Multiple sequence alignment - TraesCS2D01G568600

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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 TraesCS2D01G568600 chr2D 100.000 5048 0 0 1 5048 636604035 636598988 0.000000e+00 9323.0
1 TraesCS2D01G568600 chr2D 88.210 687 54 12 2866 3528 637092094 637092777 0.000000e+00 795.0
2 TraesCS2D01G568600 chr2D 84.816 843 59 36 1417 2212 637090757 637091577 0.000000e+00 784.0
3 TraesCS2D01G568600 chr2D 90.769 455 34 6 4570 5018 637092831 637093283 7.230000e-168 601.0
4 TraesCS2D01G568600 chr2D 82.213 506 64 15 3601 4102 636584884 636584401 3.640000e-111 412.0
5 TraesCS2D01G568600 chr2D 88.627 255 24 3 2307 2557 637091592 637091845 6.350000e-79 305.0
6 TraesCS2D01G568600 chr2D 91.667 192 11 2 1281 1472 637090588 637090774 1.390000e-65 261.0
7 TraesCS2D01G568600 chr2D 77.193 513 58 24 3443 3950 636594269 636593811 1.400000e-60 244.0
8 TraesCS2D01G568600 chr2D 86.486 74 10 0 3480 3553 39468778 39468705 1.160000e-11 82.4
9 TraesCS2D01G568600 chr2D 97.500 40 0 1 3209 3248 636600734 636600696 3.260000e-07 67.6
10 TraesCS2D01G568600 chr2D 97.500 40 0 1 3302 3340 636600827 636600788 3.260000e-07 67.6
11 TraesCS2D01G568600 chr2D 97.368 38 1 0 199 236 636612642 636612679 1.170000e-06 65.8
12 TraesCS2D01G568600 chr2A 91.195 2987 125 61 1358 4278 763045113 763048027 0.000000e+00 3932.0
13 TraesCS2D01G568600 chr2A 85.393 534 45 16 4460 4968 763030587 763030062 1.610000e-144 523.0
14 TraesCS2D01G568600 chr2A 80.207 773 34 51 631 1329 763044392 763045119 2.130000e-128 470.0
15 TraesCS2D01G568600 chr2A 82.650 317 34 10 2641 2936 763052359 763052675 1.390000e-65 261.0
16 TraesCS2D01G568600 chr2A 93.064 173 11 1 1 172 763042642 763042814 8.390000e-63 252.0
17 TraesCS2D01G568600 chr2A 81.848 303 34 9 2641 2922 763024900 763024598 8.450000e-58 235.0
18 TraesCS2D01G568600 chr2A 95.588 136 6 0 202 337 763043378 763043513 8.510000e-53 219.0
19 TraesCS2D01G568600 chr2A 92.742 124 6 2 511 634 763044119 763044239 5.190000e-40 176.0
20 TraesCS2D01G568600 chr2A 87.324 71 6 2 4237 4307 763030714 763030647 1.510000e-10 78.7
21 TraesCS2D01G568600 chr2B 90.920 2489 146 33 2611 5048 794502364 794499905 0.000000e+00 3271.0
22 TraesCS2D01G568600 chr2B 93.586 686 38 4 1876 2558 794503165 794502483 0.000000e+00 1018.0
23 TraesCS2D01G568600 chr2B 87.135 754 64 16 1584 2334 784750412 784751135 0.000000e+00 824.0
24 TraesCS2D01G568600 chr2B 92.037 540 24 4 1358 1879 794503751 794503213 0.000000e+00 741.0
25 TraesCS2D01G568600 chr2B 81.453 771 38 43 631 1329 794504482 794503745 7.440000e-148 534.0
26 TraesCS2D01G568600 chr2B 85.019 514 44 18 4446 4936 794519489 794519992 4.540000e-135 492.0
27 TraesCS2D01G568600 chr2B 79.038 520 54 27 3443 3950 794494611 794494135 6.350000e-79 305.0
28 TraesCS2D01G568600 chr2B 86.056 251 22 7 367 606 794504863 794504615 1.800000e-64 257.0
29 TraesCS2D01G568600 chr2B 82.838 303 31 10 2641 2922 794524703 794525005 8.390000e-63 252.0
30 TraesCS2D01G568600 chr2B 92.486 173 12 1 1 172 794505741 794505569 3.900000e-61 246.0
31 TraesCS2D01G568600 chr2B 75.661 189 29 12 3509 3689 84993585 84993764 1.510000e-10 78.7
32 TraesCS2D01G568600 chr2B 87.324 71 6 2 4237 4307 794519378 794519445 1.510000e-10 78.7
33 TraesCS2D01G568600 chr4D 91.511 1178 81 5 1708 2874 24260040 24258871 0.000000e+00 1604.0
34 TraesCS2D01G568600 chr4D 87.784 1146 84 20 2773 3886 221309628 221310749 0.000000e+00 1290.0
35 TraesCS2D01G568600 chr4D 88.907 604 55 4 1790 2391 221309031 221309624 0.000000e+00 734.0
36 TraesCS2D01G568600 chr4D 96.629 89 3 0 1582 1670 24260127 24260039 1.130000e-31 148.0
37 TraesCS2D01G568600 chr1B 87.789 1081 74 25 1584 2639 65776565 65775518 0.000000e+00 1212.0
38 TraesCS2D01G568600 chr1B 89.867 375 19 9 3515 3886 532158125 532157767 9.900000e-127 464.0
39 TraesCS2D01G568600 chr1B 92.857 84 5 1 3117 3199 26843254 26843337 2.470000e-23 121.0
40 TraesCS2D01G568600 chr1B 86.957 69 9 0 3485 3553 194770424 194770356 1.510000e-10 78.7
41 TraesCS2D01G568600 chr6B 88.425 838 66 12 1579 2414 95452693 95453501 0.000000e+00 981.0
