Multiple sequence alignment - TraesCS6A01G054200

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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 TraesCS6A01G054200 chr6A 100.000 3377 0 0 1 3377 28285385 28282009 0.000000e+00 6237.0
1 TraesCS6A01G054200 chr6A 86.272 845 75 12 2122 2947 28251958 28251136 0.000000e+00 880.0
2 TraesCS6A01G054200 chr6A 86.913 703 62 10 2252 2947 28239505 28238826 0.000000e+00 761.0
3 TraesCS6A01G054200 chr6A 79.108 852 146 22 978 1812 28255649 28254813 2.940000e-155 558.0
4 TraesCS6A01G054200 chr6A 88.717 452 34 12 108 546 28317745 28317298 1.380000e-148 536.0
5 TraesCS6A01G054200 chr6A 85.120 457 31 13 2940 3377 28250978 28250540 1.860000e-117 433.0
6 TraesCS6A01G054200 chr6A 85.203 419 28 14 2978 3377 28238640 28238237 1.890000e-107 399.0
7 TraesCS6A01G054200 chr6A 85.484 62 8 1 2037 2097 33307381 33307442 2.810000e-06 63.9
8 TraesCS6A01G054200 chr6D 92.148 2318 103 15 1019 3305 27028215 27025946 0.000000e+00 3199.0
9 TraesCS6A01G054200 chr6D 88.412 1398 122 22 2004 3377 26760009 26758628 0.000000e+00 1648.0
10 TraesCS6A01G054200 chr6D 92.479 944 32 15 108 1026 27031346 27030417 0.000000e+00 1314.0
11 TraesCS6A01G054200 chr6D 78.584 1116 171 31 555 1638 26761519 26760440 0.000000e+00 675.0
12 TraesCS6A01G054200 chr6D 95.062 81 4 0 38 118 320063420 320063340 9.840000e-26 128.0
13 TraesCS6A01G054200 chr6D 91.011 89 8 0 36 124 421076607 421076695 1.650000e-23 121.0
14 TraesCS6A01G054200 chr6D 91.011 89 8 0 36 124 421137184 421137272 1.650000e-23 121.0
15 TraesCS6A01G054200 chr6D 75.926 216 39 11 208 416 3599783 3599574 7.710000e-17 99.0
16 TraesCS6A01G054200 chr6D 97.917 48 1 0 3330 3377 27025943 27025896 2.160000e-12 84.2
17 TraesCS6A01G054200 chr6D 100.000 33 0 0 4 36 421076464 421076496 1.010000e-05 62.1
18 TraesCS6A01G054200 chr6B 85.930 1393 120 30 2014 3377 48871511 48870166 0.000000e+00 1417.0
19 TraesCS6A01G054200 chr6B 85.920 1392 122 34 2014 3377 48936004 48934659 0.000000e+00 1417.0
20 TraesCS6A01G054200 chr6B 85.684 1397 113 33 2014 3377 48978869 48977527 0.000000e+00 1391.0
21 TraesCS6A01G054200 chr6B 83.480 793 109 9 928 1704 49331267 49330481 0.000000e+00 719.0
22 TraesCS6A01G054200 chr6B 88.754 578 37 14 199 756 49231049 49230480 0.000000e+00 682.0
23 TraesCS6A01G054200 chr6B 79.892 930 143 21 731 1638 48937355 48936448 2.840000e-180 641.0
24 TraesCS6A01G054200 chr6B 77.509 1116 190 29 555 1638 49554695 49555781 6.190000e-172 614.0
25 TraesCS6A01G054200 chr6B 79.973 744 118 16 731 1459 48980399 48979672 1.390000e-143 520.0
26 TraesCS6A01G054200 chr6B 79.839 744 119 16 731 1459 48873041 48872314 6.460000e-142 514.0
27 TraesCS6A01G054200 chr6B 82.759 551 73 11 1272 1804 49328823 49328277 3.940000e-129 472.0
28 TraesCS6A01G054200 chr6B 82.297 209 29 6 678 880 60593833 60594039 1.250000e-39 174.0
29 TraesCS6A01G054200 chr6B 94.253 87 4 1 38 124 398401012 398401097 7.600000e-27 132.0
30 TraesCS6A01G054200 chr6B 83.562 73 12 0 994 1066 75510042 75509970 6.050000e-08 69.4
31 TraesCS6A01G054200 chrUn 86.919 344 23 10 3053 3377 476313209 476312869 1.910000e-97 366.0
32 TraesCS6A01G054200 chrUn 88.889 252 22 1 2702 2947 480911780 480911529 4.230000e-79 305.0
33 TraesCS6A01G054200 chrUn 73.840 237 44 15 3127 3350 26993630 26993399 1.000000e-10 78.7
34 TraesCS6A01G054200 chr5B 95.122 82 4 0 38 119 470712462 470712381 2.730000e-26 130.0
35 TraesCS6A01G054200 chr3A 95.062 81 4 0 38 118 371675932 371675852 9.840000e-26 128.0
36 TraesCS6A01G054200 chr2B 94.048 84 5 0 38 121 378137862 378137945 9.840000e-26 128.0
37 TraesCS6A01G054200 chr2B 80.952 105 14 4 301 400 48805889 48805992 1.000000e-10 78.7
38 TraesCS6A01G054200 chr1D 95.062 81 4 0 38 118 408540413 408540333 9.840000e-26 128.0
39 TraesCS6A01G054200 chr1A 95.000 80 4 0 38 117 9315385 9315306 3.540000e-25 126.0
40 TraesCS6A01G054200 chr1B 78.528 163 30 3 246 404 885762 885601 5.960000e-18 102.0
41 TraesCS6A01G054200 chr7B 75.463 216 41 8 207 418 293158621 293158414 9.980000e-16 95.3
