Multiple sequence alignment - TraesCS4A01G358900

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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 TraesCS4A01G358900 chr4A 100.000 3183 0 0 1 3183 631954987 631951805 0.000000e+00 5879.0
1 TraesCS4A01G358900 chr4A 91.803 122 10 0 1822 1943 631942194 631942073 1.520000e-38 171.0
2 TraesCS4A01G358900 chr4A 82.031 128 9 8 1949 2075 631940491 631940377 2.610000e-16 97.1
3 TraesCS4A01G358900 chr5B 87.701 1366 87 40 1152 2477 678491417 678490093 0.000000e+00 1517.0
4 TraesCS4A01G358900 chr5B 91.143 621 42 8 2474 3090 678490046 678489435 0.000000e+00 830.0
5 TraesCS4A01G358900 chr5B 85.237 718 81 15 2476 3181 678489219 678488515 0.000000e+00 715.0
6 TraesCS4A01G358900 chr5B 83.162 582 84 7 143 714 678492711 678492134 1.310000e-143 520.0
7 TraesCS4A01G358900 chr5B 80.826 678 85 26 1403 2075 678440373 678439736 1.030000e-134 490.0
8 TraesCS4A01G358900 chr5B 82.418 364 38 12 2091 2440 678439684 678439333 8.630000e-76 294.0
9 TraesCS4A01G358900 chr5B 82.540 252 31 9 2081 2330 678340191 678339951 3.220000e-50 209.0
10 TraesCS4A01G358900 chr5B 81.509 265 39 6 1811 2075 678340487 678340233 3.220000e-50 209.0
11 TraesCS4A01G358900 chr5B 83.784 148 17 4 713 859 678492018 678491877 1.990000e-27 134.0
12 TraesCS4A01G358900 chr5B 94.595 37 2 0 776 812 339024743 339024707 1.230000e-04 58.4
13 TraesCS4A01G358900 chr5D 84.411 1578 83 51 858 2376 537752010 537750537 0.000000e+00 1400.0
14 TraesCS4A01G358900 chr5D 86.073 876 94 16 1 859 537752967 537752103 0.000000e+00 917.0
15 TraesCS4A01G358900 chr5D 81.435 641 60 29 1441 2075 537738330 537737743 1.340000e-128 470.0
16 TraesCS4A01G358900 chr5D 79.420 345 55 13 2474 2814 113751238 113750906 2.470000e-56 230.0
17 TraesCS4A01G358900 chr5D 83.122 237 34 6 435 670 322989772 322989541 8.950000e-51 211.0
18 TraesCS4A01G358900 chr5D 85.354 198 18 7 2091 2285 537737691 537737502 9.010000e-46 195.0
19 TraesCS4A01G358900 chr5D 92.500 40 3 0 773 812 463288574 463288613 1.230000e-04 58.4
20 TraesCS4A01G358900 chr2B 84.474 380 49 9 2476 2852 481052316 481051944 1.800000e-97 366.0
21 TraesCS4A01G358900 chr2B 84.169 379 49 7 2476 2852 764068507 764068876 1.090000e-94 357.0
22 TraesCS4A01G358900 chr2D 83.947 380 53 7 2476 2852 405419690 405419316 1.090000e-94 357.0
23 TraesCS4A01G358900 chr2D 81.008 258 38 9 423 674 609761079 609760827 9.010000e-46 195.0
24 TraesCS4A01G358900 chr2D 94.444 36 2 0 2405 2440 557209859 557209824 4.440000e-04 56.5
25 TraesCS4A01G358900 chr7D 82.086 374 50 14 2486 2849 160489971 160489605 1.430000e-78 303.0
26 TraesCS4A01G358900 chr7D 79.839 248 44 4 426 673 416148722 416148481 3.260000e-40 176.0
27 TraesCS4A01G358900 chr5A 82.875 327 43 8 2490 2814 76964335 76964650 6.720000e-72 281.0
28 TraesCS4A01G358900 chr5A 94.595 37 2 0 776 812 338578115 338578079 1.230000e-04 58.4
29 TraesCS4A01G358900 chr5A 100.000 29 0 0 2412 2440 487798633 487798661 2.000000e-03 54.7
30 TraesCS4A01G358900 chr7B 79.688 384 57 14 2476 2849 121502282 121501910 1.130000e-64 257.0
31 TraesCS4A01G358900 chr6B 82.591 247 36 6 426 670 111124277 111124518 8.950000e-51 211.0
32 TraesCS4A01G358900 chr6D 81.545 233 39 4 436 667 27788550 27788779 4.190000e-44 189.0
33 TraesCS4A01G358900 chr2A 81.172 239 35 8 435 669 388486028 388485796 1.950000e-42 183.0
34 TraesCS4A01G358900 chr1A 80.833 240 39 6 432 669 412591213 412590979 7.010000e-42 182.0
35 TraesCS4A01G358900 chr1A 92.500 40 3 0 773 812 93897075 93897036 1.230000e-04 58.4
36 TraesCS4A01G358900 chr7A 95.000 40 2 0 777 816 21347843 21347882 2.650000e-06 63.9
37 TraesCS4A01G358900 chr3D 92.500 40 3 0 773 812 143143713 143143752 1.230000e-04 58.4
38 TraesCS4A01G358900 chr3D 94.595 37 2 0 776 812 251316129 251316093 1.230000e-04 58.4


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 TraesCS4A01G358900 chr4A 631951805 631954987 3182 True 5879.0 5879 100.0000 1 3183 1 chr4A.!!$R1 3182
