Multiple sequence alignment - TraesCS7A01G089500

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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 TraesCS7A01G089500 chr7A 100.000 3695 0 0 1 3695 54759453 54755759 0.000000e+00 6824.0
1 TraesCS7A01G089500 chr7A 85.417 960 92 23 1952 2873 54771841 54770892 0.000000e+00 953.0
2 TraesCS7A01G089500 chr7A 86.425 884 77 27 797 1663 54772992 54772135 0.000000e+00 928.0
3 TraesCS7A01G089500 chr7A 91.781 438 21 7 2976 3413 54770807 54770385 2.460000e-166 595.0
4 TraesCS7A01G089500 chr7A 95.154 227 9 2 1667 1893 54772078 54771854 1.260000e-94 357.0
5 TraesCS7A01G089500 chr7A 89.617 183 10 4 2879 3052 54766015 54765833 1.340000e-54 224.0
6 TraesCS7A01G089500 chr7A 86.441 177 23 1 1698 1873 689282672 689282848 3.770000e-45 193.0
7 TraesCS7A01G089500 chr7A 91.736 121 8 1 1 119 658988205 658988085 2.280000e-37 167.0
8 TraesCS7A01G089500 chr7A 86.555 119 16 0 1 119 538710421 538710303 8.330000e-27 132.0
9 TraesCS7A01G089500 chr7D 92.111 2814 148 50 829 3616 51954208 51951443 0.000000e+00 3899.0
10 TraesCS7A01G089500 chr7D 85.776 1160 85 31 776 1893 52293067 52294188 0.000000e+00 1155.0
11 TraesCS7A01G089500 chr7D 89.727 915 60 12 781 1692 52232652 52233535 0.000000e+00 1138.0
12 TraesCS7A01G089500 chr7D 88.060 804 53 24 829 1620 52035089 52035861 0.000000e+00 913.0
13 TraesCS7A01G089500 chr7D 86.282 554 48 15 829 1371 52266429 52266965 8.900000e-161 577.0
14 TraesCS7A01G089500 chr7D 79.292 932 112 50 1970 2855 52294611 52295507 8.900000e-161 577.0
15 TraesCS7A01G089500 chr7D 79.647 737 93 30 1667 2369 52267646 52268359 9.280000e-131 477.0
16 TraesCS7A01G089500 chr7D 79.310 725 89 28 1667 2358 52036067 52036763 5.630000e-123 451.0
17 TraesCS7A01G089500 chr7D 83.709 399 49 13 2478 2869 52235757 52236146 2.710000e-96 363.0
18 TraesCS7A01G089500 chr7D 92.683 246 15 3 1688 1932 52233615 52233858 5.870000e-93 351.0
19 TraesCS7A01G089500 chr7D 92.941 85 3 1 3614 3695 51951378 51951294 1.800000e-23 121.0
20 TraesCS7A01G089500 chr7D 82.000 150 14 6 624 761 52232406 52232554 8.390000e-22 115.0
21 TraesCS7A01G089500 chr7D 90.805 87 7 1 2277 2363 596124520 596124605 8.390000e-22 115.0
22 TraesCS7A01G089500 chr7D 83.333 126 18 3 222 344 52028161 52028286 3.020000e-21 113.0
23 TraesCS7A01G089500 chr7D 92.105 76 6 0 2287 2362 596304886 596304961 1.400000e-19 108.0
24 TraesCS7A01G089500 chr7D 83.784 111 10 5 631 733 52292833 52292943 8.450000e-17 99.0
25 TraesCS7A01G089500 chr7D 87.500 80 5 3 268 347 52259569 52259643 1.830000e-13 87.9
26 TraesCS7A01G089500 chr7D 90.164 61 6 0 2291 2351 596110749 596110689 3.060000e-11 80.5
27 TraesCS7A01G089500 chr4A 84.122 2072 171 81 829 2855 666811694 666813652 0.000000e+00 1858.0
28 TraesCS7A01G089500 chr4A 87.854 1095 60 28 621 1663 666484980 666483907 0.000000e+00 1218.0
29 TraesCS7A01G089500 chr4A 85.606 1188 90 46 783 1932 666540634 666539490 0.000000e+00 1171.0
30 TraesCS7A01G089500 chr4A 93.468 444 29 0 1100 1543 666923697 666924140 0.000000e+00 660.0
31 TraesCS7A01G089500 chr4A 89.262 447 45 3 2432 2876 666539041 666538596 1.160000e-154 556.0
32 TraesCS7A01G089500 chr4A 83.520 625 71 15 2253 2869 666483048 666482448 4.170000e-154 555.0
33 TraesCS7A01G089500 chr4A 90.909 374 24 6 2861 3226 666538575 666538204 9.220000e-136 494.0
34 TraesCS7A01G089500 chr4A 84.940 498 26 12 132 592 666485465 666484980 3.360000e-125 459.0
35 TraesCS7A01G089500 chr4A 88.483 356 24 4 3263 3616 666538202 666537862 7.380000e-112 414.0
36 TraesCS7A01G089500 chr4A 83.607 427 49 13 1947 2358 666539507 666539087 7.490000e-102 381.0
37 TraesCS7A01G089500 chr4A 77.760 643 83 29 2242 2869 666927154 666927751 1.270000e-89 340.0
38 TraesCS7A01G089500 chr4A 88.679 265 24 4 1667 1930 666483856 666483597 5.950000e-83 318.0
39 TraesCS7A01G089500 chr4A 87.137 241 26 4 1693 1932 666926408 666926644 6.080000e-68 268.0
40 TraesCS7A01G089500 chr4A 84.141 227 26 4 1947 2165 666483612 666483388 1.040000e-50 211.0
41 TraesCS7A01G089500 chr4A 79.646 226 25 12 2961 3180 666266525 666266315 3.850000e-30 143.0
