Multiple sequence alignment - TraesCS3A01G470600

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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 TraesCS3A01G470600 chr3A 100.000 4047 0 0 1 4047 702489617 702493663 0.000000e+00 7474.0
1 TraesCS3A01G470600 chr3A 91.358 81 7 0 1064 1144 702490763 702490843 1.190000e-20 111.0
2 TraesCS3A01G470600 chr3B 92.503 3428 183 35 12 3430 756587371 756590733 0.000000e+00 4839.0
3 TraesCS3A01G470600 chr3B 92.956 2101 122 9 1336 3430 756602037 756604117 0.000000e+00 3037.0
4 TraesCS3A01G470600 chr3B 91.780 1326 61 25 12 1334 756600509 756601789 0.000000e+00 1801.0
5 TraesCS3A01G470600 chr3B 85.771 1258 171 6 1848 3101 756823929 756822676 0.000000e+00 1325.0
6 TraesCS3A01G470600 chr3B 85.692 1258 171 7 1848 3101 756708797 756707545 0.000000e+00 1317.0
7 TraesCS3A01G470600 chr3B 84.948 764 110 4 2341 3101 756743826 756743065 0.000000e+00 769.0
8 TraesCS3A01G470600 chr3B 93.827 81 5 0 1147 1227 756588380 756588460 5.490000e-24 122.0
9 TraesCS3A01G470600 chr3B 93.827 81 5 0 1147 1227 756601518 756601598 5.490000e-24 122.0
10 TraesCS3A01G470600 chr3B 89.157 83 8 1 1064 1145 756588463 756588545 7.160000e-18 102.0
11 TraesCS3A01G470600 chr3B 89.157 83 8 1 1064 1145 756601601 756601683 7.160000e-18 102.0
12 TraesCS3A01G470600 chr3B 83.505 97 14 2 997 1092 756686831 756686736 5.570000e-14 89.8
13 TraesCS3A01G470600 chr3B 83.784 74 10 2 3921 3994 89125541 89125612 7.260000e-08 69.4
14 TraesCS3A01G470600 chr3D 95.282 2077 85 10 1164 3232 568088887 568086816 0.000000e+00 3280.0
15 TraesCS3A01G470600 chr3D 92.893 999 46 9 163 1155 568090102 568089123 0.000000e+00 1428.0
16 TraesCS3A01G470600 chr3D 86.957 1265 156 7 1848 3108 570146356 570145097 0.000000e+00 1413.0
17 TraesCS3A01G470600 chr3D 87.469 407 38 2 3459 3852 568086662 568086256 1.330000e-124 457.0
18 TraesCS3A01G470600 chr3D 95.868 121 5 0 3223 3343 568086777 568086657 3.190000e-46 196.0
19 TraesCS3A01G470600 chr3D 84.694 98 14 1 982 1078 570146613 570146516 3.330000e-16 97.1
20 TraesCS3A01G470600 chrUn 94.888 1956 88 8 1355 3304 264011142 264009193 0.000000e+00 3048.0
21 TraesCS3A01G470600 chrUn 94.888 1956 88 8 1355 3304 294197616 294195667 0.000000e+00 3048.0
22 TraesCS3A01G470600 chrUn 90.427 1170 61 19 12 1178 264013857 264012736 0.000000e+00 1493.0
23 TraesCS3A01G470600 chrUn 93.171 205 8 1 1166 1370 264012712 264012514 3.060000e-76 296.0
24 TraesCS3A01G470600 chrUn 92.593 81 6 0 1147 1227 264012850 264012770 2.560000e-22 117.0
25 TraesCS3A01G470600 chr1B 90.427 1170 61 19 12 1178 333605713 333604592 0.000000e+00 1493.0
26 TraesCS3A01G470600 chr1B 93.171 205 8 1 1166 1370 333604568 333604370 3.060000e-76 296.0
27 TraesCS3A01G470600 chr1B 92.593 81 6 0 1147 1227 333604706 333604626 2.560000e-22 117.0
28 TraesCS3A01G470600 chr1B 83.673 98 16 0 3866 3963 345303691 345303788 4.310000e-15 93.5
29 TraesCS3A01G470600 chr1B 88.333 60 7 0 3921 3980 592305111 592305170 5.610000e-09 73.1
30 TraesCS3A01G470600 chr1A 82.271 1286 195 17 1799 3076 14109447 14108187 0.000000e+00 1081.0
31 TraesCS3A01G470600 chr4A 87.916 571 49 9 3297 3852 692827140 692827705 0.000000e+00 654.0
32 TraesCS3A01G470600 chr4A 87.500 64 7 1 3917 3980 730339792 730339730 5.610000e-09 73.1
33 TraesCS3A01G470600 chr2B 87.916 571 49 9 3297 3852 360280999 360281564 0.000000e+00 654.0
34 TraesCS3A01G470600 chr6B 80.275 218 28 9 3616 3820 345224301 345224516 2.520000e-32 150.0
35 TraesCS3A01G470600 chr6B 89.855 69 7 0 3895 3963 613596782 613596714 5.570000e-14 89.8
36 TraesCS3A01G470600 chr6D 80.090 221 26 9 3616 3820 221849949 221850167 9.060000e-32 148.0
37 TraesCS3A01G470600 chr5D 83.673 98 14 2 3865 3961 435791054 435790958 1.550000e-14 91.6
38 TraesCS3A01G470600 chr5D 93.023 43 3 0 3921 3963 474205393 474205351 3.380000e-06 63.9
39 TraesCS3A01G470600 chr5A 76.536 179 24 8 3620 3782 2849747 2849923 9.320000e-12 82.4
40 TraesCS3A01G470600 chr5B 88.525 61 7 0 3923 3983 341533791 341533731 1.560000e-09 75.0
41 TraesCS3A01G470600 chr7B 86.154 65 8 1 3917 3981 642277943 642277880 7.260000e-08 69.4


