Multiple sequence alignment - TraesCS7A01G424600

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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 TraesCS7A01G424600 chr7A 100.000 4011 0 0 1 4011 617706102 617702092 0.000000e+00 7408
1 TraesCS7A01G424600 chr7A 91.435 2265 185 7 778 3040 625539605 625537348 0.000000e+00 3099
2 TraesCS7A01G424600 chr7A 90.005 2121 191 11 787 2892 617738371 617736257 0.000000e+00 2723
3 TraesCS7A01G424600 chr7A 88.074 2264 262 5 778 3040 625603780 625601524 0.000000e+00 2678
4 TraesCS7A01G424600 chr7A 86.073 2269 300 13 778 3040 625535073 625532815 0.000000e+00 2425
5 TraesCS7A01G424600 chr7A 85.808 2276 291 24 778 3042 625617049 625614795 0.000000e+00 2385
6 TraesCS7A01G424600 chr7A 96.778 776 25 0 3 778 170508430 170509205 0.000000e+00 1295
7 TraesCS7A01G424600 chr7A 96.525 777 27 0 1 777 189050465 189049689 0.000000e+00 1286
8 TraesCS7A01G424600 chr7A 96.401 778 28 0 1 778 640909815 640909038 0.000000e+00 1282
9 TraesCS7A01G424600 chr7A 96.396 777 28 0 1 777 617730085 617729309 0.000000e+00 1280
10 TraesCS7A01G424600 chr7A 99.785 465 1 0 3547 4011 707630248 707630712 0.000000e+00 854
11 TraesCS7A01G424600 chr7A 94.505 182 8 1 3062 3243 617850231 617850410 3.050000e-71 279
12 TraesCS7A01G424600 chr7D 88.163 2264 260 5 778 3040 543626977 543624721 0.000000e+00 2689
13 TraesCS7A01G424600 chr7D 88.107 2245 259 7 798 3040 543610521 543608283 0.000000e+00 2660
14 TraesCS7A01G424600 chr7D 86.319 2244 281 16 778 3008 543563476 543561246 0.000000e+00 2420
15 TraesCS7A01G424600 chr7D 81.581 2264 376 25 792 3032 541966724 541964479 0.000000e+00 1832
16 TraesCS7A01G424600 chr7D 90.323 186 16 2 3069 3253 535737020 535736836 4.000000e-60 243
17 TraesCS7A01G424600 chr7B 87.467 2266 271 10 779 3040 586968671 586966415 0.000000e+00 2599
18 TraesCS7A01G424600 chr7B 99.451 182 1 0 3830 4011 151158682 151158501 8.310000e-87 331
19 TraesCS7A01G424600 chr3A 99.346 765 5 0 3247 4011 85376756 85375992 0.000000e+00 1386
20 TraesCS7A01G424600 chr3A 96.396 777 28 0 1 777 336569511 336570287 0.000000e+00 1280
21 TraesCS7A01G424600 chr6A 96.296 783 28 1 1 782 208353299 208354081 0.000000e+00 1284
22 TraesCS7A01G424600 chr6A 88.762 525 56 3 3489 4011 537031771 537032294 1.220000e-179 640
23 TraesCS7A01G424600 chr2A 96.525 777 26 1 1 777 52156781 52157556 0.000000e+00 1284
24 TraesCS7A01G424600 chr2A 72.241 598 146 18 785 1372 2819888 2819301 2.480000e-37 167
25 TraesCS7A01G424600 chr4A 96.277 779 27 2 1 778 84576944 84577721 0.000000e+00 1277
26 TraesCS7A01G424600 chr4A 96.272 778 29 0 1 778 447752595 447751818 0.000000e+00 1277
27 TraesCS7A01G424600 chr4A 84.536 388 51 7 3247 3632 103422812 103422432 3.780000e-100 375
28 TraesCS7A01G424600 chr6B 95.686 765 33 0 3247 4011 26403145 26402381 0.000000e+00 1230
29 TraesCS7A01G424600 chr5D 87.924 737 89 0 3275 4011 330398850 330399586 0.000000e+00 869
30 TraesCS7A01G424600 chr5A 81.389 763 136 5 3251 4011 20469963 20469205 5.700000e-173 617
31 TraesCS7A01G424600 chr5B 80.754 769 146 2 3244 4010 628726247 628727015 2.060000e-167 599
32 TraesCS7A01G424600 chr5B 79.875 641 129 0 3244 3884 625135586 625136226 1.690000e-128 470


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 TraesCS7A01G424600 chr7A 617702092 617706102 4010 True 7408 7408 100.000 1 4011 1 chr7A.!!$R2 4010
1 TraesCS7A01G424600 chr7A 625532815 625539605 6790 True 2762 3099 88.754 778 3040 2 chr7A.!!$R8 2262
2 TraesCS7A01G424600 chr7A 617736257 617738371 2114 True 2723 2723 90.005 787 2892 1 chr7A.!!$R4 2105
3 TraesCS7A01G424600 chr7A 625601524 625603780 2256 True 2678 2678 88.074 778 3040 1 chr7A.!!$R5 2262
4 TraesCS7A01G424600 chr7A 625614795 625617049 2254 True 2385 2385 85.808 778 3042 1 chr7A.!!$R6 2264
5 TraesCS7A01G424600 chr7A 170508430 170509205 775 False 1295 1295 96.778 3 778 1 chr7A.!!$F1 775
6 TraesCS7A01G424600 chr7A 189049689 189050465 776 True 1286 1286 96.525 1 777 1 chr7A.!!$R1 776
7 TraesCS7A01G424600 chr7A 640909038 640909815 777 True 1282 1282 96.401 1 778 1 chr7A.!!$R7 777
8 TraesCS7A01G424600 chr7A 617729309 617730085 776 True 1280 1280 96.396 1 777 1 chr7A.!!$R3 776