42 TraesCS7A01G089500 chr4A 82.716 162 12 10 624 773 666798999 666799156 2.990000e-26 130.0
43 TraesCS7A01G089500 chr4A 79.581 191 29 9 785 968 666305779 666305592 1.080000e-25 128.0
44 TraesCS7A01G089500 chr4A 89.655 87 9 0 442 528 666542802 666542716 1.080000e-20 111.0
45 TraesCS7A01G089500 chr4A 88.372 86 7 2 631 716 666919602 666919684 2.350000e-17 100.0
46 TraesCS7A01G089500 chr4A 95.238 42 2 0 292 333 666919418 666919459 2.380000e-07 67.6
47 TraesCS7A01G089500 chrUn 92.982 114 8 0 3 116 2542551 2542664 2.280000e-37 167.0
48 TraesCS7A01G089500 chrUn 90.991 111 10 0 1 111 99881148 99881038 2.300000e-32 150.0
49 TraesCS7A01G089500 chr4D 92.105 114 9 0 1 114 201880351 201880238 1.060000e-35 161.0
50 TraesCS7A01G089500 chr2B 90.517 116 11 0 1 116 65958258 65958373 1.780000e-33 154.0
51 TraesCS7A01G089500 chr2D 91.346 104 9 0 1 104 606423219 606423116 3.850000e-30 143.0
52 TraesCS7A01G089500 chr2A 87.395 119 15 0 1 119 706905527 706905409 1.790000e-28 137.0
53 TraesCS7A01G089500 chr3D 86.325 117 15 1 1 116 24217384 24217500 3.870000e-25 126.0


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 TraesCS7A01G089500 chr7A 54755759 54759453 3694 True 6824.000000 6824 100.000000 1 3695 1 chr7A.!!$R1 3694
1 TraesCS7A01G089500 chr7A 54770385 54772992 2607 True 708.250000 953 89.694250 797 3413 4 chr7A.!!$R5 2616
2 TraesCS7A01G089500 chr7D 51951294 51954208 2914 True 2010.000000 3899 92.526000 829 3695 2 chr7D.!!$R2 2866
3 TraesCS7A01G089500 chr7D 52035089 52036763 1674 False 682.000000 913 83.685000 829 2358 2 chr7D.!!$F5 1529
4 TraesCS7A01G089500 chr7D 52292833 52295507 2674 False 610.333333 1155 82.950667 631 2855 3 chr7D.!!$F8 2224
5 TraesCS7A01G089500 chr7D 52266429 52268359 1930 False 527.000000 577 82.964500 829 2369 2 chr7D.!!$F7 1540
6 TraesCS7A01G089500 chr7D 52232406 52236146 3740 False 491.750000 1138 87.029750 624 2869 4 chr7D.!!$F6 2245
7 TraesCS7A01G089500 chr4A 666811694 666813652 1958 False 1858.000000 1858 84.122000 829 2855 1 chr4A.!!$F2 2026
8 TraesCS7A01G089500 chr4A 666482448 666485465 3017 True 552.200000 1218 85.826800 132 2869 5 chr4A.!!$R3 2737
9 TraesCS7A01G089500 chr4A 666537862 666542802 4940 True 521.166667 1171 87.920333 442 3616 6 chr4A.!!$R4 3174
10 TraesCS7A01G089500 chr4A 666923697 666927751 4054 False 422.666667 660 86.121667 1100 2869 3 chr4A.!!$F4 1769

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
989 2975 0.322975 CCACACCAAGACCAGGAGAG 59.677 60.0 0.00 0.0 0.00 3.20 F
1008 2994 0.716108 GAGAGACAAACATGCGTCCG 59.284 55.0 6.84 0.0 32.33 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2177 7518 0.380378 GGACTTGTGCGCTCAACAAA 59.620 50.0 20.10 1.09 0.00 2.83 R
2962 10023 0.763652 CAGCAGCTGGATGGTCCTAT 59.236 55.0 17.12 0.00 37.46 2.57 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
25 26 7.668525 ACTTTGCTCTACAAATTAGTACCAC 57.331 36.000 0.00 0.00 46.90 4.16
26 27 6.653740 ACTTTGCTCTACAAATTAGTACCACC 59.346 38.462 0.00 0.00 46.90 4.61
27 28 6.368779 TTGCTCTACAAATTAGTACCACCT 57.631 37.500 0.00 0.00 34.56 4.00
28 29 5.974108 TGCTCTACAAATTAGTACCACCTC 58.026 41.667 0.00 0.00 0.00 3.85
29 30 5.482526 TGCTCTACAAATTAGTACCACCTCA 59.517 40.000 0.00 0.00 0.00 3.86
30 31 6.156256 TGCTCTACAAATTAGTACCACCTCAT 59.844 38.462 0.00 0.00 0.00 2.90
31 32 6.480320 GCTCTACAAATTAGTACCACCTCATG 59.520 42.308 0.00 0.00 0.00 3.07
32 33 7.490657 TCTACAAATTAGTACCACCTCATGT 57.509 36.000 0.00 0.00 0.00 3.21
33 34 8.598202 TCTACAAATTAGTACCACCTCATGTA 57.402 34.615 0.00 0.00 0.00 2.29
34 35 9.209048 TCTACAAATTAGTACCACCTCATGTAT 57.791 33.333 0.00 0.00 0.00 2.29
35 36 9.832445 CTACAAATTAGTACCACCTCATGTATT 57.168 33.333 0.00 0.00 0.00 1.89
37 38 9.174166 ACAAATTAGTACCACCTCATGTATTTC 57.826 33.333 0.00 0.00 0.00 2.17
38 39 9.173021 CAAATTAGTACCACCTCATGTATTTCA 57.827 33.333 0.00 0.00 0.00 2.69
39 40 8.732746 AATTAGTACCACCTCATGTATTTCAC 57.267 34.615 0.00 0.00 0.00 3.18
40 41 4.755411 AGTACCACCTCATGTATTTCACG 58.245 43.478 0.00 0.00 0.00 4.35
41 42 3.695830 ACCACCTCATGTATTTCACGT 57.304 42.857 0.00 0.00 0.00 4.49
