 34.615 0.00 0.00 0.00 1.82
6798 9146 7.384932 GTGCAATTTCTTACCTGTAGCATTTTT 59.615 33.333 0.00 0.00 0.00 1.94
6822 9170 8.617290 TTTTTCAGTATTCAAAGTACTCCCTC 57.383 34.615 0.00 0.00 30.24 4.30
6823 9171 5.934402 TCAGTATTCAAAGTACTCCCTCC 57.066 43.478 0.00 0.00 30.24 4.30
6824 9172 5.338632 TCAGTATTCAAAGTACTCCCTCCA 58.661 41.667 0.00 0.00 30.24 3.86
6825 9173 5.964477 TCAGTATTCAAAGTACTCCCTCCAT 59.036 40.000 0.00 0.00 30.24 3.41
6826 9174 6.098409 TCAGTATTCAAAGTACTCCCTCCATC 59.902 42.308 0.00 0.00 30.24 3.51
6827 9175 4.779993 ATTCAAAGTACTCCCTCCATCC 57.220 45.455 0.00 0.00 0.00 3.51
6828 9176 2.478292 TCAAAGTACTCCCTCCATCCC 58.522 52.381 0.00 0.00 0.00 3.85
6829 9177 2.196595 CAAAGTACTCCCTCCATCCCA 58.803 52.381 0.00 0.00 0.00 4.37
6830 9178 2.780010 CAAAGTACTCCCTCCATCCCAT 59.220 50.000 0.00 0.00 0.00 4.00
6831 9179 3.973973 CAAAGTACTCCCTCCATCCCATA 59.026 47.826 0.00 0.00 0.00 2.74
6832 9180 4.295905 AAGTACTCCCTCCATCCCATAA 57.704 45.455 0.00 0.00 0.00 1.90
6833 9181 4.510303 AGTACTCCCTCCATCCCATAAT 57.490 45.455 0.00 0.00 0.00 1.28
6834 9182 4.171234 AGTACTCCCTCCATCCCATAATG 58.829 47.826 0.00 0.00 0.00 1.90
6835 9183 3.080660 ACTCCCTCCATCCCATAATGT 57.919 47.619 0.00 0.00 0.00 2.71
6836 9184 4.228237 ACTCCCTCCATCCCATAATGTA 57.772 45.455 0.00 0.00 0.00 2.29
6837 9185 4.577096 ACTCCCTCCATCCCATAATGTAA 58.423 43.478 0.00 0.00 0.00 2.41
6838 9186 4.599241 ACTCCCTCCATCCCATAATGTAAG 59.401 45.833 0.00 0.00 0.00 2.34
6839 9187 4.838403 TCCCTCCATCCCATAATGTAAGA 58.162 43.478 0.00 0.00 0.00 2.10
6840 9188 4.597507 TCCCTCCATCCCATAATGTAAGAC 59.402 45.833 0.00 0.00 0.00 3.01
6841 9189 4.563580 CCCTCCATCCCATAATGTAAGACG 60.564 50.000 0.00 0.00 0.00 4.18
6842 9190 4.040461 CCTCCATCCCATAATGTAAGACGT 59.960 45.833 0.00 0.00 0.00 4.34
6843 9191 5.454755 CCTCCATCCCATAATGTAAGACGTT 60.455 44.000 0.00 0.00 0.00 3.99
6844 9192 5.996644 TCCATCCCATAATGTAAGACGTTT 58.003 37.500 0.00 0.00 0.00 3.60
6845 9193 6.419791 TCCATCCCATAATGTAAGACGTTTT 58.580 36.000 0.00 0.00 0.00 2.43
6846 9194 6.887545 TCCATCCCATAATGTAAGACGTTTTT 59.112 34.615 0.00 0.00 0.00 1.94
6902 9250 2.715763 TGGGACAGAGGGAGTAGTTT 57.284 50.000 0.00 0.00 0.00 2.66
7102 9452 5.578336 GGGCAATTCAGAGCAAACTTAAATC 59.422 40.000 0.00 0.00 0.00 2.17
7127 9477 1.133823 TGTTTTGAAGGAGCAGCCAGA 60.134 47.619 0.00 0.00 40.02 3.86
7250 9606 1.679944 GCCTGGAAATACTGCTGCTGA 60.680 52.381 13.69 0.00 0.00 4.26