42 TraesCS6A01G054200 chr7A 74.545 220 41 11 207 421 365080353 365080144 7.770000e-12 82.4
43 TraesCS6A01G054200 chr7D 77.465 142 27 3 279 416 176580808 176580668 2.790000e-11 80.5
44 TraesCS6A01G054200 chr4D 76.506 166 26 8 2028 2181 5545112 5544948 1.000000e-10 78.7
45 TraesCS6A01G054200 chr5A 96.970 33 1 0 4 36 25466991 25466959 4.710000e-04 56.5


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 TraesCS6A01G054200 chr6A 28282009 28285385 3376 True 6237.000000 6237 100.000000 1 3377 1 chr6A.!!$R1 3376
1 TraesCS6A01G054200 chr6A 28250540 28255649 5109 True 623.666667 880 83.500000 978 3377 3 chr6A.!!$R4 2399
2 TraesCS6A01G054200 chr6A 28238237 28239505 1268 True 580.000000 761 86.058000 2252 3377 2 chr6A.!!$R3 1125
3 TraesCS6A01G054200 chr6D 27025896 27031346 5450 True 1532.400000 3199 94.181333 108 3377 3 chr6D.!!$R4 3269
4 TraesCS6A01G054200 chr6D 26758628 26761519 2891 True 1161.500000 1648 83.498000 555 3377 2 chr6D.!!$R3 2822
5 TraesCS6A01G054200 chr6B 48934659 48937355 2696 True 1029.000000 1417 82.906000 731 3377 2 chr6B.!!$R4 2646
6 TraesCS6A01G054200 chr6B 48870166 48873041 2875 True 965.500000 1417 82.884500 731 3377 2 chr6B.!!$R3 2646
7 TraesCS6A01G054200 chr6B 48977527 48980399 2872 True 955.500000 1391 82.828500 731 3377 2 chr6B.!!$R5 2646
8 TraesCS6A01G054200 chr6B 49230480 49231049 569 True 682.000000 682 88.754000 199 756 1 chr6B.!!$R1 557
9 TraesCS6A01G054200 chr6B 49554695 49555781 1086 False 614.000000 614 77.509000 555 1638 1 chr6B.!!$F1 1083
10 TraesCS6A01G054200 chr6B 49328277 49331267 2990 True 595.500000 719 83.119500 928 1804 2 chr6B.!!$R6 876

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
21 22 0.107214 TAAAGCGCAGGAAGGGGATG 60.107 55.0 11.47 0.0 0.00 3.51 F
45 46 0.112218 TGACCAGGGGTTGTGATTGG 59.888 55.0 0.00 0.0 35.25 3.16 F
345 349 0.231024 CGTCGACAACAAATGCGTCA 59.769 50.0 17.16 0.0 32.69 4.35 F
1026 1073 0.317103 CGTACTCATCTTCCTCGGCG 60.317 60.0 0.00 0.0 0.00 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1701 6335 0.033405 CCGTGTAGAGGGAGGAAGGA 60.033 60.0 0.0 0.0 0.00 3.36 R
1729 6363 2.205022 TTCTTGACCTCCAATGGCTG 57.795 50.0 0.0 0.0 33.68 4.85 R
2187 9399 5.665812 AGCACTAGGGATAGATAAACCACAA 59.334 40.0 0.0 0.0 0.00 3.33 R
2639 9883 0.112412 AAAGAGATGGCGGTTGGGTT 59.888 50.0 0.0 0.0 0.00 4.11 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
18 19 3.191182 ATTAAAGCGCAGGAAGGGG 57.809 52.632 11.47 0.00 0.00 4.79
19 20 0.623723 ATTAAAGCGCAGGAAGGGGA 59.376 50.000 11.47 0.00 0.00 4.81
20 21 0.623723 TTAAAGCGCAGGAAGGGGAT 59.376 50.000 11.47 0.00 0.00 3.85
21 22 0.107214 TAAAGCGCAGGAAGGGGATG 60.107 55.000 11.47 0.00 0.00 3.51
22 23 2.843912 AAAGCGCAGGAAGGGGATGG 62.844 60.000 11.47 0.00 0.00 3.51
23 24 4.883354 GCGCAGGAAGGGGATGGG 62.883 72.222 0.30 0.00 0.00 4.00
24 25 3.411517 CGCAGGAAGGGGATGGGT 61.412 66.667 0.00 0.00 0.00 4.51
25 26 2.597903 GCAGGAAGGGGATGGGTC 59.402 66.667 0.00 0.00 0.00 4.46
26 27 2.003548 GCAGGAAGGGGATGGGTCT 61.004 63.158 0.00 0.00 0.00 3.85
27 28 1.918253 CAGGAAGGGGATGGGTCTG 59.082 63.158 0.00 0.00 0.00 3.51
28 29 0.621571 CAGGAAGGGGATGGGTCTGA 60.622 60.000 0.00 0.00 0.00 3.27
29 30 0.621862 AGGAAGGGGATGGGTCTGAC 60.622 60.000 0.00 0.00 0.00 3.51
30 31 1.636769 GGAAGGGGATGGGTCTGACC 61.637 65.000 18.65 18.65 37.60 4.02
31 32 0.914417 GAAGGGGATGGGTCTGACCA 60.914 60.000 26.94 14.17 46.24 4.02
32 33 0.916358 AAGGGGATGGGTCTGACCAG 60.916 60.000 26.94 0.00 45.20 4.00
33 34 2.378634 GGGGATGGGTCTGACCAGG 61.379 68.421 26.94 0.00 45.20 4.45
34 35 2.378634 GGGATGGGTCTGACCAGGG 61.379 68.421 26.94 0.00 45.20 4.45
35 36 2.378634 GGATGGGTCTGACCAGGGG 61.379 68.421 26.94 0.00 45.20 4.79
36 37 1.616628 GATGGGTCTGACCAGGGGT 60.617 63.158 26.94 8.53 45.20 4.95
37 38 1.151587 ATGGGTCTGACCAGGGGTT 60.152 57.895 26.94 3.27 45.20 4.11
38 39 1.500783 ATGGGTCTGACCAGGGGTTG 61.501 60.000 26.94 0.00 45.20 3.77
39 40 2.154074 GGGTCTGACCAGGGGTTGT 61.154 63.158 26.94 0.00 41.02 3.32
