Multiple sequence alignment - TraesCS3A01G103200

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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 TraesCS3A01G103200 chr3A 100.000 3739 0 0 1 3739 66915695 66911957 0.000000e+00 6905.0
1 TraesCS3A01G103200 chr3A 94.215 1210 52 8 1 1209 598943781 598942589 0.000000e+00 1831.0
2 TraesCS3A01G103200 chr3A 99.291 564 4 0 1 564 67006321 67005758 0.000000e+00 1020.0
3 TraesCS3A01G103200 chr3A 78.963 1312 205 30 1477 2736 701351702 701352994 0.000000e+00 828.0
4 TraesCS3A01G103200 chr3A 88.174 482 49 6 738 1211 598944715 598945196 5.420000e-158 568.0
5 TraesCS3A01G103200 chr3A 85.177 479 53 12 738 1206 66920670 66921140 3.380000e-130 475.0
6 TraesCS3A01G103200 chr3A 84.969 479 54 12 738 1206 67011292 67011762 1.570000e-128 470.0
7 TraesCS3A01G103200 chr3A 75.166 753 162 22 1846 2587 700739674 700740412 7.740000e-87 331.0
8 TraesCS3A01G103200 chr3A 88.182 220 23 1 1462 1681 157045075 157044859 3.700000e-65 259.0
9 TraesCS3A01G103200 chr3A 94.545 55 3 0 3008 3062 599863802 599863748 6.650000e-13 86.1
10 TraesCS3A01G103200 chr3A 100.000 29 0 0 3100 3128 66912653 66912681 2.000000e-03 54.7
11 TraesCS3A01G103200 chr3D 93.809 1809 72 21 1229 3028 58090044 58088267 0.000000e+00 2684.0
12 TraesCS3A01G103200 chr3D 81.824 1524 221 40 1500 2989 568234950 568236451 0.000000e+00 1229.0
13 TraesCS3A01G103200 chr3D 81.005 1532 238 35 1493 2989 567664772 567663259 0.000000e+00 1168.0
14 TraesCS3A01G103200 chr3D 82.172 1105 168 17 1500 2591 569119521 569118433 0.000000e+00 922.0
15 TraesCS3A01G103200 chr3D 80.853 1196 206 13 1369 2545 566954499 566955690 0.000000e+00 918.0
16 TraesCS3A01G103200 chr3D 79.489 1253 204 23 1477 2685 566742657 566743900 0.000000e+00 841.0
17 TraesCS3A01G103200 chr3D 80.036 1117 194 17 1487 2591 567516995 567518094 0.000000e+00 800.0
18 TraesCS3A01G103200 chr3D 76.825 1493 252 52 1507 2943 567691092 567689638 0.000000e+00 754.0
19 TraesCS3A01G103200 chr3D 92.237 541 27 6 3210 3739 58088265 58087729 0.000000e+00 752.0
20 TraesCS3A01G103200 chr3D 74.799 1496 280 58 1471 2912 567902720 567904172 5.380000e-163 584.0
21 TraesCS3A01G103200 chr3D 80.769 728 109 22 2150 2861 567486234 567486946 1.180000e-149 540.0
22 TraesCS3A01G103200 chr3D 83.784 592 65 16 3155 3739 568236528 568237095 1.980000e-147 532.0
23 TraesCS3A01G103200 chr3D 82.993 588 69 16 3158 3739 567663178 567662616 1.550000e-138 503.0
24 TraesCS3A01G103200 chr3D 77.146 932 167 34 1999 2906 568111390 568112299 2.010000e-137 499.0
25 TraesCS3A01G103200 chr3D 75.422 1184 206 51 1454 2590 520426568 520427713 2.590000e-136 496.0
26 TraesCS3A01G103200 chr3D 83.447 441 65 5 1517 1956 569842776 569842343 1.620000e-108 403.0
27 TraesCS3A01G103200 chr3D 74.185 1135 213 47 1848 2948 566911424 566910336 2.090000e-107 399.0
28 TraesCS3A01G103200 chr3D 80.841 428 61 17 791 1208 467466730 467466314 2.170000e-82 316.0
29 TraesCS3A01G103200 chr3D 88.038 209 22 1 1468 1676 569132389 569132594 1.040000e-60 244.0
30 TraesCS3A01G103200 chr3D 84.404 109 17 0 3430 3538 138901710 138901602 1.420000e-19 108.0
31 TraesCS3A01G103200 chr3D 96.364 55 2 0 3008 3062 127342719 127342773 1.430000e-14 91.6
32 TraesCS3A01G103200 chr3D 92.000 50 2 2 3422 3469 566613142 566613191 6.700000e-08 69.4
33 TraesCS3A01G103200 chr3D 85.455 55 7 1 3087 3141 460257921 460257868 5.220000e-04 56.5
34 TraesCS3A01G103200 chr3D 100.000 28 0 0 3101 3128 127342753 127342726 7.000000e-03 52.8
35 TraesCS3A01G103200 chr4B 93.607 1220 64 11 1 1210 91743810 91745025 0.000000e+00 1808.0
36 TraesCS3A01G103200 chr4B 85.421 487 50 14 738 1211 89350823 89350345 1.560000e-133 486.0
37 TraesCS3A01G103200 chr4B 86.008 243 31 2 161 402 540463155 540462915 1.330000e-64 257.0
38 TraesCS3A01G103200 chr4B 76.703 279 44 14 2628 2901 121186 120924 6.510000e-28 135.0
39 TraesCS3A01G103200 chr4B 100.000 28 0 0 3109 3136 654325040 654325067 7.000000e-03 52.8
40 TraesCS3A01G103200 chr3B 91.941 1216 57 7 1 1207 16624114 16625297 0.000000e+00 1664.0
41 TraesCS3A01G103200 chr3B 87.892 223 24 1 1462 1684 202001173 202000954 3.700000e-65 259.0
42 TraesCS3A01G103200 chr3B 87.556 225 22 4 1467 1685 752973262 752973038 4.790000e-64 255.0
43 TraesCS3A01G103200 chr3B 82.099 162 26 3 2787 2948 201999828 201999670 6.510000e-28 135.0