1 TraesCS4A01G358900 chr5B 678488515 678492711 4196 True 743.2 1517 86.2054 143 3181 5 chr5B.!!$R4 3038
2 TraesCS4A01G358900 chr5B 678439333 678440373 1040 True 392.0 490 81.6220 1403 2440 2 chr5B.!!$R3 1037
3 TraesCS4A01G358900 chr5B 678339951 678340487 536 True 209.0 209 82.0245 1811 2330 2 chr5B.!!$R2 519
4 TraesCS4A01G358900 chr5D 537750537 537752967 2430 True 1158.5 1400 85.2420 1 2376 2 chr5D.!!$R4 2375
5 TraesCS4A01G358900 chr5D 537737502 537738330 828 True 332.5 470 83.3945 1441 2285 2 chr5D.!!$R3 844

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
738 874 0.106708 TGGAGTCACACCACAGCTTC 59.893 55.0 0.0 0.0 32.03 3.86 F
1798 2155 0.030101 ATGTTTGGCCGTTTGTGTCG 59.970 50.0 0.0 0.0 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2089 2503 1.062587 CGCTTTATCTCCAAGTTGGCG 59.937 52.381 17.68 11.61 37.47 5.69 R
3031 4358 0.178970 AGGGTATATGGTCCGTCGCT 60.179 55.000 0.00 0.00 0.00 4.93 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
78 79 3.129988 CCCAAAGATTTCAGTGGATGCTC 59.870 47.826 0.00 0.00 32.54 4.26
91 92 6.100279 TCAGTGGATGCTCTGTAATCCTTAAT 59.900 38.462 14.78 0.00 42.51 1.40
118 121 4.718858 TTTTAATGACACTTCACGACGG 57.281 40.909 0.00 0.00 33.38 4.79
119 122 1.705256 TAATGACACTTCACGACGGC 58.295 50.000 0.00 0.00 33.38 5.68
141 144 2.438614 CTCCTGCTCCGAGACCGA 60.439 66.667 0.00 0.00 38.22 4.69
168 171 1.065854 GCGGCAAGGGATATGAGCTAT 60.066 52.381 0.00 0.00 0.00 2.97
169 172 2.616510 GCGGCAAGGGATATGAGCTATT 60.617 50.000 0.00 0.00 0.00 1.73
197 200 4.713553 TGGCGATGATCTTTTTATAGCCA 58.286 39.130 11.25 11.25 45.92 4.75
214 217 2.699938 ATGGGCGGAGGGGGAAAT 60.700 61.111 0.00 0.00 0.00 2.17
231 235 2.198827 AATGAGCGGGAAATGTGACA 57.801 45.000 0.00 0.00 0.00 3.58
258 263 1.252215 CCATGGGCAGTTGACATGCA 61.252 55.000 2.85 0.00 45.68 3.96
313 318 3.640000 CGCGCGGGATCACATTCC 61.640 66.667 24.84 0.00 34.83 3.01
381 386 3.265791 GGCATCTAAATATGGAGGCTCG 58.734 50.000 8.69 0.00 42.61 5.03
403 408 2.239402 TGTGCTGGATTTGGAGCATCTA 59.761 45.455 0.00 0.00 46.51 1.98
404 409 3.282021 GTGCTGGATTTGGAGCATCTAA 58.718 45.455 0.00 0.00 46.51 2.10
431 445 4.408921 TGATCCGAAACCATATGAAGACCT 59.591 41.667 3.65 0.00 0.00 3.85
433 447 5.943349 TCCGAAACCATATGAAGACCTTA 57.057 39.130 3.65 0.00 0.00 2.69
442 456 8.877864 ACCATATGAAGACCTTATTTGTTTGA 57.122 30.769 3.65 0.00 0.00 2.69
477 491 9.593134 TTCTACTTTTGCAGCTTTTTCATTTTA 57.407 25.926 0.00 0.00 0.00 1.52
485 499 8.892887 TGCAGCTTTTTCATTTTAACAAAAAG 57.107 26.923 10.42 10.42 44.57 2.27
490 504 7.219917 GCTTTTTCATTTTAACAAAAAGGCCAC 59.780 33.333 5.01 0.00 43.09 5.01
498 512 2.905075 ACAAAAAGGCCACAAAAGCTC 58.095 42.857 5.01 0.00 0.00 4.09
499 513 2.501316 ACAAAAAGGCCACAAAAGCTCT 59.499 40.909 5.01 0.00 0.00 4.09
519 533 6.726299 AGCTCTTAAATAGGGGCTTTTTCTTT 59.274 34.615 0.00 0.00 32.36 2.52
525 539 1.694150 AGGGGCTTTTTCTTTGGCTTC 59.306 47.619 0.00 0.00 0.00 3.86
528 542 3.323691 GGGGCTTTTTCTTTGGCTTCTAA 59.676 43.478 0.00 0.00 0.00 2.10
577 591 9.249053 TGATGGTATAAGCCAAAATCTAAAACA 57.751 29.630 0.00 0.00 42.48 2.83
647 665 6.096846 AGTGAAAAATGTACCAAAGCAGAAGT 59.903 34.615 0.00 0.00 0.00 3.01
653 671 7.582667 AATGTACCAAAGCAGAAGTAAAAGT 57.417 32.000 0.00 0.00 0.00 2.66
661 679 6.715347 AAGCAGAAGTAAAAGTCCAAACAT 57.285 33.333 0.00 0.00 0.00 2.71
702 838 5.112686 GCTAGAGTGATCTTTTCGGTCAAT 58.887 41.667 0.00 0.00 0.00 2.57
734 870 4.876107 GGTTATTATGGAGTCACACCACAG 59.124 45.833 0.00 0.00 40.36 3.66
738 874 0.106708 TGGAGTCACACCACAGCTTC 59.893 55.000 0.00 0.00 32.03 3.86
739 875 0.603975 GGAGTCACACCACAGCTTCC 60.604 60.000 0.00 0.00 0.00 3.46
740 876 0.603975 GAGTCACACCACAGCTTCCC 60.604 60.000 0.00 0.00 0.00 3.97
741 877 1.056700 AGTCACACCACAGCTTCCCT 61.057 55.000 0.00 0.00 0.00 4.20
742 878 0.179018 GTCACACCACAGCTTCCCTT 60.179 55.000 0.00 0.00 0.00 3.95
