Multiple sequence alignment - TraesCS4A01G225000

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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 TraesCS4A01G225000 chr4A 100.000 3376 0 0 1 3376 532896177 532899552 0.000000e+00 6235.0
1 TraesCS4A01G225000 chr4A 96.580 1228 32 7 2157 3376 532839908 532841133 0.000000e+00 2026.0
2 TraesCS4A01G225000 chr4A 98.410 629 9 1 115 742 532832369 532832997 0.000000e+00 1105.0
3 TraesCS4A01G225000 chr4A 94.560 625 23 7 988 1605 532833071 532833691 0.000000e+00 955.0
4 TraesCS4A01G225000 chr4A 97.070 512 14 1 1646 2157 532833864 532834374 0.000000e+00 861.0
5 TraesCS4A01G225000 chr4A 99.029 103 0 1 1 102 532832282 532832384 2.070000e-42 183.0
6 TraesCS4A01G225000 chr4A 95.238 63 1 2 1598 1658 532897699 532897761 7.710000e-17 99.0
7 TraesCS4A01G225000 chr4A 95.238 63 1 2 1523 1585 532897774 532897834 7.710000e-17 99.0
8 TraesCS4A01G225000 chr4A 92.857 56 3 1 1598 1652 532833610 532833665 2.790000e-11 80.5
9 TraesCS4A01G225000 chr7A 92.483 1317 53 21 2078 3376 598328842 598330130 0.000000e+00 1842.0
10 TraesCS4A01G225000 chr7A 88.872 1330 96 30 2086 3376 470919228 470920544 0.000000e+00 1589.0
11 TraesCS4A01G225000 chrUn 90.764 942 64 17 2452 3376 134381750 134382685 0.000000e+00 1236.0
12 TraesCS4A01G225000 chr4B 95.338 622 25 1 988 1605 94101156 94100535 0.000000e+00 985.0
13 TraesCS4A01G225000 chr4B 97.260 438 11 1 1648 2085 94100360 94099924 0.000000e+00 741.0
14 TraesCS4A01G225000 chr4B 95.238 168 8 0 824 991 666660157 666660324 2.000000e-67 267.0
15 TraesCS4A01G225000 chr4B 93.678 174 9 1 115 286 94178067 94177894 3.340000e-65 259.0
16 TraesCS4A01G225000 chr4B 94.048 168 8 1 824 991 666696783 666696948 1.550000e-63 254.0
17 TraesCS4A01G225000 chr4B 91.667 180 12 3 812 991 18780343 18780167 2.600000e-61 246.0
18 TraesCS4A01G225000 chr4B 84.689 209 20 6 471 678 94101755 94101558 7.390000e-47 198.0
19 TraesCS4A01G225000 chr4D 93.790 628 26 6 988 1605 63573834 63573210 0.000000e+00 931.0
20 TraesCS4A01G225000 chr4D 96.372 441 12 2 1648 2085 63573035 63572596 0.000000e+00 723.0
21 TraesCS4A01G225000 chr4D 91.304 437 33 2 1648 2084 63299985 63299554 2.900000e-165 592.0
22 TraesCS4A01G225000 chr4D 86.687 323 24 11 471 786 63574171 63573861 1.160000e-89 340.0
23 TraesCS4A01G225000 chr4D 93.103 174 10 1 115 286 63578023 63577850 1.550000e-63 254.0
24 TraesCS4A01G225000 chr4D 92.157 102 6 1 3 102 63578109 63578008 3.510000e-30 143.0
25 TraesCS4A01G225000 chr4D 92.063 63 3 2 1598 1658 63573292 63573230 1.670000e-13 87.9
26 TraesCS4A01G225000 chr7D 93.353 346 21 2 3031 3374 598734893 598735238 8.360000e-141 510.0
27 TraesCS4A01G225000 chr7D 89.130 230 16 2 2159 2379 598733320 598733549 9.230000e-71 278.0
28 TraesCS4A01G225000 chr7D 94.444 72 4 0 2086 2157 598729161 598729232 9.900000e-21 111.0
29 TraesCS4A01G225000 chr2A 76.076 953 136 55 2476 3357 47316404 47317335 2.420000e-111 412.0
30 TraesCS4A01G225000 chr2A 93.976 166 10 0 826 991 16774469 16774304 5.590000e-63 252.0
31 TraesCS4A01G225000 chr2A 85.938 64 9 0 2072 2135 62280716 62280779 6.040000e-08 69.4
32 TraesCS4A01G225000 chr2A 91.837 49 4 0 2087 2135 72697861 72697909 6.040000e-08 69.4
33 TraesCS4A01G225000 chr2A 93.023 43 3 0 2093 2135 105701131 105701089 2.810000e-06 63.9
34 TraesCS4A01G225000 chr2D 75.862 957 136 53 2476 3357 31013145 31012209 1.890000e-107 399.0
35 TraesCS4A01G225000 chr2D 93.103 58 4 0 2086 2143 65530684 65530627 6.000000e-13 86.1
36 TraesCS4A01G225000 chr5D 76.196 857 129 41 2554 3357 45039868 45039034 1.900000e-102 383.0
37 TraesCS4A01G225000 chr3B 95.210 167 8 0 825 991 236494726 236494892 7.180000e-67 265.0
38 TraesCS4A01G225000 chr3B 93.976 166 10 0 826 991 161459452 161459617 5.590000e-63 252.0
39 TraesCS4A01G225000 chr3B 93.491 169 10 1 823 991 22827329 22827162 2.010000e-62 250.0
40 TraesCS4A01G225000 chr5B 93.491 169 11 0 823 991 45709978 45710146 5.590000e-63 252.0
41 TraesCS4A01G225000 chr2B 93.452 168 11 0 824 991 64891593 64891760 2.010000e-62 250.0
42 TraesCS4A01G225000 chr2B 74.576 413 80 21 2543 2946 24202109 24201713 1.250000e-34 158.0
43 TraesCS4A01G225000 chr3A 95.349 43 2 0 2093 2135 721822168 721822210 6.040000e-08 69.4
44 TraesCS4A01G225000 chr6A 87.273 55 7 0 2081 2135 307719910 307719964 2.810000e-06 63.9


