Multiple sequence alignment - TraesCS1D01G413900

Loading Multiple Alignment...

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 TraesCS1D01G413900 chr1D 100.000 3158 0 0 1 3158 474109981 474113138 0.000000e+00 5832.0
1 TraesCS1D01G413900 chr1D 90.874 1293 87 23 1117 2393 474055647 474056924 0.000000e+00 1705.0
2 TraesCS1D01G413900 chr1D 81.333 600 67 26 336 920 474054561 474055130 2.230000e-121 446.0
3 TraesCS1D01G413900 chr1D 99.219 128 1 0 990 1117 474055485 474055612 6.810000e-57 231.0
4 TraesCS1D01G413900 chr1D 81.982 111 17 3 123 231 450204690 450204799 1.210000e-14 91.6
5 TraesCS1D01G413900 chr1A 94.307 1985 84 9 1152 3115 568546465 568548441 0.000000e+00 3013.0
6 TraesCS1D01G413900 chr1A 84.864 588 64 16 336 905 568545391 568545971 1.270000e-158 569.0
7 TraesCS1D01G413900 chr1A 80.156 257 46 3 2466 2717 241348877 241349133 1.500000e-43 187.0
8 TraesCS1D01G413900 chr1A 95.495 111 4 1 988 1097 568546354 568546464 3.240000e-40 176.0
9 TraesCS1D01G413900 chr1A 85.542 166 20 1 2249 2410 568552827 568552992 1.510000e-38 171.0
10 TraesCS1D01G413900 chr1A 87.778 90 8 2 2718 2805 30331159 30331247 5.570000e-18 102.0
11 TraesCS1D01G413900 chr1A 100.000 44 0 0 3114 3157 568548482 568548525 7.260000e-12 82.4
12 TraesCS1D01G413900 chr1B 92.048 1333 76 15 1145 2464 659557478 659558793 0.000000e+00 1847.0
13 TraesCS1D01G413900 chr1B 83.636 605 65 24 336 920 659556427 659557017 3.580000e-149 538.0
14 TraesCS1D01G413900 chr1B 87.108 287 21 6 2841 3119 659558843 659559121 8.510000e-81 311.0
15 TraesCS1D01G413900 chr1B 98.165 109 1 1 990 1097 659557371 659557479 4.160000e-44 189.0
16 TraesCS1D01G413900 chr1B 97.143 35 1 0 1117 1151 648995192 648995158 3.400000e-05 60.2
17 TraesCS1D01G413900 chr4D 81.829 820 101 28 1152 1951 494073650 494074441 0.000000e+00 645.0
18 TraesCS1D01G413900 chr4D 81.032 717 89 32 1464 2160 494056894 494057583 7.760000e-146 527.0
19 TraesCS1D01G413900 chr4D 79.808 728 92 40 1453 2160 493978535 493979227 2.200000e-131 479.0
20 TraesCS1D01G413900 chr4D 81.469 599 63 18 336 907 494055437 494056014 6.210000e-122 448.0
21 TraesCS1D01G413900 chr4D 82.329 498 68 12 1466 1951 494101826 494102315 6.300000e-112 414.0
22 TraesCS1D01G413900 chr4D 83.978 362 39 8 558 909 494100422 494100774 2.350000e-86 329.0
23 TraesCS1D01G413900 chr4B 81.077 724 98 25 1453 2160 633149013 633149713 2.770000e-150 542.0
24 TraesCS1D01G413900 chr4B 79.777 717 94 27 1455 2160 633288869 633289545 1.030000e-129 473.0
25 TraesCS1D01G413900 chr4B 82.047 596 68 16 336 907 633147458 633148038 3.690000e-129 472.0
26 TraesCS1D01G413900 chr4B 82.569 545 56 22 389 907 633327465 633327996 8.040000e-121 444.0
27 TraesCS1D01G413900 chr4B 80.333 600 64 30 336 909 632871474 632872045 3.790000e-109 405.0
28 TraesCS1D01G413900 chr4B 80.034 586 78 28 1586 2160 632874995 632875552 6.350000e-107 398.0
29 TraesCS1D01G413900 chr4B 87.732 269 33 0 1152 1420 633288494 633288762 6.580000e-82 315.0
30 TraesCS1D01G413900 chr4B 87.500 112 12 2 988 1097 633148400 633148511 9.190000e-26 128.0
31 TraesCS1D01G413900 chr5A 80.966 725 98 27 1453 2160 673558932 673559633 3.580000e-149 538.0
32 TraesCS1D01G413900 chr5A 80.672 714 91 26 1466 2160 673692693 673693378 7.810000e-141 510.0
33 TraesCS1D01G413900 chr5A 82.594 586 61 15 350 907 673557498 673558070 2.200000e-131 479.0
34 TraesCS1D01G413900 chr5A 87.069 348 35 4 2465 2804 603777880 603777535 4.940000e-103 385.0
35 TraesCS1D01G413900 chr5A 87.452 263 28 2 1152 1414 673692175 673692432 6.620000e-77 298.0
36 TraesCS1D01G413900 chr5A 89.011 182 20 0 53 234 397513799 397513980 3.170000e-55 226.0
37 TraesCS1D01G413900 chr5A 87.500 112 12 2 988 1097 673558448 673558559 9.190000e-26 128.0
38 TraesCS1D01G413900 chr7D 89.744 351 26 4 2465 2807 82443165 82442817 1.040000e-119 440.0
39 TraesCS1D01G413900 chr7D 78.488 172 25 9 2647 2809 49658589 49658757 5.570000e-18 102.0
