Multiple sequence alignment - TraesCS5A01G200300

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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 TraesCS5A01G200300 chr5A 100.000 3881 0 0 1 3881 406473915 406477795 0.000000e+00 7167.0
1 TraesCS5A01G200300 chr5A 90.612 735 44 12 109 819 567069584 567068851 0.000000e+00 952.0
2 TraesCS5A01G200300 chr5A 96.032 126 3 1 1197 1322 406475075 406475198 1.830000e-48 204.0
3 TraesCS5A01G200300 chr5A 96.032 126 3 1 1161 1284 406475111 406475236 1.830000e-48 204.0
4 TraesCS5A01G200300 chr5A 87.417 151 8 3 1235 1376 406475075 406475223 3.100000e-36 163.0
5 TraesCS5A01G200300 chr5A 87.417 151 8 3 1161 1309 406475149 406475290 3.100000e-36 163.0
6 TraesCS5A01G200300 chr5A 93.023 86 6 0 1 86 567083106 567083021 4.070000e-25 126.0
7 TraesCS5A01G200300 chr5D 96.372 1819 48 7 2074 3881 312358072 312359883 0.000000e+00 2977.0
8 TraesCS5A01G200300 chr5D 88.684 760 49 20 1332 2076 312351569 312352306 0.000000e+00 893.0
9 TraesCS5A01G200300 chr5D 86.982 169 19 1 898 1063 312349475 312349643 1.840000e-43 187.0
10 TraesCS5A01G200300 chr5B 92.525 1699 77 14 1251 2932 358617066 358618731 0.000000e+00 2388.0
11 TraesCS5A01G200300 chr5B 92.388 867 47 11 2894 3752 358618770 358619625 0.000000e+00 1218.0
12 TraesCS5A01G200300 chr5B 96.599 147 4 1 3736 3881 358621567 358621713 3.870000e-60 243.0
13 TraesCS5A01G200300 chr5B 87.654 162 15 4 970 1127 358613342 358613502 2.380000e-42 183.0
14 TraesCS5A01G200300 chr5B 78.008 241 29 11 599 819 518320122 518319886 3.150000e-26 130.0
15 TraesCS5A01G200300 chr7A 92.601 838 45 2 1 821 138512472 138511635 0.000000e+00 1188.0
16 TraesCS5A01G200300 chr3B 92.299 844 35 6 1 820 193608127 193607290 0.000000e+00 1171.0
17 TraesCS5A01G200300 chr3B 94.248 765 38 5 3121 3881 765732904 765733666 0.000000e+00 1164.0
18 TraesCS5A01G200300 chr3A 91.976 835 49 3 1 818 371251236 371252069 0.000000e+00 1155.0
19 TraesCS5A01G200300 chr2D 90.714 840 36 9 1 821 535568984 535569800 0.000000e+00 1081.0
20 TraesCS5A01G200300 chr3D 94.554 404 17 4 1 403 283969389 283968990 1.530000e-173 619.0
21 TraesCS5A01G200300 chr3D 92.105 114 9 0 705 818 283968991 283968878 1.120000e-35 161.0
22 TraesCS5A01G200300 chr2B 90.431 418 23 4 401 801 774482219 774482636 5.710000e-148 534.0
23 TraesCS5A01G200300 chr2B 92.692 260 11 2 1 252 640597647 640597906 6.130000e-98 368.0
24 TraesCS5A01G200300 chr2B 92.308 260 12 2 1 252 774481958 774482217 2.850000e-96 363.0
25 TraesCS5A01G200300 chr2B 87.770 278 17 5 567 827 640598274 640598551 3.770000e-80 309.0
26 TraesCS5A01G200300 chr2B 95.105 143 7 0 401 543 640597908 640598050 3.900000e-55 226.0
27 TraesCS5A01G200300 chr2B 87.023 131 17 0 691 821 774481181 774481051 8.690000e-32 148.0
28 TraesCS5A01G200300 chr1D 86.486 74 10 0 747 820 298708051 298707978 8.940000e-12 82.4
29 TraesCS5A01G200300 chr1D 78.873 142 11 10 441 564 360476247 360476107 1.160000e-10 78.7


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 TraesCS5A01G200300 chr5A 406473915 406477795 3880 False 1580.2 7167 93.379600 1 3881 5 chr5A.!!$F1 3880
1 TraesCS5A01G200300 chr5A 567068851 567069584 733 True 952.0 952 90.612000 109 819 1 chr5A.!!$R1 710
2 TraesCS5A01G200300 chr5D 312358072 312359883 1811 False 2977.0 2977 96.372000 2074 3881 1 chr5D.!!$F1 1807
3 TraesCS5A01G200300 chr5D 312349475 312352306 2831 False 540.0 893 87.833000 898 2076 2 chr5D.!!$F2 1178
4 TraesCS5A01G200300 chr5B 358613342 358621713 8371 False 1008.0 2388 92.291500 970 3881 4 chr5B.!!$F1 2911
5 TraesCS5A01G200300 chr7A 138511635 138512472 837 True 1188.0 1188 92.601000 1 821 1 chr7A.!!$R1 820
6 TraesCS5A01G200300 chr3B 193607290 193608127 837 True 1171.0 1171 92.299000 1 820 1 chr3B.!!$R1 819
7 TraesCS5A01G200300 chr3B 765732904 765733666 762 False 1164.0 1164 94.248000 3121 3881 1 chr3B.!!$F1 760
8 TraesCS5A01G200300 chr3A 371251236 371252069 833 False 1155.0 1155 91.976000 1 818 1 chr3A.!!$F1 817
9 TraesCS5A01G200300 chr2D 535568984 535569800 816 False 1081.0 1081 90.714000 1 821 1 chr2D.!!$F1 820