42 43 4.811969 ACCACCTCATGTATTTCACGTA 57.188 40.909 0.00 0.00 0.00 3.57
43 44 5.155278 ACCACCTCATGTATTTCACGTAA 57.845 39.130 0.00 0.00 0.00 3.18
44 45 5.741011 ACCACCTCATGTATTTCACGTAAT 58.259 37.500 0.00 0.00 0.00 1.89
45 46 5.584649 ACCACCTCATGTATTTCACGTAATG 59.415 40.000 0.00 0.00 0.00 1.90
46 47 5.584649 CCACCTCATGTATTTCACGTAATGT 59.415 40.000 0.00 0.00 0.00 2.71
59 60 5.596268 CACGTAATGTGGGATCATATGTG 57.404 43.478 1.90 0.00 45.21 3.21
60 61 4.452114 CACGTAATGTGGGATCATATGTGG 59.548 45.833 1.90 0.00 45.21 4.17
61 62 4.002982 CGTAATGTGGGATCATATGTGGG 58.997 47.826 1.90 0.00 0.00 4.61
62 63 4.262851 CGTAATGTGGGATCATATGTGGGA 60.263 45.833 1.90 0.00 0.00 4.37
63 64 3.795688 ATGTGGGATCATATGTGGGAC 57.204 47.619 1.90 0.00 0.00 4.46
64 65 1.416030 TGTGGGATCATATGTGGGACG 59.584 52.381 1.90 0.00 0.00 4.79
65 66 1.691976 GTGGGATCATATGTGGGACGA 59.308 52.381 1.90 0.00 0.00 4.20
66 67 2.104111 GTGGGATCATATGTGGGACGAA 59.896 50.000 1.90 0.00 0.00 3.85
67 68 2.774809 TGGGATCATATGTGGGACGAAA 59.225 45.455 1.90 0.00 0.00 3.46
68 69 3.139077 GGGATCATATGTGGGACGAAAC 58.861 50.000 1.90 0.00 0.00 2.78
69 70 3.139077 GGATCATATGTGGGACGAAACC 58.861 50.000 1.90 0.00 0.00 3.27
70 71 3.433031 GGATCATATGTGGGACGAAACCA 60.433 47.826 1.90 0.00 35.14 3.67
71 72 3.704800 TCATATGTGGGACGAAACCAA 57.295 42.857 1.90 0.00 40.24 3.67
72 73 4.022413 TCATATGTGGGACGAAACCAAA 57.978 40.909 1.90 0.00 40.24 3.28
73 74 4.399219 TCATATGTGGGACGAAACCAAAA 58.601 39.130 1.90 0.00 40.24 2.44
74 75 4.827835 TCATATGTGGGACGAAACCAAAAA 59.172 37.500 1.90 0.00 40.24 1.94
75 76 5.478679 TCATATGTGGGACGAAACCAAAAAT 59.521 36.000 1.90 0.00 40.24 1.82
76 77 6.659668 TCATATGTGGGACGAAACCAAAAATA 59.340 34.615 1.90 0.00 40.24 1.40
77 78 5.993748 ATGTGGGACGAAACCAAAAATAT 57.006 34.783 0.00 0.00 40.24 1.28
78 79 5.379732 TGTGGGACGAAACCAAAAATATC 57.620 39.130 0.00 0.00 40.24 1.63
79 80 4.827835 TGTGGGACGAAACCAAAAATATCA 59.172 37.500 0.00 0.00 40.24 2.15
80 81 5.478679 TGTGGGACGAAACCAAAAATATCAT 59.521 36.000 0.00 0.00 40.24 2.45
81 82 6.033966 GTGGGACGAAACCAAAAATATCATC 58.966 40.000 0.00 0.00 40.24 2.92
82 83 5.712446 TGGGACGAAACCAAAAATATCATCA 59.288 36.000 0.00 0.00 34.44 3.07
83 84 6.379703 TGGGACGAAACCAAAAATATCATCAT 59.620 34.615 0.00 0.00 34.44 2.45
84 85 6.697019 GGGACGAAACCAAAAATATCATCATG 59.303 38.462 0.00 0.00 0.00 3.07
85 86 6.198966 GGACGAAACCAAAAATATCATCATGC 59.801 38.462 0.00 0.00 0.00 4.06
86 87 6.866480 ACGAAACCAAAAATATCATCATGCT 58.134 32.000 0.00 0.00 0.00 3.79
87 88 6.753279 ACGAAACCAAAAATATCATCATGCTG 59.247 34.615 0.00 0.00 0.00 4.41
88 89 6.753279 CGAAACCAAAAATATCATCATGCTGT 59.247 34.615 0.00 0.00 0.00 4.40
89 90 7.914871 CGAAACCAAAAATATCATCATGCTGTA 59.085 33.333 0.00 0.00 0.00 2.74
90 91 9.585099 GAAACCAAAAATATCATCATGCTGTAA 57.415 29.630 0.00 0.00 0.00 2.41
103 104 9.975218 TCATCATGCTGTAATAGTAGGTATAGA 57.025 33.333 0.00 0.00 0.00 1.98
141 142 8.471609 AGATGCCTCTTAACTAGTACTTCTTTC 58.528 37.037 0.00 0.00 0.00 2.62
142 143 6.932947 TGCCTCTTAACTAGTACTTCTTTCC 58.067 40.000 0.00 0.00 0.00 3.13
145 146 7.123098 GCCTCTTAACTAGTACTTCTTTCCTCT 59.877 40.741 0.00 0.00 0.00 3.69
159 160 8.841300 ACTTCTTTCCTCTGAAAATACTTGTTC 58.159 33.333 0.00 0.00 39.88 3.18
161 162 6.990349 TCTTTCCTCTGAAAATACTTGTTCGT 59.010 34.615 0.00 0.00 39.88 3.85
167 168 7.746475 CCTCTGAAAATACTTGTTCGTGAAATC 59.254 37.037 0.00 0.00 0.00 2.17
210 221 2.517402 TTGGGTGTGGTTGCGGAC 60.517 61.111 0.00 0.00 0.00 4.79
233 247 2.654749 TGTTGTAGAGGATGACTGCG 57.345 50.000 0.00 0.00 0.00 5.18
250 264 2.614057 CTGCGTTTGGAAAGAGTCAAGT 59.386 45.455 0.00 0.00 0.00 3.16
264 278 2.102588 AGTCAAGTAACCACAGCGAAGT 59.897 45.455 0.00 0.00 0.00 3.01
265 279 3.319972 AGTCAAGTAACCACAGCGAAGTA 59.680 43.478 0.00 0.00 0.00 2.24
266 280 4.021368 AGTCAAGTAACCACAGCGAAGTAT 60.021 41.667 0.00 0.00 0.00 2.12
267 281 5.184479 AGTCAAGTAACCACAGCGAAGTATA 59.816 40.000 0.00 0.00 0.00 1.47
268 282 6.040878 GTCAAGTAACCACAGCGAAGTATAT 58.959 40.000 0.00 0.00 0.00 0.86
269 283 7.067859 AGTCAAGTAACCACAGCGAAGTATATA 59.932 37.037 0.00 0.00 0.00 0.86
270 284 7.866393 GTCAAGTAACCACAGCGAAGTATATAT 59.134 37.037 0.00 0.00 0.00 0.86