7262 9618 3.402691 CTGCTGATGCTGCTGCTGC 62.403 63.158 22.51 22.51 40.48 5.25
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
40 41 3.491598 GAGGTGGTGGTGGTGGTGG 62.492 68.421 0.00 0.00 0.00 4.61
41 42 2.113139 GAGGTGGTGGTGGTGGTG 59.887 66.667 0.00 0.00 0.00 4.17
42 43 3.556306 CGAGGTGGTGGTGGTGGT 61.556 66.667 0.00 0.00 0.00 4.16
43 44 3.530910 GACGAGGTGGTGGTGGTGG 62.531 68.421 0.00 0.00 0.00 4.61
44 45 2.030562 GACGAGGTGGTGGTGGTG 59.969 66.667 0.00 0.00 0.00 4.17
230 238 2.404186 CGTGGTCGAGACGATGGGA 61.404 63.158 10.68 0.00 39.21 4.37
231 239 2.102357 CGTGGTCGAGACGATGGG 59.898 66.667 10.68 0.00 39.21 4.00
232 240 2.102357 CCGTGGTCGAGACGATGG 59.898 66.667 16.48 11.17 39.30 3.51
264 272 2.111878 CCAATGCTAGGAGGCCGG 59.888 66.667 0.00 0.00 0.00 6.13
330 338 0.931662 CAAACAGCACGAGCAACAGC 60.932 55.000 7.77 0.00 45.49 4.40
384 392 2.398554 CCACGCCCAAATCACCTCG 61.399 63.158 0.00 0.00 0.00 4.63
472 480 2.365635 ATCCCCACCGAGACCCAG 60.366 66.667 0.00 0.00 0.00 4.45
529 538 1.102154 CGCAGGGCATGGTCAAAATA 58.898 50.000 0.00 0.00 0.00 1.40
579 588 2.484264 ACGATTAGAACAGCAAAGGCAC 59.516 45.455 0.00 0.00 44.61 5.01
583 592 6.093404 TGTCTAGACGATTAGAACAGCAAAG 58.907 40.000 17.85 0.00 31.80 2.77
616 626 3.186909 GCCCCAAATAAACATTTCGAGC 58.813 45.455 0.00 0.00 0.00 5.03
663 673 0.597377 CCTTTGCCACTTGTTTCGGC 60.597 55.000 0.00 0.00 46.43 5.54
716 727 4.326548 CGAAATCGTCCTGAACCTTCTTAC 59.673 45.833 0.00 0.00 34.11 2.34
781 792 0.465705 TGGCGATCACTCAAGGGATC 59.534 55.000 11.52 11.52 37.22 3.36
831 842 7.178274 TGCAAGGTTACACAAGATTAATCCATT 59.822 33.333 11.92 0.00 0.00 3.16
886 898 4.810491 CCAAACAGGGTGAGAACAAAATTG 59.190 41.667 0.00 0.00 0.00 2.32
919 931 2.542595 ACTTCAGAACGCCAAAACTACG 59.457 45.455 0.00 0.00 0.00 3.51
946 958 0.682852 CGGATTATACCCTCCGCCAA 59.317 55.000 5.03 0.00 46.87 4.52
947 959 2.358039 CGGATTATACCCTCCGCCA 58.642 57.895 5.03 0.00 46.87 5.69
1128 1140 2.090210 TGGAGGATAGACATAAGCCCCA 60.090 50.000 0.00 0.00 0.00 4.96
1299 1311 2.559668 TGCAATCTTTGGCTTCTTGGAG 59.440 45.455 0.00 0.00 0.00 3.86
1386 1398 7.721286 ATTCGTCTAAAAGGAATATCAGCAG 57.279 36.000 0.00 0.00 39.94 4.24
1463 1481 1.197721 GTTCAGGCACACCATTTCTCG 59.802 52.381 0.00 0.00 39.06 4.04
1534 1552 1.266718 GAATGCACAGGCTTTTCACGA 59.733 47.619 0.00 0.00 41.91 4.35
1655 1673 5.857471 TTTGAATTCCATGGCCTGATTAG 57.143 39.130 6.96 0.00 0.00 1.73
1713 1731 7.484140 AGATTTTCTTCTTTCTCAACAACCAC 58.516 34.615 0.00 0.00 0.00 4.16
