Multiple sequence alignment - TraesCS7D01G036200

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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 TraesCS7D01G036200 chr7D 100.000 5623 0 0 1 5623 18585652 18591274 0.000000e+00 10384.0
1 TraesCS7D01G036200 chr7D 91.770 1689 102 19 1715 3383 18629721 18631392 0.000000e+00 2314.0
2 TraesCS7D01G036200 chr7D 89.681 1628 115 19 79 1673 18628112 18629719 0.000000e+00 2026.0
3 TraesCS7D01G036200 chr7D 86.589 1208 134 16 3508 4692 18631396 18632598 0.000000e+00 1308.0
4 TraesCS7D01G036200 chr7D 89.494 1028 82 12 1 1011 18609962 18610980 0.000000e+00 1277.0
5 TraesCS7D01G036200 chr7D 92.793 222 16 0 1005 1226 18625664 18625885 7.030000e-84 322.0
6 TraesCS7D01G036200 chr7D 94.595 37 2 0 5013 5049 18590564 18590600 2.190000e-04 58.4
7 TraesCS7D01G036200 chr7D 94.595 37 2 0 4913 4949 18590664 18590700 2.190000e-04 58.4
8 TraesCS7D01G036200 chr7A 94.713 4653 128 27 365 4919 18993061 18997693 0.000000e+00 7121.0
9 TraesCS7D01G036200 chr7A 87.534 369 30 7 6 373 18992537 18992890 4.050000e-111 412.0
10 TraesCS7D01G036200 chr7A 92.157 255 18 2 5162 5415 18998169 18998422 5.360000e-95 359.0
11 TraesCS7D01G036200 chr7A 75.882 340 58 7 25 361 6061114 6060796 9.760000e-33 152.0
12 TraesCS7D01G036200 chr4A 85.365 4660 478 99 143 4721 714195847 714191311 0.000000e+00 4639.0
13 TraesCS7D01G036200 chr4A 89.552 67 7 0 4 70 714195912 714195846 1.000000e-12 86.1
14 TraesCS7D01G036200 chr1A 80.171 701 124 8 3097 3785 12770968 12770271 1.400000e-140 510.0
15 TraesCS7D01G036200 chr1A 78.528 652 119 13 4103 4746 12768554 12767916 5.240000e-110 409.0
16 TraesCS7D01G036200 chr1A 76.499 617 106 27 4113 4719 12769943 12769356 3.290000e-77 300.0
17 TraesCS7D01G036200 chr1A 82.212 208 37 0 3097 3304 12834883 12834676 4.480000e-41 180.0
18 TraesCS7D01G036200 chr1A 78.125 224 48 1 3536 3758 12405558 12405335 2.110000e-29 141.0
19 TraesCS7D01G036200 chrUn 80.314 574 109 4 4154 4723 305995252 305994679 1.120000e-116 431.0
20 TraesCS7D01G036200 chr1B 78.063 702 141 12 4032 4723 15896398 15895700 1.120000e-116 431.0
21 TraesCS7D01G036200 chr1B 75.490 714 145 16 3097 3789 15659594 15660298 7.030000e-84 322.0
22 TraesCS7D01G036200 chr6D 73.174 712 154 28 3101 3790 27100891 27101587 7.330000e-54 222.0
23 TraesCS7D01G036200 chr1D 95.652 46 2 0 5335 5380 10729998 10729953 2.170000e-09 75.0


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 TraesCS7D01G036200 chr7D 18585652 18591274 5622 False 3500.266667 10384 96.396667 1 5623 3 chr7D.!!$F2 5622
1 TraesCS7D01G036200 chr7D 18625664 18632598 6934 False 1492.500000 2314 90.208250 79 4692 4 chr7D.!!$F3 4613
2 TraesCS7D01G036200 chr7D 18609962 18610980 1018 False 1277.000000 1277 89.494000 1 1011 1 chr7D.!!$F1 1010
3 TraesCS7D01G036200 chr7A 18992537 18998422 5885 False 2630.666667 7121 91.468000 6 5415 3 chr7A.!!$F1 5409
4 TraesCS7D01G036200 chr4A 714191311 714195912 4601 True 2362.550000 4639 87.458500 4 4721 2 chr4A.!!$R1 4717
5 TraesCS7D01G036200 chr1A 12767916 12770968 3052 True 406.333333 510 78.399333 3097 4746 3 chr1A.!!$R3 1649
6 TraesCS7D01G036200 chrUn 305994679 305995252 573 True 431.000000 431 80.314000 4154 4723 1 chrUn.!!$R1 569
7 TraesCS7D01G036200 chr1B 15895700 15896398 698 True 431.000000 431 78.063000 4032 4723 1 chr1B.!!$R1 691
8 TraesCS7D01G036200 chr1B 15659594 15660298 704 False 322.000000 322 75.490000 3097 3789 1 chr1B.!!$F1 692
9 TraesCS7D01G036200 chr6D 27100891 27101587 696 False 222.000000 222 73.174000 3101 3790 1 chr6D.!!$F1 689

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
499 3065 2.096248 ACCGTGTTGCAAGGAAAAAGA 58.904 42.857 10.01 0.0 36.54 2.52 F
1950 4609 1.016130 CGAGGCATCAAACGAGCTGT 61.016 55.000 0.00 0.0 0.00 4.40 F
2474 5133 0.036732 AGCTCCTGATTTGACGGCAA 59.963 50.000 0.00 0.0 0.00 4.52 F
3308 6015 0.659957 GGTGATGCTTCGGCTGATTC 59.340 55.000 0.00 0.0 42.37 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2116 4775 0.323178 CCATGTTTGCTCTGCCCTCT 60.323 55.000 0.00 0.00 0.00 3.69 R
2853 5545 0.467474 TCGATATGGCTGGAGTCGGT 60.467 55.000 0.00 0.00 33.46 4.69 R
4414 7210 1.066573 TCTCCAGAACAGCTAGCTTGC 60.067 52.381 16.46 12.54 0.00 4.01 R
4816 9043 0.033601 ACTCCTGCACAACCCAAACA 60.034 50.000 0.00 0.00 0.00 2.83 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
72 73 4.973055 CAACGGCCGGTCGTCCAA 62.973 66.667 36.87 0.00 43.07 3.53
73 74 4.675029 AACGGCCGGTCGTCCAAG 62.675 66.667 36.87 4.31 43.07 3.61
76 77 4.699522 GGCCGGTCGTCCAAGCTT 62.700 66.667 1.90 0.00 34.34 3.74
116 2488 3.568430 GGTGAAGATCCAACCTCGTTTTT 59.432 43.478 2.55 0.00 0.00 1.94
118 2490 3.004315 TGAAGATCCAACCTCGTTTTTGC 59.996 43.478 0.00 0.00 0.00 3.68
182 2554 6.482308 AGTTAACTGTGTCTGTGACCATTAAC 59.518 38.462 7.48 0.00 30.78 2.01
252 2625 6.368791 TCCGATGACAACTACAAAATGAGAAG 59.631 38.462 0.00 0.00 0.00 2.85
