Multiple sequence alignment - TraesCS7B01G292000

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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 TraesCS7B01G292000 chr7B 100.000 3015 0 0 1 3015 528769912 528772926 0.000000e+00 5568.0
1 TraesCS7B01G292000 chr7D 93.732 1420 78 8 1605 3015 500757979 500759396 0.000000e+00 2119.0
2 TraesCS7B01G292000 chr7D 90.306 392 25 7 209 600 500745518 500745896 4.490000e-138 501.0
3 TraesCS7B01G292000 chr7D 94.297 263 14 1 616 878 500745880 500746141 4.680000e-108 401.0
4 TraesCS7B01G292000 chr7D 93.750 176 8 2 1 176 500745349 500745521 8.290000e-66 261.0
5 TraesCS7B01G292000 chr6D 86.698 1481 166 14 1041 2515 432914214 432912759 0.000000e+00 1615.0
6 TraesCS7B01G292000 chr6D 84.929 1473 185 15 1041 2499 433155104 433153655 0.000000e+00 1456.0
7 TraesCS7B01G292000 chr6D 87.062 1198 137 11 1041 2225 433280437 433279245 0.000000e+00 1338.0
8 TraesCS7B01G292000 chr6D 83.848 1393 184 29 1037 2402 433593013 433594391 0.000000e+00 1288.0
9 TraesCS7B01G292000 chr6D 79.782 1009 153 26 1973 2957 433037324 433036343 0.000000e+00 686.0
10 TraesCS7B01G292000 chr6D 87.549 257 28 3 623 878 433259131 433258878 8.170000e-76 294.0
11 TraesCS7B01G292000 chr6D 85.328 259 34 4 623 878 432914461 432914204 6.410000e-67 265.0
12 TraesCS7B01G292000 chr6D 83.730 252 39 2 628 878 433539122 433539372 1.400000e-58 237.0
13 TraesCS7B01G292000 chr7A 91.331 1142 94 2 1041 2182 566562789 566563925 0.000000e+00 1555.0
14 TraesCS7B01G292000 chr7A 90.291 412 28 5 1 403 566561920 566562328 2.060000e-146 529.0
15 TraesCS7B01G292000 chr7A 91.406 256 22 0 623 878 566562544 566562799 4.780000e-93 351.0
16 TraesCS7B01G292000 chr7A 92.241 232 16 2 2375 2605 566563955 566564185 8.060000e-86 327.0
17 TraesCS7B01G292000 chr7A 95.722 187 6 2 405 590 566562361 566562546 1.760000e-77 300.0
18 TraesCS7B01G292000 chr6B 85.308 1511 188 18 1041 2543 653856304 653854820 0.000000e+00 1530.0
19 TraesCS7B01G292000 chr6B 84.385 1505 194 20 1041 2539 653715410 653713941 0.000000e+00 1439.0
20 TraesCS7B01G292000 chr6B 81.344 1458 218 28 1527 2957 653390305 653388875 0.000000e+00 1136.0
21 TraesCS7B01G292000 chr6B 87.549 257 28 3 623 878 653715653 653715400 8.170000e-76 294.0
22 TraesCS7B01G292000 chr6B 87.160 257 29 3 623 878 653788783 653788530 3.800000e-74 289.0
23 TraesCS7B01G292000 chr6B 85.992 257 32 3 623 878 653194824 653194571 3.830000e-69 272.0
24 TraesCS7B01G292000 chr6B 74.331 635 105 31 3 590 653195445 653194822 1.820000e-52 217.0