10 TraesCS5A01G200300 chr3D 283968878 283969389 511 True 390.0 619 93.329500 1 818 2 chr3D.!!$R1 817
11 TraesCS5A01G200300 chr2B 774481958 774482636 678 False 448.5 534 91.369500 1 801 2 chr2B.!!$F2 800
12 TraesCS5A01G200300 chr2B 640597647 640598551 904 False 301.0 368 91.855667 1 827 3 chr2B.!!$F1 826

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
28 29 0.036388 GCTAGCTACTTGGTGTGCCA 60.036 55.0 7.70 0.00 44.38 4.92 F
1482 7081 0.106894 GCTACTAATTCCAGCCGGCT 59.893 55.0 27.08 27.08 0.00 5.52 F
1882 7502 0.680921 CCTCATCACCCCGCATTTGT 60.681 55.0 0.00 0.00 0.00 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1803 7423 0.107214 GGTGCATCCGGATGAAGGAA 60.107 55.0 41.87 20.96 41.69 3.36 R
2846 8471 0.171903 GCCGCACTTCATCTTGCATT 59.828 50.0 0.00 0.00 38.76 3.56 R
3521 9260 0.681733 TGCTAAGATCGGAGATGCCC 59.318 55.0 1.46 0.00 45.12 5.36 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
24 25 1.405821 CGCTAGCTAGCTACTTGGTGT 59.594 52.381 36.02 0.00 46.85 4.16
26 27 2.815478 CTAGCTAGCTACTTGGTGTGC 58.185 52.381 20.67 0.00 0.00 4.57
28 29 0.036388 GCTAGCTACTTGGTGTGCCA 60.036 55.000 7.70 0.00 44.38 4.92
83 89 0.322816 CTTTAAGCAGGCAGGCAGGA 60.323 55.000 0.00 0.00 35.83 3.86
177 183 2.432628 GCTTCGGGGTCTCACACG 60.433 66.667 0.00 0.00 0.00 4.49
292 306 1.376812 GCCCTGGAGTTTGGTACGG 60.377 63.158 0.00 0.00 0.00 4.02
364 385 1.596203 CCGCGATGGACATGAGCAT 60.596 57.895 8.23 0.00 42.00 3.79
390 411 5.334337 GCGTTTTACCGGTTTAGTGAAAGAT 60.334 40.000 15.04 0.00 0.00 2.40
552 598 4.144418 CGTTGAACACGGGGGAAA 57.856 55.556 0.00 0.00 45.89 3.13
560 606 2.203938 ACGGGGGAAAGAGGAGCA 60.204 61.111 0.00 0.00 0.00 4.26
563 609 1.925972 GGGGGAAAGAGGAGCAGGT 60.926 63.158 0.00 0.00 0.00 4.00
583 827 2.268920 GAGAGATGGCGGTGGCAA 59.731 61.111 0.00 0.00 42.43 4.52
632 876 6.560304 AGGTCCATGACATTAGAGGATACATT 59.440 38.462 0.00 0.00 34.22 2.71
694 939 1.303317 GGTCAAAGGGCCACGTCAT 60.303 57.895 6.18 0.00 0.00 3.06
739 1007 8.421249 TGAAACACTTATGAAAGATTTGGGAT 57.579 30.769 0.00 0.00 36.50 3.85
782 1050 7.797121 AGATTTAGGACCCATTTGACATTTT 57.203 32.000 0.00 0.00 0.00 1.82
785 1053 6.739331 TTAGGACCCATTTGACATTTTTGT 57.261 33.333 0.00 0.00 0.00 2.83
823 1091 3.788163 GCGCATGCATTTTACTCTTTCTC 59.212 43.478 19.57 0.00 42.15 2.87
827 1095 6.183359 CGCATGCATTTTACTCTTTCTCAAAC 60.183 38.462 19.57 0.00 0.00 2.93
828 1096 6.865205 GCATGCATTTTACTCTTTCTCAAACT 59.135 34.615 14.21 0.00 0.00 2.66
829 1097 7.383300 GCATGCATTTTACTCTTTCTCAAACTT 59.617 33.333 14.21 0.00 0.00 2.66
830 1098 8.909671 CATGCATTTTACTCTTTCTCAAACTTC 58.090 33.333 0.00 0.00 0.00 3.01
831 1099 7.132213 TGCATTTTACTCTTTCTCAAACTTCG 58.868 34.615 0.00 0.00 0.00 3.79
832 1100 6.578919 GCATTTTACTCTTTCTCAAACTTCGG 59.421 38.462 0.00 0.00 0.00 4.30
833 1101 7.519970 GCATTTTACTCTTTCTCAAACTTCGGA 60.520 37.037 0.00 0.00 0.00 4.55
834 1102 7.478520 TTTTACTCTTTCTCAAACTTCGGAG 57.521 36.000 0.00 0.00 0.00 4.63
835 1103 3.996480 ACTCTTTCTCAAACTTCGGAGG 58.004 45.455 0.00 0.00 0.00 4.30
836 1104 3.244249 ACTCTTTCTCAAACTTCGGAGGG 60.244 47.826 0.00 0.00 0.00 4.30
837 1105 2.704065 TCTTTCTCAAACTTCGGAGGGT 59.296 45.455 0.00 0.00 0.00 4.34
838 1106 2.833631 TTCTCAAACTTCGGAGGGTC 57.166 50.000 0.00 0.00 0.00 4.46
839 1107 1.712056 TCTCAAACTTCGGAGGGTCA 58.288 50.000 0.00 0.00 0.00 4.02
840 1108 2.257207 TCTCAAACTTCGGAGGGTCAT 58.743 47.619 0.00 0.00 0.00 3.06
841 1109 2.028112 TCTCAAACTTCGGAGGGTCATG 60.028 50.000 0.00 0.00 0.00 3.07
842 1110 1.697432 TCAAACTTCGGAGGGTCATGT 59.303 47.619 0.00 0.00 0.00 3.21
843 1111 1.806542 CAAACTTCGGAGGGTCATGTG 59.193 52.381 0.00 0.00 0.00 3.21
844 1112 0.324943 AACTTCGGAGGGTCATGTGG 59.675 55.000 0.00 0.00 0.00 4.17
845 1113 0.544357 ACTTCGGAGGGTCATGTGGA 60.544 55.000 0.00 0.00 0.00 4.02
846 1114 0.108138 CTTCGGAGGGTCATGTGGAC 60.108 60.000 0.00 0.00 46.20 4.02
847 1115 0.544357 TTCGGAGGGTCATGTGGACT 60.544 55.000 0.00 0.00 46.16 3.85
848 1116 0.544357 TCGGAGGGTCATGTGGACTT 60.544 55.000 0.00 0.00 46.16 3.01
849 1117 0.108138 CGGAGGGTCATGTGGACTTC 60.108 60.000 0.00 0.00 46.16 3.01
850 1118 1.280457 GGAGGGTCATGTGGACTTCT 58.720 55.000 0.00 0.00 46.16 2.85