331 2704 9.405587 CACAAAACTTCTTTACTTTCAGAACAA 57.594 29.630 0.00 0.00 0.00 2.83
387 2939 4.803329 ACTAATCCAGCAATCCAGGAAT 57.197 40.909 0.00 0.00 34.62 3.01
499 3065 2.096248 ACCGTGTTGCAAGGAAAAAGA 58.904 42.857 10.01 0.00 36.54 2.52
897 3486 2.742589 GGTCAAGATCCAACCTCGTTTC 59.257 50.000 0.00 0.00 0.00 2.78
921 3511 5.639506 CCGGCATAGACAAACATATCCTAAG 59.360 44.000 0.00 0.00 0.00 2.18
926 3516 7.519008 GCATAGACAAACATATCCTAAGTGTGC 60.519 40.741 0.00 0.00 0.00 4.57
975 3571 2.135139 CAGTGCAAGTTGAGCTTACGA 58.865 47.619 7.16 0.00 35.27 3.43
1496 4127 3.054287 TCCAAAACATAAGATGCCGGGTA 60.054 43.478 2.18 0.00 0.00 3.69
1522 4153 4.778534 AAAACATGAGATGCCACTTCAG 57.221 40.909 0.00 0.00 0.00 3.02
1624 4273 3.701205 AATCATCGGCATATAGGTGCA 57.299 42.857 1.00 0.00 46.81 4.57
1774 4425 2.210485 CGTCACTCGCGTAATTAAGACG 59.790 50.000 5.77 13.27 43.19 4.18
1950 4609 1.016130 CGAGGCATCAAACGAGCTGT 61.016 55.000 0.00 0.00 0.00 4.40
2023 4682 1.268899 GTGTTGAGCTTCTGCATTGCT 59.731 47.619 10.49 7.77 42.74 3.91
2065 4724 3.576078 TTTGGACTGTTGATCACCACT 57.424 42.857 0.00 0.00 0.00 4.00
2474 5133 0.036732 AGCTCCTGATTTGACGGCAA 59.963 50.000 0.00 0.00 0.00 4.52
2617 5309 2.163815 GCAGCAGAATCAGCAAACAGAT 59.836 45.455 0.00 0.00 0.00 2.90
2842 5534 3.751479 TCTTCACTGCTCAACTGCTTA 57.249 42.857 0.00 0.00 0.00 3.09
2853 5545 7.093727 ACTGCTCAACTGCTTAGAAGAATACTA 60.094 37.037 0.00 0.00 0.00 1.82
3022 5726 5.290158 GTCAGAGTTAGAGTACTCAGAGTCG 59.710 48.000 24.44 17.08 45.57 4.18
3263 5970 2.826428 CAGGTCATAGTGATTGGTCCG 58.174 52.381 0.00 0.00 0.00 4.79
3308 6015 0.659957 GGTGATGCTTCGGCTGATTC 59.340 55.000 0.00 0.00 42.37 2.52
3503 6214 7.341769 ACAGAGTAAATCTCACTAAGATGCTCT 59.658 37.037 9.37 9.37 44.26 4.09
3823 6559 7.118496 TCTTCCCTCATCTCTGTTATTTCTC 57.882 40.000 0.00 0.00 0.00 2.87
4096 6886 2.096218 GTGATGTCGAAAGCCAAGTCAC 60.096 50.000 0.00 0.00 0.00 3.67
4108 6898 1.202533 CCAAGTCACTGAGGACAACGT 60.203 52.381 4.37 0.00 40.29 3.99
4237 7033 3.230743 TGATCTCGACTCAATTTCGCA 57.769 42.857 0.00 0.00 36.40 5.10
4520 7354 1.612726 GCCAACAGGATGAGCAAGACT 60.613 52.381 0.00 0.00 39.69 3.24
4535 8730 0.603065 AGACTATGCGTGACACTGCA 59.397 50.000 21.39 21.39 46.51 4.41
4606 8801 0.540597 AAGGGCCAAGGCTCAGAAAC 60.541 55.000 14.38 0.00 45.68 2.78
4614 8809 0.183492 AGGCTCAGAAACAGTGGCAA 59.817 50.000 0.00 0.00 0.00 4.52
4644 8844 4.774200 AGCCCTCTTTTGCAAACAAGATAT 59.226 37.500 12.39 0.00 37.04 1.63
4742 8945 4.928601 TGTGACGTATTCTACTACCATGC 58.071 43.478 0.00 0.00 0.00 4.06
4766 8993 6.648879 TTCCTTACTTTGATTTTCAGGTGG 57.351 37.500 0.00 0.00 0.00 4.61
4778 9005 5.782893 TTTTCAGGTGGTGGAAATTACTG 57.217 39.130 0.00 0.00 33.43 2.74
4781 9008 3.081804 CAGGTGGTGGAAATTACTGTCC 58.918 50.000 0.00 0.00 0.00 4.02
4790 9017 7.040062 TGGTGGAAATTACTGTCCAAAAGTATG 60.040 37.037 0.00 0.00 45.42 2.39
4791 9018 6.806739 GTGGAAATTACTGTCCAAAAGTATGC 59.193 38.462 0.00 0.00 45.42 3.14
4798 9025 2.292016 TGTCCAAAAGTATGCGTGTTGG 59.708 45.455 6.79 6.79 40.12 3.77
4803 9030 5.650266 TCCAAAAGTATGCGTGTTGGATATT 59.350 36.000 10.35 0.00 42.12 1.28
4812 9039 5.933790 TGCGTGTTGGATATTTACTTGTTC 58.066 37.500 0.00 0.00 0.00 3.18
4815 9042 6.568844 GCGTGTTGGATATTTACTTGTTCCAA 60.569 38.462 0.00 0.00 42.58 3.53
4816 9043 7.535139 CGTGTTGGATATTTACTTGTTCCAAT 58.465 34.615 6.03 0.00 45.40 3.16
4818 9045 8.303876 GTGTTGGATATTTACTTGTTCCAATGT 58.696 33.333 6.03 0.00 45.40 2.71
4819 9046 8.865090 TGTTGGATATTTACTTGTTCCAATGTT 58.135 29.630 6.03 0.00 45.40 2.71
4820 9047 9.705290 GTTGGATATTTACTTGTTCCAATGTTT 57.295 29.630 6.03 0.00 45.40 2.83
4848 9081 0.249120 CAGGAGTTGCGACATACCCA 59.751 55.000 6.90 0.00 0.00 4.51
4850 9083 1.066143 AGGAGTTGCGACATACCCAAG 60.066 52.381 6.90 0.00 0.00 3.61
4870 9103 7.006509 CCCAAGATGTAGATAATCCAAATGGT 58.993 38.462 0.00 0.00 36.34 3.55
4896 9129 0.329596 AAGGCAGGGGCTGAGTTAAG 59.670 55.000 0.00 0.00 38.81 1.85
4901 9134 3.621558 GCAGGGGCTGAGTTAAGTTAAT 58.378 45.455 0.00 0.00 36.96 1.40
4905 9138 6.017026 GCAGGGGCTGAGTTAAGTTAATTATC 60.017 42.308 0.00 0.00 36.96 1.75
4910 9143 9.174166 GGGCTGAGTTAAGTTAATTATCTTTGA 57.826 33.333 12.78 2.33 0.00 2.69
4926 9159 9.739276 ATTATCTTTGAGAATAAACACAGGTGA 57.261 29.630 6.40 0.00 0.00 4.02
4927 9160 9.567776 TTATCTTTGAGAATAAACACAGGTGAA 57.432 29.630 6.40 0.00 0.00 3.18
4928 9161 7.496529 TCTTTGAGAATAAACACAGGTGAAG 57.503 36.000 6.40 0.00 0.00 3.02
4929 9162 7.054124 TCTTTGAGAATAAACACAGGTGAAGT 58.946 34.615 6.40 0.00 0.00 3.01
4930 9163 6.618287 TTGAGAATAAACACAGGTGAAGTG 57.382 37.500 6.40 0.00 42.56 3.16
4931 9164 5.063204 TGAGAATAAACACAGGTGAAGTGG 58.937 41.667 6.40 0.00 41.21 4.00
4932 9165 4.398319 AGAATAAACACAGGTGAAGTGGG 58.602 43.478 6.40 0.00 41.21 4.61
4933 9166 2.649531 TAAACACAGGTGAAGTGGGG 57.350 50.000 6.40 0.00 41.21 4.96
4934 9167 0.923358 AAACACAGGTGAAGTGGGGA 59.077 50.000 6.40 0.00 41.21 4.81
4935 9168 1.149101 AACACAGGTGAAGTGGGGAT 58.851 50.000 6.40 0.00 41.21 3.85