25 TraesCS7B01G292000 chr6B 73.776 633 105 29 3 590 653716267 653715651 3.070000e-45 193.0
26 TraesCS7B01G292000 chr6A 84.193 1531 188 30 1041 2565 579124686 579123204 0.000000e+00 1437.0
27 TraesCS7B01G292000 chr6A 83.113 1516 215 32 1037 2532 579795306 579796800 0.000000e+00 1343.0
28 TraesCS7B01G292000 chr6A 84.170 259 37 4 623 878 579124933 579124676 6.450000e-62 248.0
29 TraesCS7B01G292000 chr5D 89.697 165 13 1 879 1043 196429386 196429546 1.100000e-49 207.0
30 TraesCS7B01G292000 chr4D 94.048 84 2 1 872 952 450366803 450366720 1.130000e-24 124.0
31 TraesCS7B01G292000 chr4D 87.952 83 7 2 971 1050 450360605 450360523 8.900000e-16 95.3


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 TraesCS7B01G292000 chr7B 528769912 528772926 3014 False 5568.000000 5568 100.000000 1 3015 1 chr7B.!!$F1 3014
1 TraesCS7B01G292000 chr7D 500757979 500759396 1417 False 2119.000000 2119 93.732000 1605 3015 1 chr7D.!!$F1 1410
2 TraesCS7B01G292000 chr7D 500745349 500746141 792 False 387.666667 501 92.784333 1 878 3 chr7D.!!$F2 877
3 TraesCS7B01G292000 chr6D 433153655 433155104 1449 True 1456.000000 1456 84.929000 1041 2499 1 chr6D.!!$R2 1458
4 TraesCS7B01G292000 chr6D 433279245 433280437 1192 True 1338.000000 1338 87.062000 1041 2225 1 chr6D.!!$R4 1184
5 TraesCS7B01G292000 chr6D 433593013 433594391 1378 False 1288.000000 1288 83.848000 1037 2402 1 chr6D.!!$F2 1365
6 TraesCS7B01G292000 chr6D 432912759 432914461 1702 True 940.000000 1615 86.013000 623 2515 2 chr6D.!!$R5 1892
7 TraesCS7B01G292000 chr6D 433036343 433037324 981 True 686.000000 686 79.782000 1973 2957 1 chr6D.!!$R1 984
8 TraesCS7B01G292000 chr7A 566561920 566564185 2265 False 612.400000 1555 92.198200 1 2605 5 chr7A.!!$F1 2604
9 TraesCS7B01G292000 chr6B 653854820 653856304 1484 True 1530.000000 1530 85.308000 1041 2543 1 chr6B.!!$R3 1502
10 TraesCS7B01G292000 chr6B 653388875 653390305 1430 True 1136.000000 1136 81.344000 1527 2957 1 chr6B.!!$R1 1430
11 TraesCS7B01G292000 chr6B 653713941 653716267 2326 True 642.000000 1439 81.903333 3 2539 3 chr6B.!!$R5 2536
12 TraesCS7B01G292000 chr6B 653194571 653195445 874 True 244.500000 272 80.161500 3 878 2 chr6B.!!$R4 875
13 TraesCS7B01G292000 chr6A 579795306 579796800 1494 False 1343.000000 1343 83.113000 1037 2532 1 chr6A.!!$F1 1495
14 TraesCS7B01G292000 chr6A 579123204 579124933 1729 True 842.500000 1437 84.181500 623 2565 2 chr6A.!!$R1 1942

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
75 77 0.037590 TTGACGTATGCTTGGGGCTT 59.962 50.0 0.0 0.0 42.39 4.35 F
999 1103 0.037975 GTGGTTTTGGCTCATGCTGG 60.038 55.0 0.0 0.0 39.59 4.85 F