40 TraesCS1D01G413900 chr3B 88.920 352 27 6 2465 2808 691713107 691713454 1.050000e-114 424.0
41 TraesCS1D01G413900 chr3B 88.559 236 19 2 2581 2808 29689879 29689644 2.400000e-71 279.0
42 TraesCS1D01G413900 chr3B 97.436 39 1 0 1117 1155 793269172 793269210 2.030000e-07 67.6
43 TraesCS1D01G413900 chr3B 100.000 33 0 0 1117 1149 39091895 39091863 9.460000e-06 62.1
44 TraesCS1D01G413900 chr5B 85.303 347 31 12 2465 2804 559112307 559111974 1.080000e-89 340.0
45 TraesCS1D01G413900 chr5B 83.476 351 31 7 2465 2807 440219106 440218775 5.120000e-78 302.0
46 TraesCS1D01G413900 chr5B 84.615 182 26 2 53 233 149242041 149241861 2.500000e-41 180.0
47 TraesCS1D01G413900 chr6A 84.795 342 32 8 2465 2798 454847282 454846953 3.040000e-85 326.0
48 TraesCS1D01G413900 chr6A 97.143 35 1 0 1117 1151 563554351 563554317 3.400000e-05 60.2
49 TraesCS1D01G413900 chr4A 82.727 330 29 7 1 315 698010213 698009897 5.190000e-68 268.0
50 TraesCS1D01G413900 chr4A 100.000 33 0 0 1117 1149 650858871 650858903 9.460000e-06 62.1
51 TraesCS1D01G413900 chr4A 100.000 33 0 0 1117 1149 672281277 672281245 9.460000e-06 62.1
52 TraesCS1D01G413900 chr2D 83.007 153 18 2 2660 2804 483153946 483154098 7.110000e-27 132.0
53 TraesCS1D01G413900 chr2D 97.436 39 0 1 1117 1155 587203133 587203096 7.310000e-07 65.8
54 TraesCS1D01G413900 chr2B 97.222 36 1 0 1117 1152 779346842 779346877 9.460000e-06 62.1
55 TraesCS1D01G413900 chr3A 87.500 48 4 2 2929 2976 722508158 722508203 2.000000e-03 54.7


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 TraesCS1D01G413900 chr1D 474109981 474113138 3157 False 5832.000000 5832 100.000000 1 3158 1 chr1D.!!$F2 3157
1 TraesCS1D01G413900 chr1D 474054561 474056924 2363 False 794.000000 1705 90.475333 336 2393 3 chr1D.!!$F3 2057
2 TraesCS1D01G413900 chr1A 568545391 568548525 3134 False 960.100000 3013 93.666500 336 3157 4 chr1A.!!$F4 2821
3 TraesCS1D01G413900 chr1B 659556427 659559121 2694 False 721.250000 1847 90.239250 336 3119 4 chr1B.!!$F1 2783
4 TraesCS1D01G413900 chr4D 494073650 494074441 791 False 645.000000 645 81.829000 1152 1951 1 chr4D.!!$F2 799
5 TraesCS1D01G413900 chr4D 494055437 494057583 2146 False 487.500000 527 81.250500 336 2160 2 chr4D.!!$F3 1824
6 TraesCS1D01G413900 chr4D 493978535 493979227 692 False 479.000000 479 79.808000 1453 2160 1 chr4D.!!$F1 707
7 TraesCS1D01G413900 chr4D 494100422 494102315 1893 False 371.500000 414 83.153500 558 1951 2 chr4D.!!$F4 1393
8 TraesCS1D01G413900 chr4B 633327465 633327996 531 False 444.000000 444 82.569000 389 907 1 chr4B.!!$F1 518
9 TraesCS1D01G413900 chr4B 632871474 632875552 4078 False 401.500000 405 80.183500 336 2160 2 chr4B.!!$F2 1824
10 TraesCS1D01G413900 chr4B 633288494 633289545 1051 False 394.000000 473 83.754500 1152 2160 2 chr4B.!!$F4 1008
11 TraesCS1D01G413900 chr4B 633147458 633149713 2255 False 380.666667 542 83.541333 336 2160 3 chr4B.!!$F3 1824
12 TraesCS1D01G413900 chr5A 673692175 673693378 1203 False 404.000000 510 84.062000 1152 2160 2 chr5A.!!$F3 1008
13 TraesCS1D01G413900 chr5A 673557498 673559633 2135 False 381.666667 538 83.686667 350 2160 3 chr5A.!!$F2 1810

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
972 1030 0.035317 AACATTGGCGACTGAGCTGA 59.965 50.0 0.0 0.0 37.29 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2692 5519 0.030638 CGTGAACAAGGTGCCCAAAG 59.969 55.0 0.0 0.0 0.0 2.77 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
32 33 4.148825 CTCCCCACGGCGAGGAAG 62.149 72.222 25.15 16.64 0.00 3.46
33 34 4.689549 TCCCCACGGCGAGGAAGA 62.690 66.667 25.15 17.18 0.00 2.87
34 35 4.452733 CCCCACGGCGAGGAAGAC 62.453 72.222 25.15 0.00 0.00 3.01
39 40 3.132139 CGGCGAGGAAGACGGAGA 61.132 66.667 0.00 0.00 39.34 3.71
40 41 2.802106 GGCGAGGAAGACGGAGAG 59.198 66.667 0.00 0.00 0.00 3.20
41 42 2.776913 GGCGAGGAAGACGGAGAGG 61.777 68.421 0.00 0.00 0.00 3.69
42 43 1.749638 GCGAGGAAGACGGAGAGGA 60.750 63.158 0.00 0.00 0.00 3.71