44 TraesCS3A01G103200 chr3B 83.898 118 18 1 3422 3538 201998566 201998449 1.100000e-20 111.0
45 TraesCS3A01G103200 chr3B 91.667 60 4 1 3003 3062 637088489 637088547 8.610000e-12 82.4
46 TraesCS3A01G103200 chr3B 100.000 37 0 0 3703 3739 90979329 90979293 6.700000e-08 69.4
47 TraesCS3A01G103200 chr1A 97.109 934 25 2 1 934 540438355 540439286 0.000000e+00 1574.0
48 TraesCS3A01G103200 chr1A 86.221 479 48 13 738 1206 540416133 540415663 1.550000e-138 503.0
49 TraesCS3A01G103200 chr1A 95.324 278 13 0 930 1207 540452652 540452929 3.430000e-120 442.0
50 TraesCS3A01G103200 chr4D 94.080 625 36 1 1 625 123150442 123149819 0.000000e+00 948.0
51 TraesCS3A01G103200 chr4D 91.921 458 34 3 618 1073 123148277 123147821 4.070000e-179 638.0
52 TraesCS3A01G103200 chr6A 77.983 1081 188 28 1507 2566 596777193 596776142 1.890000e-177 632.0
53 TraesCS3A01G103200 chr6A 80.930 430 56 14 1 407 595573662 595574088 2.170000e-82 316.0
54 TraesCS3A01G103200 chr2B 88.372 344 27 7 394 725 450256684 450256342 5.820000e-108 401.0
55 TraesCS3A01G103200 chr2B 93.333 60 3 1 3003 3062 273740370 273740428 1.850000e-13 87.9
56 TraesCS3A01G103200 chr2B 96.774 31 1 0 3106 3136 731609809 731609839 7.000000e-03 52.8
57 TraesCS3A01G103200 chr1B 92.473 279 20 1 1 279 259333632 259333355 7.520000e-107 398.0
58 TraesCS3A01G103200 chr1B 93.103 58 4 0 3005 3062 681792279 681792336 6.650000e-13 86.1
59 TraesCS3A01G103200 chr1B 92.982 57 4 0 3006 3062 678771324 678771380 2.390000e-12 84.2
60 TraesCS3A01G103200 chr5D 84.682 346 40 10 1 335 301122843 301123186 2.150000e-87 333.0
61 TraesCS3A01G103200 chr2D 84.227 317 29 10 404 701 378908201 378907887 4.730000e-74 289.0
62 TraesCS3A01G103200 chr5B 79.845 387 69 9 7 388 685068312 685068694 1.320000e-69 274.0
63 TraesCS3A01G103200 chr7D 89.055 201 20 2 1477 1676 41601840 41601641 8.020000e-62 248.0
64 TraesCS3A01G103200 chrUn 71.429 1134 207 78 1845 2941 41197282 41196229 1.370000e-44 191.0
65 TraesCS3A01G103200 chrUn 84.404 109 17 0 3430 3538 41058810 41058918 1.420000e-19 108.0
66 TraesCS3A01G103200 chr4A 77.061 279 43 14 2628 2901 79869 79607 1.400000e-29 141.0
67 TraesCS3A01G103200 chr2A 83.333 132 9 8 3009 3135 179289311 179289188 3.950000e-20 110.0
68 TraesCS3A01G103200 chr7B 94.545 55 3 0 3008 3062 123782866 123782920 6.650000e-13 86.1


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 TraesCS3A01G103200 chr3A 66911957 66915695 3738 True 6905.0 6905 100.0000 1 3739 1 chr3A.!!$R1 3738
1 TraesCS3A01G103200 chr3A 598942589 598943781 1192 True 1831.0 1831 94.2150 1 1209 1 chr3A.!!$R4 1208
2 TraesCS3A01G103200 chr3A 67005758 67006321 563 True 1020.0 1020 99.2910 1 564 1 chr3A.!!$R2 563
3 TraesCS3A01G103200 chr3A 701351702 701352994 1292 False 828.0 828 78.9630 1477 2736 1 chr3A.!!$F6 1259
4 TraesCS3A01G103200 chr3A 700739674 700740412 738 False 331.0 331 75.1660 1846 2587 1 chr3A.!!$F5 741
5 TraesCS3A01G103200 chr3D 58087729 58090044 2315 True 1718.0 2684 93.0230 1229 3739 2 chr3D.!!$R9 2510
6 TraesCS3A01G103200 chr3D 569118433 569119521 1088 True 922.0 922 82.1720 1500 2591 1 chr3D.!!$R7 1091
7 TraesCS3A01G103200 chr3D 566954499 566955690 1191 False 918.0 918 80.8530 1369 2545 1 chr3D.!!$F5 1176
8 TraesCS3A01G103200 chr3D 568234950 568237095 2145 False 880.5 1229 82.8040 1500 3739 2 chr3D.!!$F11 2239
9 TraesCS3A01G103200 chr3D 566742657 566743900 1243 False 841.0 841 79.4890 1477 2685 1 chr3D.!!$F4 1208
10 TraesCS3A01G103200 chr3D 567662616 567664772 2156 True 835.5 1168 81.9990 1493 3739 2 chr3D.!!$R10 2246
11 TraesCS3A01G103200 chr3D 567516995 567518094 1099 False 800.0 800 80.0360 1487 2591 1 chr3D.!!$F7 1104
12 TraesCS3A01G103200 chr3D 567689638 567691092 1454 True 754.0 754 76.8250 1507 2943 1 chr3D.!!$R6 1436
13 TraesCS3A01G103200 chr3D 567902720 567904172 1452 False 584.0 584 74.7990 1471 2912 1 chr3D.!!$F8 1441
14 TraesCS3A01G103200 chr3D 567486234 567486946 712 False 540.0 540 80.7690 2150 2861 1 chr3D.!!$F6 711
15 TraesCS3A01G103200 chr3D 568111390 568112299 909 False 499.0 499 77.1460 1999 2906 1 chr3D.!!$F9 907
16 TraesCS3A01G103200 chr3D 520426568 520427713 1145 False 496.0 496 75.4220 1454 2590 1 chr3D.!!$F2 1136
17 TraesCS3A01G103200 chr3D 566910336 566911424 1088 True 399.0 399 74.1850 1848 2948 1 chr3D.!!$R5 1100
18 TraesCS3A01G103200 chr4B 91743810 91745025 1215 False 1808.0 1808 93.6070 1 1210 1 chr4B.!!$F1 1209