1000 1104 0.178967 TGGTTTTGGCTCATGCTGGA 60.179 50.0 0.0 0.0 39.59 3.86 F
1925 2037 0.041090 ATGGGGAACAACATGGGGTC 59.959 55.0 0.0 0.0 0.00 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1504 1614 0.036010 CCACCAACTCTTGCTCCGAT 60.036 55.000 0.00 0.0 0.0 4.18 R
1903 2013 1.343277 CCCCATGTTGTTCCCCATGAT 60.343 52.381 0.00 0.0 40.7 2.45 R
1992 2104 1.959710 TGTAGTGGGGTAAGATGGCA 58.040 50.000 0.00 0.0 0.0 4.92 R
2996 3160 3.508840 CCAATTCGTCGGCAGCCC 61.509 66.667 5.63 0.0 0.0 5.19 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 77 0.037590 TTGACGTATGCTTGGGGCTT 59.962 50.000 0.00 0.00 42.39 4.35
81 83 3.121738 GTATGCTTGGGGCTTACGTAT 57.878 47.619 0.00 0.00 40.18 3.06
82 84 4.261578 GTATGCTTGGGGCTTACGTATA 57.738 45.455 0.00 0.00 40.18 1.47
91 96 7.438459 GCTTGGGGCTTACGTATATTCTATATG 59.562 40.741 0.00 0.00 38.06 1.78
195 200 9.712305 AGTTCTTTTAATACTATGATGATCCGG 57.288 33.333 0.00 0.00 0.00 5.14
196 201 9.490379 GTTCTTTTAATACTATGATGATCCGGT 57.510 33.333 0.00 0.00 0.00 5.28
205 210 7.598759 ACTATGATGATCCGGTTAGTTAAGT 57.401 36.000 0.00 0.00 0.00 2.24
206 211 8.019656 ACTATGATGATCCGGTTAGTTAAGTT 57.980 34.615 0.00 0.00 0.00 2.66
207 212 7.926555 ACTATGATGATCCGGTTAGTTAAGTTG 59.073 37.037 0.00 0.00 0.00 3.16
263 313 3.784701 ACAAGCGATCACGTCTAATCT 57.215 42.857 0.00 0.00 41.98 2.40
319 372 7.871463 GCTATATTCTCTGTACGTACCCAATTT 59.129 37.037 22.43 11.81 0.00 1.82
359 422 6.149633 AGTGTGACGCTTCAAATAAAATTCC 58.850 36.000 0.00 0.00 31.90 3.01
413 507 4.518970 AGACGACAACCAATGCTAAAACAT 59.481 37.500 0.00 0.00 0.00 2.71
517 619 2.182842 CGCCCACCAGATGCTAAGC 61.183 63.158 0.00 0.00 0.00 3.09
594 696 7.483018 AGACCATCTCCATCACCTATAATACT 58.517 38.462 0.00 0.00 0.00 2.12
595 697 7.958583 AGACCATCTCCATCACCTATAATACTT 59.041 37.037 0.00 0.00 0.00 2.24
596 698 9.256228 GACCATCTCCATCACCTATAATACTTA 57.744 37.037 0.00 0.00 0.00 2.24
597 699 9.615660 ACCATCTCCATCACCTATAATACTTAA 57.384 33.333 0.00 0.00 0.00 1.85
617 719 7.431249 ACTTAAATTTTCGAAAAGGAGGAACC 58.569 34.615 25.87 0.00 39.35 3.62
732 836 5.345702 CAAGCAATCCATCAAACATACCAG 58.654 41.667 0.00 0.00 0.00 4.00
743 847 3.795688 AACATACCAGGGCCATATCAG 57.204 47.619 6.18 0.00 0.00 2.90
798 902 3.825014 TGCTTCTGTAGTTCGGTCTTAGT 59.175 43.478 0.00 0.00 0.00 2.24
799 903 4.082895 TGCTTCTGTAGTTCGGTCTTAGTC 60.083 45.833 0.00 0.00 0.00 2.59
803 907 3.141398 TGTAGTTCGGTCTTAGTCGTGT 58.859 45.455 0.00 0.00 0.00 4.49
825 929 2.222976 GCGAGCTCAATGATGACTTGTG 60.223 50.000 15.40 0.00 0.00 3.33
867 971 0.321210 TGGATGGTGCAGTACAACCG 60.321 55.000 0.00 0.00 33.78 4.44