1714 1732 7.645058 AGATTTTCTTCTTTCTCAACAACCA 57.355 32.000 0.00 0.00 0.00 3.67
1715 1733 7.976175 ACAAGATTTTCTTCTTTCTCAACAACC 59.024 33.333 0.00 0.00 33.78 3.77
1771 1790 3.986572 TGTTTTGCCAGTTTTGCATATCG 59.013 39.130 0.00 0.00 38.76 2.92
1794 1813 7.168219 ACTGCGGTATGATCCATATTTGTTAT 58.832 34.615 0.00 0.00 0.00 1.89
1830 1849 3.629142 ATGTAGCCTTACACCCTTGTC 57.371 47.619 0.00 0.00 42.29 3.18
1847 1866 4.301072 ACATGTACTACTGCCCAAATGT 57.699 40.909 0.00 0.00 0.00 2.71
1868 1887 9.209048 AGTCATCATTGTACAGTACCCTTTATA 57.791 33.333 8.30 0.00 0.00 0.98
1917 1940 6.416750 GCATTAGCGTGGTTTAAATAATCACC 59.583 38.462 0.00 0.00 0.00 4.02
1954 1977 3.814283 GCACCCATTTTTGAATGAGCAAA 59.186 39.130 0.92 0.00 36.08 3.68
2091 2115 5.296780 ACAAATTCCATAAGGCATACAGACG 59.703 40.000 0.00 0.00 33.74 4.18
2192 2629 1.169661 GGCGTTGATGAACCACCACA 61.170 55.000 0.00 0.00 0.00 4.17
2206 2643 1.353091 AAGGAGAGAAGGAAGGCGTT 58.647 50.000 0.00 0.00 0.00 4.84
2248 2687 8.671028 TGAGTTGGTTAGTTTTCTTTCTGTTAC 58.329 33.333 0.00 0.00 0.00 2.50
2258 2697 6.848451 TGTTTCAGTGAGTTGGTTAGTTTTC 58.152 36.000 0.00 0.00 0.00 2.29
2275 2716 4.410492 AACGAGCTTAGCAATGTTTCAG 57.590 40.909 7.07 0.00 0.00 3.02
2508 2949 6.461110 AGCTGAATATTTGTGCTTTGCTAT 57.539 33.333 0.00 0.00 0.00 2.97
2565 3006 6.962182 TCTATCATCCAATCATCCCCATAAC 58.038 40.000 0.00 0.00 0.00 1.89
2748 3206 2.426024 AGCTCATTTCACATGCATGACC 59.574 45.455 32.75 9.30 0.00 4.02
2805 3263 5.811100 GGTCTTCTTATAAGAGAACCAACCG 59.189 44.000 27.44 9.30 39.41 4.44
2974 3438 6.007703 GCCCCATACTACCTGCATTATAAAA 58.992 40.000 0.00 0.00 0.00 1.52
3093 3557 6.701340 AGGAACCCTTTTGCAAGAATTATTC 58.299 36.000 0.00 0.00 30.57 1.75
3286 3752 4.147219 ACGCTACATTTCTGTCTTTTGC 57.853 40.909 0.00 0.00 36.79 3.68
3312 3778 8.492673 TTCTAAATAGCACTATGTGTTCTTGG 57.507 34.615 0.00 0.00 35.75 3.61
3376 3842 5.164041 GGATGATAAGCGAAATTAGACGAGC 60.164 44.000 0.00 0.00 0.00 5.03
3377 3843 6.153067 AGGATGATAAGCGAAATTAGACGAG 58.847 40.000 0.00 0.00 0.00 4.18
3421 3887 2.440627 ACTGGAGCATCTGCCATATTCA 59.559 45.455 0.00 0.00 43.38 2.57
3441 3907 5.347635 TGATAGTGAGATAAAACGTGCACAC 59.652 40.000 18.64 3.05 0.00 3.82
3480 3953 3.890756 TGTGCTGTGTTCATTCCTTTGAT 59.109 39.130 0.00 0.00 0.00 2.57
3492 3965 1.992667 CGATGACGTATGTGCTGTGTT 59.007 47.619 0.00 0.00 34.56 3.32
3552 4025 8.994429 ACATATCTCCTTGCTATATTCTTTCG 57.006 34.615 0.00 0.00 0.00 3.46