40 41 1.073199 GGTCTGACCAGGGGTTGTG 59.927 63.158 21.70 0.00 38.42 3.33
41 42 1.415672 GGTCTGACCAGGGGTTGTGA 61.416 60.000 21.70 0.00 38.42 3.58
42 43 0.693049 GTCTGACCAGGGGTTGTGAT 59.307 55.000 0.00 0.00 35.25 3.06
43 44 1.073923 GTCTGACCAGGGGTTGTGATT 59.926 52.381 0.00 0.00 35.25 2.57
44 45 1.073763 TCTGACCAGGGGTTGTGATTG 59.926 52.381 0.00 0.00 35.25 2.67
45 46 0.112218 TGACCAGGGGTTGTGATTGG 59.888 55.000 0.00 0.00 35.25 3.16
46 47 0.404040 GACCAGGGGTTGTGATTGGA 59.596 55.000 0.00 0.00 35.25 3.53
47 48 1.005924 GACCAGGGGTTGTGATTGGAT 59.994 52.381 0.00 0.00 35.25 3.41
48 49 1.272648 ACCAGGGGTTGTGATTGGATG 60.273 52.381 0.00 0.00 27.29 3.51
49 50 0.819582 CAGGGGTTGTGATTGGATGC 59.180 55.000 0.00 0.00 0.00 3.91
50 51 0.706433 AGGGGTTGTGATTGGATGCT 59.294 50.000 0.00 0.00 0.00 3.79
51 52 0.819582 GGGGTTGTGATTGGATGCTG 59.180 55.000 0.00 0.00 0.00 4.41
52 53 1.616725 GGGGTTGTGATTGGATGCTGA 60.617 52.381 0.00 0.00 0.00 4.26
53 54 1.474077 GGGTTGTGATTGGATGCTGAC 59.526 52.381 0.00 0.00 0.00 3.51
54 55 2.161855 GGTTGTGATTGGATGCTGACA 58.838 47.619 0.00 0.00 0.00 3.58
55 56 2.756760 GGTTGTGATTGGATGCTGACAT 59.243 45.455 0.00 0.00 39.98 3.06
56 57 3.428452 GGTTGTGATTGGATGCTGACATG 60.428 47.826 0.00 0.00 36.35 3.21
57 58 3.076079 TGTGATTGGATGCTGACATGT 57.924 42.857 0.00 0.00 36.35 3.21
58 59 3.011818 TGTGATTGGATGCTGACATGTC 58.988 45.455 19.27 19.27 36.35 3.06
59 60 3.276857 GTGATTGGATGCTGACATGTCT 58.723 45.455 25.55 6.21 36.35 3.41
60 61 4.080975 TGTGATTGGATGCTGACATGTCTA 60.081 41.667 25.55 12.96 36.35 2.59
61 62 5.061853 GTGATTGGATGCTGACATGTCTAT 58.938 41.667 25.55 16.75 36.35 1.98
62 63 5.049612 GTGATTGGATGCTGACATGTCTATG 60.050 44.000 25.55 16.26 36.35 2.23
75 76 5.806366 CATGTCTATGTTGCATGTTGAGA 57.194 39.130 0.00 0.00 36.28 3.27
76 77 6.373186 CATGTCTATGTTGCATGTTGAGAT 57.627 37.500 0.00 0.00 36.28 2.75
77 78 7.486802 CATGTCTATGTTGCATGTTGAGATA 57.513 36.000 0.00 0.00 36.28 1.98
78 79 7.922837 CATGTCTATGTTGCATGTTGAGATAA 58.077 34.615 0.00 0.00 36.28 1.75
79 80 7.920160 TGTCTATGTTGCATGTTGAGATAAA 57.080 32.000 0.00 0.00 0.00 1.40
80 81 8.510243 TGTCTATGTTGCATGTTGAGATAAAT 57.490 30.769 0.00 0.00 0.00 1.40
81 82 8.615211 TGTCTATGTTGCATGTTGAGATAAATC 58.385 33.333 0.00 0.00 0.00 2.17
82 83 8.615211 GTCTATGTTGCATGTTGAGATAAATCA 58.385 33.333 0.00 0.00 0.00 2.57
83 84 9.176460 TCTATGTTGCATGTTGAGATAAATCAA 57.824 29.630 0.00 0.00 36.85 2.57
84 85 9.447040 CTATGTTGCATGTTGAGATAAATCAAG 57.553 33.333 0.00 0.00 39.78 3.02
85 86 7.218228 TGTTGCATGTTGAGATAAATCAAGT 57.782 32.000 0.00 0.00 39.78 3.16
86 87 8.334263 TGTTGCATGTTGAGATAAATCAAGTA 57.666 30.769 0.00 0.00 39.78 2.24
87 88 8.791675 TGTTGCATGTTGAGATAAATCAAGTAA 58.208 29.630 0.00 0.00 39.78 2.24
88 89 9.793252 GTTGCATGTTGAGATAAATCAAGTAAT 57.207 29.630 0.00 0.00 39.78 1.89
89 90 9.791820 TTGCATGTTGAGATAAATCAAGTAATG 57.208 29.630 0.00 0.00 39.78 1.90
90 91 8.407832 TGCATGTTGAGATAAATCAAGTAATGG 58.592 33.333 0.00 0.00 39.78 3.16
91 92 7.864379 GCATGTTGAGATAAATCAAGTAATGGG 59.136 37.037 0.00 0.00 39.78 4.00
92 93 7.880160 TGTTGAGATAAATCAAGTAATGGGG 57.120 36.000 0.00 0.00 39.78 4.96
93 94 6.833416 TGTTGAGATAAATCAAGTAATGGGGG 59.167 38.462 0.00 0.00 39.78 5.40
94 95 6.590656 TGAGATAAATCAAGTAATGGGGGT 57.409 37.500 0.00 0.00 0.00 4.95
95 96 7.699709 TGAGATAAATCAAGTAATGGGGGTA 57.300 36.000 0.00 0.00 0.00 3.69
96 97 8.108378 TGAGATAAATCAAGTAATGGGGGTAA 57.892 34.615 0.00 0.00 0.00 2.85
97 98 8.561769 TGAGATAAATCAAGTAATGGGGGTAAA 58.438 33.333 0.00 0.00 0.00 2.01
98 99 8.762481 AGATAAATCAAGTAATGGGGGTAAAC 57.238 34.615 0.00 0.00 0.00 2.01
99 100 8.566109 AGATAAATCAAGTAATGGGGGTAAACT 58.434 33.333 0.00 0.00 0.00 2.66
100 101 9.197306 GATAAATCAAGTAATGGGGGTAAACTT 57.803 33.333 0.00 0.00 0.00 2.66
101 102 7.476540 AAATCAAGTAATGGGGGTAAACTTC 57.523 36.000 0.00 0.00 0.00 3.01
102 103 5.853572 TCAAGTAATGGGGGTAAACTTCT 57.146 39.130 0.00 0.00 0.00 2.85
103 104 6.208840 TCAAGTAATGGGGGTAAACTTCTT 57.791 37.500 0.00 0.00 0.00 2.52