743 879 0.108585 TCACACCACAGCTTCCCTTC 59.891 55.000 0.00 0.00 0.00 3.46
744 880 0.179020 CACACCACAGCTTCCCTTCA 60.179 55.000 0.00 0.00 0.00 3.02
753 889 2.170187 CAGCTTCCCTTCACTAGAGCAT 59.830 50.000 0.00 0.00 0.00 3.79
774 910 6.910995 GCATGAGCTTGCATAATATCTTCTT 58.089 36.000 5.50 0.00 42.31 2.52
778 914 6.763135 TGAGCTTGCATAATATCTTCTTCGTT 59.237 34.615 0.00 0.00 0.00 3.85
785 921 8.735315 TGCATAATATCTTCTTCGTTCCAAAAA 58.265 29.630 0.00 0.00 0.00 1.94
856 992 4.947388 GCCCAGATTATAAGTTTGACACCA 59.053 41.667 0.00 0.00 0.00 4.17
922 1162 4.972733 TTCCCACGGACCGACGGA 62.973 66.667 23.38 20.55 38.39 4.69
986 1226 3.443479 ATCCGCTCCCCTCCTCCT 61.443 66.667 0.00 0.00 0.00 3.69
1042 1290 2.337749 CTGCTCCGGTTATCTCGCGT 62.338 60.000 5.77 0.00 0.00 6.01
1052 1300 1.840181 TATCTCGCGTGTCAGATTGC 58.160 50.000 12.56 0.00 31.57 3.56
1066 1318 4.092675 GTCAGATTGCTTGCTACTCTGTTC 59.907 45.833 14.29 8.86 35.83 3.18
1085 1337 1.620323 TCTGTGCTCTGCTTAGCTCAA 59.380 47.619 5.60 5.82 43.25 3.02
1088 1340 3.525537 TGTGCTCTGCTTAGCTCAATAC 58.474 45.455 5.60 0.48 41.56 1.89
1089 1341 3.196469 TGTGCTCTGCTTAGCTCAATACT 59.804 43.478 5.60 0.00 41.56 2.12
1180 1507 3.778075 TCTGTTAAATCTGGGGATTCCGA 59.222 43.478 0.00 0.00 40.86 4.55
1181 1508 3.877508 CTGTTAAATCTGGGGATTCCGAC 59.122 47.826 0.00 0.00 40.86 4.79
1222 1549 1.139853 CAGGCCATACAAGAGAGGGAC 59.860 57.143 5.01 0.00 0.00 4.46
1228 1555 3.494048 CCATACAAGAGAGGGACAGCATC 60.494 52.174 0.00 0.00 0.00 3.91
1231 1558 2.641815 ACAAGAGAGGGACAGCATCTTT 59.358 45.455 0.00 0.00 0.00 2.52
1233 1560 3.347077 AGAGAGGGACAGCATCTTTTG 57.653 47.619 0.00 0.00 0.00 2.44
1234 1561 2.641815 AGAGAGGGACAGCATCTTTTGT 59.358 45.455 0.00 0.00 0.00 2.83
1235 1562 3.006247 GAGAGGGACAGCATCTTTTGTC 58.994 50.000 0.00 0.00 42.25 3.18
1237 1564 2.746362 GAGGGACAGCATCTTTTGTCTG 59.254 50.000 4.82 0.00 42.52 3.51
1238 1565 1.200948 GGGACAGCATCTTTTGTCTGC 59.799 52.381 4.82 0.00 42.52 4.26
1243 1570 1.802960 AGCATCTTTTGTCTGCTGTCG 59.197 47.619 0.00 0.00 44.21 4.35
1244 1571 1.532868 GCATCTTTTGTCTGCTGTCGT 59.467 47.619 0.00 0.00 33.15 4.34
1245 1572 2.412065 GCATCTTTTGTCTGCTGTCGTC 60.412 50.000 0.00 0.00 33.15 4.20
1246 1573 1.865865 TCTTTTGTCTGCTGTCGTCC 58.134 50.000 0.00 0.00 0.00 4.79
1247 1574 1.412710 TCTTTTGTCTGCTGTCGTCCT 59.587 47.619 0.00 0.00 0.00 3.85
1248 1575 1.528586 CTTTTGTCTGCTGTCGTCCTG 59.471 52.381 0.00 0.00 0.00 3.86
1249 1576 0.880278 TTTGTCTGCTGTCGTCCTGC 60.880 55.000 0.00 1.12 38.42 4.85
1250 1577 2.026945 TTGTCTGCTGTCGTCCTGCA 62.027 55.000 8.52 8.52 44.64 4.41
1251 1578 2.024319 GTCTGCTGTCGTCCTGCAC 61.024 63.158 5.59 0.00 42.34 4.57
1304 1631 9.118236 GTTTGTTTATGTGTGCTAATTTCTCTC 57.882 33.333 0.00 0.00 0.00 3.20
1311 1638 7.834068 TGTGTGCTAATTTCTCTCTACATTC 57.166 36.000 0.00 0.00 0.00 2.67
1314 1641 7.497249 GTGTGCTAATTTCTCTCTACATTCCAT 59.503 37.037 0.00 0.00 0.00 3.41
1321 1648 7.849804 TTTCTCTCTACATTCCATAAGTTGC 57.150 36.000 0.00 0.00 0.00 4.17
1324 1651 5.918608 TCTCTACATTCCATAAGTTGCTCC 58.081 41.667 0.00 0.00 0.00 4.70
1327 1654 3.356290 ACATTCCATAAGTTGCTCCACC 58.644 45.455 0.00 0.00 0.00 4.61
1328 1655 3.010584 ACATTCCATAAGTTGCTCCACCT 59.989 43.478 0.00 0.00 0.00 4.00
1329 1656 4.227300 ACATTCCATAAGTTGCTCCACCTA 59.773 41.667 0.00 0.00 0.00 3.08
1330 1657 3.906720 TCCATAAGTTGCTCCACCTAC 57.093 47.619 0.00 0.00 0.00 3.18
1410 1744 1.404843 AGTCCCGGCTTATCTCTGTC 58.595 55.000 0.00 0.00 0.00 3.51
1412 1746 1.067821 GTCCCGGCTTATCTCTGTCAG 59.932 57.143 0.00 0.00 0.00 3.51
1438 1790 4.044336 TGCAATTGGAGAAACACTGTTG 57.956 40.909 7.72 0.00 0.00 3.33
1443 1795 6.204359 CAATTGGAGAAACACTGTTGAAGAG 58.796 40.000 0.00 0.00 0.00 2.85
1463 1815 6.107901 AGAGAAGACTGACTTGTTTATGCT 57.892 37.500 0.00 0.00 39.13 3.79
1485 1837 1.441016 GCTTCTTTGAACAGCCGCG 60.441 57.895 0.00 0.00 0.00 6.46
1539 1891 0.818445 TAGAAGAGGCCTACCGAGCG 60.818 60.000 4.42 0.00 42.76 5.03