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 TraesCS4A01G225000 chr4A 532896177 532899552 3375 False 2144.333333 6235 96.825333 1 3376 3 chr4A.!!$F3 3375
1 TraesCS4A01G225000 chr4A 532839908 532841133 1225 False 2026.000000 2026 96.580000 2157 3376 1 chr4A.!!$F1 1219
2 TraesCS4A01G225000 chr4A 532832282 532834374 2092 False 636.900000 1105 96.385200 1 2157 5 chr4A.!!$F2 2156
3 TraesCS4A01G225000 chr7A 598328842 598330130 1288 False 1842.000000 1842 92.483000 2078 3376 1 chr7A.!!$F2 1298
4 TraesCS4A01G225000 chr7A 470919228 470920544 1316 False 1589.000000 1589 88.872000 2086 3376 1 chr7A.!!$F1 1290
5 TraesCS4A01G225000 chrUn 134381750 134382685 935 False 1236.000000 1236 90.764000 2452 3376 1 chrUn.!!$F1 924
6 TraesCS4A01G225000 chr4B 94099924 94101755 1831 True 641.333333 985 92.429000 471 2085 3 chr4B.!!$R3 1614
7 TraesCS4A01G225000 chr4D 63572596 63578109 5513 True 413.150000 931 92.362000 3 2085 6 chr4D.!!$R2 2082
8 TraesCS4A01G225000 chr7D 598733320 598735238 1918 False 394.000000 510 91.241500 2159 3374 2 chr7D.!!$F2 1215
9 TraesCS4A01G225000 chr2A 47316404 47317335 931 False 412.000000 412 76.076000 2476 3357 1 chr2A.!!$F1 881
10 TraesCS4A01G225000 chr2D 31012209 31013145 936 True 399.000000 399 75.862000 2476 3357 1 chr2D.!!$R1 881
11 TraesCS4A01G225000 chr5D 45039034 45039868 834 True 383.000000 383 76.196000 2554 3357 1 chr5D.!!$R1 803

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
927 4708 0.105709 ATTTTTAGGGGGATGGGCCG 60.106 55.0 0.00 0.0 37.63 6.13 F
1819 5751 0.033011 AGGACTGGCAGAGACGGTAT 60.033 55.0 23.66 0.0 25.53 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2323 6275 0.307760 GCCCACAACTGAGACAAACG 59.692 55.0 0.0 0.0 0.0 3.60 R
2900 7990 0.681175 GCTTCACAAGGGGCAAACAT 59.319 50.0 0.0 0.0 0.0 2.71 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
86 90 5.688621 GTCGCAAGTGATATTACCGAATGTA 59.311 40.000 0.00 0.00 39.48 2.29
87 91 6.199531 GTCGCAAGTGATATTACCGAATGTAA 59.800 38.462 0.00 0.00 40.42 2.41
88 92 6.419710 TCGCAAGTGATATTACCGAATGTAAG 59.580 38.462 0.00 0.00 39.86 2.34
89 93 6.346598 CGCAAGTGATATTACCGAATGTAAGG 60.347 42.308 0.00 0.00 42.50 2.69
90 94 6.482308 GCAAGTGATATTACCGAATGTAAGGT 59.518 38.462 0.00 0.00 42.50 3.50
91 95 7.518370 GCAAGTGATATTACCGAATGTAAGGTG 60.518 40.741 0.00 0.00 42.50 4.00
92 96 5.989777 AGTGATATTACCGAATGTAAGGTGC 59.010 40.000 0.00 0.00 42.50 5.01
93 97 5.989777 GTGATATTACCGAATGTAAGGTGCT 59.010 40.000 0.00 0.00 42.50 4.40
94 98 6.482308 GTGATATTACCGAATGTAAGGTGCTT 59.518 38.462 0.00 0.00 42.50 3.91
95 99 6.481976 TGATATTACCGAATGTAAGGTGCTTG 59.518 38.462 0.00 0.00 42.50 4.01
96 100 2.561478 ACCGAATGTAAGGTGCTTGT 57.439 45.000 0.00 0.00 39.66 3.16
97 101 2.858745 ACCGAATGTAAGGTGCTTGTT 58.141 42.857 0.00 0.00 39.66 2.83
98 102 3.219281 ACCGAATGTAAGGTGCTTGTTT 58.781 40.909 0.00 0.00 39.66 2.83
99 103 3.634910 ACCGAATGTAAGGTGCTTGTTTT 59.365 39.130 0.00 0.00 39.66 2.43
100 104 4.098807 ACCGAATGTAAGGTGCTTGTTTTT 59.901 37.500 0.00 0.00 39.66 1.94
101 105 4.444056 CCGAATGTAAGGTGCTTGTTTTTG 59.556 41.667 0.00 0.00 0.00 2.44
102 106 5.040635 CGAATGTAAGGTGCTTGTTTTTGT 58.959 37.500 0.00 0.00 0.00 2.83
103 107 5.173131 CGAATGTAAGGTGCTTGTTTTTGTC 59.827 40.000 0.00 0.00 0.00 3.18
104 108 4.022464 TGTAAGGTGCTTGTTTTTGTCG 57.978 40.909 0.00 0.00 0.00 4.35
105 109 1.921243 AAGGTGCTTGTTTTTGTCGC 58.079 45.000 0.00 0.00 0.00 5.19
106 110 1.102978 AGGTGCTTGTTTTTGTCGCT 58.897 45.000 0.00 0.00 0.00 4.93
107 111 1.199624 GGTGCTTGTTTTTGTCGCTG 58.800 50.000 0.00 0.00 0.00 5.18
108 112 0.572125 GTGCTTGTTTTTGTCGCTGC 59.428 50.000 0.00 0.00 0.00 5.25
109 113 0.172127 TGCTTGTTTTTGTCGCTGCA 59.828 45.000 0.00 0.00 0.00 4.41
110 114 1.276415 GCTTGTTTTTGTCGCTGCAA 58.724 45.000 0.00 0.00 0.00 4.08
111 115 1.658095 GCTTGTTTTTGTCGCTGCAAA 59.342 42.857 0.00 0.00 36.67 3.68
112 116 2.093467 GCTTGTTTTTGTCGCTGCAAAA 59.907 40.909 10.04 10.04 43.83 2.44
757 4538 2.639347 TGCAGATCAGGAAAACCAGAGA 59.361 45.455 0.00 0.00 0.00 3.10
782 4563 0.527817 CGAGCGATAACCCACACTCC 60.528 60.000 0.00 0.00 0.00 3.85
786 4567 2.012051 GCGATAACCCACACTCCCAAG 61.012 57.143 0.00 0.00 0.00 3.61
787 4568 1.278127 CGATAACCCACACTCCCAAGT 59.722 52.381 0.00 0.00 35.60 3.16
788 4569 2.677037 CGATAACCCACACTCCCAAGTC 60.677 54.545 0.00 0.00 31.71 3.01
789 4570 2.112279 TAACCCACACTCCCAAGTCT 57.888 50.000 0.00 0.00 31.71 3.24
790 4571 0.765510 AACCCACACTCCCAAGTCTC 59.234 55.000 0.00 0.00 31.71 3.36