104 105 7.332433 TCAAGTAATGGGGGTAAACTTCTTA 57.668 36.000 0.00 0.00 0.00 2.10
105 106 7.757611 TCAAGTAATGGGGGTAAACTTCTTAA 58.242 34.615 0.00 0.00 0.00 1.85
106 107 7.886446 TCAAGTAATGGGGGTAAACTTCTTAAG 59.114 37.037 0.00 0.00 0.00 1.85
107 108 7.339177 AGTAATGGGGGTAAACTTCTTAAGT 57.661 36.000 1.63 0.00 45.46 2.24
108 109 8.453498 AGTAATGGGGGTAAACTTCTTAAGTA 57.547 34.615 1.63 0.00 41.91 2.24
109 110 9.065722 AGTAATGGGGGTAAACTTCTTAAGTAT 57.934 33.333 1.63 0.00 41.91 2.12
114 115 9.162733 TGGGGGTAAACTTCTTAAGTATATAGG 57.837 37.037 1.63 0.00 41.91 2.57
242 246 8.803397 AACCAACTTATGAGGGTTTATAGTTC 57.197 34.615 0.00 0.00 40.59 3.01
243 247 8.159229 ACCAACTTATGAGGGTTTATAGTTCT 57.841 34.615 0.00 0.00 0.00 3.01
244 248 9.275572 ACCAACTTATGAGGGTTTATAGTTCTA 57.724 33.333 0.00 0.00 0.00 2.10
276 280 0.318275 TTGGTGGTCGCATTTTTCGC 60.318 50.000 0.00 0.00 0.00 4.70
307 311 2.024226 GATCTTTCGCGCGATGTGCA 62.024 55.000 35.21 16.17 46.97 4.57
316 320 0.726827 CGCGATGTGCATTTAGTGGT 59.273 50.000 0.00 0.00 46.97 4.16
345 349 0.231024 CGTCGACAACAAATGCGTCA 59.769 50.000 17.16 0.00 32.69 4.35
364 368 3.441290 CGGCGACTTCCTCGGTCT 61.441 66.667 0.00 0.00 43.18 3.85
384 388 0.387622 CAAATGTTGTGCCGGCTCAG 60.388 55.000 28.12 14.00 0.00 3.35
405 409 5.831525 TCAGTATCTCGGAGGTGCTTATAAA 59.168 40.000 6.11 0.00 0.00 1.40
430 445 2.240279 AGGTGTGCCGTCTATAGGATC 58.760 52.381 0.00 0.00 40.50 3.36
435 450 2.095668 GTGCCGTCTATAGGATCGAGTG 60.096 54.545 0.00 0.00 0.00 3.51
456 471 6.108687 AGTGTATGTGTGTGTGAATATCTGG 58.891 40.000 0.00 0.00 0.00 3.86
471 486 6.663093 TGAATATCTGGGCTTGTATTGTGTTT 59.337 34.615 0.00 0.00 0.00 2.83
578 598 3.363341 GGATCGATCCACTTCACTCTC 57.637 52.381 34.65 6.83 46.38 3.20
1026 1073 0.317103 CGTACTCATCTTCCTCGGCG 60.317 60.000 0.00 0.00 0.00 6.46
1027 1074 0.739561 GTACTCATCTTCCTCGGCGT 59.260 55.000 6.85 0.00 0.00 5.68
1102 3358 4.106925 CCCTCCAGGCTCCAGCAC 62.107 72.222 0.03 0.00 44.36 4.40
1103 3359 4.463879 CCTCCAGGCTCCAGCACG 62.464 72.222 0.03 0.00 44.36 5.34
1104 3360 4.463879 CTCCAGGCTCCAGCACGG 62.464 72.222 0.03 0.05 44.36 4.94
1271 3527 1.683365 CCATGCTTCCACCCAAGGG 60.683 63.158 2.91 2.91 42.03 3.95
1436 3705 2.125106 GCAGAGCCTAACCGTGGG 60.125 66.667 0.00 0.00 0.00 4.61
1485 3937 4.782156 ACCAAAGACCATGAGATCTCTCTT 59.218 41.667 22.95 18.85 43.25 2.85
1491 3943 9.432982 AAAGACCATGAGATCTCTCTTATAACT 57.567 33.333 22.95 9.53 43.25 2.24
1551 6113 1.202794 TGCAATGCACACTTCTGGAGA 60.203 47.619 2.72 0.00 31.71 3.71
1554 6116 6.795254 TGCAATGCACACTTCTGGAGAAGA 62.795 45.833 20.79 0.96 42.98 2.87
1576 6210 3.361281 ACAGTGAGCATGATGGTGATT 57.639 42.857 0.12 0.00 0.00 2.57
1590 6224 2.225091 TGGTGATTCTTCATGGGTGCTT 60.225 45.455 0.00 0.00 33.56 3.91
1608 6242 5.408356 GTGCTTGGAAGAACTATCGAACTA 58.592 41.667 0.00 0.00 31.51 2.24
1701 6335 1.066858 CATGTGGCGGTCTTGTCTACT 60.067 52.381 0.00 0.00 0.00 2.57
1729 6363 1.067071 CCCTCTACACGGTCCAGTTTC 60.067 57.143 0.00 0.00 0.00 2.78
1834 6473 5.957842 TTTTTCACTCGGCATTGTTATCT 57.042 34.783 0.00 0.00 0.00 1.98
1858 6497 9.379791 TCTATGCTGATCATGCTAATTATCTTG 57.620 33.333 15.20 0.00 36.63 3.02
1945 6609 9.475620 CCAGGGAAAACTTATAAATTAAGTCCT 57.524 33.333 0.00 0.00 36.82 3.85
2234 9458 4.873827 TGTATCAAAACGGGAACTATGAGC 59.126 41.667 0.00 0.00 0.00 4.26
2266 9490 2.950781 TCTCATAGATGCCTCCTCGTT 58.049 47.619 0.00 0.00 0.00 3.85
2274 9498 5.871396 AGATGCCTCCTCGTTTCTATTTA 57.129 39.130 0.00 0.00 0.00 1.40
2340 9564 1.671556 GCAAAAACAGGTAATGGCGGG 60.672 52.381 0.00 0.00 0.00 6.13
2362 9586 0.100682 GCCTGATGCAGCTGATGTTG 59.899 55.000 20.43 3.64 40.77 3.33
2533 9760 3.712016 TCTTAGCTGTTGCCCACATAA 57.288 42.857 0.00 0.00 40.80 1.90
2557 9784 4.294232 CACGTCTTATGCTCTGATGGTAG 58.706 47.826 0.00 0.00 0.00 3.18
2558 9785 4.036852 CACGTCTTATGCTCTGATGGTAGA 59.963 45.833 0.00 0.00 0.00 2.59
2585 9812 6.093219 GCTGCATCTTGAATCTTTTCTGTAGA 59.907 38.462 0.00 0.00 32.78 2.59
2606 9833 0.179062 CCTGCTTCCTCATCCCTTCG 60.179 60.000 0.00 0.00 0.00 3.79
2639 9883 7.365497 TCTCTGTTATCTTCCTCATGCATTA 57.635 36.000 0.00 0.00 0.00 1.90