1656 2009 3.860930 AACCGCCCATGCCGAAGTT 62.861 57.895 5.68 0.72 0.00 2.66
1678 2031 6.820656 AGTTACTGCAATAAGAGAGGTGATTG 59.179 38.462 0.00 0.00 33.36 2.67
1759 2116 8.920509 ACATTTTTGGTTACTTAGTGTGTTTC 57.079 30.769 0.00 0.00 0.00 2.78
1775 2132 8.918202 AGTGTGTTTCTATACTTCATTTCCAA 57.082 30.769 0.00 0.00 0.00 3.53
1776 2133 9.520515 AGTGTGTTTCTATACTTCATTTCCAAT 57.479 29.630 0.00 0.00 0.00 3.16
1787 2144 5.702209 ACTTCATTTCCAATCAATGTTTGGC 59.298 36.000 16.17 0.00 42.79 4.52
1791 2148 1.967066 TCCAATCAATGTTTGGCCGTT 59.033 42.857 16.17 0.00 42.79 4.44
1795 2152 2.215907 TCAATGTTTGGCCGTTTGTG 57.784 45.000 0.00 0.00 0.00 3.33
1798 2155 0.030101 ATGTTTGGCCGTTTGTGTCG 59.970 50.000 0.00 0.00 0.00 4.35
1816 2173 0.095762 CGAATAACCGGTGTTTCGCC 59.904 55.000 28.39 8.57 35.87 5.54
2015 2393 7.383687 ACAATCAATCAATCAAGCTGAATGTT 58.616 30.769 0.00 0.00 28.20 2.71
2088 2502 0.835941 ATGGGAAGCTGCTACCAGAG 59.164 55.000 24.22 0.00 41.77 3.35
2096 2510 2.266055 GCTACCAGAGCGCCAACT 59.734 61.111 2.29 0.00 42.62 3.16
2112 2526 3.600388 CCAACTTGGAGATAAAGCGAGT 58.400 45.455 0.92 0.00 40.96 4.18
2183 2597 8.539544 CCAAGGGGAAATTTCAAATGTACTAAT 58.460 33.333 19.49 0.00 35.59 1.73
2425 3688 6.017109 ACAACTAGTCTGTTTCGCATGAAAAT 60.017 34.615 0.00 0.00 45.22 1.82
2442 3705 4.328440 TGAAAATTGTCAAACACGCTTTGG 59.672 37.500 0.00 0.00 0.00 3.28
2452 3715 2.436646 CGCTTTGGGAGTGCGGAT 60.437 61.111 0.00 0.00 45.07 4.18
2453 3716 2.040544 CGCTTTGGGAGTGCGGATT 61.041 57.895 0.00 0.00 45.07 3.01
2477 3740 7.468752 TTTTTATACCCCCATACCAGTGTAT 57.531 36.000 0.00 0.00 38.21 2.29
2478 3741 8.578593 TTTTTATACCCCCATACCAGTGTATA 57.421 34.615 0.00 0.00 35.89 1.47
2479 3742 7.801893 TTTATACCCCCATACCAGTGTATAG 57.198 40.000 0.00 0.00 35.89 1.31
2480 3743 5.626850 ATACCCCCATACCAGTGTATAGA 57.373 43.478 0.00 0.00 35.89 1.98
2481 3744 4.289837 ACCCCCATACCAGTGTATAGAA 57.710 45.455 0.00 0.00 35.89 2.10
2482 3745 4.637600 ACCCCCATACCAGTGTATAGAAA 58.362 43.478 0.00 0.00 35.89 2.52
2540 3855 4.111916 ACATTTGACCTTGAAACTTTGCG 58.888 39.130 0.00 0.00 0.00 4.85
2544 3859 2.552315 TGACCTTGAAACTTTGCGGATC 59.448 45.455 0.00 0.00 0.00 3.36
2545 3860 2.552315 GACCTTGAAACTTTGCGGATCA 59.448 45.455 0.00 0.00 0.00 2.92
2546 3861 2.955660 ACCTTGAAACTTTGCGGATCAA 59.044 40.909 0.00 0.00 0.00 2.57
2547 3862 3.243401 ACCTTGAAACTTTGCGGATCAAC 60.243 43.478 0.00 0.00 33.73 3.18
2561 3876 4.630069 GCGGATCAACTATACACAAGTGTT 59.370 41.667 11.50 2.71 41.83 3.32
2572 3887 9.635520 ACTATACACAAGTGTTACTCATTGTAC 57.364 33.333 11.50 0.00 41.83 2.90
2575 3890 7.246674 ACACAAGTGTTACTCATTGTACAAG 57.753 36.000 14.65 2.86 41.83 3.16
2576 3891 6.260050 ACACAAGTGTTACTCATTGTACAAGG 59.740 38.462 13.96 13.96 41.83 3.61
2577 3892 6.260050 CACAAGTGTTACTCATTGTACAAGGT 59.740 38.462 18.86 15.78 34.26 3.50
2578 3893 6.260050 ACAAGTGTTACTCATTGTACAAGGTG 59.740 38.462 18.86 18.33 34.26 4.00
2581 3896 6.826741 AGTGTTACTCATTGTACAAGGTGTTT 59.173 34.615 26.64 10.77 32.32 2.83
2583 3898 7.012044 GTGTTACTCATTGTACAAGGTGTTTCT 59.988 37.037 26.64 9.88 32.32 2.52
2584 3899 7.011950 TGTTACTCATTGTACAAGGTGTTTCTG 59.988 37.037 26.64 12.79 32.32 3.02
2588 3903 7.041098 ACTCATTGTACAAGGTGTTTCTGATTC 60.041 37.037 19.04 0.00 0.00 2.52
2663 3978 8.883954 TCATTCTTAAAAATTCATGTTGTGCA 57.116 26.923 0.00 0.00 0.00 4.57
2664 3979 9.322773 TCATTCTTAAAAATTCATGTTGTGCAA 57.677 25.926 0.00 0.00 0.00 4.08
2665 3980 9.932699 CATTCTTAAAAATTCATGTTGTGCAAA 57.067 25.926 0.00 0.00 0.00 3.68
2693 4008 6.849588 AATCCAAAAACTTTTCTGCACATC 57.150 33.333 0.00 0.00 0.00 3.06
2695 4010 5.108517 TCCAAAAACTTTTCTGCACATCAC 58.891 37.500 0.00 0.00 0.00 3.06
2719 4034 7.031372 ACAATAATTGTGTGATGTTGATCTGC 58.969 34.615 0.00 0.00 43.48 4.26
2723 4038 3.137533 TGTGTGATGTTGATCTGCGAAA 58.862 40.909 0.00 0.00 0.00 3.46
2727 4042 5.284660 GTGTGATGTTGATCTGCGAAATTTC 59.715 40.000 8.20 8.20 0.00 2.17