42 TraesCS2D01G568600 chr6B 89.333 375 23 9 3512 3886 39817912 39818269 5.960000e-124 455.0
43 TraesCS2D01G568600 chr6B 90.141 71 7 0 3480 3550 36824053 36824123 5.380000e-15 93.5
44 TraesCS2D01G568600 chr3B 85.864 955 54 36 980 1926 65705350 65704469 0.000000e+00 941.0
45 TraesCS2D01G568600 chr3B 87.829 304 17 10 3512 3812 94475370 94475656 6.260000e-89 339.0
46 TraesCS2D01G568600 chr6D 89.720 428 33 6 1708 2133 429432297 429431879 2.070000e-148 536.0
47 TraesCS2D01G568600 chr7B 95.610 205 8 1 1402 1606 141621213 141621416 1.360000e-85 327.0
48 TraesCS2D01G568600 chr7B 93.684 95 4 2 1285 1377 141621121 141621215 1.890000e-29 141.0
49 TraesCS2D01G568600 chr7B 95.062 81 1 2 980 1060 141621043 141621120 1.910000e-24 124.0
50 TraesCS2D01G568600 chr1A 94.262 122 6 1 1622 1743 216957718 216957838 8.630000e-43 185.0
51 TraesCS2D01G568600 chr7D 82.273 220 30 5 2076 2291 105792877 105792663 1.120000e-41 182.0
52 TraesCS2D01G568600 chr5D 77.578 223 23 15 3479 3700 394857880 394857684 5.340000e-20 110.0
53 TraesCS2D01G568600 chr5D 83.333 102 11 1 1658 1753 19108732 19108833 6.960000e-14 89.8
54 TraesCS2D01G568600 chr5D 86.486 74 10 0 3480 3553 239234165 239234092 1.160000e-11 82.4
55 TraesCS2D01G568600 chrUn 98.182 55 1 0 1624 1678 274236279 274236333 4.160000e-16 97.1
56 TraesCS2D01G568600 chr5B 89.831 59 6 0 1001 1059 534598477 534598535 5.420000e-10 76.8
57 TraesCS2D01G568600 chr5B 89.831 59 6 0 1001 1059 534637915 534637973 5.420000e-10 76.8
58 TraesCS2D01G568600 chr4A 95.000 40 2 0 3407 3446 695259996 695260035 4.220000e-06 63.9


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 TraesCS2D01G568600 chr2D 636598988 636604035 5047 True 3152.733333 9323 98.333333 1 5048 3 chr2D.!!$R4 5047
1 TraesCS2D01G568600 chr2D 637090588 637093283 2695 False 549.200000 795 88.817800 1281 5018 5 chr2D.!!$F2 3737
2 TraesCS2D01G568600 chr2A 763042642 763048027 5385 False 1009.800000 3932 90.559200 1 4278 5 chr2A.!!$F2 4277
3 TraesCS2D01G568600 chr2A 763030062 763030714 652 True 300.850000 523 86.358500 4237 4968 2 chr2A.!!$R2 731
4 TraesCS2D01G568600 chr2B 794499905 794505741 5836 True 1011.166667 3271 89.423000 1 5048 6 chr2B.!!$R2 5047
5 TraesCS2D01G568600 chr2B 784750412 784751135 723 False 824.000000 824 87.135000 1584 2334 1 chr2B.!!$F2 750
6 TraesCS2D01G568600 chr2B 794519378 794519992 614 False 285.350000 492 86.171500 4237 4936 2 chr2B.!!$F4 699
7 TraesCS2D01G568600 chr4D 221309031 221310749 1718 False 1012.000000 1290 88.345500 1790 3886 2 chr4D.!!$F1 2096
8 TraesCS2D01G568600 chr4D 24258871 24260127 1256 True 876.000000 1604 94.070000 1582 2874 2 chr4D.!!$R1 1292
9 TraesCS2D01G568600 chr1B 65775518 65776565 1047 True 1212.000000 1212 87.789000 1584 2639 1 chr1B.!!$R1 1055
10 TraesCS2D01G568600 chr6B 95452693 95453501 808 False 981.000000 981 88.425000 1579 2414 1 chr6B.!!$F3 835
11 TraesCS2D01G568600 chr3B 65704469 65705350 881 True 941.000000 941 85.864000 980 1926 1 chr3B.!!$R1 946

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
149 151 0.037232 GTTCCTGTCCTCCTTCACGG 60.037 60.0 0.00 0.0 0.00 4.94 F
766 1940 0.178935 CCCTCCCATCTCTCTCCTCC 60.179 65.0 0.00 0.0 0.00 4.30 F
1351 2660 0.029834 GGTTTGTGCTGCTGACAGTG 59.970 55.0 3.99 0.0 46.30 3.66 F
2376 3858 0.108138 ACCGCAGCATAGTGAAGGAC 60.108 55.0 0.00 0.0 0.00 3.85 F
2707 4256 0.886043 TCAGCGCAGTCACATGCTTT 60.886 50.0 11.47 0.0 44.24 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1332 2641 0.029834 CACTGTCAGCAGCACAAACC 59.970 55.0 0.00 0.00 46.30 3.27 R
1940 3393 0.579156 GCGCTAATCGAGGAAGCAAG 59.421 55.0 14.47 3.23 41.67 4.01 R
3235 4785 0.318120 CCCTGCAAAAAGGCATTCGT 59.682 50.0 0.00 0.00 43.97 3.85 R
4026 5655 0.037303 ACCACTGATGCCTGTTCCTG 59.963 55.0 0.00 0.00 0.00 3.86 R
4462 6108 0.110644 CTTTCCTCAAAGTGCGCGTC 60.111 55.0 8.43 0.00 35.20 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
25 26 3.321648 ACTGAGCCGGCACCATCA 61.322 61.111 31.54 22.06 0.00 3.07
26 27 2.821366 CTGAGCCGGCACCATCAC 60.821 66.667 31.54 10.75 0.00 3.06
43 44 2.126228 CCGTCGCTTGCTTACCGA 60.126 61.111 0.00 0.00 0.00 4.69