271 285 7.865889 TCAAGTAACCACAGCGAAGTATATATG 59.134 37.037 0.00 0.00 0.00 1.78
280 294 5.064325 CAGCGAAGTATATATGCATGCATGT 59.936 40.000 37.43 33.30 37.82 3.21
281 295 5.064325 AGCGAAGTATATATGCATGCATGTG 59.936 40.000 37.43 20.39 37.82 3.21
290 304 1.321805 GCATGCATGTGCCCCAAGTA 61.322 55.000 26.79 0.00 41.18 2.24
291 305 0.457035 CATGCATGTGCCCCAAGTAC 59.543 55.000 18.91 0.00 41.18 2.73
304 321 2.824936 CCCAAGTACATGTTGGCATTCA 59.175 45.455 2.30 0.00 42.85 2.57
359 376 3.127533 CCAACTACAGGCCGCAGC 61.128 66.667 0.00 0.00 38.76 5.25
371 388 1.153489 CCGCAGCTACAGTGAGCAT 60.153 57.895 14.37 1.14 45.43 3.79
430 447 1.339610 TGTTTCCGTGAAATTGCTGGG 59.660 47.619 3.00 0.00 33.97 4.45
457 491 2.811855 TGACGCGTCAGTAACAAGAAA 58.188 42.857 36.40 10.69 34.14 2.52
469 503 7.272731 GTCAGTAACAAGAAAGTGTTTGAAACC 59.727 37.037 5.50 0.00 41.84 3.27
528 562 7.440505 TGGTGGAAGCAGGTTAATACTATAA 57.559 36.000 0.00 0.00 40.88 0.98
529 563 7.277396 TGGTGGAAGCAGGTTAATACTATAAC 58.723 38.462 0.00 0.00 40.88 1.89
561 599 7.987458 TCTGAAAAGAAACACTCTCACTGTATT 59.013 33.333 0.00 0.00 31.02 1.89
562 600 8.506168 TGAAAAGAAACACTCTCACTGTATTT 57.494 30.769 0.00 0.00 31.02 1.40
563 601 9.607988 TGAAAAGAAACACTCTCACTGTATTTA 57.392 29.630 0.00 0.00 31.02 1.40
597 635 2.317371 TCTGGAAGAAGCAGACTCCT 57.683 50.000 0.00 0.00 42.31 3.69
609 675 5.505181 AGCAGACTCCTTTTTCTCCATTA 57.495 39.130 0.00 0.00 0.00 1.90
611 677 6.488715 AGCAGACTCCTTTTTCTCCATTATT 58.511 36.000 0.00 0.00 0.00 1.40
613 679 6.601217 GCAGACTCCTTTTTCTCCATTATTCT 59.399 38.462 0.00 0.00 0.00 2.40
614 680 7.201688 GCAGACTCCTTTTTCTCCATTATTCTC 60.202 40.741 0.00 0.00 0.00 2.87
615 681 7.010923 CAGACTCCTTTTTCTCCATTATTCTCG 59.989 40.741 0.00 0.00 0.00 4.04
617 683 6.062258 TCCTTTTTCTCCATTATTCTCGGT 57.938 37.500 0.00 0.00 0.00 4.69
618 684 6.481643 TCCTTTTTCTCCATTATTCTCGGTT 58.518 36.000 0.00 0.00 0.00 4.44
654 726 1.895131 AGAGCGTTCCAATTTGGCAAT 59.105 42.857 10.76 0.00 37.47 3.56
666 738 1.231958 TTGGCAATTCGTCCGTCCAC 61.232 55.000 0.00 0.00 0.00 4.02
676 748 3.731089 TCGTCCGTCCACTTTTGTTTAT 58.269 40.909 0.00 0.00 0.00 1.40
814 2731 3.118738 AGTTGACAGGTTTGAGACGTTCT 60.119 43.478 0.00 0.00 0.00 3.01
827 2744 8.438513 GTTTGAGACGTTCTAACCTAATTAACC 58.561 37.037 11.12 0.00 36.09 2.85
847 2779 1.019673 CGGCAAGACCCATCTCATTG 58.980 55.000 0.00 0.00 32.34 2.82
863 2795 4.221703 TCTCATTGTCTCTTCTTCTCCACC 59.778 45.833 0.00 0.00 0.00 4.61
864 2796 3.903714 TCATTGTCTCTTCTTCTCCACCA 59.096 43.478 0.00 0.00 0.00 4.17
983 2969 4.263572 CCGGCCACACCAAGACCA 62.264 66.667 2.24 0.00 39.03 4.02
984 2970 2.669569 CGGCCACACCAAGACCAG 60.670 66.667 2.24 0.00 39.03 4.00
985 2971 2.282462 GGCCACACCAAGACCAGG 60.282 66.667 0.00 0.00 38.86 4.45
986 2972 2.829384 GGCCACACCAAGACCAGGA 61.829 63.158 0.00 0.00 38.86 3.86
987 2973 1.302832 GCCACACCAAGACCAGGAG 60.303 63.158 0.00 0.00 0.00 3.69
988 2974 1.768684 GCCACACCAAGACCAGGAGA 61.769 60.000 0.00 0.00 0.00 3.71
989 2975 0.322975 CCACACCAAGACCAGGAGAG 59.677 60.000 0.00 0.00 0.00 3.20
990 2976 1.342074 CACACCAAGACCAGGAGAGA 58.658 55.000 0.00 0.00 0.00 3.10
991 2977 1.274728 CACACCAAGACCAGGAGAGAG 59.725 57.143 0.00 0.00 0.00 3.20
992 2978 1.148027 ACACCAAGACCAGGAGAGAGA 59.852 52.381 0.00 0.00 0.00 3.10
993 2979 1.824230 CACCAAGACCAGGAGAGAGAG 59.176 57.143 0.00 0.00 0.00 3.20
994 2980 1.713647 ACCAAGACCAGGAGAGAGAGA 59.286 52.381 0.00 0.00 0.00 3.10
995 2981 2.099405 CCAAGACCAGGAGAGAGAGAC 58.901 57.143 0.00 0.00 0.00 3.36
1008 2994 0.716108 GAGAGACAAACATGCGTCCG 59.284 55.000 6.84 0.00 32.33 4.79
1009 2995 1.132640 GAGACAAACATGCGTCCGC 59.867 57.895 4.42 4.42 42.35 5.54
1064 3062 3.764466 CGCAGCCGTCCTCCTCTT 61.764 66.667 0.00 0.00 0.00 2.85
1069 3067 4.148825 CCGTCCTCCTCTTGGCCG 62.149 72.222 0.00 0.00 0.00 6.13
1071 3069 2.943978 CGTCCTCCTCTTGGCCGTT 61.944 63.158 0.00 0.00 0.00 4.44
1578 5918 9.292195 CTTTTCTTTAGTTAACCAACCAGGATA 57.708 33.333 0.88 0.00 41.22 2.59
1579 5919 9.816787 TTTTCTTTAGTTAACCAACCAGGATAT 57.183 29.630 0.88 0.00 41.22 1.63
1728 6348 3.084786 GCCATACCTGGAAATGATAGCC 58.915 50.000 0.00 0.00 46.37 3.93