4936 9169 1.149101 ACACAGGTGAAGTGGGGATT 58.851 50.000 6.40 0.00 41.21 3.01
4937 9170 1.202927 ACACAGGTGAAGTGGGGATTG 60.203 52.381 6.40 0.00 41.21 2.67
4938 9171 1.073763 CACAGGTGAAGTGGGGATTGA 59.926 52.381 0.00 0.00 33.43 2.57
4939 9172 1.780309 ACAGGTGAAGTGGGGATTGAA 59.220 47.619 0.00 0.00 0.00 2.69
4940 9173 2.162681 CAGGTGAAGTGGGGATTGAAC 58.837 52.381 0.00 0.00 0.00 3.18
4943 9176 2.962421 GGTGAAGTGGGGATTGAACAAA 59.038 45.455 0.00 0.00 0.00 2.83
4944 9177 3.578282 GGTGAAGTGGGGATTGAACAAAT 59.422 43.478 0.00 0.00 0.00 2.32
4948 9181 6.542005 GTGAAGTGGGGATTGAACAAATTTTT 59.458 34.615 0.00 0.00 0.00 1.94
4951 9184 6.230472 AGTGGGGATTGAACAAATTTTTAGC 58.770 36.000 0.00 0.00 0.00 3.09
4957 9190 8.088365 GGGATTGAACAAATTTTTAGCAGTACT 58.912 33.333 0.00 0.00 0.00 2.73
5009 9364 5.127519 TCAAATGCAGCTTATAAGTGCCATT 59.872 36.000 24.57 21.07 34.41 3.16
5028 9394 7.116233 GTGCCATTTAAATTAACACAGGTGAAG 59.884 37.037 6.40 0.00 0.00 3.02
5033 9399 2.649531 TTAACACAGGTGAAGTGGGG 57.350 50.000 6.40 0.00 41.21 4.96
5048 9414 5.188751 TGAAGTGGGGATTGAACAAAGTTTT 59.811 36.000 0.00 0.00 0.00 2.43
5074 9440 9.278978 TCATATCAGTAGTATCTGAGTGAACTC 57.721 37.037 3.41 3.41 45.70 3.01
5082 9448 3.924114 TCTGAGTGAACTCCAAAACCA 57.076 42.857 7.96 0.00 42.20 3.67
5084 9450 4.792068 TCTGAGTGAACTCCAAAACCATT 58.208 39.130 7.96 0.00 42.20 3.16
5088 9454 6.361433 TGAGTGAACTCCAAAACCATTCTAA 58.639 36.000 7.96 0.00 42.20 2.10
5103 9469 6.331061 ACCATTCTAACTTCATCTCGTGTAC 58.669 40.000 0.00 0.00 0.00 2.90
5122 9488 5.966503 GTGTACGAAAGTTAATTTGTGTGCA 59.033 36.000 0.00 3.54 46.40 4.57
5123 9489 6.469595 GTGTACGAAAGTTAATTTGTGTGCAA 59.530 34.615 7.52 0.00 46.40 4.08
5138 9504 4.398988 TGTGTGCAATGATTCTATTCCACC 59.601 41.667 0.00 0.00 29.57 4.61
5150 9516 3.840666 TCTATTCCACCCATGCCTCTATC 59.159 47.826 0.00 0.00 0.00 2.08
5158 9524 5.605908 CCACCCATGCCTCTATCTCATATAT 59.394 44.000 0.00 0.00 0.00 0.86
5159 9525 6.464039 CCACCCATGCCTCTATCTCATATATG 60.464 46.154 6.36 6.36 0.00 1.78
5160 9526 5.071519 ACCCATGCCTCTATCTCATATATGC 59.928 44.000 7.92 0.00 0.00 3.14
5163 9646 6.930164 CCATGCCTCTATCTCATATATGCTTC 59.070 42.308 7.92 0.00 0.00 3.86
5176 9659 9.836076 CTCATATATGCTTCAATAAACACATGG 57.164 33.333 7.92 0.00 0.00 3.66
5195 9678 7.285401 ACACATGGTGGTATTCTAAATTCATCC 59.715 37.037 0.00 0.00 37.94 3.51
5211 9694 2.171237 TCATCCAGAACAGGGTATGCAG 59.829 50.000 0.00 0.00 0.00 4.41
5241 9724 7.452562 TGTGCAAATCTATCTATGCTCCAATA 58.547 34.615 0.00 0.00 39.49 1.90
5271 9754 0.905357 AGGGTCTGCAGAATAAGCGT 59.095 50.000 20.19 4.77 33.85 5.07
5278 9761 0.876342 GCAGAATAAGCGTCGGGGAG 60.876 60.000 0.00 0.00 0.00 4.30
5280 9763 1.594564 GAATAAGCGTCGGGGAGGC 60.595 63.158 2.31 2.31 42.77 4.70
5334 9817 2.174319 GCGAGATGGGAACGGCTTC 61.174 63.158 0.00 0.00 0.00 3.86
5374 9858 4.436998 GTGTCGGAGTGGAGGCGG 62.437 72.222 0.00 0.00 0.00 6.13
5394 9878 1.516423 GACCTAGACTGGGAACGGC 59.484 63.158 12.53 0.00 41.93 5.68
5415 9899 2.927856 TGCCGGCCAGAGGAAGAA 60.928 61.111 26.77 0.00 0.00 2.52
5416 9900 2.351276 GCCGGCCAGAGGAAGAAA 59.649 61.111 18.11 0.00 0.00 2.52
5417 9901 1.077429 GCCGGCCAGAGGAAGAAAT 60.077 57.895 18.11 0.00 0.00 2.17
5418 9902 0.681243 GCCGGCCAGAGGAAGAAATT 60.681 55.000 18.11 0.00 0.00 1.82
5419 9903 1.839424 CCGGCCAGAGGAAGAAATTT 58.161 50.000 2.24 0.00 0.00 1.82
5420 9904 1.745653 CCGGCCAGAGGAAGAAATTTC 59.254 52.381 10.33 10.33 0.00 2.17
5421 9905 2.436417 CGGCCAGAGGAAGAAATTTCA 58.564 47.619 19.99 0.00 0.00 2.69
5422 9906 2.421424 CGGCCAGAGGAAGAAATTTCAG 59.579 50.000 19.99 1.48 0.00 3.02
5423 9907 3.690460 GGCCAGAGGAAGAAATTTCAGA 58.310 45.455 19.99 0.00 0.00 3.27
5424 9908 3.693578 GGCCAGAGGAAGAAATTTCAGAG 59.306 47.826 19.99 3.06 0.00 3.35
5425 9909 3.693578 GCCAGAGGAAGAAATTTCAGAGG 59.306 47.826 19.99 11.75 0.00 3.69
5426 9910 3.693578 CCAGAGGAAGAAATTTCAGAGGC 59.306 47.826 19.99 6.61 0.00 4.70
5427 9911 4.330250 CAGAGGAAGAAATTTCAGAGGCA 58.670 43.478 19.99 0.00 0.00 4.75
5428 9912 4.395542 CAGAGGAAGAAATTTCAGAGGCAG 59.604 45.833 19.99 1.94 0.00 4.85
5429 9913 4.288105 AGAGGAAGAAATTTCAGAGGCAGA 59.712 41.667 19.99 0.00 0.00 4.26
5430 9914 4.587891 AGGAAGAAATTTCAGAGGCAGAG 58.412 43.478 19.99 0.00 0.00 3.35
5431 9915 3.128415 GGAAGAAATTTCAGAGGCAGAGC 59.872 47.826 19.99 0.00 0.00 4.09
5452 9936 4.406648 CCTTTGGGCCCTGAATAAAATC 57.593 45.455 25.70 0.00 0.00 2.17
5453 9937 3.134623 CCTTTGGGCCCTGAATAAAATCC 59.865 47.826 25.70 0.00 0.00 3.01
5454 9938 3.481559 TTGGGCCCTGAATAAAATCCA 57.518 42.857 25.70 0.00 0.00 3.41
5455 9939 3.704545 TGGGCCCTGAATAAAATCCAT 57.295 42.857 25.70 0.00 0.00 3.41
5456 9940 4.006247 TGGGCCCTGAATAAAATCCATT 57.994 40.909 25.70 0.00 0.00 3.16
5457 9941 3.966665 TGGGCCCTGAATAAAATCCATTC 59.033 43.478 25.70 0.00 33.78 2.67
5458 9942 3.324846 GGGCCCTGAATAAAATCCATTCC 59.675 47.826 17.04 0.00 32.46 3.01