791 4572 0.399949 ACCCACACTCCCAAGTCTCA 60.400 55.000 0.00 0.00 31.71 3.27
792 4573 0.322975 CCCACACTCCCAAGTCTCAG 59.677 60.000 0.00 0.00 31.71 3.35
793 4574 1.342074 CCACACTCCCAAGTCTCAGA 58.658 55.000 0.00 0.00 31.71 3.27
794 4575 1.001406 CCACACTCCCAAGTCTCAGAC 59.999 57.143 0.00 0.00 31.71 3.51
795 4576 1.688735 CACACTCCCAAGTCTCAGACA 59.311 52.381 7.77 0.00 34.60 3.41
796 4577 2.103094 CACACTCCCAAGTCTCAGACAA 59.897 50.000 7.77 0.00 34.60 3.18
797 4578 2.366916 ACACTCCCAAGTCTCAGACAAG 59.633 50.000 7.77 0.00 34.60 3.16
821 4602 4.449638 CTCCACCAGAGAGGCAGA 57.550 61.111 0.00 0.00 46.50 4.26
822 4603 2.200989 CTCCACCAGAGAGGCAGAG 58.799 63.158 0.00 0.00 46.50 3.35
824 4605 0.324183 TCCACCAGAGAGGCAGAGAG 60.324 60.000 0.00 0.00 43.14 3.20
825 4606 1.516892 CACCAGAGAGGCAGAGAGC 59.483 63.158 0.00 0.00 43.14 4.09
835 4616 3.012518 GAGGCAGAGAGCAAAAATGCTA 58.987 45.455 2.89 0.00 46.36 3.49
836 4617 3.015327 AGGCAGAGAGCAAAAATGCTAG 58.985 45.455 2.89 0.00 46.36 3.42
837 4618 3.012518 GGCAGAGAGCAAAAATGCTAGA 58.987 45.455 2.89 0.00 46.36 2.43
840 4621 4.096081 GCAGAGAGCAAAAATGCTAGACAT 59.904 41.667 2.89 0.00 46.36 3.06
842 4623 6.713520 CAGAGAGCAAAAATGCTAGACATAC 58.286 40.000 2.89 0.00 46.36 2.39
843 4624 6.314648 CAGAGAGCAAAAATGCTAGACATACA 59.685 38.462 2.89 0.00 46.36 2.29
844 4625 6.881065 AGAGAGCAAAAATGCTAGACATACAA 59.119 34.615 2.89 0.00 46.36 2.41
848 4629 7.308435 AGCAAAAATGCTAGACATACAAAGAC 58.692 34.615 0.67 0.00 44.28 3.01
849 4630 7.175641 AGCAAAAATGCTAGACATACAAAGACT 59.824 33.333 0.67 0.00 44.28 3.24
850 4631 7.809806 GCAAAAATGCTAGACATACAAAGACTT 59.190 33.333 0.00 0.00 38.34 3.01
853 4634 9.502091 AAAATGCTAGACATACAAAGACTTACA 57.498 29.630 0.00 0.00 38.34 2.41
854 4635 8.480643 AATGCTAGACATACAAAGACTTACAC 57.519 34.615 0.00 0.00 38.34 2.90
855 4636 6.090783 TGCTAGACATACAAAGACTTACACG 58.909 40.000 0.00 0.00 0.00 4.49
856 4637 5.004535 GCTAGACATACAAAGACTTACACGC 59.995 44.000 0.00 0.00 0.00 5.34
857 4638 5.135508 AGACATACAAAGACTTACACGCT 57.864 39.130 0.00 0.00 0.00 5.07
858 4639 5.539048 AGACATACAAAGACTTACACGCTT 58.461 37.500 0.00 0.00 0.00 4.68
859 4640 5.989777 AGACATACAAAGACTTACACGCTTT 59.010 36.000 0.00 0.00 32.46 3.51
860 4641 6.482308 AGACATACAAAGACTTACACGCTTTT 59.518 34.615 0.00 0.00 30.00 2.27
861 4642 7.654520 AGACATACAAAGACTTACACGCTTTTA 59.345 33.333 0.00 0.00 30.00 1.52
862 4643 7.570161 ACATACAAAGACTTACACGCTTTTAC 58.430 34.615 0.00 0.00 30.00 2.01
863 4644 7.225145 ACATACAAAGACTTACACGCTTTTACA 59.775 33.333 0.00 0.00 30.00 2.41
864 4645 5.803118 ACAAAGACTTACACGCTTTTACAC 58.197 37.500 0.00 0.00 30.00 2.90
865 4646 4.703899 AAGACTTACACGCTTTTACACG 57.296 40.909 0.00 0.00 0.00 4.49
866 4647 2.473984 AGACTTACACGCTTTTACACGC 59.526 45.455 0.00 0.00 0.00 5.34
867 4648 2.473984 GACTTACACGCTTTTACACGCT 59.526 45.455 0.00 0.00 0.00 5.07
868 4649 2.473984 ACTTACACGCTTTTACACGCTC 59.526 45.455 0.00 0.00 0.00 5.03
869 4650 1.421382 TACACGCTTTTACACGCTCC 58.579 50.000 0.00 0.00 0.00 4.70
870 4651 0.249741 ACACGCTTTTACACGCTCCT 60.250 50.000 0.00 0.00 0.00 3.69
871 4652 0.865769 CACGCTTTTACACGCTCCTT 59.134 50.000 0.00 0.00 0.00 3.36
872 4653 1.136336 CACGCTTTTACACGCTCCTTC 60.136 52.381 0.00 0.00 0.00 3.46
873 4654 0.442699 CGCTTTTACACGCTCCTTCC 59.557 55.000 0.00 0.00 0.00 3.46
874 4655 0.442699 GCTTTTACACGCTCCTTCCG 59.557 55.000 0.00 0.00 0.00 4.30
875 4656 1.792006 CTTTTACACGCTCCTTCCGT 58.208 50.000 0.00 0.00 39.91 4.69
876 4657 1.725164 CTTTTACACGCTCCTTCCGTC 59.275 52.381 0.00 0.00 36.69 4.79
877 4658 0.963962 TTTACACGCTCCTTCCGTCT 59.036 50.000 0.00 0.00 36.69 4.18
878 4659 1.825090 TTACACGCTCCTTCCGTCTA 58.175 50.000 0.00 0.00 36.69 2.59
879 4660 1.825090 TACACGCTCCTTCCGTCTAA 58.175 50.000 0.00 0.00 36.69 2.10
880 4661 0.243095 ACACGCTCCTTCCGTCTAAC 59.757 55.000 0.00 0.00 36.69 2.34
881 4662 0.242825 CACGCTCCTTCCGTCTAACA 59.757 55.000 0.00 0.00 36.69 2.41
882 4663 0.963962 ACGCTCCTTCCGTCTAACAA 59.036 50.000 0.00 0.00 32.83 2.83
883 4664 1.336609 ACGCTCCTTCCGTCTAACAAC 60.337 52.381 0.00 0.00 32.83 3.32
884 4665 1.723220 GCTCCTTCCGTCTAACAACC 58.277 55.000 0.00 0.00 0.00 3.77
885 4666 1.001633 GCTCCTTCCGTCTAACAACCA 59.998 52.381 0.00 0.00 0.00 3.67
886 4667 2.549349 GCTCCTTCCGTCTAACAACCAA 60.549 50.000 0.00 0.00 0.00 3.67
887 4668 3.868754 GCTCCTTCCGTCTAACAACCAAT 60.869 47.826 0.00 0.00 0.00 3.16