63 64 0.669619 TGCCAAGCAACTGACATGTG 59.330 50.000 1.15 0.00 34.76 3.21
149 151 0.037232 GTTCCTGTCCTCCTTCACGG 60.037 60.000 0.00 0.00 0.00 4.94
164 166 1.021390 CACGGCTGGAGGAATGACAC 61.021 60.000 0.00 0.00 0.00 3.67
165 167 1.811266 CGGCTGGAGGAATGACACG 60.811 63.158 0.00 0.00 0.00 4.49
166 168 2.109126 GGCTGGAGGAATGACACGC 61.109 63.158 0.00 0.00 0.00 5.34
167 169 2.109126 GCTGGAGGAATGACACGCC 61.109 63.158 0.00 0.00 0.00 5.68
168 170 1.296392 CTGGAGGAATGACACGCCA 59.704 57.895 0.00 0.00 0.00 5.69
169 171 1.003839 TGGAGGAATGACACGCCAC 60.004 57.895 0.00 0.00 0.00 5.01
170 172 1.745489 GGAGGAATGACACGCCACC 60.745 63.158 0.00 0.00 0.00 4.61
171 173 1.296715 GAGGAATGACACGCCACCT 59.703 57.895 0.00 0.00 0.00 4.00
178 180 4.189580 ACACGCCACCTTGCCACT 62.190 61.111 0.00 0.00 0.00 4.00
231 787 1.303091 TTCCCGCGCTTTTTAGAGGC 61.303 55.000 5.56 0.00 0.00 4.70
245 801 2.918712 AGAGGCCACATATTTCTCCG 57.081 50.000 5.01 0.00 0.00 4.63
483 1139 6.658831 ACAGTAGTTGTTTTGAATCGACATG 58.341 36.000 0.00 0.00 36.31 3.21
635 1653 9.877178 AAATAAGACGTTTCACTATCAATCTCT 57.123 29.630 0.00 0.00 0.00 3.10
636 1654 8.864069 ATAAGACGTTTCACTATCAATCTCTG 57.136 34.615 0.00 0.00 0.00 3.35
638 1656 6.692486 AGACGTTTCACTATCAATCTCTGTT 58.308 36.000 0.00 0.00 0.00 3.16
639 1657 7.827701 AGACGTTTCACTATCAATCTCTGTTA 58.172 34.615 0.00 0.00 0.00 2.41
641 1659 9.731819 GACGTTTCACTATCAATCTCTGTTATA 57.268 33.333 0.00 0.00 0.00 0.98
682 1852 9.906111 GAAAATTGCAACTTTTAAAGACTCTTG 57.094 29.630 12.02 6.56 0.00 3.02
707 1881 1.467035 GCAAATCTGCTCTTCCTTGCG 60.467 52.381 0.00 0.00 45.74 4.85
708 1882 1.131883 CAAATCTGCTCTTCCTTGCGG 59.868 52.381 0.00 0.00 36.94 5.69
709 1883 1.028868 AATCTGCTCTTCCTTGCGGC 61.029 55.000 0.00 0.00 35.69 6.53
710 1884 1.908340 ATCTGCTCTTCCTTGCGGCT 61.908 55.000 0.00 0.00 35.69 5.52
711 1885 2.359107 TGCTCTTCCTTGCGGCTG 60.359 61.111 0.00 0.00 0.00 4.85
712 1886 3.130160 GCTCTTCCTTGCGGCTGG 61.130 66.667 0.00 3.82 0.00 4.85
713 1887 3.130160 CTCTTCCTTGCGGCTGGC 61.130 66.667 0.00 0.00 43.96 4.85
714 1888 3.618780 CTCTTCCTTGCGGCTGGCT 62.619 63.158 0.00 0.00 44.05 4.75
715 1889 3.437795 CTTCCTTGCGGCTGGCTG 61.438 66.667 0.00 0.00 44.05 4.85
739 1913 1.202452 GGCTGGCTGCATTATTTGTCC 60.202 52.381 18.32 0.00 45.15 4.02
766 1940 0.178935 CCCTCCCATCTCTCTCCTCC 60.179 65.000 0.00 0.00 0.00 4.30
767 1941 0.859760 CCTCCCATCTCTCTCCTCCT 59.140 60.000 0.00 0.00 0.00 3.69
768 1942 1.203050 CCTCCCATCTCTCTCCTCCTC 60.203 61.905 0.00 0.00 0.00 3.71
769 1943 1.782752 CTCCCATCTCTCTCCTCCTCT 59.217 57.143 0.00 0.00 0.00 3.69
770 1944 2.986019 CTCCCATCTCTCTCCTCCTCTA 59.014 54.545 0.00 0.00 0.00 2.43
772 1946 2.445145 CCCATCTCTCTCCTCCTCTACA 59.555 54.545 0.00 0.00 0.00 2.74
773 1947 3.498481 CCCATCTCTCTCCTCCTCTACAG 60.498 56.522 0.00 0.00 0.00 2.74
830 2035 2.430332 CCTTGGCTTTTGACTTGGTGAA 59.570 45.455 0.00 0.00 0.00 3.18
832 2037 3.011566 TGGCTTTTGACTTGGTGAAGA 57.988 42.857 0.00 0.00 32.98 2.87
833 2038 3.565307 TGGCTTTTGACTTGGTGAAGAT 58.435 40.909 0.00 0.00 32.98 2.40
834 2039 3.318839 TGGCTTTTGACTTGGTGAAGATG 59.681 43.478 0.00 0.00 32.98 2.90
841 2054 5.497464 TGACTTGGTGAAGATGTATTCCA 57.503 39.130 0.00 0.00 32.98 3.53
850 2063 7.775093 TGGTGAAGATGTATTCCAAGGAATTAG 59.225 37.037 18.65 0.00 41.55 1.73
895 2135 6.899393 AAATAGTTGCTTGTTGAATCTCCA 57.101 33.333 0.00 0.00 0.00 3.86
977 2223 4.760047 CGTGGGCGTGGGGAGAAG 62.760 72.222 0.00 0.00 0.00 2.85
978 2224 3.319198 GTGGGCGTGGGGAGAAGA 61.319 66.667 0.00 0.00 0.00 2.87
1061 2307 2.143876 AGTGAGCTCCTCCTCTTCTC 57.856 55.000 12.15 0.00 33.02 2.87
1101 2353 0.250727 CTCCCCTTTGTTTCTCCGCA 60.251 55.000 0.00 0.00 0.00 5.69
1107 2359 1.377366 TTTGTTTCTCCGCAACCGCA 61.377 50.000 0.00 0.00 38.40 5.69
1108 2360 1.377366 TTGTTTCTCCGCAACCGCAA 61.377 50.000 0.00 0.00 38.40 4.85
1109 2361 1.370051 GTTTCTCCGCAACCGCAAC 60.370 57.895 0.00 0.00 38.40 4.17
1110 2362 2.548295 TTTCTCCGCAACCGCAACC 61.548 57.895 0.00 0.00 38.40 3.77
1189 2444 2.275318 CCAATCTCGCTTCTTCTGGAC 58.725 52.381 0.00 0.00 0.00 4.02
1329 2638 1.003464 TGCCTGCTGCTTGTTAGATGA 59.997 47.619 0.00 0.00 42.00 2.92