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 TraesCS3A01G470600 chr3A 702489617 702493663 4046 False 3792.500000 7474 95.679000 1 4047 2 chr3A.!!$F1 4046
1 TraesCS3A01G470600 chr3B 756587371 756590733 3362 False 1687.666667 4839 91.829000 12 3430 3 chr3B.!!$F2 3418
2 TraesCS3A01G470600 chr3B 756822676 756823929 1253 True 1325.000000 1325 85.771000 1848 3101 1 chr3B.!!$R4 1253
3 TraesCS3A01G470600 chr3B 756707545 756708797 1252 True 1317.000000 1317 85.692000 1848 3101 1 chr3B.!!$R2 1253
4 TraesCS3A01G470600 chr3B 756600509 756604117 3608 False 1265.500000 3037 91.930000 12 3430 4 chr3B.!!$F3 3418
5 TraesCS3A01G470600 chr3B 756743065 756743826 761 True 769.000000 769 84.948000 2341 3101 1 chr3B.!!$R3 760
6 TraesCS3A01G470600 chr3D 568086256 568090102 3846 True 1340.250000 3280 92.878000 163 3852 4 chr3D.!!$R1 3689
7 TraesCS3A01G470600 chr3D 570145097 570146613 1516 True 755.050000 1413 85.825500 982 3108 2 chr3D.!!$R2 2126
8 TraesCS3A01G470600 chrUn 294195667 294197616 1949 True 3048.000000 3048 94.888000 1355 3304 1 chrUn.!!$R1 1949
9 TraesCS3A01G470600 chrUn 264009193 264013857 4664 True 1238.500000 3048 92.769750 12 3304 4 chrUn.!!$R2 3292
10 TraesCS3A01G470600 chr1B 333604370 333605713 1343 True 635.333333 1493 92.063667 12 1370 3 chr1B.!!$R1 1358
11 TraesCS3A01G470600 chr1A 14108187 14109447 1260 True 1081.000000 1081 82.271000 1799 3076 1 chr1A.!!$R1 1277
12 TraesCS3A01G470600 chr4A 692827140 692827705 565 False 654.000000 654 87.916000 3297 3852 1 chr4A.!!$F1 555
13 TraesCS3A01G470600 chr2B 360280999 360281564 565 False 654.000000 654 87.916000 3297 3852 1 chr2B.!!$F1 555

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
884 893 0.036765 TGGTCCCAGGAAAACGATCG 60.037 55.0 14.88 14.88 0.00 3.69 F
1515 3431 0.804989 GAGAATTTGGACACTGCGGG 59.195 55.0 0.00 0.00 0.00 6.13 F
2178 4102 0.828022 AGAACCCTGTTGTCGTGACA 59.172 50.0 0.00 0.00 39.98 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2123 4047 0.033504 GACCAAGCTCTTCACGACCA 59.966 55.0 0.00 0.0 0.0 4.02 R
2950 4881 0.035725 CCAGACTCCAATGCAGCTCA 60.036 55.0 0.00 0.0 0.0 4.26 R
3166 5111 0.808125 TTTGTGCACGCCATACATCC 59.192 50.0 13.13 0.0 0.0 3.51 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
49 50 2.719739 ACGACCTCAAATCCTCGACTA 58.280 47.619 0.00 0.00 0.00 2.59
92 93 8.528643 AGTAATTAATAAGTTTTGCAGGGTTCC 58.471 33.333 0.00 0.00 0.00 3.62
140 141 2.939103 AGGCGTCTGAATGATTTGCTAC 59.061 45.455 0.00 0.00 0.00 3.58
148 149 5.471797 TCTGAATGATTTGCTACGTTCCAAA 59.528 36.000 13.38 13.38 35.64 3.28
231 232 8.449397 CAGAGTCAGTTTGAATTATTTCTCAGG 58.551 37.037 0.00 0.00 32.78 3.86
278 279 5.699915 CACTTGAGAGAATTCAGCTCTTTCA 59.300 40.000 21.53 5.50 42.50 2.69
398 401 6.571150 GCTCTAAAAATTGTGGTCTTCAGCAT 60.571 38.462 0.00 0.00 31.14 3.79
428 431 2.655090 TTCAAAGCAGACACCCATGA 57.345 45.000 0.00 0.00 0.00 3.07
441 444 0.677731 CCCATGAATGTGCCTGTCGT 60.678 55.000 0.00 0.00 0.00 4.34
442 445 1.406751 CCCATGAATGTGCCTGTCGTA 60.407 52.381 0.00 0.00 0.00 3.43
470 473 3.062774 GTGCTCGAGTTTGCCTCTATTTC 59.937 47.826 15.13 0.00 38.11 2.17
528 537 9.809096 CATATGAAGTATACATGGATGTCTACC 57.191 37.037 0.00 0.00 39.67 3.18
576 585 1.779569 AAGCCGAGTATTATTCCGCG 58.220 50.000 0.00 0.00 0.00 6.46
584 593 2.036862 AGTATTATTCCGCGTCTTCCCC 59.963 50.000 4.92 0.00 0.00 4.81
616 625 9.109393 CGATGAGGATTAGATAAAAGTTTTCCA 57.891 33.333 3.60 0.00 0.00 3.53
654 663 4.034975 GCATGACTTGTTATCTCTCCTTGC 59.965 45.833 0.00 0.00 0.00 4.01
657 666 5.620206 TGACTTGTTATCTCTCCTTGCAAA 58.380 37.500 0.00 0.00 0.00 3.68
676 685 3.788434 AAGTGCAATTGTACGTCTTCG 57.212 42.857 19.13 0.00 43.34 3.79
863 872 2.045438 TACCAGCGGCCATTGTGG 60.045 61.111 2.24 5.79 41.55 4.17
882 891 1.064685 GGATGGTCCCAGGAAAACGAT 60.065 52.381 0.00 0.00 0.00 3.73
883 892 2.289565 GATGGTCCCAGGAAAACGATC 58.710 52.381 0.00 0.00 0.00 3.69
884 893 0.036765 TGGTCCCAGGAAAACGATCG 60.037 55.000 14.88 14.88 0.00 3.69
886 895 1.641577 GTCCCAGGAAAACGATCGAG 58.358 55.000 24.34 0.00 0.00 4.04
887 896 1.203994 GTCCCAGGAAAACGATCGAGA 59.796 52.381 24.34 1.21 0.00 4.04