9 TraesCS7A01G424600 chr7D 543624721 543626977 2256 True 2689 2689 88.163 778 3040 1 chr7D.!!$R5 2262
10 TraesCS7A01G424600 chr7D 543608283 543610521 2238 True 2660 2660 88.107 798 3040 1 chr7D.!!$R4 2242
11 TraesCS7A01G424600 chr7D 543561246 543563476 2230 True 2420 2420 86.319 778 3008 1 chr7D.!!$R3 2230
12 TraesCS7A01G424600 chr7D 541964479 541966724 2245 True 1832 1832 81.581 792 3032 1 chr7D.!!$R2 2240
13 TraesCS7A01G424600 chr7B 586966415 586968671 2256 True 2599 2599 87.467 779 3040 1 chr7B.!!$R2 2261
14 TraesCS7A01G424600 chr3A 85375992 85376756 764 True 1386 1386 99.346 3247 4011 1 chr3A.!!$R1 764
15 TraesCS7A01G424600 chr3A 336569511 336570287 776 False 1280 1280 96.396 1 777 1 chr3A.!!$F1 776
16 TraesCS7A01G424600 chr6A 208353299 208354081 782 False 1284 1284 96.296 1 782 1 chr6A.!!$F1 781
17 TraesCS7A01G424600 chr6A 537031771 537032294 523 False 640 640 88.762 3489 4011 1 chr6A.!!$F2 522
18 TraesCS7A01G424600 chr2A 52156781 52157556 775 False 1284 1284 96.525 1 777 1 chr2A.!!$F1 776
19 TraesCS7A01G424600 chr4A 84576944 84577721 777 False 1277 1277 96.277 1 778 1 chr4A.!!$F1 777
20 TraesCS7A01G424600 chr4A 447751818 447752595 777 True 1277 1277 96.272 1 778 1 chr4A.!!$R2 777
21 TraesCS7A01G424600 chr6B 26402381 26403145 764 True 1230 1230 95.686 3247 4011 1 chr6B.!!$R1 764
22 TraesCS7A01G424600 chr5D 330398850 330399586 736 False 869 869 87.924 3275 4011 1 chr5D.!!$F1 736
23 TraesCS7A01G424600 chr5A 20469205 20469963 758 True 617 617 81.389 3251 4011 1 chr5A.!!$R1 760
24 TraesCS7A01G424600 chr5B 628726247 628727015 768 False 599 599 80.754 3244 4010 1 chr5B.!!$F2 766
25 TraesCS7A01G424600 chr5B 625135586 625136226 640 False 470 470 79.875 3244 3884 1 chr5B.!!$F1 640

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
546 548 2.107366 TGTATCACCATCTCTTCGCCA 58.893 47.619 0.0 0.0 0.00 5.69 F
1632 1652 0.321653 ATCGAACAAGTGGGTGCTCC 60.322 55.000 0.0 0.0 0.00 4.70 F
2249 2273 0.108424 CGGTGCTTCTCAAGGAGAGG 60.108 60.000 1.4 1.4 44.81 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1731 1751 0.108585 AGCAGCTTCGAGTTTTGGGA 59.891 50.0 0.00 0.0 0.00 4.37 R
2614 2647 0.250513 GGTACCCTGCAGTTCCTCTG 59.749 60.0 13.81 0.0 46.12 3.35 R
3143 3516 0.250597 AGTACGTCAAAACCCAGCCC 60.251 55.0 0.00 0.0 0.00 5.19 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
69 70 5.205056 AGGTCCTTTGTGTTGGTTGAATAA 58.795 37.500 0.00 0.00 0.00 1.40
77 78 7.865875 TTGTGTTGGTTGAATAAATGAATCG 57.134 32.000 0.00 0.00 0.00 3.34
224 225 9.154632 TCTAGGGCTATTTGTGACAATTATAGA 57.845 33.333 17.00 10.68 0.00 1.98
295 296 6.205464 CGTACCCTACCATAATCTCTTCGTTA 59.795 42.308 0.00 0.00 0.00 3.18
365 366 7.226441 TGAGGGATAGTTATGTGATCCAATTG 58.774 38.462 0.00 0.00 40.90 2.32
546 548 2.107366 TGTATCACCATCTCTTCGCCA 58.893 47.619 0.00 0.00 0.00 5.69
569 571 7.250569 CCAAACTAGTGCACCTATACAATTTG 58.749 38.462 14.63 12.27 0.00 2.32
692 694 7.743116 TGATAAACCTTAGGTCATCCACTTA 57.257 36.000 17.80 7.44 33.12 2.24
829 831 5.268387 ACCTTGGCATATGGTTCAATACAA 58.732 37.500 4.56 0.00 33.26 2.41
917 919 2.775960 AGCTCACAATCTCCCATGATGA 59.224 45.455 0.00 0.00 0.00 2.92
1106 1111 0.469892 ACACTTTTCCCTGGGGCAAG 60.470 55.000 14.00 16.66 33.87 4.01
1114 1119 2.677875 CTGGGGCAAGGCTTGGAC 60.678 66.667 27.25 12.36 0.00 4.02
1115 1120 4.299796 TGGGGCAAGGCTTGGACC 62.300 66.667 27.25 20.05 0.00 4.46
1132 1137 2.743718 CGGACAAGGTCACTGGCT 59.256 61.111 0.00 0.00 33.68 4.75
1138 1143 1.212935 ACAAGGTCACTGGCTTGAACT 59.787 47.619 0.00 1.84 45.97 3.01
1172 1177 3.652869 TCTTGGAAGAACTTGATGGACCT 59.347 43.478 0.00 0.00 30.73 3.85
1182 1187 1.113517 TGATGGACCTAGCTACCGGC 61.114 60.000 0.00 0.00 42.19 6.13
1295 1303 3.886505 TGGAACGACAAATACTTTGCCTT 59.113 39.130 0.00 0.00 44.39 4.35
1301 1309 7.448748 ACGACAAATACTTTGCCTTAATTCT 57.551 32.000 0.00 0.00 44.39 2.40
1317 1325 7.254727 GCCTTAATTCTAGAGATGACAGCAAAG 60.255 40.741 0.00 0.00 0.00 2.77
1331 1339 2.629617 CAGCAAAGAACCCTGTTTCCAT 59.370 45.455 0.00 0.00 0.00 3.41
1334 1342 3.259123 GCAAAGAACCCTGTTTCCATCAT 59.741 43.478 0.00 0.00 0.00 2.45
1372 1380 9.349713 ACAATGACCAAGAGAAGTATTTAACAA 57.650 29.630 0.00 0.00 0.00 2.83
1419 1439 5.417862 GTTACTCGTTTTGTAGTTGACGTG 58.582 41.667 0.00 0.00 36.89 4.49