879 983 2.598686 TACAACCGTGTGTACAAGCA 57.401 45.000 0.00 0.00 38.82 3.91
880 984 1.295792 ACAACCGTGTGTACAAGCAG 58.704 50.000 0.00 0.00 36.31 4.24
881 985 1.295792 CAACCGTGTGTACAAGCAGT 58.704 50.000 0.00 0.00 0.00 4.40
882 986 1.003972 CAACCGTGTGTACAAGCAGTG 60.004 52.381 0.00 0.00 0.00 3.66
883 987 0.531974 ACCGTGTGTACAAGCAGTGG 60.532 55.000 0.00 0.28 0.00 4.00
884 988 1.569493 CGTGTGTACAAGCAGTGGC 59.431 57.895 0.00 0.00 41.61 5.01
912 1016 3.147595 GGAATTTCCTGGGCGGGC 61.148 66.667 8.25 0.00 32.53 6.13
913 1017 3.147595 GAATTTCCTGGGCGGGCC 61.148 66.667 14.65 14.65 0.00 5.80
914 1018 3.955543 GAATTTCCTGGGCGGGCCA 62.956 63.158 22.99 22.99 37.98 5.36
915 1019 3.537961 AATTTCCTGGGCGGGCCAA 62.538 57.895 24.45 10.03 37.98 4.52
916 1020 3.963124 ATTTCCTGGGCGGGCCAAG 62.963 63.158 24.45 18.58 36.89 3.61
934 1038 3.786809 GCCAAAGGCGGACTAAAAC 57.213 52.632 0.00 0.00 39.62 2.43
935 1039 1.244816 GCCAAAGGCGGACTAAAACT 58.755 50.000 0.00 0.00 39.62 2.66
936 1040 1.611977 GCCAAAGGCGGACTAAAACTT 59.388 47.619 0.00 0.00 39.62 2.66
937 1041 2.035449 GCCAAAGGCGGACTAAAACTTT 59.965 45.455 0.00 0.00 39.62 2.66
938 1042 3.491964 GCCAAAGGCGGACTAAAACTTTT 60.492 43.478 0.00 0.00 39.62 2.27
939 1043 4.048504 CCAAAGGCGGACTAAAACTTTTG 58.951 43.478 0.00 0.00 29.64 2.44
940 1044 3.364889 AAGGCGGACTAAAACTTTTGC 57.635 42.857 0.00 0.00 0.00 3.68
941 1045 1.611977 AGGCGGACTAAAACTTTTGCC 59.388 47.619 4.95 4.95 41.50 4.52
942 1046 1.336517 GGCGGACTAAAACTTTTGCCC 60.337 52.381 0.00 0.00 35.24 5.36
943 1047 1.611977 GCGGACTAAAACTTTTGCCCT 59.388 47.619 0.00 0.00 0.00 5.19
944 1048 2.815503 GCGGACTAAAACTTTTGCCCTA 59.184 45.455 0.00 0.00 0.00 3.53
945 1049 3.119955 GCGGACTAAAACTTTTGCCCTAG 60.120 47.826 0.00 0.00 0.00 3.02
946 1050 4.070009 CGGACTAAAACTTTTGCCCTAGT 58.930 43.478 0.00 0.00 0.00 2.57
947 1051 5.240121 CGGACTAAAACTTTTGCCCTAGTA 58.760 41.667 0.00 0.00 0.00 1.82
948 1052 5.350640 CGGACTAAAACTTTTGCCCTAGTAG 59.649 44.000 0.00 0.00 0.00 2.57
949 1053 6.236409 GGACTAAAACTTTTGCCCTAGTAGT 58.764 40.000 0.00 0.00 0.00 2.73
950 1054 6.370994 GGACTAAAACTTTTGCCCTAGTAGTC 59.629 42.308 0.00 0.00 31.40 2.59
951 1055 6.236409 ACTAAAACTTTTGCCCTAGTAGTCC 58.764 40.000 0.00 0.00 0.00 3.85
952 1056 4.717279 AAACTTTTGCCCTAGTAGTCCA 57.283 40.909 0.00 0.00 0.00 4.02
953 1057 3.983044 ACTTTTGCCCTAGTAGTCCAG 57.017 47.619 0.00 0.00 0.00 3.86
954 1058 3.248888 ACTTTTGCCCTAGTAGTCCAGT 58.751 45.455 0.00 0.00 0.00 4.00
955 1059 3.651423 ACTTTTGCCCTAGTAGTCCAGTT 59.349 43.478 0.00 0.00 0.00 3.16