3612 4085 8.218338 ACAATCAATAGAAGGCTAAAGACATG 57.782 34.615 0.00 0.00 0.00 3.21
3884 4359 5.488341 GACAGTTTCAATAGTTGGAGGCTA 58.512 41.667 0.00 0.00 0.00 3.93
3886 4361 3.440522 GGACAGTTTCAATAGTTGGAGGC 59.559 47.826 0.00 0.00 0.00 4.70
3920 4395 4.348168 TCATGAATCTAGCCTAGGGGAAAC 59.652 45.833 11.72 0.00 33.58 2.78
4036 4511 2.174639 ACGCCCCCATCATCATTTTCTA 59.825 45.455 0.00 0.00 0.00 2.10
4062 4537 1.741706 GACAGTGATGTGGGCATTGAG 59.258 52.381 0.00 0.00 35.07 3.02
4110 4585 7.720074 CCCCTCTCCCTAAAACATTATAGTTTC 59.280 40.741 0.00 0.00 40.60 2.78
4256 4731 1.203174 CCCCCTCAACTCAAAACCCAT 60.203 52.381 0.00 0.00 0.00 4.00
4279 4754 0.535102 ACCTGTGAAGGCGAAGGTTG 60.535 55.000 0.00 0.00 40.14 3.77
4280 4755 0.535102 CACCTGTGAAGGCGAAGGTT 60.535 55.000 0.00 0.00 41.14 3.50
4281 4756 1.071471 CACCTGTGAAGGCGAAGGT 59.929 57.895 0.00 0.00 43.92 3.50
4282 4757 2.328099 GCACCTGTGAAGGCGAAGG 61.328 63.158 0.51 0.00 35.82 3.46
4283 4758 2.328099 GGCACCTGTGAAGGCGAAG 61.328 63.158 0.51 0.00 0.00 3.79
4284 4759 2.281484 GGCACCTGTGAAGGCGAA 60.281 61.111 0.51 0.00 0.00 4.70
4288 4763 1.973281 ATTGCGGCACCTGTGAAGG 60.973 57.895 0.05 0.00 0.00 3.46
4289 4764 1.210931 CATTGCGGCACCTGTGAAG 59.789 57.895 0.05 0.00 0.00 3.02
4290 4765 2.267351 CCATTGCGGCACCTGTGAA 61.267 57.895 0.05 0.00 0.00 3.18
4291 4766 2.672651 CCATTGCGGCACCTGTGA 60.673 61.111 0.05 0.00 0.00 3.58
4301 4776 3.185082 CTACCGGCATGCCATTGCG 62.185 63.158 34.93 20.49 43.71 4.85
4302 4777 2.723746 CTACCGGCATGCCATTGC 59.276 61.111 34.93 9.22 42.01 3.56
4368 4868 3.490348 TGTGATCCTGATCGAGCTATCA 58.510 45.455 0.90 6.06 40.63 2.15
4661 5163 3.197983 GGTAGTAGAGGTTGTCTGCCATT 59.802 47.826 0.00 0.00 38.64 3.16
4906 7229 6.545504 TCTATGAAGCAATCGAAATAAGGC 57.454 37.500 0.00 0.00 0.00 4.35
4960 7283 4.819630 AGGTCTGTGAGCATTCGTTTAAAA 59.180 37.500 0.00 0.00 31.89 1.52
4963 7286 3.678056 AGGTCTGTGAGCATTCGTTTA 57.322 42.857 0.00 0.00 31.89 2.01
4995 7318 2.355108 GCCACACTGCTGAAATAGGAGA 60.355 50.000 2.40 0.00 46.90 3.71
5304 7629 7.854166 ATGGAGAACAGAAAGCTAGATATCT 57.146 36.000 10.73 10.73 0.00 1.98
5517 7858 9.186323 GTCAGTGTATAACATACAGATCATGTC 57.814 37.037 0.00 0.00 42.70 3.06
5617 7958 5.305902 TGTGATTGGGCGATAAGTAGGAATA 59.694 40.000 0.00 0.00 0.00 1.75
5624 7965 7.394016 TCATATATTGTGATTGGGCGATAAGT 58.606 34.615 0.00 0.00 0.00 2.24
5709 8057 7.156876 ACGAAAAATATCTTCAGGCATTCAA 57.843 32.000 0.00 0.00 0.00 2.69