43 44 1.720694 GCGAGGAAGACGGAGAGGAG 61.721 65.000 0.00 0.00 0.00 3.69
44 45 1.098712 CGAGGAAGACGGAGAGGAGG 61.099 65.000 0.00 0.00 0.00 4.30
45 46 1.380650 AGGAAGACGGAGAGGAGGC 60.381 63.158 0.00 0.00 0.00 4.70
46 47 2.776913 GGAAGACGGAGAGGAGGCG 61.777 68.421 0.00 0.00 0.00 5.52
47 48 2.756283 AAGACGGAGAGGAGGCGG 60.756 66.667 0.00 0.00 0.00 6.13
48 49 4.824515 AGACGGAGAGGAGGCGGG 62.825 72.222 0.00 0.00 0.00 6.13
79 80 4.521062 CCGCAGAAGAGGCCGGAG 62.521 72.222 5.05 0.00 0.00 4.63
80 81 3.452786 CGCAGAAGAGGCCGGAGA 61.453 66.667 5.05 0.00 0.00 3.71
81 82 2.498726 GCAGAAGAGGCCGGAGAG 59.501 66.667 5.05 0.00 0.00 3.20
82 83 2.498726 CAGAAGAGGCCGGAGAGC 59.501 66.667 5.05 0.00 0.00 4.09
93 94 2.897350 GGAGAGCCAAATCCGCCG 60.897 66.667 0.00 0.00 0.00 6.46
94 95 3.577313 GAGAGCCAAATCCGCCGC 61.577 66.667 0.00 0.00 0.00 6.53
160 161 4.161976 CGCGCGACCGAAGAGAGA 62.162 66.667 28.94 0.00 36.29 3.10
161 162 2.277628 GCGCGACCGAAGAGAGAG 60.278 66.667 12.10 0.00 36.29 3.20
162 163 2.405594 CGCGACCGAAGAGAGAGG 59.594 66.667 0.00 0.00 36.29 3.69
163 164 2.103340 GCGACCGAAGAGAGAGGC 59.897 66.667 0.00 0.00 0.00 4.70
164 165 2.802106 CGACCGAAGAGAGAGGCC 59.198 66.667 0.00 0.00 0.00 5.19
165 166 2.776913 CGACCGAAGAGAGAGGCCC 61.777 68.421 0.00 0.00 0.00 5.80
166 167 2.756283 ACCGAAGAGAGAGGCCCG 60.756 66.667 0.00 0.00 0.00 6.13
167 168 4.214327 CCGAAGAGAGAGGCCCGC 62.214 72.222 0.00 0.00 0.00 6.13
168 169 4.214327 CGAAGAGAGAGGCCCGCC 62.214 72.222 0.00 0.00 0.00 6.13
169 170 4.214327 GAAGAGAGAGGCCCGCCG 62.214 72.222 0.00 0.00 41.95 6.46
256 257 2.668144 TTTTTCAGTAGGTGGGGGTG 57.332 50.000 0.00 0.00 0.00 4.61
257 258 0.774908 TTTTCAGTAGGTGGGGGTGG 59.225 55.000 0.00 0.00 0.00 4.61
258 259 1.785353 TTTCAGTAGGTGGGGGTGGC 61.785 60.000 0.00 0.00 0.00 5.01
259 260 4.096003 CAGTAGGTGGGGGTGGCG 62.096 72.222 0.00 0.00 0.00 5.69
275 276 2.824041 CGGCAGCGGCATTAGGTT 60.824 61.111 11.88 0.00 43.71 3.50
276 277 2.406616 CGGCAGCGGCATTAGGTTT 61.407 57.895 11.88 0.00 43.71 3.27
277 278 1.433471 GGCAGCGGCATTAGGTTTC 59.567 57.895 11.88 0.00 43.71 2.78
278 279 1.312371 GGCAGCGGCATTAGGTTTCA 61.312 55.000 11.88 0.00 43.71 2.69
279 280 0.179163 GCAGCGGCATTAGGTTTCAC 60.179 55.000 3.18 0.00 40.72 3.18
280 281 0.451783 CAGCGGCATTAGGTTTCACC 59.548 55.000 1.45 0.00 38.99 4.02
281 282 0.679960 AGCGGCATTAGGTTTCACCC 60.680 55.000 1.45 0.00 39.75 4.61
282 283 0.963355 GCGGCATTAGGTTTCACCCA 60.963 55.000 0.00 0.00 39.75 4.51
283 284 1.540267 CGGCATTAGGTTTCACCCAA 58.460 50.000 0.00 0.00 39.75 4.12
284 285 1.472480 CGGCATTAGGTTTCACCCAAG 59.528 52.381 0.00 0.00 39.75 3.61
285 286 1.204704 GGCATTAGGTTTCACCCAAGC 59.795 52.381 0.00 0.00 39.75 4.01
286 287 1.204704 GCATTAGGTTTCACCCAAGCC 59.795 52.381 0.00 0.00 39.75 4.35
287 288 1.472480 CATTAGGTTTCACCCAAGCCG 59.528 52.381 0.00 0.00 40.34 5.52
288 289 0.891904 TTAGGTTTCACCCAAGCCGC 60.892 55.000 0.00 0.00 40.34 6.53
289 290 2.757980 TAGGTTTCACCCAAGCCGCC 62.758 60.000 0.00 0.00 40.34 6.13
290 291 3.680786 GTTTCACCCAAGCCGCCC 61.681 66.667 0.00 0.00 0.00 6.13
291 292 4.986708 TTTCACCCAAGCCGCCCC 62.987 66.667 0.00 0.00 0.00 5.80
311 312 4.421479 CTGGAGAGCGACGCGGTT 62.421 66.667 15.18 3.66 37.83 4.44
312 313 4.717629 TGGAGAGCGACGCGGTTG 62.718 66.667 15.18 0.00 37.83 3.77
319 320 3.281395 CGACGCGGTTGGGGTTTT 61.281 61.111 12.47 0.00 42.62 2.43
320 321 2.836793 CGACGCGGTTGGGGTTTTT 61.837 57.895 12.47 0.00 42.62 1.94
345 346 5.914898 TCCTCTCTCATCGTAAAATGACA 57.085 39.130 0.00 0.00 32.36 3.58
368 369 2.162319 TGCTGATGCGTTACTGAACA 57.838 45.000 0.00 0.00 43.34 3.18
401 402 4.879545 TCACTGTCAGTTTTCACTAAACCC 59.120 41.667 1.67 0.00 45.92 4.11
413 414 8.581578 GTTTTCACTAAACCCCTGATATTTCAA 58.418 33.333 0.00 0.00 40.21 2.69
480 497 4.271807 ACAATCCTGAGATGTCCTAGGA 57.728 45.455 7.62 7.62 43.01 2.94
522 540 5.978934 TCGAAGGAAAAGTTACTTGTGTC 57.021 39.130 0.00 0.00 0.00 3.67
528 546 8.570068 AAGGAAAAGTTACTTGTGTCAGTAAA 57.430 30.769 0.00 0.00 40.24 2.01