851 1119 1.630878 GGAGGGTCATGTGGACTTCTT 59.369 52.381 0.00 0.00 46.16 2.52
852 1120 2.040412 GGAGGGTCATGTGGACTTCTTT 59.960 50.000 0.00 0.00 46.16 2.52
853 1121 3.339141 GAGGGTCATGTGGACTTCTTTC 58.661 50.000 0.00 0.00 46.16 2.62
854 1122 2.076863 GGGTCATGTGGACTTCTTTCG 58.923 52.381 0.00 0.00 46.16 3.46
855 1123 2.550208 GGGTCATGTGGACTTCTTTCGT 60.550 50.000 0.00 0.00 46.16 3.85
856 1124 2.480419 GGTCATGTGGACTTCTTTCGTG 59.520 50.000 0.00 0.00 46.16 4.35
857 1125 3.390135 GTCATGTGGACTTCTTTCGTGA 58.610 45.455 0.00 0.00 43.46 4.35
858 1126 3.184581 GTCATGTGGACTTCTTTCGTGAC 59.815 47.826 0.00 0.00 43.46 3.67
859 1127 2.234300 TGTGGACTTCTTTCGTGACC 57.766 50.000 0.00 0.00 0.00 4.02
860 1128 1.137513 GTGGACTTCTTTCGTGACCG 58.862 55.000 0.00 0.00 0.00 4.79
861 1129 1.034356 TGGACTTCTTTCGTGACCGA 58.966 50.000 0.00 0.00 42.41 4.69
869 1137 2.649034 TCGTGACCGAACCAGAGC 59.351 61.111 0.00 0.00 40.86 4.09
870 1138 2.805353 CGTGACCGAACCAGAGCG 60.805 66.667 0.00 0.00 35.63 5.03
871 1139 3.112709 GTGACCGAACCAGAGCGC 61.113 66.667 0.00 0.00 0.00 5.92
872 1140 3.611674 TGACCGAACCAGAGCGCA 61.612 61.111 11.47 0.00 0.00 6.09
873 1141 2.357034 GACCGAACCAGAGCGCAA 60.357 61.111 11.47 0.00 0.00 4.85
874 1142 2.357517 ACCGAACCAGAGCGCAAG 60.358 61.111 11.47 0.00 43.44 4.01
887 1155 4.392576 GCAAGCGGCGGCGTAAAA 62.393 61.111 32.35 0.00 46.35 1.52
888 1156 2.202298 CAAGCGGCGGCGTAAAAG 60.202 61.111 32.35 14.30 46.35 2.27
889 1157 2.667199 AAGCGGCGGCGTAAAAGT 60.667 55.556 32.35 8.87 46.35 2.66
890 1158 2.961669 AAGCGGCGGCGTAAAAGTG 61.962 57.895 32.35 2.19 46.35 3.16
891 1159 4.454717 GCGGCGGCGTAAAAGTGG 62.455 66.667 32.35 1.38 0.00 4.00
892 1160 3.795342 CGGCGGCGTAAAAGTGGG 61.795 66.667 24.74 0.00 0.00 4.61
893 1161 3.436924 GGCGGCGTAAAAGTGGGG 61.437 66.667 9.37 0.00 0.00 4.96
894 1162 3.436924 GCGGCGTAAAAGTGGGGG 61.437 66.667 9.37 0.00 0.00 5.40
895 1163 3.436924 CGGCGTAAAAGTGGGGGC 61.437 66.667 0.00 0.00 0.00 5.80
896 1164 2.282603 GGCGTAAAAGTGGGGGCA 60.283 61.111 0.00 0.00 0.00 5.36
913 1181 0.468226 GCACCGGACAGATGGGAATA 59.532 55.000 9.46 0.00 0.00 1.75
926 1194 1.618837 TGGGAATAGATCTAGGCGCAC 59.381 52.381 10.83 0.00 0.00 5.34
944 1215 2.261671 GCGGGTGTCGTCAGTGAT 59.738 61.111 0.00 0.00 41.72 3.06
952 1223 1.546029 TGTCGTCAGTGATTCCTGAGG 59.454 52.381 13.90 13.90 44.66 3.86
954 1225 2.095461 TCGTCAGTGATTCCTGAGGAG 58.905 52.381 16.66 0.00 46.04 3.69
960 1231 2.842496 AGTGATTCCTGAGGAGCATCAA 59.158 45.455 15.50 0.00 32.75 2.57
963 1234 2.775911 TTCCTGAGGAGCATCAACAG 57.224 50.000 0.00 0.00 38.73 3.16
966 1237 0.108472 CTGAGGAGCATCAACAGCGA 60.108 55.000 0.00 0.00 36.25 4.93
994 1265 2.760385 GGAGGTCCGACAGAGGGG 60.760 72.222 0.00 0.00 0.00 4.79
1063 1636 0.541863 AAGCTACTCCCACCATTCCG 59.458 55.000 0.00 0.00 0.00 4.30
1164 1737 7.315142 TGCTGAAATTGATAAGACATGGTTTC 58.685 34.615 0.00 0.00 0.00 2.78
1165 1738 6.470235 GCTGAAATTGATAAGACATGGTTTCG 59.530 38.462 0.00 0.00 0.00 3.46
1166 1739 6.321717 TGAAATTGATAAGACATGGTTTCGC 58.678 36.000 0.00 0.00 0.00 4.70
1167 1740 6.150976 TGAAATTGATAAGACATGGTTTCGCT 59.849 34.615 0.00 0.00 0.00 4.93
1168 1741 7.335673 TGAAATTGATAAGACATGGTTTCGCTA 59.664 33.333 0.00 0.00 0.00 4.26
1169 1742 6.604735 ATTGATAAGACATGGTTTCGCTAC 57.395 37.500 0.00 0.00 0.00 3.58
1170 1743 5.079689 TGATAAGACATGGTTTCGCTACA 57.920 39.130 0.00 0.00 0.00 2.74
1171 1744 5.670485 TGATAAGACATGGTTTCGCTACAT 58.330 37.500 0.00 0.00 0.00 2.29
1172 1745 5.753438 TGATAAGACATGGTTTCGCTACATC 59.247 40.000 0.00 0.00 0.00 3.06
1173 1746 3.895232 AGACATGGTTTCGCTACATCT 57.105 42.857 0.00 0.00 0.00 2.90
1174 1747 3.525537 AGACATGGTTTCGCTACATCTG 58.474 45.455 0.00 0.00 0.00 2.90
1175 1748 2.009774 ACATGGTTTCGCTACATCTGC 58.990 47.619 0.00 0.00 0.00 4.26
1176 1749 2.283298 CATGGTTTCGCTACATCTGCT 58.717 47.619 0.00 0.00 0.00 4.24
1177 1750 3.118775 ACATGGTTTCGCTACATCTGCTA 60.119 43.478 0.00 0.00 0.00 3.49
1178 1751 3.165058 TGGTTTCGCTACATCTGCTAG 57.835 47.619 0.00 0.00 0.00 3.42
1179 1752 1.861575 GGTTTCGCTACATCTGCTAGC 59.138 52.381 8.10 8.10 34.39 3.42