5988 8336 8.219868 ACACAATATCTTGATGTCCATTGGATA 58.780 33.333 9.01 6.64 36.20 2.59
6002 8350 6.407475 TGATGACACGAACACAATATCTTG 57.593 37.500 0.00 0.00 38.39 3.02
6043 8391 3.797039 TCGCTGAACTATTGGAATGGAG 58.203 45.455 0.00 0.00 0.00 3.86
6063 8411 8.391106 ACACGACTATTTGCATCTAGAAATTTC 58.609 33.333 10.33 10.33 0.00 2.17
6388 8736 5.159209 ACAGTGTGTCGTTATAGTTGCTAC 58.841 41.667 0.00 0.00 0.00 3.58
6389 8737 5.381174 ACAGTGTGTCGTTATAGTTGCTA 57.619 39.130 0.00 0.00 0.00 3.49
6391 8739 4.563524 GACAGTGTGTCGTTATAGTTGC 57.436 45.455 0.00 0.00 37.67 4.17
6405 8753 0.693049 GGGTCCCAGAATGACAGTGT 59.307 55.000 1.78 0.00 39.69 3.55
6407 8755 2.472029 CTAGGGTCCCAGAATGACAGT 58.528 52.381 11.55 0.00 39.69 3.55
6528 8876 9.151471 CGAAAGTTAGAAATACAGGAATGAGAA 57.849 33.333 0.00 0.00 0.00 2.87
6537 8885 7.365840 AGGAAAGCGAAAGTTAGAAATACAG 57.634 36.000 0.00 0.00 0.00 2.74
6548 8896 4.353383 AGGAAACTAGGAAAGCGAAAGT 57.647 40.909 0.00 0.00 40.61 2.66
6587 8935 4.340617 TGAACTGGACAAAACTCCTGTTT 58.659 39.130 10.68 0.00 46.77 2.83
6604 8952 5.070580 GGATGGGTATAGTAACAGCTGAACT 59.929 44.000 23.35 23.34 0.00 3.01
6612 8960 7.273457 TCCAAAAAGGATGGGTATAGTAACA 57.727 36.000 0.00 0.00 43.07 2.41
6626 8974 7.831691 TTTCATAATCTGTGTCCAAAAAGGA 57.168 32.000 0.00 0.00 46.75 3.36
6627 8975 8.306038 TCATTTCATAATCTGTGTCCAAAAAGG 58.694 33.333 0.00 0.00 39.47 3.11
6641 8989 7.684937 ATAAGGCTGCTCTCATTTCATAATC 57.315 36.000 0.00 0.00 0.00 1.75
6706 9054 8.641498 ATGTGTATCTGGAAAACAAAGAGATT 57.359 30.769 0.00 0.00 0.00 2.40
6708 9056 7.330946 CGTATGTGTATCTGGAAAACAAAGAGA 59.669 37.037 0.00 0.00 0.00 3.10
6715 9063 4.630069 ACTGCGTATGTGTATCTGGAAAAC 59.370 41.667 0.00 0.00 0.00 2.43
6717 9065 4.465632 ACTGCGTATGTGTATCTGGAAA 57.534 40.909 0.00 0.00 0.00 3.13
6718 9066 4.643334 ACTACTGCGTATGTGTATCTGGAA 59.357 41.667 0.00 0.00 0.00 3.53
6721 9069 6.637254 CCTAAACTACTGCGTATGTGTATCTG 59.363 42.308 0.00 0.00 0.00 2.90
6722 9070 6.735145 GCCTAAACTACTGCGTATGTGTATCT 60.735 42.308 0.00 0.00 0.00 1.98
6723 9071 5.401674 GCCTAAACTACTGCGTATGTGTATC 59.598 44.000 0.00 0.00 0.00 2.24
6724 9072 5.068723 AGCCTAAACTACTGCGTATGTGTAT 59.931 40.000 0.00 0.00 0.00 2.29
6725 9073 4.400251 AGCCTAAACTACTGCGTATGTGTA 59.600 41.667 0.00 0.00 0.00 2.90
6726 9074 3.194968 AGCCTAAACTACTGCGTATGTGT 59.805 43.478 0.00 0.00 0.00 3.72
6727 9075 3.782046 AGCCTAAACTACTGCGTATGTG 58.218 45.455 0.00 0.00 0.00 3.21
6728 9076 4.467198 AAGCCTAAACTACTGCGTATGT 57.533 40.909 0.00 0.00 0.00 2.29