890 899 3.895656 TCCCAGGAAAACGATCGAGATAT 59.104 43.478 24.34 2.61 0.00 1.63
891 900 4.344102 TCCCAGGAAAACGATCGAGATATT 59.656 41.667 24.34 8.59 0.00 1.28
893 902 5.050091 CCCAGGAAAACGATCGAGATATTTG 60.050 44.000 24.34 11.00 0.00 2.32
894 903 5.753438 CCAGGAAAACGATCGAGATATTTGA 59.247 40.000 24.34 0.00 0.00 2.69
895 904 6.074088 CCAGGAAAACGATCGAGATATTTGAG 60.074 42.308 24.34 2.24 0.00 3.02
896 905 5.986135 AGGAAAACGATCGAGATATTTGAGG 59.014 40.000 24.34 0.00 0.00 3.86
897 906 5.753921 GGAAAACGATCGAGATATTTGAGGT 59.246 40.000 24.34 0.00 0.00 3.85
898 907 6.074249 GGAAAACGATCGAGATATTTGAGGTC 60.074 42.308 24.34 5.68 0.00 3.85
899 908 5.776173 AACGATCGAGATATTTGAGGTCT 57.224 39.130 24.34 0.00 0.00 3.85
900 909 6.879276 AACGATCGAGATATTTGAGGTCTA 57.121 37.500 24.34 0.00 0.00 2.59
913 922 4.392921 TGAGGTCTAGCTACTTCATTGC 57.607 45.455 0.00 0.00 31.26 3.56
929 938 7.394816 ACTTCATTGCTAGTATTTACACCACT 58.605 34.615 0.00 0.00 0.00 4.00
948 957 4.074970 CACTAACCTGTTTCCTGCAGATT 58.925 43.478 17.39 0.00 36.12 2.40
949 958 4.154918 CACTAACCTGTTTCCTGCAGATTC 59.845 45.833 17.39 3.29 36.12 2.52
950 959 2.957402 ACCTGTTTCCTGCAGATTCA 57.043 45.000 17.39 7.88 36.12 2.57
951 960 2.787994 ACCTGTTTCCTGCAGATTCAG 58.212 47.619 17.39 16.32 36.12 3.02
1289 1571 2.937149 GTTAGAGAAGAAATCGGGGTGC 59.063 50.000 0.00 0.00 0.00 5.01
1345 1873 5.457140 CCTTTTGTAGCTCGTTGCATTTAA 58.543 37.500 0.00 0.00 45.94 1.52
1463 3378 7.844009 TCCCTTTCTTGATAGTATTAACGTGT 58.156 34.615 0.00 0.00 0.00 4.49
1515 3431 0.804989 GAGAATTTGGACACTGCGGG 59.195 55.000 0.00 0.00 0.00 6.13
1532 3448 3.380004 TGCGGGTAAAAAGAATATGCAGG 59.620 43.478 0.00 0.00 0.00 4.85
1546 3462 6.261826 AGAATATGCAGGCTAAAAGTGATGTC 59.738 38.462 0.00 0.00 0.00 3.06
1748 3666 2.336554 ATGTTGTCGCTTGTTGATGC 57.663 45.000 0.00 0.00 0.00 3.91
1775 3693 2.029470 GCAGCCTGCTCTATGGTACTAG 60.029 54.545 10.04 0.00 40.96 2.57
1836 3759 8.761575 ATTAACACACCATTGAGCAAAAATAG 57.238 30.769 0.00 0.00 0.00 1.73
1837 3760 5.789643 ACACACCATTGAGCAAAAATAGT 57.210 34.783 0.00 0.00 0.00 2.12
1838 3761 6.892658 ACACACCATTGAGCAAAAATAGTA 57.107 33.333 0.00 0.00 0.00 1.82
1839 3762 6.913170 ACACACCATTGAGCAAAAATAGTAG 58.087 36.000 0.00 0.00 0.00 2.57
1840 3763 5.801947 CACACCATTGAGCAAAAATAGTAGC 59.198 40.000 0.00 0.00 0.00 3.58
2053 3977 1.153784 GCCATCCACAACCATTGCG 60.154 57.895 0.00 0.00 0.00 4.85
2091 4015 1.401552 CCACCGGAAATATGTGTGCTG 59.598 52.381 9.46 0.00 0.00 4.41
2123 4047 4.384056 CTTCCTGACACTGACTTCAACAT 58.616 43.478 0.00 0.00 0.00 2.71
2127 4051 3.466836 TGACACTGACTTCAACATGGTC 58.533 45.455 0.00 0.00 0.00 4.02
2178 4102 0.828022 AGAACCCTGTTGTCGTGACA 59.172 50.000 0.00 0.00 39.98 3.58
2244 4168 1.300003 CCTGCATGTTGTTTGCGCA 60.300 52.632 5.66 5.66 43.10 6.09
2455 4384 8.351495 TGAAAAACAATTCAGGAAAGATTTCG 57.649 30.769 0.00 0.00 34.99 3.46
2727 4658 7.005380 GTGATCGACAAAGCAAAATTTGATTG 58.995 34.615 10.09 14.51 41.71 2.67
2863 4794 2.667418 GCTCTGAGCAGCCCAAGA 59.333 61.111 24.02 0.00 41.89 3.02
2950 4881 0.323725 ATGAATTTGTGAGGGCGGCT 60.324 50.000 9.56 0.00 0.00 5.52
3010 4941 2.579738 GAGCGGGTCAGAACCTCC 59.420 66.667 2.07 0.00 45.66 4.30
3064 4995 4.503817 GCATGAAGATGAGGTATAGGTGCA 60.504 45.833 0.00 0.00 0.00 4.57
3074 5005 5.838521 TGAGGTATAGGTGCATGAAGATACA 59.161 40.000 0.00 0.00 0.00 2.29
3075 5006 6.498303 TGAGGTATAGGTGCATGAAGATACAT 59.502 38.462 0.00 0.00 0.00 2.29
3076 5007 6.705302 AGGTATAGGTGCATGAAGATACATG 58.295 40.000 0.00 0.00 46.96 3.21
3085 5016 5.509716 CATGAAGATACATGCACCACATT 57.490 39.130 0.00 0.00 40.54 2.71
3086 5017 5.898174 CATGAAGATACATGCACCACATTT 58.102 37.500 0.00 0.00 40.54 2.32
3087 5018 7.030075 CATGAAGATACATGCACCACATTTA 57.970 36.000 0.00 0.00 40.54 1.40
3102 5047 7.401860 CACCACATTTAATGAGATCGTACTTG 58.598 38.462 12.28 0.00 0.00 3.16
3166 5111 7.805700 TGTTGTCTATGTAACATTGTGTGATG 58.194 34.615 0.00 0.00 32.30 3.07
3176 5121 3.633525 ACATTGTGTGATGGATGTATGGC 59.366 43.478 0.00 0.00 31.41 4.40
3213 5158 5.578336 AGACTGACATTTGTGTCATGTATCG 59.422 40.000 11.23 2.52 46.24 2.92