1180 1753 2.540515 GTTTCGCTACATCTGCTAGCA 58.459 47.619 18.22 18.22 37.10 3.49
1181 1754 2.930040 GTTTCGCTACATCTGCTAGCAA 59.070 45.455 19.86 10.28 37.10 3.91
1182 1755 3.459232 TTCGCTACATCTGCTAGCAAT 57.541 42.857 19.86 12.13 37.10 3.56
1183 1756 3.459232 TCGCTACATCTGCTAGCAATT 57.541 42.857 19.86 6.04 37.10 2.32
1184 1757 3.797039 TCGCTACATCTGCTAGCAATTT 58.203 40.909 19.86 10.57 37.10 1.82
1185 1758 3.804325 TCGCTACATCTGCTAGCAATTTC 59.196 43.478 19.86 3.68 37.10 2.17
1186 1759 3.557185 CGCTACATCTGCTAGCAATTTCA 59.443 43.478 19.86 3.45 37.10 2.69
1187 1760 4.551603 CGCTACATCTGCTAGCAATTTCAC 60.552 45.833 19.86 5.11 37.10 3.18
1188 1761 4.574013 GCTACATCTGCTAGCAATTTCACT 59.426 41.667 19.86 0.33 37.22 3.41
1189 1762 4.959596 ACATCTGCTAGCAATTTCACTG 57.040 40.909 19.86 10.32 0.00 3.66
1190 1763 4.582869 ACATCTGCTAGCAATTTCACTGA 58.417 39.130 19.86 10.11 0.00 3.41
1191 1764 4.634883 ACATCTGCTAGCAATTTCACTGAG 59.365 41.667 19.86 2.81 0.00 3.35
1192 1765 4.541973 TCTGCTAGCAATTTCACTGAGA 57.458 40.909 19.86 5.37 0.00 3.27
1193 1766 5.095145 TCTGCTAGCAATTTCACTGAGAT 57.905 39.130 19.86 0.00 0.00 2.75
1194 1767 5.114780 TCTGCTAGCAATTTCACTGAGATC 58.885 41.667 19.86 0.00 0.00 2.75
1195 1768 4.194640 TGCTAGCAATTTCACTGAGATCC 58.805 43.478 16.84 0.00 0.00 3.36
1196 1769 3.247173 GCTAGCAATTTCACTGAGATCCG 59.753 47.826 10.63 0.00 0.00 4.18
1197 1770 3.340814 AGCAATTTCACTGAGATCCGT 57.659 42.857 0.00 0.00 0.00 4.69
1198 1771 3.265791 AGCAATTTCACTGAGATCCGTC 58.734 45.455 0.00 0.00 0.00 4.79
1199 1772 3.055530 AGCAATTTCACTGAGATCCGTCT 60.056 43.478 0.00 0.00 37.42 4.18
1215 1788 1.195900 CGTCTCGCTACATCTCCTAGC 59.804 57.143 0.00 0.00 34.39 3.42
1221 1794 4.621991 TCGCTACATCTCCTAGCAATTTC 58.378 43.478 0.00 0.00 37.10 2.17
1225 1798 5.695816 GCTACATCTCCTAGCAATTTCTCTG 59.304 44.000 0.00 0.00 37.22 3.35
1229 1802 5.336150 TCTCCTAGCAATTTCTCTGTGAG 57.664 43.478 0.00 0.00 0.00 3.51
1232 1805 5.911752 TCCTAGCAATTTCTCTGTGAGATC 58.088 41.667 0.00 0.00 38.56 2.75
1233 1806 5.055812 CCTAGCAATTTCTCTGTGAGATCC 58.944 45.833 0.00 0.00 38.56 3.36
1236 6835 3.308323 GCAATTTCTCTGTGAGATCCGTC 59.692 47.826 0.00 0.00 38.56 4.79
1271 6870 5.055812 CCTAGCAATTTCTCTGTGAGATCC 58.944 45.833 0.00 0.00 38.56 3.36
1291 6890 1.195900 CGTCTCGCTACATCTCCTAGC 59.804 57.143 0.00 0.00 34.39 3.42
1299 6898 4.683781 CGCTACATCTCCTAGCAATTTCTC 59.316 45.833 0.00 0.00 37.10 2.87
1300 6899 5.508825 CGCTACATCTCCTAGCAATTTCTCT 60.509 44.000 0.00 0.00 37.10 3.10
1301 6900 5.695816 GCTACATCTCCTAGCAATTTCTCTG 59.304 44.000 0.00 0.00 37.22 3.35
1302 6901 5.690464 ACATCTCCTAGCAATTTCTCTGT 57.310 39.130 0.00 0.00 0.00 3.41
1303 6902 5.426504 ACATCTCCTAGCAATTTCTCTGTG 58.573 41.667 0.00 0.00 0.00 3.66
1304 6903 5.188555 ACATCTCCTAGCAATTTCTCTGTGA 59.811 40.000 0.00 0.00 0.00 3.58
1305 6904 5.336150 TCTCCTAGCAATTTCTCTGTGAG 57.664 43.478 0.00 0.00 0.00 3.51
1306 6905 5.019470 TCTCCTAGCAATTTCTCTGTGAGA 58.981 41.667 0.00 0.00 36.86 3.27
1307 6906 5.660417 TCTCCTAGCAATTTCTCTGTGAGAT 59.340 40.000 0.00 0.00 38.56 2.75
1308 6907 5.911752 TCCTAGCAATTTCTCTGTGAGATC 58.088 41.667 0.00 0.00 38.56 2.75
1309 6908 5.055812 CCTAGCAATTTCTCTGTGAGATCC 58.944 45.833 0.00 0.00 38.56 3.36
1310 6909 3.529533 AGCAATTTCTCTGTGAGATCCG 58.470 45.455 0.00 0.00 38.56 4.18
1311 6910 3.055530 AGCAATTTCTCTGTGAGATCCGT 60.056 43.478 0.00 0.00 38.56 4.69
1312 6911 3.308323 GCAATTTCTCTGTGAGATCCGTC 59.692 47.826 0.00 0.00 38.56 4.79
1313 6912 4.753233 CAATTTCTCTGTGAGATCCGTCT 58.247 43.478 0.00 0.00 38.56 4.18
1322 6921 2.323939 GAGATCCGTCTCGCTACATG 57.676 55.000 0.00 0.00 41.35 3.21
1323 6922 1.604755 GAGATCCGTCTCGCTACATGT 59.395 52.381 2.69 2.69 41.35 3.21
1324 6923 2.025155 AGATCCGTCTCGCTACATGTT 58.975 47.619 2.30 0.00 0.00 2.71
1325 6924 2.427453 AGATCCGTCTCGCTACATGTTT 59.573 45.455 2.30 0.00 0.00 2.83
1326 6925 2.273370 TCCGTCTCGCTACATGTTTC 57.727 50.000 2.30 0.00 0.00 2.78
1327 6926 1.816835 TCCGTCTCGCTACATGTTTCT 59.183 47.619 2.30 0.00 0.00 2.52
1328 6927 2.230508 TCCGTCTCGCTACATGTTTCTT 59.769 45.455 2.30 0.00 0.00 2.52
1482 7081 0.106894 GCTACTAATTCCAGCCGGCT 59.893 55.000 27.08 27.08 0.00 5.52