529 547 7.982224 AGGAAAAGTTACTTGTGTCAGTAAAC 58.018 34.615 0.00 0.00 40.24 2.01
530 548 7.608761 AGGAAAAGTTACTTGTGTCAGTAAACA 59.391 33.333 0.00 0.00 40.24 2.83
531 549 8.238631 GGAAAAGTTACTTGTGTCAGTAAACAA 58.761 33.333 0.00 0.00 40.24 2.83
532 550 9.783256 GAAAAGTTACTTGTGTCAGTAAACAAT 57.217 29.630 0.00 0.00 40.24 2.71
560 599 5.716094 TGCTGATTTCGCTAGTACTTTGTA 58.284 37.500 0.00 0.00 0.00 2.41
590 629 8.238631 GTGTCTAGTTTCTAAACCTCTGACTAG 58.761 40.741 2.02 0.00 39.71 2.57
607 646 7.551585 TCTGACTAGTTCTGATTCAAATCTCC 58.448 38.462 0.00 0.00 36.39 3.71
623 662 0.181114 CTCCGGGATGCCATTCTTGA 59.819 55.000 3.39 0.00 0.00 3.02
630 669 3.708121 GGGATGCCATTCTTGAAGGAATT 59.292 43.478 0.00 0.00 34.15 2.17
710 749 5.519927 GGCTGGTTTGTATATGCAAATGTTC 59.480 40.000 19.86 8.68 40.01 3.18
711 750 6.098679 GCTGGTTTGTATATGCAAATGTTCA 58.901 36.000 19.86 14.57 40.01 3.18
712 751 6.757947 GCTGGTTTGTATATGCAAATGTTCAT 59.242 34.615 19.86 0.00 40.01 2.57
713 752 7.920151 GCTGGTTTGTATATGCAAATGTTCATA 59.080 33.333 19.86 0.00 40.01 2.15
714 753 9.970395 CTGGTTTGTATATGCAAATGTTCATAT 57.030 29.630 19.86 0.00 40.01 1.78
871 917 2.254546 TGATATAAAGGCAGGCACCG 57.745 50.000 0.00 0.00 33.69 4.94
873 919 0.843984 ATATAAAGGCAGGCACCGGT 59.156 50.000 0.00 0.00 33.69 5.28
909 967 8.049117 TCTGGATTGACTAACTGCAAATCTATT 58.951 33.333 5.32 0.00 0.00 1.73
927 985 8.970691 AATCTATTTGAAGTATTTGTGTGTGC 57.029 30.769 0.00 0.00 0.00 4.57
928 986 6.598525 TCTATTTGAAGTATTTGTGTGTGCG 58.401 36.000 0.00 0.00 0.00 5.34
931 989 3.462982 TGAAGTATTTGTGTGTGCGTCT 58.537 40.909 0.00 0.00 0.00 4.18
932 990 4.623002 TGAAGTATTTGTGTGTGCGTCTA 58.377 39.130 0.00 0.00 0.00 2.59
933 991 4.684242 TGAAGTATTTGTGTGTGCGTCTAG 59.316 41.667 0.00 0.00 0.00 2.43
936 994 3.878086 ATTTGTGTGTGCGTCTAGTTG 57.122 42.857 0.00 0.00 0.00 3.16
937 995 0.934496 TTGTGTGTGCGTCTAGTTGC 59.066 50.000 2.59 2.59 0.00 4.17
939 997 1.217882 GTGTGTGCGTCTAGTTGCTT 58.782 50.000 9.68 0.00 0.00 3.91
941 999 1.217882 GTGTGCGTCTAGTTGCTTGT 58.782 50.000 9.68 0.00 0.00 3.16
942 1000 1.070577 GTGTGCGTCTAGTTGCTTGTG 60.071 52.381 9.68 0.00 0.00 3.33
944 1002 1.457303 GTGCGTCTAGTTGCTTGTGAG 59.543 52.381 9.68 0.00 0.00 3.51
945 1003 1.071605 GCGTCTAGTTGCTTGTGAGG 58.928 55.000 2.36 0.00 0.00 3.86
947 1005 2.600731 CGTCTAGTTGCTTGTGAGGAG 58.399 52.381 0.00 0.00 0.00 3.69
948 1006 2.672478 CGTCTAGTTGCTTGTGAGGAGG 60.672 54.545 0.00 0.00 0.00 4.30
953 1011 2.144952 TGCTTGTGAGGAGGAGCAA 58.855 52.632 0.00 0.00 41.72 3.91
954 1012 0.473755 TGCTTGTGAGGAGGAGCAAA 59.526 50.000 0.00 0.00 41.72 3.68
959 1017 2.507484 TGTGAGGAGGAGCAAACATTG 58.493 47.619 0.00 0.00 0.00 2.82
960 1018 1.815003 GTGAGGAGGAGCAAACATTGG 59.185 52.381 0.00 0.00 0.00 3.16
961 1019 0.813821 GAGGAGGAGCAAACATTGGC 59.186 55.000 0.00 0.00 0.00 4.52
962 1020 0.962356 AGGAGGAGCAAACATTGGCG 60.962 55.000 0.00 0.00 34.54 5.69
964 1022 0.169009 GAGGAGCAAACATTGGCGAC 59.831 55.000 0.00 0.00 34.54 5.19
965 1023 0.250901 AGGAGCAAACATTGGCGACT 60.251 50.000 0.00 0.00 34.54 4.18
966 1024 0.109597 GGAGCAAACATTGGCGACTG 60.110 55.000 0.00 0.00 34.54 3.51
967 1025 0.874390 GAGCAAACATTGGCGACTGA 59.126 50.000 0.00 0.00 34.54 3.41
968 1026 0.877071 AGCAAACATTGGCGACTGAG 59.123 50.000 0.00 0.00 34.54 3.35
969 1027 0.730494 GCAAACATTGGCGACTGAGC 60.730 55.000 0.00 0.00 0.00 4.26
970 1028 0.877071 CAAACATTGGCGACTGAGCT 59.123 50.000 0.00 0.00 37.29 4.09
971 1029 0.877071 AAACATTGGCGACTGAGCTG 59.123 50.000 0.00 0.00 37.29 4.24
972 1030 0.035317 AACATTGGCGACTGAGCTGA 59.965 50.000 0.00 0.00 37.29 4.26
973 1031 0.390866 ACATTGGCGACTGAGCTGAG 60.391 55.000 0.00 0.00 37.29 3.35
974 1032 0.108472 CATTGGCGACTGAGCTGAGA 60.108 55.000 7.36 0.00 37.29 3.27
975 1033 0.175302 ATTGGCGACTGAGCTGAGAG 59.825 55.000 7.36 1.39 37.29 3.20
976 1034 1.181741 TTGGCGACTGAGCTGAGAGT 61.182 55.000 7.36 0.00 37.29 3.24
977 1035 0.322546 TGGCGACTGAGCTGAGAGTA 60.323 55.000 7.36 0.00 37.29 2.59
