Multiple sequence alignment - TraesCS7A01G177800

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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 TraesCS7A01G177800 chr7A 100.000 4188 0 0 1 4188 131188430 131184243 0.000000e+00 7734.0
1 TraesCS7A01G177800 chr7A 90.953 1039 86 7 1278 2313 210252629 210253662 0.000000e+00 1391.0
2 TraesCS7A01G177800 chr7A 98.088 680 13 0 1 680 131169507 131168828 0.000000e+00 1184.0
3 TraesCS7A01G177800 chr7A 96.618 680 23 0 1 680 97825171 97825850 0.000000e+00 1129.0
4 TraesCS7A01G177800 chr7A 88.404 940 83 11 1313 2252 203697303 203698216 0.000000e+00 1109.0
5 TraesCS7A01G177800 chr7A 88.378 783 71 10 749 1530 130891577 130892340 0.000000e+00 924.0
6 TraesCS7A01G177800 chr7A 86.937 222 27 2 3969 4188 131773462 131773241 8.990000e-62 248.0
7 TraesCS7A01G177800 chr7A 94.828 58 0 1 2400 2454 131107820 131107763 2.070000e-13 87.9
8 TraesCS7A01G177800 chr7D 87.919 1639 138 30 692 2313 132831062 132829467 0.000000e+00 1875.0
9 TraesCS7A01G177800 chr7D 86.529 1648 155 35 687 2313 132764747 132763146 0.000000e+00 1751.0
10 TraesCS7A01G177800 chr7D 86.055 1635 141 41 687 2313 132740951 132742506 0.000000e+00 1676.0
11 TraesCS7A01G177800 chr7D 85.922 1584 122 42 687 2252 132747847 132749347 0.000000e+00 1596.0
12 TraesCS7A01G177800 chr7D 85.696 1559 171 30 708 2252 194129213 194130733 0.000000e+00 1596.0
13 TraesCS7A01G177800 chr7D 87.602 1347 114 29 757 2093 132156996 132158299 0.000000e+00 1513.0
14 TraesCS7A01G177800 chr7D 84.137 1639 146 55 729 2313 132135488 132137066 0.000000e+00 1482.0
15 TraesCS7A01G177800 chr7D 89.469 1035 91 16 2948 3969 528157181 528156152 0.000000e+00 1291.0
16 TraesCS7A01G177800 chr7D 95.593 295 13 0 2402 2696 132829245 132828951 1.360000e-129 473.0
17 TraesCS7A01G177800 chr7D 84.726 347 44 8 1972 2313 132158116 132158458 5.190000e-89 339.0
18 TraesCS7A01G177800 chr7D 92.273 220 17 0 3969 4188 132828954 132828735 3.140000e-81 313.0
19 TraesCS7A01G177800 chr7D 90.291 206 19 1 2695 2900 71621354 71621150 6.900000e-68 268.0
20 TraesCS7A01G177800 chr7D 94.828 58 3 0 2398 2455 132158661 132158718 1.600000e-14 91.6
21 TraesCS7A01G177800 chr7D 91.304 69 1 3 2400 2465 132762924 132762858 5.770000e-14 89.8
22 TraesCS7A01G177800 chr7D 93.333 60 2 2 2398 2457 132749525 132749582 2.070000e-13 87.9
23 TraesCS7A01G177800 chr7D 95.833 48 2 0 2266 2313 194130769 194130816 1.250000e-10 78.7
24 TraesCS7A01G177800 chr7D 100.000 37 0 0 2419 2455 132198461 132198497 7.510000e-08 69.4
25 TraesCS7A01G177800 chr7B 88.191 1448 130 23 692 2138 94186512 94185105 0.000000e+00 1688.0
26 TraesCS7A01G177800 chr7B 86.038 1590 148 41 753 2312 94118530 94116985 0.000000e+00 1639.0
27 TraesCS7A01G177800 chr7B 88.163 1301 122 16 960 2252 157808509 157809785 0.000000e+00 1520.0
28 TraesCS7A01G177800 chr7B 92.031 778 58 4 1362 2138 94143107 94142333 0.000000e+00 1090.0
29 TraesCS7A01G177800 chr7B 89.623 212 17 3 692 898 94143317 94143106 8.930000e-67 265.0
30 TraesCS7A01G177800 chr7B 94.737 57 3 0 2398 2454 94048795 94048739 5.770000e-14 89.8
31 TraesCS7A01G177800 chr7B 91.045 67 4 2 2399 2465 94184711 94184647 5.770000e-14 89.8
32 TraesCS7A01G177800 chr7B 95.833 48 2 0 2266 2313 157809821 157809868 1.250000e-10 78.7
33 TraesCS7A01G177800 chr7B 89.655 58 5 1 2253 2309 93865916 93865973 5.810000e-09 73.1
34 TraesCS7A01G177800 chr5D 89.191 1249 112 20 2742 3969 396426080 396427326 0.000000e+00 1537.0
35 TraesCS7A01G177800 chr1D 88.235 1292 106 13 2695 3955 208181887 208180611 0.000000e+00 1502.0
36 TraesCS7A01G177800 chr1D 87.633 1318 120 20 2692 3969 231456100 231457414 0.000000e+00 1491.0
37 TraesCS7A01G177800 chr1D 89.904 208 21 0 2693 2900 433297302 433297509 6.900000e-68 268.0
38 TraesCS7A01G177800 chr1D 85.294 238 31 3 2688 2924 277088388 277088622 4.180000e-60 243.0
39 TraesCS7A01G177800 chrUn 92.643 1033 73 3 2938 3969 21561298 21562328 0.000000e+00 1483.0