3227 5220 7.924412 GTGTCATGTATCGGTTTTAGGAAGATA 59.076 37.037 0.00 0.00 0.00 1.98
3232 5225 7.276658 TGTATCGGTTTTAGGAAGATATGCAA 58.723 34.615 0.00 0.00 0.00 4.08
3271 5264 7.841222 AGCCCTAAAGGAGAATAAATGTTGAAT 59.159 33.333 0.00 0.00 38.24 2.57
3388 5381 9.226606 CTTCAATTTACATGTTGGTCCTAAGTA 57.773 33.333 2.30 0.00 0.00 2.24
3389 5382 8.786826 TCAATTTACATGTTGGTCCTAAGTAG 57.213 34.615 2.30 0.00 0.00 2.57
3390 5383 8.380099 TCAATTTACATGTTGGTCCTAAGTAGT 58.620 33.333 2.30 0.00 0.00 2.73
3391 5384 9.010029 CAATTTACATGTTGGTCCTAAGTAGTT 57.990 33.333 2.30 0.00 0.00 2.24
3392 5385 9.582648 AATTTACATGTTGGTCCTAAGTAGTTT 57.417 29.630 2.30 0.00 0.00 2.66
3578 5572 9.052759 TGACTTAGGACAAACTTGAACTATTTC 57.947 33.333 0.00 0.00 0.00 2.17
3584 5578 9.280174 AGGACAAACTTGAACTATTTCGAAATA 57.720 29.630 25.03 25.03 34.04 1.40
3606 5600 7.820578 ATAGAGGTAGTACTTGCTAACGATT 57.179 36.000 0.00 0.00 34.06 3.34
3623 5617 8.272176 GCTAACGATTGAAACATATCTCTTCTG 58.728 37.037 0.00 0.00 0.00 3.02
3667 5661 2.747446 GCGTTTCTTTTCCTATCAGGCA 59.253 45.455 0.00 0.00 34.61 4.75
3680 5674 1.328279 TCAGGCAGAACTCTTCGTCA 58.672 50.000 0.00 0.00 34.02 4.35
3709 5717 3.118334 TCCACGTCCCTTCACTGTTTTTA 60.118 43.478 0.00 0.00 0.00 1.52
3715 5723 6.938030 ACGTCCCTTCACTGTTTTTATTATCA 59.062 34.615 0.00 0.00 0.00 2.15
3719 5727 6.405842 CCCTTCACTGTTTTTATTATCAGCCC 60.406 42.308 0.00 0.00 0.00 5.19
3721 5729 4.638421 TCACTGTTTTTATTATCAGCCCGG 59.362 41.667 0.00 0.00 0.00 5.73
3755 5763 1.202290 GCCATAATTGACCGCACCTTG 60.202 52.381 0.00 0.00 0.00 3.61
3763 5771 2.031919 CCGCACCTTGCCAGTACA 59.968 61.111 0.00 0.00 41.12 2.90
3765 5773 1.301716 CGCACCTTGCCAGTACACT 60.302 57.895 0.00 0.00 41.12 3.55
3780 5788 5.643348 CCAGTACACTGCTCAATCACATTAA 59.357 40.000 3.75 0.00 42.47 1.40
3783 5791 7.695201 CAGTACACTGCTCAATCACATTAATTG 59.305 37.037 0.00 0.00 37.15 2.32
3870 5878 9.571816 ACATACTTAGGTACCATAAGAGACTAC 57.428 37.037 25.44 0.00 34.86 2.73
3871 5879 9.570468 CATACTTAGGTACCATAAGAGACTACA 57.430 37.037 25.44 10.46 34.86 2.74
3874 5882 9.571816 ACTTAGGTACCATAAGAGACTACATAC 57.428 37.037 25.44 0.00 34.86 2.39
3875 5883 8.613060 TTAGGTACCATAAGAGACTACATACG 57.387 38.462 15.94 0.00 0.00 3.06
3876 5884 6.835174 AGGTACCATAAGAGACTACATACGA 58.165 40.000 15.94 0.00 0.00 3.43
3877 5885 7.285566 AGGTACCATAAGAGACTACATACGAA 58.714 38.462 15.94 0.00 0.00 3.85
3878 5886 7.444792 AGGTACCATAAGAGACTACATACGAAG 59.555 40.741 15.94 0.00 0.00 3.79
3879 5887 6.074544 ACCATAAGAGACTACATACGAAGC 57.925 41.667 0.00 0.00 0.00 3.86
3880 5888 5.593095 ACCATAAGAGACTACATACGAAGCA 59.407 40.000 0.00 0.00 0.00 3.91
3881 5889 6.096423 ACCATAAGAGACTACATACGAAGCAA 59.904 38.462 0.00 0.00 0.00 3.91
3882 5890 6.978659 CCATAAGAGACTACATACGAAGCAAA 59.021 38.462 0.00 0.00 0.00 3.68
3883 5891 7.491372 CCATAAGAGACTACATACGAAGCAAAA 59.509 37.037 0.00 0.00 0.00 2.44
3884 5892 9.035607 CATAAGAGACTACATACGAAGCAAAAT 57.964 33.333 0.00 0.00 0.00 1.82
3885 5893 7.907214 AAGAGACTACATACGAAGCAAAATT 57.093 32.000 0.00 0.00 0.00 1.82
3886 5894 7.295952 AGAGACTACATACGAAGCAAAATTG 57.704 36.000 0.00 0.00 0.00 2.32
3887 5895 6.313905 AGAGACTACATACGAAGCAAAATTGG 59.686 38.462 0.00 0.00 0.00 3.16
3888 5896 5.938125 AGACTACATACGAAGCAAAATTGGT 59.062 36.000 0.00 0.00 41.27 3.67
3889 5897 5.938322 ACTACATACGAAGCAAAATTGGTG 58.062 37.500 0.00 0.00 39.13 4.17
3890 5898 5.703592 ACTACATACGAAGCAAAATTGGTGA 59.296 36.000 0.00 0.00 39.13 4.02
3891 5899 5.643379 ACATACGAAGCAAAATTGGTGAT 57.357 34.783 0.00 0.00 39.13 3.06
3892 5900 6.024552 ACATACGAAGCAAAATTGGTGATT 57.975 33.333 0.00 0.00 39.13 2.57
3893 5901 6.454795 ACATACGAAGCAAAATTGGTGATTT 58.545 32.000 0.00 0.00 39.63 2.17
3894 5902 6.928492 ACATACGAAGCAAAATTGGTGATTTT 59.072 30.769 0.00 0.00 46.29 1.82
3895 5903 8.085296 ACATACGAAGCAAAATTGGTGATTTTA 58.915 29.630 0.00 0.00 44.16 1.52
3896 5904 6.763303 ACGAAGCAAAATTGGTGATTTTAC 57.237 33.333 0.00 0.00 44.16 2.01
3897 5905 6.276847 ACGAAGCAAAATTGGTGATTTTACA 58.723 32.000 0.00 0.00 44.16 2.41
3898 5906 6.200097 ACGAAGCAAAATTGGTGATTTTACAC 59.800 34.615 0.00 0.00 44.16 2.90
3899 5907 6.420604 CGAAGCAAAATTGGTGATTTTACACT 59.579 34.615 0.00 0.00 44.16 3.55