1770 7390 3.941483 CACTCCTGAAGTTCAAGTGTGTT 59.059 43.478 21.87 0.00 35.45 3.32
1803 7423 2.815945 CGCCATCATCTCAGGCCCT 61.816 63.158 0.00 0.00 45.56 5.19
1882 7502 0.680921 CCTCATCACCCCGCATTTGT 60.681 55.000 0.00 0.00 0.00 2.83
1932 7552 7.039434 TGGCCAAATACATTCTCAAACAACATA 60.039 33.333 0.61 0.00 0.00 2.29
2076 7696 4.890088 TGCCCACGGATAATAAGATGTAC 58.110 43.478 0.00 0.00 0.00 2.90
2409 8029 1.975327 CAAGCTCCGTCAGAGGGAA 59.025 57.895 12.96 0.00 43.46 3.97
2516 8136 1.068055 CCAGAACTTTGCCATGAGTGC 60.068 52.381 0.00 0.00 0.00 4.40
2523 8143 2.391616 TTGCCATGAGTGCACTAGAG 57.608 50.000 21.73 11.96 38.72 2.43
2559 8179 6.405065 GCCTTGCTCAATATGAATCTTCACAA 60.405 38.462 0.00 0.00 40.49 3.33
2589 8209 1.953138 CTGGATGACGAGCGATGGC 60.953 63.158 0.00 0.00 40.37 4.40
2617 8237 1.658994 GAAATGGAACCGGCGATACA 58.341 50.000 9.30 3.83 0.00 2.29
2652 8272 2.158449 GCCATGCGTCACAATAGCTATC 59.842 50.000 6.72 0.00 0.00 2.08
2708 8333 1.616865 TCTCACGGTACAACTTCCAGG 59.383 52.381 0.00 0.00 0.00 4.45
2789 8414 1.608283 GCACTGTGGAGTACAAGGGAC 60.608 57.143 10.21 0.00 39.20 4.46
2795 8420 2.128535 TGGAGTACAAGGGACCAAACA 58.871 47.619 0.00 0.00 0.00 2.83
2810 8435 5.362556 ACCAAACATGTTCTTCTTCGATG 57.637 39.130 12.39 2.87 0.00 3.84
2818 8443 5.152623 TGTTCTTCTTCGATGTGATTCCT 57.847 39.130 0.00 0.00 0.00 3.36
2834 8459 5.346281 GTGATTCCTTACACAGAAAGTCTCG 59.654 44.000 0.00 0.00 37.05 4.04
2846 8471 2.005370 AAGTCTCGTTCCCCTACACA 57.995 50.000 0.00 0.00 0.00 3.72
2864 8489 1.200716 ACAATGCAAGATGAAGTGCGG 59.799 47.619 0.00 0.00 43.93 5.69
2866 8491 1.985447 ATGCAAGATGAAGTGCGGCG 61.985 55.000 0.51 0.51 43.93 6.46
2869 8494 2.103042 AAGATGAAGTGCGGCGCTC 61.103 57.895 33.26 28.92 0.00 5.03
2875 8511 0.446222 GAAGTGCGGCGCTCAATTTA 59.554 50.000 33.26 7.71 0.00 1.40
2876 8512 1.064060 GAAGTGCGGCGCTCAATTTAT 59.936 47.619 33.26 9.42 0.00 1.40
2877 8513 0.378257 AGTGCGGCGCTCAATTTATG 59.622 50.000 33.26 0.00 0.00 1.90
2878 8514 0.098728 GTGCGGCGCTCAATTTATGT 59.901 50.000 33.26 0.00 0.00 2.29
2879 8515 1.329292 GTGCGGCGCTCAATTTATGTA 59.671 47.619 33.26 4.50 0.00 2.29
2880 8516 2.010497 TGCGGCGCTCAATTTATGTAA 58.990 42.857 33.26 4.26 0.00 2.41
2881 8517 2.616376 TGCGGCGCTCAATTTATGTAAT 59.384 40.909 33.26 0.00 0.00 1.89
2882 8518 3.810386 TGCGGCGCTCAATTTATGTAATA 59.190 39.130 33.26 2.99 0.00 0.98
2883 8519 4.084066 TGCGGCGCTCAATTTATGTAATAG 60.084 41.667 33.26 0.00 0.00 1.73
2884 8520 4.084013 GCGGCGCTCAATTTATGTAATAGT 60.084 41.667 26.86 0.00 0.00 2.12
2885 8521 5.560183 GCGGCGCTCAATTTATGTAATAGTT 60.560 40.000 26.86 0.00 0.00 2.24
2949 8668 2.162681 AGTTGTATTTGAGCCACTGCC 58.837 47.619 0.00 0.00 38.69 4.85
3095 8815 7.362401 CCAAAACAACAAATTTCCCATCACAAA 60.362 33.333 0.00 0.00 0.00 2.83
3100 8820 6.172136 ACAAATTTCCCATCACAAATCACA 57.828 33.333 0.00 0.00 0.00 3.58
3306 9037 5.816955 AAATACATAGCCTCCTCTTCTCC 57.183 43.478 0.00 0.00 0.00 3.71
3307 9038 2.856760 ACATAGCCTCCTCTTCTCCA 57.143 50.000 0.00 0.00 0.00 3.86
3308 9039 2.676748 ACATAGCCTCCTCTTCTCCAG 58.323 52.381 0.00 0.00 0.00 3.86
3309 9040 2.246067 ACATAGCCTCCTCTTCTCCAGA 59.754 50.000 0.00 0.00 0.00 3.86
3310 9041 3.303938 CATAGCCTCCTCTTCTCCAGAA 58.696 50.000 0.00 0.00 0.00 3.02
3311 9042 2.566708 AGCCTCCTCTTCTCCAGAAT 57.433 50.000 0.00 0.00 33.01 2.40
3381 9113 3.624777 AGTAGAAATCATGCCCACAAGG 58.375 45.455 0.00 0.00 39.47 3.61
3521 9260 6.128580 GCCAAATTGTAAGCAACATTACCTTG 60.129 38.462 0.00 0.00 38.10 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.302431 CCAGGTTCATGTCGTGGCA 60.302 57.895 15.09 0.00 34.80 4.92
26 27 0.034756 TCACCAGGTTCATGTCGTGG 59.965 55.000 21.22 21.22 43.67 4.94
28 29 0.034896 GGTCACCAGGTTCATGTCGT 59.965 55.000 0.00 0.00 0.00 4.34
83 89 2.212420 AGCTCCCTGAAAATCCATCCT 58.788 47.619 0.00 0.00 0.00 3.24
292 306 2.434359 GTAGCCGGCACTGTGGTC 60.434 66.667 31.54 5.35 0.00 4.02
296 310 3.596066 CTGCAGTAGCCGGCACTGT 62.596 63.158 36.83 21.41 44.30 3.55
351 372 0.394762 AACGCCATGCTCATGTCCAT 60.395 50.000 8.81 0.00 37.11 3.41
364 385 1.872313 CACTAAACCGGTAAAACGCCA 59.128 47.619 8.00 0.00 0.00 5.69