1330 2639 1.669779 GCCTGCTGCTTGTTAGATGAG 59.330 52.381 0.00 0.00 36.87 2.90
1331 2640 2.679059 GCCTGCTGCTTGTTAGATGAGA 60.679 50.000 0.00 0.00 36.87 3.27
1332 2641 3.196463 CCTGCTGCTTGTTAGATGAGAG 58.804 50.000 0.00 0.00 0.00 3.20
1333 2642 3.196463 CTGCTGCTTGTTAGATGAGAGG 58.804 50.000 0.00 0.00 0.00 3.69
1334 2643 2.568956 TGCTGCTTGTTAGATGAGAGGT 59.431 45.455 0.00 0.00 0.00 3.85
1335 2644 3.008375 TGCTGCTTGTTAGATGAGAGGTT 59.992 43.478 0.00 0.00 0.00 3.50
1336 2645 4.006319 GCTGCTTGTTAGATGAGAGGTTT 58.994 43.478 0.00 0.00 0.00 3.27
1337 2646 4.142730 GCTGCTTGTTAGATGAGAGGTTTG 60.143 45.833 0.00 0.00 0.00 2.93
1338 2647 4.973168 TGCTTGTTAGATGAGAGGTTTGT 58.027 39.130 0.00 0.00 0.00 2.83
1339 2648 4.756642 TGCTTGTTAGATGAGAGGTTTGTG 59.243 41.667 0.00 0.00 0.00 3.33
1340 2649 4.378874 GCTTGTTAGATGAGAGGTTTGTGC 60.379 45.833 0.00 0.00 0.00 4.57
1341 2650 4.623932 TGTTAGATGAGAGGTTTGTGCT 57.376 40.909 0.00 0.00 0.00 4.40
1342 2651 4.318332 TGTTAGATGAGAGGTTTGTGCTG 58.682 43.478 0.00 0.00 0.00 4.41
1343 2652 1.818642 AGATGAGAGGTTTGTGCTGC 58.181 50.000 0.00 0.00 0.00 5.25
1344 2653 1.350351 AGATGAGAGGTTTGTGCTGCT 59.650 47.619 0.00 0.00 0.00 4.24
1345 2654 1.467734 GATGAGAGGTTTGTGCTGCTG 59.532 52.381 0.00 0.00 0.00 4.41
1346 2655 0.469494 TGAGAGGTTTGTGCTGCTGA 59.531 50.000 0.00 0.00 0.00 4.26
1347 2656 0.871057 GAGAGGTTTGTGCTGCTGAC 59.129 55.000 0.00 0.00 0.00 3.51
1348 2657 0.181114 AGAGGTTTGTGCTGCTGACA 59.819 50.000 0.00 0.00 0.00 3.58
1350 2659 0.107017 AGGTTTGTGCTGCTGACAGT 60.107 50.000 3.99 0.00 46.30 3.55
1351 2660 0.029834 GGTTTGTGCTGCTGACAGTG 59.970 55.000 3.99 0.00 46.30 3.66
1352 2661 1.016627 GTTTGTGCTGCTGACAGTGA 58.983 50.000 3.99 0.00 46.30 3.41
1353 2662 1.003116 GTTTGTGCTGCTGACAGTGAG 60.003 52.381 3.99 1.98 46.30 3.51
1354 2663 1.162181 TTGTGCTGCTGACAGTGAGC 61.162 55.000 17.23 17.23 46.30 4.26
1355 2664 1.596203 GTGCTGCTGACAGTGAGCA 60.596 57.895 20.91 20.91 46.30 4.26
1356 2665 1.146707 TGCTGCTGACAGTGAGCAA 59.853 52.632 21.94 0.00 45.65 3.91
1357 2666 0.250597 TGCTGCTGACAGTGAGCAAT 60.251 50.000 21.94 0.00 45.65 3.56
1358 2667 0.879765 GCTGCTGACAGTGAGCAATT 59.120 50.000 16.06 0.00 45.65 2.32
1359 2668 2.079158 GCTGCTGACAGTGAGCAATTA 58.921 47.619 16.06 0.00 45.65 1.40
1360 2669 2.095532 GCTGCTGACAGTGAGCAATTAG 59.904 50.000 16.06 5.45 45.65 1.73
1361 2670 3.593096 CTGCTGACAGTGAGCAATTAGA 58.407 45.455 16.06 0.00 45.65 2.10
1362 2671 4.190001 CTGCTGACAGTGAGCAATTAGAT 58.810 43.478 16.06 0.00 45.65 1.98
1363 2672 3.937079 TGCTGACAGTGAGCAATTAGATG 59.063 43.478 12.85 0.00 43.47 2.90
1386 2695 3.496130 CAGCTCACACTCTTGGTTTACAG 59.504 47.826 0.00 0.00 0.00 2.74
1606 2973 8.458573 TGTCTGTACTAACCATTGAAAACAAT 57.541 30.769 0.00 0.00 0.00 2.71
1622 2989 6.811170 TGAAAACAATCAACACCTGAAAGAAC 59.189 34.615 0.00 0.00 37.67 3.01
1670 3043 8.868103 TGCTCATCTCATTATATTCAGAGTTCT 58.132 33.333 0.00 0.00 0.00 3.01
1776 3150 9.171877 AGAGTGGTTTCATTTTCAGATTATCTC 57.828 33.333 0.00 0.00 0.00 2.75
1836 3210 5.118990 AGCATTACAGGCTTGTATGTACTG 58.881 41.667 9.75 4.54 38.81 2.74
1871 3245 5.053145 CAGTACCTGGAATATGAAGTCTGC 58.947 45.833 0.00 0.00 0.00 4.26
1940 3393 5.689383 TCTTCCTGACTGTTGTTTTATGC 57.311 39.130 0.00 0.00 0.00 3.14
1971 3426 0.394565 ATTAGCGCCACCATCTCTCC 59.605 55.000 2.29 0.00 0.00 3.71
2008 3465 2.799917 CGGCCAGCATCTCTTGTAGTAC 60.800 54.545 2.24 0.00 0.00 2.73
2376 3858 0.108138 ACCGCAGCATAGTGAAGGAC 60.108 55.000 0.00 0.00 0.00 3.85
2496 3978 2.736721 CCCGTATGGTTCTATTGATGCG 59.263 50.000 0.00 0.00 0.00 4.73
2707 4256 0.886043 TCAGCGCAGTCACATGCTTT 60.886 50.000 11.47 0.00 44.24 3.51
3180 4730 3.054189 TTGCTGCCCTGTGTCCACA 62.054 57.895 0.00 0.00 39.32 4.17
3206 4756 6.984474 GTCCCACATTCGATACTAATTCAGAA 59.016 38.462 0.00 0.00 0.00 3.02
3223 4773 8.966069 AATTCAGAAAAGCTATTAGAGGTACC 57.034 34.615 2.73 2.73 33.71 3.34
3224 4774 6.481434 TCAGAAAAGCTATTAGAGGTACCC 57.519 41.667 8.74 0.00 33.71 3.69
3226 4776 7.359849 TCAGAAAAGCTATTAGAGGTACCCTA 58.640 38.462 8.74 7.14 33.71 3.53
3227 4777 8.011290 TCAGAAAAGCTATTAGAGGTACCCTAT 58.989 37.037 8.74 0.00 33.71 2.57