2803 4118 4.161333 CGAACTTTGATGCAAGAATGGAC 58.839 43.478 0.00 0.00 0.00 4.02
2805 4120 5.531634 GAACTTTGATGCAAGAATGGACAA 58.468 37.500 0.00 0.00 0.00 3.18
2808 4123 4.459390 TTGATGCAAGAATGGACAATGG 57.541 40.909 0.00 0.00 0.00 3.16
2817 4132 5.732331 AGAATGGACAATGGGGATAAAGA 57.268 39.130 0.00 0.00 0.00 2.52
2830 4146 8.884124 ATGGGGATAAAGATACATTGTTATGG 57.116 34.615 0.00 0.00 36.01 2.74
2831 4147 7.237982 TGGGGATAAAGATACATTGTTATGGG 58.762 38.462 0.00 0.00 36.01 4.00
2849 4165 1.612676 GGGGTACACCACAACTTTCC 58.387 55.000 10.04 0.00 42.91 3.13
2854 4170 1.675552 ACACCACAACTTTCCCTTCG 58.324 50.000 0.00 0.00 0.00 3.79
2855 4171 1.210967 ACACCACAACTTTCCCTTCGA 59.789 47.619 0.00 0.00 0.00 3.71
2859 4175 3.071892 ACCACAACTTTCCCTTCGATACA 59.928 43.478 0.00 0.00 0.00 2.29
2862 4178 5.334879 CCACAACTTTCCCTTCGATACAAAG 60.335 44.000 0.00 0.00 0.00 2.77
2869 4185 4.430007 TCCCTTCGATACAAAGATGAACG 58.570 43.478 0.00 0.00 0.00 3.95
2875 4191 7.148705 CCTTCGATACAAAGATGAACGTGTAAA 60.149 37.037 0.00 0.00 31.44 2.01
2884 4200 9.398170 CAAAGATGAACGTGTAAAAGAAATCAT 57.602 29.630 0.00 0.00 0.00 2.45
2885 4201 9.965824 AAAGATGAACGTGTAAAAGAAATCATT 57.034 25.926 0.00 0.00 0.00 2.57
2926 4251 9.705290 ATATTGTTTTGAATTTACTGTTCACCC 57.295 29.630 0.00 0.00 35.47 4.61
2927 4252 6.531503 TGTTTTGAATTTACTGTTCACCCA 57.468 33.333 0.00 0.00 35.47 4.51
2939 4265 2.846206 TGTTCACCCAAGAGGATATGCT 59.154 45.455 0.00 0.00 39.89 3.79
2941 4267 2.763039 TCACCCAAGAGGATATGCTCA 58.237 47.619 24.20 0.79 39.89 4.26
2959 4285 3.849911 CTCATGAGAGCTAAAACGTCCA 58.150 45.455 18.34 0.00 34.61 4.02
2960 4286 4.245660 CTCATGAGAGCTAAAACGTCCAA 58.754 43.478 18.34 0.00 34.61 3.53
2962 4288 2.762745 TGAGAGCTAAAACGTCCAACC 58.237 47.619 0.00 0.00 0.00 3.77
2963 4289 2.103432 TGAGAGCTAAAACGTCCAACCA 59.897 45.455 0.00 0.00 0.00 3.67
2967 4293 1.265905 GCTAAAACGTCCAACCAGGTG 59.734 52.381 0.00 0.00 39.02 4.00
2974 4300 1.128188 GTCCAACCAGGTGAGGGAGT 61.128 60.000 10.72 0.00 39.02 3.85
2976 4302 1.293498 CAACCAGGTGAGGGAGTCG 59.707 63.158 0.00 0.00 0.00 4.18
2981 4307 1.304547 AGGTGAGGGAGTCGGACAG 60.305 63.158 11.27 0.00 0.00 3.51
2989 4315 4.148825 AGTCGGACAGCGATGGGC 62.149 66.667 11.27 0.00 44.05 5.36
3036 4363 4.971125 GGATAGGCCGGCAGCGAC 62.971 72.222 30.85 10.59 45.17 5.19
3044 4371 4.201679 CGGCAGCGACGGACCATA 62.202 66.667 0.00 0.00 0.00 2.74
3050 4377 0.178970 AGCGACGGACCATATACCCT 60.179 55.000 0.00 0.00 0.00 4.34
3057 4384 1.203149 GGACCATATACCCTCGTCCCT 60.203 57.143 0.00 0.00 37.60 4.20
3064 4391 2.084089 TACCCTCGTCCCTGTGGTGA 62.084 60.000 0.00 0.00 0.00 4.02
3074 4401 1.269958 CCTGTGGTGACTGAGGATGA 58.730 55.000 0.00 0.00 32.78 2.92
3083 4410 0.901124 ACTGAGGATGACCTGCTCAC 59.099 55.000 0.00 0.00 46.22 3.51
3086 4413 2.366469 AGGATGACCTGCTCACGTT 58.634 52.632 0.00 0.00 45.92 3.99
3092 4419 1.639298 GACCTGCTCACGTTGATGGC 61.639 60.000 0.00 0.00 0.00 4.40
3093 4420 1.672030 CCTGCTCACGTTGATGGCA 60.672 57.895 0.00 0.00 0.00 4.92
3109 4436 2.884685 CAGAAGAGCTGCTCCGCG 60.885 66.667 25.09 0.00 37.90 6.46
3126 4453 2.661866 GGTGTCAAGCTCGTGCGT 60.662 61.111 3.48 0.00 45.42 5.24
3128 4455 1.949133 GTGTCAAGCTCGTGCGTCA 60.949 57.895 3.48 0.00 45.42 4.35
3142 4469 1.900351 CGTCATGAAGGCCTCCTCA 59.100 57.895 5.23 7.89 30.89 3.86
3163 4490 5.203928 CAGCATGAAGAGCGAAGTTTGCT 62.204 47.826 17.82 17.82 42.69 3.91
3173 4500 0.317854 GAAGTTTGCTGGCCGACAAC 60.318 55.000 9.61 4.49 0.00 3.32
3176 4503 0.869880 GTTTGCTGGCCGACAACAAC 60.870 55.000 9.61 3.63 35.07 3.32
3181 4508 4.072088 GGCCGACAACAACGAGCG 62.072 66.667 0.00 0.00 0.00 5.03
3182 4509 3.033764 GCCGACAACAACGAGCGA 61.034 61.111 0.00 0.00 0.00 4.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 7.255730 GCTCCACCTCATGCTTAATATGATTTT 60.256 37.037 3.78 0.00 34.33 1.82
67 68 3.834489 AGGATTACAGAGCATCCACTG 57.166 47.619 1.74 0.00 41.51 3.66