19 TraesCS3A01G103200 chr3B 16624114 16625297 1183 False 1664.0 1664 91.9410 1 1207 1 chr3B.!!$F1 1206
20 TraesCS3A01G103200 chr1A 540438355 540439286 931 False 1574.0 1574 97.1090 1 934 1 chr1A.!!$F1 933
21 TraesCS3A01G103200 chr4D 123147821 123150442 2621 True 793.0 948 93.0005 1 1073 2 chr4D.!!$R1 1072
22 TraesCS3A01G103200 chr6A 596776142 596777193 1051 True 632.0 632 77.9830 1507 2566 1 chr6A.!!$R1 1059

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
751 2302 0.744281 TGTATGAGCTCGCGATTCCA 59.256 50.0 10.36 8.15 0.00 3.53 F
1038 2620 0.099791 CGTTTTTGCCCAGTCAACGT 59.900 50.0 0.00 0.00 36.37 3.99 F
1298 2885 0.544223 CGGGAGAGAGACAGAGAGGA 59.456 60.0 0.00 0.00 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2620 4403 0.107081 CACCACCACACTCCCGTAAA 59.893 55.0 0.0 0.0 0.0 2.01 R
2626 4409 0.179018 AAGAAGCACCACCACACTCC 60.179 55.0 0.0 0.0 0.0 3.85 R
3117 4906 2.019807 AGTACTCCTTCCGTCCCAAA 57.980 50.0 0.0 0.0 0.0 3.28 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
704 2255 2.671276 TGGTCGGCCGTACGTACA 60.671 61.111 27.15 13.00 37.67 2.90
751 2302 0.744281 TGTATGAGCTCGCGATTCCA 59.256 50.000 10.36 8.15 0.00 3.53
754 2305 1.960040 ATGAGCTCGCGATTCCACCA 61.960 55.000 10.36 2.67 0.00 4.17
808 2359 1.153289 GAGATGGAGGCACACGCAT 60.153 57.895 0.00 0.00 41.24 4.73
915 2475 0.898789 AGCGAACGAAAGGGGAGAGA 60.899 55.000 0.00 0.00 0.00 3.10
946 2506 1.805539 CGACGGCGCTCTGATGAAA 60.806 57.895 6.90 0.00 0.00 2.69
1038 2620 0.099791 CGTTTTTGCCCAGTCAACGT 59.900 50.000 0.00 0.00 36.37 3.99
1053 2635 4.330894 AGTCAACGTGTAATCTGCATCATG 59.669 41.667 0.00 0.00 0.00 3.07
1125 2710 8.866970 ATTAACCCGGTTTTAGTAATTTCAGA 57.133 30.769 8.44 0.00 0.00 3.27
1210 2795 9.841880 GGGTGATTTGTATACTTCTTTCTTTTC 57.158 33.333 4.17 0.00 0.00 2.29
1222 2807 8.788409 ACTTCTTTCTTTTCTATTTTTGCGAG 57.212 30.769 0.00 0.00 0.00 5.03
1223 2808 8.621286 ACTTCTTTCTTTTCTATTTTTGCGAGA 58.379 29.630 0.00 0.00 0.00 4.04
1224 2809 9.450807 CTTCTTTCTTTTCTATTTTTGCGAGAA 57.549 29.630 0.00 0.00 0.00 2.87
1225 2810 8.782533 TCTTTCTTTTCTATTTTTGCGAGAAC 57.217 30.769 0.00 0.00 0.00 3.01
1226 2811 8.621286 TCTTTCTTTTCTATTTTTGCGAGAACT 58.379 29.630 0.00 0.00 0.00 3.01
1227 2812 8.782533 TTTCTTTTCTATTTTTGCGAGAACTC 57.217 30.769 0.00 0.00 0.00 3.01
1228 2813 7.490962 TCTTTTCTATTTTTGCGAGAACTCA 57.509 32.000 2.78 0.00 0.00 3.41
1229 2814 7.352739 TCTTTTCTATTTTTGCGAGAACTCAC 58.647 34.615 2.78 0.00 0.00 3.51
1230 2815 4.903638 TCTATTTTTGCGAGAACTCACG 57.096 40.909 2.78 0.00 0.00 4.35
1236 2821 3.470567 CGAGAACTCACGCGTGCC 61.471 66.667 33.63 20.72 0.00 5.01
1281 2868 1.030457 AGCCGTACTATTGTCTCCGG 58.970 55.000 0.00 0.00 36.10 5.14
1298 2885 0.544223 CGGGAGAGAGACAGAGAGGA 59.456 60.000 0.00 0.00 0.00 3.71
1307 2894 4.742012 AGAGACAGAGAGGAAAACCTACA 58.258 43.478 0.00 0.00 0.00 2.74
1339 2926 1.227527 CGTCACTGCCACAACTCCA 60.228 57.895 0.00 0.00 0.00 3.86
1340 2927 1.498865 CGTCACTGCCACAACTCCAC 61.499 60.000 0.00 0.00 0.00 4.02
1380 2969 1.606994 GCGAGAGAGGATCGAGAGCTA 60.607 57.143 0.00 0.00 42.76 3.32
1448 3038 3.986006 GGTCGCCACCACTCGTCA 61.986 66.667 0.00 0.00 43.17 4.35
1835 3491 1.766143 CGCACCTGGAATAAGAGCGC 61.766 60.000 0.00 0.00 35.72 5.92
2139 3857 4.787551 ACGGGCTGATAATGGTATTTGAA 58.212 39.130 0.00 0.00 0.00 2.69
2483 4221 1.348036 GTTGGTTGCTAGTCTCCACCT 59.652 52.381 0.00 0.00 0.00 4.00
2612 4395 3.198068 CGAAGGATGTTGAGTATGGTGG 58.802 50.000 0.00 0.00 0.00 4.61
2613 4396 3.369471 CGAAGGATGTTGAGTATGGTGGT 60.369 47.826 0.00 0.00 0.00 4.16
2614 4397 3.634397 AGGATGTTGAGTATGGTGGTG 57.366 47.619 0.00 0.00 0.00 4.17
2615 4398 2.017049 GGATGTTGAGTATGGTGGTGC 58.983 52.381 0.00 0.00 0.00 5.01
2616 4399 2.356125 GGATGTTGAGTATGGTGGTGCT 60.356 50.000 0.00 0.00 0.00 4.40
2617 4400 2.949177 TGTTGAGTATGGTGGTGCTT 57.051 45.000 0.00 0.00 0.00 3.91
2618 4401 3.222173 TGTTGAGTATGGTGGTGCTTT 57.778 42.857 0.00 0.00 0.00 3.51
2619 4402 3.561143 TGTTGAGTATGGTGGTGCTTTT 58.439 40.909 0.00 0.00 0.00 2.27
2620 4403 3.957497 TGTTGAGTATGGTGGTGCTTTTT 59.043 39.130 0.00 0.00 0.00 1.94
2721 4504 4.804597 TCTCTATGAGCCCACTAGCTTTA 58.195 43.478 0.00 0.00 45.15 1.85
2794 4580 7.810759 CGGTGTTACCTGTTTGCTTTATATTTT 59.189 33.333 0.00 0.00 35.66 1.82
2924 4712 6.321181 TGCCTCTGTTTTCATGAACTTTAAGT 59.679 34.615 7.89 0.00 0.00 2.24