3228 4778 8.308207 CAGAAAAGCTATTAGAGGTACCCTATC 58.692 40.741 8.74 0.00 33.71 2.08
3229 4779 7.455323 AGAAAAGCTATTAGAGGTACCCTATCC 59.545 40.741 8.74 0.00 33.71 2.59
3231 4781 4.539293 AGCTATTAGAGGTACCCTATCCGA 59.461 45.833 8.74 0.00 31.76 4.55
3232 4782 4.639755 GCTATTAGAGGTACCCTATCCGAC 59.360 50.000 8.74 0.00 31.76 4.79
3233 4783 3.515602 TTAGAGGTACCCTATCCGACC 57.484 52.381 8.74 0.00 31.76 4.79
3235 4785 2.711174 AGAGGTACCCTATCCGACCTA 58.289 52.381 8.74 0.00 42.47 3.08
3236 4786 2.374839 AGAGGTACCCTATCCGACCTAC 59.625 54.545 8.74 0.00 42.47 3.18
3237 4787 1.072965 AGGTACCCTATCCGACCTACG 59.927 57.143 8.74 0.00 40.59 3.51
3238 4788 1.072331 GGTACCCTATCCGACCTACGA 59.928 57.143 0.00 0.00 45.77 3.43
3242 4810 1.067776 CCCTATCCGACCTACGAATGC 60.068 57.143 0.00 0.00 45.77 3.56
3267 4835 1.758936 TGCAGGGATGAGCTTCATTG 58.241 50.000 0.00 0.00 37.20 2.82
3350 4933 3.365364 CGAATGCCTTTTGAGTTCACCTC 60.365 47.826 0.00 0.00 40.89 3.85
3357 4940 3.678056 TTTGAGTTCACCTCGCTACAT 57.322 42.857 0.00 0.00 43.64 2.29
3358 4941 2.654749 TGAGTTCACCTCGCTACATG 57.345 50.000 0.00 0.00 43.64 3.21
3359 4942 1.893137 TGAGTTCACCTCGCTACATGT 59.107 47.619 2.69 2.69 43.64 3.21
3364 4947 4.081642 AGTTCACCTCGCTACATGTTGTAT 60.082 41.667 2.30 0.00 31.66 2.29
3386 4969 1.118838 CTGCCTTTGGGTGGTTTTCA 58.881 50.000 0.00 0.00 34.45 2.69
3399 4982 4.022329 GGTGGTTTTCACTTCCCTTACATG 60.022 45.833 0.00 0.00 45.38 3.21
3496 5105 3.439857 AAGACCTTATGAAAGCCAGCA 57.560 42.857 0.00 0.00 0.00 4.41
3587 5207 6.934083 TCTGCACATCTGAAAATGTACACTTA 59.066 34.615 0.00 0.00 37.78 2.24
3638 5258 3.608073 GCTTGGCTTATTTGCAAGTAACG 59.392 43.478 10.08 8.10 34.04 3.18
3643 5263 4.142469 GGCTTATTTGCAAGTAACGTGGAT 60.142 41.667 10.08 0.00 34.04 3.41
3648 5268 8.719560 TTATTTGCAAGTAACGTGGATATGTA 57.280 30.769 10.08 0.00 0.00 2.29
3703 5323 3.037549 GTGAGAGGAGGAACCATGAGAT 58.962 50.000 0.00 0.00 42.04 2.75
3828 5451 2.359900 CTGTTCATGTTAGCCCCAGAC 58.640 52.381 0.00 0.00 0.00 3.51
3987 5610 2.187163 GTAACCGCAGCCTCTCCC 59.813 66.667 0.00 0.00 0.00 4.30
4113 5742 0.455815 CACCGATGATCGTCCAGACA 59.544 55.000 14.27 0.00 38.40 3.41
4114 5743 1.067669 CACCGATGATCGTCCAGACAT 59.932 52.381 14.27 0.00 38.40 3.06
4115 5744 1.067669 ACCGATGATCGTCCAGACATG 59.932 52.381 14.27 0.00 38.40 3.21
4118 5747 2.763933 GATGATCGTCCAGACATGCAT 58.236 47.619 3.31 0.00 0.00 3.96
4119 5748 3.612479 CGATGATCGTCCAGACATGCATA 60.612 47.826 6.68 0.00 34.72 3.14
4133 5762 5.593095 AGACATGCATATGCTGAATTTGTCT 59.407 36.000 27.13 25.39 42.66 3.41
4190 5819 9.686683 ATATATATGGCTGGAGAAATTGTAACC 57.313 33.333 0.00 0.00 0.00 2.85
4230 5859 6.782986 TGTATGGGGAATGGATAGAATCTTG 58.217 40.000 0.00 0.00 0.00 3.02
4328 5970 1.009829 CTATCAGACAAAGCCCGTGC 58.990 55.000 0.00 0.00 37.95 5.34
4382 6024 1.456518 TCGGCCCTGAGGAGATCTG 60.457 63.158 0.00 0.00 33.47 2.90
4390 6032 2.042537 AGGAGATCTGGGCTGCGA 60.043 61.111 0.00 0.00 0.00 5.10
4408 6050 1.006102 AAGAGGCCCGCGATTATCG 60.006 57.895 8.23 10.56 43.89 2.92
4453 6095 1.296715 GGTGTGTTCGCCATCCTCT 59.703 57.895 0.00 0.00 43.16 3.69
4455 6097 1.375908 TGTGTTCGCCATCCTCTGC 60.376 57.895 0.00 0.00 0.00 4.26
4462 6108 1.228184 GCCATCCTCTGCCTCATGG 60.228 63.158 0.00 0.00 39.15 3.66
4544 6191 1.003839 CGCTGCCCCAACTTCACTA 60.004 57.895 0.00 0.00 0.00 2.74
4545 6192 1.298859 CGCTGCCCCAACTTCACTAC 61.299 60.000 0.00 0.00 0.00 2.73
4547 6194 0.322546 CTGCCCCAACTTCACTACCC 60.323 60.000 0.00 0.00 0.00 3.69
4548 6195 0.770557 TGCCCCAACTTCACTACCCT 60.771 55.000 0.00 0.00 0.00 4.34
4550 6197 1.657804 CCCCAACTTCACTACCCTCT 58.342 55.000 0.00 0.00 0.00 3.69
4551 6198 1.555533 CCCCAACTTCACTACCCTCTC 59.444 57.143 0.00 0.00 0.00 3.20
4655 6326 1.098712 GTCAACGGGAAGTGCAACCA 61.099 55.000 7.87 0.00 37.80 3.67
4662 6333 1.966451 GAAGTGCAACCACCTCCCG 60.966 63.158 0.00 0.00 43.09 5.14
4804 6479 5.080969 TGAAGACATTCCTAAACCGTAGG 57.919 43.478 0.00 0.00 44.73 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.742372 AAGCGACGGTGATGGTGC 60.742 61.111 0.00 0.00 0.00 5.01
43 44 1.271379 CACATGTCAGTTGCTTGGCAT 59.729 47.619 0.00 0.00 43.79 4.40