1421 1441 3.928375 ACTCGTTTTGTAGTTGACGTGTT 59.072 39.130 0.00 0.00 38.55 3.32
1452 1472 7.096230 CGATTAAAACAGTTCATTTGGTTGGAC 60.096 37.037 0.00 0.00 0.00 4.02
1458 1478 1.611519 TCATTTGGTTGGACGGTTCC 58.388 50.000 0.00 0.00 43.19 3.62
1481 1501 2.582636 AGGATTGGATACTGGCCTTTGT 59.417 45.455 3.32 2.84 37.61 2.83
1509 1529 5.527582 ACCAAAACTTCAGTGTGATGTCTAC 59.472 40.000 0.00 0.00 34.23 2.59
1539 1559 3.555547 GTGGACCTTTCACAATTTGCAAC 59.444 43.478 0.00 0.00 35.39 4.17
1542 1562 3.705604 ACCTTTCACAATTTGCAACGAG 58.294 40.909 0.00 0.00 0.00 4.18
1550 1570 0.456653 ATTTGCAACGAGAATGCGCC 60.457 50.000 4.18 0.00 46.76 6.53
1580 1600 1.136305 CAATTGCATGGAGGGCTTCAG 59.864 52.381 0.00 0.00 0.00 3.02
1632 1652 0.321653 ATCGAACAAGTGGGTGCTCC 60.322 55.000 0.00 0.00 0.00 4.70
1699 1719 7.952671 TCATACAACAGACAAGTTCTACTCTT 58.047 34.615 0.00 0.00 31.12 2.85
1707 1727 3.503748 ACAAGTTCTACTCTTTGCCATGC 59.496 43.478 0.00 0.00 0.00 4.06
1718 1738 1.732417 TTGCCATGCGTTGAGTTGCA 61.732 50.000 0.00 0.00 46.51 4.08
1731 1751 2.089980 GAGTTGCATGCCTGAGAATGT 58.910 47.619 16.68 0.00 0.00 2.71
1832 1852 4.093998 CCTTCAACGATGGAAGATGTTCTG 59.906 45.833 14.06 0.00 43.46 3.02
1854 1874 4.337274 TGTCTGGCATAATGAATTGCTCAG 59.663 41.667 0.00 0.00 37.52 3.35
1879 1899 3.428746 AGAGCGCTACAATGTAGTGAG 57.571 47.619 31.07 18.81 0.00 3.51
1934 1954 9.077885 ACCTTTGTATTTCTGCTAAAGATTTCA 57.922 29.630 0.00 0.00 33.93 2.69
2027 2048 5.009610 GGTTTATTTGCACTTGTTCTCCTGA 59.990 40.000 0.00 0.00 0.00 3.86
2037 2058 7.231317 TGCACTTGTTCTCCTGATAAAGATTTT 59.769 33.333 0.00 0.00 0.00 1.82
2140 2164 3.367992 TTACAGCATGCCACAACAAAG 57.632 42.857 15.66 0.00 42.53 2.77
2158 2182 7.093509 ACAACAAAGTTCAAAGATAAGTTGGGT 60.094 33.333 0.00 0.00 38.41 4.51
2161 2185 3.502211 AGTTCAAAGATAAGTTGGGTGCG 59.498 43.478 0.00 0.00 0.00 5.34
2238 2262 0.668535 AAAAGGCTTGACGGTGCTTC 59.331 50.000 0.00 0.00 0.00 3.86
2249 2273 0.108424 CGGTGCTTCTCAAGGAGAGG 60.108 60.000 1.40 1.40 44.81 3.69
2572 2596 1.243342 TTGCAGACTTTGGGATGGCG 61.243 55.000 0.00 0.00 0.00 5.69
2614 2647 3.377485 TCAGCCGAGTACTGACTACAATC 59.623 47.826 0.00 0.00 39.21 2.67
2707 2740 3.589951 AGCTATGGGATGATGTTGCTT 57.410 42.857 0.00 0.00 0.00 3.91
2726 2759 8.469200 TGTTGCTTGAAATTATATCTGGAAAGG 58.531 33.333 0.00 0.00 0.00 3.11
2727 2760 8.686334 GTTGCTTGAAATTATATCTGGAAAGGA 58.314 33.333 0.00 0.00 0.00 3.36
2745 2778 5.426689 AAGGAGAACTCAAGTGCATCATA 57.573 39.130 4.23 0.00 0.00 2.15
2772 2808 1.197721 CAGTGGCGACCTTGATGTTTC 59.802 52.381 0.00 0.00 0.00 2.78
2849 2885 9.196552 TGATAGATCAAACGTTACATGATGATC 57.803 33.333 22.21 22.21 42.04 2.92
2851 2887 9.770097 ATAGATCAAACGTTACATGATGATCTT 57.230 29.630 30.77 20.97 46.82 2.40
2859 2895 8.506168 ACGTTACATGATGATCTTAATTTGGT 57.494 30.769 0.00 0.00 0.00 3.67
3042 3085 3.772572 TCAACGTGATCCCAATCCTTCTA 59.227 43.478 0.00 0.00 0.00 2.10
3044 3087 4.342862 ACGTGATCCCAATCCTTCTATG 57.657 45.455 0.00 0.00 0.00 2.23
3045 3088 3.071602 ACGTGATCCCAATCCTTCTATGG 59.928 47.826 0.00 0.00 0.00 2.74
3047 3090 4.562347 CGTGATCCCAATCCTTCTATGGAG 60.562 50.000 0.00 0.00 39.78 3.86
3048 3091 3.328931 TGATCCCAATCCTTCTATGGAGC 59.671 47.826 0.00 0.00 39.78 4.70
3049 3092 3.066208 TCCCAATCCTTCTATGGAGCT 57.934 47.619 0.00 0.00 39.78 4.09
3050 3093 4.213531 TCCCAATCCTTCTATGGAGCTA 57.786 45.455 0.00 0.00 39.78 3.32
3051 3094 3.904339 TCCCAATCCTTCTATGGAGCTAC 59.096 47.826 0.00 0.00 39.78 3.58
3052 3095 3.008485 CCCAATCCTTCTATGGAGCTACC 59.992 52.174 0.00 0.00 39.78 3.18
3067 3110 2.997485 CTACCAAGCAAAGGAAGTGC 57.003 50.000 0.00 0.00 42.55 4.40
3068 3111 2.229792 CTACCAAGCAAAGGAAGTGCA 58.770 47.619 0.00 0.00 44.74 4.57
3069 3112 0.746659 ACCAAGCAAAGGAAGTGCAC 59.253 50.000 9.40 9.40 44.74 4.57
3084 3127 6.734104 GAAGTGCACTTCTCAATTAGTGAT 57.266 37.500 39.87 14.20 46.59 3.06
3085 3128 7.138692 GAAGTGCACTTCTCAATTAGTGATT 57.861 36.000 39.87 13.56 46.59 2.57
3086 3129 7.516198 AAGTGCACTTCTCAATTAGTGATTT 57.484 32.000 26.36 0.00 43.45 2.17
3090 3133 6.712095 TGCACTTCTCAATTAGTGATTTCAGT 59.288 34.615 9.75 0.00 43.45 3.41
3091 3134 7.095060 TGCACTTCTCAATTAGTGATTTCAGTC 60.095 37.037 9.75 0.00 43.45 3.51
3092 3135 7.095060 GCACTTCTCAATTAGTGATTTCAGTCA 60.095 37.037 9.75 0.00 43.45 3.41