2967 4755 9.198475 CCCTTTAGAGTTTAGATACTGGTCTTA 57.802 37.037 0.00 0.00 0.00 2.10
3028 4817 5.922053 AGTATTACCTCCGTCCCAAATTAC 58.078 41.667 0.00 0.00 0.00 1.89
3029 4818 5.664457 AGTATTACCTCCGTCCCAAATTACT 59.336 40.000 0.00 0.00 0.00 2.24
3030 4819 4.914177 TTACCTCCGTCCCAAATTACTT 57.086 40.909 0.00 0.00 0.00 2.24
3032 4821 2.374170 ACCTCCGTCCCAAATTACTTGT 59.626 45.455 0.00 0.00 32.65 3.16
3033 4822 3.007635 CCTCCGTCCCAAATTACTTGTC 58.992 50.000 0.00 0.00 32.65 3.18
3034 4823 3.307480 CCTCCGTCCCAAATTACTTGTCT 60.307 47.826 0.00 0.00 32.65 3.41
3035 4824 4.324267 CTCCGTCCCAAATTACTTGTCTT 58.676 43.478 0.00 0.00 32.65 3.01
3036 4825 4.069304 TCCGTCCCAAATTACTTGTCTTG 58.931 43.478 0.00 0.00 32.65 3.02
3037 4826 3.190535 CCGTCCCAAATTACTTGTCTTGG 59.809 47.826 0.00 0.00 38.45 3.61
3038 4827 4.069304 CGTCCCAAATTACTTGTCTTGGA 58.931 43.478 1.26 0.00 40.72 3.53
3041 4830 6.294508 CGTCCCAAATTACTTGTCTTGGATTT 60.295 38.462 1.26 0.00 40.72 2.17
3042 4831 7.441836 GTCCCAAATTACTTGTCTTGGATTTT 58.558 34.615 1.26 0.00 40.72 1.82
3043 4832 7.931407 GTCCCAAATTACTTGTCTTGGATTTTT 59.069 33.333 1.26 0.00 40.72 1.94
3044 4833 8.147704 TCCCAAATTACTTGTCTTGGATTTTTC 58.852 33.333 1.26 0.00 40.72 2.29
3045 4834 8.150296 CCCAAATTACTTGTCTTGGATTTTTCT 58.850 33.333 1.26 0.00 40.72 2.52
3054 4843 9.658799 CTTGTCTTGGATTTTTCTAGATACAGA 57.341 33.333 0.00 0.00 0.00 3.41
3056 4845 9.605275 TGTCTTGGATTTTTCTAGATACAGATG 57.395 33.333 0.00 0.00 0.00 2.90
3057 4846 9.606631 GTCTTGGATTTTTCTAGATACAGATGT 57.393 33.333 0.00 0.00 0.00 3.06
3074 4863 9.784531 ATACAGATGTATCTCCCAAATTACTTG 57.215 33.333 0.00 0.00 36.57 3.16
3075 4864 7.633789 ACAGATGTATCTCCCAAATTACTTGT 58.366 34.615 0.00 0.00 34.22 3.16
3076 4865 7.770897 ACAGATGTATCTCCCAAATTACTTGTC 59.229 37.037 0.00 0.00 34.22 3.18
3077 4866 7.989741 CAGATGTATCTCCCAAATTACTTGTCT 59.010 37.037 0.00 0.00 34.22 3.41
3078 4867 8.552296 AGATGTATCTCCCAAATTACTTGTCTT 58.448 33.333 0.00 0.00 29.55 3.01
3080 4869 6.884295 TGTATCTCCCAAATTACTTGTCTTGG 59.116 38.462 0.00 0.00 38.45 3.61
3081 4870 5.576563 TCTCCCAAATTACTTGTCTTGGA 57.423 39.130 1.26 0.00 40.72 3.53
3082 4871 5.313712 TCTCCCAAATTACTTGTCTTGGAC 58.686 41.667 1.26 0.00 40.72 4.02
3083 4872 5.073144 TCTCCCAAATTACTTGTCTTGGACT 59.927 40.000 1.26 0.00 40.72 3.85
3084 4873 5.701224 TCCCAAATTACTTGTCTTGGACTT 58.299 37.500 1.26 0.00 40.72 3.01
3085 4874 6.133356 TCCCAAATTACTTGTCTTGGACTTT 58.867 36.000 1.26 0.00 40.72 2.66
3086 4875 6.609616 TCCCAAATTACTTGTCTTGGACTTTT 59.390 34.615 1.26 0.00 40.72 2.27
3087 4876 6.923508 CCCAAATTACTTGTCTTGGACTTTTC 59.076 38.462 1.26 0.00 40.72 2.29
3088 4877 7.201911 CCCAAATTACTTGTCTTGGACTTTTCT 60.202 37.037 1.26 0.00 40.72 2.52
3089 4878 8.846211 CCAAATTACTTGTCTTGGACTTTTCTA 58.154 33.333 0.00 0.00 40.72 2.10
3090 4879 9.884465 CAAATTACTTGTCTTGGACTTTTCTAG 57.116 33.333 0.00 0.00 33.15 2.43
3091 4880 9.847224 AAATTACTTGTCTTGGACTTTTCTAGA 57.153 29.630 0.00 0.00 33.15 2.43
3094 4883 9.924650 TTACTTGTCTTGGACTTTTCTAGATAC 57.075 33.333 0.00 0.00 33.15 2.24
3095 4884 7.963532 ACTTGTCTTGGACTTTTCTAGATACA 58.036 34.615 0.00 0.00 33.15 2.29
3096 4885 8.091449 ACTTGTCTTGGACTTTTCTAGATACAG 58.909 37.037 0.00 0.00 33.15 2.74
3097 4886 6.936279 TGTCTTGGACTTTTCTAGATACAGG 58.064 40.000 0.00 0.00 33.15 4.00
3098 4887 6.070767 TGTCTTGGACTTTTCTAGATACAGGG 60.071 42.308 0.00 0.00 33.15 4.45
3099 4888 6.154706 GTCTTGGACTTTTCTAGATACAGGGA 59.845 42.308 0.00 0.00 0.00 4.20
3100 4889 6.729100 TCTTGGACTTTTCTAGATACAGGGAA 59.271 38.462 0.00 0.00 0.00 3.97
3101 4890 6.945636 TGGACTTTTCTAGATACAGGGAAA 57.054 37.500 0.00 0.00 0.00 3.13
3102 4891 7.324388 TGGACTTTTCTAGATACAGGGAAAA 57.676 36.000 0.00 0.00 36.60 2.29
3103 4892 7.928873 TGGACTTTTCTAGATACAGGGAAAAT 58.071 34.615 0.00 0.00 37.16 1.82
3104 4893 8.047310 TGGACTTTTCTAGATACAGGGAAAATC 58.953 37.037 0.00 0.00 37.16 2.17
3105 4894 7.499563 GGACTTTTCTAGATACAGGGAAAATCC 59.500 40.741 0.00 0.00 37.16 3.01
3106 4895 7.928873 ACTTTTCTAGATACAGGGAAAATCCA 58.071 34.615 0.00 0.00 38.64 3.41
3107 4896 8.390921 ACTTTTCTAGATACAGGGAAAATCCAA 58.609 33.333 0.00 0.00 38.64 3.53
3108 4897 8.807948 TTTTCTAGATACAGGGAAAATCCAAG 57.192 34.615 0.00 0.00 38.64 3.61
3109 4898 7.749377 TTCTAGATACAGGGAAAATCCAAGA 57.251 36.000 0.00 0.00 38.64 3.02
3110 4899 7.125792 TCTAGATACAGGGAAAATCCAAGAC 57.874 40.000 0.00 0.00 38.64 3.01