888 4669 3.933332 CTCCTTCCGTCTAACAACCAATC 59.067 47.826 0.00 0.00 0.00 2.67
889 4670 3.325425 TCCTTCCGTCTAACAACCAATCA 59.675 43.478 0.00 0.00 0.00 2.57
890 4671 3.435671 CCTTCCGTCTAACAACCAATCAC 59.564 47.826 0.00 0.00 0.00 3.06
891 4672 3.755112 TCCGTCTAACAACCAATCACA 57.245 42.857 0.00 0.00 0.00 3.58
892 4673 4.074627 TCCGTCTAACAACCAATCACAA 57.925 40.909 0.00 0.00 0.00 3.33
893 4674 4.452825 TCCGTCTAACAACCAATCACAAA 58.547 39.130 0.00 0.00 0.00 2.83
894 4675 4.273969 TCCGTCTAACAACCAATCACAAAC 59.726 41.667 0.00 0.00 0.00 2.93
895 4676 4.533222 CGTCTAACAACCAATCACAAACC 58.467 43.478 0.00 0.00 0.00 3.27
896 4677 4.274950 CGTCTAACAACCAATCACAAACCT 59.725 41.667 0.00 0.00 0.00 3.50
897 4678 5.560183 CGTCTAACAACCAATCACAAACCTC 60.560 44.000 0.00 0.00 0.00 3.85
898 4679 5.531287 GTCTAACAACCAATCACAAACCTCT 59.469 40.000 0.00 0.00 0.00 3.69
899 4680 4.918810 AACAACCAATCACAAACCTCTC 57.081 40.909 0.00 0.00 0.00 3.20
900 4681 4.170468 ACAACCAATCACAAACCTCTCT 57.830 40.909 0.00 0.00 0.00 3.10
901 4682 4.536765 ACAACCAATCACAAACCTCTCTT 58.463 39.130 0.00 0.00 0.00 2.85
902 4683 4.956075 ACAACCAATCACAAACCTCTCTTT 59.044 37.500 0.00 0.00 0.00 2.52
903 4684 5.067805 ACAACCAATCACAAACCTCTCTTTC 59.932 40.000 0.00 0.00 0.00 2.62
904 4685 4.145052 ACCAATCACAAACCTCTCTTTCC 58.855 43.478 0.00 0.00 0.00 3.13
905 4686 3.507622 CCAATCACAAACCTCTCTTTCCC 59.492 47.826 0.00 0.00 0.00 3.97
906 4687 4.401925 CAATCACAAACCTCTCTTTCCCT 58.598 43.478 0.00 0.00 0.00 4.20
907 4688 3.492102 TCACAAACCTCTCTTTCCCTG 57.508 47.619 0.00 0.00 0.00 4.45
908 4689 3.045634 TCACAAACCTCTCTTTCCCTGA 58.954 45.455 0.00 0.00 0.00 3.86
909 4690 3.652869 TCACAAACCTCTCTTTCCCTGAT 59.347 43.478 0.00 0.00 0.00 2.90
910 4691 4.104738 TCACAAACCTCTCTTTCCCTGATT 59.895 41.667 0.00 0.00 0.00 2.57
911 4692 4.829492 CACAAACCTCTCTTTCCCTGATTT 59.171 41.667 0.00 0.00 0.00 2.17
912 4693 5.302823 CACAAACCTCTCTTTCCCTGATTTT 59.697 40.000 0.00 0.00 0.00 1.82
913 4694 5.899547 ACAAACCTCTCTTTCCCTGATTTTT 59.100 36.000 0.00 0.00 0.00 1.94
914 4695 7.014230 CACAAACCTCTCTTTCCCTGATTTTTA 59.986 37.037 0.00 0.00 0.00 1.52
915 4696 7.231519 ACAAACCTCTCTTTCCCTGATTTTTAG 59.768 37.037 0.00 0.00 0.00 1.85
916 4697 5.821097 ACCTCTCTTTCCCTGATTTTTAGG 58.179 41.667 0.00 0.00 35.01 2.69
924 4705 2.962859 CCTGATTTTTAGGGGGATGGG 58.037 52.381 0.00 0.00 0.00 4.00
925 4706 2.319844 CTGATTTTTAGGGGGATGGGC 58.680 52.381 0.00 0.00 0.00 5.36
926 4707 1.062505 TGATTTTTAGGGGGATGGGCC 60.063 52.381 0.00 0.00 0.00 5.80
927 4708 0.105709 ATTTTTAGGGGGATGGGCCG 60.106 55.000 0.00 0.00 37.63 6.13
942 4723 3.861797 CCGCCCCGCTCACCTATT 61.862 66.667 0.00 0.00 0.00 1.73
943 4724 2.588877 CGCCCCGCTCACCTATTG 60.589 66.667 0.00 0.00 0.00 1.90
944 4725 2.908015 GCCCCGCTCACCTATTGA 59.092 61.111 0.00 0.00 0.00 2.57
945 4726 1.523938 GCCCCGCTCACCTATTGAC 60.524 63.158 0.00 0.00 0.00 3.18
946 4727 1.146263 CCCCGCTCACCTATTGACC 59.854 63.158 0.00 0.00 0.00 4.02
947 4728 1.622607 CCCCGCTCACCTATTGACCA 61.623 60.000 0.00 0.00 0.00 4.02
948 4729 0.251916 CCCGCTCACCTATTGACCAA 59.748 55.000 0.00 0.00 0.00 3.67
949 4730 1.134098 CCCGCTCACCTATTGACCAAT 60.134 52.381 0.64 0.64 34.93 3.16
950 4731 2.213499 CCGCTCACCTATTGACCAATC 58.787 52.381 0.00 0.00 32.50 2.67
951 4732 2.419990 CCGCTCACCTATTGACCAATCA 60.420 50.000 0.00 0.00 32.50 2.57
965 4746 7.959658 TTGACCAATCAAGATTAACCATCAT 57.040 32.000 0.00 0.00 40.01 2.45
966 4747 7.337480 TGACCAATCAAGATTAACCATCATG 57.663 36.000 0.00 0.00 33.75 3.07
967 4748 6.891361 TGACCAATCAAGATTAACCATCATGT 59.109 34.615 0.00 0.00 33.12 3.21
968 4749 8.052141 TGACCAATCAAGATTAACCATCATGTA 58.948 33.333 0.00 0.00 33.12 2.29
969 4750 8.821686 ACCAATCAAGATTAACCATCATGTAA 57.178 30.769 0.00 0.00 33.12 2.41
970 4751 9.253832 ACCAATCAAGATTAACCATCATGTAAA 57.746 29.630 0.00 0.00 33.12 2.01
973 4754 9.807649 AATCAAGATTAACCATCATGTAAAAGC 57.192 29.630 0.00 0.00 33.12 3.51
974 4755 7.771183 TCAAGATTAACCATCATGTAAAAGCC 58.229 34.615 0.00 0.00 33.12 4.35
975 4756 7.615365 TCAAGATTAACCATCATGTAAAAGCCT 59.385 33.333 0.00 0.00 33.12 4.58
976 4757 7.338800 AGATTAACCATCATGTAAAAGCCTG 57.661 36.000 0.00 0.00 33.75 4.85
977 4758 6.891908 AGATTAACCATCATGTAAAAGCCTGT 59.108 34.615 0.00 0.00 33.75 4.00
978 4759 8.052748 AGATTAACCATCATGTAAAAGCCTGTA 58.947 33.333 0.00 0.00 33.75 2.74
979 4760 8.588290 ATTAACCATCATGTAAAAGCCTGTAA 57.412 30.769 0.00 0.00 0.00 2.41