978 1036 0.099791 GGCGACTGAGCTGAGAGTAC 59.900 60.000 7.36 0.00 37.29 2.73
979 1037 1.091537 GCGACTGAGCTGAGAGTACT 58.908 55.000 7.36 0.00 0.00 2.73
980 1038 1.470890 GCGACTGAGCTGAGAGTACTT 59.529 52.381 7.36 0.00 0.00 2.24
983 1041 3.057876 CGACTGAGCTGAGAGTACTTTGT 60.058 47.826 7.36 0.00 0.00 2.83
984 1042 4.233789 GACTGAGCTGAGAGTACTTTGTG 58.766 47.826 7.36 0.00 0.00 3.33
985 1043 3.639094 ACTGAGCTGAGAGTACTTTGTGT 59.361 43.478 7.36 0.00 0.00 3.72
986 1044 4.827835 ACTGAGCTGAGAGTACTTTGTGTA 59.172 41.667 7.36 0.00 0.00 2.90
1150 1578 2.433662 GGAACGGAGGGAGTAGTACT 57.566 55.000 1.37 1.37 0.00 2.73
1307 1868 8.890718 TGTTACTGTAGCTGTCTGTAACTATAG 58.109 37.037 29.48 0.00 43.66 1.31
1584 4341 4.090498 GGTACGTTCATCCGTCAGTTAAAC 59.910 45.833 0.00 0.00 42.00 2.01
1607 4364 6.877236 ACTGTTTGGTCTGAAAAATCACATT 58.123 32.000 0.00 0.00 0.00 2.71
1692 4450 1.123928 CTTCTCCTTCGGTATGGGCT 58.876 55.000 0.00 0.00 0.00 5.19
1693 4451 1.486726 CTTCTCCTTCGGTATGGGCTT 59.513 52.381 0.00 0.00 0.00 4.35
1982 4775 4.466726 GCTTTCTCTGTTCCCCTAGAGTAA 59.533 45.833 0.00 0.00 40.92 2.24
2127 4934 1.244816 CGGAAACCAAGGGAAGAACC 58.755 55.000 0.00 0.00 38.08 3.62
2409 5229 0.753262 GTACCATGGTCAGCCGAGAT 59.247 55.000 23.76 0.00 37.67 2.75
2410 5230 1.139058 GTACCATGGTCAGCCGAGATT 59.861 52.381 23.76 0.00 37.67 2.40
2508 5329 2.417924 CCAGATCCAGTTCCTTGAGTCG 60.418 54.545 0.00 0.00 0.00 4.18
2512 5333 0.388649 CCAGTTCCTTGAGTCGGACG 60.389 60.000 1.89 0.00 0.00 4.79
2602 5423 0.460311 AGATTCCGAGTGTTAGGGCG 59.540 55.000 0.00 0.00 0.00 6.13
2649 5476 1.753073 GGTCTGGGTAGTTTAGCGCTA 59.247 52.381 14.45 14.45 0.00 4.26
2663 5490 1.137086 AGCGCTATGTTGTACCTCCTG 59.863 52.381 8.99 0.00 0.00 3.86
2678 5505 2.559440 CTCCTGTTTAGGCTGAGCATC 58.441 52.381 6.82 0.00 44.22 3.91
2679 5506 1.210478 TCCTGTTTAGGCTGAGCATCC 59.790 52.381 6.82 0.00 44.22 3.51
2689 5516 1.134159 GCTGAGCATCCCATGTCTCTT 60.134 52.381 0.00 0.00 35.71 2.85
2692 5519 1.674962 GAGCATCCCATGTCTCTTTGC 59.325 52.381 0.00 0.00 33.55 3.68
2739 5573 1.447217 CATGCGATGCACCCCTCTA 59.553 57.895 0.00 0.00 43.04 2.43
2777 5611 8.759641 CAACTCCTTCTATCAATGAAAGATACG 58.240 37.037 0.00 0.00 0.00 3.06
2787 5621 5.048782 TCAATGAAAGATACGCAAGCTTTGT 60.049 36.000 6.36 0.58 45.62 2.83
2796 5630 1.250476 GCAAGCTTTGTGTATTCGCG 58.750 50.000 0.00 0.00 0.00 5.87
2800 5634 3.455619 AGCTTTGTGTATTCGCGAAAG 57.544 42.857 27.23 17.22 0.00 2.62
2830 5664 3.872771 GGTAAACGGAACAGAAGACACAA 59.127 43.478 0.00 0.00 0.00 3.33
2833 5667 3.753294 ACGGAACAGAAGACACAATCT 57.247 42.857 0.00 0.00 40.46 2.40
2909 5772 3.104519 TGATGGCCTTGGACAATGAAT 57.895 42.857 3.32 0.00 0.00 2.57
2916 5779 3.368739 GCCTTGGACAATGAATTTCAGGG 60.369 47.826 5.21 2.34 0.00 4.45
2957 5827 1.879480 TTGCACGTGTGTTGCAACT 59.121 47.368 28.61 6.80 42.65 3.16
3021 5891 3.069289 GTTCATTTCGGTTTAGGTCGGT 58.931 45.455 0.00 0.00 0.00 4.69
3023 5893 3.328505 TCATTTCGGTTTAGGTCGGTTC 58.671 45.455 0.00 0.00 0.00 3.62
3030 5900 2.477754 GGTTTAGGTCGGTTCTTTGTCG 59.522 50.000 0.00 0.00 0.00 4.35
3084 5954 4.412796 TCCAGTTCAATCCATAGCTCTG 57.587 45.455 0.00 0.00 0.00 3.35
3157 6069 3.884895 TCCACCTCGATTACCGTACTAA 58.115 45.455 0.00 0.00 39.75 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.689549 TCTTCCTCGCCGTGGGGA 62.690 66.667 5.24 0.00 34.06 4.81
17 18 4.452733 GTCTTCCTCGCCGTGGGG 62.453 72.222 5.24 0.00 0.00 4.96
18 19 4.796231 CGTCTTCCTCGCCGTGGG 62.796 72.222 5.24 0.00 0.00 4.61
19 20 4.796231 CCGTCTTCCTCGCCGTGG 62.796 72.222 0.00 0.00 0.00 4.94
20 21 3.685214 CTCCGTCTTCCTCGCCGTG 62.685 68.421 0.00 0.00 0.00 4.94
21 22 3.441290 CTCCGTCTTCCTCGCCGT 61.441 66.667 0.00 0.00 0.00 5.68
22 23 3.114647 CTCTCCGTCTTCCTCGCCG 62.115 68.421 0.00 0.00 0.00 6.46
23 24 2.776913 CCTCTCCGTCTTCCTCGCC 61.777 68.421 0.00 0.00 0.00 5.54
24 25 1.720694 CTCCTCTCCGTCTTCCTCGC 61.721 65.000 0.00 0.00 0.00 5.03
25 26 1.098712 CCTCCTCTCCGTCTTCCTCG 61.099 65.000 0.00 0.00 0.00 4.63