3111 4900 5.779241 AGATACAGGGAAAATCCAAGACA 57.221 39.130 0.00 0.00 38.64 3.41
3112 4901 6.139679 AGATACAGGGAAAATCCAAGACAA 57.860 37.500 0.00 0.00 38.64 3.18
3113 4902 6.183347 AGATACAGGGAAAATCCAAGACAAG 58.817 40.000 0.00 0.00 38.64 3.16
3114 4903 4.184649 ACAGGGAAAATCCAAGACAAGT 57.815 40.909 0.00 0.00 38.64 3.16
3115 4904 5.319043 ACAGGGAAAATCCAAGACAAGTA 57.681 39.130 0.00 0.00 38.64 2.24
3116 4905 5.701224 ACAGGGAAAATCCAAGACAAGTAA 58.299 37.500 0.00 0.00 38.64 2.24
3117 4906 6.314917 ACAGGGAAAATCCAAGACAAGTAAT 58.685 36.000 0.00 0.00 38.64 1.89
3118 4907 6.782494 ACAGGGAAAATCCAAGACAAGTAATT 59.218 34.615 0.00 0.00 38.64 1.40
3119 4908 7.290014 ACAGGGAAAATCCAAGACAAGTAATTT 59.710 33.333 0.00 0.00 38.64 1.82
3120 4909 7.599998 CAGGGAAAATCCAAGACAAGTAATTTG 59.400 37.037 0.00 0.00 38.64 2.32
3121 4910 6.873605 GGGAAAATCCAAGACAAGTAATTTGG 59.126 38.462 0.00 0.00 38.59 3.28
3122 4911 6.873605 GGAAAATCCAAGACAAGTAATTTGGG 59.126 38.462 2.61 0.00 40.33 4.12
3123 4912 7.256154 GGAAAATCCAAGACAAGTAATTTGGGA 60.256 37.037 2.61 0.00 40.33 4.37
3124 4913 6.590234 AATCCAAGACAAGTAATTTGGGAC 57.410 37.500 2.61 0.00 41.25 4.46
3125 4914 4.069304 TCCAAGACAAGTAATTTGGGACG 58.931 43.478 2.61 0.00 41.25 4.79
3126 4915 3.190535 CCAAGACAAGTAATTTGGGACGG 59.809 47.826 0.00 0.00 41.25 4.79
3127 4916 4.069304 CAAGACAAGTAATTTGGGACGGA 58.931 43.478 0.00 0.00 41.25 4.69
3128 4917 4.360951 AGACAAGTAATTTGGGACGGAA 57.639 40.909 0.00 0.00 41.25 4.30
3129 4918 4.324267 AGACAAGTAATTTGGGACGGAAG 58.676 43.478 0.00 0.00 41.25 3.46
3130 4919 3.418047 ACAAGTAATTTGGGACGGAAGG 58.582 45.455 0.00 0.00 41.25 3.46
3131 4920 3.073356 ACAAGTAATTTGGGACGGAAGGA 59.927 43.478 0.00 0.00 41.25 3.36
3132 4921 3.629142 AGTAATTTGGGACGGAAGGAG 57.371 47.619 0.00 0.00 0.00 3.69
3133 4922 2.910977 AGTAATTTGGGACGGAAGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
3134 4923 4.098894 AGTAATTTGGGACGGAAGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
3135 4924 3.345508 AATTTGGGACGGAAGGAGTAC 57.654 47.619 0.00 0.00 0.00 2.73
3136 4925 2.019807 TTTGGGACGGAAGGAGTACT 57.980 50.000 0.00 0.00 0.00 2.73
3137 4926 2.019807 TTGGGACGGAAGGAGTACTT 57.980 50.000 0.00 0.00 43.65 2.24
3138 4927 2.905415 TGGGACGGAAGGAGTACTTA 57.095 50.000 0.00 0.00 40.21 2.24
3139 4928 3.173953 TGGGACGGAAGGAGTACTTAA 57.826 47.619 0.00 0.00 40.21 1.85
3140 4929 3.716431 TGGGACGGAAGGAGTACTTAAT 58.284 45.455 0.00 0.00 40.21 1.40
3141 4930 4.870636 TGGGACGGAAGGAGTACTTAATA 58.129 43.478 0.00 0.00 40.21 0.98
3142 4931 4.646492 TGGGACGGAAGGAGTACTTAATAC 59.354 45.833 0.00 0.00 40.21 1.89
3143 4932 4.646492 GGGACGGAAGGAGTACTTAATACA 59.354 45.833 0.00 0.00 40.21 2.29
3144 4933 5.127682 GGGACGGAAGGAGTACTTAATACAA 59.872 44.000 0.00 0.00 40.21 2.41
3145 4934 6.271566 GGACGGAAGGAGTACTTAATACAAG 58.728 44.000 0.00 0.00 40.21 3.16
3146 4935 6.096001 GGACGGAAGGAGTACTTAATACAAGA 59.904 42.308 0.00 0.00 40.21 3.02
3147 4936 6.861144 ACGGAAGGAGTACTTAATACAAGAC 58.139 40.000 0.00 0.00 40.21 3.01
3148 4937 6.435277 ACGGAAGGAGTACTTAATACAAGACA 59.565 38.462 0.00 0.00 40.21 3.41
3149 4938 7.039504 ACGGAAGGAGTACTTAATACAAGACAA 60.040 37.037 0.00 0.00 40.21 3.18
3150 4939 7.275123 CGGAAGGAGTACTTAATACAAGACAAC 59.725 40.741 0.00 0.00 40.21 3.32
3151 4940 8.092687 GGAAGGAGTACTTAATACAAGACAACA 58.907 37.037 0.00 0.00 40.21 3.33
3152 4941 9.485206 GAAGGAGTACTTAATACAAGACAACAA 57.515 33.333 0.00 0.00 40.21 2.83
3153 4942 9.841295 AAGGAGTACTTAATACAAGACAACAAA 57.159 29.630 0.00 0.00 37.74 2.83
3164 4953 4.816925 ACAAGACAACAAAGAAGGAGTAGC 59.183 41.667 0.00 0.00 0.00 3.58
3165 4954 4.965200 AGACAACAAAGAAGGAGTAGCT 57.035 40.909 0.00 0.00 0.00 3.32
3177 4966 6.133356 AGAAGGAGTAGCTAGCAATTCTACT 58.867 40.000 18.83 14.92 43.89 2.57
3194 4985 7.667043 ATTCTACTTGCATCGTCTGTTTTTA 57.333 32.000 0.00 0.00 0.00 1.52
3202 4993 5.088739 GCATCGTCTGTTTTTATTGTCCTG 58.911 41.667 0.00 0.00 0.00 3.86
3297 5088 2.352127 GCATGTGCTTCCTGTTCCTTTC 60.352 50.000 0.00 0.00 38.21 2.62
3405 5204 9.807649 GCACTACATTAATTTCTCATTGGAATT 57.192 29.630 0.00 0.00 0.00 2.17
3437 5237 5.407387 GCAACTCATTCTTGTTCATTGCATT 59.593 36.000 0.00 0.00 40.63 3.56
3458 5258 8.976353 TGCATTTGGTTAGGTATTGAAACATAT 58.024 29.630 0.00 0.00 0.00 1.78
3478 5278 9.533253 AACATATTGTTATAATTCTGGCTTTGC 57.467 29.630 0.00 0.00 39.09 3.68
3486 5286 2.843401 TTCTGGCTTTGCATTGCATT 57.157 40.000 12.95 0.00 38.76 3.56