63 64 1.842381 CTCCCTTCCACAGTCCCACC 61.842 65.000 0.00 0.00 0.00 4.61
149 151 2.109126 GGCGTGTCATTCCTCCAGC 61.109 63.158 0.00 0.00 0.00 4.85
165 167 2.270986 CCTCAAGTGGCAAGGTGGC 61.271 63.158 0.00 0.00 44.03 5.01
166 168 4.085876 CCTCAAGTGGCAAGGTGG 57.914 61.111 0.00 0.00 0.00 4.61
231 787 2.291465 CCATGTGCGGAGAAATATGTGG 59.709 50.000 0.00 0.00 0.00 4.17
340 896 9.602568 TGTTTTAGTACTTCACATGTTAGAACA 57.397 29.630 0.00 7.37 44.06 3.18
341 897 9.859692 GTGTTTTAGTACTTCACATGTTAGAAC 57.140 33.333 0.00 5.24 0.00 3.01
342 898 9.602568 TGTGTTTTAGTACTTCACATGTTAGAA 57.397 29.630 0.00 5.31 34.74 2.10
343 899 9.602568 TTGTGTTTTAGTACTTCACATGTTAGA 57.397 29.630 17.09 0.00 38.50 2.10
350 906 9.616156 TCCTATTTTGTGTTTTAGTACTTCACA 57.384 29.630 0.00 9.39 37.27 3.58
474 1130 4.816385 CCCTTAGCAATGTACATGTCGATT 59.184 41.667 9.63 0.00 0.00 3.34
475 1131 4.380531 CCCTTAGCAATGTACATGTCGAT 58.619 43.478 9.63 2.73 0.00 3.59
477 1133 2.872245 CCCCTTAGCAATGTACATGTCG 59.128 50.000 9.63 2.50 0.00 4.35
500 1170 3.004862 CAGGCCCTTTGCATTTTCATTC 58.995 45.455 0.00 0.00 43.89 2.67
503 1173 1.344114 GTCAGGCCCTTTGCATTTTCA 59.656 47.619 0.00 0.00 43.89 2.69
504 1174 1.344114 TGTCAGGCCCTTTGCATTTTC 59.656 47.619 0.00 0.00 43.89 2.29
505 1175 1.422531 TGTCAGGCCCTTTGCATTTT 58.577 45.000 0.00 0.00 43.89 1.82
506 1176 1.422531 TTGTCAGGCCCTTTGCATTT 58.577 45.000 0.00 0.00 43.89 2.32
508 1178 1.422531 TTTTGTCAGGCCCTTTGCAT 58.577 45.000 0.00 0.00 43.89 3.96
509 1179 1.422531 ATTTTGTCAGGCCCTTTGCA 58.577 45.000 0.00 0.00 43.89 4.08
654 1672 9.875691 AGAGTCTTTAAAAGTTGCAATTTTCTT 57.124 25.926 18.78 7.25 32.38 2.52
655 1673 9.875691 AAGAGTCTTTAAAAGTTGCAATTTTCT 57.124 25.926 18.78 11.08 32.38 2.52
656 1674 9.906111 CAAGAGTCTTTAAAAGTTGCAATTTTC 57.094 29.630 18.78 6.86 32.38 2.29
714 1888 2.577020 ATAATGCAGCCAGCCAGCCA 62.577 55.000 0.00 0.00 44.83 4.75
715 1889 1.397390 AATAATGCAGCCAGCCAGCC 61.397 55.000 0.00 0.00 44.83 4.85
716 1890 0.462789 AAATAATGCAGCCAGCCAGC 59.537 50.000 0.00 0.00 44.83 4.85
717 1891 1.479323 ACAAATAATGCAGCCAGCCAG 59.521 47.619 0.00 0.00 44.83 4.85
718 1892 1.477700 GACAAATAATGCAGCCAGCCA 59.522 47.619 0.00 0.00 44.83 4.75
739 1913 1.309102 AGATGGGAGGGGAAAGGGG 60.309 63.158 0.00 0.00 0.00 4.79
797 2002 2.651071 GCCAAGGCTTGCTTCTTCT 58.349 52.632 21.77 0.00 38.26 2.85
830 2035 6.621514 AGGGACTAATTCCTTGGAATACATCT 59.378 38.462 14.47 2.65 45.09 2.90
832 2037 6.848562 AGGGACTAATTCCTTGGAATACAT 57.151 37.500 14.47 3.31 45.09 2.29
833 2038 6.652205 AAGGGACTAATTCCTTGGAATACA 57.348 37.500 14.47 6.02 45.09 2.29
834 2039 7.956328 AAAAGGGACTAATTCCTTGGAATAC 57.044 36.000 14.47 7.48 45.09 1.89
865 2082 6.317789 TCAACAAGCAACTATTTTCTCTGG 57.682 37.500 0.00 0.00 0.00 3.86
871 2111 7.014615 AGTGGAGATTCAACAAGCAACTATTTT 59.985 33.333 0.00 0.00 0.00 1.82
910 2150 9.481340 AGAAAGATTGGAAATTTTAGAGCAAAC 57.519 29.630 0.00 0.00 0.00 2.93
911 2151 9.696917 GAGAAAGATTGGAAATTTTAGAGCAAA 57.303 29.630 0.00 0.00 0.00 3.68
918 2158 9.996554 GGGAAAAGAGAAAGATTGGAAATTTTA 57.003 29.630 0.00 0.00 0.00 1.52
966 2212 1.748493 CTCTTCTCTCTTCTCCCCACG 59.252 57.143 0.00 0.00 0.00 4.94
967 2213 2.107366 CCTCTTCTCTCTTCTCCCCAC 58.893 57.143 0.00 0.00 0.00 4.61
968 2214 1.007721 CCCTCTTCTCTCTTCTCCCCA 59.992 57.143 0.00 0.00 0.00 4.96
969 2215 1.289530 TCCCTCTTCTCTCTTCTCCCC 59.710 57.143 0.00 0.00 0.00 4.81
970 2216 2.666317 CTCCCTCTTCTCTCTTCTCCC 58.334 57.143 0.00 0.00 0.00 4.30
971 2217 2.243736 TCCTCCCTCTTCTCTCTTCTCC 59.756 54.545 0.00 0.00 0.00 3.71
972 2218 3.555966 CTCCTCCCTCTTCTCTCTTCTC 58.444 54.545 0.00 0.00 0.00 2.87
973 2219 2.244769 CCTCCTCCCTCTTCTCTCTTCT 59.755 54.545 0.00 0.00 0.00 2.85
974 2220 2.666317 CCTCCTCCCTCTTCTCTCTTC 58.334 57.143 0.00 0.00 0.00 2.87
975 2221 1.290732 CCCTCCTCCCTCTTCTCTCTT 59.709 57.143 0.00 0.00 0.00 2.85
976 2222 0.933700 CCCTCCTCCCTCTTCTCTCT 59.066 60.000 0.00 0.00 0.00 3.10
977 2223 0.759060 GCCCTCCTCCCTCTTCTCTC 60.759 65.000 0.00 0.00 0.00 3.20
978 2224 1.313129 GCCCTCCTCCCTCTTCTCT 59.687 63.158 0.00 0.00 0.00 3.10
1061 2307 5.395657 GGAGGGGAAAATTTGAGCTTTATGG 60.396 44.000 0.00 0.00 0.00 2.74