6729 9077 5.405571 CCATAAGCCTAAACTACTGCGTATG 59.594 44.000 8.61 8.61 42.18 2.39
6731 9079 4.738541 GCCATAAGCCTAAACTACTGCGTA 60.739 45.833 0.00 0.00 34.35 4.42
6732 9080 3.793559 CCATAAGCCTAAACTACTGCGT 58.206 45.455 0.00 0.00 0.00 5.24
6733 9081 2.544267 GCCATAAGCCTAAACTACTGCG 59.456 50.000 0.00 0.00 34.35 5.18
6734 9082 2.544267 CGCCATAAGCCTAAACTACTGC 59.456 50.000 0.00 0.00 38.78 4.40
6735 9083 4.051922 CTCGCCATAAGCCTAAACTACTG 58.948 47.826 0.00 0.00 38.78 2.74
6736 9084 3.705072 ACTCGCCATAAGCCTAAACTACT 59.295 43.478 0.00 0.00 38.78 2.57
6738 9086 4.748277 AACTCGCCATAAGCCTAAACTA 57.252 40.909 0.00 0.00 38.78 2.24
6739 9087 3.629142 AACTCGCCATAAGCCTAAACT 57.371 42.857 0.00 0.00 38.78 2.66
6742 9090 5.303589 ACATACTAACTCGCCATAAGCCTAA 59.696 40.000 0.00 0.00 38.78 2.69
6743 9091 4.831155 ACATACTAACTCGCCATAAGCCTA 59.169 41.667 0.00 0.00 38.78 3.93
6744 9092 3.641906 ACATACTAACTCGCCATAAGCCT 59.358 43.478 0.00 0.00 38.78 4.58
6745 9093 3.988517 GACATACTAACTCGCCATAAGCC 59.011 47.826 0.00 0.00 38.78 4.35
6746 9094 4.617959 TGACATACTAACTCGCCATAAGC 58.382 43.478 0.00 0.00 38.52 3.09
6747 9095 7.224753 ACAAATGACATACTAACTCGCCATAAG 59.775 37.037 0.00 0.00 0.00 1.73
6748 9096 7.011016 CACAAATGACATACTAACTCGCCATAA 59.989 37.037 0.00 0.00 0.00 1.90
6749 9097 6.478673 CACAAATGACATACTAACTCGCCATA 59.521 38.462 0.00 0.00 0.00 2.74
6750 9098 5.294306 CACAAATGACATACTAACTCGCCAT 59.706 40.000 0.00 0.00 0.00 4.40
6751 9099 4.629634 CACAAATGACATACTAACTCGCCA 59.370 41.667 0.00 0.00 0.00 5.69
6752 9100 4.494199 GCACAAATGACATACTAACTCGCC 60.494 45.833 0.00 0.00 0.00 5.54
6753 9101 4.092821 TGCACAAATGACATACTAACTCGC 59.907 41.667 0.00 0.00 0.00 5.03
6754 9102 5.778161 TGCACAAATGACATACTAACTCG 57.222 39.130 0.00 0.00 0.00 4.18
6755 9103 8.970691 AAATTGCACAAATGACATACTAACTC 57.029 30.769 0.00 0.00 0.00 3.01
6756 9104 8.796475 AGAAATTGCACAAATGACATACTAACT 58.204 29.630 0.00 0.00 0.00 2.24
6757 9105 8.970691 AGAAATTGCACAAATGACATACTAAC 57.029 30.769 0.00 0.00 0.00 2.34
6760 9108 8.028938 GGTAAGAAATTGCACAAATGACATACT 58.971 33.333 0.00 0.00 0.00 2.12
6761 9109 8.028938 AGGTAAGAAATTGCACAAATGACATAC 58.971 33.333 0.00 0.00 0.00 2.39
6762 9110 8.028354 CAGGTAAGAAATTGCACAAATGACATA 58.972 33.333 0.00 0.00 0.00 2.29
6763 9111 6.869913 CAGGTAAGAAATTGCACAAATGACAT 59.130 34.615 0.00 0.00 0.00 3.06
6764 9112 6.183360 ACAGGTAAGAAATTGCACAAATGACA 60.183 34.615 0.00 0.00 0.00 3.58