3500 5300 6.171213 TGCATTGCATTGTTTGGAATCATAA 58.829 32.000 7.38 0.00 43.72 1.90
3600 5400 8.988064 AATAGATGTTATAATGTACAGGCTCG 57.012 34.615 0.33 0.00 0.00 5.03
3614 5414 5.007385 ACAGGCTCGTATCGAAAACTATT 57.993 39.130 0.00 0.00 34.74 1.73
3659 5459 3.976793 ATAGTTGGCAAATGATCTGCG 57.023 42.857 10.91 0.00 40.88 5.18
3690 5490 7.970614 GTCTTTGTTTGTCTTTGAACTGAAGAT 59.029 33.333 0.00 0.00 35.74 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
690 2241 2.753966 GCTCTGTACGTACGGCCGA 61.754 63.158 35.90 13.31 32.63 5.54
751 2302 0.176219 TTCTGGTGTCGTTCGTTGGT 59.824 50.000 0.00 0.00 0.00 3.67
754 2305 1.213094 CGCTTCTGGTGTCGTTCGTT 61.213 55.000 0.00 0.00 0.00 3.85
808 2359 0.396435 AACGAAGCCATGTGTCCAGA 59.604 50.000 0.00 0.00 0.00 3.86
915 2475 1.079127 CCGTCGCCTCCAGAAATGT 60.079 57.895 0.00 0.00 0.00 2.71
946 2506 3.391626 ACCTCGTCTCCTTCCTTTCTTTT 59.608 43.478 0.00 0.00 0.00 2.27
1038 2620 2.134354 TCCCCCATGATGCAGATTACA 58.866 47.619 0.00 0.00 0.00 2.41
1053 2635 0.392595 CTAGAGCGGTTTTGTCCCCC 60.393 60.000 0.00 0.00 0.00 5.40
1125 2710 5.820947 ACTCAAAACCGAGACAAATAACACT 59.179 36.000 0.00 0.00 36.47 3.55
1219 2804 3.470567 GGCACGCGTGAGTTCTCG 61.471 66.667 41.19 14.19 36.12 4.04
1220 2805 2.355837 TGGCACGCGTGAGTTCTC 60.356 61.111 41.19 22.24 0.00 2.87
1221 2806 2.661866 GTGGCACGCGTGAGTTCT 60.662 61.111 41.19 0.00 0.00 3.01
1222 2807 2.042520 TTTGTGGCACGCGTGAGTTC 62.043 55.000 41.19 25.51 45.01 3.01
1223 2808 1.649390 TTTTGTGGCACGCGTGAGTT 61.649 50.000 41.19 0.57 45.01 3.01
1224 2809 2.109739 TTTTGTGGCACGCGTGAGT 61.110 52.632 41.19 1.06 45.01 3.41
1225 2810 1.654137 GTTTTGTGGCACGCGTGAG 60.654 57.895 41.19 18.26 45.01 3.51
1226 2811 2.109739 AGTTTTGTGGCACGCGTGA 61.110 52.632 41.19 20.36 45.01 4.35
1227 2812 1.938814 CAGTTTTGTGGCACGCGTG 60.939 57.895 34.01 34.01 45.01 5.34
1228 2813 2.407210 CAGTTTTGTGGCACGCGT 59.593 55.556 5.58 5.58 45.01 6.01
1229 2814 2.353376 CCAGTTTTGTGGCACGCG 60.353 61.111 13.77 3.53 45.01 6.01
1230 2815 2.027460 CCCAGTTTTGTGGCACGC 59.973 61.111 13.77 3.27 36.11 5.34
1231 2816 2.027460 GCCCAGTTTTGTGGCACG 59.973 61.111 13.77 0.00 39.23 5.34
1232 2817 1.965754 TTGGCCCAGTTTTGTGGCAC 61.966 55.000 11.55 11.55 37.00 5.01
1236 2821 1.069596 GGCTTGGCCCAGTTTTGTG 59.930 57.895 5.61 0.00 44.06 3.33
1250 2835 1.304052 TACGGCTGCATTTGGGCTT 60.304 52.632 0.50 0.00 34.04 4.35
1281 2868 3.194755 GGTTTTCCTCTCTGTCTCTCTCC 59.805 52.174 0.00 0.00 36.94 3.71
1298 2885 1.270678 GGCGGAGTGAGTGTAGGTTTT 60.271 52.381 0.00 0.00 0.00 2.43
1359 2946 1.163420 GCTCTCGATCCTCTCTCGCA 61.163 60.000 0.00 0.00 36.11 5.10
1427 3017 2.741092 GAGTGGTGGCGACCTCAA 59.259 61.111 19.42 0.00 43.58 3.02
1428 3018 3.680786 CGAGTGGTGGCGACCTCA 61.681 66.667 19.42 0.00 43.58 3.86
1448 3038 2.042843 AGTTCCCGATCCGCCTCT 60.043 61.111 0.00 0.00 0.00 3.69
1835 3491 0.686224 GCAGATGGAGAGAGATGGGG 59.314 60.000 0.00 0.00 0.00 4.96
2139 3857 1.008079 GAACGACTCGACGGTGGTT 60.008 57.895 5.20 13.59 39.97 3.67
2395 4127 2.635714 CAGCAAGAGCACATCACCATA 58.364 47.619 0.00 0.00 45.49 2.74
2483 4221 2.444421 GAGTAGGACGGAGGAAACTGA 58.556 52.381 0.00 0.00 44.43 3.41
2545 4283 5.606749 TGATAACATAACCCTCTAGTGCCAT 59.393 40.000 0.00 0.00 0.00 4.40
2618 4401 1.212441 ACCACCACACTCCCGTAAAAA 59.788 47.619 0.00 0.00 0.00 1.94
2619 4402 0.838608 ACCACCACACTCCCGTAAAA 59.161 50.000 0.00 0.00 0.00 1.52
2620 4403 0.107081 CACCACCACACTCCCGTAAA 59.893 55.000 0.00 0.00 0.00 2.01
2621 4404 1.749665 CACCACCACACTCCCGTAA 59.250 57.895 0.00 0.00 0.00 3.18
2622 4405 2.874664 GCACCACCACACTCCCGTA 61.875 63.158 0.00 0.00 0.00 4.02
2623 4406 4.250305 GCACCACCACACTCCCGT 62.250 66.667 0.00 0.00 0.00 5.28
2624 4407 3.476031 AAGCACCACCACACTCCCG 62.476 63.158 0.00 0.00 0.00 5.14
2625 4408 1.600916 GAAGCACCACCACACTCCC 60.601 63.158 0.00 0.00 0.00 4.30
2626 4409 0.179018 AAGAAGCACCACCACACTCC 60.179 55.000 0.00 0.00 0.00 3.85
2627 4410 2.543777 TAAGAAGCACCACCACACTC 57.456 50.000 0.00 0.00 0.00 3.51
2628 4411 3.149196 CATTAAGAAGCACCACCACACT 58.851 45.455 0.00 0.00 0.00 3.55
2685 4468 6.101332 GCTCATAGAGAGGATCAAGCTAATG 58.899 44.000 0.00 0.00 44.86 1.90
2690 4473 2.028203 GGGCTCATAGAGAGGATCAAGC 60.028 54.545 0.00 0.00 44.86 4.01
2867 4654 7.386848 CAGAGCAATTGGAAAACATTTCAGATT 59.613 33.333 7.72 2.37 0.00 2.40
3028 4817 9.658799 TCTGTATCTAGAAAAATCCAAGACAAG 57.341 33.333 0.00 0.00 0.00 3.16