980 4761 6.909550 AACCATCATGTAAAAGCCTGTAAA 57.090 33.333 0.00 0.00 0.00 2.01
981 4762 7.480760 AACCATCATGTAAAAGCCTGTAAAT 57.519 32.000 0.00 0.00 0.00 1.40
982 4763 7.100458 ACCATCATGTAAAAGCCTGTAAATC 57.900 36.000 0.00 0.00 0.00 2.17
983 4764 6.663093 ACCATCATGTAAAAGCCTGTAAATCA 59.337 34.615 0.00 0.00 0.00 2.57
984 4765 7.342799 ACCATCATGTAAAAGCCTGTAAATCAT 59.657 33.333 0.00 0.00 0.00 2.45
985 4766 8.199449 CCATCATGTAAAAGCCTGTAAATCATT 58.801 33.333 0.00 0.00 0.00 2.57
986 4767 9.590451 CATCATGTAAAAGCCTGTAAATCATTT 57.410 29.630 0.00 0.00 0.00 2.32
1013 4795 3.822167 CCGTTACCCAACCACTACAAATT 59.178 43.478 0.00 0.00 0.00 1.82
1027 4814 6.348540 CCACTACAAATTCTACTCAAACCAGC 60.349 42.308 0.00 0.00 0.00 4.85
1041 4828 1.735198 CCAGCCAGCAACGCAAATG 60.735 57.895 0.00 0.00 0.00 2.32
1045 4832 2.023223 CCAGCAACGCAAATGCACC 61.023 57.895 6.18 0.00 46.22 5.01
1048 4835 1.734117 GCAACGCAAATGCACCTCC 60.734 57.895 6.18 0.00 43.29 4.30
1056 4843 0.962356 AAATGCACCTCCAGAAGCGG 60.962 55.000 0.00 0.00 0.00 5.52
1057 4844 1.841302 AATGCACCTCCAGAAGCGGA 61.841 55.000 0.00 0.00 0.00 5.54
1058 4845 1.841302 ATGCACCTCCAGAAGCGGAA 61.841 55.000 0.00 0.00 33.65 4.30
1563 5357 1.526575 GACGACCCGAGTAACCACCA 61.527 60.000 0.00 0.00 0.00 4.17
1623 5555 3.812019 GCTCCGCTTCCTCGACGA 61.812 66.667 0.00 0.00 0.00 4.20
1624 5556 2.100603 CTCCGCTTCCTCGACGAC 59.899 66.667 0.00 0.00 0.00 4.34
1634 5566 3.578456 TCGACGACCCGAGTAACC 58.422 61.111 0.00 0.00 34.19 2.85
1635 5567 1.302431 TCGACGACCCGAGTAACCA 60.302 57.895 0.00 0.00 34.19 3.67
1637 5569 1.213799 GACGACCCGAGTAACCACC 59.786 63.158 0.00 0.00 0.00 4.61
1638 5570 1.526575 GACGACCCGAGTAACCACCA 61.527 60.000 0.00 0.00 0.00 4.17
1639 5571 1.214589 CGACCCGAGTAACCACCAG 59.785 63.158 0.00 0.00 0.00 4.00
1640 5572 1.595357 GACCCGAGTAACCACCAGG 59.405 63.158 0.00 0.00 42.21 4.45
1641 5573 2.267961 CCCGAGTAACCACCAGGC 59.732 66.667 0.00 0.00 39.06 4.85
1642 5574 2.125673 CCGAGTAACCACCAGGCG 60.126 66.667 0.00 0.00 39.06 5.52
1643 5575 2.125673 CGAGTAACCACCAGGCGG 60.126 66.667 0.00 0.00 39.06 6.13
1644 5576 2.642254 CGAGTAACCACCAGGCGGA 61.642 63.158 0.00 0.00 39.06 5.54
1813 5745 1.881903 CGCTTCAGGACTGGCAGAGA 61.882 60.000 23.66 10.33 0.00 3.10
1819 5751 0.033011 AGGACTGGCAGAGACGGTAT 60.033 55.000 23.66 0.00 25.53 2.73
2100 6035 4.837860 TGGTTTTGGGAATTGCTAACTCAT 59.162 37.500 0.00 0.00 0.00 2.90
2228 6179 0.529773 GTTGACGTGCCTGTGTCTCA 60.530 55.000 0.00 0.00 36.10 3.27
2243 6194 1.348064 TCTCAACACGAGATTGGGGT 58.652 50.000 0.00 0.00 46.18 4.95
2353 6305 1.705186 AGTTGTGGGCTTCCATGTACT 59.295 47.619 0.00 0.00 43.38 2.73
2361 6313 2.552155 GGCTTCCATGTACTGTGGTTGA 60.552 50.000 14.77 5.16 37.96 3.18
2428 7447 6.019748 AGAGAGTTGTCCCTATTTTCTCTCA 58.980 40.000 17.44 0.00 44.75 3.27
2688 7770 3.506455 TCTTTGTTGGGTTGTTTTGTCGA 59.494 39.130 0.00 0.00 0.00 4.20
2783 7872 2.281539 TCGCGATCTAGGGGTCATAA 57.718 50.000 3.71 0.00 0.00 1.90
2900 7990 4.286101 TGTTGTCGTCGTGTCGTATTTTA 58.714 39.130 0.00 0.00 0.00 1.52
3154 8274 2.294233 ACAAACTTGATCATGCGCACTT 59.706 40.909 14.90 0.00 0.00 3.16
3270 8401 1.890041 TTGTTTGAGGGGCGTGACG 60.890 57.895 0.00 0.00 0.00 4.35
3333 8468 5.153950 GTGGAGAATTTGTAGAGTCCACT 57.846 43.478 11.27 0.00 46.96 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 90 1.476488 AGCGACAAAAACAAGCACCTT 59.524 42.857 0.00 0.00 0.00 3.50
87 91 1.102978 AGCGACAAAAACAAGCACCT 58.897 45.000 0.00 0.00 0.00 4.00
88 92 1.199624 CAGCGACAAAAACAAGCACC 58.800 50.000 0.00 0.00 0.00 5.01
89 93 0.572125 GCAGCGACAAAAACAAGCAC 59.428 50.000 0.00 0.00 0.00 4.40
90 94 0.172127 TGCAGCGACAAAAACAAGCA 59.828 45.000 0.00 0.00 0.00 3.91
91 95 1.276415 TTGCAGCGACAAAAACAAGC 58.724 45.000 0.00 0.00 0.00 4.01
92 96 3.987807 TTTTGCAGCGACAAAAACAAG 57.012 38.095 14.89 0.00 44.32 3.16
111 115 4.332543 GCTAGCAAAAACAAGCACCTTTTT 59.667 37.500 10.63 0.00 35.05 1.94
112 116 3.871006 GCTAGCAAAAACAAGCACCTTTT 59.129 39.130 10.63 0.00 35.05 2.27
113 117 3.457234 GCTAGCAAAAACAAGCACCTTT 58.543 40.909 10.63 0.00 35.05 3.11
562 4065 6.966021 GCTATTAGAGCCCGATCTAATCTAG 58.034 44.000 16.30 11.51 45.23 2.43
757 4538 1.067212 GTGGGTTATCGCTCGAGTGAT 59.933 52.381 35.99 35.99 46.00 3.06
782 4563 4.054671 GACTTGTCTTGTCTGAGACTTGG 58.945 47.826 14.42 4.17 44.99 3.61
786 4567 3.319405 TGGAGACTTGTCTTGTCTGAGAC 59.681 47.826 5.47 5.47 43.88 3.36