3900 5908 7.481275 AAGCAAAATTGGTGATTTTACACTG 57.519 32.000 0.00 0.00 44.16 3.66
3901 5909 6.581712 AGCAAAATTGGTGATTTTACACTGT 58.418 32.000 0.00 0.00 44.16 3.55
3902 5910 7.721402 AGCAAAATTGGTGATTTTACACTGTA 58.279 30.769 0.00 0.00 44.16 2.74
3903 5911 8.200792 AGCAAAATTGGTGATTTTACACTGTAA 58.799 29.630 0.00 0.00 44.16 2.41
3904 5912 8.821894 GCAAAATTGGTGATTTTACACTGTAAA 58.178 29.630 9.86 9.86 44.16 2.01
3923 5931 9.745880 ACTGTAAAGTTTATCTATGTACATCCG 57.254 33.333 12.68 5.19 0.00 4.18
3924 5932 9.745880 CTGTAAAGTTTATCTATGTACATCCGT 57.254 33.333 12.68 1.92 0.00 4.69
3933 5941 7.627298 ATCTATGTACATCCGTATGTAGTCC 57.373 40.000 12.68 0.00 46.68 3.85
3934 5942 6.536447 TCTATGTACATCCGTATGTAGTCCA 58.464 40.000 12.68 0.00 46.68 4.02
3935 5943 7.173032 TCTATGTACATCCGTATGTAGTCCAT 58.827 38.462 12.68 4.84 46.68 3.41
3936 5944 8.323567 TCTATGTACATCCGTATGTAGTCCATA 58.676 37.037 12.68 5.65 46.68 2.74
3937 5945 7.770366 ATGTACATCCGTATGTAGTCCATAA 57.230 36.000 1.41 0.00 46.68 1.90
3938 5946 7.770366 TGTACATCCGTATGTAGTCCATAAT 57.230 36.000 0.46 0.00 46.68 1.28
3939 5947 7.599171 TGTACATCCGTATGTAGTCCATAATG 58.401 38.462 0.46 0.00 46.68 1.90
3940 5948 6.911250 ACATCCGTATGTAGTCCATAATGA 57.089 37.500 0.00 0.00 44.66 2.57
3941 5949 7.297936 ACATCCGTATGTAGTCCATAATGAA 57.702 36.000 0.00 0.00 44.66 2.57
3942 5950 7.732025 ACATCCGTATGTAGTCCATAATGAAA 58.268 34.615 0.00 0.00 44.66 2.69
3943 5951 8.375506 ACATCCGTATGTAGTCCATAATGAAAT 58.624 33.333 0.00 0.00 44.66 2.17
3944 5952 8.873830 CATCCGTATGTAGTCCATAATGAAATC 58.126 37.037 0.00 0.00 37.77 2.17
3945 5953 8.190326 TCCGTATGTAGTCCATAATGAAATCT 57.810 34.615 0.00 0.00 37.77 2.40
3946 5954 8.304596 TCCGTATGTAGTCCATAATGAAATCTC 58.695 37.037 0.00 0.00 37.77 2.75
3947 5955 8.307483 CCGTATGTAGTCCATAATGAAATCTCT 58.693 37.037 0.00 0.00 37.77 3.10
3991 5999 9.653287 TTTACAGAGGAAGTATATGACAAACAG 57.347 33.333 0.00 0.00 0.00 3.16
3992 6000 7.246171 ACAGAGGAAGTATATGACAAACAGT 57.754 36.000 0.00 0.00 0.00 3.55
4040 6048 9.900710 ATCAAATAGATAGATGTGTCGAGTAAC 57.099 33.333 0.00 0.00 34.43 2.50
4041 6049 9.121658 TCAAATAGATAGATGTGTCGAGTAACT 57.878 33.333 0.00 0.00 0.00 2.24
4042 6050 9.737427 CAAATAGATAGATGTGTCGAGTAACTT 57.263 33.333 0.00 0.00 0.00 2.66
4043 6051 9.953697 AAATAGATAGATGTGTCGAGTAACTTC 57.046 33.333 0.00 0.00 0.00 3.01
4044 6052 8.678593 ATAGATAGATGTGTCGAGTAACTTCA 57.321 34.615 9.82 0.00 0.00 3.02
4045 6053 6.787225 AGATAGATGTGTCGAGTAACTTCAC 58.213 40.000 9.82 3.26 0.00 3.18
4046 6054 6.600032 AGATAGATGTGTCGAGTAACTTCACT 59.400 38.462 9.82 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 4.039973 AGGATTTGAGGTCGTTGTTAGTCA 59.960 41.667 0.00 0.00 0.00 3.41
92 93 0.458669 GGCCAGTCATTGCAATGAGG 59.541 55.000 36.29 32.79 45.38 3.86
123 124 4.391830 TGGAACGTAGCAAATCATTCAGAC 59.608 41.667 0.00 0.00 0.00 3.51
140 141 3.501828 TCCTCATGTCAACATTTGGAACG 59.498 43.478 9.94 0.00 34.41 3.95
204 205 8.908786 TGAGAAATAATTCAAACTGACTCTGT 57.091 30.769 0.00 0.00 38.06 3.41
231 232 3.119637 ACACACCACTAAGCACAAACAAC 60.120 43.478 0.00 0.00 0.00 3.32
278 279 0.541392 TGGCTCGTCAATAGTGGCAT 59.459 50.000 0.00 0.00 33.76 4.40
428 431 2.038557 ACTCCTTTACGACAGGCACATT 59.961 45.455 0.00 0.00 0.00 2.71
441 444 2.413837 GCAAACTCGAGCACTCCTTTA 58.586 47.619 13.61 0.00 0.00 1.85
442 445 1.230324 GCAAACTCGAGCACTCCTTT 58.770 50.000 13.61 1.11 0.00 3.11
470 473 0.944386 CAACCAAGTCACCTTCACCG 59.056 55.000 0.00 0.00 0.00 4.94
576 585 2.945668 CCTCATCGAAAATGGGGAAGAC 59.054 50.000 0.00 0.00 42.26 3.01
616 625 7.786030 ACAAGTCATGCTTAGAGTACATATGT 58.214 34.615 13.93 13.93 35.27 2.29
654 663 3.900116 CGAAGACGTACAATTGCACTTTG 59.100 43.478 5.05 6.96 34.56 2.77
657 666 1.459592 GCGAAGACGTACAATTGCACT 59.540 47.619 5.05 0.00 41.98 4.40
663 672 2.396590 ATTGGGCGAAGACGTACAAT 57.603 45.000 0.00 0.00 40.24 2.71
668 677 0.036765 TTGCTATTGGGCGAAGACGT 60.037 50.000 0.00 0.00 41.98 4.34
671 680 0.618458 ACCTTGCTATTGGGCGAAGA 59.382 50.000 0.00 0.00 34.52 2.87
676 685 2.945668 CAGAGTAACCTTGCTATTGGGC 59.054 50.000 0.00 0.00 0.00 5.36