40 TraesCS7A01G177800 chr3A 87.072 1284 132 12 2695 3972 692985196 692983941 0.000000e+00 1421.0
41 TraesCS7A01G177800 chr3A 89.038 1040 108 5 2934 3972 623604091 623603057 0.000000e+00 1284.0
42 TraesCS7A01G177800 chr3A 87.165 1083 126 6 2892 3971 653907582 653906510 0.000000e+00 1218.0
43 TraesCS7A01G177800 chr3A 96.765 680 22 0 1 680 274992697 274993376 0.000000e+00 1134.0
44 TraesCS7A01G177800 chr3A 96.765 680 21 1 1 680 375043370 375042692 0.000000e+00 1133.0
45 TraesCS7A01G177800 chr3D 89.581 1075 97 10 2911 3974 427229185 427230255 0.000000e+00 1351.0
46 TraesCS7A01G177800 chr3D 89.821 1061 82 12 2913 3971 140787080 140788116 0.000000e+00 1338.0
47 TraesCS7A01G177800 chr3D 81.563 1318 165 44 2693 3972 36017703 36016426 0.000000e+00 1016.0
48 TraesCS7A01G177800 chr3D 88.679 212 22 2 2690 2900 427228922 427229132 1.490000e-64 257.0
49 TraesCS7A01G177800 chr5A 85.530 1320 141 23 2693 3971 601260556 601261866 0.000000e+00 1334.0
50 TraesCS7A01G177800 chr5A 96.769 681 21 1 1 680 44776789 44776109 0.000000e+00 1134.0
51 TraesCS7A01G177800 chr6A 97.210 681 18 1 1 680 450143024 450142344 0.000000e+00 1151.0
52 TraesCS7A01G177800 chr6A 89.320 206 22 0 2693 2898 551869035 551868830 4.150000e-65 259.0
53 TraesCS7A01G177800 chr4A 96.765 680 22 0 1 680 118062424 118061745 0.000000e+00 1134.0
54 TraesCS7A01G177800 chr4A 96.765 680 22 0 1 680 371115999 371115320 0.000000e+00 1134.0
55 TraesCS7A01G177800 chr4A 96.618 680 23 0 1 680 83155915 83156594 0.000000e+00 1129.0
56 TraesCS7A01G177800 chr6D 85.282 496 61 7 2693 3176 107534915 107534420 6.250000e-138 501.0
57 TraesCS7A01G177800 chr4D 89.904 208 20 1 2693 2900 396622111 396622317 2.480000e-67 267.0
58 TraesCS7A01G177800 chr4D 89.320 206 21 1 2695 2900 22556636 22556840 1.490000e-64 257.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G177800 chr7A 131184243 131188430 4187 True 7734.000000 7734 100.000000 1 4188 1 chr7A.!!$R3 4187
1 TraesCS7A01G177800 chr7A 210252629 210253662 1033 False 1391.000000 1391 90.953000 1278 2313 1 chr7A.!!$F4 1035
2 TraesCS7A01G177800 chr7A 131168828 131169507 679 True 1184.000000 1184 98.088000 1 680 1 chr7A.!!$R2 679
3 TraesCS7A01G177800 chr7A 97825171 97825850 679 False 1129.000000 1129 96.618000 1 680 1 chr7A.!!$F1 679
4 TraesCS7A01G177800 chr7A 203697303 203698216 913 False 1109.000000 1109 88.404000 1313 2252 1 chr7A.!!$F3 939
5 TraesCS7A01G177800 chr7A 130891577 130892340 763 False 924.000000 924 88.378000 749 1530 1 chr7A.!!$F2 781
6 TraesCS7A01G177800 chr7D 132740951 132742506 1555 False 1676.000000 1676 86.055000 687 2313 1 chr7D.!!$F3 1626
7 TraesCS7A01G177800 chr7D 132135488 132137066 1578 False 1482.000000 1482 84.137000 729 2313 1 chr7D.!!$F1 1584
8 TraesCS7A01G177800 chr7D 528156152 528157181 1029 True 1291.000000 1291 89.469000 2948 3969 1 chr7D.!!$R2 1021
9 TraesCS7A01G177800 chr7D 132762858 132764747 1889 True 920.400000 1751 88.916500 687 2465 2 chr7D.!!$R3 1778
10 TraesCS7A01G177800 chr7D 132828735 132831062 2327 True 887.000000 1875 91.928333 692 4188 3 chr7D.!!$R4 3496
11 TraesCS7A01G177800 chr7D 132747847 132749582 1735 False 841.950000 1596 89.627500 687 2457 2 chr7D.!!$F5 1770
12 TraesCS7A01G177800 chr7D 194129213 194130816 1603 False 837.350000 1596 90.764500 708 2313 2 chr7D.!!$F6 1605
13 TraesCS7A01G177800 chr7D 132156996 132158718 1722 False 647.866667 1513 89.052000 757 2455 3 chr7D.!!$F4 1698
14 TraesCS7A01G177800 chr7B 94116985 94118530 1545 True 1639.000000 1639 86.038000 753 2312 1 chr7B.!!$R2 1559
15 TraesCS7A01G177800 chr7B 94184647 94186512 1865 True 888.900000 1688 89.618000 692 2465 2 chr7B.!!$R4 1773
16 TraesCS7A01G177800 chr7B 157808509 157809868 1359 False 799.350000 1520 91.998000 960 2313 2 chr7B.!!$F2 1353
17 TraesCS7A01G177800 chr7B 94142333 94143317 984 True 677.500000 1090 90.827000 692 2138 2 chr7B.!!$R3 1446
18 TraesCS7A01G177800 chr5D 396426080 396427326 1246 False 1537.000000 1537 89.191000 2742 3969 1 chr5D.!!$F1 1227