787 4568 3.319405 GTGGAGACTTGTCTTGTCTGAGA 59.681 47.826 4.67 0.00 43.88 3.27
788 4569 3.553922 GGTGGAGACTTGTCTTGTCTGAG 60.554 52.174 4.67 0.00 43.88 3.35
789 4570 2.365617 GGTGGAGACTTGTCTTGTCTGA 59.634 50.000 4.67 0.00 43.88 3.27
790 4571 2.103094 TGGTGGAGACTTGTCTTGTCTG 59.897 50.000 4.67 0.00 43.88 3.51
791 4572 2.366916 CTGGTGGAGACTTGTCTTGTCT 59.633 50.000 4.67 0.00 46.17 3.41
792 4573 2.365617 TCTGGTGGAGACTTGTCTTGTC 59.634 50.000 4.67 0.00 34.88 3.18
793 4574 2.366916 CTCTGGTGGAGACTTGTCTTGT 59.633 50.000 4.67 0.00 44.45 3.16
794 4575 2.630098 TCTCTGGTGGAGACTTGTCTTG 59.370 50.000 4.67 0.00 45.20 3.02
795 4576 2.896685 CTCTCTGGTGGAGACTTGTCTT 59.103 50.000 4.67 0.00 45.20 3.01
796 4577 2.524306 CTCTCTGGTGGAGACTTGTCT 58.476 52.381 2.59 2.59 45.20 3.41
797 4578 1.548269 CCTCTCTGGTGGAGACTTGTC 59.452 57.143 0.00 0.00 45.20 3.18
817 4598 3.438087 TGTCTAGCATTTTTGCTCTCTGC 59.562 43.478 3.35 0.00 45.00 4.26
818 4599 5.814764 ATGTCTAGCATTTTTGCTCTCTG 57.185 39.130 3.35 0.00 45.00 3.35
819 4600 6.409704 TGTATGTCTAGCATTTTTGCTCTCT 58.590 36.000 3.35 0.00 45.00 3.10
820 4601 6.668541 TGTATGTCTAGCATTTTTGCTCTC 57.331 37.500 3.35 0.00 45.00 3.20
821 4602 7.391554 TCTTTGTATGTCTAGCATTTTTGCTCT 59.608 33.333 3.35 0.00 45.00 4.09
822 4603 7.483059 GTCTTTGTATGTCTAGCATTTTTGCTC 59.517 37.037 3.35 0.00 45.00 4.26
824 4605 7.308435 AGTCTTTGTATGTCTAGCATTTTTGC 58.692 34.615 5.22 0.00 38.94 3.68
830 4611 6.752351 CGTGTAAGTCTTTGTATGTCTAGCAT 59.248 38.462 0.00 5.25 41.42 3.79
832 4613 5.004535 GCGTGTAAGTCTTTGTATGTCTAGC 59.995 44.000 0.00 0.00 0.00 3.42
833 4614 6.323266 AGCGTGTAAGTCTTTGTATGTCTAG 58.677 40.000 0.00 0.00 0.00 2.43
834 4615 6.263516 AGCGTGTAAGTCTTTGTATGTCTA 57.736 37.500 0.00 0.00 0.00 2.59
835 4616 5.135508 AGCGTGTAAGTCTTTGTATGTCT 57.864 39.130 0.00 0.00 0.00 3.41
836 4617 5.840940 AAGCGTGTAAGTCTTTGTATGTC 57.159 39.130 0.00 0.00 0.00 3.06
837 4618 6.613755 AAAAGCGTGTAAGTCTTTGTATGT 57.386 33.333 0.00 0.00 31.21 2.29
840 4621 6.291743 CGTGTAAAAGCGTGTAAGTCTTTGTA 60.292 38.462 0.00 0.00 31.21 2.41
842 4623 4.896238 CGTGTAAAAGCGTGTAAGTCTTTG 59.104 41.667 0.00 0.00 31.21 2.77
843 4624 4.551410 GCGTGTAAAAGCGTGTAAGTCTTT 60.551 41.667 0.00 0.00 0.00 2.52
844 4625 3.060070 GCGTGTAAAAGCGTGTAAGTCTT 60.060 43.478 0.00 0.00 0.00 3.01
848 4629 2.159881 GGAGCGTGTAAAAGCGTGTAAG 60.160 50.000 0.00 0.00 38.61 2.34
849 4630 1.794116 GGAGCGTGTAAAAGCGTGTAA 59.206 47.619 0.00 0.00 38.61 2.41
850 4631 1.000060 AGGAGCGTGTAAAAGCGTGTA 60.000 47.619 0.00 0.00 38.61 2.90
851 4632 0.249741 AGGAGCGTGTAAAAGCGTGT 60.250 50.000 0.00 0.00 38.61 4.49
852 4633 0.865769 AAGGAGCGTGTAAAAGCGTG 59.134 50.000 0.00 0.00 38.61 5.34
853 4634 1.145803 GAAGGAGCGTGTAAAAGCGT 58.854 50.000 0.00 0.00 38.61 5.07
854 4635 0.442699 GGAAGGAGCGTGTAAAAGCG 59.557 55.000 0.00 0.00 38.61 4.68
855 4636 0.442699 CGGAAGGAGCGTGTAAAAGC 59.557 55.000 0.00 0.00 0.00 3.51
856 4637 1.725164 GACGGAAGGAGCGTGTAAAAG 59.275 52.381 0.00 0.00 0.00 2.27
857 4638 1.342174 AGACGGAAGGAGCGTGTAAAA 59.658 47.619 0.00 0.00 0.00 1.52
858 4639 0.963962 AGACGGAAGGAGCGTGTAAA 59.036 50.000 0.00 0.00 0.00 2.01
859 4640 1.825090 TAGACGGAAGGAGCGTGTAA 58.175 50.000 0.00 0.00 0.00 2.41
860 4641 1.470098 GTTAGACGGAAGGAGCGTGTA 59.530 52.381 0.00 0.00 0.00 2.90
861 4642 0.243095 GTTAGACGGAAGGAGCGTGT 59.757 55.000 0.00 0.00 0.00 4.49
862 4643 0.242825 TGTTAGACGGAAGGAGCGTG 59.757 55.000 0.00 0.00 0.00 5.34
863 4644 0.963962 TTGTTAGACGGAAGGAGCGT 59.036 50.000 0.00 0.00 0.00 5.07
864 4645 1.347320 GTTGTTAGACGGAAGGAGCG 58.653 55.000 0.00 0.00 0.00 5.03
865 4646 1.001633 TGGTTGTTAGACGGAAGGAGC 59.998 52.381 0.00 0.00 0.00 4.70
866 4647 3.396260 TTGGTTGTTAGACGGAAGGAG 57.604 47.619 0.00 0.00 0.00 3.69
867 4648 3.325425 TGATTGGTTGTTAGACGGAAGGA 59.675 43.478 0.00 0.00 0.00 3.36
868 4649 3.435671 GTGATTGGTTGTTAGACGGAAGG 59.564 47.826 0.00 0.00 0.00 3.46
869 4650 4.062293 TGTGATTGGTTGTTAGACGGAAG 58.938 43.478 0.00 0.00 0.00 3.46
870 4651 4.074627 TGTGATTGGTTGTTAGACGGAA 57.925 40.909 0.00 0.00 0.00 4.30
871 4652 3.755112 TGTGATTGGTTGTTAGACGGA 57.245 42.857 0.00 0.00 0.00 4.69
872 4653 4.533222 GTTTGTGATTGGTTGTTAGACGG 58.467 43.478 0.00 0.00 0.00 4.79
873 4654 4.274950 AGGTTTGTGATTGGTTGTTAGACG 59.725 41.667 0.00 0.00 0.00 4.18
874 4655 5.531287 AGAGGTTTGTGATTGGTTGTTAGAC 59.469 40.000 0.00 0.00 0.00 2.59
875 4656 5.690865 AGAGGTTTGTGATTGGTTGTTAGA 58.309 37.500 0.00 0.00 0.00 2.10