1736 6356 2.029020 TGGAAATGATAGCCGATCGGAG 60.029 50.000 37.64 12.91 37.38 4.63
1794 6414 3.984732 GCCAGGGGAAAGGCCAGT 61.985 66.667 5.01 0.00 45.18 4.00
1936 6630 2.358322 AACACAACTACCAACCCCTG 57.642 50.000 0.00 0.00 0.00 4.45
1980 6880 7.408543 ACTACCAACTACTCCAACTATCAGTA 58.591 38.462 0.00 0.00 0.00 2.74
1981 6881 7.892241 ACTACCAACTACTCCAACTATCAGTAA 59.108 37.037 0.00 0.00 0.00 2.24
1984 6884 8.603304 ACCAACTACTCCAACTATCAGTAAAAT 58.397 33.333 0.00 0.00 0.00 1.82
2030 7330 4.394439 TGACACACTACTTGCAACTGTA 57.606 40.909 0.00 0.00 0.00 2.74
2104 7404 4.326826 TCGATCTTTGTGCAGATCCTTTT 58.673 39.130 7.80 0.00 44.54 2.27
2177 7518 1.096386 TTTGGTTAACGCACGCCAGT 61.096 50.000 0.00 0.00 32.09 4.00
2181 7522 0.028374 GTTAACGCACGCCAGTTTGT 59.972 50.000 0.00 0.00 0.00 2.83
2212 7553 5.177511 CACAAGTCCTATTATACACCATGCG 59.822 44.000 0.00 0.00 0.00 4.73
2237 7655 2.014010 ACTGCATGGTGTGGGAATTT 57.986 45.000 0.00 0.00 0.00 1.82
2453 8051 4.540824 GTGCATTCAACTCTTGTCTTTCC 58.459 43.478 0.00 0.00 0.00 3.13
2455 8053 3.498397 GCATTCAACTCTTGTCTTTCCGA 59.502 43.478 0.00 0.00 0.00 4.55
2456 8054 4.611581 GCATTCAACTCTTGTCTTTCCGAC 60.612 45.833 0.00 0.00 43.14 4.79
2457 8055 4.402056 TTCAACTCTTGTCTTTCCGACT 57.598 40.909 0.00 0.00 43.25 4.18
2460 8058 5.909477 TCAACTCTTGTCTTTCCGACTTTA 58.091 37.500 0.00 0.00 43.25 1.85
2461 8059 5.983720 TCAACTCTTGTCTTTCCGACTTTAG 59.016 40.000 0.00 0.00 43.25 1.85
2462 8060 4.884247 ACTCTTGTCTTTCCGACTTTAGG 58.116 43.478 0.00 0.00 43.25 2.69
2463 8061 4.246458 CTCTTGTCTTTCCGACTTTAGGG 58.754 47.826 0.00 0.00 43.25 3.53
2464 8062 3.644738 TCTTGTCTTTCCGACTTTAGGGT 59.355 43.478 0.00 0.00 43.25 4.34
2465 8063 3.672767 TGTCTTTCCGACTTTAGGGTC 57.327 47.619 0.00 0.00 43.25 4.46
2466 8064 3.236896 TGTCTTTCCGACTTTAGGGTCT 58.763 45.455 0.00 0.00 43.25 3.85
2467 8065 3.644738 TGTCTTTCCGACTTTAGGGTCTT 59.355 43.478 0.00 0.00 43.25 3.01
2468 8066 4.102054 TGTCTTTCCGACTTTAGGGTCTTT 59.898 41.667 0.00 0.00 43.25 2.52
2469 8067 5.305128 TGTCTTTCCGACTTTAGGGTCTTTA 59.695 40.000 0.00 0.00 43.25 1.85
2470 8068 5.868258 GTCTTTCCGACTTTAGGGTCTTTAG 59.132 44.000 0.00 0.00 39.61 1.85
2541 9539 2.476185 CGACATGAAAGCCGCCTTTAAG 60.476 50.000 0.00 0.00 41.22 1.85
2560 9558 1.780309 AGTTGGTTGATCTCCACCCAA 59.220 47.619 9.16 4.45 43.86 4.12
2602 9603 5.515008 GGACTGATTTTCCTTCAACCCTACT 60.515 44.000 0.00 0.00 0.00 2.57
2619 9620 2.957402 ACTTGCAGGACATGGAGAAA 57.043 45.000 1.40 0.00 0.00 2.52
2675 9676 0.749454 ATCAGCATGTTCCGGCCTTC 60.749 55.000 0.00 0.00 37.40 3.46
2688 9689 1.672881 CGGCCTTCTCAGCAAAATAGG 59.327 52.381 0.00 0.00 0.00 2.57
2818 9838 1.930908 GCCTTGCATCCAGTCACTGC 61.931 60.000 0.00 0.00 36.45 4.40
2923 9980 4.381505 GCCATTAAAAATGAAAGAGCCGGA 60.382 41.667 5.05 0.00 0.00 5.14
2962 10023 2.062773 ACCGGGGCCCCAAATATATA 57.937 50.000 40.06 0.00 35.37 0.86
3186 10247 3.794717 CTGTCTACCTCACTACGCTAGA 58.205 50.000 0.00 0.00 0.00 2.43
3202 10267 2.362717 GCTAGAGGACATCACTGGTACC 59.637 54.545 4.43 4.43 0.00 3.34
3244 10309 2.520020 CCGCCATGTGCCATGGAT 60.520 61.111 28.27 0.00 41.64 3.41
3326 10391 4.566545 TCCAATGTAATTATTGCTGGCG 57.433 40.909 0.00 0.00 36.86 5.69
3433 10499 4.718940 CATGGGTTGGAAGTTTATGGTC 57.281 45.455 0.00 0.00 0.00 4.02
3478 10545 3.967987 AGGTAGGGTAATCATCAGTGACC 59.032 47.826 0.00 0.00 37.14 4.02
3526 10593 1.717113 CGTGCGTCAAATTACTCGTCA 59.283 47.619 0.00 0.00 0.00 4.35
3591 10658 4.411256 GTGAAACCGGATGTATTCCCTA 57.589 45.455 9.46 0.00 42.06 3.53
3594 10661 4.225492 TGAAACCGGATGTATTCCCTACAA 59.775 41.667 9.46 0.00 43.42 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 6.014070 TGAGGTGGTACTAATTTGTAGAGCAA 60.014 38.462 0.00 0.00 34.87 3.91
5 6 5.482526 TGAGGTGGTACTAATTTGTAGAGCA 59.517 40.000 0.00 0.00 0.00 4.26
6 7 5.974108 TGAGGTGGTACTAATTTGTAGAGC 58.026 41.667 0.00 1.13 0.00 4.09
7 8 7.556844 ACATGAGGTGGTACTAATTTGTAGAG 58.443 38.462 0.00 0.00 0.00 2.43
8 9 7.490657 ACATGAGGTGGTACTAATTTGTAGA 57.509 36.000 0.00 0.00 0.00 2.59
9 10 9.832445 AATACATGAGGTGGTACTAATTTGTAG 57.168 33.333 0.00 0.00 0.00 2.74
11 12 9.174166 GAAATACATGAGGTGGTACTAATTTGT 57.826 33.333 0.00 0.00 0.00 2.83