19 TraesCS7A01G177800 chr1D 208180611 208181887 1276 True 1502.000000 1502 88.235000 2695 3955 1 chr1D.!!$R1 1260
20 TraesCS7A01G177800 chr1D 231456100 231457414 1314 False 1491.000000 1491 87.633000 2692 3969 1 chr1D.!!$F1 1277
21 TraesCS7A01G177800 chrUn 21561298 21562328 1030 False 1483.000000 1483 92.643000 2938 3969 1 chrUn.!!$F1 1031
22 TraesCS7A01G177800 chr3A 692983941 692985196 1255 True 1421.000000 1421 87.072000 2695 3972 1 chr3A.!!$R4 1277
23 TraesCS7A01G177800 chr3A 623603057 623604091 1034 True 1284.000000 1284 89.038000 2934 3972 1 chr3A.!!$R2 1038
24 TraesCS7A01G177800 chr3A 653906510 653907582 1072 True 1218.000000 1218 87.165000 2892 3971 1 chr3A.!!$R3 1079
25 TraesCS7A01G177800 chr3A 274992697 274993376 679 False 1134.000000 1134 96.765000 1 680 1 chr3A.!!$F1 679
26 TraesCS7A01G177800 chr3A 375042692 375043370 678 True 1133.000000 1133 96.765000 1 680 1 chr3A.!!$R1 679
27 TraesCS7A01G177800 chr3D 140787080 140788116 1036 False 1338.000000 1338 89.821000 2913 3971 1 chr3D.!!$F1 1058
28 TraesCS7A01G177800 chr3D 36016426 36017703 1277 True 1016.000000 1016 81.563000 2693 3972 1 chr3D.!!$R1 1279
29 TraesCS7A01G177800 chr3D 427228922 427230255 1333 False 804.000000 1351 89.130000 2690 3974 2 chr3D.!!$F2 1284
30 TraesCS7A01G177800 chr5A 601260556 601261866 1310 False 1334.000000 1334 85.530000 2693 3971 1 chr5A.!!$F1 1278
31 TraesCS7A01G177800 chr5A 44776109 44776789 680 True 1134.000000 1134 96.769000 1 680 1 chr5A.!!$R1 679
32 TraesCS7A01G177800 chr6A 450142344 450143024 680 True 1151.000000 1151 97.210000 1 680 1 chr6A.!!$R1 679
33 TraesCS7A01G177800 chr4A 118061745 118062424 679 True 1134.000000 1134 96.765000 1 680 1 chr4A.!!$R1 679
34 TraesCS7A01G177800 chr4A 371115320 371115999 679 True 1134.000000 1134 96.765000 1 680 1 chr4A.!!$R2 679
35 TraesCS7A01G177800 chr4A 83155915 83156594 679 False 1129.000000 1129 96.618000 1 680 1 chr4A.!!$F1 679

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
687 690 1.102978 ACGCAAGCAAGGTTGTTTCT 58.897 45.0 12.85 0.0 45.62 2.52 F
1175 1248 0.161658 GACGACGACGACGACTACAA 59.838 55.0 25.15 0.0 42.66 2.41 F
2646 2948 0.108963 TGTAAAATATCCCCCGCCGG 59.891 55.0 0.00 0.0 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2264 2405 0.517316 GTTCACCAACTCCATGACGC 59.483 55.0 0.0 0.00 0.00 5.19 R
2834 3145 0.652071 CATGATCTAAAGCGCGCACA 59.348 50.0 35.1 19.49 0.00 4.57 R
3550 3965 0.172578 CCGACGTCTGAATGTAGGCA 59.827 55.0 14.7 0.00 31.52 4.75 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
436 438 2.294074 TGCCAAGCGTTTACTCTTGTT 58.706 42.857 10.63 0.00 37.07 2.83
565 567 7.504403 TCTCTTGATTCCACTAATGATTCTCC 58.496 38.462 0.00 0.00 0.00 3.71
575 578 5.757320 CACTAATGATTCTCCTAGCCAAGTG 59.243 44.000 0.00 0.00 0.00 3.16
680 683 2.030274 GGAAATTGTACGCAAGCAAGGT 60.030 45.455 0.00 0.00 45.62 3.50
681 684 3.552068 GGAAATTGTACGCAAGCAAGGTT 60.552 43.478 0.00 0.00 45.62 3.50
682 685 2.704725 ATTGTACGCAAGCAAGGTTG 57.295 45.000 7.58 7.58 45.62 3.77
683 686 1.384525 TTGTACGCAAGCAAGGTTGT 58.615 45.000 12.85 0.00 45.62 3.32
684 687 1.384525 TGTACGCAAGCAAGGTTGTT 58.615 45.000 12.85 4.22 45.62 2.83
685 688 1.746220 TGTACGCAAGCAAGGTTGTTT 59.254 42.857 12.85 3.91 45.62 2.83
686 689 2.223386 TGTACGCAAGCAAGGTTGTTTC 60.223 45.455 12.85 3.72 45.62 2.78
687 690 1.102978 ACGCAAGCAAGGTTGTTTCT 58.897 45.000 12.85 0.00 45.62 2.52
688 691 1.476488 ACGCAAGCAAGGTTGTTTCTT 59.524 42.857 12.85 0.00 45.62 2.52
689 692 2.094234 ACGCAAGCAAGGTTGTTTCTTT 60.094 40.909 12.85 0.00 45.62 2.52
690 693 2.535574 CGCAAGCAAGGTTGTTTCTTTC 59.464 45.455 12.85 0.00 28.73 2.62
699 702 3.769300 AGGTTGTTTCTTTCTTGCCTTGT 59.231 39.130 0.00 0.00 0.00 3.16
775 781 2.744202 CAAGCAGCACGAATCCTAAAGT 59.256 45.455 0.00 0.00 0.00 2.66
786 792 4.322801 CGAATCCTAAAGTTGTGGTCTCCT 60.323 45.833 0.00 0.00 0.00 3.69
794 800 2.368875 AGTTGTGGTCTCCTGATCGTTT 59.631 45.455 0.00 0.00 0.00 3.60
842 848 1.636003 CCCCAGAAGCTTCTAAACCCT 59.364 52.381 28.02 2.20 35.34 4.34