876 4657 5.765182 AGAGAGGTTTGTGATTGGTTGTTAG 59.235 40.000 0.00 0.00 0.00 2.34
877 4658 5.690865 AGAGAGGTTTGTGATTGGTTGTTA 58.309 37.500 0.00 0.00 0.00 2.41
878 4659 4.536765 AGAGAGGTTTGTGATTGGTTGTT 58.463 39.130 0.00 0.00 0.00 2.83
879 4660 4.170468 AGAGAGGTTTGTGATTGGTTGT 57.830 40.909 0.00 0.00 0.00 3.32
880 4661 5.507985 GGAAAGAGAGGTTTGTGATTGGTTG 60.508 44.000 0.00 0.00 0.00 3.77
881 4662 4.584743 GGAAAGAGAGGTTTGTGATTGGTT 59.415 41.667 0.00 0.00 0.00 3.67
882 4663 4.145052 GGAAAGAGAGGTTTGTGATTGGT 58.855 43.478 0.00 0.00 0.00 3.67
883 4664 3.507622 GGGAAAGAGAGGTTTGTGATTGG 59.492 47.826 0.00 0.00 0.00 3.16
884 4665 4.217118 CAGGGAAAGAGAGGTTTGTGATTG 59.783 45.833 0.00 0.00 0.00 2.67
885 4666 4.104738 TCAGGGAAAGAGAGGTTTGTGATT 59.895 41.667 0.00 0.00 0.00 2.57
886 4667 3.652869 TCAGGGAAAGAGAGGTTTGTGAT 59.347 43.478 0.00 0.00 0.00 3.06
887 4668 3.045634 TCAGGGAAAGAGAGGTTTGTGA 58.954 45.455 0.00 0.00 0.00 3.58
888 4669 3.492102 TCAGGGAAAGAGAGGTTTGTG 57.508 47.619 0.00 0.00 0.00 3.33
889 4670 4.731313 AATCAGGGAAAGAGAGGTTTGT 57.269 40.909 0.00 0.00 0.00 2.83
890 4671 6.410942 AAAAATCAGGGAAAGAGAGGTTTG 57.589 37.500 0.00 0.00 0.00 2.93
891 4672 6.721668 CCTAAAAATCAGGGAAAGAGAGGTTT 59.278 38.462 0.00 0.00 0.00 3.27
892 4673 6.249192 CCTAAAAATCAGGGAAAGAGAGGTT 58.751 40.000 0.00 0.00 0.00 3.50
893 4674 5.821097 CCTAAAAATCAGGGAAAGAGAGGT 58.179 41.667 0.00 0.00 0.00 3.85
904 4685 2.962859 CCCATCCCCCTAAAAATCAGG 58.037 52.381 0.00 0.00 0.00 3.86
905 4686 2.319844 GCCCATCCCCCTAAAAATCAG 58.680 52.381 0.00 0.00 0.00 2.90
906 4687 1.062505 GGCCCATCCCCCTAAAAATCA 60.063 52.381 0.00 0.00 0.00 2.57
907 4688 1.717032 GGCCCATCCCCCTAAAAATC 58.283 55.000 0.00 0.00 0.00 2.17
908 4689 0.105709 CGGCCCATCCCCCTAAAAAT 60.106 55.000 0.00 0.00 0.00 1.82
909 4690 1.308326 CGGCCCATCCCCCTAAAAA 59.692 57.895 0.00 0.00 0.00 1.94
910 4691 3.011885 CGGCCCATCCCCCTAAAA 58.988 61.111 0.00 0.00 0.00 1.52
911 4692 3.816090 GCGGCCCATCCCCCTAAA 61.816 66.667 0.00 0.00 0.00 1.85
925 4706 3.861797 AATAGGTGAGCGGGGCGG 61.862 66.667 0.00 0.00 0.00 6.13
926 4707 2.588877 CAATAGGTGAGCGGGGCG 60.589 66.667 0.00 0.00 0.00 6.13
927 4708 1.523938 GTCAATAGGTGAGCGGGGC 60.524 63.158 0.00 0.00 36.74 5.80
928 4709 1.146263 GGTCAATAGGTGAGCGGGG 59.854 63.158 0.00 0.00 44.38 5.73
929 4710 4.857251 GGTCAATAGGTGAGCGGG 57.143 61.111 0.00 0.00 44.38 6.13
933 4714 8.616076 GTTAATCTTGATTGGTCAATAGGTGAG 58.384 37.037 6.15 0.00 43.08 3.51
934 4715 7.556275 GGTTAATCTTGATTGGTCAATAGGTGA 59.444 37.037 6.15 0.00 43.08 4.02
935 4716 7.339212 TGGTTAATCTTGATTGGTCAATAGGTG 59.661 37.037 6.15 0.00 43.08 4.00
936 4717 7.410174 TGGTTAATCTTGATTGGTCAATAGGT 58.590 34.615 6.15 0.00 43.08 3.08
937 4718 7.880160 TGGTTAATCTTGATTGGTCAATAGG 57.120 36.000 6.15 0.00 43.08 2.57
938 4719 9.123902 TGATGGTTAATCTTGATTGGTCAATAG 57.876 33.333 6.15 0.00 43.08 1.73
939 4720 9.645128 ATGATGGTTAATCTTGATTGGTCAATA 57.355 29.630 6.15 0.00 43.08 1.90
940 4721 7.959658 TGATGGTTAATCTTGATTGGTCAAT 57.040 32.000 6.15 0.00 43.08 2.57
941 4722 7.396907 ACATGATGGTTAATCTTGATTGGTCAA 59.603 33.333 0.00 0.00 41.03 3.18
942 4723 6.891361 ACATGATGGTTAATCTTGATTGGTCA 59.109 34.615 0.00 4.17 41.03 4.02
943 4724 7.338800 ACATGATGGTTAATCTTGATTGGTC 57.661 36.000 0.00 0.00 41.03 4.02
944 4725 8.821686 TTACATGATGGTTAATCTTGATTGGT 57.178 30.769 0.00 0.00 41.03 3.67
947 4728 9.807649 GCTTTTACATGATGGTTAATCTTGATT 57.192 29.630 0.00 1.35 41.03 2.57
948 4729 8.416329 GGCTTTTACATGATGGTTAATCTTGAT 58.584 33.333 0.00 0.00 41.03 2.57
949 4730 7.615365 AGGCTTTTACATGATGGTTAATCTTGA 59.385 33.333 0.00 0.00 41.03 3.02
950 4731 7.703621 CAGGCTTTTACATGATGGTTAATCTTG 59.296 37.037 0.00 0.00 43.08 3.02
951 4732 7.397192 ACAGGCTTTTACATGATGGTTAATCTT 59.603 33.333 0.00 0.00 36.15 2.40
952 4733 6.891908 ACAGGCTTTTACATGATGGTTAATCT 59.108 34.615 0.00 0.00 36.15 2.40
953 4734 7.100458 ACAGGCTTTTACATGATGGTTAATC 57.900 36.000 0.00 0.00 35.67 1.75
954 4735 8.588290 TTACAGGCTTTTACATGATGGTTAAT 57.412 30.769 0.00 0.00 0.00 1.40
955 4736 8.410673 TTTACAGGCTTTTACATGATGGTTAA 57.589 30.769 0.00 0.00 0.00 2.01
956 4737 8.588290 ATTTACAGGCTTTTACATGATGGTTA 57.412 30.769 0.00 0.00 0.00 2.85
957 4738 6.909550 TTTACAGGCTTTTACATGATGGTT 57.090 33.333 0.00 0.00 0.00 3.67
958 4739 6.663093 TGATTTACAGGCTTTTACATGATGGT 59.337 34.615 0.00 0.00 0.00 3.55