12 13 9.173021 TGAAATACATGAGGTGGTACTAATTTG 57.827 33.333 0.00 0.00 0.00 2.32
13 14 9.174166 GTGAAATACATGAGGTGGTACTAATTT 57.826 33.333 0.00 0.00 0.00 1.82
14 15 7.494625 CGTGAAATACATGAGGTGGTACTAATT 59.505 37.037 0.00 0.00 37.69 1.40
15 16 6.984474 CGTGAAATACATGAGGTGGTACTAAT 59.016 38.462 0.00 0.00 37.69 1.73
16 17 6.071221 ACGTGAAATACATGAGGTGGTACTAA 60.071 38.462 0.00 0.00 38.72 2.24
17 18 5.419788 ACGTGAAATACATGAGGTGGTACTA 59.580 40.000 0.00 0.00 38.72 1.82
18 19 4.222145 ACGTGAAATACATGAGGTGGTACT 59.778 41.667 0.00 0.00 38.72 2.73
19 20 4.501071 ACGTGAAATACATGAGGTGGTAC 58.499 43.478 0.00 0.00 38.72 3.34
20 21 4.811969 ACGTGAAATACATGAGGTGGTA 57.188 40.909 0.00 0.00 38.72 3.25
21 22 3.695830 ACGTGAAATACATGAGGTGGT 57.304 42.857 0.00 0.00 38.72 4.16
22 23 5.584649 ACATTACGTGAAATACATGAGGTGG 59.415 40.000 0.00 0.00 38.72 4.61
23 24 6.662414 ACATTACGTGAAATACATGAGGTG 57.338 37.500 0.00 0.00 38.72 4.00
37 38 4.452114 CCACATATGATCCCACATTACGTG 59.548 45.833 10.38 0.00 45.92 4.49
38 39 4.504864 CCCACATATGATCCCACATTACGT 60.505 45.833 10.38 0.00 0.00 3.57
39 40 4.002982 CCCACATATGATCCCACATTACG 58.997 47.826 10.38 0.00 0.00 3.18
40 41 5.003804 GTCCCACATATGATCCCACATTAC 58.996 45.833 10.38 0.00 0.00 1.89
41 42 4.262851 CGTCCCACATATGATCCCACATTA 60.263 45.833 10.38 0.00 0.00 1.90
42 43 3.496692 CGTCCCACATATGATCCCACATT 60.497 47.826 10.38 0.00 0.00 2.71
43 44 2.038952 CGTCCCACATATGATCCCACAT 59.961 50.000 10.38 0.00 0.00 3.21
44 45 1.416030 CGTCCCACATATGATCCCACA 59.584 52.381 10.38 0.00 0.00 4.17
45 46 1.691976 TCGTCCCACATATGATCCCAC 59.308 52.381 10.38 0.00 0.00 4.61
46 47 2.095604 TCGTCCCACATATGATCCCA 57.904 50.000 10.38 0.00 0.00 4.37
47 48 3.139077 GTTTCGTCCCACATATGATCCC 58.861 50.000 10.38 0.00 0.00 3.85
48 49 3.139077 GGTTTCGTCCCACATATGATCC 58.861 50.000 10.38 0.00 0.00 3.36
49 50 3.804036 TGGTTTCGTCCCACATATGATC 58.196 45.455 10.38 0.00 0.00 2.92
50 51 3.924114 TGGTTTCGTCCCACATATGAT 57.076 42.857 10.38 0.00 0.00 2.45
51 52 3.704800 TTGGTTTCGTCCCACATATGA 57.295 42.857 10.38 0.00 0.00 2.15
52 53 4.775058 TTTTGGTTTCGTCCCACATATG 57.225 40.909 0.00 0.00 0.00 1.78
53 54 5.993748 ATTTTTGGTTTCGTCCCACATAT 57.006 34.783 0.00 0.00 0.00 1.78
54 55 6.659668 TGATATTTTTGGTTTCGTCCCACATA 59.340 34.615 0.00 0.00 0.00 2.29
55 56 5.478679 TGATATTTTTGGTTTCGTCCCACAT 59.521 36.000 0.00 0.00 0.00 3.21
56 57 4.827835 TGATATTTTTGGTTTCGTCCCACA 59.172 37.500 0.00 0.00 0.00 4.17
57 58 5.379732 TGATATTTTTGGTTTCGTCCCAC 57.620 39.130 0.00 0.00 0.00 4.61
58 59 5.712446 TGATGATATTTTTGGTTTCGTCCCA 59.288 36.000 0.00 0.00 0.00 4.37
59 60 6.202516 TGATGATATTTTTGGTTTCGTCCC 57.797 37.500 0.00 0.00 0.00 4.46
60 61 6.198966 GCATGATGATATTTTTGGTTTCGTCC 59.801 38.462 0.00 0.00 0.00 4.79
61 62 6.974622 AGCATGATGATATTTTTGGTTTCGTC 59.025 34.615 0.00 0.00 0.00 4.20
62 63 6.753279 CAGCATGATGATATTTTTGGTTTCGT 59.247 34.615 4.56 0.00 39.69 3.85
63 64 6.753279 ACAGCATGATGATATTTTTGGTTTCG 59.247 34.615 19.60 0.00 39.69 3.46
64 65 9.585099 TTACAGCATGATGATATTTTTGGTTTC 57.415 29.630 19.60 0.00 39.69 2.78
77 78 9.975218 TCTATACCTACTATTACAGCATGATGA 57.025 33.333 19.60 0.00 39.69 2.92
114 115 7.576861 AGAAGTACTAGTTAAGAGGCATCTC 57.423 40.000 0.00 0.00 40.25 2.75
115 116 7.964666 AAGAAGTACTAGTTAAGAGGCATCT 57.035 36.000 0.00 0.00 37.39 2.90
116 117 7.707464 GGAAAGAAGTACTAGTTAAGAGGCATC 59.293 40.741 0.00 0.00 0.00 3.91
117 118 7.400627 AGGAAAGAAGTACTAGTTAAGAGGCAT 59.599 37.037 0.00 0.00 0.00 4.40
118 119 6.724905 AGGAAAGAAGTACTAGTTAAGAGGCA 59.275 38.462 0.00 0.00 0.00 4.75
119 120 7.123098 AGAGGAAAGAAGTACTAGTTAAGAGGC 59.877 40.741 0.00 0.00 0.00 4.70
120 121 8.463607 CAGAGGAAAGAAGTACTAGTTAAGAGG 58.536 40.741 0.00 0.00 0.00 3.69
121 122 9.233649 TCAGAGGAAAGAAGTACTAGTTAAGAG 57.766 37.037 0.00 0.00 0.00 2.85
122 123 9.584008 TTCAGAGGAAAGAAGTACTAGTTAAGA 57.416 33.333 0.00 0.00 0.00 2.10
130 131 9.495572 CAAGTATTTTCAGAGGAAAGAAGTACT 57.504 33.333 0.00 0.00 43.47 2.73
134 135 8.012241 CGAACAAGTATTTTCAGAGGAAAGAAG 58.988 37.037 0.00 0.00 43.47 2.85
141 142 6.539649 TTCACGAACAAGTATTTTCAGAGG 57.460 37.500 0.00 0.00 0.00 3.69