782 791 6.016276 ACGTTTCAGAAATGGAAAGTAGCATT 60.016 34.615 17.71 0.00 35.12 3.56
863 872 2.289565 GATCGTTTTCCTGGGACCATC 58.710 52.381 0.00 0.00 0.00 3.51
882 891 6.535540 AGTAGCTAGACCTCAAATATCTCGA 58.464 40.000 0.00 0.00 0.00 4.04
883 892 6.811253 AGTAGCTAGACCTCAAATATCTCG 57.189 41.667 0.00 0.00 0.00 4.04
884 893 8.172352 TGAAGTAGCTAGACCTCAAATATCTC 57.828 38.462 0.00 0.00 0.00 2.75
886 895 9.202273 CAATGAAGTAGCTAGACCTCAAATATC 57.798 37.037 0.00 0.00 0.00 1.63
887 896 7.659390 GCAATGAAGTAGCTAGACCTCAAATAT 59.341 37.037 0.00 0.00 0.00 1.28
890 899 5.046304 AGCAATGAAGTAGCTAGACCTCAAA 60.046 40.000 0.00 0.00 36.73 2.69
891 900 4.467795 AGCAATGAAGTAGCTAGACCTCAA 59.532 41.667 0.00 0.00 36.73 3.02
893 902 4.664150 AGCAATGAAGTAGCTAGACCTC 57.336 45.455 0.00 0.00 36.73 3.85
899 908 9.745880 GTGTAAATACTAGCAATGAAGTAGCTA 57.254 33.333 0.00 0.00 39.68 3.32
900 909 7.711339 GGTGTAAATACTAGCAATGAAGTAGCT 59.289 37.037 0.00 0.00 42.14 3.32
913 922 9.148104 GAAACAGGTTAGTGGTGTAAATACTAG 57.852 37.037 0.00 0.00 0.00 2.57
919 928 5.127491 CAGGAAACAGGTTAGTGGTGTAAA 58.873 41.667 0.00 0.00 0.00 2.01
929 938 4.202461 ACTGAATCTGCAGGAAACAGGTTA 60.202 41.667 23.43 2.48 38.58 2.85
948 957 2.289072 GCTAGACTGCAGGTTTGACTGA 60.289 50.000 19.93 0.00 40.97 3.41
949 958 2.072298 GCTAGACTGCAGGTTTGACTG 58.928 52.381 19.93 0.87 41.41 3.51
950 959 1.694150 TGCTAGACTGCAGGTTTGACT 59.306 47.619 19.93 9.40 38.12 3.41
951 960 1.801178 GTGCTAGACTGCAGGTTTGAC 59.199 52.381 19.93 3.53 44.20 3.18
1345 1873 4.561752 AGGAGAAAGCCAGTATCCAGTAT 58.438 43.478 0.00 0.00 32.21 2.12
1463 3378 8.836413 ACTTTTCAACGAATTACTCTTCATGAA 58.164 29.630 8.12 8.12 32.89 2.57
1515 3431 9.076596 CACTTTTAGCCTGCATATTCTTTTTAC 57.923 33.333 0.00 0.00 0.00 2.01
1532 3448 4.759782 TCTGCTAGGACATCACTTTTAGC 58.240 43.478 0.00 0.00 35.33 3.09
1546 3462 2.208431 CGAAAGCCTTGATCTGCTAGG 58.792 52.381 5.58 3.20 41.74 3.02
1652 3570 0.108186 CTGCTGAATCCGGTGTAGCA 60.108 55.000 18.86 18.86 41.61 3.49
1761 3679 4.770010 AGCCATCTTCTAGTACCATAGAGC 59.230 45.833 0.00 0.00 33.44 4.09
1763 3681 8.958060 ATAAAGCCATCTTCTAGTACCATAGA 57.042 34.615 0.00 0.00 0.00 1.98
1775 3693 9.387123 CGCTTTTATCTTTATAAAGCCATCTTC 57.613 33.333 18.68 6.54 38.48 2.87
1836 3759 8.132995 GTCCTTCAGAAAATCTAGTCTAGCTAC 58.867 40.741 1.60 0.00 0.00 3.58
1837 3760 8.056400 AGTCCTTCAGAAAATCTAGTCTAGCTA 58.944 37.037 1.60 0.00 0.00 3.32
1838 3761 6.895204 AGTCCTTCAGAAAATCTAGTCTAGCT 59.105 38.462 1.60 0.00 0.00 3.32
1839 3762 7.107639 AGTCCTTCAGAAAATCTAGTCTAGC 57.892 40.000 1.60 0.00 0.00 3.42
1840 3763 9.179909 TGTAGTCCTTCAGAAAATCTAGTCTAG 57.820 37.037 0.00 0.00 0.00 2.43
2053 3977 0.875059 GGTGGCTGCTGTAACTGAAC 59.125 55.000 0.00 0.00 0.00 3.18
2091 4015 2.079925 GTGTCAGGAAGGTCATTGAGC 58.920 52.381 7.79 7.79 0.00 4.26
2123 4047 0.033504 GACCAAGCTCTTCACGACCA 59.966 55.000 0.00 0.00 0.00 4.02
2127 4051 0.861837 GTGTGACCAAGCTCTTCACG 59.138 55.000 14.31 0.00 42.20 4.35
2208 4132 3.131400 GCAGGGAGTTACTAGTGAAGAGG 59.869 52.174 5.39 0.00 0.00 3.69
2244 4168 0.171903 GCCATTGCAAGCTGTTCGAT 59.828 50.000 4.94 0.00 37.47 3.59
2304 4228 8.061857 GGTAAAATTTTGCTTAAACTCACAAGC 58.938 33.333 16.98 0.00 45.90 4.01
2325 4252 2.259012 TCGGGAGCCTGTAAAGGTAAA 58.741 47.619 0.00 0.00 0.00 2.01
2434 4363 6.015940 AGCTCGAAATCTTTCCTGAATTGTTT 60.016 34.615 0.00 0.00 33.68 2.83
2455 4384 1.277557 TCTCAGCTCCAGGAAAAGCTC 59.722 52.381 0.00 0.00 45.57 4.09
2727 4658 3.131396 CCATGGAGCGGTACATAGAAAC 58.869 50.000 12.91 0.00 0.00 2.78
2737 4668 2.670148 GGAAGGTCCATGGAGCGGT 61.670 63.158 32.46 25.77 46.10 5.68
2762 4693 5.620738 TCTTTGATGATCTCCCTTACCTG 57.379 43.478 0.00 0.00 0.00 4.00
2863 4794 8.814038 AGGCTATCAGATTATTCACAAACTTT 57.186 30.769 0.00 0.00 0.00 2.66
2950 4881 0.035725 CCAGACTCCAATGCAGCTCA 60.036 55.000 0.00 0.00 0.00 4.26
3010 4941 2.408050 GATACAACCAGCATAGCTCGG 58.592 52.381 0.00 0.00 36.40 4.63
3064 4995 7.643569 TTAAATGTGGTGCATGTATCTTCAT 57.356 32.000 0.00 0.00 37.96 2.57
3074 5005 4.883585 ACGATCTCATTAAATGTGGTGCAT 59.116 37.500 0.00 0.00 40.03 3.96
3075 5006 4.260985 ACGATCTCATTAAATGTGGTGCA 58.739 39.130 0.00 0.00 0.00 4.57