2640 9884 7.795047 TCTCTGTTATCTTCCTCATGCATTAA 58.205 34.615 0.00 0.00 0.00 1.40
2641 9885 7.712639 TCTCTGTTATCTTCCTCATGCATTAAC 59.287 37.037 0.00 1.48 0.00 2.01
2642 9886 6.767902 TCTGTTATCTTCCTCATGCATTAACC 59.232 38.462 0.00 0.00 0.00 2.85
2643 9887 5.827797 TGTTATCTTCCTCATGCATTAACCC 59.172 40.000 0.00 0.00 0.00 4.11
2644 9888 4.524802 ATCTTCCTCATGCATTAACCCA 57.475 40.909 0.00 0.00 0.00 4.51
2645 9889 4.314522 TCTTCCTCATGCATTAACCCAA 57.685 40.909 0.00 0.00 0.00 4.12
2646 9890 4.016444 TCTTCCTCATGCATTAACCCAAC 58.984 43.478 0.00 0.00 0.00 3.77
2647 9891 2.733956 TCCTCATGCATTAACCCAACC 58.266 47.619 0.00 0.00 0.00 3.77
2648 9892 1.405105 CCTCATGCATTAACCCAACCG 59.595 52.381 0.00 0.00 0.00 4.44
2649 9893 0.814457 TCATGCATTAACCCAACCGC 59.186 50.000 0.00 0.00 0.00 5.68
2650 9894 0.179113 CATGCATTAACCCAACCGCC 60.179 55.000 0.00 0.00 0.00 6.13
2651 9895 0.613292 ATGCATTAACCCAACCGCCA 60.613 50.000 0.00 0.00 0.00 5.69
2652 9896 0.613292 TGCATTAACCCAACCGCCAT 60.613 50.000 0.00 0.00 0.00 4.40
2653 9897 0.102300 GCATTAACCCAACCGCCATC 59.898 55.000 0.00 0.00 0.00 3.51
2654 9898 1.762708 CATTAACCCAACCGCCATCT 58.237 50.000 0.00 0.00 0.00 2.90
2706 9953 5.482908 TCTCTCTACTGGATGTGCTTTTTC 58.517 41.667 0.00 0.00 0.00 2.29
2713 9960 2.036217 TGGATGTGCTTTTTCTGCTTGG 59.964 45.455 0.00 0.00 0.00 3.61
2740 9987 1.172180 TTCCAGGTGCCTTGCTTTCG 61.172 55.000 0.00 0.00 0.00 3.46
2762 10009 3.700539 GGTTTACCTCCTCCTCAGTACTC 59.299 52.174 0.00 0.00 0.00 2.59
2846 10102 2.193993 GGTTAAGTAGGAGCCTTCCCA 58.806 52.381 0.00 0.00 45.24 4.37
2847 10103 2.778270 GGTTAAGTAGGAGCCTTCCCAT 59.222 50.000 0.00 0.00 45.24 4.00
2938 10359 4.447290 TGAACTGCTTACACTTTACTGCA 58.553 39.130 0.00 0.00 0.00 4.41
2942 10363 4.273480 ACTGCTTACACTTTACTGCACTTG 59.727 41.667 0.00 0.00 0.00 3.16
3047 10468 1.199097 GTAACTTGCATGTTGGTCCCG 59.801 52.381 24.00 0.00 0.00 5.14
3048 10469 0.467290 AACTTGCATGTTGGTCCCGT 60.467 50.000 16.45 0.00 0.00 5.28
3049 10470 1.172180 ACTTGCATGTTGGTCCCGTG 61.172 55.000 0.00 0.00 0.00 4.94
3050 10471 0.888736 CTTGCATGTTGGTCCCGTGA 60.889 55.000 0.00 0.00 0.00 4.35
3051 10472 1.169661 TTGCATGTTGGTCCCGTGAC 61.170 55.000 0.00 0.00 40.98 3.67
3052 10473 1.302511 GCATGTTGGTCCCGTGACT 60.303 57.895 0.00 0.00 41.47 3.41
3053 10474 1.298859 GCATGTTGGTCCCGTGACTC 61.299 60.000 0.00 0.00 41.47 3.36
3054 10475 0.673644 CATGTTGGTCCCGTGACTCC 60.674 60.000 0.00 0.00 41.47 3.85
3055 10476 1.838073 ATGTTGGTCCCGTGACTCCC 61.838 60.000 0.00 0.00 41.47 4.30
3080 10508 8.939929 CCGTCTATGCAAGTAATTGATCATAAT 58.060 33.333 7.18 0.00 0.00 1.28
3157 10590 7.307694 TGACATTTCACATTGCTTCTTATGTC 58.692 34.615 0.00 0.00 39.62 3.06
3162 10595 5.185454 TCACATTGCTTCTTATGTCGGATT 58.815 37.500 0.00 0.00 32.88 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.623723 TCCCCTTCCTGCGCTTTAAT 59.376 50.000 9.73 0.00 0.00 1.40
1 2 0.623723 ATCCCCTTCCTGCGCTTTAA 59.376 50.000 9.73 0.00 0.00 1.52
6 7 4.883354 CCCATCCCCTTCCTGCGC 62.883 72.222 0.00 0.00 0.00 6.09
7 8 3.406595 GACCCATCCCCTTCCTGCG 62.407 68.421 0.00 0.00 0.00 5.18
8 9 2.003548 AGACCCATCCCCTTCCTGC 61.004 63.158 0.00 0.00 0.00 4.85
9 10 0.621571 TCAGACCCATCCCCTTCCTG 60.622 60.000 0.00 0.00 0.00 3.86
10 11 0.621862 GTCAGACCCATCCCCTTCCT 60.622 60.000 0.00 0.00 0.00 3.36
11 12 1.636769 GGTCAGACCCATCCCCTTCC 61.637 65.000 8.65 0.00 30.04 3.46
12 13 0.914417 TGGTCAGACCCATCCCCTTC 60.914 60.000 17.59 0.00 37.50 3.46
13 14 0.916358 CTGGTCAGACCCATCCCCTT 60.916 60.000 17.59 0.00 37.50 3.95
14 15 1.307343 CTGGTCAGACCCATCCCCT 60.307 63.158 17.59 0.00 37.50 4.79
15 16 2.378634 CCTGGTCAGACCCATCCCC 61.379 68.421 17.59 0.00 37.50 4.81
16 17 2.378634 CCCTGGTCAGACCCATCCC 61.379 68.421 17.59 0.00 37.50 3.85
17 18 2.378634 CCCCTGGTCAGACCCATCC 61.379 68.421 17.59 0.00 37.50 3.51
18 19 1.208165 AACCCCTGGTCAGACCCATC 61.208 60.000 17.59 0.00 37.50 3.51
19 20 1.151587 AACCCCTGGTCAGACCCAT 60.152 57.895 17.59 0.00 37.50 4.00