142 143 7.475565 CGATTTCACGAACAAGTATTTTCAGAG 59.524 37.037 0.00 0.00 35.09 3.35
145 146 7.179927 TCGATTTCACGAACAAGTATTTTCA 57.820 32.000 0.00 0.00 39.34 2.69
154 155 3.741856 TCGGAAATCGATTTCACGAACAA 59.258 39.130 35.56 24.53 46.03 2.83
167 168 2.093658 TCCTCCCTTCTTTCGGAAATCG 60.094 50.000 3.24 0.00 40.90 3.34
178 179 1.437547 ACCCAAGTAGTCCTCCCTTCT 59.562 52.381 0.00 0.00 0.00 2.85
181 182 0.492276 ACACCCAAGTAGTCCTCCCT 59.508 55.000 0.00 0.00 0.00 4.20
183 184 0.613777 CCACACCCAAGTAGTCCTCC 59.386 60.000 0.00 0.00 0.00 4.30
210 221 3.624861 GCAGTCATCCTCTACAACATTGG 59.375 47.826 0.00 0.00 0.00 3.16
216 227 3.325870 CAAACGCAGTCATCCTCTACAA 58.674 45.455 0.00 0.00 45.00 2.41
233 247 5.355910 TGTGGTTACTTGACTCTTTCCAAAC 59.644 40.000 0.00 0.00 0.00 2.93
250 264 6.091718 TGCATATATACTTCGCTGTGGTTA 57.908 37.500 0.00 0.00 0.00 2.85
271 285 1.321805 TACTTGGGGCACATGCATGC 61.322 55.000 26.53 15.36 45.34 4.06
280 294 0.897863 GCCAACATGTACTTGGGGCA 60.898 55.000 27.32 0.00 39.55 5.36
281 295 0.897863 TGCCAACATGTACTTGGGGC 60.898 55.000 26.37 26.37 38.96 5.80
290 304 1.330234 TGCTGTGAATGCCAACATGT 58.670 45.000 0.00 0.00 36.36 3.21
291 305 2.665649 ATGCTGTGAATGCCAACATG 57.334 45.000 0.00 0.00 36.36 3.21
359 376 3.111838 CGCAACTAGATGCTCACTGTAG 58.888 50.000 21.02 1.22 44.21 2.74
430 447 0.661187 TACTGACGCGTCAAACCGAC 60.661 55.000 38.11 13.20 39.39 4.79
445 462 7.312899 AGGTTTCAAACACTTTCTTGTTACTG 58.687 34.615 1.93 0.00 38.82 2.74
446 463 7.462571 AGGTTTCAAACACTTTCTTGTTACT 57.537 32.000 1.93 0.00 38.82 2.24
457 491 7.418337 AATTAGTGGAAAGGTTTCAAACACT 57.582 32.000 1.93 13.75 39.16 3.55
469 503 5.291971 AGCACAAGCAAAATTAGTGGAAAG 58.708 37.500 0.00 0.00 45.49 2.62
528 562 4.536765 AGTGTTTCTTTTCAGACCCATGT 58.463 39.130 0.00 0.00 0.00 3.21
529 563 4.823989 AGAGTGTTTCTTTTCAGACCCATG 59.176 41.667 0.00 0.00 29.61 3.66
561 599 8.879427 TCTTCCAGAACGATCCTCATATATAA 57.121 34.615 0.00 0.00 0.00 0.98
562 600 8.879427 TTCTTCCAGAACGATCCTCATATATA 57.121 34.615 0.00 0.00 0.00 0.86
563 601 7.578571 GCTTCTTCCAGAACGATCCTCATATAT 60.579 40.741 0.00 0.00 29.89 0.86
564 602 6.294787 GCTTCTTCCAGAACGATCCTCATATA 60.295 42.308 0.00 0.00 29.89 0.86
593 631 6.116126 ACCGAGAATAATGGAGAAAAAGGAG 58.884 40.000 0.00 0.00 0.00 3.69
596 634 6.404734 CCCAACCGAGAATAATGGAGAAAAAG 60.405 42.308 0.00 0.00 32.82 2.27
597 635 5.417580 CCCAACCGAGAATAATGGAGAAAAA 59.582 40.000 0.00 0.00 32.82 1.94
609 675 1.998530 TGGATGCCCAACCGAGAAT 59.001 52.632 0.00 0.00 40.09 2.40
654 726 2.027003 AACAAAAGTGGACGGACGAA 57.973 45.000 0.00 0.00 0.00 3.85
666 738 4.698304 TCCCTTCGCCTGTATAAACAAAAG 59.302 41.667 0.00 0.00 34.49 2.27
676 748 2.569853 TCATTTTCTCCCTTCGCCTGTA 59.430 45.455 0.00 0.00 0.00 2.74
814 2731 4.516323 GTCTTGCCGGGTTAATTAGGTTA 58.484 43.478 2.18 0.00 0.00 2.85
827 2744 0.107017 AATGAGATGGGTCTTGCCGG 60.107 55.000 0.00 0.00 38.44 6.13
847 2779 7.978975 GCATATATATGGTGGAGAAGAAGAGAC 59.021 40.741 21.50 0.00 34.32 3.36
863 2795 3.554731 CAGAGCTGGTGCGCATATATATG 59.445 47.826 15.91 17.01 45.42 1.78
864 2796 3.196469 ACAGAGCTGGTGCGCATATATAT 59.804 43.478 15.91 0.00 45.42 0.86
970 2934 0.322975 CTCTCCTGGTCTTGGTGTGG 59.677 60.000 0.00 0.00 0.00 4.17
982 2968 3.260740 GCATGTTTGTCTCTCTCTCCTG 58.739 50.000 0.00 0.00 0.00 3.86
983 2969 2.094286 CGCATGTTTGTCTCTCTCTCCT 60.094 50.000 0.00 0.00 0.00 3.69
984 2970 2.266554 CGCATGTTTGTCTCTCTCTCC 58.733 52.381 0.00 0.00 0.00 3.71
985 2971 2.920490 GACGCATGTTTGTCTCTCTCTC 59.080 50.000 0.00 0.00 32.37 3.20
986 2972 2.353208 GGACGCATGTTTGTCTCTCTCT 60.353 50.000 12.46 0.00 35.45 3.10
987 2973 1.996191 GGACGCATGTTTGTCTCTCTC 59.004 52.381 12.46 0.00 35.45 3.20
988 2974 1.670087 CGGACGCATGTTTGTCTCTCT 60.670 52.381 12.46 0.00 35.45 3.10
989 2975 0.716108 CGGACGCATGTTTGTCTCTC 59.284 55.000 12.46 0.00 35.45 3.20
990 2976 1.291877 GCGGACGCATGTTTGTCTCT 61.292 55.000 12.31 0.00 41.49 3.10
991 2977 1.132640 GCGGACGCATGTTTGTCTC 59.867 57.895 12.31 4.90 41.49 3.36
992 2978 2.325082 GGCGGACGCATGTTTGTCT 61.325 57.895 18.95 0.00 44.11 3.41
993 2979 2.175811 GGCGGACGCATGTTTGTC 59.824 61.111 18.95 0.37 44.11 3.18