3097 3140 9.102757 TCTCAATTAGTGATTTCAGTCATAAGC 57.897 33.333 0.00 0.00 35.07 3.09
3098 3141 9.107177 CTCAATTAGTGATTTCAGTCATAAGCT 57.893 33.333 0.00 0.00 35.07 3.74
3099 3142 9.102757 TCAATTAGTGATTTCAGTCATAAGCTC 57.897 33.333 0.00 0.00 0.00 4.09
3100 3143 8.341173 CAATTAGTGATTTCAGTCATAAGCTCC 58.659 37.037 0.00 0.00 0.00 4.70
3103 3146 6.479884 AGTGATTTCAGTCATAAGCTCCTTT 58.520 36.000 0.00 0.00 0.00 3.11
3104 3147 6.944862 AGTGATTTCAGTCATAAGCTCCTTTT 59.055 34.615 0.00 0.00 0.00 2.27
3105 3148 7.025963 GTGATTTCAGTCATAAGCTCCTTTTG 58.974 38.462 0.00 0.00 0.00 2.44
3106 3149 5.376854 TTTCAGTCATAAGCTCCTTTTGC 57.623 39.130 0.00 0.00 0.00 3.68
3108 3151 5.420725 TCAGTCATAAGCTCCTTTTGCTA 57.579 39.130 0.00 0.00 40.22 3.49
3109 3152 5.178797 TCAGTCATAAGCTCCTTTTGCTAC 58.821 41.667 0.00 0.00 40.22 3.58
3111 3154 3.628032 GTCATAAGCTCCTTTTGCTACCC 59.372 47.826 0.00 0.00 40.22 3.69
3137 3510 5.697473 AAAAAGAGAGCTCCTTTTGCTAC 57.303 39.130 28.42 7.25 41.42 3.58
3139 3512 4.566426 AAGAGAGCTCCTTTTGCTACAT 57.434 40.909 10.93 0.00 41.30 2.29
3140 3513 4.566426 AGAGAGCTCCTTTTGCTACATT 57.434 40.909 10.93 0.00 41.30 2.71
3141 3514 4.260170 AGAGAGCTCCTTTTGCTACATTG 58.740 43.478 10.93 0.00 41.30 2.82
3142 3515 4.006319 GAGAGCTCCTTTTGCTACATTGT 58.994 43.478 10.93 0.00 41.30 2.71
3143 3516 3.755378 AGAGCTCCTTTTGCTACATTGTG 59.245 43.478 10.93 0.00 41.30 3.33
3144 3517 2.821969 AGCTCCTTTTGCTACATTGTGG 59.178 45.455 0.00 0.00 39.21 4.17
3145 3518 2.094545 GCTCCTTTTGCTACATTGTGGG 60.095 50.000 0.00 0.00 0.00 4.61
3146 3519 1.892474 TCCTTTTGCTACATTGTGGGC 59.108 47.619 0.00 4.74 0.00 5.36
3148 3521 2.353011 CCTTTTGCTACATTGTGGGCTG 60.353 50.000 14.45 5.80 0.00 4.85
3149 3522 1.255882 TTTGCTACATTGTGGGCTGG 58.744 50.000 14.45 0.00 0.00 4.85
3150 3523 0.611618 TTGCTACATTGTGGGCTGGG 60.612 55.000 14.45 0.00 0.00 4.45
3151 3524 1.000896 GCTACATTGTGGGCTGGGT 60.001 57.895 0.00 0.00 0.00 4.51
3153 3526 1.923356 CTACATTGTGGGCTGGGTTT 58.077 50.000 0.00 0.00 0.00 3.27
3154 3527 2.247358 CTACATTGTGGGCTGGGTTTT 58.753 47.619 0.00 0.00 0.00 2.43
3155 3528 0.758123 ACATTGTGGGCTGGGTTTTG 59.242 50.000 0.00 0.00 0.00 2.44
3157 3530 1.047801 ATTGTGGGCTGGGTTTTGAC 58.952 50.000 0.00 0.00 0.00 3.18
3158 3531 1.388065 TTGTGGGCTGGGTTTTGACG 61.388 55.000 0.00 0.00 0.00 4.35
3160 3533 0.535553 GTGGGCTGGGTTTTGACGTA 60.536 55.000 0.00 0.00 0.00 3.57
3161 3534 0.535553 TGGGCTGGGTTTTGACGTAC 60.536 55.000 0.00 0.00 0.00 3.67
3163 3536 0.872388 GGCTGGGTTTTGACGTACTG 59.128 55.000 0.00 0.00 0.00 2.74
3164 3537 0.872388 GCTGGGTTTTGACGTACTGG 59.128 55.000 0.00 0.00 0.00 4.00
3165 3538 1.519408 CTGGGTTTTGACGTACTGGG 58.481 55.000 0.00 0.00 0.00 4.45
3168 3541 0.872388 GGTTTTGACGTACTGGGCAG 59.128 55.000 0.00 0.00 0.00 4.85
3170 3543 1.263217 GTTTTGACGTACTGGGCAGTG 59.737 52.381 0.00 0.00 42.52 3.66
3171 3544 0.882927 TTTGACGTACTGGGCAGTGC 60.883 55.000 6.55 6.55 42.52 4.40
3173 3546 1.446272 GACGTACTGGGCAGTGCTC 60.446 63.158 16.11 12.56 42.52 4.26
3174 3547 2.125512 CGTACTGGGCAGTGCTCC 60.126 66.667 13.69 13.81 42.52 4.70
3175 3548 2.125512 GTACTGGGCAGTGCTCCG 60.126 66.667 13.69 9.02 42.52 4.63
3176 3549 2.603473 TACTGGGCAGTGCTCCGT 60.603 61.111 16.70 16.70 42.52 4.69
3178 3551 1.320344 TACTGGGCAGTGCTCCGTAG 61.320 60.000 14.57 7.19 42.52 3.51
3179 3552 2.603473 TGGGCAGTGCTCCGTAGT 60.603 61.111 13.69 0.00 0.00 2.73
3180 3553 2.125512 GGGCAGTGCTCCGTAGTG 60.126 66.667 16.11 0.00 0.00 2.74
3181 3554 2.125512 GGCAGTGCTCCGTAGTGG 60.126 66.667 16.11 0.00 40.09 4.00
3182 3555 2.815647 GCAGTGCTCCGTAGTGGC 60.816 66.667 8.18 0.00 37.80 5.01
3183 3556 2.125512 CAGTGCTCCGTAGTGGCC 60.126 66.667 0.00 0.00 37.80 5.36
3184 3557 3.760035 AGTGCTCCGTAGTGGCCG 61.760 66.667 0.00 0.00 37.80 6.13
3185 3558 3.755628 GTGCTCCGTAGTGGCCGA 61.756 66.667 0.00 0.00 37.80 5.54
3186 3559 3.449227 TGCTCCGTAGTGGCCGAG 61.449 66.667 0.00 0.00 37.80 4.63
3188 3561 2.799371 CTCCGTAGTGGCCGAGAC 59.201 66.667 0.00 0.00 37.80 3.36
3189 3562 3.109612 CTCCGTAGTGGCCGAGACG 62.110 68.421 14.31 14.31 37.80 4.18
3191 3564 2.108514 CCGTAGTGGCCGAGACGTA 61.109 63.158 18.30 0.00 33.51 3.57
3192 3565 1.061570 CGTAGTGGCCGAGACGTAC 59.938 63.158 13.33 0.00 0.00 3.67