1216 2471 9.211410 CATCTCCTAGATCTTAACCATATCCAT 57.789 37.037 0.00 0.00 31.32 3.41
1299 2571 0.886563 GCAGCAGGCAGAGTCAAAAT 59.113 50.000 0.00 0.00 43.97 1.82
1329 2638 0.181114 TGTCAGCAGCACAAACCTCT 59.819 50.000 0.00 0.00 0.00 3.69
1330 2639 0.590195 CTGTCAGCAGCACAAACCTC 59.410 55.000 0.00 0.00 35.77 3.85
1331 2640 0.107017 ACTGTCAGCAGCACAAACCT 60.107 50.000 0.00 0.00 46.30 3.50
1332 2641 0.029834 CACTGTCAGCAGCACAAACC 59.970 55.000 0.00 0.00 46.30 3.27
1333 2642 1.003116 CTCACTGTCAGCAGCACAAAC 60.003 52.381 0.00 0.00 46.30 2.93
1334 2643 1.302366 CTCACTGTCAGCAGCACAAA 58.698 50.000 0.00 0.00 46.30 2.83
1335 2644 1.162181 GCTCACTGTCAGCAGCACAA 61.162 55.000 16.23 0.00 46.30 3.33
1336 2645 1.596203 GCTCACTGTCAGCAGCACA 60.596 57.895 16.23 0.00 46.30 4.57
1337 2646 1.596203 TGCTCACTGTCAGCAGCAC 60.596 57.895 18.82 0.00 46.30 4.40
1338 2647 2.823829 TGCTCACTGTCAGCAGCA 59.176 55.556 18.82 18.82 46.30 4.41
1341 2650 3.683365 TCTAATTGCTCACTGTCAGCA 57.317 42.857 1.00 1.00 45.32 4.41
1342 2651 3.242673 GCATCTAATTGCTCACTGTCAGC 60.243 47.826 0.00 0.00 39.57 4.26
1343 2652 3.937079 TGCATCTAATTGCTCACTGTCAG 59.063 43.478 0.00 0.00 43.18 3.51
1344 2653 3.937079 CTGCATCTAATTGCTCACTGTCA 59.063 43.478 0.00 0.00 43.18 3.58
1345 2654 3.242673 GCTGCATCTAATTGCTCACTGTC 60.243 47.826 0.00 0.00 43.18 3.51
1346 2655 2.681848 GCTGCATCTAATTGCTCACTGT 59.318 45.455 0.00 0.00 43.18 3.55
1347 2656 2.943690 AGCTGCATCTAATTGCTCACTG 59.056 45.455 1.02 0.00 43.18 3.66
1348 2657 3.204526 GAGCTGCATCTAATTGCTCACT 58.795 45.455 14.85 0.00 46.41 3.41
1349 2658 3.605743 GAGCTGCATCTAATTGCTCAC 57.394 47.619 14.85 0.00 46.41 3.51
1352 2661 2.681848 GTGTGAGCTGCATCTAATTGCT 59.318 45.455 1.02 0.00 43.18 3.91
1353 2662 2.681848 AGTGTGAGCTGCATCTAATTGC 59.318 45.455 1.02 0.00 43.07 3.56
1354 2663 4.190001 AGAGTGTGAGCTGCATCTAATTG 58.810 43.478 1.02 0.00 0.00 2.32
1355 2664 4.484537 AGAGTGTGAGCTGCATCTAATT 57.515 40.909 1.02 0.00 0.00 1.40
1356 2665 4.190001 CAAGAGTGTGAGCTGCATCTAAT 58.810 43.478 1.02 0.00 0.00 1.73
1357 2666 3.593096 CAAGAGTGTGAGCTGCATCTAA 58.407 45.455 1.02 0.00 0.00 2.10
1358 2667 2.093816 CCAAGAGTGTGAGCTGCATCTA 60.094 50.000 1.02 0.00 0.00 1.98
1359 2668 1.338864 CCAAGAGTGTGAGCTGCATCT 60.339 52.381 1.02 0.00 0.00 2.90
1360 2669 1.085091 CCAAGAGTGTGAGCTGCATC 58.915 55.000 1.02 0.00 0.00 3.91
1361 2670 0.399454 ACCAAGAGTGTGAGCTGCAT 59.601 50.000 1.02 0.00 0.00 3.96
1362 2671 0.181114 AACCAAGAGTGTGAGCTGCA 59.819 50.000 1.02 0.00 0.00 4.41
1363 2672 1.312815 AAACCAAGAGTGTGAGCTGC 58.687 50.000 0.00 0.00 0.00 5.25
1386 2695 4.130118 TGAGCAGACAGTTCTTTTCTTCC 58.870 43.478 0.00 0.00 0.00 3.46
1481 2826 7.337167 AGAGAATCAACTCTGACATTAAGCAT 58.663 34.615 0.00 0.00 44.29 3.79
1538 2900 3.751175 GTGCTGTCCTACAAGCATGTAAA 59.249 43.478 3.08 0.00 41.36 2.01
1606 2973 4.713553 TGCATAGTTCTTTCAGGTGTTGA 58.286 39.130 0.00 0.00 0.00 3.18
1622 2989 8.768957 AGCATATACATAGTCAAACTGCATAG 57.231 34.615 0.00 0.00 0.00 2.23
1753 3127 8.055279 TGGAGATAATCTGAAAATGAAACCAC 57.945 34.615 0.00 0.00 0.00 4.16
1776 3150 5.841957 ACAGAATAAAGCCTAGCAAATGG 57.158 39.130 0.00 0.00 0.00 3.16
1940 3393 0.579156 GCGCTAATCGAGGAAGCAAG 59.421 55.000 14.47 3.23 41.67 4.01
1971 3426 1.270094 GGCCGGGGTCAAAAAGAAAAG 60.270 52.381 2.18 0.00 0.00 2.27
2008 3465 2.062971 AGAATTATGCCTGGCAGTGG 57.937 50.000 27.20 0.28 43.65 4.00
2042 3505 2.568956 TCAGTCAGGAGTTTGCTAGCAT 59.431 45.455 20.13 3.01 0.00 3.79
2043 3506 1.970640 TCAGTCAGGAGTTTGCTAGCA 59.029 47.619 14.93 14.93 0.00 3.49
2046 3509 3.055819 GTCCATCAGTCAGGAGTTTGCTA 60.056 47.826 0.00 0.00 33.85 3.49
2376 3858 2.932614 GTTCTGATCAGACCATGGTTCG 59.067 50.000 25.07 13.42 37.14 3.95
2496 3978 2.674796 ACTCACCGGCTATTTCACTC 57.325 50.000 0.00 0.00 0.00 3.51
2707 4256 2.319025 TGATGGTACCAGTGACTCCA 57.681 50.000 21.41 6.39 0.00 3.86
2768 4317 1.071605 GATCGTCAACAAGCGCTTCT 58.928 50.000 22.21 5.69 0.00 2.85
3180 4730 6.323996 TCTGAATTAGTATCGAATGTGGGACT 59.676 38.462 0.00 0.00 0.00 3.85
3219 4769 2.550830 TCGTAGGTCGGATAGGGTAC 57.449 55.000 0.00 0.00 40.32 3.34