3076 5007 4.882671 ACGATCTCATTAAATGTGGTGC 57.117 40.909 0.00 0.00 0.00 5.01
3077 5008 7.277760 TCAAGTACGATCTCATTAAATGTGGTG 59.722 37.037 0.00 0.00 0.00 4.17
3078 5009 7.327975 TCAAGTACGATCTCATTAAATGTGGT 58.672 34.615 0.00 0.00 0.00 4.16
3079 5010 7.770801 TCAAGTACGATCTCATTAAATGTGG 57.229 36.000 0.00 0.00 0.00 4.17
3080 5011 9.642312 CAATCAAGTACGATCTCATTAAATGTG 57.358 33.333 0.00 0.00 0.00 3.21
3081 5012 9.383519 ACAATCAAGTACGATCTCATTAAATGT 57.616 29.630 0.00 0.00 0.00 2.71
3082 5013 9.642312 CACAATCAAGTACGATCTCATTAAATG 57.358 33.333 0.00 0.00 0.00 2.32
3083 5014 9.383519 ACACAATCAAGTACGATCTCATTAAAT 57.616 29.630 0.00 0.00 0.00 1.40
3084 5015 8.655970 CACACAATCAAGTACGATCTCATTAAA 58.344 33.333 0.00 0.00 0.00 1.52
3085 5016 7.277760 CCACACAATCAAGTACGATCTCATTAA 59.722 37.037 0.00 0.00 0.00 1.40
3086 5017 6.756542 CCACACAATCAAGTACGATCTCATTA 59.243 38.462 0.00 0.00 0.00 1.90
3087 5018 5.582269 CCACACAATCAAGTACGATCTCATT 59.418 40.000 0.00 0.00 0.00 2.57
3136 5081 6.573357 CACAATGTTACATAGACAACAACACG 59.427 38.462 0.00 0.00 38.11 4.49
3166 5111 0.808125 TTTGTGCACGCCATACATCC 59.192 50.000 13.13 0.00 0.00 3.51
3176 5121 2.287644 TGTCAGTCTGAATTTGTGCACG 59.712 45.455 13.13 0.00 0.00 5.34
3213 5158 7.500559 ACTCTCATTGCATATCTTCCTAAAACC 59.499 37.037 0.00 0.00 0.00 3.27
3227 5220 3.549794 GGCTCCTTTACTCTCATTGCAT 58.450 45.455 0.00 0.00 0.00 3.96
3232 5225 4.410555 CCTTTAGGGCTCCTTTACTCTCAT 59.589 45.833 0.00 0.00 34.61 2.90
3271 5264 1.557371 TCTATGTGAATTGGCGGTGGA 59.443 47.619 0.00 0.00 0.00 4.02
3361 5354 7.724061 ACTTAGGACCAACATGTAAATTGAAGT 59.276 33.333 0.00 1.61 0.00 3.01
3365 5358 8.561738 ACTACTTAGGACCAACATGTAAATTG 57.438 34.615 0.00 0.00 0.00 2.32
3578 5572 6.632035 CGTTAGCAAGTACTACCTCTATTTCG 59.368 42.308 0.00 0.00 0.00 3.46
3584 5578 5.651139 TCAATCGTTAGCAAGTACTACCTCT 59.349 40.000 0.00 0.00 0.00 3.69
3660 5654 1.895798 TGACGAAGAGTTCTGCCTGAT 59.104 47.619 0.00 0.00 0.00 2.90
3661 5655 1.328279 TGACGAAGAGTTCTGCCTGA 58.672 50.000 0.00 0.00 0.00 3.86
3680 5674 2.387476 GAAGGGACGTGGAACCGGTT 62.387 60.000 22.50 22.50 0.00 4.44
3709 5717 2.291930 TGGGAAAAACCGGGCTGATAAT 60.292 45.455 6.32 0.00 40.11 1.28
3715 5723 2.203582 GGTGGGAAAAACCGGGCT 60.204 61.111 6.32 0.00 40.11 5.19
3719 5727 2.333581 GCGTGGTGGGAAAAACCG 59.666 61.111 0.00 0.00 40.86 4.44
3721 5729 1.249407 TATGGCGTGGTGGGAAAAAC 58.751 50.000 0.00 0.00 0.00 2.43
3755 5763 1.734465 GTGATTGAGCAGTGTACTGGC 59.266 52.381 13.41 6.31 43.94 4.85
3763 5771 7.458409 AAGTCAATTAATGTGATTGAGCAGT 57.542 32.000 0.16 0.00 42.39 4.40
3765 5773 8.334263 TGTAAGTCAATTAATGTGATTGAGCA 57.666 30.769 0.16 0.00 42.39 4.26
3780 5788 8.615878 TGTAGTGCTGTAAAATGTAAGTCAAT 57.384 30.769 0.00 0.00 0.00 2.57
3783 5791 8.251750 TGATGTAGTGCTGTAAAATGTAAGTC 57.748 34.615 0.00 0.00 0.00 3.01
3852 5860 6.835174 TCGTATGTAGTCTCTTATGGTACCT 58.165 40.000 14.36 1.08 0.00 3.08
3853 5861 7.502120 TTCGTATGTAGTCTCTTATGGTACC 57.498 40.000 4.43 4.43 0.00 3.34
3854 5862 7.076983 GCTTCGTATGTAGTCTCTTATGGTAC 58.923 42.308 0.00 0.00 0.00 3.34
3855 5863 6.769341 TGCTTCGTATGTAGTCTCTTATGGTA 59.231 38.462 0.00 0.00 0.00 3.25
3856 5864 5.593095 TGCTTCGTATGTAGTCTCTTATGGT 59.407 40.000 0.00 0.00 0.00 3.55
3857 5865 6.073327 TGCTTCGTATGTAGTCTCTTATGG 57.927 41.667 0.00 0.00 0.00 2.74
3858 5866 7.987268 TTTGCTTCGTATGTAGTCTCTTATG 57.013 36.000 0.00 0.00 0.00 1.90
3859 5867 9.601217 AATTTTGCTTCGTATGTAGTCTCTTAT 57.399 29.630 0.00 0.00 0.00 1.73
3860 5868 8.869897 CAATTTTGCTTCGTATGTAGTCTCTTA 58.130 33.333 0.00 0.00 0.00 2.10
3861 5869 7.148407 CCAATTTTGCTTCGTATGTAGTCTCTT 60.148 37.037 0.00 0.00 0.00 2.85
3862 5870 6.313905 CCAATTTTGCTTCGTATGTAGTCTCT 59.686 38.462 0.00 0.00 0.00 3.10
3863 5871 6.092259 ACCAATTTTGCTTCGTATGTAGTCTC 59.908 38.462 0.00 0.00 0.00 3.36
3864 5872 5.938125 ACCAATTTTGCTTCGTATGTAGTCT 59.062 36.000 0.00 0.00 0.00 3.24
3865 5873 6.021596 CACCAATTTTGCTTCGTATGTAGTC 58.978 40.000 0.00 0.00 0.00 2.59
3866 5874 5.703592 TCACCAATTTTGCTTCGTATGTAGT 59.296 36.000 0.00 0.00 0.00 2.73
3867 5875 6.176975 TCACCAATTTTGCTTCGTATGTAG 57.823 37.500 0.00 0.00 0.00 2.74