26 27 1.388837 GCCTCCTCTCCGTCTTCCTC 61.389 65.000 0.00 0.00 0.00 3.71
27 28 1.380650 GCCTCCTCTCCGTCTTCCT 60.381 63.158 0.00 0.00 0.00 3.36
28 29 2.776913 CGCCTCCTCTCCGTCTTCC 61.777 68.421 0.00 0.00 0.00 3.46
29 30 2.776913 CCGCCTCCTCTCCGTCTTC 61.777 68.421 0.00 0.00 0.00 2.87
30 31 2.756283 CCGCCTCCTCTCCGTCTT 60.756 66.667 0.00 0.00 0.00 3.01
31 32 4.824515 CCCGCCTCCTCTCCGTCT 62.825 72.222 0.00 0.00 0.00 4.18
62 63 4.521062 CTCCGGCCTCTTCTGCGG 62.521 72.222 0.00 0.00 0.00 5.69
63 64 3.423162 CTCTCCGGCCTCTTCTGCG 62.423 68.421 0.00 0.00 0.00 5.18
64 65 2.498726 CTCTCCGGCCTCTTCTGC 59.501 66.667 0.00 0.00 0.00 4.26
65 66 2.498726 GCTCTCCGGCCTCTTCTG 59.501 66.667 0.00 0.00 0.00 3.02
76 77 2.897350 CGGCGGATTTGGCTCTCC 60.897 66.667 0.00 0.00 0.00 3.71
77 78 3.577313 GCGGCGGATTTGGCTCTC 61.577 66.667 9.78 0.00 0.00 3.20
143 144 4.161976 TCTCTCTTCGGTCGCGCG 62.162 66.667 26.76 26.76 0.00 6.86
144 145 2.277628 CTCTCTCTTCGGTCGCGC 60.278 66.667 0.00 0.00 0.00 6.86
145 146 2.405594 CCTCTCTCTTCGGTCGCG 59.594 66.667 0.00 0.00 0.00 5.87
146 147 2.103340 GCCTCTCTCTTCGGTCGC 59.897 66.667 0.00 0.00 0.00 5.19
147 148 2.776913 GGGCCTCTCTCTTCGGTCG 61.777 68.421 0.84 0.00 0.00 4.79
148 149 2.776913 CGGGCCTCTCTCTTCGGTC 61.777 68.421 0.84 0.00 0.00 4.79
149 150 2.756283 CGGGCCTCTCTCTTCGGT 60.756 66.667 0.84 0.00 0.00 4.69
150 151 4.214327 GCGGGCCTCTCTCTTCGG 62.214 72.222 0.84 0.00 0.00 4.30
151 152 4.214327 GGCGGGCCTCTCTCTTCG 62.214 72.222 0.84 0.00 0.00 3.79
152 153 4.214327 CGGCGGGCCTCTCTCTTC 62.214 72.222 0.84 0.00 0.00 2.87
237 238 1.146152 CCACCCCCACCTACTGAAAAA 59.854 52.381 0.00 0.00 0.00 1.94
238 239 0.774908 CCACCCCCACCTACTGAAAA 59.225 55.000 0.00 0.00 0.00 2.29
239 240 1.785353 GCCACCCCCACCTACTGAAA 61.785 60.000 0.00 0.00 0.00 2.69
240 241 2.228480 GCCACCCCCACCTACTGAA 61.228 63.158 0.00 0.00 0.00 3.02
241 242 2.609610 GCCACCCCCACCTACTGA 60.610 66.667 0.00 0.00 0.00 3.41
242 243 4.096003 CGCCACCCCCACCTACTG 62.096 72.222 0.00 0.00 0.00 2.74
258 259 2.322999 GAAACCTAATGCCGCTGCCG 62.323 60.000 0.00 0.00 36.33 5.69
259 260 1.312371 TGAAACCTAATGCCGCTGCC 61.312 55.000 0.00 0.00 36.33 4.85
260 261 0.179163 GTGAAACCTAATGCCGCTGC 60.179 55.000 0.00 0.00 38.26 5.25
261 262 3.996825 GTGAAACCTAATGCCGCTG 57.003 52.632 0.00 0.00 0.00 5.18
273 274 3.680786 GGGCGGCTTGGGTGAAAC 61.681 66.667 9.56 0.00 0.00 2.78
274 275 4.986708 GGGGCGGCTTGGGTGAAA 62.987 66.667 9.56 0.00 0.00 2.69
294 295 4.421479 AACCGCGTCGCTCTCCAG 62.421 66.667 16.36 0.00 0.00 3.86
295 296 4.717629 CAACCGCGTCGCTCTCCA 62.718 66.667 16.36 0.00 0.00 3.86
302 303 2.836793 AAAAACCCCAACCGCGTCG 61.837 57.895 4.92 0.00 0.00 5.12
303 304 3.121934 AAAAACCCCAACCGCGTC 58.878 55.556 4.92 0.00 0.00 5.19
319 320 7.659799 TGTCATTTTACGATGAGAGAGGAAAAA 59.340 33.333 0.00 0.00 36.76 1.94
320 321 7.158697 TGTCATTTTACGATGAGAGAGGAAAA 58.841 34.615 0.00 0.00 36.76 2.29
321 322 6.697395 TGTCATTTTACGATGAGAGAGGAAA 58.303 36.000 0.00 0.00 36.76 3.13
322 323 6.280855 TGTCATTTTACGATGAGAGAGGAA 57.719 37.500 0.00 0.00 36.76 3.36
323 324 5.914898 TGTCATTTTACGATGAGAGAGGA 57.085 39.130 0.00 0.00 36.76 3.71
324 325 8.706936 CATTATGTCATTTTACGATGAGAGAGG 58.293 37.037 0.00 0.00 36.76 3.69
325 326 8.219769 GCATTATGTCATTTTACGATGAGAGAG 58.780 37.037 0.00 0.00 36.76 3.20
326 327 7.928167 AGCATTATGTCATTTTACGATGAGAGA 59.072 33.333 0.00 0.00 36.76 3.10
327 328 8.008279 CAGCATTATGTCATTTTACGATGAGAG 58.992 37.037 0.00 0.00 36.76 3.20
328 329 7.710475 TCAGCATTATGTCATTTTACGATGAGA 59.290 33.333 0.00 0.00 36.76 3.27
329 330 7.854534 TCAGCATTATGTCATTTTACGATGAG 58.145 34.615 0.00 0.00 36.76 2.90
330 331 7.784633 TCAGCATTATGTCATTTTACGATGA 57.215 32.000 0.00 0.00 33.81 2.92
331 332 7.060289 GCATCAGCATTATGTCATTTTACGATG 59.940 37.037 0.00 0.00 41.58 3.84
332 333 7.080099 GCATCAGCATTATGTCATTTTACGAT 58.920 34.615 0.00 0.00 41.58 3.73
333 334 6.429624 GCATCAGCATTATGTCATTTTACGA 58.570 36.000 0.00 0.00 41.58 3.43