843 849 2.356227 CCCCAGAAGCTTCTAAACCCTC 60.356 54.545 28.02 0.00 35.34 4.30
844 850 2.356227 CCCAGAAGCTTCTAAACCCTCC 60.356 54.545 28.02 0.00 35.34 4.30
918 951 2.275418 CTCCATTTCCCACCCCCG 59.725 66.667 0.00 0.00 0.00 5.73
953 986 5.413499 CACAAGAATCCAAAATCATCACCC 58.587 41.667 0.00 0.00 0.00 4.61
955 988 5.047092 ACAAGAATCCAAAATCATCACCCAC 60.047 40.000 0.00 0.00 0.00 4.61
956 989 4.026052 AGAATCCAAAATCATCACCCACC 58.974 43.478 0.00 0.00 0.00 4.61
957 990 2.230130 TCCAAAATCATCACCCACCC 57.770 50.000 0.00 0.00 0.00 4.61
958 991 1.715931 TCCAAAATCATCACCCACCCT 59.284 47.619 0.00 0.00 0.00 4.34
1148 1221 3.650950 GGCCAAGGAGGTCAGCCA 61.651 66.667 0.00 0.00 43.39 4.75
1175 1248 0.161658 GACGACGACGACGACTACAA 59.838 55.000 25.15 0.00 42.66 2.41
1240 1318 2.589157 CCGTTCCCTACCTGTGGCA 61.589 63.158 0.00 0.00 0.00 4.92
1243 1321 1.839747 TTCCCTACCTGTGGCACGT 60.840 57.895 13.77 8.27 0.00 4.49
1276 1362 0.179059 TCGTGCTGAAGCCTCAACAA 60.179 50.000 0.00 0.00 41.18 2.83
1323 1409 2.303175 GCTTTTGGTGTCCTTGGTGTA 58.697 47.619 0.00 0.00 0.00 2.90
1350 1436 4.719369 GACGTGCTCGACCCGCTT 62.719 66.667 16.04 0.00 40.62 4.68
1405 1491 1.078759 GATGGAGGACGTCGCAACTG 61.079 60.000 9.92 0.00 0.00 3.16
1537 1626 2.140792 AAGGAGCACGTGGAGGTGT 61.141 57.895 18.88 0.00 40.08 4.16
1539 1628 2.421739 GAGCACGTGGAGGTGTGT 59.578 61.111 18.88 0.00 40.08 3.72
1549 1638 1.227556 GAGGTGTGTGCGGACAAGT 60.228 57.895 12.69 0.00 32.49 3.16
1557 1646 2.094390 GTGTGCGGACAAGTACATCCTA 60.094 50.000 12.69 0.00 38.85 2.94
1636 1725 3.199891 GGTACAACCGCCGCATCC 61.200 66.667 0.00 0.00 0.00 3.51
1696 1788 2.325218 GCCGAGATGAAGAATGGCC 58.675 57.895 0.00 0.00 36.51 5.36
1698 1790 1.070758 GCCGAGATGAAGAATGGCCTA 59.929 52.381 3.32 0.00 36.51 3.93
1771 1863 2.161808 CACGTCAAGGTCGAGTAGTCAT 59.838 50.000 0.00 0.00 0.00 3.06
1774 1866 3.366070 CGTCAAGGTCGAGTAGTCATTGT 60.366 47.826 0.00 0.00 32.95 2.71
1775 1867 3.921021 GTCAAGGTCGAGTAGTCATTGTG 59.079 47.826 0.00 0.00 32.95 3.33
1777 1869 2.803956 AGGTCGAGTAGTCATTGTGGA 58.196 47.619 0.00 0.00 0.00 4.02
1778 1870 3.366396 AGGTCGAGTAGTCATTGTGGAT 58.634 45.455 0.00 0.00 0.00 3.41
1779 1871 3.769844 AGGTCGAGTAGTCATTGTGGATT 59.230 43.478 0.00 0.00 0.00 3.01
1823 1927 1.169577 GGCGAGAGAGTGTGAGAGAA 58.830 55.000 0.00 0.00 0.00 2.87
1879 1992 3.963665 TCCTTGTTTTGCTTCGTTGATG 58.036 40.909 0.00 0.00 0.00 3.07
1886 1999 2.542020 TGCTTCGTTGATGGTCTTGA 57.458 45.000 0.00 0.00 0.00 3.02
1890 2003 3.686726 GCTTCGTTGATGGTCTTGAATCT 59.313 43.478 0.00 0.00 0.00 2.40
1918 2031 1.141053 AGTGGTCTGGTGGTGAAGTTC 59.859 52.381 0.00 0.00 0.00 3.01
1932 2046 3.479269 GTTCGGCCGCGAACTCTG 61.479 66.667 23.51 0.00 43.26 3.35
1934 2048 3.509137 TTCGGCCGCGAACTCTGTT 62.509 57.895 23.51 0.00 0.00 3.16
1937 2051 1.683790 CGGCCGCGAACTCTGTTAAG 61.684 60.000 14.67 0.00 0.00 1.85
1951 2065 7.598759 ACTCTGTTAAGTTCCTCTAGTTTCA 57.401 36.000 0.00 0.00 0.00 2.69
1973 2091 5.648960 TCAGCATATGATGAACTTGCTTTGA 59.351 36.000 20.86 0.00 41.47 2.69
2024 2142 4.916983 TTTCCTCGAATTTGGCATATGG 57.083 40.909 4.56 0.00 0.00 2.74
2031 2149 5.432645 TCGAATTTGGCATATGGTGAACTA 58.567 37.500 4.56 0.00 0.00 2.24
2053 2171 7.882179 ACTAATTTGGTACTGAAATTGGTCAC 58.118 34.615 18.27 0.00 39.10 3.67
2061 2179 3.315191 ACTGAAATTGGTCACGAAACCTG 59.685 43.478 11.30 0.00 40.20 4.00
2177 2295 8.035984 ACTACTTTGATTGTCTTAAGCTAGTCC 58.964 37.037 0.00 0.00 0.00 3.85
2178 2296 7.010339 ACTTTGATTGTCTTAAGCTAGTCCT 57.990 36.000 0.00 0.00 0.00 3.85
2220 2339 7.349711 TCGTTCTTGTTCTGTATTGCTTTAAC 58.650 34.615 0.00 0.00 0.00 2.01
2221 2340 7.225931 TCGTTCTTGTTCTGTATTGCTTTAACT 59.774 33.333 0.00 0.00 0.00 2.24
2258 2399 1.270907 GGATCCATGCCTATCCTCGT 58.729 55.000 6.95 0.00 38.92 4.18
2264 2405 1.942657 CATGCCTATCCTCGTGTTTGG 59.057 52.381 0.00 0.00 0.00 3.28
2313 2456 8.081633 CAGTTACAGGTTGATGATTTTTGCTTA 58.918 33.333 0.00 0.00 0.00 3.09
2317 2464 6.438425 ACAGGTTGATGATTTTTGCTTATCCT 59.562 34.615 0.00 0.00 0.00 3.24