3030 4819 9.605275 CATCTGTATCTAGAAAAATCCAAGACA 57.395 33.333 0.00 0.00 0.00 3.41
3048 4837 9.784531 CAAGTAATTTGGGAGATACATCTGTAT 57.215 33.333 2.53 2.53 37.25 2.29
3049 4838 8.768397 ACAAGTAATTTGGGAGATACATCTGTA 58.232 33.333 0.00 0.00 41.25 2.74
3050 4839 7.633789 ACAAGTAATTTGGGAGATACATCTGT 58.366 34.615 0.00 0.00 41.25 3.41
3051 4840 7.989741 AGACAAGTAATTTGGGAGATACATCTG 59.010 37.037 0.00 0.00 41.25 2.90
3054 4843 7.557719 CCAAGACAAGTAATTTGGGAGATACAT 59.442 37.037 0.00 0.00 41.25 2.29
3055 4844 6.884295 CCAAGACAAGTAATTTGGGAGATACA 59.116 38.462 0.00 0.00 41.25 2.29
3056 4845 7.065923 GTCCAAGACAAGTAATTTGGGAGATAC 59.934 40.741 2.61 0.00 41.25 2.24
3057 4846 7.037586 AGTCCAAGACAAGTAATTTGGGAGATA 60.038 37.037 2.61 0.00 41.25 1.98
3059 4848 5.073144 AGTCCAAGACAAGTAATTTGGGAGA 59.927 40.000 2.61 0.00 41.25 3.71
3060 4849 5.316987 AGTCCAAGACAAGTAATTTGGGAG 58.683 41.667 2.61 0.00 41.25 4.30
3061 4850 5.319043 AGTCCAAGACAAGTAATTTGGGA 57.681 39.130 2.61 0.00 41.25 4.37
3062 4851 6.405278 AAAGTCCAAGACAAGTAATTTGGG 57.595 37.500 2.61 0.00 41.25 4.12
3063 4852 7.716612 AGAAAAGTCCAAGACAAGTAATTTGG 58.283 34.615 0.00 0.00 41.25 3.28
3064 4853 9.884465 CTAGAAAAGTCCAAGACAAGTAATTTG 57.116 33.333 0.00 0.00 42.68 2.32
3071 4860 7.547370 CCTGTATCTAGAAAAGTCCAAGACAAG 59.453 40.741 0.00 0.00 34.60 3.16
3072 4861 7.386851 CCTGTATCTAGAAAAGTCCAAGACAA 58.613 38.462 0.00 0.00 34.60 3.18
3074 4863 6.154706 TCCCTGTATCTAGAAAAGTCCAAGAC 59.845 42.308 0.00 0.00 0.00 3.01
3075 4864 6.261435 TCCCTGTATCTAGAAAAGTCCAAGA 58.739 40.000 0.00 0.00 0.00 3.02
3076 4865 6.546428 TCCCTGTATCTAGAAAAGTCCAAG 57.454 41.667 0.00 0.00 0.00 3.61
3077 4866 6.945636 TTCCCTGTATCTAGAAAAGTCCAA 57.054 37.500 0.00 0.00 0.00 3.53
3078 4867 6.945636 TTTCCCTGTATCTAGAAAAGTCCA 57.054 37.500 0.00 0.00 0.00 4.02
3080 4869 8.047310 TGGATTTTCCCTGTATCTAGAAAAGTC 58.953 37.037 0.00 0.00 40.44 3.01
3081 4870 7.928873 TGGATTTTCCCTGTATCTAGAAAAGT 58.071 34.615 0.00 0.00 40.44 2.66
3082 4871 8.807948 TTGGATTTTCCCTGTATCTAGAAAAG 57.192 34.615 0.00 0.00 40.44 2.27
3083 4872 8.611257 TCTTGGATTTTCCCTGTATCTAGAAAA 58.389 33.333 0.00 0.00 41.11 2.29
3084 4873 8.047310 GTCTTGGATTTTCCCTGTATCTAGAAA 58.953 37.037 0.00 0.00 35.03 2.52
3085 4874 7.182026 TGTCTTGGATTTTCCCTGTATCTAGAA 59.818 37.037 0.00 0.00 35.03 2.10
3086 4875 6.672218 TGTCTTGGATTTTCCCTGTATCTAGA 59.328 38.462 0.00 0.00 35.03 2.43
3087 4876 6.889198 TGTCTTGGATTTTCCCTGTATCTAG 58.111 40.000 0.00 0.00 35.03 2.43
3088 4877 6.884472 TGTCTTGGATTTTCCCTGTATCTA 57.116 37.500 0.00 0.00 35.03 1.98
3089 4878 5.779241 TGTCTTGGATTTTCCCTGTATCT 57.221 39.130 0.00 0.00 35.03 1.98
3090 4879 5.946377 ACTTGTCTTGGATTTTCCCTGTATC 59.054 40.000 0.00 0.00 35.03 2.24
3091 4880 5.892348 ACTTGTCTTGGATTTTCCCTGTAT 58.108 37.500 0.00 0.00 35.03 2.29
3092 4881 5.319043 ACTTGTCTTGGATTTTCCCTGTA 57.681 39.130 0.00 0.00 35.03 2.74
3093 4882 4.184649 ACTTGTCTTGGATTTTCCCTGT 57.815 40.909 0.00 0.00 35.03 4.00
3094 4883 6.840780 ATTACTTGTCTTGGATTTTCCCTG 57.159 37.500 0.00 0.00 35.03 4.45
3095 4884 7.256296 CCAAATTACTTGTCTTGGATTTTCCCT 60.256 37.037 0.00 0.00 40.72 4.20
3096 4885 6.873605 CCAAATTACTTGTCTTGGATTTTCCC 59.126 38.462 0.00 0.00 40.72 3.97
3097 4886 6.873605 CCCAAATTACTTGTCTTGGATTTTCC 59.126 38.462 1.26 0.00 40.72 3.13
3098 4887 7.598869 GTCCCAAATTACTTGTCTTGGATTTTC 59.401 37.037 1.26 0.00 40.72 2.29
3099 4888 7.441836 GTCCCAAATTACTTGTCTTGGATTTT 58.558 34.615 1.26 0.00 40.72 1.82
3100 4889 6.294508 CGTCCCAAATTACTTGTCTTGGATTT 60.295 38.462 1.26 0.00 40.72 2.17
3101 4890 5.183140 CGTCCCAAATTACTTGTCTTGGATT 59.817 40.000 1.26 0.00 40.72 3.01
3102 4891 4.700213 CGTCCCAAATTACTTGTCTTGGAT 59.300 41.667 1.26 0.00 40.72 3.41
3103 4892 4.069304 CGTCCCAAATTACTTGTCTTGGA 58.931 43.478 1.26 0.00 40.72 3.53
3104 4893 3.190535 CCGTCCCAAATTACTTGTCTTGG 59.809 47.826 0.00 0.00 38.45 3.61
3105 4894 4.069304 TCCGTCCCAAATTACTTGTCTTG 58.931 43.478 0.00 0.00 32.65 3.02
3106 4895 4.360951 TCCGTCCCAAATTACTTGTCTT 57.639 40.909 0.00 0.00 32.65 3.01
3107 4896 4.324267 CTTCCGTCCCAAATTACTTGTCT 58.676 43.478 0.00 0.00 32.65 3.41
3108 4897 3.439129 CCTTCCGTCCCAAATTACTTGTC 59.561 47.826 0.00 0.00 32.65 3.18
3109 4898 3.073356 TCCTTCCGTCCCAAATTACTTGT 59.927 43.478 0.00 0.00 32.65 3.16
3110 4899 3.681593 TCCTTCCGTCCCAAATTACTTG 58.318 45.455 0.00 0.00 34.52 3.16