5459 9943 4.226384 GGCCCTGAATAAAATCCATTCCT 58.774 43.478 0.00 0.00 32.46 3.36
5460 9944 4.281941 GGCCCTGAATAAAATCCATTCCTC 59.718 45.833 0.00 0.00 32.46 3.71
5461 9945 4.281941 GCCCTGAATAAAATCCATTCCTCC 59.718 45.833 0.00 0.00 32.46 4.30
5462 9946 4.835056 CCCTGAATAAAATCCATTCCTCCC 59.165 45.833 0.00 0.00 32.46 4.30
5463 9947 5.457686 CCTGAATAAAATCCATTCCTCCCA 58.542 41.667 0.00 0.00 32.46 4.37
5464 9948 5.898972 CCTGAATAAAATCCATTCCTCCCAA 59.101 40.000 0.00 0.00 32.46 4.12
5465 9949 6.041296 CCTGAATAAAATCCATTCCTCCCAAG 59.959 42.308 0.00 0.00 32.46 3.61
5466 9950 5.898972 TGAATAAAATCCATTCCTCCCAAGG 59.101 40.000 0.00 0.00 44.89 3.61
5467 9951 2.165357 AAATCCATTCCTCCCAAGGC 57.835 50.000 0.00 0.00 43.02 4.35
5468 9952 0.262876 AATCCATTCCTCCCAAGGCC 59.737 55.000 0.00 0.00 43.02 5.19
5469 9953 1.659035 ATCCATTCCTCCCAAGGCCC 61.659 60.000 0.00 0.00 43.02 5.80
5470 9954 2.625460 CCATTCCTCCCAAGGCCCA 61.625 63.158 0.00 0.00 43.02 5.36
5471 9955 1.387737 CATTCCTCCCAAGGCCCAA 59.612 57.895 0.00 0.00 43.02 4.12
5472 9956 0.252193 CATTCCTCCCAAGGCCCAAA 60.252 55.000 0.00 0.00 43.02 3.28
5473 9957 0.491371 ATTCCTCCCAAGGCCCAAAA 59.509 50.000 0.00 0.00 43.02 2.44
5474 9958 0.471022 TTCCTCCCAAGGCCCAAAAC 60.471 55.000 0.00 0.00 43.02 2.43
5475 9959 1.152355 CCTCCCAAGGCCCAAAACA 60.152 57.895 0.00 0.00 35.37 2.83
5476 9960 1.187567 CCTCCCAAGGCCCAAAACAG 61.188 60.000 0.00 0.00 35.37 3.16
5477 9961 0.178964 CTCCCAAGGCCCAAAACAGA 60.179 55.000 0.00 0.00 0.00 3.41
5478 9962 0.469144 TCCCAAGGCCCAAAACAGAC 60.469 55.000 0.00 0.00 0.00 3.51
5479 9963 0.758685 CCCAAGGCCCAAAACAGACA 60.759 55.000 0.00 0.00 0.00 3.41
5480 9964 0.389025 CCAAGGCCCAAAACAGACAC 59.611 55.000 0.00 0.00 0.00 3.67
5481 9965 0.030638 CAAGGCCCAAAACAGACACG 59.969 55.000 0.00 0.00 0.00 4.49
5482 9966 0.106918 AAGGCCCAAAACAGACACGA 60.107 50.000 0.00 0.00 0.00 4.35
5483 9967 0.535102 AGGCCCAAAACAGACACGAG 60.535 55.000 0.00 0.00 0.00 4.18
5484 9968 0.534203 GGCCCAAAACAGACACGAGA 60.534 55.000 0.00 0.00 0.00 4.04
5485 9969 1.523758 GCCCAAAACAGACACGAGAT 58.476 50.000 0.00 0.00 0.00 2.75
5486 9970 2.614481 GGCCCAAAACAGACACGAGATA 60.614 50.000 0.00 0.00 0.00 1.98
5487 9971 2.673368 GCCCAAAACAGACACGAGATAG 59.327 50.000 0.00 0.00 0.00 2.08
5488 9972 3.864921 GCCCAAAACAGACACGAGATAGT 60.865 47.826 0.00 0.00 0.00 2.12
5489 9973 4.315803 CCCAAAACAGACACGAGATAGTT 58.684 43.478 0.00 0.00 0.00 2.24
5490 9974 4.755123 CCCAAAACAGACACGAGATAGTTT 59.245 41.667 0.00 0.00 0.00 2.66
5491 9975 5.238650 CCCAAAACAGACACGAGATAGTTTT 59.761 40.000 0.00 0.00 39.07 2.43
5492 9976 6.238648 CCCAAAACAGACACGAGATAGTTTTT 60.239 38.462 0.00 0.00 37.15 1.94
5493 9977 7.041644 CCCAAAACAGACACGAGATAGTTTTTA 60.042 37.037 0.00 0.00 37.15 1.52
5494 9978 7.797123 CCAAAACAGACACGAGATAGTTTTTAC 59.203 37.037 0.00 0.00 37.15 2.01
5495 9979 8.548721 CAAAACAGACACGAGATAGTTTTTACT 58.451 33.333 0.00 0.00 37.15 2.24
5496 9980 8.658499 AAACAGACACGAGATAGTTTTTACTT 57.342 30.769 0.00 0.00 0.00 2.24
5497 9981 8.658499 AACAGACACGAGATAGTTTTTACTTT 57.342 30.769 0.00 0.00 0.00 2.66
5498 9982 9.754382 AACAGACACGAGATAGTTTTTACTTTA 57.246 29.630 0.00 0.00 0.00 1.85
5499 9983 9.408069 ACAGACACGAGATAGTTTTTACTTTAG 57.592 33.333 0.00 0.00 0.00 1.85
5500 9984 8.861101 CAGACACGAGATAGTTTTTACTTTAGG 58.139 37.037 0.00 0.00 0.00 2.69
5501 9985 8.033626 AGACACGAGATAGTTTTTACTTTAGGG 58.966 37.037 0.00 0.00 0.00 3.53
5502 9986 7.101700 ACACGAGATAGTTTTTACTTTAGGGG 58.898 38.462 0.00 0.00 0.00 4.79
5503 9987 7.038799 ACACGAGATAGTTTTTACTTTAGGGGA 60.039 37.037 0.00 0.00 0.00 4.81
5504 9988 7.820872 CACGAGATAGTTTTTACTTTAGGGGAA 59.179 37.037 0.00 0.00 0.00 3.97
5505 9989 8.377799 ACGAGATAGTTTTTACTTTAGGGGAAA 58.622 33.333 0.00 0.00 0.00 3.13
5506 9990 9.223099 CGAGATAGTTTTTACTTTAGGGGAAAA 57.777 33.333 0.00 0.00 0.00 2.29
5535 10019 8.475639 TGTTCTAAGATATAGTTTGACCAGACC 58.524 37.037 0.00 0.00 0.00 3.85
5536 10020 8.475639 GTTCTAAGATATAGTTTGACCAGACCA 58.524 37.037 0.00 0.00 0.00 4.02
5537 10021 8.603898 TCTAAGATATAGTTTGACCAGACCAA 57.396 34.615 0.00 0.00 0.00 3.67
5538 10022 9.042450 TCTAAGATATAGTTTGACCAGACCAAA 57.958 33.333 0.00 0.00 0.00 3.28
5539 10023 9.667107 CTAAGATATAGTTTGACCAGACCAAAA 57.333 33.333 0.00 0.00 35.57 2.44
5540 10024 8.934023 AAGATATAGTTTGACCAGACCAAAAA 57.066 30.769 0.00 0.00 35.57 1.94
5541 10025 8.567285 AGATATAGTTTGACCAGACCAAAAAG 57.433 34.615 0.00 0.00 35.57 2.27
5542 10026 8.383175 AGATATAGTTTGACCAGACCAAAAAGA 58.617 33.333 0.00 0.00 35.57 2.52
5543 10027 9.178758 GATATAGTTTGACCAGACCAAAAAGAT 57.821 33.333 0.00 0.00 35.57 2.40
5545 10029 6.635030 AGTTTGACCAGACCAAAAAGATAC 57.365 37.500 0.00 0.00 35.57 2.24
5546 10030 6.126409 AGTTTGACCAGACCAAAAAGATACA 58.874 36.000 0.00 0.00 35.57 2.29
5547 10031 6.263168 AGTTTGACCAGACCAAAAAGATACAG 59.737 38.462 0.00 0.00 35.57 2.74
5548 10032 5.304686 TGACCAGACCAAAAAGATACAGT 57.695 39.130 0.00 0.00 0.00 3.55