2323 2470 9.590451 TTGATGATTTTTGCTTATCCTTGAATC 57.410 29.630 0.00 0.00 0.00 2.52
2371 2540 4.641396 TGATCTCCTCGAATTTTGTGTGT 58.359 39.130 0.00 0.00 0.00 3.72
2373 2542 6.227522 TGATCTCCTCGAATTTTGTGTGTTA 58.772 36.000 0.00 0.00 0.00 2.41
2374 2543 6.878923 TGATCTCCTCGAATTTTGTGTGTTAT 59.121 34.615 0.00 0.00 0.00 1.89
2375 2544 6.721571 TCTCCTCGAATTTTGTGTGTTATC 57.278 37.500 0.00 0.00 0.00 1.75
2376 2545 6.464222 TCTCCTCGAATTTTGTGTGTTATCT 58.536 36.000 0.00 0.00 0.00 1.98
2377 2546 6.368791 TCTCCTCGAATTTTGTGTGTTATCTG 59.631 38.462 0.00 0.00 0.00 2.90
2378 2547 6.227522 TCCTCGAATTTTGTGTGTTATCTGA 58.772 36.000 0.00 0.00 0.00 3.27
2379 2548 6.708502 TCCTCGAATTTTGTGTGTTATCTGAA 59.291 34.615 0.00 0.00 0.00 3.02
2380 2549 6.797033 CCTCGAATTTTGTGTGTTATCTGAAC 59.203 38.462 0.00 0.00 0.00 3.18
2383 2552 7.225734 TCGAATTTTGTGTGTTATCTGAACTGA 59.774 33.333 0.00 0.00 0.00 3.41
2387 2556 8.854979 TTTTGTGTGTTATCTGAACTGATTTG 57.145 30.769 0.00 0.00 0.00 2.32
2388 2557 6.558771 TGTGTGTTATCTGAACTGATTTGG 57.441 37.500 0.00 0.00 0.00 3.28
2390 2559 6.017192 TGTGTGTTATCTGAACTGATTTGGTG 60.017 38.462 0.00 0.00 0.00 4.17
2391 2560 5.473162 TGTGTTATCTGAACTGATTTGGTGG 59.527 40.000 0.00 0.00 0.00 4.61
2394 2563 6.206634 TGTTATCTGAACTGATTTGGTGGTTC 59.793 38.462 0.00 0.00 38.64 3.62
2395 2564 3.486383 TCTGAACTGATTTGGTGGTTCC 58.514 45.455 0.00 0.00 37.74 3.62
2396 2565 2.558359 CTGAACTGATTTGGTGGTTCCC 59.442 50.000 0.00 0.00 37.74 3.97
2499 2801 4.908601 TGACCATGGACAATGACTAGTT 57.091 40.909 21.47 0.00 38.72 2.24
2529 2831 3.844577 TTCACTCTACGGAGCTTGTAC 57.155 47.619 0.00 0.00 42.98 2.90
2544 2846 7.480810 GGAGCTTGTACATTTTACCCATTAAG 58.519 38.462 0.00 0.00 0.00 1.85
2577 2879 7.831193 ACTTCTATAATGTCACCAATGAAGCTT 59.169 33.333 0.00 0.00 36.31 3.74
2580 2882 9.851686 TCTATAATGTCACCAATGAAGCTTTAT 57.148 29.630 0.00 0.00 36.31 1.40
2612 2914 2.569404 GAGAGAGTGGTTGGACCTCATT 59.431 50.000 0.00 0.00 39.58 2.57
2646 2948 0.108963 TGTAAAATATCCCCCGCCGG 59.891 55.000 0.00 0.00 0.00 6.13
2666 2968 2.691011 GGGACTCTATCGAGCTTTCAGT 59.309 50.000 0.00 0.00 41.09 3.41
2711 3013 2.567615 AGTTAGAGCAACTCCAACGGAT 59.432 45.455 1.24 0.00 44.48 4.18
2723 3025 0.947180 CAACGGATCGACCCAAACGT 60.947 55.000 0.00 0.00 35.95 3.99
2834 3145 0.687354 GGCCGACCCATATCATGACT 59.313 55.000 0.00 0.00 0.00 3.41
2857 3170 0.657312 CGCGCTTTAGATCATGCCAA 59.343 50.000 5.56 0.00 0.00 4.52
2916 3271 3.400054 GGGGAAGTGGCCTAGCGT 61.400 66.667 3.32 0.00 0.00 5.07
2918 3273 2.663196 GGAAGTGGCCTAGCGTGT 59.337 61.111 3.32 0.00 0.00 4.49
2987 3379 2.930019 CCCTCCACACTCTGCCCA 60.930 66.667 0.00 0.00 0.00 5.36
2988 3380 2.667418 CCTCCACACTCTGCCCAG 59.333 66.667 0.00 0.00 0.00 4.45
2994 3386 2.345244 CACTCTGCCCAGCTCGTT 59.655 61.111 0.00 0.00 0.00 3.85
2995 3387 2.031516 CACTCTGCCCAGCTCGTTG 61.032 63.158 0.00 0.00 0.00 4.10
3007 3399 3.818121 CTCGTTGTCCGCCACCCAA 62.818 63.158 0.00 0.00 36.19 4.12
3020 3434 0.174845 CACCCAATCGTCTCGCCTTA 59.825 55.000 0.00 0.00 0.00 2.69
3041 3455 1.449601 GCCACCATGTCGATCCGTT 60.450 57.895 0.00 0.00 0.00 4.44
3149 3563 3.934391 CTCGGCACCTTCGACACCC 62.934 68.421 0.00 0.00 32.86 4.61
3159 3573 2.283966 CGACACCCCAGAGGAGGT 60.284 66.667 0.00 0.00 39.89 3.85
3394 3809 1.035923 AGGACATCGTCGATGAGCAT 58.964 50.000 35.44 22.82 42.09 3.79
3429 3844 2.359967 GGAGGTTGGAGAGGGACGG 61.360 68.421 0.00 0.00 0.00 4.79
3514 3929 2.922740 AACTGAAGCTACGGGAAACA 57.077 45.000 0.00 0.00 0.00 2.83
3539 3954 3.498661 GGGTTGGGACTTTGAAGATGAGT 60.499 47.826 0.00 0.00 0.00 3.41
3550 3965 4.684484 TGAAGATGAGTAGCATGCTGAT 57.316 40.909 30.42 17.98 37.34 2.90
3653 4072 9.281371 TGTGTACGCTAGAACTATCTATGTATT 57.719 33.333 8.10 0.00 37.52 1.89
3730 4151 0.250252 TGCTGTTTGATGTGGAGCGA 60.250 50.000 0.00 0.00 32.05 4.93
3803 4229 2.500369 GCGCGTTCGTCTCGTGTA 60.500 61.111 8.43 0.00 40.28 2.90
3868 4294 2.100631 CAGGCGGACGAAAGCGAAT 61.101 57.895 0.00 0.00 41.64 3.34
3964 4391 3.765968 GGTCACCCCATTGGAGTTT 57.234 52.632 3.62 0.00 38.00 2.66