91 92 9.961266 CGTCGTGAAGTGTCATTAAAAATTATA 57.039 29.630 0.00 0.00 35.80 0.98
119 122 2.837291 CTCGGAGCAGGAGAGGGG 60.837 72.222 0.00 0.00 33.27 4.79
127 130 0.803768 CACAATCGGTCTCGGAGCAG 60.804 60.000 0.00 0.00 36.95 4.24
141 144 1.932156 TATCCCTTGCCGCCCACAAT 61.932 55.000 0.00 0.00 0.00 2.71
168 171 5.389859 AAAAAGATCATCGCCATGTTCAA 57.610 34.783 5.36 0.00 32.89 2.69
169 172 6.698008 ATAAAAAGATCATCGCCATGTTCA 57.302 33.333 5.36 0.00 32.89 3.18
197 200 2.699938 ATTTCCCCCTCCGCCCAT 60.700 61.111 0.00 0.00 0.00 4.00
214 217 1.974265 TTTGTCACATTTCCCGCTCA 58.026 45.000 0.00 0.00 0.00 4.26
363 368 4.800914 GCACACGAGCCTCCATATTTAGAT 60.801 45.833 0.00 0.00 0.00 1.98
381 386 2.644887 TGCTCCAAATCCAGCACAC 58.355 52.632 0.00 0.00 40.80 3.82
403 408 9.003658 GTCTTCATATGGTTTCGGATCATATTT 57.996 33.333 2.13 0.00 33.36 1.40
404 409 7.607991 GGTCTTCATATGGTTTCGGATCATATT 59.392 37.037 2.13 0.00 33.36 1.28
405 410 7.038017 AGGTCTTCATATGGTTTCGGATCATAT 60.038 37.037 2.13 1.19 35.27 1.78
406 411 6.270000 AGGTCTTCATATGGTTTCGGATCATA 59.730 38.462 2.13 0.00 0.00 2.15
442 456 6.398095 AGCTGCAAAAGTAGAAACAAAAACT 58.602 32.000 1.02 0.00 0.00 2.66
455 469 8.038492 TGTTAAAATGAAAAAGCTGCAAAAGT 57.962 26.923 1.02 0.00 0.00 2.66
477 491 3.055167 AGAGCTTTTGTGGCCTTTTTGTT 60.055 39.130 3.32 0.00 0.00 2.83
485 499 4.142160 CCCTATTTAAGAGCTTTTGTGGCC 60.142 45.833 0.00 0.00 0.00 5.36
490 504 5.921962 AAGCCCCTATTTAAGAGCTTTTG 57.078 39.130 0.00 0.00 39.95 2.44
498 512 5.874810 GCCAAAGAAAAAGCCCCTATTTAAG 59.125 40.000 0.00 0.00 0.00 1.85
499 513 5.546110 AGCCAAAGAAAAAGCCCCTATTTAA 59.454 36.000 0.00 0.00 0.00 1.52
632 650 5.529800 TGGACTTTTACTTCTGCTTTGGTAC 59.470 40.000 0.00 0.00 0.00 3.34
635 653 5.514274 TTGGACTTTTACTTCTGCTTTGG 57.486 39.130 0.00 0.00 0.00 3.28
636 654 6.329496 TGTTTGGACTTTTACTTCTGCTTTG 58.671 36.000 0.00 0.00 0.00 2.77
647 665 4.083565 GGCCCTGTATGTTTGGACTTTTA 58.916 43.478 0.00 0.00 0.00 1.52
653 671 0.693622 TTCGGCCCTGTATGTTTGGA 59.306 50.000 0.00 0.00 0.00 3.53
661 679 2.652095 CGGAACCTTCGGCCCTGTA 61.652 63.158 0.00 0.00 0.00 2.74
675 693 3.428999 CCGAAAAGATCACTCTAGCGGAA 60.429 47.826 0.00 0.00 39.77 4.30
678 696 3.109619 GACCGAAAAGATCACTCTAGCG 58.890 50.000 0.00 0.00 0.00 4.26
707 843 5.722441 TGGTGTGACTCCATAATAACCACTA 59.278 40.000 1.63 0.00 31.69 2.74
710 846 4.287326 TGTGGTGTGACTCCATAATAACCA 59.713 41.667 9.82 0.00 37.30 3.67
727 863 0.109342 AGTGAAGGGAAGCTGTGGTG 59.891 55.000 0.00 0.00 0.00 4.17
734 870 2.169352 TCATGCTCTAGTGAAGGGAAGC 59.831 50.000 0.00 0.00 0.00 3.86
738 874 2.237393 GCTCATGCTCTAGTGAAGGG 57.763 55.000 0.00 0.00 36.03 3.95
753 889 6.283694 ACGAAGAAGATATTATGCAAGCTCA 58.716 36.000 0.00 0.00 0.00 4.26
768 904 6.542370 AGACAAGATTTTTGGAACGAAGAAGA 59.458 34.615 0.00 0.00 0.00 2.87
769 905 6.729187 AGACAAGATTTTTGGAACGAAGAAG 58.271 36.000 0.00 0.00 0.00 2.85
770 906 6.693315 AGACAAGATTTTTGGAACGAAGAA 57.307 33.333 0.00 0.00 0.00 2.52
774 910 7.979444 ATCTAAGACAAGATTTTTGGAACGA 57.021 32.000 0.00 0.00 32.09 3.85
785 921 7.971168 CGTGTCTAGACAAATCTAAGACAAGAT 59.029 37.037 26.74 0.00 41.73 2.40
856 992 2.358369 TCGTCGCTCGTCCAGTCT 60.358 61.111 0.00 0.00 40.80 3.24
996 1236 0.329261 CCTTGGCTTCCTCCATGTGA 59.671 55.000 0.00 0.00 35.77 3.58
997 1237 0.682209 CCCTTGGCTTCCTCCATGTG 60.682 60.000 0.00 0.00 35.77 3.21
998 1238 1.142688 ACCCTTGGCTTCCTCCATGT 61.143 55.000 0.00 0.00 35.77 3.21
1042 1290 3.007290 ACAGAGTAGCAAGCAATCTGACA 59.993 43.478 20.53 0.00 39.80 3.58
1052 1300 2.992543 GAGCACAGAACAGAGTAGCAAG 59.007 50.000 0.00 0.00 0.00 4.01
1066 1318 2.090400 TTGAGCTAAGCAGAGCACAG 57.910 50.000 11.90 0.00 45.43 3.66
1085 1337 5.337330 CGATTAAATCCCGCCTCCTTAGTAT 60.337 44.000 0.00 0.00 0.00 2.12
1088 1340 3.326747 CGATTAAATCCCGCCTCCTTAG 58.673 50.000 0.00 0.00 0.00 2.18
1089 1341 2.549349 GCGATTAAATCCCGCCTCCTTA 60.549 50.000 0.00 0.00 42.77 2.69
1228 1555 1.528586 CAGGACGACAGCAGACAAAAG 59.471 52.381 0.00 0.00 0.00 2.27