3193 3566 1.638388 CGTAGTGGCCGAGACGTACA 61.638 60.000 13.33 0.00 0.00 2.90
3195 3568 1.133790 GTAGTGGCCGAGACGTACAAT 59.866 52.381 0.00 0.00 0.00 2.71
3196 3569 0.108804 AGTGGCCGAGACGTACAATG 60.109 55.000 0.00 0.00 0.00 2.82
3197 3570 1.447140 TGGCCGAGACGTACAATGC 60.447 57.895 0.00 0.00 0.00 3.56
3198 3571 1.447140 GGCCGAGACGTACAATGCA 60.447 57.895 0.00 0.00 0.00 3.96
3199 3572 1.017177 GGCCGAGACGTACAATGCAA 61.017 55.000 0.00 0.00 0.00 4.08
3200 3573 1.006832 GCCGAGACGTACAATGCAAT 58.993 50.000 0.00 0.00 0.00 3.56
3201 3574 2.198406 GCCGAGACGTACAATGCAATA 58.802 47.619 0.00 0.00 0.00 1.90
3202 3575 2.034001 GCCGAGACGTACAATGCAATAC 60.034 50.000 0.00 0.00 0.00 1.89
3203 3576 2.538449 CCGAGACGTACAATGCAATACC 59.462 50.000 0.00 0.00 0.00 2.73
3204 3577 3.183754 CGAGACGTACAATGCAATACCA 58.816 45.455 0.00 0.00 0.00 3.25
3205 3578 3.615056 CGAGACGTACAATGCAATACCAA 59.385 43.478 0.00 0.00 0.00 3.67
3206 3579 4.491924 CGAGACGTACAATGCAATACCAAC 60.492 45.833 0.00 0.00 0.00 3.77
3207 3580 3.687698 AGACGTACAATGCAATACCAACC 59.312 43.478 0.00 0.00 0.00 3.77
3209 3582 3.687698 ACGTACAATGCAATACCAACCTC 59.312 43.478 0.00 0.00 0.00 3.85
3212 3585 3.505386 ACAATGCAATACCAACCTCCAA 58.495 40.909 0.00 0.00 0.00 3.53
3214 3587 4.160252 ACAATGCAATACCAACCTCCAATC 59.840 41.667 0.00 0.00 0.00 2.67
3216 3589 3.620488 TGCAATACCAACCTCCAATCTC 58.380 45.455 0.00 0.00 0.00 2.75
3218 3591 3.879892 GCAATACCAACCTCCAATCTCTC 59.120 47.826 0.00 0.00 0.00 3.20
3219 3592 4.455606 CAATACCAACCTCCAATCTCTCC 58.544 47.826 0.00 0.00 0.00 3.71
3220 3593 2.044793 ACCAACCTCCAATCTCTCCA 57.955 50.000 0.00 0.00 0.00 3.86
3221 3594 2.348472 ACCAACCTCCAATCTCTCCAA 58.652 47.619 0.00 0.00 0.00 3.53
3224 3597 3.549794 CAACCTCCAATCTCTCCAATCC 58.450 50.000 0.00 0.00 0.00 3.01
3226 3599 3.468850 ACCTCCAATCTCTCCAATCCTT 58.531 45.455 0.00 0.00 0.00 3.36
3227 3600 3.854994 ACCTCCAATCTCTCCAATCCTTT 59.145 43.478 0.00 0.00 0.00 3.11
3228 3601 4.080072 ACCTCCAATCTCTCCAATCCTTTC 60.080 45.833 0.00 0.00 0.00 2.62
3229 3602 4.459330 CTCCAATCTCTCCAATCCTTTCC 58.541 47.826 0.00 0.00 0.00 3.13
3230 3603 3.851976 TCCAATCTCTCCAATCCTTTCCA 59.148 43.478 0.00 0.00 0.00 3.53
3231 3604 3.950395 CCAATCTCTCCAATCCTTTCCAC 59.050 47.826 0.00 0.00 0.00 4.02
3232 3605 3.941704 ATCTCTCCAATCCTTTCCACC 57.058 47.619 0.00 0.00 0.00 4.61
3233 3606 2.921221 TCTCTCCAATCCTTTCCACCT 58.079 47.619 0.00 0.00 0.00 4.00
3234 3607 4.074799 TCTCTCCAATCCTTTCCACCTA 57.925 45.455 0.00 0.00 0.00 3.08
3235 3608 4.435137 TCTCTCCAATCCTTTCCACCTAA 58.565 43.478 0.00 0.00 0.00 2.69
3236 3609 4.849810 TCTCTCCAATCCTTTCCACCTAAA 59.150 41.667 0.00 0.00 0.00 1.85
3238 3611 5.959512 TCTCCAATCCTTTCCACCTAAAAA 58.040 37.500 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 4.036027 GCATCACACAATCTCCGATTCATT 59.964 41.667 0.00 0.00 0.00 2.57
77 78 4.060900 ACGATATGCATCACACAATCTCC 58.939 43.478 0.19 0.00 0.00 3.71
295 296 5.411781 CAAAGTCACTAATAGCGGAGAACT 58.588 41.667 0.00 0.00 0.00 3.01
365 366 6.806739 GCAAGTTCCCTCAACAATAATAACAC 59.193 38.462 0.00 0.00 37.48 3.32
546 548 6.127730 GGCAAATTGTATAGGTGCACTAGTTT 60.128 38.462 17.98 4.56 36.93 2.66
569 571 2.353605 CCAACACACCCAATACAATGGC 60.354 50.000 0.00 0.00 39.26 4.40
692 694 4.388577 AGGACAGTAGCAAATTTCCCTT 57.611 40.909 0.00 0.00 0.00 3.95
829 831 3.806949 TGCAGAAGTAAACTTGGGGAT 57.193 42.857 0.00 0.00 36.11 3.85
917 919 5.445964 ACTGGTTTAAGATGACAAGGTTGT 58.554 37.500 0.00 0.00 45.65 3.32
1106 1111 2.359975 CCTTGTCCGGTCCAAGCC 60.360 66.667 22.95 0.00 38.36 4.35
1114 1119 2.358737 GCCAGTGACCTTGTCCGG 60.359 66.667 0.00 0.00 0.00 5.14
1115 1120 1.071471 AAGCCAGTGACCTTGTCCG 59.929 57.895 0.00 0.00 0.00 4.79
1132 1137 4.550422 CAAGAGACGATCTGACAGTTCAA 58.450 43.478 12.80 0.00 38.67 2.69
1138 1143 3.421844 TCTTCCAAGAGACGATCTGACA 58.578 45.455 0.00 0.00 38.67 3.58
1172 1177 0.677731 ACAGTACACGCCGGTAGCTA 60.678 55.000 1.90 0.00 40.39 3.32
1182 1187 4.337763 GGTCTAACGTATGACAGTACACG 58.662 47.826 18.35 0.00 40.15 4.49
1263 1271 0.680618 TGTCGTTCCATACACCGGTT 59.319 50.000 2.97 0.00 0.00 4.44
1295 1303 7.766278 GGTTCTTTGCTGTCATCTCTAGAATTA 59.234 37.037 0.00 0.00 0.00 1.40
1301 1309 3.840666 AGGGTTCTTTGCTGTCATCTCTA 59.159 43.478 0.00 0.00 0.00 2.43