3974 4401 4.265073 CCCATTGGAGTTTCTCTTAGTGG 58.735 47.826 3.62 0.00 30.79 4.00
3975 4402 4.263506 CCCATTGGAGTTTCTCTTAGTGGT 60.264 45.833 3.62 0.00 29.88 4.16
3976 4403 5.316987 CCATTGGAGTTTCTCTTAGTGGTT 58.683 41.667 0.00 0.00 0.00 3.67
3977 4404 5.412904 CCATTGGAGTTTCTCTTAGTGGTTC 59.587 44.000 0.00 0.00 0.00 3.62
3978 4405 4.618920 TGGAGTTTCTCTTAGTGGTTCC 57.381 45.455 0.00 0.00 0.00 3.62
3979 4406 4.232091 TGGAGTTTCTCTTAGTGGTTCCT 58.768 43.478 0.00 0.00 0.00 3.36
3980 4407 4.283722 TGGAGTTTCTCTTAGTGGTTCCTC 59.716 45.833 0.00 0.00 0.00 3.71
3981 4408 4.528987 GGAGTTTCTCTTAGTGGTTCCTCT 59.471 45.833 0.00 0.00 0.00 3.69
3982 4409 5.012251 GGAGTTTCTCTTAGTGGTTCCTCTT 59.988 44.000 0.00 0.00 0.00 2.85
3983 4410 6.210984 GGAGTTTCTCTTAGTGGTTCCTCTTA 59.789 42.308 0.00 0.00 0.00 2.10
3995 4422 6.049955 TGGTTCCTCTTACCACTTAATCAG 57.950 41.667 0.00 0.00 40.65 2.90
3996 4423 5.546499 TGGTTCCTCTTACCACTTAATCAGT 59.454 40.000 0.00 0.00 40.65 3.41
3998 4425 6.940867 GGTTCCTCTTACCACTTAATCAGTTT 59.059 38.462 0.00 0.00 35.67 2.66
4007 4434 5.301805 ACCACTTAATCAGTTTTGAGGGTTG 59.698 40.000 0.00 0.00 36.61 3.77
4019 4446 7.860872 CAGTTTTGAGGGTTGACATTAGTAAAC 59.139 37.037 0.00 0.00 38.23 2.01
4048 4475 5.607477 TGGCTAAGAACATAATTAGGGTCG 58.393 41.667 9.37 0.00 31.07 4.79
4066 4493 3.435671 GGTCGCCCATAAATACAGTATGC 59.564 47.826 0.00 0.00 42.53 3.14
4113 4540 3.127030 TGGCACTATGACTCGATATAGCG 59.873 47.826 3.47 3.47 31.56 4.26
4115 4542 3.374367 GCACTATGACTCGATATAGCGGA 59.626 47.826 10.94 0.00 31.56 5.54
4116 4543 4.728307 GCACTATGACTCGATATAGCGGAC 60.728 50.000 10.94 2.85 31.56 4.79
4118 4545 2.159327 TGACTCGATATAGCGGACGA 57.841 50.000 10.94 0.00 0.00 4.20
4143 4570 1.747355 GGTCCTCATGATGGCAAACAG 59.253 52.381 4.94 0.00 0.00 3.16
4156 4583 1.619654 CAAACAGCCCCACAGATCAA 58.380 50.000 0.00 0.00 0.00 2.57
4163 4590 1.970640 GCCCCACAGATCAACCTTTTT 59.029 47.619 0.00 0.00 0.00 1.94
4174 4601 7.144000 CAGATCAACCTTTTTGGAGAGAAAAG 58.856 38.462 0.00 3.09 41.50 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
436 438 8.630054 AGATTTAACTTGTGGCATGTAAGTAA 57.370 30.769 12.87 7.25 33.82 2.24
575 578 5.619625 AGCTATTTTCTTGCTCAAGTGTC 57.380 39.130 9.20 0.00 39.38 3.67
680 683 3.520569 GCACAAGGCAAGAAAGAAACAA 58.479 40.909 0.00 0.00 43.97 2.83
681 684 3.163630 GCACAAGGCAAGAAAGAAACA 57.836 42.857 0.00 0.00 43.97 2.83
699 702 1.170442 CATTGATCTGCTGTGGTGCA 58.830 50.000 0.00 0.00 41.05 4.57
775 781 3.138304 CAAAACGATCAGGAGACCACAA 58.862 45.455 0.00 0.00 0.00 3.33
786 792 1.001520 TCGAGCCTTCCAAAACGATCA 59.998 47.619 0.00 0.00 0.00 2.92
842 848 2.372688 GGGAGGGGATGGTGAGGA 59.627 66.667 0.00 0.00 0.00 3.71
843 849 2.774351 GGGGAGGGGATGGTGAGG 60.774 72.222 0.00 0.00 0.00 3.86
844 850 1.619363 TTGGGGAGGGGATGGTGAG 60.619 63.158 0.00 0.00 0.00 3.51
918 951 0.319900 TTCTTGTGGCTGAGCGAGAC 60.320 55.000 0.00 0.00 0.00 3.36
953 986 1.140052 TCTCTCTCTCGCTCTAGGGTG 59.860 57.143 0.00 0.00 0.00 4.61
955 988 2.104111 TCTTCTCTCTCTCGCTCTAGGG 59.896 54.545 0.00 0.00 0.00 3.53
956 989 3.069586 TCTCTTCTCTCTCTCGCTCTAGG 59.930 52.174 0.00 0.00 0.00 3.02
957 990 4.038042 TCTCTCTTCTCTCTCTCGCTCTAG 59.962 50.000 0.00 0.00 0.00 2.43
958 991 3.958147 TCTCTCTTCTCTCTCTCGCTCTA 59.042 47.826 0.00 0.00 0.00 2.43
1076 1149 3.063084 GGGAGTCGACCGAGCAGT 61.063 66.667 13.01 0.00 0.00 4.40
1119 1192 0.039618 CCTTGGCCTGGGTGTTGTAT 59.960 55.000 3.32 0.00 0.00 2.29
1148 1221 1.729484 TCGTCGTCGTCGTCGTAGT 60.729 57.895 18.44 0.00 45.27 2.73
1240 1318 0.043652 CGAACGCAAAGAAACGACGT 60.044 50.000 0.00 0.00 38.88 4.34
1243 1321 0.315544 GCACGAACGCAAAGAAACGA 60.316 50.000 0.00 0.00 0.00 3.85
1276 1362 3.748048 CACAAGGATGATTTGACTCACGT 59.252 43.478 0.00 0.00 0.00 4.49
1291 1377 2.886523 CACCAAAAGCAGATCACAAGGA 59.113 45.455 0.00 0.00 0.00 3.36
1323 1409 0.792640 CGAGCACGTCTGCAAAATCT 59.207 50.000 0.52 0.00 46.97 2.40
1350 1436 2.112928 ATGCTGGTCAACGCACCA 59.887 55.556 1.82 1.82 44.69 4.17