334 335 5.337773 CGCATCAGCATTATGTCATTTTACG 59.662 40.000 0.00 0.00 42.27 3.18
345 346 4.875536 TGTTCAGTAACGCATCAGCATTAT 59.124 37.500 0.00 0.00 42.27 1.28
368 369 7.116233 GTGAAAACTGACAGTGAAAACAACAAT 59.884 33.333 9.33 0.00 0.00 2.71
401 402 8.900781 ACTGATCTTGTGAATTGAAATATCAGG 58.099 33.333 16.15 6.37 41.19 3.86
460 463 5.620738 TTTCCTAGGACATCTCAGGATTG 57.379 43.478 12.22 0.00 37.06 2.67
480 497 9.143631 CCTTCGAAAGCAGAAATGAAATATTTT 57.856 29.630 1.43 0.00 0.00 1.82
495 513 5.355910 ACAAGTAACTTTTCCTTCGAAAGCA 59.644 36.000 0.00 0.00 39.14 3.91
501 519 5.293569 ACTGACACAAGTAACTTTTCCTTCG 59.706 40.000 0.00 0.00 0.00 3.79
522 540 8.895845 GCGAAATCAGCATTATATTGTTTACTG 58.104 33.333 0.00 0.00 34.19 2.74
528 546 7.969536 ACTAGCGAAATCAGCATTATATTGT 57.030 32.000 0.00 0.00 37.01 2.71
529 547 9.144747 AGTACTAGCGAAATCAGCATTATATTG 57.855 33.333 0.00 0.00 37.01 1.90
530 548 9.712305 AAGTACTAGCGAAATCAGCATTATATT 57.288 29.630 0.00 0.00 37.01 1.28
531 549 9.712305 AAAGTACTAGCGAAATCAGCATTATAT 57.288 29.630 0.00 0.00 37.01 0.86
532 550 8.978539 CAAAGTACTAGCGAAATCAGCATTATA 58.021 33.333 0.00 0.00 37.01 0.98
560 599 9.256228 TCAGAGGTTTAGAAACTAGACACATAT 57.744 33.333 0.00 0.00 38.89 1.78
590 629 3.873910 TCCCGGAGATTTGAATCAGAAC 58.126 45.455 0.73 0.00 37.89 3.01
607 646 1.027357 CCTTCAAGAATGGCATCCCG 58.973 55.000 0.00 0.00 0.00 5.14
623 662 3.488778 TTGTGCATGGCAAAATTCCTT 57.511 38.095 0.00 0.00 41.47 3.36
630 669 5.363292 AGGTATCAATATTGTGCATGGCAAA 59.637 36.000 14.97 0.00 41.47 3.68
710 749 8.727910 AGAATGATGCAGCACTTTGTATATATG 58.272 33.333 6.89 0.00 0.00 1.78
711 750 8.727910 CAGAATGATGCAGCACTTTGTATATAT 58.272 33.333 6.89 0.00 39.69 0.86
712 751 7.933033 TCAGAATGATGCAGCACTTTGTATATA 59.067 33.333 6.89 0.00 42.56 0.86
713 752 6.769341 TCAGAATGATGCAGCACTTTGTATAT 59.231 34.615 6.89 0.00 42.56 0.86
714 753 6.114767 TCAGAATGATGCAGCACTTTGTATA 58.885 36.000 6.89 0.00 42.56 1.47
761 802 3.265221 TCATCTTTGCCTGGAGATTGACT 59.735 43.478 0.00 0.00 30.43 3.41
762 803 3.614092 TCATCTTTGCCTGGAGATTGAC 58.386 45.455 0.00 0.00 30.43 3.18
804 850 7.013369 GTCTCAAATTCCCTCAAAACTTGTAGT 59.987 37.037 0.00 0.00 0.00 2.73
821 867 5.012458 TCTGAGGTGATGTCAGTCTCAAATT 59.988 40.000 13.42 0.00 41.92 1.82
871 917 5.555966 AGTCAATCCAGAAGAAGAAAGACC 58.444 41.667 0.00 0.00 0.00 3.85
873 919 7.875041 CAGTTAGTCAATCCAGAAGAAGAAAGA 59.125 37.037 0.00 0.00 0.00 2.52
909 967 3.874543 AGACGCACACACAAATACTTCAA 59.125 39.130 0.00 0.00 0.00 2.69
911 969 4.684703 ACTAGACGCACACACAAATACTTC 59.315 41.667 0.00 0.00 0.00 3.01
912 970 4.628074 ACTAGACGCACACACAAATACTT 58.372 39.130 0.00 0.00 0.00 2.24
913 971 4.252971 ACTAGACGCACACACAAATACT 57.747 40.909 0.00 0.00 0.00 2.12
914 972 4.698276 CAACTAGACGCACACACAAATAC 58.302 43.478 0.00 0.00 0.00 1.89
916 974 2.032030 GCAACTAGACGCACACACAAAT 60.032 45.455 0.00 0.00 0.00 2.32
918 976 0.934496 GCAACTAGACGCACACACAA 59.066 50.000 0.00 0.00 0.00 3.33
921 979 1.217001 CAAGCAACTAGACGCACACA 58.783 50.000 0.00 0.00 0.00 3.72
922 980 1.070577 CACAAGCAACTAGACGCACAC 60.071 52.381 0.00 0.00 0.00 3.82
923 981 1.202475 TCACAAGCAACTAGACGCACA 60.202 47.619 0.00 0.00 0.00 4.57
924 982 1.457303 CTCACAAGCAACTAGACGCAC 59.543 52.381 0.00 0.00 0.00 5.34
925 983 1.605457 CCTCACAAGCAACTAGACGCA 60.605 52.381 0.00 0.00 0.00 5.24
926 984 1.071605 CCTCACAAGCAACTAGACGC 58.928 55.000 0.00 0.00 0.00 5.19
927 985 2.600731 CTCCTCACAAGCAACTAGACG 58.399 52.381 0.00 0.00 0.00 4.18
928 986 2.563179 TCCTCCTCACAAGCAACTAGAC 59.437 50.000 0.00 0.00 0.00 2.59
931 989 1.276421 GCTCCTCCTCACAAGCAACTA 59.724 52.381 0.00 0.00 34.86 2.24
932 990 0.036022 GCTCCTCCTCACAAGCAACT 59.964 55.000 0.00 0.00 34.86 3.16
933 991 0.250467 TGCTCCTCCTCACAAGCAAC 60.250 55.000 0.00 0.00 41.50 4.17
936 994 0.877743 GTTTGCTCCTCCTCACAAGC 59.122 55.000 0.00 0.00 35.31 4.01
937 995 2.260844 TGTTTGCTCCTCCTCACAAG 57.739 50.000 0.00 0.00 0.00 3.16