3868 5876 6.751514 ATCACCAATTTTGCTTCGTATGTA 57.248 33.333 0.00 0.00 0.00 2.29
3869 5877 5.643379 ATCACCAATTTTGCTTCGTATGT 57.357 34.783 0.00 0.00 0.00 2.29
3870 5878 6.949578 AAATCACCAATTTTGCTTCGTATG 57.050 33.333 0.00 0.00 33.69 2.39
3871 5879 8.085296 TGTAAAATCACCAATTTTGCTTCGTAT 58.915 29.630 10.98 0.00 45.15 3.06
3872 5880 7.380065 GTGTAAAATCACCAATTTTGCTTCGTA 59.620 33.333 10.98 0.00 45.15 3.43
3873 5881 6.200097 GTGTAAAATCACCAATTTTGCTTCGT 59.800 34.615 10.98 0.00 45.15 3.85
3874 5882 6.420604 AGTGTAAAATCACCAATTTTGCTTCG 59.579 34.615 10.98 0.00 45.15 3.79
3875 5883 7.224557 ACAGTGTAAAATCACCAATTTTGCTTC 59.775 33.333 0.00 6.18 45.15 3.86
3876 5884 7.047271 ACAGTGTAAAATCACCAATTTTGCTT 58.953 30.769 0.00 0.63 45.15 3.91
3877 5885 6.581712 ACAGTGTAAAATCACCAATTTTGCT 58.418 32.000 0.00 3.46 45.15 3.91
3878 5886 6.843069 ACAGTGTAAAATCACCAATTTTGC 57.157 33.333 0.00 5.48 45.15 3.68
3897 5905 9.745880 CGGATGTACATAGATAAACTTTACAGT 57.254 33.333 8.71 0.00 33.11 3.55
3898 5906 9.745880 ACGGATGTACATAGATAAACTTTACAG 57.254 33.333 8.71 0.00 0.00 2.74
3907 5915 9.170734 GGACTACATACGGATGTACATAGATAA 57.829 37.037 16.71 0.00 44.77 1.75
3908 5916 8.323567 TGGACTACATACGGATGTACATAGATA 58.676 37.037 16.71 1.75 44.77 1.98
3909 5917 7.173032 TGGACTACATACGGATGTACATAGAT 58.827 38.462 16.71 0.43 44.77 1.98
3910 5918 6.536447 TGGACTACATACGGATGTACATAGA 58.464 40.000 16.71 0.00 44.77 1.98
3911 5919 6.812879 TGGACTACATACGGATGTACATAG 57.187 41.667 16.71 11.29 44.77 2.23
3912 5920 8.866970 TTATGGACTACATACGGATGTACATA 57.133 34.615 16.71 17.94 44.77 2.29
3913 5921 7.770366 TTATGGACTACATACGGATGTACAT 57.230 36.000 16.71 18.85 44.77 2.29
3914 5922 7.449086 TCATTATGGACTACATACGGATGTACA 59.551 37.037 16.71 13.43 44.77 2.90
3915 5923 7.823665 TCATTATGGACTACATACGGATGTAC 58.176 38.462 16.71 8.04 44.77 2.90
3916 5924 8.411991 TTCATTATGGACTACATACGGATGTA 57.588 34.615 19.32 19.32 44.77 2.29
3918 5926 8.777865 ATTTCATTATGGACTACATACGGATG 57.222 34.615 5.94 5.94 41.61 3.51
3919 5927 8.816894 AGATTTCATTATGGACTACATACGGAT 58.183 33.333 0.00 0.00 41.61 4.18
3920 5928 8.190326 AGATTTCATTATGGACTACATACGGA 57.810 34.615 0.00 0.00 41.61 4.69
3921 5929 8.307483 AGAGATTTCATTATGGACTACATACGG 58.693 37.037 0.00 0.00 41.61 4.02
3965 5973 9.653287 CTGTTTGTCATATACTTCCTCTGTAAA 57.347 33.333 0.00 0.00 0.00 2.01
3966 5974 8.812972 ACTGTTTGTCATATACTTCCTCTGTAA 58.187 33.333 0.00 0.00 0.00 2.41
3967 5975 8.362464 ACTGTTTGTCATATACTTCCTCTGTA 57.638 34.615 0.00 0.00 0.00 2.74
3968 5976 7.246171 ACTGTTTGTCATATACTTCCTCTGT 57.754 36.000 0.00 0.00 0.00 3.41
3969 5977 6.473778 CGACTGTTTGTCATATACTTCCTCTG 59.526 42.308 0.00 0.00 45.60 3.35
3970 5978 6.153000 ACGACTGTTTGTCATATACTTCCTCT 59.847 38.462 0.00 0.00 45.60 3.69
3971 5979 6.331061 ACGACTGTTTGTCATATACTTCCTC 58.669 40.000 0.00 0.00 45.60 3.71
3972 5980 6.282199 ACGACTGTTTGTCATATACTTCCT 57.718 37.500 0.00 0.00 45.60 3.36
3973 5981 7.705325 ACATACGACTGTTTGTCATATACTTCC 59.295 37.037 0.00 0.00 45.60 3.46
3974 5982 8.630278 ACATACGACTGTTTGTCATATACTTC 57.370 34.615 0.00 0.00 45.60 3.01
3975 5983 9.512435 GTACATACGACTGTTTGTCATATACTT 57.488 33.333 0.00 0.00 45.60 2.24
4014 6022 9.900710 GTTACTCGACACATCTATCTATTTGAT 57.099 33.333 0.00 0.00 39.11 2.57
4015 6023 9.121658 AGTTACTCGACACATCTATCTATTTGA 57.878 33.333 0.00 0.00 0.00 2.69
4016 6024 9.737427 AAGTTACTCGACACATCTATCTATTTG 57.263 33.333 0.00 0.00 0.00 2.32
4017 6025 9.953697 GAAGTTACTCGACACATCTATCTATTT 57.046 33.333 0.00 0.00 0.00 1.40
4018 6026 9.121658 TGAAGTTACTCGACACATCTATCTATT 57.878 33.333 0.00 0.00 0.00 1.73
4019 6027 8.561212 GTGAAGTTACTCGACACATCTATCTAT 58.439 37.037 10.55 0.00 0.00 1.98
4020 6028 7.769507 AGTGAAGTTACTCGACACATCTATCTA 59.230 37.037 15.24 0.00 34.47 1.98
4021 6029 6.600032 AGTGAAGTTACTCGACACATCTATCT 59.400 38.462 15.24 0.00 34.47 1.98
4022 6030 6.787225 AGTGAAGTTACTCGACACATCTATC 58.213 40.000 15.24 0.00 34.47 2.08
4023 6031 6.761099 AGTGAAGTTACTCGACACATCTAT 57.239 37.500 15.24 0.00 34.47 1.98


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

AutoCloner maintained by Alex Coulton.