1353 1439 3.364441 GCCATGCTGGTCAACGCA 61.364 61.111 4.45 0.00 40.46 5.24
1357 1443 2.749682 ACGAGCCATGCTGGTCAA 59.250 55.556 0.00 0.00 43.70 3.18
1371 1457 0.813821 CCATCAGAGACAGCAGACGA 59.186 55.000 0.00 0.00 0.00 4.20
1457 1546 3.260100 CCTCCTTGGCCACCCACT 61.260 66.667 3.88 0.00 41.97 4.00
1537 1626 0.973632 AGGATGTACTTGTCCGCACA 59.026 50.000 0.00 0.00 39.54 4.57
1539 1628 2.165641 CACTAGGATGTACTTGTCCGCA 59.834 50.000 0.00 0.00 39.54 5.69
1549 1638 2.628178 CGCCCTTGATCACTAGGATGTA 59.372 50.000 14.09 0.00 40.51 2.29
1557 1646 3.036429 GCCCTCGCCCTTGATCACT 62.036 63.158 0.00 0.00 0.00 3.41
1582 1671 2.517875 GTCGCCGTCCTAGGGCTA 60.518 66.667 12.53 0.00 46.33 3.93
1771 1863 3.500448 TGAGCACTACCAAATCCACAA 57.500 42.857 0.00 0.00 0.00 3.33
1774 1866 2.575735 TCCATGAGCACTACCAAATCCA 59.424 45.455 0.00 0.00 0.00 3.41
1775 1867 3.209410 CTCCATGAGCACTACCAAATCC 58.791 50.000 0.00 0.00 0.00 3.01
1777 1869 2.846206 TCCTCCATGAGCACTACCAAAT 59.154 45.455 0.00 0.00 0.00 2.32
1778 1870 2.265367 TCCTCCATGAGCACTACCAAA 58.735 47.619 0.00 0.00 0.00 3.28
1779 1871 1.951209 TCCTCCATGAGCACTACCAA 58.049 50.000 0.00 0.00 0.00 3.67
1823 1927 2.165167 CATGACCACATCAACAAGGCT 58.835 47.619 0.00 0.00 41.93 4.58
1879 1992 5.892686 ACCACTACCTACTAGATTCAAGACC 59.107 44.000 0.00 0.00 0.00 3.85
1886 1999 5.202004 CACCAGACCACTACCTACTAGATT 58.798 45.833 0.00 0.00 0.00 2.40
1890 2003 2.651334 ACCACCAGACCACTACCTACTA 59.349 50.000 0.00 0.00 0.00 1.82
1918 2031 1.683790 CTTAACAGAGTTCGCGGCCG 61.684 60.000 24.05 24.05 0.00 6.13
1932 2046 8.821894 CATATGCTGAAACTAGAGGAACTTAAC 58.178 37.037 0.00 0.00 41.55 2.01
1934 2048 8.306313 TCATATGCTGAAACTAGAGGAACTTA 57.694 34.615 0.00 0.00 41.55 2.24
1937 2051 7.212976 TCATCATATGCTGAAACTAGAGGAAC 58.787 38.462 6.78 0.00 37.44 3.62
1973 2091 7.101054 CAGAATTTCATGACCAATTTCACCAT 58.899 34.615 6.78 0.00 0.00 3.55
2024 2142 8.357402 ACCAATTTCAGTACCAAATTAGTTCAC 58.643 33.333 11.10 0.00 32.74 3.18
2031 2149 5.533154 TCGTGACCAATTTCAGTACCAAATT 59.467 36.000 7.13 7.13 34.42 1.82
2053 2171 2.770164 AGGAGATCAACCAGGTTTCG 57.230 50.000 0.44 0.00 0.00 3.46
2061 2179 3.127030 CGCCAAACTTAAGGAGATCAACC 59.873 47.826 7.53 0.00 0.00 3.77
2177 2295 2.428890 ACGAGGAAAGATAGACAGGCAG 59.571 50.000 0.00 0.00 0.00 4.85
2178 2296 2.457598 ACGAGGAAAGATAGACAGGCA 58.542 47.619 0.00 0.00 0.00 4.75
2220 2339 8.110860 TGGATCCTTAGCTTTTTACAGAAAAG 57.889 34.615 14.23 6.84 39.55 2.27
2221 2340 8.522830 CATGGATCCTTAGCTTTTTACAGAAAA 58.477 33.333 14.23 0.00 32.61 2.29
2240 2359 1.620819 ACACGAGGATAGGCATGGATC 59.379 52.381 0.00 0.00 0.00 3.36
2243 2362 1.942657 CAAACACGAGGATAGGCATGG 59.057 52.381 0.00 0.00 0.00 3.66
2258 2399 0.950836 CAACTCCATGACGCCAAACA 59.049 50.000 0.00 0.00 0.00 2.83
2264 2405 0.517316 GTTCACCAACTCCATGACGC 59.483 55.000 0.00 0.00 0.00 5.19
2343 2511 5.997746 ACAAAATTCGAGGAGATCAGACAAA 59.002 36.000 0.00 0.00 0.00 2.83
2371 2540 5.710099 GGAACCACCAAATCAGTTCAGATAA 59.290 40.000 0.00 0.00 40.27 1.75
2373 2542 4.082125 GGAACCACCAAATCAGTTCAGAT 58.918 43.478 0.00 0.00 40.27 2.90
2374 2543 3.486383 GGAACCACCAAATCAGTTCAGA 58.514 45.455 0.00 0.00 40.27 3.27
2375 2544 3.923017 GGAACCACCAAATCAGTTCAG 57.077 47.619 0.00 0.00 40.27 3.02
2391 2560 2.558359 CCACCAAATCAGTTCAGGGAAC 59.442 50.000 0.94 0.94 42.25 3.62
2394 2563 2.292828 ACCACCAAATCAGTTCAGGG 57.707 50.000 0.00 0.00 0.00 4.45
2395 2564 2.558359 GGAACCACCAAATCAGTTCAGG 59.442 50.000 0.00 0.00 40.27 3.86
2396 2565 3.923017 GGAACCACCAAATCAGTTCAG 57.077 47.619 0.00 0.00 40.27 3.02
2517 2819 3.244630 TGGGTAAAATGTACAAGCTCCGT 60.245 43.478 0.00 0.00 0.00 4.69
2529 2831 7.214467 AGTGTGTGACTTAATGGGTAAAATG 57.786 36.000 0.00 0.00 0.00 2.32
2544 2846 6.163476 TGGTGACATTATAGAAGTGTGTGAC 58.837 40.000 0.00 0.00 33.40 3.67
2577 2879 9.706691 CAACCACTCTCTCTTAAAGTACAATAA 57.293 33.333 0.00 0.00 0.00 1.40
2580 2882 6.325545 TCCAACCACTCTCTCTTAAAGTACAA 59.674 38.462 0.00 0.00 0.00 2.41
2598 2900 3.245122 GGAAAGGTAATGAGGTCCAACCA 60.245 47.826 0.00 0.00 41.95 3.67