1231 1558 1.300931 GCAGGACGACAGCAGACAA 60.301 57.895 0.00 0.00 0.00 3.18
1233 1560 2.024319 GTGCAGGACGACAGCAGAC 61.024 63.158 4.70 0.00 39.21 3.51
1234 1561 2.340078 GTGCAGGACGACAGCAGA 59.660 61.111 4.70 0.00 39.21 4.26
1243 1570 0.108804 TCGGAAAGATCGTGCAGGAC 60.109 55.000 11.97 6.10 0.00 3.85
1244 1571 0.173481 CTCGGAAAGATCGTGCAGGA 59.827 55.000 12.13 12.13 0.00 3.86
1245 1572 0.108615 ACTCGGAAAGATCGTGCAGG 60.109 55.000 0.00 0.00 0.00 4.85
1246 1573 1.656095 GAACTCGGAAAGATCGTGCAG 59.344 52.381 0.00 0.00 0.00 4.41
1247 1574 1.000394 TGAACTCGGAAAGATCGTGCA 60.000 47.619 0.00 0.00 29.59 4.57
1248 1575 1.710013 TGAACTCGGAAAGATCGTGC 58.290 50.000 0.00 0.00 29.59 5.34
1249 1576 3.511699 TCATGAACTCGGAAAGATCGTG 58.488 45.455 0.00 0.00 42.34 4.35
1250 1577 3.429547 CCTCATGAACTCGGAAAGATCGT 60.430 47.826 0.00 0.00 29.59 3.73
1251 1578 3.119291 CCTCATGAACTCGGAAAGATCG 58.881 50.000 0.00 0.00 29.59 3.69
1252 1579 4.392921 TCCTCATGAACTCGGAAAGATC 57.607 45.455 0.00 0.00 0.00 2.75
1260 1587 4.692625 ACAAACAAGATCCTCATGAACTCG 59.307 41.667 0.00 0.00 0.00 4.18
1304 1631 4.576463 GGTGGAGCAACTTATGGAATGTAG 59.424 45.833 0.00 0.00 0.00 2.74
1311 1638 2.505819 AGGTAGGTGGAGCAACTTATGG 59.494 50.000 0.00 0.00 31.86 2.74
1314 1641 3.371965 CCTAGGTAGGTGGAGCAACTTA 58.628 50.000 0.00 0.00 38.69 2.24
1398 1732 3.130164 TGCAGAGACTGACAGAGATAAGC 59.870 47.826 10.08 6.54 32.44 3.09
1401 1735 5.394993 CCAATTGCAGAGACTGACAGAGATA 60.395 44.000 10.08 0.00 32.44 1.98
1410 1744 3.817084 TGTTTCTCCAATTGCAGAGACTG 59.183 43.478 18.07 0.00 38.83 3.51
1412 1746 3.817647 AGTGTTTCTCCAATTGCAGAGAC 59.182 43.478 12.11 12.11 38.83 3.36
1438 1790 6.648725 AGCATAAACAAGTCAGTCTTCTCTTC 59.351 38.462 0.00 0.00 33.63 2.87
1443 1795 6.142958 GCAAAAGCATAAACAAGTCAGTCTTC 59.857 38.462 0.00 0.00 33.63 2.87
1463 1815 2.808244 CGGCTGTTCAAAGAAGCAAAA 58.192 42.857 0.00 0.00 38.73 2.44
1485 1837 2.409948 ACTTGTGCTCCCTATCTTGC 57.590 50.000 0.00 0.00 0.00 4.01
1591 1944 2.254546 TGGCAACTGACCACTACTTG 57.745 50.000 0.00 0.00 37.61 3.16
1656 2009 6.407412 CCTCAATCACCTCTCTTATTGCAGTA 60.407 42.308 0.00 0.00 30.99 2.74
1773 2130 3.059733 CACAAACGGCCAAACATTGATTG 60.060 43.478 2.24 0.00 0.00 2.67
1774 2131 3.129871 CACAAACGGCCAAACATTGATT 58.870 40.909 2.24 0.00 0.00 2.57
1775 2132 2.102252 ACACAAACGGCCAAACATTGAT 59.898 40.909 2.24 0.00 0.00 2.57
1776 2133 1.478510 ACACAAACGGCCAAACATTGA 59.521 42.857 2.24 0.00 0.00 2.57
1787 2144 1.127213 CCGGTTATTCGACACAAACGG 59.873 52.381 13.10 13.10 45.14 4.44
1791 2148 2.529780 ACACCGGTTATTCGACACAA 57.470 45.000 2.97 0.00 0.00 3.33
1795 2152 1.201845 GCGAAACACCGGTTATTCGAC 60.202 52.381 36.90 27.91 38.77 4.20
1798 2155 1.445871 AGGCGAAACACCGGTTATTC 58.554 50.000 2.97 11.84 35.82 1.75
1816 2173 3.325293 TCTTGCAAGCCTAGAGTGAAG 57.675 47.619 21.99 0.00 0.00 3.02
2015 2393 1.746787 CAGCCTCTGCATTGCATTGTA 59.253 47.619 12.53 4.95 38.13 2.41
2088 2502 1.202188 GCTTTATCTCCAAGTTGGCGC 60.202 52.381 17.68 0.00 37.47 6.53
2089 2503 1.062587 CGCTTTATCTCCAAGTTGGCG 59.937 52.381 17.68 11.61 37.47 5.69
2096 2510 3.432186 CCATCCACTCGCTTTATCTCCAA 60.432 47.826 0.00 0.00 0.00 3.53
2112 2526 1.309013 AGGGCTCCATTCCCATCCA 60.309 57.895 0.48 0.00 46.36 3.41
2183 2597 7.817478 ACATCAATGTCGTCTTTATCTACACAA 59.183 33.333 0.00 0.00 35.87 3.33
2219 2633 2.409870 GCATCAAGGGCTTCCGTGG 61.410 63.158 0.00 0.00 39.90 4.94
2337 3585 9.988815 TCCTCAATTAGTATCTCAGAATTAAGC 57.011 33.333 0.00 0.00 0.00 3.09
2360 3622 9.733556 TTTTGTACATGTTCATGTTAGTATCCT 57.266 29.630 20.87 0.00 36.08 3.24
2407 3670 4.975502 TGACAATTTTCATGCGAAACAGAC 59.024 37.500 0.00 0.00 40.84 3.51
2425 3688 1.403679 CTCCCAAAGCGTGTTTGACAA 59.596 47.619 12.37 0.00 0.00 3.18
2453 3716 5.799978 ACACTGGTATGGGGGTATAAAAA 57.200 39.130 0.00 0.00 0.00 1.94
2499 3814 4.370364 TGTTCTCTTGTTTGGAAGCAAC 57.630 40.909 0.00 0.00 0.00 4.17