3111 4900 3.329814 ACTCCTTCCGTCCCAAATTACTT 59.670 43.478 0.00 0.00 0.00 2.24
3112 4901 2.910977 ACTCCTTCCGTCCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
3113 4902 3.345508 ACTCCTTCCGTCCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
3114 4903 4.098894 AGTACTCCTTCCGTCCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
3115 4904 2.910977 AGTACTCCTTCCGTCCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
3116 4905 2.547990 AGTACTCCTTCCGTCCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
3117 4906 2.019807 AGTACTCCTTCCGTCCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
3118 4907 2.019807 AAGTACTCCTTCCGTCCCAA 57.980 50.000 0.00 0.00 0.00 4.12
3119 4908 2.905415 TAAGTACTCCTTCCGTCCCA 57.095 50.000 0.00 0.00 34.46 4.37
3120 4909 4.646492 TGTATTAAGTACTCCTTCCGTCCC 59.354 45.833 0.00 0.00 34.46 4.46
3121 4910 5.841957 TGTATTAAGTACTCCTTCCGTCC 57.158 43.478 0.00 0.00 34.46 4.79
3122 4911 6.971756 GTCTTGTATTAAGTACTCCTTCCGTC 59.028 42.308 0.00 0.00 34.46 4.79
3123 4912 6.435277 TGTCTTGTATTAAGTACTCCTTCCGT 59.565 38.462 0.00 0.00 34.46 4.69
3124 4913 6.860080 TGTCTTGTATTAAGTACTCCTTCCG 58.140 40.000 0.00 0.00 34.46 4.30
3125 4914 8.092687 TGTTGTCTTGTATTAAGTACTCCTTCC 58.907 37.037 0.00 0.00 34.46 3.46
3126 4915 9.485206 TTGTTGTCTTGTATTAAGTACTCCTTC 57.515 33.333 0.00 0.00 34.46 3.46
3127 4916 9.841295 TTTGTTGTCTTGTATTAAGTACTCCTT 57.159 29.630 0.00 0.00 37.17 3.36
3128 4917 9.490379 CTTTGTTGTCTTGTATTAAGTACTCCT 57.510 33.333 0.00 0.00 34.27 3.69
3129 4918 9.485206 TCTTTGTTGTCTTGTATTAAGTACTCC 57.515 33.333 0.00 0.00 34.27 3.85
3134 4923 8.974060 TCCTTCTTTGTTGTCTTGTATTAAGT 57.026 30.769 0.00 0.00 0.00 2.24
3135 4924 9.057089 ACTCCTTCTTTGTTGTCTTGTATTAAG 57.943 33.333 0.00 0.00 0.00 1.85
3136 4925 8.974060 ACTCCTTCTTTGTTGTCTTGTATTAA 57.026 30.769 0.00 0.00 0.00 1.40
3137 4926 9.706691 CTACTCCTTCTTTGTTGTCTTGTATTA 57.293 33.333 0.00 0.00 0.00 0.98
3138 4927 7.173390 GCTACTCCTTCTTTGTTGTCTTGTATT 59.827 37.037 0.00 0.00 0.00 1.89
3139 4928 6.651225 GCTACTCCTTCTTTGTTGTCTTGTAT 59.349 38.462 0.00 0.00 0.00 2.29
3140 4929 5.989777 GCTACTCCTTCTTTGTTGTCTTGTA 59.010 40.000 0.00 0.00 0.00 2.41
3141 4930 4.816925 GCTACTCCTTCTTTGTTGTCTTGT 59.183 41.667 0.00 0.00 0.00 3.16
3142 4931 5.059833 AGCTACTCCTTCTTTGTTGTCTTG 58.940 41.667 0.00 0.00 0.00 3.02
3143 4932 5.297569 AGCTACTCCTTCTTTGTTGTCTT 57.702 39.130 0.00 0.00 0.00 3.01
3144 4933 4.965200 AGCTACTCCTTCTTTGTTGTCT 57.035 40.909 0.00 0.00 0.00 3.41
3145 4934 4.627900 GCTAGCTACTCCTTCTTTGTTGTC 59.372 45.833 7.70 0.00 0.00 3.18
3146 4935 4.040461 TGCTAGCTACTCCTTCTTTGTTGT 59.960 41.667 17.23 0.00 0.00 3.32
3147 4936 4.569943 TGCTAGCTACTCCTTCTTTGTTG 58.430 43.478 17.23 0.00 0.00 3.33
3148 4937 4.891992 TGCTAGCTACTCCTTCTTTGTT 57.108 40.909 17.23 0.00 0.00 2.83
3149 4938 4.891992 TTGCTAGCTACTCCTTCTTTGT 57.108 40.909 17.23 0.00 0.00 2.83
3150 4939 6.112058 AGAATTGCTAGCTACTCCTTCTTTG 58.888 40.000 17.23 0.00 0.00 2.77
3151 4940 6.306643 AGAATTGCTAGCTACTCCTTCTTT 57.693 37.500 17.23 0.00 0.00 2.52
3152 4941 5.948742 AGAATTGCTAGCTACTCCTTCTT 57.051 39.130 17.23 0.00 0.00 2.52
3153 4942 6.133356 AGTAGAATTGCTAGCTACTCCTTCT 58.867 40.000 17.23 15.43 40.43 2.85
3156 4945 6.155475 CAAGTAGAATTGCTAGCTACTCCT 57.845 41.667 17.23 8.83 42.80 3.69
3177 4966 5.240623 AGGACAATAAAAACAGACGATGCAA 59.759 36.000 0.00 0.00 0.00 4.08
3181 4970 6.147821 CAGACAGGACAATAAAAACAGACGAT 59.852 38.462 0.00 0.00 0.00 3.73
3297 5088 8.132995 TGCATCAAATCATCATAAGCTACAAAG 58.867 33.333 0.00 0.00 0.00 2.77
3405 5204 6.648310 TGAACAAGAATGAGTTGCAACAAAAA 59.352 30.769 30.11 13.31 0.00 1.94
3458 5258 6.313411 GCAATGCAAAGCCAGAATTATAACAA 59.687 34.615 0.00 0.00 0.00 2.83
3472 5272 2.548904 TCCAAACAATGCAATGCAAAGC 59.451 40.909 13.45 6.78 43.62 3.51
3577 5377 7.520451 ACGAGCCTGTACATTATAACATCTA 57.480 36.000 0.00 0.00 0.00 1.98
3600 5400 9.550811 CCAAAACCACTTAATAGTTTTCGATAC 57.449 33.333 7.17 0.00 40.69 2.24
3614 5414 4.707448 TCAAAAGCTGACCAAAACCACTTA 59.293 37.500 0.00 0.00 0.00 2.24
3659 5459 4.965062 TCAAAGACAAACAAAGACACGAC 58.035 39.130 0.00 0.00 0.00 4.34
3690 5490 8.846211 AGAAACCTCGATAAAAATCAAGACAAA 58.154 29.630 0.00 0.00 0.00 2.83
3707 5508 8.668353 TGAATGATCTTCAATAAAGAAACCTCG 58.332 33.333 5.46 0.00 46.85 4.63


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

AutoCloner maintained by Alex Coulton.