5549 10033 6.428083 TGACCAGACCAAAAAGATACAGTA 57.572 37.500 0.00 0.00 0.00 2.74
5550 10034 6.833041 TGACCAGACCAAAAAGATACAGTAA 58.167 36.000 0.00 0.00 0.00 2.24
5551 10035 7.458397 TGACCAGACCAAAAAGATACAGTAAT 58.542 34.615 0.00 0.00 0.00 1.89
5552 10036 7.942341 TGACCAGACCAAAAAGATACAGTAATT 59.058 33.333 0.00 0.00 0.00 1.40
5553 10037 8.110860 ACCAGACCAAAAAGATACAGTAATTG 57.889 34.615 0.00 0.00 0.00 2.32
5554 10038 7.029563 CCAGACCAAAAAGATACAGTAATTGC 58.970 38.462 0.00 0.00 0.00 3.56
5555 10039 7.094205 CCAGACCAAAAAGATACAGTAATTGCT 60.094 37.037 0.00 0.00 0.00 3.91
5556 10040 8.299570 CAGACCAAAAAGATACAGTAATTGCTT 58.700 33.333 0.00 0.00 0.00 3.91
5557 10041 9.515226 AGACCAAAAAGATACAGTAATTGCTTA 57.485 29.630 0.00 0.00 0.00 3.09
5594 10078 8.524870 AAAAATTGAAATTTGGATCGACTCAG 57.475 30.769 0.00 0.00 38.53 3.35
5595 10079 7.452880 AAATTGAAATTTGGATCGACTCAGA 57.547 32.000 0.00 0.00 37.24 3.27
5596 10080 7.636150 AATTGAAATTTGGATCGACTCAGAT 57.364 32.000 0.00 0.00 0.00 2.90
5597 10081 6.668541 TTGAAATTTGGATCGACTCAGATC 57.331 37.500 0.00 0.00 44.62 2.75
5598 10082 5.982356 TGAAATTTGGATCGACTCAGATCT 58.018 37.500 0.00 0.00 44.71 2.75
5599 10083 6.045318 TGAAATTTGGATCGACTCAGATCTC 58.955 40.000 0.00 0.00 44.71 2.75
5600 10084 5.867903 AATTTGGATCGACTCAGATCTCT 57.132 39.130 0.00 0.00 44.71 3.10
5601 10085 5.867903 ATTTGGATCGACTCAGATCTCTT 57.132 39.130 0.00 0.00 44.71 2.85
5602 10086 6.968263 ATTTGGATCGACTCAGATCTCTTA 57.032 37.500 0.00 0.00 44.71 2.10
5603 10087 6.775594 TTTGGATCGACTCAGATCTCTTAA 57.224 37.500 0.00 0.00 44.71 1.85
5604 10088 6.384258 TTGGATCGACTCAGATCTCTTAAG 57.616 41.667 0.00 0.00 44.71 1.85
5605 10089 4.824537 TGGATCGACTCAGATCTCTTAAGG 59.175 45.833 1.85 0.00 44.71 2.69
5606 10090 5.067273 GGATCGACTCAGATCTCTTAAGGA 58.933 45.833 1.85 0.00 44.71 3.36
5607 10091 5.533154 GGATCGACTCAGATCTCTTAAGGAA 59.467 44.000 1.85 0.00 44.71 3.36
5608 10092 5.821516 TCGACTCAGATCTCTTAAGGAAC 57.178 43.478 1.85 0.00 0.00 3.62
5609 10093 5.254115 TCGACTCAGATCTCTTAAGGAACA 58.746 41.667 1.85 0.00 0.00 3.18
5610 10094 5.124138 TCGACTCAGATCTCTTAAGGAACAC 59.876 44.000 1.85 0.00 0.00 3.32
5611 10095 5.106118 CGACTCAGATCTCTTAAGGAACACA 60.106 44.000 1.85 0.00 0.00 3.72
5612 10096 6.570571 CGACTCAGATCTCTTAAGGAACACAA 60.571 42.308 1.85 0.00 0.00 3.33
5613 10097 6.459923 ACTCAGATCTCTTAAGGAACACAAC 58.540 40.000 1.85 0.00 0.00 3.32
5614 10098 6.268847 ACTCAGATCTCTTAAGGAACACAACT 59.731 38.462 1.85 0.00 0.00 3.16
5615 10099 7.451877 ACTCAGATCTCTTAAGGAACACAACTA 59.548 37.037 1.85 0.00 0.00 2.24
5616 10100 8.190326 TCAGATCTCTTAAGGAACACAACTAA 57.810 34.615 1.85 0.00 0.00 2.24
5617 10101 8.088981 TCAGATCTCTTAAGGAACACAACTAAC 58.911 37.037 1.85 0.00 0.00 2.34
5618 10102 7.872993 CAGATCTCTTAAGGAACACAACTAACA 59.127 37.037 1.85 0.00 0.00 2.41
5619 10103 7.873505 AGATCTCTTAAGGAACACAACTAACAC 59.126 37.037 1.85 0.00 0.00 3.32
5620 10104 7.120923 TCTCTTAAGGAACACAACTAACACT 57.879 36.000 1.85 0.00 0.00 3.55
5621 10105 7.562135 TCTCTTAAGGAACACAACTAACACTT 58.438 34.615 1.85 0.00 0.00 3.16
5622 10106 8.044908 TCTCTTAAGGAACACAACTAACACTTT 58.955 33.333 1.85 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 5.390613 CCGTTGCTAGTTAATTTCAACAGG 58.609 41.667 12.66 10.98 37.47 4.00
73 74 5.049828 ACCAACAATTAACAAGCTTCAAGC 58.950 37.500 0.00 0.00 42.84 4.01
74 75 6.272318 TCACCAACAATTAACAAGCTTCAAG 58.728 36.000 0.00 0.00 0.00 3.02
75 76 6.214191 TCACCAACAATTAACAAGCTTCAA 57.786 33.333 0.00 0.00 0.00 2.69
76 77 5.843673 TCACCAACAATTAACAAGCTTCA 57.156 34.783 0.00 0.00 0.00 3.02
182 2554 6.874134 ACACGGCTCCTATATTATTGCTAAAG 59.126 38.462 0.00 0.00 0.00 1.85
202 2574 9.973246 GATGATATATTTATTTACAGCACACGG 57.027 33.333 0.00 0.00 0.00 4.94
252 2625 9.738832 TGTTTTGAGTTTTGTTTATTAGGTAGC 57.261 29.630 0.00 0.00 0.00 3.58
331 2704 7.389053 GCCAATAGACTAGCTACTATGCATTTT 59.611 37.037 3.54 0.00 34.99 1.82
499 3065 0.537143 TCGCAAAATGAGCCACCTGT 60.537 50.000 0.00 0.00 0.00 4.00
552 3120 3.253432 TGACTCATCAGATAAGCGCGTAT 59.747 43.478 15.89 15.89 0.00 3.06
897 3486 4.008074 AGGATATGTTTGTCTATGCCGG 57.992 45.455 0.00 0.00 0.00 6.13
921 3511 3.004734 AGGCTCAACAATAAACTGCACAC 59.995 43.478 0.00 0.00 0.00 3.82
926 3516 5.470098 ACACACTAGGCTCAACAATAAACTG 59.530 40.000 0.00 0.00 0.00 3.16
975 3571 2.626255 TATCTGCTCTCTCGCCCCGT 62.626 60.000 0.00 0.00 0.00 5.28
1624 4273 7.106239 CAGACTAATTAACCACTCAATCCAGT 58.894 38.462 0.00 0.00 0.00 4.00
1675 4324 6.265196 TGTCTCTGTCTTTATGGTTTGCATTT 59.735 34.615 0.00 0.00 0.00 2.32
1774 4425 6.072728 TGTTGTATGTTCCAAGTTAGCACATC 60.073 38.462 0.00 0.00 30.70 3.06
2023 4682 3.758755 AGCAAGAGACACATCACAGAA 57.241 42.857 0.00 0.00 0.00 3.02
2116 4775 0.323178 CCATGTTTGCTCTGCCCTCT 60.323 55.000 0.00 0.00 0.00 3.69
2474 5133 2.071778 TGCTGTTTTTCTTCTGCCCT 57.928 45.000 0.00 0.00 0.00 5.19
2617 5309 1.735973 CACCGCGATGATCTCCTCA 59.264 57.895 8.23 0.00 38.53 3.86