6765 9113 6.215845 ACAGGTAAGAAATTGCACAAATGAC 58.784 36.000 0.00 0.00 0.00 3.06
6766 9114 6.403866 ACAGGTAAGAAATTGCACAAATGA 57.596 33.333 0.00 0.00 0.00 2.57
6767 9115 6.308766 GCTACAGGTAAGAAATTGCACAAATG 59.691 38.462 0.00 0.00 0.00 2.32
6768 9116 6.015519 TGCTACAGGTAAGAAATTGCACAAAT 60.016 34.615 0.00 0.00 0.00 2.32
6769 9117 5.300539 TGCTACAGGTAAGAAATTGCACAAA 59.699 36.000 0.00 0.00 0.00 2.83
6770 9118 4.824537 TGCTACAGGTAAGAAATTGCACAA 59.175 37.500 0.00 0.00 0.00 3.33
6771 9119 4.393834 TGCTACAGGTAAGAAATTGCACA 58.606 39.130 0.00 0.00 0.00 4.57
6772 9120 5.567138 ATGCTACAGGTAAGAAATTGCAC 57.433 39.130 0.00 0.00 0.00 4.57
6773 9121 6.588719 AAATGCTACAGGTAAGAAATTGCA 57.411 33.333 0.00 0.00 0.00 4.08
6774 9122 7.889589 AAAAATGCTACAGGTAAGAAATTGC 57.110 32.000 0.00 0.00 0.00 3.56
6797 9145 7.664318 GGAGGGAGTACTTTGAATACTGAAAAA 59.336 37.037 0.00 0.00 32.93 1.94
6798 9146 7.166167 GGAGGGAGTACTTTGAATACTGAAAA 58.834 38.462 0.00 0.00 32.93 2.29
6799 9147 6.271391 TGGAGGGAGTACTTTGAATACTGAAA 59.729 38.462 0.00 0.00 32.93 2.69
6800 9148 5.783360 TGGAGGGAGTACTTTGAATACTGAA 59.217 40.000 0.00 0.00 32.93 3.02
6801 9149 5.338632 TGGAGGGAGTACTTTGAATACTGA 58.661 41.667 0.00 0.00 32.93 3.41
6802 9150 5.677319 TGGAGGGAGTACTTTGAATACTG 57.323 43.478 0.00 0.00 32.93 2.74
6803 9151 5.367060 GGATGGAGGGAGTACTTTGAATACT 59.633 44.000 0.00 0.00 35.54 2.12
6804 9152 5.454897 GGGATGGAGGGAGTACTTTGAATAC 60.455 48.000 0.00 0.00 0.00 1.89
6805 9153 4.658901 GGGATGGAGGGAGTACTTTGAATA 59.341 45.833 0.00 0.00 0.00 1.75
6806 9154 3.459969 GGGATGGAGGGAGTACTTTGAAT 59.540 47.826 0.00 0.00 0.00 2.57
6807 9155 2.844348 GGGATGGAGGGAGTACTTTGAA 59.156 50.000 0.00 0.00 0.00 2.69
6808 9156 2.225779 TGGGATGGAGGGAGTACTTTGA 60.226 50.000 0.00 0.00 0.00 2.69
6809 9157 2.196595 TGGGATGGAGGGAGTACTTTG 58.803 52.381 0.00 0.00 0.00 2.77
6810 9158 2.661176 TGGGATGGAGGGAGTACTTT 57.339 50.000 0.00 0.00 0.00 2.66
6811 9159 2.897823 ATGGGATGGAGGGAGTACTT 57.102 50.000 0.00 0.00 0.00 2.24
6812 9160 4.171234 CATTATGGGATGGAGGGAGTACT 58.829 47.826 0.00 0.00 0.00 2.73
6813 9161 3.910627 ACATTATGGGATGGAGGGAGTAC 59.089 47.826 0.00 0.00 0.00 2.73
6814 9162 4.228237 ACATTATGGGATGGAGGGAGTA 57.772 45.455 0.00 0.00 0.00 2.59
6815 9163 3.080660 ACATTATGGGATGGAGGGAGT 57.919 47.619 0.00 0.00 0.00 3.85
6816 9164 4.846367 TCTTACATTATGGGATGGAGGGAG 59.154 45.833 0.00 0.00 0.00 4.30
6817 9165 4.597507 GTCTTACATTATGGGATGGAGGGA 59.402 45.833 0.00 0.00 0.00 4.20