2612 2914 9.793259 GGATATTTTACATCATGAGGAAAGGTA 57.207 33.333 15.42 6.86 0.00 3.08
2666 2968 4.288366 TGTGGAGATACTTGACCCATTGAA 59.712 41.667 0.00 0.00 0.00 2.69
2711 3013 3.781079 AATATCGTACGTTTGGGTCGA 57.219 42.857 16.05 0.00 35.14 4.20
2748 3053 3.059386 GGCGGCCGATCCAAACAA 61.059 61.111 33.48 0.00 34.01 2.83
2826 3137 1.300971 AAAGCGCGCACAGTCATGAT 61.301 50.000 35.10 4.83 0.00 2.45
2834 3145 0.652071 CATGATCTAAAGCGCGCACA 59.348 50.000 35.10 19.49 0.00 4.57
2902 3215 1.741770 CCACACGCTAGGCCACTTC 60.742 63.158 5.01 0.00 0.00 3.01
2906 3235 2.463589 CTTTCCCACACGCTAGGCCA 62.464 60.000 5.01 0.00 0.00 5.36
2916 3271 1.890041 CGCGTGAACCTTTCCCACA 60.890 57.895 0.00 0.00 0.00 4.17
2918 3273 2.975799 GCGCGTGAACCTTTCCCA 60.976 61.111 8.43 0.00 0.00 4.37
2943 3315 3.466836 CTTCTTATAATGAGTGCCGGCA 58.533 45.455 29.03 29.03 0.00 5.69
2950 3322 4.409247 AGGGAACGCCTTCTTATAATGAGT 59.591 41.667 0.00 0.00 0.00 3.41
2994 3386 3.599285 GACGATTGGGTGGCGGACA 62.599 63.158 0.00 0.00 0.00 4.02
2995 3387 2.818274 GACGATTGGGTGGCGGAC 60.818 66.667 0.00 0.00 0.00 4.79
3244 3659 2.364842 AGAGGCGCCAGATCCTGT 60.365 61.111 31.54 4.27 31.71 4.00
3296 3711 2.687200 ATGCTGCCACCTCCGGTA 60.687 61.111 0.00 0.00 32.11 4.02
3312 3727 2.021068 CTCGGTGATGGTGAGGCGAT 62.021 60.000 0.00 0.00 0.00 4.58
3338 3753 0.033796 CACACCTCCATGGCTTCCAT 60.034 55.000 6.96 0.00 46.37 3.41
3394 3809 3.391296 ACCTCCTTTGCTTGTAGAACTGA 59.609 43.478 0.00 0.00 0.00 3.41
3429 3844 2.781158 GCTCGCTCTGTCCTCCTCC 61.781 68.421 0.00 0.00 0.00 4.30
3462 3877 4.445545 GCTTCCGCGAACGCTTGG 62.446 66.667 8.23 11.44 39.32 3.61
3514 3929 1.702957 TCTTCAAAGTCCCAACCCGAT 59.297 47.619 0.00 0.00 0.00 4.18
3550 3965 0.172578 CCGACGTCTGAATGTAGGCA 59.827 55.000 14.70 0.00 31.52 4.75
3706 4127 1.031235 CCACATCAAACAGCACACCA 58.969 50.000 0.00 0.00 0.00 4.17
3730 4151 1.250154 CGGTGGCACATTGGATTGGT 61.250 55.000 20.82 0.00 44.52 3.67
3964 4391 5.006896 TGGTAAGAGGAACCACTAAGAGA 57.993 43.478 0.00 0.00 42.10 3.10
3974 4401 7.981102 AAACTGATTAAGTGGTAAGAGGAAC 57.019 36.000 0.00 0.00 39.81 3.62
3975 4402 8.215050 TCAAAACTGATTAAGTGGTAAGAGGAA 58.785 33.333 0.00 0.00 39.81 3.36
3976 4403 7.741785 TCAAAACTGATTAAGTGGTAAGAGGA 58.258 34.615 0.00 0.00 39.81 3.71
3977 4404 7.119846 CCTCAAAACTGATTAAGTGGTAAGAGG 59.880 40.741 0.00 0.00 39.81 3.69
3978 4405 7.119846 CCCTCAAAACTGATTAAGTGGTAAGAG 59.880 40.741 0.00 0.00 39.81 2.85
3979 4406 6.940298 CCCTCAAAACTGATTAAGTGGTAAGA 59.060 38.462 0.00 0.00 39.81 2.10
3980 4407 6.715264 ACCCTCAAAACTGATTAAGTGGTAAG 59.285 38.462 0.00 0.00 39.81 2.34
3981 4408 6.607019 ACCCTCAAAACTGATTAAGTGGTAA 58.393 36.000 0.00 0.00 39.81 2.85
3982 4409 6.195600 ACCCTCAAAACTGATTAAGTGGTA 57.804 37.500 0.00 0.00 39.81 3.25
3983 4410 5.061721 ACCCTCAAAACTGATTAAGTGGT 57.938 39.130 0.00 0.00 39.81 4.16
3995 4422 7.708998 TGTTTACTAATGTCAACCCTCAAAAC 58.291 34.615 0.00 0.00 31.32 2.43
3996 4423 7.883391 TGTTTACTAATGTCAACCCTCAAAA 57.117 32.000 0.00 0.00 31.32 2.44
3998 4425 6.072175 GCATGTTTACTAATGTCAACCCTCAA 60.072 38.462 0.00 0.00 31.32 3.02
4007 4434 5.505173 AGCCATGCATGTTTACTAATGTC 57.495 39.130 24.58 3.70 0.00 3.06
4019 4446 7.310664 CCTAATTATGTTCTTAGCCATGCATG 58.689 38.462 20.19 20.19 0.00 4.06
4048 4475 4.278170 TGCAAGCATACTGTATTTATGGGC 59.722 41.667 0.00 0.00 0.00 5.36
4084 4511 4.371786 TCGAGTCATAGTGCCATTGAATC 58.628 43.478 0.00 0.00 32.67 2.52
4115 4542 2.169352 CCATCATGAGGACCTTCTTCGT 59.831 50.000 9.37 0.00 0.00 3.85
4116 4543 2.831333 CCATCATGAGGACCTTCTTCG 58.169 52.381 9.37 0.00 0.00 3.79
4118 4545 1.918262 TGCCATCATGAGGACCTTCTT 59.082 47.619 9.37 0.00 0.00 2.52
4143 4570 1.632589 AAAAGGTTGATCTGTGGGGC 58.367 50.000 0.00 0.00 0.00 5.80
4156 4583 4.281657 AGCACTTTTCTCTCCAAAAAGGT 58.718 39.130 11.68 0.00 44.36 3.50
4163 4590 3.845781 AGTTGAGCACTTTTCTCTCCA 57.154 42.857 0.00 0.00 27.32 3.86


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

AutoCloner maintained by Alex Coulton.