2842 5534 3.633065 GCTGGAGTCGGTAGTATTCTTCT 59.367 47.826 0.00 0.00 0.00 2.85
2853 5545 0.467474 TCGATATGGCTGGAGTCGGT 60.467 55.000 0.00 0.00 33.46 4.69
3022 5726 6.580788 TGACTCTGAATCTGATTCTGATTCC 58.419 40.000 31.25 24.13 43.40 3.01
3256 5963 3.054139 TCTCTACTACCTTAGCGGACCAA 60.054 47.826 0.00 0.00 36.31 3.67
3263 5970 6.571537 GCCAATGATCTCTCTACTACCTTAGC 60.572 46.154 0.00 0.00 0.00 3.09
3308 6015 2.985809 CAGTTTCTCTCTTCGCAGTCAG 59.014 50.000 0.00 0.00 0.00 3.51
3503 6214 9.042008 GCTATCAACATTAACGAAGATTCCTAA 57.958 33.333 0.00 0.00 0.00 2.69
3804 6540 8.477256 AGAAAGAGAGAAATAACAGAGATGAGG 58.523 37.037 0.00 0.00 0.00 3.86
3823 6559 6.734104 ATGTCGAGGAATGAAAAGAAAGAG 57.266 37.500 0.00 0.00 0.00 2.85
3983 6773 1.151668 CCTGCAGCAGTAGTGACAAC 58.848 55.000 21.26 0.00 0.00 3.32
4096 6886 5.529791 TCTTCTTCTTAACGTTGTCCTCAG 58.470 41.667 11.99 0.00 0.00 3.35
4237 7033 2.944129 CTCGATCTCTTCCTTCTCCCT 58.056 52.381 0.00 0.00 0.00 4.20
4414 7210 1.066573 TCTCCAGAACAGCTAGCTTGC 60.067 52.381 16.46 12.54 0.00 4.01
4520 7354 0.887933 TCTCTGCAGTGTCACGCATA 59.112 50.000 14.67 12.62 37.54 3.14
4535 8730 0.631753 TGAGGGAATCGAGGGTCTCT 59.368 55.000 0.00 0.00 0.00 3.10
4606 8801 3.071580 GGCTAGCTAGTTGCCACTG 57.928 57.895 21.62 0.00 45.46 3.66
4614 8809 1.909302 TGCAAAAGAGGGCTAGCTAGT 59.091 47.619 21.62 2.09 0.00 2.57
4644 8844 7.122501 TCTGAAGCAAATCTGTTGCCAATAATA 59.877 33.333 7.41 0.00 45.98 0.98
4742 8945 6.265422 ACCACCTGAAAATCAAAGTAAGGAAG 59.735 38.462 0.00 0.00 0.00 3.46
4766 8993 6.806739 GCATACTTTTGGACAGTAATTTCCAC 59.193 38.462 0.00 0.00 41.79 4.02
4778 9005 2.550606 TCCAACACGCATACTTTTGGAC 59.449 45.455 0.00 0.00 40.63 4.02
4781 9008 8.181573 AGTAAATATCCAACACGCATACTTTTG 58.818 33.333 0.00 0.00 0.00 2.44
4790 9017 5.106475 TGGAACAAGTAAATATCCAACACGC 60.106 40.000 0.00 0.00 37.24 5.34
4791 9018 6.489127 TGGAACAAGTAAATATCCAACACG 57.511 37.500 0.00 0.00 37.24 4.49
4815 9042 1.331214 CTCCTGCACAACCCAAACAT 58.669 50.000 0.00 0.00 0.00 2.71
4816 9043 0.033601 ACTCCTGCACAACCCAAACA 60.034 50.000 0.00 0.00 0.00 2.83
4818 9045 1.110442 CAACTCCTGCACAACCCAAA 58.890 50.000 0.00 0.00 0.00 3.28
4819 9046 2.805897 CAACTCCTGCACAACCCAA 58.194 52.632 0.00 0.00 0.00 4.12
4820 9047 4.577152 CAACTCCTGCACAACCCA 57.423 55.556 0.00 0.00 0.00 4.51
4870 9103 0.034186 CAGCCCCTGCCTTGTGATTA 60.034 55.000 0.00 0.00 38.69 1.75
4873 9106 2.853542 TCAGCCCCTGCCTTGTGA 60.854 61.111 0.00 0.00 38.69 3.58
4901 9134 9.567776 TTCACCTGTGTTTATTCTCAAAGATAA 57.432 29.630 0.00 0.00 0.00 1.75
4905 9138 7.134815 CACTTCACCTGTGTTTATTCTCAAAG 58.865 38.462 0.00 0.00 0.00 2.77
4910 9143 4.398319 CCCACTTCACCTGTGTTTATTCT 58.602 43.478 0.00 0.00 33.92 2.40
4919 9152 1.444933 TCAATCCCCACTTCACCTGT 58.555 50.000 0.00 0.00 0.00 4.00
4920 9153 2.162681 GTTCAATCCCCACTTCACCTG 58.837 52.381 0.00 0.00 0.00 4.00
4921 9154 1.780309 TGTTCAATCCCCACTTCACCT 59.220 47.619 0.00 0.00 0.00 4.00
4923 9156 4.871933 ATTTGTTCAATCCCCACTTCAC 57.128 40.909 0.00 0.00 0.00 3.18
4924 9157 5.885449 AAATTTGTTCAATCCCCACTTCA 57.115 34.783 0.00 0.00 0.00 3.02
4925 9158 7.095229 GCTAAAAATTTGTTCAATCCCCACTTC 60.095 37.037 0.00 0.00 0.00 3.01
4926 9159 6.710295 GCTAAAAATTTGTTCAATCCCCACTT 59.290 34.615 0.00 0.00 0.00 3.16
4927 9160 6.183361 TGCTAAAAATTTGTTCAATCCCCACT 60.183 34.615 0.00 0.00 0.00 4.00
4928 9161 5.994668 TGCTAAAAATTTGTTCAATCCCCAC 59.005 36.000 0.00 0.00 0.00 4.61
4929 9162 6.179906 TGCTAAAAATTTGTTCAATCCCCA 57.820 33.333 0.00 0.00 0.00 4.96
4930 9163 6.230472 ACTGCTAAAAATTTGTTCAATCCCC 58.770 36.000 0.00 0.00 0.00 4.81
4931 9164 8.088365 AGTACTGCTAAAAATTTGTTCAATCCC 58.912 33.333 0.00 0.00 0.00 3.85
4939 9172 9.757227 TGCAAATTAGTACTGCTAAAAATTTGT 57.243 25.926 25.57 0.00 42.35 2.83
4943 9176 9.423061 CCTTTGCAAATTAGTACTGCTAAAAAT 57.577 29.630 13.23 0.00 42.35 1.82
4944 9177 7.383843 GCCTTTGCAAATTAGTACTGCTAAAAA 59.616 33.333 13.23 0.00 39.09 1.94
4948 9181 5.007034 TGCCTTTGCAAATTAGTACTGCTA 58.993 37.500 13.23 0.00 46.66 3.49
4985 9340 4.015764 TGGCACTTATAAGCTGCATTTGA 58.984 39.130 26.73 12.28 35.89 2.69
5004 9359 7.116233 CACTTCACCTGTGTTAATTTAAATGGC 59.884 37.037 0.39 0.00 0.00 4.40
5009 9364 5.536916 CCCCACTTCACCTGTGTTAATTTAA 59.463 40.000 0.00 0.00 33.92 1.52
5019 9374 1.444933 TCAATCCCCACTTCACCTGT 58.555 50.000 0.00 0.00 0.00 4.00
5028 9394 5.017294 TGAAAACTTTGTTCAATCCCCAC 57.983 39.130 0.00 0.00 32.13 4.61
5048 9414 9.278978 GAGTTCACTCAGATACTACTGATATGA 57.721 37.037 1.86 0.00 44.32 2.15
5059 9425 5.305585 TGGTTTTGGAGTTCACTCAGATAC 58.694 41.667 9.18 2.61 44.60 2.24
5060 9426 5.560722 TGGTTTTGGAGTTCACTCAGATA 57.439 39.130 9.18 0.00 44.60 1.98
5061 9427 4.437682 TGGTTTTGGAGTTCACTCAGAT 57.562 40.909 9.18 0.00 44.60 2.90
5062 9428 3.924114 TGGTTTTGGAGTTCACTCAGA 57.076 42.857 9.18 0.00 44.60 3.27
5063 9429 4.823989 AGAATGGTTTTGGAGTTCACTCAG 59.176 41.667 9.18 0.00 44.60 3.35
5064 9430 4.792068 AGAATGGTTTTGGAGTTCACTCA 58.208 39.130 9.18 0.00 44.60 3.41