6818 9166 4.563580 CGTCTTACATTATGGGATGGAGGG 60.564 50.000 0.00 0.00 0.00 4.30
6819 9167 4.040461 ACGTCTTACATTATGGGATGGAGG 59.960 45.833 0.00 0.00 0.00 4.30
6820 9168 5.215252 ACGTCTTACATTATGGGATGGAG 57.785 43.478 0.00 0.00 0.00 3.86
6821 9169 5.623956 AACGTCTTACATTATGGGATGGA 57.376 39.130 0.00 0.00 0.00 3.41
6822 9170 6.693315 AAAACGTCTTACATTATGGGATGG 57.307 37.500 0.00 0.00 0.00 3.51
6866 9214 6.938030 TCTGTCCCATAATGTAAGACGTTTTT 59.062 34.615 0.00 0.00 0.00 1.94
6867 9215 6.469410 TCTGTCCCATAATGTAAGACGTTTT 58.531 36.000 0.00 0.00 0.00 2.43
6868 9216 6.045072 TCTGTCCCATAATGTAAGACGTTT 57.955 37.500 0.00 0.00 0.00 3.60
6869 9217 5.395324 CCTCTGTCCCATAATGTAAGACGTT 60.395 44.000 0.00 0.00 0.00 3.99
6870 9218 4.099573 CCTCTGTCCCATAATGTAAGACGT 59.900 45.833 0.00 0.00 0.00 4.34
6871 9219 4.501571 CCCTCTGTCCCATAATGTAAGACG 60.502 50.000 0.00 0.00 0.00 4.18
6872 9220 4.654262 TCCCTCTGTCCCATAATGTAAGAC 59.346 45.833 0.00 0.00 0.00 3.01
6873 9221 4.890988 TCCCTCTGTCCCATAATGTAAGA 58.109 43.478 0.00 0.00 0.00 2.10
6874 9222 4.656112 ACTCCCTCTGTCCCATAATGTAAG 59.344 45.833 0.00 0.00 0.00 2.34
6875 9223 4.631234 ACTCCCTCTGTCCCATAATGTAA 58.369 43.478 0.00 0.00 0.00 2.41
6876 9224 4.280789 ACTCCCTCTGTCCCATAATGTA 57.719 45.455 0.00 0.00 0.00 2.29
6877 9225 3.136641 ACTCCCTCTGTCCCATAATGT 57.863 47.619 0.00 0.00 0.00 2.71
6878 9226 4.227197 ACTACTCCCTCTGTCCCATAATG 58.773 47.826 0.00 0.00 0.00 1.90
6879 9227 4.561254 ACTACTCCCTCTGTCCCATAAT 57.439 45.455 0.00 0.00 0.00 1.28
6880 9228 4.348020 AACTACTCCCTCTGTCCCATAA 57.652 45.455 0.00 0.00 0.00 1.90
6881 9229 4.348020 AAACTACTCCCTCTGTCCCATA 57.652 45.455 0.00 0.00 0.00 2.74
6882 9230 2.950990 AACTACTCCCTCTGTCCCAT 57.049 50.000 0.00 0.00 0.00 4.00
6883 9231 2.715763 AAACTACTCCCTCTGTCCCA 57.284 50.000 0.00 0.00 0.00 4.37
6884 9232 4.531339 ACTAAAAACTACTCCCTCTGTCCC 59.469 45.833 0.00 0.00 0.00 4.46
6885 9233 5.741962 ACTAAAAACTACTCCCTCTGTCC 57.258 43.478 0.00 0.00 0.00 4.02
6918 9266 5.173774 AGCAAACATGACAAGTACAACTG 57.826 39.130 0.00 0.00 0.00 3.16
6994 9344 6.698329 CAGCACAAATTGAATTCTTCTGTTGA 59.302 34.615 7.05 0.00 0.00 3.18
7016 9366 2.751166 TTCTCAGTAGAGCAACCAGC 57.249 50.000 0.00 0.00 41.81 4.85
7102 9452 0.667993 TGCTCCTTCAAAACAAGGCG 59.332 50.000 0.00 0.00 42.63 5.52
7127 9477 3.458487 ACCCTTTCACTGACCTTGTAACT 59.542 43.478 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.