20 21 2.153401 CAACCCCTGGTCAGACCCA 61.153 63.158 17.59 4.45 37.50 4.51
21 22 2.154074 ACAACCCCTGGTCAGACCC 61.154 63.158 17.59 0.00 37.50 4.46
22 23 1.073199 CACAACCCCTGGTCAGACC 59.927 63.158 13.35 13.35 39.22 3.85
23 24 0.693049 ATCACAACCCCTGGTCAGAC 59.307 55.000 0.00 0.00 33.12 3.51
24 25 1.073763 CAATCACAACCCCTGGTCAGA 59.926 52.381 0.00 0.00 33.12 3.27
25 26 1.538047 CAATCACAACCCCTGGTCAG 58.462 55.000 0.00 0.00 33.12 3.51
26 27 0.112218 CCAATCACAACCCCTGGTCA 59.888 55.000 0.00 0.00 33.12 4.02
27 28 0.404040 TCCAATCACAACCCCTGGTC 59.596 55.000 0.00 0.00 33.12 4.02
28 29 1.084018 ATCCAATCACAACCCCTGGT 58.916 50.000 0.00 0.00 37.65 4.00
29 30 1.477553 CATCCAATCACAACCCCTGG 58.522 55.000 0.00 0.00 0.00 4.45
30 31 0.819582 GCATCCAATCACAACCCCTG 59.180 55.000 0.00 0.00 0.00 4.45
31 32 0.706433 AGCATCCAATCACAACCCCT 59.294 50.000 0.00 0.00 0.00 4.79
32 33 0.819582 CAGCATCCAATCACAACCCC 59.180 55.000 0.00 0.00 0.00 4.95
33 34 1.474077 GTCAGCATCCAATCACAACCC 59.526 52.381 0.00 0.00 0.00 4.11
34 35 2.161855 TGTCAGCATCCAATCACAACC 58.838 47.619 0.00 0.00 0.00 3.77
35 36 3.192001 ACATGTCAGCATCCAATCACAAC 59.808 43.478 0.00 0.00 31.99 3.32
36 37 3.423749 ACATGTCAGCATCCAATCACAA 58.576 40.909 0.00 0.00 31.99 3.33
37 38 3.011818 GACATGTCAGCATCCAATCACA 58.988 45.455 21.07 0.00 31.99 3.58
38 39 3.276857 AGACATGTCAGCATCCAATCAC 58.723 45.455 27.02 0.00 31.99 3.06
39 40 3.639672 AGACATGTCAGCATCCAATCA 57.360 42.857 27.02 0.00 31.99 2.57
40 41 5.061853 ACATAGACATGTCAGCATCCAATC 58.938 41.667 27.02 0.00 41.75 2.67
41 42 5.045012 ACATAGACATGTCAGCATCCAAT 57.955 39.130 27.02 6.18 41.75 3.16
42 43 4.492494 ACATAGACATGTCAGCATCCAA 57.508 40.909 27.02 3.11 41.75 3.53
43 44 4.193865 CAACATAGACATGTCAGCATCCA 58.806 43.478 27.02 4.11 44.83 3.41
44 45 3.003068 GCAACATAGACATGTCAGCATCC 59.997 47.826 27.02 6.59 44.83 3.51
45 46 3.624410 TGCAACATAGACATGTCAGCATC 59.376 43.478 27.02 10.33 44.83 3.91
46 47 3.613030 TGCAACATAGACATGTCAGCAT 58.387 40.909 27.02 14.04 44.83 3.79
47 48 3.056588 TGCAACATAGACATGTCAGCA 57.943 42.857 27.02 20.79 44.83 4.41
48 49 3.948851 CATGCAACATAGACATGTCAGC 58.051 45.455 27.02 18.80 44.83 4.26
53 54 5.806366 TCTCAACATGCAACATAGACATG 57.194 39.130 0.00 0.00 45.28 3.21
54 55 8.510243 TTTATCTCAACATGCAACATAGACAT 57.490 30.769 0.00 0.00 0.00 3.06
55 56 7.920160 TTTATCTCAACATGCAACATAGACA 57.080 32.000 0.00 0.00 0.00 3.41
56 57 8.615211 TGATTTATCTCAACATGCAACATAGAC 58.385 33.333 0.00 0.00 0.00 2.59
57 58 8.735692 TGATTTATCTCAACATGCAACATAGA 57.264 30.769 0.00 0.00 0.00 1.98
58 59 9.447040 CTTGATTTATCTCAACATGCAACATAG 57.553 33.333 0.00 0.00 31.98 2.23
59 60 8.959548 ACTTGATTTATCTCAACATGCAACATA 58.040 29.630 0.00 0.00 31.98 2.29
60 61 7.833786 ACTTGATTTATCTCAACATGCAACAT 58.166 30.769 0.00 0.00 31.98 2.71
61 62 7.218228 ACTTGATTTATCTCAACATGCAACA 57.782 32.000 0.00 0.00 31.98 3.33
62 63 9.793252 ATTACTTGATTTATCTCAACATGCAAC 57.207 29.630 0.00 0.00 31.98 4.17
63 64 9.791820 CATTACTTGATTTATCTCAACATGCAA 57.208 29.630 0.00 0.00 31.98 4.08
64 65 8.407832 CCATTACTTGATTTATCTCAACATGCA 58.592 33.333 0.00 0.00 31.98 3.96
65 66 7.864379 CCCATTACTTGATTTATCTCAACATGC 59.136 37.037 0.00 0.00 31.98 4.06
66 67 8.355169 CCCCATTACTTGATTTATCTCAACATG 58.645 37.037 0.00 0.00 31.98 3.21
67 68 7.506938 CCCCCATTACTTGATTTATCTCAACAT 59.493 37.037 0.00 0.00 31.98 2.71
68 69 6.833416 CCCCCATTACTTGATTTATCTCAACA 59.167 38.462 0.00 0.00 31.98 3.33
69 70 6.833933 ACCCCCATTACTTGATTTATCTCAAC 59.166 38.462 0.00 0.00 31.98 3.18
70 71 6.980577 ACCCCCATTACTTGATTTATCTCAA 58.019 36.000 0.00 0.00 34.14 3.02
71 72 6.590656 ACCCCCATTACTTGATTTATCTCA 57.409 37.500 0.00 0.00 0.00 3.27
72 73 8.847196 GTTTACCCCCATTACTTGATTTATCTC 58.153 37.037 0.00 0.00 0.00 2.75
73 74 8.566109 AGTTTACCCCCATTACTTGATTTATCT 58.434 33.333 0.00 0.00 0.00 1.98
74 75 8.762481 AGTTTACCCCCATTACTTGATTTATC 57.238 34.615 0.00 0.00 0.00 1.75
75 76 9.197306 GAAGTTTACCCCCATTACTTGATTTAT 57.803 33.333 0.00 0.00 0.00 1.40
76 77 8.395605 AGAAGTTTACCCCCATTACTTGATTTA 58.604 33.333 0.00 0.00 0.00 1.40