390 411 4.878987 ACCACCCGGTAGATCACA 57.121 55.556 0.00 0.00 46.71 3.58
552 598 1.602440 TCTCTCCTACCTGCTCCTCT 58.398 55.000 0.00 0.00 0.00 3.69
560 606 0.757188 CACCGCCATCTCTCCTACCT 60.757 60.000 0.00 0.00 0.00 3.08
563 609 2.134287 GCCACCGCCATCTCTCCTA 61.134 63.158 0.00 0.00 0.00 2.94
583 827 1.258445 CCTCCTCCGTGCTGTTAGGT 61.258 60.000 0.00 0.00 0.00 3.08
632 876 2.022240 GCACAAAACCCCCTGCGAAA 62.022 55.000 0.00 0.00 0.00 3.46
718 986 6.625740 CGCAATCCCAAATCTTTCATAAGTGT 60.626 38.462 0.00 0.00 32.98 3.55
782 1050 3.125658 GCGCGGTCCTAATTCTTTTACAA 59.874 43.478 8.83 0.00 0.00 2.41
785 1053 2.975266 TGCGCGGTCCTAATTCTTTTA 58.025 42.857 8.83 0.00 0.00 1.52
823 1091 1.806542 CACATGACCCTCCGAAGTTTG 59.193 52.381 0.00 0.00 0.00 2.93
827 1095 0.108138 GTCCACATGACCCTCCGAAG 60.108 60.000 0.00 0.00 38.09 3.79
828 1096 0.544357 AGTCCACATGACCCTCCGAA 60.544 55.000 0.00 0.00 45.68 4.30
829 1097 0.544357 AAGTCCACATGACCCTCCGA 60.544 55.000 0.00 0.00 45.68 4.55
830 1098 0.108138 GAAGTCCACATGACCCTCCG 60.108 60.000 0.00 0.00 45.68 4.63
831 1099 1.280457 AGAAGTCCACATGACCCTCC 58.720 55.000 0.00 0.00 45.68 4.30
832 1100 3.339141 GAAAGAAGTCCACATGACCCTC 58.661 50.000 0.00 0.00 45.68 4.30
833 1101 2.289694 CGAAAGAAGTCCACATGACCCT 60.290 50.000 0.00 0.00 45.68 4.34
834 1102 2.076863 CGAAAGAAGTCCACATGACCC 58.923 52.381 0.00 0.00 45.68 4.46
835 1103 2.480419 CACGAAAGAAGTCCACATGACC 59.520 50.000 0.00 0.00 45.68 4.02
836 1104 3.184581 GTCACGAAAGAAGTCCACATGAC 59.815 47.826 0.00 0.00 44.82 3.06
837 1105 3.390135 GTCACGAAAGAAGTCCACATGA 58.610 45.455 0.00 0.00 0.00 3.07
838 1106 2.480419 GGTCACGAAAGAAGTCCACATG 59.520 50.000 0.00 0.00 0.00 3.21
839 1107 2.767505 GGTCACGAAAGAAGTCCACAT 58.232 47.619 0.00 0.00 0.00 3.21
840 1108 1.537348 CGGTCACGAAAGAAGTCCACA 60.537 52.381 0.00 0.00 44.60 4.17
841 1109 1.137513 CGGTCACGAAAGAAGTCCAC 58.862 55.000 0.00 0.00 44.60 4.02
842 1110 3.580904 CGGTCACGAAAGAAGTCCA 57.419 52.632 0.00 0.00 44.60 4.02
853 1121 2.805353 CGCTCTGGTTCGGTCACG 60.805 66.667 0.00 0.00 42.74 4.35
854 1122 3.112709 GCGCTCTGGTTCGGTCAC 61.113 66.667 0.00 0.00 0.00 3.67
855 1123 3.158537 TTGCGCTCTGGTTCGGTCA 62.159 57.895 9.73 0.00 0.00 4.02
856 1124 2.357034 TTGCGCTCTGGTTCGGTC 60.357 61.111 9.73 0.00 0.00 4.79
857 1125 2.357517 CTTGCGCTCTGGTTCGGT 60.358 61.111 9.73 0.00 0.00 4.69
858 1126 3.793144 GCTTGCGCTCTGGTTCGG 61.793 66.667 9.73 0.00 0.00 4.30
859 1127 4.139420 CGCTTGCGCTCTGGTTCG 62.139 66.667 9.73 0.00 0.00 3.95
860 1128 3.793144 CCGCTTGCGCTCTGGTTC 61.793 66.667 9.73 0.00 0.00 3.62
870 1138 4.392576 TTTTACGCCGCCGCTTGC 62.393 61.111 0.00 0.00 38.22 4.01
871 1139 2.202298 CTTTTACGCCGCCGCTTG 60.202 61.111 0.00 0.00 38.22 4.01
872 1140 2.667199 ACTTTTACGCCGCCGCTT 60.667 55.556 0.00 0.00 38.22 4.68
873 1141 3.419759 CACTTTTACGCCGCCGCT 61.420 61.111 0.00 0.00 38.22 5.52
874 1142 4.454717 CCACTTTTACGCCGCCGC 62.455 66.667 0.00 0.00 38.22 6.53
875 1143 3.795342 CCCACTTTTACGCCGCCG 61.795 66.667 0.00 0.00 41.14 6.46
876 1144 3.436924 CCCCACTTTTACGCCGCC 61.437 66.667 0.00 0.00 0.00 6.13
877 1145 3.436924 CCCCCACTTTTACGCCGC 61.437 66.667 0.00 0.00 0.00 6.53
878 1146 3.436924 GCCCCCACTTTTACGCCG 61.437 66.667 0.00 0.00 0.00 6.46
879 1147 2.282603 TGCCCCCACTTTTACGCC 60.283 61.111 0.00 0.00 0.00 5.68
880 1148 2.632544 GGTGCCCCCACTTTTACGC 61.633 63.158 0.00 0.00 41.75 4.42
881 1149 2.329614 CGGTGCCCCCACTTTTACG 61.330 63.158 0.00 0.00 41.75 3.18
882 1150 1.974875 CCGGTGCCCCCACTTTTAC 60.975 63.158 0.00 0.00 41.75 2.01
883 1151 2.154747 TCCGGTGCCCCCACTTTTA 61.155 57.895 0.00 0.00 41.75 1.52
884 1152 3.503839 TCCGGTGCCCCCACTTTT 61.504 61.111 0.00 0.00 41.75 2.27
885 1153 4.280019 GTCCGGTGCCCCCACTTT 62.280 66.667 0.00 0.00 41.75 2.66
890 1158 4.489771 CATCTGTCCGGTGCCCCC 62.490 72.222 0.00 0.00 0.00 5.40
891 1159 4.489771 CCATCTGTCCGGTGCCCC 62.490 72.222 0.00 0.00 0.00 5.80
892 1160 4.489771 CCCATCTGTCCGGTGCCC 62.490 72.222 0.00 0.00 0.00 5.36
893 1161 2.270874 ATTCCCATCTGTCCGGTGCC 62.271 60.000 0.00 0.00 0.00 5.01
894 1162 0.468226 TATTCCCATCTGTCCGGTGC 59.532 55.000 0.00 0.00 0.00 5.01