959 4740 7.099266 TGATTTACAGGCTTTTACATGATGG 57.901 36.000 0.00 0.00 0.00 3.51
960 4741 9.590451 AAATGATTTACAGGCTTTTACATGATG 57.410 29.630 0.00 0.00 0.00 3.07
961 4742 9.590451 CAAATGATTTACAGGCTTTTACATGAT 57.410 29.630 0.00 0.00 0.00 2.45
962 4743 8.584157 ACAAATGATTTACAGGCTTTTACATGA 58.416 29.630 0.00 0.00 0.00 3.07
963 4744 8.761575 ACAAATGATTTACAGGCTTTTACATG 57.238 30.769 0.00 0.00 0.00 3.21
964 4745 9.855021 GTACAAATGATTTACAGGCTTTTACAT 57.145 29.630 0.00 0.00 0.00 2.29
965 4746 8.301002 GGTACAAATGATTTACAGGCTTTTACA 58.699 33.333 0.00 0.00 0.00 2.41
966 4747 7.758076 GGGTACAAATGATTTACAGGCTTTTAC 59.242 37.037 0.00 0.00 0.00 2.01
967 4748 7.362229 CGGGTACAAATGATTTACAGGCTTTTA 60.362 37.037 0.00 0.00 0.00 1.52
968 4749 6.571537 CGGGTACAAATGATTTACAGGCTTTT 60.572 38.462 0.00 0.00 0.00 2.27
969 4750 5.105917 CGGGTACAAATGATTTACAGGCTTT 60.106 40.000 0.00 0.00 0.00 3.51
970 4751 4.398044 CGGGTACAAATGATTTACAGGCTT 59.602 41.667 0.00 0.00 0.00 4.35
971 4752 3.945285 CGGGTACAAATGATTTACAGGCT 59.055 43.478 0.00 0.00 0.00 4.58
972 4753 3.692593 ACGGGTACAAATGATTTACAGGC 59.307 43.478 0.00 0.00 0.00 4.85
973 4754 5.890424 AACGGGTACAAATGATTTACAGG 57.110 39.130 0.00 0.00 0.00 4.00
974 4755 6.183360 GGGTAACGGGTACAAATGATTTACAG 60.183 42.308 5.44 0.00 34.01 2.74
975 4756 5.647225 GGGTAACGGGTACAAATGATTTACA 59.353 40.000 5.44 0.00 34.01 2.41
976 4757 5.647225 TGGGTAACGGGTACAAATGATTTAC 59.353 40.000 5.44 0.00 34.01 2.01
977 4758 5.813383 TGGGTAACGGGTACAAATGATTTA 58.187 37.500 5.44 0.00 34.01 1.40
978 4759 4.664392 TGGGTAACGGGTACAAATGATTT 58.336 39.130 5.44 0.00 34.01 2.17
979 4760 4.304048 TGGGTAACGGGTACAAATGATT 57.696 40.909 5.44 0.00 34.01 2.57
980 4761 4.011698 GTTGGGTAACGGGTACAAATGAT 58.988 43.478 5.44 0.00 34.01 2.45
981 4762 3.410508 GTTGGGTAACGGGTACAAATGA 58.589 45.455 5.44 0.00 34.01 2.57
982 4763 2.488937 GGTTGGGTAACGGGTACAAATG 59.511 50.000 5.44 0.00 37.69 2.32
983 4764 2.107901 TGGTTGGGTAACGGGTACAAAT 59.892 45.455 5.44 0.00 37.69 2.32
984 4765 1.492176 TGGTTGGGTAACGGGTACAAA 59.508 47.619 5.44 0.00 37.69 2.83
985 4766 1.135094 TGGTTGGGTAACGGGTACAA 58.865 50.000 5.44 0.00 37.69 2.41
986 4767 0.396060 GTGGTTGGGTAACGGGTACA 59.604 55.000 5.44 0.00 37.69 2.90
1013 4795 1.055849 TGCTGGCTGGTTTGAGTAGA 58.944 50.000 0.00 0.00 0.00 2.59
1027 4814 2.023223 GGTGCATTTGCGTTGCTGG 61.023 57.895 0.00 0.00 45.83 4.85
1041 4828 1.743252 CTTCCGCTTCTGGAGGTGC 60.743 63.158 0.00 0.00 39.72 5.01
1045 4832 2.510238 CGCCTTCCGCTTCTGGAG 60.510 66.667 0.00 0.00 39.72 3.86
1056 4843 2.380410 ATTGTCGTCGTGCGCCTTC 61.380 57.895 4.18 0.00 41.07 3.46
1057 4844 2.357034 ATTGTCGTCGTGCGCCTT 60.357 55.556 4.18 0.00 41.07 4.35
1058 4845 3.112075 CATTGTCGTCGTGCGCCT 61.112 61.111 4.18 0.00 41.07 5.52
1066 4860 1.086634 GCTCCTCAGCCATTGTCGTC 61.087 60.000 0.00 0.00 40.14 4.20
1554 5348 2.433664 CGTCCGCCTGGTGGTTAC 60.434 66.667 24.81 15.87 34.40 2.50
1617 5549 1.302431 TGGTTACTCGGGTCGTCGA 60.302 57.895 0.00 0.00 37.60 4.20
1620 5552 1.530013 CTGGTGGTTACTCGGGTCGT 61.530 60.000 0.00 0.00 0.00 4.34
1623 5555 2.590114 GCCTGGTGGTTACTCGGGT 61.590 63.158 0.00 0.00 35.27 5.28
1624 5556 2.267961 GCCTGGTGGTTACTCGGG 59.732 66.667 0.00 0.00 35.27 5.14
1629 5561 2.433664 CGTCCGCCTGGTGGTTAC 60.434 66.667 24.81 15.87 34.40 2.50
1630 5562 4.382320 GCGTCCGCCTGGTGGTTA 62.382 66.667 24.81 4.80 34.40 2.85
1798 5730 1.979155 CCGTCTCTGCCAGTCCTGA 60.979 63.158 0.00 0.00 0.00 3.86
1813 5745 0.459899 TCAGCATCTCGCAATACCGT 59.540 50.000 0.00 0.00 46.13 4.83
1819 5751 0.321346 TGTCCTTCAGCATCTCGCAA 59.679 50.000 0.00 0.00 46.13 4.85
2171 6106 1.428448 CGAGGAACGATCACTTTGCA 58.572 50.000 0.00 0.00 45.77 4.08
2228 6179 1.378762 CCCACCCCAATCTCGTGTT 59.621 57.895 0.00 0.00 0.00 3.32
2243 6194 1.826054 CCACAAACAAGACGGCCCA 60.826 57.895 0.00 0.00 0.00 5.36
2272 6223 0.693049 AGACCAGCCCGAGACAAAAT 59.307 50.000 0.00 0.00 0.00 1.82
2323 6275 0.307760 GCCCACAACTGAGACAAACG 59.692 55.000 0.00 0.00 0.00 3.60
2428 7447 5.182760 GTGAGAAAATGAATGAGCACCTCTT 59.817 40.000 0.00 0.00 0.00 2.85
2657 7737 1.139163 CCCAACAAAGATTTGCACGC 58.861 50.000 5.23 0.00 41.79 5.34
2688 7770 0.742990 CACACAACACGGGACACACT 60.743 55.000 0.00 0.00 0.00 3.55
2900 7990 0.681175 GCTTCACAAGGGGCAAACAT 59.319 50.000 0.00 0.00 0.00 2.71
3333 8468 2.807967 CAAGACCATTTGCGAGTGAAGA 59.192 45.455 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.