1380 1388 6.873997 ACGAGTAACCATAGATTCATTGACA 58.126 36.000 0.00 0.00 0.00 3.58
1419 1439 9.113876 CAAATGAACTGTTTTAATCGACCTAAC 57.886 33.333 0.00 0.00 0.00 2.34
1421 1441 7.446013 ACCAAATGAACTGTTTTAATCGACCTA 59.554 33.333 0.00 0.00 0.00 3.08
1458 1478 1.143813 AGGCCAGTATCCAATCCTGG 58.856 55.000 5.01 0.00 46.91 4.45
1471 1491 1.118838 TTTGGTTGGACAAAGGCCAG 58.881 50.000 5.01 0.00 35.57 4.85
1475 1495 4.081697 ACTGAAGTTTTGGTTGGACAAAGG 60.082 41.667 0.00 0.00 40.97 3.11
1478 1498 3.829601 ACACTGAAGTTTTGGTTGGACAA 59.170 39.130 0.00 0.00 0.00 3.18
1481 1501 3.691575 TCACACTGAAGTTTTGGTTGGA 58.308 40.909 0.00 0.00 0.00 3.53
1509 1529 2.223688 TGTGAAAGGTCCACAAATTGCG 60.224 45.455 0.00 0.00 41.07 4.85
1539 1559 1.091771 AATGTGGAGGCGCATTCTCG 61.092 55.000 10.83 0.00 30.33 4.04
1542 1562 1.226773 GCAATGTGGAGGCGCATTC 60.227 57.895 10.83 0.00 33.55 2.67
1594 1614 5.858381 TCGATCTTCTATTTCCCAATCCTG 58.142 41.667 0.00 0.00 0.00 3.86
1605 1625 5.178797 CACCCACTTGTTCGATCTTCTATT 58.821 41.667 0.00 0.00 0.00 1.73
1606 1626 4.759782 CACCCACTTGTTCGATCTTCTAT 58.240 43.478 0.00 0.00 0.00 1.98
1632 1652 6.851222 ATGCAGTCTAACGGATTATTTCTG 57.149 37.500 0.00 0.00 36.72 3.02
1640 1660 3.819564 TGCTAATGCAGTCTAACGGAT 57.180 42.857 0.00 0.00 45.31 4.18
1672 1692 7.448777 AGAGTAGAACTTGTCTGTTGTATGAGA 59.551 37.037 0.00 0.00 37.12 3.27
1699 1719 1.007502 GCAACTCAACGCATGGCAA 60.008 52.632 0.00 0.00 0.00 4.52
1707 1727 0.167470 CTCAGGCATGCAACTCAACG 59.833 55.000 21.36 0.00 0.00 4.10
1718 1738 2.827921 GTTTTGGGACATTCTCAGGCAT 59.172 45.455 0.00 0.00 39.30 4.40
1731 1751 0.108585 AGCAGCTTCGAGTTTTGGGA 59.891 50.000 0.00 0.00 0.00 4.37
1759 1779 0.378257 AAACTTGTGCGCACTCACTG 59.622 50.000 37.59 24.13 37.81 3.66
1832 1852 4.792057 GCTGAGCAATTCATTATGCCAGAC 60.792 45.833 0.00 7.26 43.57 3.51
1854 1874 4.051922 ACTACATTGTAGCGCTCTTATGC 58.948 43.478 16.34 0.00 0.00 3.14
1879 1899 2.821969 TCCTCCGGTTGTACTTGTAGTC 59.178 50.000 0.00 0.00 0.00 2.59
1889 1909 2.038164 GGTAAAGAGTTCCTCCGGTTGT 59.962 50.000 0.00 0.00 0.00 3.32
1899 1919 8.100508 AGCAGAAATACAAAGGTAAAGAGTTC 57.899 34.615 0.00 0.00 32.19 3.01
1913 1933 9.283768 TCTGTTGAAATCTTTAGCAGAAATACA 57.716 29.630 0.00 0.00 34.16 2.29
1934 1954 7.201911 CCCCTTTCTGTTGTTTTCTAATCTGTT 60.202 37.037 0.00 0.00 0.00 3.16
1942 1962 4.962362 ACAATCCCCTTTCTGTTGTTTTCT 59.038 37.500 0.00 0.00 29.38 2.52
1943 1963 5.276461 ACAATCCCCTTTCTGTTGTTTTC 57.724 39.130 0.00 0.00 29.38 2.29
2000 2021 6.948309 AGGAGAACAAGTGCAAATAAACCTAT 59.052 34.615 0.00 0.00 0.00 2.57
2037 2058 6.349777 GCTAGAGCTCTTACTTCTGTTTCTCA 60.350 42.308 23.84 0.00 38.21 3.27
2140 2164 3.365969 CCGCACCCAACTTATCTTTGAAC 60.366 47.826 0.00 0.00 0.00 3.18
2158 2182 1.454847 AGAACCAAAACTGCCCGCA 60.455 52.632 0.00 0.00 0.00 5.69
2161 2185 3.572255 TGAATACAGAACCAAAACTGCCC 59.428 43.478 0.00 0.00 37.61 5.36
2238 2262 3.197333 TCTGAATTGCTCCTCTCCTTGAG 59.803 47.826 0.00 0.00 42.30 3.02
2572 2596 3.578282 TGAATTCCCTTCCCAAAAGCTTC 59.422 43.478 0.00 0.00 32.49 3.86
2614 2647 0.250513 GGTACCCTGCAGTTCCTCTG 59.749 60.000 13.81 0.00 46.12 3.35
2707 2740 9.838339 GAGTTCTCCTTTCCAGATATAATTTCA 57.162 33.333 0.00 0.00 0.00 2.69
2726 2759 7.095691 GCTAGAATATGATGCACTTGAGTTCTC 60.096 40.741 0.00 0.00 0.00 2.87
2727 2760 6.705381 GCTAGAATATGATGCACTTGAGTTCT 59.295 38.462 0.00 0.00 0.00 3.01
2745 2778 0.905357 AAGGTCGCCACTGCTAGAAT 59.095 50.000 0.00 0.00 34.43 2.40
2772 2808 1.068055 GTGCAGCATGAACAGGGAAAG 60.068 52.381 0.00 0.00 46.77 2.62
2835 2871 9.225201 CAACCAAATTAAGATCATCATGTAACG 57.775 33.333 0.00 0.00 0.00 3.18
2849 2885 5.464168 CAGTTCAGCCTCAACCAAATTAAG 58.536 41.667 0.00 0.00 0.00 1.85
2851 2887 3.826157 CCAGTTCAGCCTCAACCAAATTA 59.174 43.478 0.00 0.00 0.00 1.40
2859 2895 1.174712 GCAAGCCAGTTCAGCCTCAA 61.175 55.000 0.00 0.00 0.00 3.02
2903 2939 1.293924 GGTCGATCAAGCTCATGGTG 58.706 55.000 0.00 0.00 0.00 4.17
2980 3023 2.093973 AGCTTCGAGGTGTCTTGGTATG 60.094 50.000 0.00 0.00 0.00 2.39
3048 3091 2.030805 GTGCACTTCCTTTGCTTGGTAG 60.031 50.000 10.32 0.00 40.86 3.18
3049 3092 1.953686 GTGCACTTCCTTTGCTTGGTA 59.046 47.619 10.32 0.00 40.86 3.25
3050 3093 0.746659 GTGCACTTCCTTTGCTTGGT 59.253 50.000 10.32 0.00 40.86 3.67