5074 9440 6.149474 ACGAGATGAAGTTAGAATGGTTTTGG 59.851 38.462 0.00 0.00 0.00 3.28
5082 9448 6.432607 TCGTACACGAGATGAAGTTAGAAT 57.567 37.500 0.00 0.00 44.22 2.40
5084 9450 7.521099 AACTTTCGTACACGAGATGAAGTTAGA 60.521 37.037 21.59 0.00 45.67 2.10
5103 9469 6.746104 TCATTGCACACAAATTAACTTTCG 57.254 33.333 0.00 0.00 39.77 3.46
5122 9488 4.140853 AGGCATGGGTGGAATAGAATCATT 60.141 41.667 0.00 0.00 0.00 2.57
5123 9489 3.400322 AGGCATGGGTGGAATAGAATCAT 59.600 43.478 0.00 0.00 0.00 2.45
5138 9504 6.422344 AGCATATATGAGATAGAGGCATGG 57.578 41.667 17.10 0.00 36.34 3.66
5150 9516 9.836076 CCATGTGTTTATTGAAGCATATATGAG 57.164 33.333 17.10 0.00 28.73 2.90
5158 9524 3.894427 ACCACCATGTGTTTATTGAAGCA 59.106 39.130 0.00 0.00 0.00 3.91
5159 9525 4.519540 ACCACCATGTGTTTATTGAAGC 57.480 40.909 0.00 0.00 0.00 3.86
5160 9526 8.055279 AGAATACCACCATGTGTTTATTGAAG 57.945 34.615 0.00 0.00 0.00 3.02
5175 9658 7.556275 TGTTCTGGATGAATTTAGAATACCACC 59.444 37.037 0.00 0.00 36.99 4.61
5176 9659 8.506168 TGTTCTGGATGAATTTAGAATACCAC 57.494 34.615 0.00 0.00 36.99 4.16
5195 9678 2.501723 AGTACCTGCATACCCTGTTCTG 59.498 50.000 0.00 0.00 0.00 3.02
5211 9694 6.226787 AGCATAGATAGATTTGCACAGTACC 58.773 40.000 0.00 0.00 37.56 3.34
5241 9724 3.570212 AGACCCTGCCCGCACTTT 61.570 61.111 0.00 0.00 0.00 2.66
5263 9746 2.504519 GCCTCCCCGACGCTTATT 59.495 61.111 0.00 0.00 0.00 1.40
5374 9858 1.139095 CGTTCCCAGTCTAGGTCGC 59.861 63.158 0.00 0.00 0.00 5.19
5411 9895 3.087781 GGCTCTGCCTCTGAAATTTCTT 58.912 45.455 18.64 0.00 46.69 2.52
5431 9915 3.134623 GGATTTTATTCAGGGCCCAAAGG 59.865 47.826 27.56 10.71 0.00 3.11
5432 9916 3.774216 TGGATTTTATTCAGGGCCCAAAG 59.226 43.478 27.56 13.99 0.00 2.77
5433 9917 3.796111 TGGATTTTATTCAGGGCCCAAA 58.204 40.909 27.56 18.68 0.00 3.28
5434 9918 3.481559 TGGATTTTATTCAGGGCCCAA 57.518 42.857 27.56 11.47 0.00 4.12
5435 9919 3.704545 ATGGATTTTATTCAGGGCCCA 57.295 42.857 27.56 2.74 0.00 5.36
5436 9920 3.324846 GGAATGGATTTTATTCAGGGCCC 59.675 47.826 16.46 16.46 36.50 5.80
5437 9921 4.226384 AGGAATGGATTTTATTCAGGGCC 58.774 43.478 0.00 0.00 36.50 5.80
5438 9922 4.281941 GGAGGAATGGATTTTATTCAGGGC 59.718 45.833 0.00 0.00 36.50 5.19
5439 9923 4.835056 GGGAGGAATGGATTTTATTCAGGG 59.165 45.833 0.00 0.00 36.50 4.45
5440 9924 5.457686 TGGGAGGAATGGATTTTATTCAGG 58.542 41.667 0.00 0.00 36.50 3.86
5441 9925 6.041296 CCTTGGGAGGAATGGATTTTATTCAG 59.959 42.308 0.00 0.00 46.74 3.02
5442 9926 5.898972 CCTTGGGAGGAATGGATTTTATTCA 59.101 40.000 0.00 0.00 46.74 2.57
5443 9927 5.221521 GCCTTGGGAGGAATGGATTTTATTC 60.222 44.000 0.00 0.00 46.74 1.75
5444 9928 4.655649 GCCTTGGGAGGAATGGATTTTATT 59.344 41.667 0.00 0.00 46.74 1.40
5445 9929 4.226384 GCCTTGGGAGGAATGGATTTTAT 58.774 43.478 0.00 0.00 46.74 1.40
5446 9930 3.629796 GGCCTTGGGAGGAATGGATTTTA 60.630 47.826 0.00 0.00 46.74 1.52
5447 9931 2.470990 GCCTTGGGAGGAATGGATTTT 58.529 47.619 0.00 0.00 46.74 1.82
5448 9932 1.343377 GGCCTTGGGAGGAATGGATTT 60.343 52.381 0.00 0.00 46.74 2.17
5449 9933 0.262876 GGCCTTGGGAGGAATGGATT 59.737 55.000 0.00 0.00 46.74 3.01
5450 9934 1.659035 GGGCCTTGGGAGGAATGGAT 61.659 60.000 0.84 0.00 46.74 3.41
5451 9935 2.316586 GGGCCTTGGGAGGAATGGA 61.317 63.158 0.84 0.00 46.74 3.41
5452 9936 2.166957 TTGGGCCTTGGGAGGAATGG 62.167 60.000 4.53 0.00 46.74 3.16
5453 9937 0.252193 TTTGGGCCTTGGGAGGAATG 60.252 55.000 4.53 0.00 46.74 2.67
5454 9938 0.491371 TTTTGGGCCTTGGGAGGAAT 59.509 50.000 4.53 0.00 46.74 3.01
5455 9939 0.471022 GTTTTGGGCCTTGGGAGGAA 60.471 55.000 4.53 0.00 46.74 3.36
5456 9940 1.155155 GTTTTGGGCCTTGGGAGGA 59.845 57.895 4.53 0.00 46.74 3.71
5457 9941 1.152355 TGTTTTGGGCCTTGGGAGG 60.152 57.895 4.53 0.00 46.50 4.30
5458 9942 0.178964 TCTGTTTTGGGCCTTGGGAG 60.179 55.000 4.53 0.00 0.00 4.30
5459 9943 0.469144 GTCTGTTTTGGGCCTTGGGA 60.469 55.000 4.53 0.00 0.00 4.37
5460 9944 0.758685 TGTCTGTTTTGGGCCTTGGG 60.759 55.000 4.53 0.00 0.00 4.12
5461 9945 0.389025 GTGTCTGTTTTGGGCCTTGG 59.611 55.000 4.53 0.00 0.00 3.61
5462 9946 0.030638 CGTGTCTGTTTTGGGCCTTG 59.969 55.000 4.53 0.00 0.00 3.61
5463 9947 0.106918 TCGTGTCTGTTTTGGGCCTT 60.107 50.000 4.53 0.00 0.00 4.35
5464 9948 0.535102 CTCGTGTCTGTTTTGGGCCT 60.535 55.000 4.53 0.00 0.00 5.19
5465 9949 0.534203 TCTCGTGTCTGTTTTGGGCC 60.534 55.000 0.00 0.00 0.00 5.80
5466 9950 1.523758 ATCTCGTGTCTGTTTTGGGC 58.476 50.000 0.00 0.00 0.00 5.36
5467 9951 3.926616 ACTATCTCGTGTCTGTTTTGGG 58.073 45.455 0.00 0.00 0.00 4.12
5468 9952 5.924475 AAACTATCTCGTGTCTGTTTTGG 57.076 39.130 0.00 0.00 0.00 3.28
5469 9953 8.548721 AGTAAAAACTATCTCGTGTCTGTTTTG 58.451 33.333 0.00 0.00 37.57 2.44
5470 9954 8.658499 AGTAAAAACTATCTCGTGTCTGTTTT 57.342 30.769 0.00 0.00 38.65 2.43
5471 9955 8.658499 AAGTAAAAACTATCTCGTGTCTGTTT 57.342 30.769 0.00 0.00 0.00 2.83
5472 9956 8.658499 AAAGTAAAAACTATCTCGTGTCTGTT 57.342 30.769 0.00 0.00 0.00 3.16