939 997 2.507484 CAATGTTTGCTCCTCCTCACA 58.493 47.619 0.00 0.00 0.00 3.58
941 999 1.887956 GCCAATGTTTGCTCCTCCTCA 60.888 52.381 0.00 0.00 0.00 3.86
942 1000 0.813821 GCCAATGTTTGCTCCTCCTC 59.186 55.000 0.00 0.00 0.00 3.71
944 1002 0.960364 TCGCCAATGTTTGCTCCTCC 60.960 55.000 0.00 0.00 0.00 4.30
945 1003 0.169009 GTCGCCAATGTTTGCTCCTC 59.831 55.000 0.00 0.00 0.00 3.71
947 1005 0.109597 CAGTCGCCAATGTTTGCTCC 60.110 55.000 0.00 0.00 0.00 4.70
948 1006 0.874390 TCAGTCGCCAATGTTTGCTC 59.126 50.000 0.00 0.00 0.00 4.26
953 1011 0.035317 TCAGCTCAGTCGCCAATGTT 59.965 50.000 0.00 0.00 0.00 2.71
954 1012 0.390866 CTCAGCTCAGTCGCCAATGT 60.391 55.000 0.00 0.00 0.00 2.71
959 1017 0.099791 GTACTCTCAGCTCAGTCGCC 59.900 60.000 0.00 0.00 0.00 5.54
960 1018 1.091537 AGTACTCTCAGCTCAGTCGC 58.908 55.000 0.00 0.00 0.00 5.19
961 1019 3.057876 ACAAAGTACTCTCAGCTCAGTCG 60.058 47.826 0.00 0.00 0.00 4.18
962 1020 4.233789 CACAAAGTACTCTCAGCTCAGTC 58.766 47.826 0.00 0.00 0.00 3.51
964 1022 4.250116 ACACAAAGTACTCTCAGCTCAG 57.750 45.455 0.00 0.00 0.00 3.35
965 1023 5.984695 ATACACAAAGTACTCTCAGCTCA 57.015 39.130 0.00 0.00 35.05 4.26
966 1024 6.626302 AGAATACACAAAGTACTCTCAGCTC 58.374 40.000 0.00 0.00 34.35 4.09
967 1025 6.597832 AGAATACACAAAGTACTCTCAGCT 57.402 37.500 0.00 0.00 34.35 4.24
1146 1574 7.491372 TCAGCAGCATAATGTAAAGTACAGTAC 59.509 37.037 2.05 2.05 41.31 2.73
1147 1575 7.491372 GTCAGCAGCATAATGTAAAGTACAGTA 59.509 37.037 0.00 0.00 42.47 2.74
1148 1576 6.313905 GTCAGCAGCATAATGTAAAGTACAGT 59.686 38.462 0.00 0.00 42.77 3.55
1149 1577 6.313658 TGTCAGCAGCATAATGTAAAGTACAG 59.686 38.462 0.00 0.00 42.77 2.74
1150 1578 6.169800 TGTCAGCAGCATAATGTAAAGTACA 58.830 36.000 0.00 0.00 43.80 2.90
1307 1868 4.459685 TGGTAGTTGAAGTGAGAGCTAGAC 59.540 45.833 0.00 0.00 0.00 2.59
1584 4341 6.292488 GCAATGTGATTTTTCAGACCAAACAG 60.292 38.462 0.00 0.00 0.00 3.16
1764 4534 5.359756 TGCTCCAGTGATAATGTGACATAC 58.640 41.667 0.00 0.00 0.00 2.39
1771 4541 4.847198 TGTGAATGCTCCAGTGATAATGT 58.153 39.130 0.00 0.00 0.00 2.71
1982 4775 9.624373 CAGGCTATGGCTTCATAATAATTCTAT 57.376 33.333 0.00 0.00 35.88 1.98
2127 4934 1.950909 GACCACTGTATCTCCTCGAGG 59.049 57.143 26.32 26.32 0.00 4.63
2490 5311 1.825474 TCCGACTCAAGGAACTGGATC 59.175 52.381 0.00 0.00 38.01 3.36
2602 5423 6.647481 ACAAAAACAACCCAAACTAAGACAAC 59.353 34.615 0.00 0.00 0.00 3.32
2649 5476 3.587506 AGCCTAAACAGGAGGTACAACAT 59.412 43.478 0.00 0.00 36.37 2.71
2663 5490 1.952296 CATGGGATGCTCAGCCTAAAC 59.048 52.381 4.04 0.00 37.00 2.01
2678 5505 1.547372 CCCAAAGCAAAGAGACATGGG 59.453 52.381 0.00 0.00 40.02 4.00
2679 5506 1.067354 GCCCAAAGCAAAGAGACATGG 60.067 52.381 0.00 0.00 42.97 3.66
2692 5519 0.030638 CGTGAACAAGGTGCCCAAAG 59.969 55.000 0.00 0.00 0.00 2.77
2730 5564 7.512992 AGTTGAAATGAGAATATAGAGGGGTG 58.487 38.462 0.00 0.00 0.00 4.61
2777 5611 1.136085 TCGCGAATACACAAAGCTTGC 60.136 47.619 6.20 0.00 0.00 4.01
2787 5621 3.621268 CCCATCTTTCTTTCGCGAATACA 59.379 43.478 24.05 6.99 0.00 2.29
2794 5628 3.425758 CCGTTTACCCATCTTTCTTTCGC 60.426 47.826 0.00 0.00 0.00 4.70
2796 5630 5.239963 TGTTCCGTTTACCCATCTTTCTTTC 59.760 40.000 0.00 0.00 0.00 2.62
2800 5634 4.320870 TCTGTTCCGTTTACCCATCTTTC 58.679 43.478 0.00 0.00 0.00 2.62
2830 5664 7.713734 AATGATGGAAATGTGACAAGAAGAT 57.286 32.000 0.00 0.00 0.00 2.40
2909 5772 8.500238 TCTAGTATGAGTATAGACACCCTGAAA 58.500 37.037 0.00 0.00 0.00 2.69
2957 5827 7.282585 ACAGTTCCTAGAATATTTATGCTGCA 58.717 34.615 4.13 4.13 0.00 4.41
3021 5891 1.208535 ACACTCCCACACGACAAAGAA 59.791 47.619 0.00 0.00 0.00 2.52
3023 5893 0.937304 CACACTCCCACACGACAAAG 59.063 55.000 0.00 0.00 0.00 2.77
3030 5900 0.655733 CACGTTTCACACTCCCACAC 59.344 55.000 0.00 0.00 0.00 3.82
3084 5954 9.244799 ACCTAAACGAAATCAGTTGAATTTTTC 57.755 29.630 0.00 0.00 31.43 2.29
3107 5977 2.851102 ACTGCAGGCAGACCACCT 60.851 61.111 26.63 1.06 46.30 4.00


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

AutoCloner maintained by Alex Coulton.