956 1060 4.104261 ACTTTTGCCCTAGTAGTCCAGTTT 59.896 41.667 0.00 0.00 0.00 2.66
957 1061 4.717279 TTTGCCCTAGTAGTCCAGTTTT 57.283 40.909 0.00 0.00 0.00 2.43
958 1062 5.829062 TTTGCCCTAGTAGTCCAGTTTTA 57.171 39.130 0.00 0.00 0.00 1.52
959 1063 4.813750 TGCCCTAGTAGTCCAGTTTTAC 57.186 45.455 0.00 0.00 0.00 2.01
960 1064 4.161876 TGCCCTAGTAGTCCAGTTTTACA 58.838 43.478 0.00 0.00 0.00 2.41
961 1065 4.222145 TGCCCTAGTAGTCCAGTTTTACAG 59.778 45.833 0.00 0.00 0.00 2.74
962 1066 4.222366 GCCCTAGTAGTCCAGTTTTACAGT 59.778 45.833 0.00 0.00 0.00 3.55
963 1067 5.279859 GCCCTAGTAGTCCAGTTTTACAGTT 60.280 44.000 0.00 0.00 0.00 3.16
964 1068 6.743490 GCCCTAGTAGTCCAGTTTTACAGTTT 60.743 42.308 0.00 0.00 0.00 2.66
965 1069 7.222161 CCCTAGTAGTCCAGTTTTACAGTTTT 58.778 38.462 0.00 0.00 0.00 2.43
966 1070 8.370182 CCCTAGTAGTCCAGTTTTACAGTTTTA 58.630 37.037 0.00 0.00 0.00 1.52
967 1071 9.201127 CCTAGTAGTCCAGTTTTACAGTTTTAC 57.799 37.037 0.00 0.00 0.00 2.01
968 1072 9.201127 CTAGTAGTCCAGTTTTACAGTTTTACC 57.799 37.037 0.00 0.00 0.00 2.85
969 1073 7.799081 AGTAGTCCAGTTTTACAGTTTTACCT 58.201 34.615 0.00 0.00 0.00 3.08
970 1074 8.270030 AGTAGTCCAGTTTTACAGTTTTACCTT 58.730 33.333 0.00 0.00 0.00 3.50
971 1075 7.949690 AGTCCAGTTTTACAGTTTTACCTTT 57.050 32.000 0.00 0.00 0.00 3.11
973 1077 9.636789 AGTCCAGTTTTACAGTTTTACCTTTAT 57.363 29.630 0.00 0.00 0.00 1.40
990 1094 7.223260 ACCTTTATACTTAAGTGGTTTTGGC 57.777 36.000 18.56 0.00 0.00 4.52
991 1095 7.008332 ACCTTTATACTTAAGTGGTTTTGGCT 58.992 34.615 18.56 2.74 0.00 4.75
992 1096 7.176165 ACCTTTATACTTAAGTGGTTTTGGCTC 59.824 37.037 18.56 0.00 0.00 4.70
993 1097 7.175990 CCTTTATACTTAAGTGGTTTTGGCTCA 59.824 37.037 18.56 0.00 0.00 4.26
994 1098 8.644374 TTTATACTTAAGTGGTTTTGGCTCAT 57.356 30.769 18.56 1.67 0.00 2.90
995 1099 4.853924 ACTTAAGTGGTTTTGGCTCATG 57.146 40.909 7.48 0.00 0.00 3.07
996 1100 3.005791 ACTTAAGTGGTTTTGGCTCATGC 59.994 43.478 7.48 0.00 38.76 4.06
997 1101 1.708341 AAGTGGTTTTGGCTCATGCT 58.292 45.000 0.00 0.00 39.59 3.79
998 1102 0.963962 AGTGGTTTTGGCTCATGCTG 59.036 50.000 0.00 0.00 39.59 4.41
999 1103 0.037975 GTGGTTTTGGCTCATGCTGG 60.038 55.000 0.00 0.00 39.59 4.85
1000 1104 0.178967 TGGTTTTGGCTCATGCTGGA 60.179 50.000 0.00 0.00 39.59 3.86
1001 1105 1.188863 GGTTTTGGCTCATGCTGGAT 58.811 50.000 0.00 0.00 39.59 3.41
1002 1106 1.134907 GGTTTTGGCTCATGCTGGATG 60.135 52.381 2.36 2.36 39.59 3.51
1003 1107 1.134907 GTTTTGGCTCATGCTGGATGG 60.135 52.381 9.35 1.75 39.59 3.51
1004 1108 0.685131 TTTGGCTCATGCTGGATGGG 60.685 55.000 9.35 7.01 39.59 4.00
1007 1111 2.599032 CTCATGCTGGATGGGCCA 59.401 61.111 9.61 9.61 46.96 5.36