5473 9957 9.408069 CTAAAGTAAAAACTATCTCGTGTCTGT 57.592 33.333 0.00 0.00 0.00 3.41
5474 9958 8.861101 CCTAAAGTAAAAACTATCTCGTGTCTG 58.139 37.037 0.00 0.00 0.00 3.51
5475 9959 8.033626 CCCTAAAGTAAAAACTATCTCGTGTCT 58.966 37.037 0.00 0.00 0.00 3.41
5476 9960 7.277319 CCCCTAAAGTAAAAACTATCTCGTGTC 59.723 40.741 0.00 0.00 0.00 3.67
5477 9961 7.038799 TCCCCTAAAGTAAAAACTATCTCGTGT 60.039 37.037 0.00 0.00 0.00 4.49
5478 9962 7.325694 TCCCCTAAAGTAAAAACTATCTCGTG 58.674 38.462 0.00 0.00 0.00 4.35
5479 9963 7.486407 TCCCCTAAAGTAAAAACTATCTCGT 57.514 36.000 0.00 0.00 0.00 4.18
5480 9964 8.782339 TTTCCCCTAAAGTAAAAACTATCTCG 57.218 34.615 0.00 0.00 0.00 4.04
5509 9993 8.475639 GGTCTGGTCAAACTATATCTTAGAACA 58.524 37.037 0.00 0.00 0.00 3.18
5510 9994 8.475639 TGGTCTGGTCAAACTATATCTTAGAAC 58.524 37.037 0.00 0.00 0.00 3.01
5511 9995 8.603898 TGGTCTGGTCAAACTATATCTTAGAA 57.396 34.615 0.00 0.00 0.00 2.10
5512 9996 8.603898 TTGGTCTGGTCAAACTATATCTTAGA 57.396 34.615 0.00 0.00 0.00 2.10
5513 9997 9.667107 TTTTGGTCTGGTCAAACTATATCTTAG 57.333 33.333 0.00 0.00 34.34 2.18
5515 9999 8.934023 TTTTTGGTCTGGTCAAACTATATCTT 57.066 30.769 0.00 0.00 34.34 2.40
5516 10000 8.383175 TCTTTTTGGTCTGGTCAAACTATATCT 58.617 33.333 0.00 0.00 34.34 1.98
5517 10001 8.561738 TCTTTTTGGTCTGGTCAAACTATATC 57.438 34.615 0.00 0.00 34.34 1.63
5519 10003 9.444600 GTATCTTTTTGGTCTGGTCAAACTATA 57.555 33.333 0.00 0.00 34.34 1.31
5520 10004 7.942341 TGTATCTTTTTGGTCTGGTCAAACTAT 59.058 33.333 0.00 0.00 34.34 2.12
5521 10005 7.284074 TGTATCTTTTTGGTCTGGTCAAACTA 58.716 34.615 0.00 0.00 34.34 2.24
5522 10006 6.126409 TGTATCTTTTTGGTCTGGTCAAACT 58.874 36.000 0.00 0.00 34.34 2.66
5523 10007 6.039382 ACTGTATCTTTTTGGTCTGGTCAAAC 59.961 38.462 0.00 0.00 34.34 2.93
5524 10008 6.126409 ACTGTATCTTTTTGGTCTGGTCAAA 58.874 36.000 0.00 0.00 32.96 2.69
5525 10009 5.690865 ACTGTATCTTTTTGGTCTGGTCAA 58.309 37.500 0.00 0.00 0.00 3.18
5526 10010 5.304686 ACTGTATCTTTTTGGTCTGGTCA 57.695 39.130 0.00 0.00 0.00 4.02
5527 10011 7.923414 ATTACTGTATCTTTTTGGTCTGGTC 57.077 36.000 0.00 0.00 0.00 4.02
5528 10012 7.309194 GCAATTACTGTATCTTTTTGGTCTGGT 60.309 37.037 0.00 0.00 0.00 4.00
5529 10013 7.029563 GCAATTACTGTATCTTTTTGGTCTGG 58.970 38.462 0.00 0.00 0.00 3.86
5530 10014 7.820648 AGCAATTACTGTATCTTTTTGGTCTG 58.179 34.615 0.00 0.00 0.00 3.51
5531 10015 8.409358 AAGCAATTACTGTATCTTTTTGGTCT 57.591 30.769 0.00 0.00 0.00 3.85
5568 10052 9.624697 CTGAGTCGATCCAAATTTCAATTTTTA 57.375 29.630 0.00 0.00 36.52 1.52
5569 10053 8.359642 TCTGAGTCGATCCAAATTTCAATTTTT 58.640 29.630 0.00 0.00 36.52 1.94
5570 10054 7.885297 TCTGAGTCGATCCAAATTTCAATTTT 58.115 30.769 0.00 0.00 36.52 1.82
5571 10055 7.452880 TCTGAGTCGATCCAAATTTCAATTT 57.547 32.000 0.00 0.00 39.07 1.82
5572 10056 7.555554 AGATCTGAGTCGATCCAAATTTCAATT 59.444 33.333 16.35 0.00 40.50 2.32
5573 10057 7.052873 AGATCTGAGTCGATCCAAATTTCAAT 58.947 34.615 16.35 0.00 40.50 2.57
5574 10058 6.409704 AGATCTGAGTCGATCCAAATTTCAA 58.590 36.000 16.35 0.00 40.50 2.69
5575 10059 5.982356 AGATCTGAGTCGATCCAAATTTCA 58.018 37.500 16.35 0.00 40.50 2.69
5576 10060 6.279882 AGAGATCTGAGTCGATCCAAATTTC 58.720 40.000 0.00 9.63 40.50 2.17
5577 10061 6.232581 AGAGATCTGAGTCGATCCAAATTT 57.767 37.500 0.00 0.00 40.50 1.82
5578 10062 5.867903 AGAGATCTGAGTCGATCCAAATT 57.132 39.130 0.00 3.65 40.50 1.82
5579 10063 5.867903 AAGAGATCTGAGTCGATCCAAAT 57.132 39.130 0.00 3.92 40.50 2.32
5580 10064 6.183360 CCTTAAGAGATCTGAGTCGATCCAAA 60.183 42.308 0.00 8.64 40.50 3.28
5581 10065 5.300539 CCTTAAGAGATCTGAGTCGATCCAA 59.699 44.000 0.00 8.65 40.50 3.53
5582 10066 4.824537 CCTTAAGAGATCTGAGTCGATCCA 59.175 45.833 0.00 0.00 40.50 3.41
5583 10067 5.067273 TCCTTAAGAGATCTGAGTCGATCC 58.933 45.833 0.00 10.76 40.50 3.36
5584 10068 6.038825 TGTTCCTTAAGAGATCTGAGTCGATC 59.961 42.308 0.00 13.68 40.04 3.69
5585 10069 5.888724 TGTTCCTTAAGAGATCTGAGTCGAT 59.111 40.000 0.00 0.00 0.00 3.59
5586 10070 5.124138 GTGTTCCTTAAGAGATCTGAGTCGA 59.876 44.000 0.00 0.00 0.00 4.20
5587 10071 5.106118 TGTGTTCCTTAAGAGATCTGAGTCG 60.106 44.000 0.00 0.00 0.00 4.18
5588 10072 6.274157 TGTGTTCCTTAAGAGATCTGAGTC 57.726 41.667 0.00 0.00 0.00 3.36
5589 10073 6.268847 AGTTGTGTTCCTTAAGAGATCTGAGT 59.731 38.462 0.00 0.00 0.00 3.41
5590 10074 6.696411 AGTTGTGTTCCTTAAGAGATCTGAG 58.304 40.000 0.00 0.00 0.00 3.35
5591 10075 6.672266 AGTTGTGTTCCTTAAGAGATCTGA 57.328 37.500 0.00 0.00 0.00 3.27
5592 10076 7.872993 TGTTAGTTGTGTTCCTTAAGAGATCTG 59.127 37.037 0.00 0.00 0.00 2.90
5593 10077 7.873505 GTGTTAGTTGTGTTCCTTAAGAGATCT 59.126 37.037 3.36 0.00 0.00 2.75
5594 10078 7.873505 AGTGTTAGTTGTGTTCCTTAAGAGATC 59.126 37.037 3.36 0.20 0.00 2.75
5595 10079 7.736893 AGTGTTAGTTGTGTTCCTTAAGAGAT 58.263 34.615 3.36 0.00 0.00 2.75
5596 10080 7.120923 AGTGTTAGTTGTGTTCCTTAAGAGA 57.879 36.000 3.36 0.00 0.00 3.10
5597 10081 7.787725 AAGTGTTAGTTGTGTTCCTTAAGAG 57.212 36.000 3.36 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.