994 2980 2.593148 TGGCGGACGCATGTTTGT 60.593 55.556 18.95 0.00 44.11 2.83
995 2981 2.126888 GTGGCGGACGCATGTTTG 60.127 61.111 18.95 0.00 44.11 2.93
1008 2994 4.162690 AGGCGAAGATCCCGTGGC 62.163 66.667 6.92 0.00 0.00 5.01
1009 2995 2.107141 GAGGCGAAGATCCCGTGG 59.893 66.667 6.92 0.00 0.00 4.94
1698 6318 1.630126 CCAGGTATGGCTCCAGCTGT 61.630 60.000 13.81 0.00 40.52 4.40
1728 6348 2.123854 TCCCTGTCCCTCCGATCG 60.124 66.667 8.51 8.51 0.00 3.69
1736 6356 1.127343 CATCTTCTCCTCCCTGTCCC 58.873 60.000 0.00 0.00 0.00 4.46
1794 6414 0.804364 CCACGTAGCGGTAGTACACA 59.196 55.000 2.06 0.00 0.00 3.72
1936 6630 8.245701 TGGTAGTTGTGTTTGAATTTTTGTTC 57.754 30.769 0.00 0.00 0.00 3.18
1984 6884 9.070179 CATGTGATGGTCCAGAAATGAAATATA 57.930 33.333 0.00 0.00 0.00 0.86
2177 7518 0.380378 GGACTTGTGCGCTCAACAAA 59.620 50.000 20.10 1.09 0.00 2.83
2181 7522 2.472695 AATAGGACTTGTGCGCTCAA 57.527 45.000 22.20 22.20 0.00 3.02
2212 7553 0.881118 CCACACCATGCAGTAACCAC 59.119 55.000 0.00 0.00 0.00 4.16
2218 7559 2.014010 AAATTCCCACACCATGCAGT 57.986 45.000 0.00 0.00 0.00 4.40
2219 7560 7.707624 ATATATAAATTCCCACACCATGCAG 57.292 36.000 0.00 0.00 0.00 4.41
2278 7866 1.255882 TGCGGACCTGCAAATTGAAT 58.744 45.000 8.30 0.00 43.02 2.57
2358 7947 3.184382 AGGATTTGGGGAAACGGAAAT 57.816 42.857 0.00 0.00 0.00 2.17
2398 7993 9.399403 GAATAAGACTTCGCTTTCAAGAAAAAT 57.601 29.630 0.00 0.00 0.00 1.82
2453 8051 5.035443 CACGATCTAAAGACCCTAAAGTCG 58.965 45.833 0.00 0.00 41.83 4.18
2455 8053 5.479375 TGACACGATCTAAAGACCCTAAAGT 59.521 40.000 0.00 0.00 0.00 2.66
2456 8054 5.962433 TGACACGATCTAAAGACCCTAAAG 58.038 41.667 0.00 0.00 0.00 1.85
2457 8055 5.713389 TCTGACACGATCTAAAGACCCTAAA 59.287 40.000 0.00 0.00 0.00 1.85
2460 8058 3.698289 TCTGACACGATCTAAAGACCCT 58.302 45.455 0.00 0.00 0.00 4.34
2461 8059 4.363999 CATCTGACACGATCTAAAGACCC 58.636 47.826 0.00 0.00 0.00 4.46
2462 8060 4.142138 ACCATCTGACACGATCTAAAGACC 60.142 45.833 0.00 0.00 0.00 3.85
2463 8061 5.000012 ACCATCTGACACGATCTAAAGAC 58.000 43.478 0.00 0.00 0.00 3.01
2464 8062 6.038382 GTCTACCATCTGACACGATCTAAAGA 59.962 42.308 0.00 0.00 33.75 2.52
2465 8063 6.202937 GTCTACCATCTGACACGATCTAAAG 58.797 44.000 0.00 0.00 33.75 1.85
2466 8064 5.067413 GGTCTACCATCTGACACGATCTAAA 59.933 44.000 0.00 0.00 35.11 1.85
2467 8065 4.579340 GGTCTACCATCTGACACGATCTAA 59.421 45.833 0.00 0.00 35.11 2.10
2468 8066 4.135306 GGTCTACCATCTGACACGATCTA 58.865 47.826 0.00 0.00 35.11 1.98
2469 8067 2.952978 GGTCTACCATCTGACACGATCT 59.047 50.000 0.00 0.00 35.11 2.75
2470 8068 2.688446 TGGTCTACCATCTGACACGATC 59.312 50.000 0.00 0.00 42.01 3.69
2491 9489 6.126883 TGGAATTTCTAGATGTCCACGGTTAT 60.127 38.462 13.07 0.00 33.43 1.89
2602 9603 2.293122 CGTTTTTCTCCATGTCCTGCAA 59.707 45.455 0.00 0.00 0.00 4.08
2675 9676 9.622004 CTAATAATCAATGCCTATTTTGCTGAG 57.378 33.333 0.00 0.00 0.00 3.35
2688 9689 5.479306 TCGACCCTAGCTAATAATCAATGC 58.521 41.667 0.00 0.00 0.00 3.56
2784 9793 4.651778 TGCAAGGCATCTAATATGGGTAC 58.348 43.478 0.00 0.00 31.71 3.34
2818 9838 4.442706 ACTGGACGTGCTCCTTTATTATG 58.557 43.478 8.99 0.00 40.26 1.90
2962 10023 0.763652 CAGCAGCTGGATGGTCCTAT 59.236 55.000 17.12 0.00 37.46 2.57
3186 10247 2.832838 TCATGGTACCAGTGATGTCCT 58.167 47.619 21.41 0.00 0.00 3.85
3202 10267 3.915536 AGTCTGATCTCGCATCATCATG 58.084 45.455 0.00 0.00 0.00 3.07
3244 10309 3.446873 AGTTGAATAAATTCATGCCGGCA 59.553 39.130 34.80 34.80 45.30 5.69
3326 10391 0.807496 ATCGGCTGCTTCTGAAAAGC 59.193 50.000 13.59 13.59 43.29 3.51
3416 10482 5.242838 TCACAATGACCATAAACTTCCAACC 59.757 40.000 0.00 0.00 0.00 3.77
3433 10499 2.613691 GCAGGCCTTTCAATCACAATG 58.386 47.619 0.00 0.00 0.00 2.82
3478 10545 3.084039 TGCCTGAGTAAAGCCATTCAAG 58.916 45.455 0.00 0.00 0.00 3.02
3526 10593 3.709653 TCATAGACGCCTAAACCTCCATT 59.290 43.478 0.00 0.00 0.00 3.16
3586 10653 8.846211 CATTTTAACTCACTTTTCTTGTAGGGA 58.154 33.333 0.00 0.00 0.00 4.20
3618 10752 5.773575 CACATAGTAGTCAGACAACACACT 58.226 41.667 2.66 0.82 0.00 3.55
3623 10757 4.092091 GCAAGCACATAGTAGTCAGACAAC 59.908 45.833 2.66 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.