895 1163 2.039418 TCTATTCCCATCTGTCCGGTG 58.961 52.381 0.00 0.00 0.00 4.94
896 1164 2.471815 TCTATTCCCATCTGTCCGGT 57.528 50.000 0.00 0.00 0.00 5.28
913 1181 4.271816 CCGCGTGCGCCTAGATCT 62.272 66.667 9.07 0.00 37.98 2.75
926 1194 3.626680 ATCACTGACGACACCCGCG 62.627 63.158 0.00 0.00 43.32 6.46
944 1215 1.339438 GCTGTTGATGCTCCTCAGGAA 60.339 52.381 0.00 0.00 0.00 3.36
952 1223 3.084579 CCGTCGCTGTTGATGCTC 58.915 61.111 0.00 0.00 0.00 4.26
954 1225 4.505217 CGCCGTCGCTGTTGATGC 62.505 66.667 0.00 0.00 0.00 3.91
984 1255 1.819229 CATCCAGTCCCCTCTGTCG 59.181 63.158 0.00 0.00 34.02 4.35
1063 1636 2.880890 CTGTGATTGGGGCATAGTAAGC 59.119 50.000 0.00 0.00 0.00 3.09
1102 1675 4.039124 GCAACCCCTTGATTTGAAAGAGAA 59.961 41.667 0.00 0.00 0.00 2.87
1104 1677 3.306294 GGCAACCCCTTGATTTGAAAGAG 60.306 47.826 0.00 0.00 0.00 2.85
1105 1678 2.632512 GGCAACCCCTTGATTTGAAAGA 59.367 45.455 0.00 0.00 0.00 2.52
1106 1679 3.044235 GGCAACCCCTTGATTTGAAAG 57.956 47.619 0.00 0.00 0.00 2.62
1140 1713 6.470235 CGAAACCATGTCTTATCAATTTCAGC 59.530 38.462 0.00 0.00 0.00 4.26
1143 1716 6.555315 AGCGAAACCATGTCTTATCAATTTC 58.445 36.000 0.00 0.00 0.00 2.17
1164 1737 3.557185 TGAAATTGCTAGCAGATGTAGCG 59.443 43.478 18.45 0.00 45.05 4.26
1165 1738 4.574013 AGTGAAATTGCTAGCAGATGTAGC 59.426 41.667 18.45 7.21 42.84 3.58
1166 1739 5.814188 TCAGTGAAATTGCTAGCAGATGTAG 59.186 40.000 18.45 5.74 0.00 2.74
1167 1740 5.733676 TCAGTGAAATTGCTAGCAGATGTA 58.266 37.500 18.45 2.54 0.00 2.29
1168 1741 4.582869 TCAGTGAAATTGCTAGCAGATGT 58.417 39.130 18.45 9.62 0.00 3.06
1169 1742 4.874396 TCTCAGTGAAATTGCTAGCAGATG 59.126 41.667 18.45 9.89 0.00 2.90
1170 1743 5.095145 TCTCAGTGAAATTGCTAGCAGAT 57.905 39.130 18.45 11.53 0.00 2.90
1171 1744 4.541973 TCTCAGTGAAATTGCTAGCAGA 57.458 40.909 18.45 9.64 0.00 4.26
1172 1745 4.272991 GGATCTCAGTGAAATTGCTAGCAG 59.727 45.833 18.45 3.66 0.00 4.24
1173 1746 4.194640 GGATCTCAGTGAAATTGCTAGCA 58.805 43.478 14.93 14.93 0.00 3.49
1174 1747 3.247173 CGGATCTCAGTGAAATTGCTAGC 59.753 47.826 8.10 8.10 0.00 3.42
1175 1748 4.437239 ACGGATCTCAGTGAAATTGCTAG 58.563 43.478 0.00 0.00 0.00 3.42
1176 1749 4.160439 AGACGGATCTCAGTGAAATTGCTA 59.840 41.667 0.00 0.00 0.00 3.49
1177 1750 3.055530 AGACGGATCTCAGTGAAATTGCT 60.056 43.478 0.00 0.00 0.00 3.91
1178 1751 3.265791 AGACGGATCTCAGTGAAATTGC 58.734 45.455 0.00 0.00 0.00 3.56
1189 1762 2.147958 AGATGTAGCGAGACGGATCTC 58.852 52.381 0.00 0.00 46.98 2.75
1190 1763 2.147958 GAGATGTAGCGAGACGGATCT 58.852 52.381 0.00 0.00 38.15 2.75
1191 1764 1.198178 GGAGATGTAGCGAGACGGATC 59.802 57.143 0.00 0.00 0.00 3.36
1192 1765 1.202830 AGGAGATGTAGCGAGACGGAT 60.203 52.381 0.00 0.00 0.00 4.18
1193 1766 0.180642 AGGAGATGTAGCGAGACGGA 59.819 55.000 0.00 0.00 0.00 4.69
1194 1767 1.801771 CTAGGAGATGTAGCGAGACGG 59.198 57.143 0.00 0.00 0.00 4.79
1195 1768 1.195900 GCTAGGAGATGTAGCGAGACG 59.804 57.143 0.00 0.00 33.95 4.18
1196 1769 2.222886 TGCTAGGAGATGTAGCGAGAC 58.777 52.381 0.00 0.00 45.05 3.36
1197 1770 2.640316 TGCTAGGAGATGTAGCGAGA 57.360 50.000 0.00 0.00 45.05 4.04
1198 1771 3.932545 ATTGCTAGGAGATGTAGCGAG 57.067 47.619 0.00 0.00 45.05 5.03
1199 1772 4.342378 AGAAATTGCTAGGAGATGTAGCGA 59.658 41.667 0.00 0.00 45.05 4.93
1200 1773 4.626042 AGAAATTGCTAGGAGATGTAGCG 58.374 43.478 0.00 0.00 45.05 4.26
1201 1774 5.695816 CAGAGAAATTGCTAGGAGATGTAGC 59.304 44.000 0.00 0.00 42.84 3.58
1215 1788 4.753233 AGACGGATCTCACAGAGAAATTG 58.247 43.478 0.29 0.00 42.27 2.32
1229 1802 1.198178 GGAGATGTAGCGAGACGGATC 59.802 57.143 0.00 0.00 0.00 3.36
1232 1805 1.801771 CTAGGAGATGTAGCGAGACGG 59.198 57.143 0.00 0.00 0.00 4.79
1233 1806 1.195900 GCTAGGAGATGTAGCGAGACG 59.804 57.143 0.00 0.00 33.95 4.18
1236 6835 3.932545 ATTGCTAGGAGATGTAGCGAG 57.067 47.619 0.00 0.00 45.05 5.03
1271 6870 1.195900 GCTAGGAGATGTAGCGAGACG 59.804 57.143 0.00 0.00 33.95 4.18
1291 6890 4.753233 AGACGGATCTCACAGAGAAATTG 58.247 43.478 0.29 0.00 42.27 2.32
1303 6902 1.604755 ACATGTAGCGAGACGGATCTC 59.395 52.381 0.00 0.00 46.98 2.75
1304 6903 1.681538 ACATGTAGCGAGACGGATCT 58.318 50.000 0.00 0.00 38.15 2.75