3051 3094 1.035139 AGTGCACTTCCTTTGCTTGG 58.965 50.000 15.25 0.00 40.86 3.61
3052 3095 2.735823 GAAGTGCACTTCCTTTGCTTG 58.264 47.619 38.44 0.00 44.93 4.01
3063 3106 6.712095 TGAAATCACTAATTGAGAAGTGCACT 59.288 34.615 15.25 15.25 42.31 4.40
3064 3107 6.902341 TGAAATCACTAATTGAGAAGTGCAC 58.098 36.000 9.40 9.40 42.31 4.57
3065 3108 6.712095 ACTGAAATCACTAATTGAGAAGTGCA 59.288 34.615 1.83 0.00 42.31 4.57
3066 3109 7.095060 TGACTGAAATCACTAATTGAGAAGTGC 60.095 37.037 1.83 0.00 42.31 4.40
3067 3110 8.315391 TGACTGAAATCACTAATTGAGAAGTG 57.685 34.615 0.41 0.41 43.63 3.16
3072 3115 9.107177 AGCTTATGACTGAAATCACTAATTGAG 57.893 33.333 0.00 0.00 37.77 3.02
3073 3116 9.102757 GAGCTTATGACTGAAATCACTAATTGA 57.897 33.333 0.00 0.00 39.11 2.57
3074 3117 8.341173 GGAGCTTATGACTGAAATCACTAATTG 58.659 37.037 0.00 0.00 0.00 2.32
3075 3118 8.270744 AGGAGCTTATGACTGAAATCACTAATT 58.729 33.333 0.00 0.00 0.00 1.40
3077 3120 7.187824 AGGAGCTTATGACTGAAATCACTAA 57.812 36.000 0.00 0.00 0.00 2.24
3078 3121 6.798427 AGGAGCTTATGACTGAAATCACTA 57.202 37.500 0.00 0.00 0.00 2.74
3079 3122 5.690464 AGGAGCTTATGACTGAAATCACT 57.310 39.130 0.00 0.00 0.00 3.41
3080 3123 6.749923 AAAGGAGCTTATGACTGAAATCAC 57.250 37.500 0.00 0.00 0.00 3.06
3081 3124 6.349611 GCAAAAGGAGCTTATGACTGAAATCA 60.350 38.462 0.00 0.00 0.00 2.57
3082 3125 6.032717 GCAAAAGGAGCTTATGACTGAAATC 58.967 40.000 0.00 0.00 0.00 2.17
3083 3126 5.713861 AGCAAAAGGAGCTTATGACTGAAAT 59.286 36.000 0.00 0.00 39.87 2.17
3084 3127 5.072741 AGCAAAAGGAGCTTATGACTGAAA 58.927 37.500 0.00 0.00 39.87 2.69
3085 3128 4.655963 AGCAAAAGGAGCTTATGACTGAA 58.344 39.130 0.00 0.00 39.87 3.02
3086 3129 4.292186 AGCAAAAGGAGCTTATGACTGA 57.708 40.909 0.00 0.00 39.87 3.41
3090 3133 3.523564 AGGGTAGCAAAAGGAGCTTATGA 59.476 43.478 0.00 0.00 43.25 2.15
3091 3134 3.891049 AGGGTAGCAAAAGGAGCTTATG 58.109 45.455 0.00 0.00 43.25 1.90
3092 3135 4.592997 AAGGGTAGCAAAAGGAGCTTAT 57.407 40.909 0.00 0.00 43.25 1.73
3094 3137 2.980246 AAGGGTAGCAAAAGGAGCTT 57.020 45.000 0.00 0.00 43.25 3.74
3095 3138 4.382386 TTTAAGGGTAGCAAAAGGAGCT 57.618 40.909 0.00 0.00 45.77 4.09
3096 3139 5.462530 TTTTTAAGGGTAGCAAAAGGAGC 57.537 39.130 0.00 0.00 0.00 4.70
3123 3496 2.821969 CCACAATGTAGCAAAAGGAGCT 59.178 45.455 0.00 0.00 45.77 4.09
3124 3497 2.094545 CCCACAATGTAGCAAAAGGAGC 60.095 50.000 0.00 0.00 0.00 4.70
3125 3498 2.094545 GCCCACAATGTAGCAAAAGGAG 60.095 50.000 3.10 0.00 0.00 3.69
3126 3499 1.892474 GCCCACAATGTAGCAAAAGGA 59.108 47.619 3.10 0.00 0.00 3.36
3127 3500 1.895131 AGCCCACAATGTAGCAAAAGG 59.105 47.619 9.73 0.00 0.00 3.11
3128 3501 2.353011 CCAGCCCACAATGTAGCAAAAG 60.353 50.000 9.73 0.00 0.00 2.27
3129 3502 1.617850 CCAGCCCACAATGTAGCAAAA 59.382 47.619 9.73 0.00 0.00 2.44
3130 3503 1.255882 CCAGCCCACAATGTAGCAAA 58.744 50.000 9.73 0.00 0.00 3.68
3131 3504 0.611618 CCCAGCCCACAATGTAGCAA 60.612 55.000 9.73 0.00 0.00 3.91
3132 3505 1.001020 CCCAGCCCACAATGTAGCA 60.001 57.895 9.73 0.00 0.00 3.49
3133 3506 0.611896 AACCCAGCCCACAATGTAGC 60.612 55.000 0.00 0.00 0.00 3.58
3134 3507 1.923356 AAACCCAGCCCACAATGTAG 58.077 50.000 0.00 0.00 0.00 2.74
3136 3509 0.758123 CAAAACCCAGCCCACAATGT 59.242 50.000 0.00 0.00 0.00 2.71
3137 3510 1.047002 TCAAAACCCAGCCCACAATG 58.953 50.000 0.00 0.00 0.00 2.82
3139 3512 1.388065 CGTCAAAACCCAGCCCACAA 61.388 55.000 0.00 0.00 0.00 3.33
3140 3513 1.826054 CGTCAAAACCCAGCCCACA 60.826 57.895 0.00 0.00 0.00 4.17
3141 3514 0.535553 TACGTCAAAACCCAGCCCAC 60.536 55.000 0.00 0.00 0.00 4.61
3142 3515 0.535553 GTACGTCAAAACCCAGCCCA 60.536 55.000 0.00 0.00 0.00 5.36
3143 3516 0.250597 AGTACGTCAAAACCCAGCCC 60.251 55.000 0.00 0.00 0.00 5.19
3144 3517 0.872388 CAGTACGTCAAAACCCAGCC 59.128 55.000 0.00 0.00 0.00 4.85
3145 3518 0.872388 CCAGTACGTCAAAACCCAGC 59.128 55.000 0.00 0.00 0.00 4.85
3146 3519 1.519408 CCCAGTACGTCAAAACCCAG 58.481 55.000 0.00 0.00 0.00 4.45
3148 3521 0.535553 TGCCCAGTACGTCAAAACCC 60.536 55.000 0.00 0.00 0.00 4.11
3149 3522 0.872388 CTGCCCAGTACGTCAAAACC 59.128 55.000 0.00 0.00 0.00 3.27
3150 3523 1.263217 CACTGCCCAGTACGTCAAAAC 59.737 52.381 0.00 0.00 40.20 2.43
3151 3524 1.588674 CACTGCCCAGTACGTCAAAA 58.411 50.000 0.00 0.00 40.20 2.44
3153 3526 1.301401 GCACTGCCCAGTACGTCAA 60.301 57.895 0.00 0.00 40.20 3.18