2500 3815 5.596836 AATGTTCTCTTGTTTGGAAGCAA 57.403 34.783 0.00 0.00 0.00 3.91
2501 3816 5.126869 TCAAATGTTCTCTTGTTTGGAAGCA 59.873 36.000 0.00 0.00 33.55 3.91
2502 3817 5.460091 GTCAAATGTTCTCTTGTTTGGAAGC 59.540 40.000 0.00 0.00 33.55 3.86
2540 3855 8.033038 TGAGTAACACTTGTGTATAGTTGATCC 58.967 37.037 6.84 0.00 0.00 3.36
2544 3859 8.988934 ACAATGAGTAACACTTGTGTATAGTTG 58.011 33.333 6.84 9.79 33.00 3.16
2546 3861 9.635520 GTACAATGAGTAACACTTGTGTATAGT 57.364 33.333 6.84 5.33 34.62 2.12
2547 3862 9.634163 TGTACAATGAGTAACACTTGTGTATAG 57.366 33.333 6.84 0.00 34.62 1.31
2561 3876 6.822442 TCAGAAACACCTTGTACAATGAGTA 58.178 36.000 16.57 0.00 0.00 2.59
2572 3887 9.748708 TTCATAAAAAGAATCAGAAACACCTTG 57.251 29.630 0.00 0.00 0.00 3.61
2575 3890 9.528018 TGTTTCATAAAAAGAATCAGAAACACC 57.472 29.630 12.20 0.00 44.60 4.16
2695 4010 6.195798 CGCAGATCAACATCACACAATTATTG 59.804 38.462 3.07 3.07 0.00 1.90
2727 4042 8.726988 TCCCAAATAAAAGAACATTAGAACTCG 58.273 33.333 0.00 0.00 0.00 4.18
2777 4092 1.946081 TCTTGCATCAAAGTTCGTGCA 59.054 42.857 5.87 5.87 44.97 4.57
2805 4120 7.895429 CCCATAACAATGTATCTTTATCCCCAT 59.105 37.037 0.00 0.00 0.00 4.00
2808 4123 6.663523 CCCCCATAACAATGTATCTTTATCCC 59.336 42.308 0.00 0.00 0.00 3.85
2817 4132 4.479056 TGGTGTACCCCCATAACAATGTAT 59.521 41.667 0.00 0.00 34.29 2.29
2830 4146 1.612676 GGAAAGTTGTGGTGTACCCC 58.387 55.000 0.00 0.00 34.29 4.95
2831 4147 1.144298 AGGGAAAGTTGTGGTGTACCC 59.856 52.381 0.00 0.00 36.67 3.69
2849 4165 4.625742 ACACGTTCATCTTTGTATCGAAGG 59.374 41.667 0.00 0.00 0.00 3.46
2854 4170 9.872757 TTTCTTTTACACGTTCATCTTTGTATC 57.127 29.630 0.00 0.00 0.00 2.24
2859 4175 9.965824 AATGATTTCTTTTACACGTTCATCTTT 57.034 25.926 0.00 0.00 0.00 2.52
2919 4244 3.118261 TGAGCATATCCTCTTGGGTGAAC 60.118 47.826 0.00 0.00 36.25 3.18
2939 4265 3.953712 TGGACGTTTTAGCTCTCATGA 57.046 42.857 0.00 0.00 0.00 3.07
2941 4267 3.244422 TGGTTGGACGTTTTAGCTCTCAT 60.244 43.478 0.00 0.00 0.00 2.90
2958 4284 1.293498 CGACTCCCTCACCTGGTTG 59.707 63.158 0.00 0.00 0.00 3.77
2959 4285 1.913762 CCGACTCCCTCACCTGGTT 60.914 63.158 0.00 0.00 0.00 3.67
2960 4286 2.283966 CCGACTCCCTCACCTGGT 60.284 66.667 0.00 0.00 0.00 4.00
2962 4288 1.599606 CTGTCCGACTCCCTCACCTG 61.600 65.000 0.00 0.00 0.00 4.00
2963 4289 1.304547 CTGTCCGACTCCCTCACCT 60.305 63.158 0.00 0.00 0.00 4.00
2967 4293 2.750637 TCGCTGTCCGACTCCCTC 60.751 66.667 0.00 0.00 41.89 4.30
3010 4336 2.201771 GGCCTATCCCGTCCCTCT 59.798 66.667 0.00 0.00 0.00 3.69
3031 4358 0.178970 AGGGTATATGGTCCGTCGCT 60.179 55.000 0.00 0.00 0.00 4.93
3036 4363 0.886563 GGACGAGGGTATATGGTCCG 59.113 60.000 0.00 0.00 37.96 4.79
3039 4366 1.219724 ACAGGGACGAGGGTATATGGT 59.780 52.381 0.00 0.00 0.00 3.55
3040 4367 1.618837 CACAGGGACGAGGGTATATGG 59.381 57.143 0.00 0.00 0.00 2.74
3044 4371 0.976073 CACCACAGGGACGAGGGTAT 60.976 60.000 0.00 0.00 38.05 2.73
3050 4377 1.152631 TCAGTCACCACAGGGACGA 60.153 57.895 0.00 0.00 39.01 4.20
3057 4384 0.976641 GGTCATCCTCAGTCACCACA 59.023 55.000 0.00 0.00 0.00 4.17
3064 4391 0.901124 GTGAGCAGGTCATCCTCAGT 59.099 55.000 5.40 0.00 43.07 3.41
3074 4401 1.672356 GCCATCAACGTGAGCAGGT 60.672 57.895 0.00 0.00 0.00 4.00
3083 4410 0.725686 CAGCTCTTCTGCCATCAACG 59.274 55.000 0.00 0.00 35.78 4.10
3103 4430 2.811317 GAGCTTGACACCGCGGAG 60.811 66.667 35.90 28.39 0.00 4.63
3109 4436 2.658707 GACGCACGAGCTTGACACC 61.659 63.158 8.31 0.00 39.10 4.16
3119 4446 2.434185 GGCCTTCATGACGCACGA 60.434 61.111 14.28 0.00 0.00 4.35
3126 4453 0.911045 TGCTGAGGAGGCCTTCATGA 60.911 55.000 15.31 0.00 31.76 3.07
3128 4455 0.183014 CATGCTGAGGAGGCCTTCAT 59.817 55.000 15.31 0.78 31.76 2.57
3142 4469 1.198637 GCAAACTTCGCTCTTCATGCT 59.801 47.619 0.00 0.00 0.00 3.79
3158 4485 1.435515 GTTGTTGTCGGCCAGCAAA 59.564 52.632 2.24 0.00 44.46 3.68
3163 4490 2.970324 GCTCGTTGTTGTCGGCCA 60.970 61.111 2.24 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.