77 78 7.246027 AGAAGTTTACCCCCATTACTTGATTT 58.754 34.615 0.00 0.00 0.00 2.17
78 79 6.800890 AGAAGTTTACCCCCATTACTTGATT 58.199 36.000 0.00 0.00 0.00 2.57
79 80 6.402981 AGAAGTTTACCCCCATTACTTGAT 57.597 37.500 0.00 0.00 0.00 2.57
80 81 5.853572 AGAAGTTTACCCCCATTACTTGA 57.146 39.130 0.00 0.00 0.00 3.02
81 82 7.668469 ACTTAAGAAGTTTACCCCCATTACTTG 59.332 37.037 10.09 0.00 39.04 3.16
82 83 7.762610 ACTTAAGAAGTTTACCCCCATTACTT 58.237 34.615 10.09 0.00 39.04 2.24
83 84 7.339177 ACTTAAGAAGTTTACCCCCATTACT 57.661 36.000 10.09 0.00 39.04 2.24
88 89 9.162733 CCTATATACTTAAGAAGTTTACCCCCA 57.837 37.037 10.09 0.00 42.81 4.96
89 90 9.384849 TCCTATATACTTAAGAAGTTTACCCCC 57.615 37.037 10.09 0.00 42.81 5.40
182 183 2.263077 CAGTTCGCACCATGAGACTAC 58.737 52.381 0.00 0.00 0.00 2.73
190 191 2.037251 ACAAGACTACAGTTCGCACCAT 59.963 45.455 0.00 0.00 0.00 3.55
228 232 9.406113 TCAAGTCTAGTAGAACTATAAACCCTC 57.594 37.037 0.17 0.00 29.08 4.30
242 246 6.439599 CGACCACCAATATCAAGTCTAGTAG 58.560 44.000 0.00 0.00 0.00 2.57
243 247 5.221185 GCGACCACCAATATCAAGTCTAGTA 60.221 44.000 0.00 0.00 0.00 1.82
244 248 4.441634 GCGACCACCAATATCAAGTCTAGT 60.442 45.833 0.00 0.00 0.00 2.57
276 280 5.109002 CGCGCGAAAGATCTGAAATAAATTG 60.109 40.000 28.94 0.00 0.00 2.32
307 311 4.618489 CGACGAAAACGTCTACCACTAAAT 59.382 41.667 17.92 0.00 36.81 1.40
316 320 3.063670 TGTTGTCGACGAAAACGTCTA 57.936 42.857 22.46 5.62 32.84 2.59
361 365 0.387239 GCCGGCACAACATTTGAGAC 60.387 55.000 24.80 0.00 0.00 3.36
364 368 0.821301 TGAGCCGGCACAACATTTGA 60.821 50.000 31.54 0.00 0.00 2.69
384 388 5.471257 CCTTTATAAGCACCTCCGAGATAC 58.529 45.833 0.00 0.00 0.00 2.24
422 437 5.826208 ACACACACATACACTCGATCCTATA 59.174 40.000 0.00 0.00 0.00 1.31
430 445 6.020360 CAGATATTCACACACACATACACTCG 60.020 42.308 0.00 0.00 0.00 4.18
435 450 4.273480 GCCCAGATATTCACACACACATAC 59.727 45.833 0.00 0.00 0.00 2.39
521 539 1.439353 CCCAGGACGCGAAATGGATG 61.439 60.000 23.20 9.05 34.60 3.51
968 1015 1.153005 CATCTGGCTGCCTTCCCTC 60.153 63.158 21.03 0.00 0.00 4.30
970 1017 2.832201 GCATCTGGCTGCCTTCCC 60.832 66.667 21.03 0.78 40.25 3.97
1099 3355 4.687215 TGCAGACAGAGCCCGTGC 62.687 66.667 0.00 0.00 37.95 5.34
1100 3356 2.740055 GTGCAGACAGAGCCCGTG 60.740 66.667 0.00 0.00 0.00 4.94
1101 3357 4.363990 CGTGCAGACAGAGCCCGT 62.364 66.667 0.00 0.00 0.00 5.28
1103 3359 4.767255 CCCGTGCAGACAGAGCCC 62.767 72.222 0.00 0.00 0.00 5.19
1104 3360 3.941657 GACCCGTGCAGACAGAGCC 62.942 68.421 0.00 0.00 0.00 4.70
1105 3361 2.433318 GACCCGTGCAGACAGAGC 60.433 66.667 0.00 0.00 0.00 4.09
1436 3705 2.342478 AGGTCTCCTGACACACGTC 58.658 57.895 0.00 0.00 44.61 4.34
1446 3715 2.696526 TGGTGTAGTTCAGGTCTCCT 57.303 50.000 0.00 0.00 0.00 3.69
1447 3716 3.323979 TCTTTGGTGTAGTTCAGGTCTCC 59.676 47.826 0.00 0.00 0.00 3.71
1448 3717 4.308265 GTCTTTGGTGTAGTTCAGGTCTC 58.692 47.826 0.00 0.00 0.00 3.36
1456 3728 4.974645 TCTCATGGTCTTTGGTGTAGTT 57.025 40.909 0.00 0.00 0.00 2.24
1459 3911 5.026121 AGAGATCTCATGGTCTTTGGTGTA 58.974 41.667 24.39 0.00 0.00 2.90
1485 3937 4.600111 AGTCCACCACCCTTTTCAGTTATA 59.400 41.667 0.00 0.00 0.00 0.98
1491 3943 1.410932 CCAAGTCCACCACCCTTTTCA 60.411 52.381 0.00 0.00 0.00 2.69
1551 6113 3.504906 CACCATCATGCTCACTGTTTCTT 59.495 43.478 0.00 0.00 0.00 2.52
1554 6116 3.144657 TCACCATCATGCTCACTGTTT 57.855 42.857 0.00 0.00 0.00 2.83
1576 6210 1.704628 TCTTCCAAGCACCCATGAAGA 59.295 47.619 0.00 0.00 39.15 2.87
1590 6224 6.829229 TTGTCTAGTTCGATAGTTCTTCCA 57.171 37.500 0.00 0.00 37.40 3.53
1608 6242 5.486775 TGGATTCAAGGAGAGAAGATTGTCT 59.513 40.000 0.00 0.00 32.95 3.41
1649 6283 5.532406 TCAGCAAACCCTTCTATGAATATGC 59.468 40.000 0.00 0.00 0.00 3.14
1701 6335 0.033405 CCGTGTAGAGGGAGGAAGGA 60.033 60.000 0.00 0.00 0.00 3.36
1729 6363 2.205022 TTCTTGACCTCCAATGGCTG 57.795 50.000 0.00 0.00 33.68 4.85
1798 6432 6.402226 CCGAGTGAAAAATTACTCTTACCTGC 60.402 42.308 4.93 0.00 40.82 4.85
1834 6473 9.729281 TTCAAGATAATTAGCATGATCAGCATA 57.271 29.630 9.23 6.74 34.82 3.14
1858 6497 9.434420 TTCCAACAAATTTGACATTATGGATTC 57.566 29.630 24.64 0.00 34.65 2.52