3154 3527 2.154798 GAGCACTGCCCAGTACGTCA 62.155 60.000 0.00 0.00 40.20 4.35
3155 3528 1.446272 GAGCACTGCCCAGTACGTC 60.446 63.158 0.00 0.00 40.20 4.34
3157 3530 2.125512 GGAGCACTGCCCAGTACG 60.126 66.667 0.00 0.00 40.20 3.67
3158 3531 1.601419 TACGGAGCACTGCCCAGTAC 61.601 60.000 0.00 0.00 40.20 2.73
3160 3533 2.603473 TACGGAGCACTGCCCAGT 60.603 61.111 0.00 0.00 43.61 4.00
3161 3534 2.185350 CTACGGAGCACTGCCCAG 59.815 66.667 0.00 0.00 0.00 4.45
3163 3536 2.125512 CACTACGGAGCACTGCCC 60.126 66.667 0.00 0.00 0.00 5.36
3164 3537 2.125512 CCACTACGGAGCACTGCC 60.126 66.667 0.00 0.00 36.56 4.85
3165 3538 2.815647 GCCACTACGGAGCACTGC 60.816 66.667 0.00 0.00 36.56 4.40
3168 3541 3.701604 CTCGGCCACTACGGAGCAC 62.702 68.421 2.24 0.00 36.56 4.40
3170 3543 3.138798 TCTCGGCCACTACGGAGC 61.139 66.667 2.24 0.00 37.04 4.70
3171 3544 2.799371 GTCTCGGCCACTACGGAG 59.201 66.667 2.24 0.00 38.11 4.63
3173 3546 2.108514 TACGTCTCGGCCACTACGG 61.109 63.158 20.66 7.02 39.57 4.02
3174 3547 1.061570 GTACGTCTCGGCCACTACG 59.938 63.158 16.58 16.58 40.99 3.51
3175 3548 0.523072 TTGTACGTCTCGGCCACTAC 59.477 55.000 2.24 0.00 0.00 2.73
3176 3549 1.133598 CATTGTACGTCTCGGCCACTA 59.866 52.381 2.24 0.00 0.00 2.74
3178 3551 1.693083 GCATTGTACGTCTCGGCCAC 61.693 60.000 2.24 0.00 0.00 5.01
3179 3552 1.447140 GCATTGTACGTCTCGGCCA 60.447 57.895 2.24 0.00 0.00 5.36
3180 3553 1.017177 TTGCATTGTACGTCTCGGCC 61.017 55.000 0.00 0.00 0.00 6.13
3181 3554 1.006832 ATTGCATTGTACGTCTCGGC 58.993 50.000 0.00 0.00 0.00 5.54
3182 3555 2.538449 GGTATTGCATTGTACGTCTCGG 59.462 50.000 0.00 0.00 0.00 4.63
3183 3556 3.183754 TGGTATTGCATTGTACGTCTCG 58.816 45.455 0.00 0.00 0.00 4.04
3184 3557 4.201783 GGTTGGTATTGCATTGTACGTCTC 60.202 45.833 0.00 0.00 0.00 3.36
3185 3558 3.687698 GGTTGGTATTGCATTGTACGTCT 59.312 43.478 0.00 0.00 0.00 4.18
3186 3559 3.687698 AGGTTGGTATTGCATTGTACGTC 59.312 43.478 0.00 0.00 0.00 4.34
3188 3561 3.064820 GGAGGTTGGTATTGCATTGTACG 59.935 47.826 0.00 0.00 0.00 3.67
3189 3562 4.013728 TGGAGGTTGGTATTGCATTGTAC 58.986 43.478 0.00 0.00 0.00 2.90
3191 3564 3.168035 TGGAGGTTGGTATTGCATTGT 57.832 42.857 0.00 0.00 0.00 2.71
3192 3565 4.403432 AGATTGGAGGTTGGTATTGCATTG 59.597 41.667 0.00 0.00 0.00 2.82
3193 3566 4.613437 AGATTGGAGGTTGGTATTGCATT 58.387 39.130 0.00 0.00 0.00 3.56
3195 3568 3.266772 AGAGATTGGAGGTTGGTATTGCA 59.733 43.478 0.00 0.00 0.00 4.08
3196 3569 3.879892 GAGAGATTGGAGGTTGGTATTGC 59.120 47.826 0.00 0.00 0.00 3.56
3197 3570 4.080356 TGGAGAGATTGGAGGTTGGTATTG 60.080 45.833 0.00 0.00 0.00 1.90
3198 3571 4.111577 TGGAGAGATTGGAGGTTGGTATT 58.888 43.478 0.00 0.00 0.00 1.89
3199 3572 3.736094 TGGAGAGATTGGAGGTTGGTAT 58.264 45.455 0.00 0.00 0.00 2.73
3200 3573 3.199442 TGGAGAGATTGGAGGTTGGTA 57.801 47.619 0.00 0.00 0.00 3.25
3201 3574 2.044793 TGGAGAGATTGGAGGTTGGT 57.955 50.000 0.00 0.00 0.00 3.67
3202 3575 3.549794 GATTGGAGAGATTGGAGGTTGG 58.450 50.000 0.00 0.00 0.00 3.77
3203 3576 3.201708 AGGATTGGAGAGATTGGAGGTTG 59.798 47.826 0.00 0.00 0.00 3.77
3204 3577 3.468850 AGGATTGGAGAGATTGGAGGTT 58.531 45.455 0.00 0.00 0.00 3.50
3205 3578 3.142579 AGGATTGGAGAGATTGGAGGT 57.857 47.619 0.00 0.00 0.00 3.85
3206 3579 4.459330 GAAAGGATTGGAGAGATTGGAGG 58.541 47.826 0.00 0.00 0.00 4.30
3207 3580 4.080129 TGGAAAGGATTGGAGAGATTGGAG 60.080 45.833 0.00 0.00 0.00 3.86
3209 3582 3.950395 GTGGAAAGGATTGGAGAGATTGG 59.050 47.826 0.00 0.00 0.00 3.16
3212 3585 3.468850 AGGTGGAAAGGATTGGAGAGAT 58.531 45.455 0.00 0.00 0.00 2.75
3214 3587 4.844349 TTAGGTGGAAAGGATTGGAGAG 57.156 45.455 0.00 0.00 0.00 3.20
3235 3608 3.365969 CGCCTTTAGCCATTCGAGTTTTT 60.366 43.478 0.00 0.00 38.78 1.94
3236 3609 2.161609 CGCCTTTAGCCATTCGAGTTTT 59.838 45.455 0.00 0.00 38.78 2.43
3238 3611 1.369625 CGCCTTTAGCCATTCGAGTT 58.630 50.000 0.00 0.00 38.78 3.01
3240 3613 1.160329 CCCGCCTTTAGCCATTCGAG 61.160 60.000 0.00 0.00 38.78 4.04
3241 3614 1.153249 CCCGCCTTTAGCCATTCGA 60.153 57.895 0.00 0.00 38.78 3.71
3242 3615 1.153249 TCCCGCCTTTAGCCATTCG 60.153 57.895 0.00 0.00 38.78 3.34
3245 3618 0.398318 GATCTCCCGCCTTTAGCCAT 59.602 55.000 0.00 0.00 38.78 4.40


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

AutoCloner maintained by Alex Coulton.