1305 6904 2.493713 AACATGTAGCGAGACGGATC 57.506 50.000 0.00 0.00 0.00 3.36
1306 6905 2.427453 AGAAACATGTAGCGAGACGGAT 59.573 45.455 0.00 0.00 0.00 4.18
1307 6906 1.816835 AGAAACATGTAGCGAGACGGA 59.183 47.619 0.00 0.00 0.00 4.69
1308 6907 2.279582 AGAAACATGTAGCGAGACGG 57.720 50.000 0.00 0.00 0.00 4.79
1309 6908 3.428870 ACAAAGAAACATGTAGCGAGACG 59.571 43.478 0.00 0.00 0.00 4.18
1310 6909 4.447724 TCACAAAGAAACATGTAGCGAGAC 59.552 41.667 0.00 0.00 0.00 3.36
1311 6910 4.627058 TCACAAAGAAACATGTAGCGAGA 58.373 39.130 0.00 0.00 0.00 4.04
1312 6911 4.686091 TCTCACAAAGAAACATGTAGCGAG 59.314 41.667 0.00 0.00 0.00 5.03
1313 6912 4.627058 TCTCACAAAGAAACATGTAGCGA 58.373 39.130 0.00 0.00 0.00 4.93
1314 6913 4.990543 TCTCACAAAGAAACATGTAGCG 57.009 40.909 0.00 0.00 0.00 4.26
1315 6914 6.148480 ACAGATCTCACAAAGAAACATGTAGC 59.852 38.462 0.00 0.00 37.61 3.58
1316 6915 7.601886 AGACAGATCTCACAAAGAAACATGTAG 59.398 37.037 0.00 0.00 37.61 2.74
1317 6916 7.445121 AGACAGATCTCACAAAGAAACATGTA 58.555 34.615 0.00 0.00 37.61 2.29
1318 6917 6.294473 AGACAGATCTCACAAAGAAACATGT 58.706 36.000 0.00 0.00 37.61 3.21
1319 6918 6.798315 AGACAGATCTCACAAAGAAACATG 57.202 37.500 0.00 0.00 37.61 3.21
1482 7081 0.750850 GGAATCGGATCGAACCCAGA 59.249 55.000 6.09 0.00 39.99 3.86
1770 7390 3.286751 GCGTGCCAGTCCTTGCAA 61.287 61.111 0.00 0.00 39.57 4.08
1803 7423 0.107214 GGTGCATCCGGATGAAGGAA 60.107 55.000 41.87 20.96 41.69 3.36
1882 7502 7.039574 CCATAAATCATCACTGGCATAATCCAA 60.040 37.037 0.00 0.00 35.36 3.53
1932 7552 0.460987 GCTGCCATCTGTAGAAGCGT 60.461 55.000 0.00 0.00 32.15 5.07
2076 7696 3.656045 GTGGCGGGGTTGACAACG 61.656 66.667 12.07 2.43 0.00 4.10
2343 7963 3.242608 TGAAGAAAGTCGCGTTTTTCCAG 60.243 43.478 23.96 0.00 34.60 3.86
2348 7968 2.032924 CCCTTGAAGAAAGTCGCGTTTT 59.967 45.455 5.77 8.59 33.66 2.43
2448 8068 1.196127 GGGGTGAAGCTAAACGTTTCG 59.804 52.381 18.42 12.77 35.81 3.46
2516 8136 1.338200 GGCACAGTTCACCCTCTAGTG 60.338 57.143 0.00 0.00 39.20 2.74
2523 8143 1.518903 GAGCAAGGCACAGTTCACCC 61.519 60.000 0.00 0.00 0.00 4.61
2559 8179 0.683179 TCATCCAGATCACGACCCGT 60.683 55.000 0.00 0.00 42.36 5.28
2589 8209 1.583054 GGTTCCATTTCGGATCCTCG 58.417 55.000 10.75 0.00 46.60 4.63
2617 8237 1.671979 CATGGCTCCACATCAACGAT 58.328 50.000 0.00 0.00 0.00 3.73
2652 8272 1.270826 TCTTGAAGTCCAGACTGCGAG 59.729 52.381 14.81 14.81 45.97 5.03
2708 8333 0.749649 ACATCCTCCACGCTCTGATC 59.250 55.000 0.00 0.00 0.00 2.92
2770 8395 1.002087 GGTCCCTTGTACTCCACAGTG 59.998 57.143 0.00 0.00 38.72 3.66
2789 8414 5.049474 TCACATCGAAGAAGAACATGTTTGG 60.049 40.000 13.36 0.00 43.58 3.28
2795 8420 5.738909 AGGAATCACATCGAAGAAGAACAT 58.261 37.500 0.00 0.00 43.58 2.71
2810 8435 5.346281 CGAGACTTTCTGTGTAAGGAATCAC 59.654 44.000 0.00 0.00 35.43 3.06
2818 8443 3.243975 GGGGAACGAGACTTTCTGTGTAA 60.244 47.826 0.00 0.00 0.00 2.41
2834 8459 2.790433 TCTTGCATTGTGTAGGGGAAC 58.210 47.619 0.00 0.00 0.00 3.62
2846 8471 0.171903 GCCGCACTTCATCTTGCATT 59.828 50.000 0.00 0.00 38.76 3.56
2912 8548 9.859427 AAATACAACTTCCATTCATACATGTTG 57.141 29.630 2.30 2.55 39.27 3.33
3095 8815 8.484214 ACCTCATGTAGTATCTACAATGTGAT 57.516 34.615 12.53 0.02 0.00 3.06
3115 8835 6.672266 CTCCCAGAGCTAATAATAACCTCA 57.328 41.667 0.00 0.00 0.00 3.86
3207 8927 3.023832 CTCCTTGTGTTGAGGTTGGTTT 58.976 45.455 0.00 0.00 35.71 3.27
3305 9036 4.728772 TGGCCACTGGATTATAATTCTGG 58.271 43.478 0.00 10.46 0.00 3.86
3306 9037 4.217118 GCTGGCCACTGGATTATAATTCTG 59.783 45.833 0.00 8.66 0.00 3.02
3307 9038 4.105377 AGCTGGCCACTGGATTATAATTCT 59.895 41.667 0.00 0.00 0.00 2.40
3308 9039 4.217118 CAGCTGGCCACTGGATTATAATTC 59.783 45.833 21.10 0.00 0.00 2.17
3309 9040 4.147321 CAGCTGGCCACTGGATTATAATT 58.853 43.478 21.10 0.00 0.00 1.40
3310 9041 3.759581 CAGCTGGCCACTGGATTATAAT 58.240 45.455 21.10 0.00 0.00 1.28
3311 9042 3.213206 CAGCTGGCCACTGGATTATAA 57.787 47.619 21.10 0.00 0.00 0.98
3396 9128 0.886563 ACTTGAGCTTGAAGCATGGC 59.113 50.000 20.45 6.21 45.56 4.40
3521 9260 0.681733 TGCTAAGATCGGAGATGCCC 59.318 55.000 1.46 0.00 45.12 5.36


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

AutoCloner maintained by Alex Coulton.