1881 6520 6.887626 TGGACTTGGTACTTGTAAATTTCC 57.112 37.500 0.00 0.00 0.00 3.13
1981 6645 7.720515 TCCTAAGTCCTAGCTACTCAGATTTAC 59.279 40.741 0.00 0.00 0.00 2.01
2047 6717 9.625747 TTATTAAGCTTGTTCCATGTCATATCA 57.374 29.630 9.86 0.00 0.00 2.15
2054 6724 7.615365 TCCAGAATTATTAAGCTTGTTCCATGT 59.385 33.333 9.86 0.00 0.00 3.21
2168 9380 9.554395 AACCACAATTACCTTCAAAATTAAAGG 57.446 29.630 10.95 10.95 46.21 3.11
2186 9398 6.330250 AGCACTAGGGATAGATAAACCACAAT 59.670 38.462 0.00 0.00 0.00 2.71
2187 9399 5.665812 AGCACTAGGGATAGATAAACCACAA 59.334 40.000 0.00 0.00 0.00 3.33
2250 9474 6.426646 AAATAGAAACGAGGAGGCATCTAT 57.573 37.500 0.00 0.00 32.90 1.98
2274 9498 6.482973 CCAAAATGACATACCAACAAAAAGCT 59.517 34.615 0.00 0.00 0.00 3.74
2362 9586 3.831715 ATCCTCTTAAGCGTTTTGTGC 57.168 42.857 0.00 0.00 0.00 4.57
2548 9775 1.693062 AGATGCAGCCTCTACCATCAG 59.307 52.381 0.00 0.00 37.21 2.90
2557 9784 4.398673 AGAAAAGATTCAAGATGCAGCCTC 59.601 41.667 0.00 0.00 38.06 4.70
2558 9785 4.158025 CAGAAAAGATTCAAGATGCAGCCT 59.842 41.667 0.00 0.00 38.06 4.58
2585 9812 0.551131 AAGGGATGAGGAAGCAGGGT 60.551 55.000 0.00 0.00 0.00 4.34
2606 9833 1.484240 AGATAACAGAGAGGTGCTGGC 59.516 52.381 0.00 0.00 37.69 4.85
2639 9883 0.112412 AAAGAGATGGCGGTTGGGTT 59.888 50.000 0.00 0.00 0.00 4.11
2640 9884 0.988832 TAAAGAGATGGCGGTTGGGT 59.011 50.000 0.00 0.00 0.00 4.51
2641 9885 2.348411 ATAAAGAGATGGCGGTTGGG 57.652 50.000 0.00 0.00 0.00 4.12
2642 9886 3.734902 GCAAATAAAGAGATGGCGGTTGG 60.735 47.826 0.00 0.00 0.00 3.77
2643 9887 3.438360 GCAAATAAAGAGATGGCGGTTG 58.562 45.455 0.00 0.00 0.00 3.77
2644 9888 2.427095 GGCAAATAAAGAGATGGCGGTT 59.573 45.455 0.00 0.00 0.00 4.44
2645 9889 2.024414 GGCAAATAAAGAGATGGCGGT 58.976 47.619 0.00 0.00 0.00 5.68
2646 9890 2.781945 GGCAAATAAAGAGATGGCGG 57.218 50.000 0.00 0.00 0.00 6.13
2648 9892 3.316308 ACATCGGCAAATAAAGAGATGGC 59.684 43.478 7.92 0.00 39.59 4.40
2649 9893 5.505173 AACATCGGCAAATAAAGAGATGG 57.495 39.130 7.92 0.00 39.59 3.51
2650 9894 7.432252 GGTAAAACATCGGCAAATAAAGAGATG 59.568 37.037 2.19 2.19 40.67 2.90
2651 9895 7.480810 GGTAAAACATCGGCAAATAAAGAGAT 58.519 34.615 0.00 0.00 0.00 2.75
2652 9896 6.402766 CGGTAAAACATCGGCAAATAAAGAGA 60.403 38.462 0.00 0.00 0.00 3.10
2653 9897 5.737290 CGGTAAAACATCGGCAAATAAAGAG 59.263 40.000 0.00 0.00 0.00 2.85
2654 9898 5.632959 CGGTAAAACATCGGCAAATAAAGA 58.367 37.500 0.00 0.00 0.00 2.52
2706 9953 0.603707 TGGAACGAGAAGCCAAGCAG 60.604 55.000 0.00 0.00 0.00 4.24
2713 9960 2.035442 GGCACCTGGAACGAGAAGC 61.035 63.158 0.00 0.00 0.00 3.86
2740 9987 3.700539 GAGTACTGAGGAGGAGGTAAACC 59.299 52.174 0.00 0.00 0.00 3.27
2846 10102 6.818644 ACGAGTACATGCACAAATAGAGAAAT 59.181 34.615 0.00 0.00 0.00 2.17
2847 10103 6.090763 CACGAGTACATGCACAAATAGAGAAA 59.909 38.462 0.00 0.00 0.00 2.52
2938 10359 7.178274 TGTTAAACAGAAATATGCCATCCAAGT 59.822 33.333 0.00 0.00 0.00 3.16
2942 10363 8.947055 AAATGTTAAACAGAAATATGCCATCC 57.053 30.769 0.00 0.00 0.00 3.51
3025 10446 2.228822 GGGACCAACATGCAAGTTACAG 59.771 50.000 7.05 2.38 0.00 2.74
3047 10468 9.918325 TCAATTACTTGCATAGACGGGAGTCAC 62.918 44.444 1.37 0.00 45.96 3.67
3048 10469 8.029618 TCAATTACTTGCATAGACGGGAGTCA 62.030 42.308 1.37 0.00 45.96 3.41
3049 10470 5.681437 TCAATTACTTGCATAGACGGGAGTC 60.681 44.000 0.00 0.00 44.93 3.36
3050 10471 4.161565 TCAATTACTTGCATAGACGGGAGT 59.838 41.667 0.00 0.00 37.87 3.85
3051 10472 4.693283 TCAATTACTTGCATAGACGGGAG 58.307 43.478 0.00 0.00 32.11 4.30
3052 10473 4.746535 TCAATTACTTGCATAGACGGGA 57.253 40.909 0.00 0.00 32.11 5.14
3053 10474 5.056480 TGATCAATTACTTGCATAGACGGG 58.944 41.667 0.00 0.00 32.11 5.28
3054 10475 6.791887 ATGATCAATTACTTGCATAGACGG 57.208 37.500 0.00 0.00 32.11 4.79
3116 10549 8.552034 GTGAAATGTCATAGCTACAATAAGACC 58.448 37.037 0.00 0.00 35.80 3.85
3125 10558 6.369059 AGCAATGTGAAATGTCATAGCTAC 57.631 37.500 0.00 0.00 35.80 3.58
3157 10590 7.434492 AGTTCACTAGGTATCACAATAATCCG 58.566 38.462 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.