3220 4770 3.415212 CATTCGTAGGTCGGATAGGGTA 58.585 50.000 0.00 0.00 35.30 3.69
3221 4771 2.236766 CATTCGTAGGTCGGATAGGGT 58.763 52.381 0.00 0.00 35.30 4.34
3222 4772 1.067776 GCATTCGTAGGTCGGATAGGG 60.068 57.143 0.00 0.00 35.30 3.53
3223 4773 1.067776 GGCATTCGTAGGTCGGATAGG 60.068 57.143 0.00 0.00 35.30 2.57
3224 4774 1.887198 AGGCATTCGTAGGTCGGATAG 59.113 52.381 0.00 0.00 35.30 2.08
3226 4776 1.120530 AAGGCATTCGTAGGTCGGAT 58.879 50.000 0.00 0.00 38.44 4.18
3227 4777 0.899720 AAAGGCATTCGTAGGTCGGA 59.100 50.000 0.00 0.00 40.32 4.55
3228 4778 1.734163 AAAAGGCATTCGTAGGTCGG 58.266 50.000 0.00 0.00 40.32 4.79
3229 4779 2.727916 GCAAAAAGGCATTCGTAGGTCG 60.728 50.000 0.00 0.00 41.41 4.79
3231 4781 2.228822 CTGCAAAAAGGCATTCGTAGGT 59.771 45.455 0.00 0.00 43.97 3.08
3232 4782 2.415893 CCTGCAAAAAGGCATTCGTAGG 60.416 50.000 0.00 0.00 43.97 3.18
3233 4783 2.415893 CCCTGCAAAAAGGCATTCGTAG 60.416 50.000 0.00 0.00 43.97 3.51
3235 4785 0.318120 CCCTGCAAAAAGGCATTCGT 59.682 50.000 0.00 0.00 43.97 3.85
3236 4786 0.602562 TCCCTGCAAAAAGGCATTCG 59.397 50.000 0.00 0.00 43.97 3.34
3237 4787 2.234414 TCATCCCTGCAAAAAGGCATTC 59.766 45.455 0.00 0.00 43.97 2.67
3238 4788 2.235402 CTCATCCCTGCAAAAAGGCATT 59.765 45.455 0.00 0.00 43.97 3.56
3242 4810 1.553706 AGCTCATCCCTGCAAAAAGG 58.446 50.000 0.00 0.00 37.05 3.11
3267 4835 2.158957 TCCAGGATATGCTGGTTCGAAC 60.159 50.000 34.36 20.14 41.28 3.95
3350 4933 4.560128 AGGCAGATATACAACATGTAGCG 58.440 43.478 0.00 0.00 36.14 4.26
3357 4940 4.269183 CACCCAAAGGCAGATATACAACA 58.731 43.478 0.00 0.00 36.11 3.33
3358 4941 3.632145 CCACCCAAAGGCAGATATACAAC 59.368 47.826 0.00 0.00 36.11 3.32
3359 4942 3.268334 ACCACCCAAAGGCAGATATACAA 59.732 43.478 0.00 0.00 36.11 2.41
3364 4947 2.990740 AAACCACCCAAAGGCAGATA 57.009 45.000 0.00 0.00 36.11 1.98
3386 4969 5.782925 AGATAGACCTCATGTAAGGGAAGT 58.217 41.667 5.50 0.00 41.04 3.01
3399 4982 7.171630 TGTCCTAAACAAAGAGATAGACCTC 57.828 40.000 0.00 0.00 34.03 3.85
3496 5105 1.602311 CTGACCTGTGAAGCTTTGCT 58.398 50.000 0.00 0.00 42.56 3.91
3638 5258 7.754924 CAGAACAAAACCACAATACATATCCAC 59.245 37.037 0.00 0.00 0.00 4.02
3643 5263 8.470805 ACAAACAGAACAAAACCACAATACATA 58.529 29.630 0.00 0.00 0.00 2.29
3648 5268 5.788450 TCACAAACAGAACAAAACCACAAT 58.212 33.333 0.00 0.00 0.00 2.71
3703 5323 2.695666 CCCTGGATCTCGAAGAAGCTAA 59.304 50.000 0.00 0.00 34.09 3.09
3799 5422 3.189287 GCTAACATGAACAGGTTGAGTGG 59.811 47.826 13.73 2.50 35.94 4.00
3828 5451 6.718454 AGGGGTTCAGCATAGATGATAATTTG 59.282 38.462 0.00 0.00 0.00 2.32
3987 5610 1.146263 GGGACTATGGTTGCTCGGG 59.854 63.158 0.00 0.00 0.00 5.14
4026 5655 0.037303 ACCACTGATGCCTGTTCCTG 59.963 55.000 0.00 0.00 0.00 3.86
4113 5742 4.617959 GCAGACAAATTCAGCATATGCAT 58.382 39.130 28.62 11.59 45.16 3.96
4114 5743 3.487879 CGCAGACAAATTCAGCATATGCA 60.488 43.478 28.62 9.60 45.16 3.96
4115 5744 3.040795 CGCAGACAAATTCAGCATATGC 58.959 45.455 20.36 20.36 36.54 3.14
4118 5747 2.358957 AGCGCAGACAAATTCAGCATA 58.641 42.857 11.47 0.00 36.54 3.14
4119 5748 1.171308 AGCGCAGACAAATTCAGCAT 58.829 45.000 11.47 0.00 36.54 3.79
4133 5762 3.124297 CCAAACAAAAGAAAACAAGCGCA 59.876 39.130 11.47 0.00 0.00 6.09
4190 5819 6.381133 TCCCCATACATACAGCAGATATACAG 59.619 42.308 0.00 0.00 0.00 2.74
4230 5859 5.106396 CGATTTCCATCTTTCCCATGATAGC 60.106 44.000 0.00 0.00 0.00 2.97
4263 5892 4.858935 TCAAGCAATGCACTGTAAACTTC 58.141 39.130 8.35 0.00 0.00 3.01
4361 6003 3.686098 ATCTCCTCAGGGCCGAGCA 62.686 63.158 16.66 4.71 0.00 4.26
4390 6032 1.006102 CGATAATCGCGGGCCTCTT 60.006 57.895 6.13 0.00 31.14 2.85
4423 6065 1.595794 GAACACACCACCTACAACACG 59.404 52.381 0.00 0.00 0.00 4.49
4455 6097 2.034879 AAAGTGCGCGTCCATGAGG 61.035 57.895 8.43 0.00 0.00 3.86
4462 6108 0.110644 CTTTCCTCAAAGTGCGCGTC 60.111 55.000 8.43 0.00 35.20 5.19
4631 6302 3.239253 ACTTCCCGTTGACCCGCT 61.239 61.111 0.00 0.00 0.00 5.52
4804 6479 3.302415 GCGGTGTTGCTTTTGAATTGTTC 60.302 43.478 0.00 0.00 0.00 3.18
4951 6627 5.587289 GCATATCGCTTTTAAACCCAATCA 58.413 37.500 0.00 0.00 37.77 2.57


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

AutoCloner maintained by Alex Coulton.