1020 1124 2.432972 GGCCATGGCGCTGTTTTG 60.433 61.111 29.90 0.00 43.06 2.44
1021 1125 2.339712 GCCATGGCGCTGTTTTGT 59.660 55.556 23.48 0.00 0.00 2.83
1022 1126 1.300853 GCCATGGCGCTGTTTTGTT 60.301 52.632 23.48 0.00 0.00 2.83
1023 1127 1.284297 GCCATGGCGCTGTTTTGTTC 61.284 55.000 23.48 0.00 0.00 3.18
1024 1128 0.667184 CCATGGCGCTGTTTTGTTCC 60.667 55.000 7.64 0.00 0.00 3.62
1025 1129 0.314935 CATGGCGCTGTTTTGTTCCT 59.685 50.000 7.64 0.00 0.00 3.36
1026 1130 1.539388 CATGGCGCTGTTTTGTTCCTA 59.461 47.619 7.64 0.00 0.00 2.94
1027 1131 1.904287 TGGCGCTGTTTTGTTCCTAT 58.096 45.000 7.64 0.00 0.00 2.57
1028 1132 1.539388 TGGCGCTGTTTTGTTCCTATG 59.461 47.619 7.64 0.00 0.00 2.23
1029 1133 1.539827 GGCGCTGTTTTGTTCCTATGT 59.460 47.619 7.64 0.00 0.00 2.29
1030 1134 2.745281 GGCGCTGTTTTGTTCCTATGTA 59.255 45.455 7.64 0.00 0.00 2.29
1031 1135 3.181510 GGCGCTGTTTTGTTCCTATGTAG 60.182 47.826 7.64 0.00 0.00 2.74
1032 1136 3.727970 GCGCTGTTTTGTTCCTATGTAGC 60.728 47.826 0.00 0.00 0.00 3.58
1033 1137 3.684788 CGCTGTTTTGTTCCTATGTAGCT 59.315 43.478 0.00 0.00 0.00 3.32
1034 1138 4.201724 CGCTGTTTTGTTCCTATGTAGCTC 60.202 45.833 0.00 0.00 0.00 4.09
1035 1139 4.095036 GCTGTTTTGTTCCTATGTAGCTCC 59.905 45.833 0.00 0.00 0.00 4.70
1036 1140 4.250464 TGTTTTGTTCCTATGTAGCTCCG 58.750 43.478 0.00 0.00 0.00 4.63
1037 1141 2.596904 TTGTTCCTATGTAGCTCCGC 57.403 50.000 0.00 0.00 0.00 5.54
1039 1143 0.750850 GTTCCTATGTAGCTCCGCCA 59.249 55.000 0.00 0.00 0.00 5.69
1056 1160 1.881925 GCCAGTGTGTACAAGGATGCA 60.882 52.381 0.00 0.00 0.00 3.96
1274 1378 6.471146 AGAATGTAAGTCTTGATGCACTTCT 58.529 36.000 0.00 0.00 38.70 2.85
1449 1559 1.313812 TGTTGTTGGGCGTTTTCCGT 61.314 50.000 0.00 0.00 39.32 4.69
1470 1580 4.451150 CGCTGCTACGGAGGGCAA 62.451 66.667 0.00 0.00 39.43 4.52
1496 1606 1.068127 AGCTCAAAACTGGCAAGCTTG 59.932 47.619 22.44 22.44 40.26 4.01
1504 1614 0.390340 CTGGCAAGCTTGTCTCGCTA 60.390 55.000 29.73 11.66 36.56 4.26
1558 1668 0.868406 GTGAAGACCAAGGTTGCGAG 59.132 55.000 0.00 0.00 0.00 5.03
1661 1771 4.380550 CGGTAGATGACAAGTGCAAGAGTA 60.381 45.833 0.00 0.00 0.00 2.59
1693 1803 0.373716 CCGCGACCATCAAAAGCTAC 59.626 55.000 8.23 0.00 0.00 3.58
1715 1825 1.133513 AGGATGTTCCAGCCAACAACA 60.134 47.619 0.93 0.00 43.12 3.33
1769 1879 3.291584 CCTGTCTCAGTAGCTGTGGATA 58.708 50.000 0.00 0.00 32.61 2.59
1852 1962 0.395586 TGGACCATGGTATTGCTGCC 60.396 55.000 19.80 13.51 0.00 4.85
1877 1987 3.133183 TGGTTATGGCAATACTAGCGACA 59.867 43.478 0.00 0.00 0.00 4.35
1903 2013 8.527810 AGAACAAAGTATTGGTTGTTGAAGAAA 58.472 29.630 6.51 0.00 45.53 2.52
1925 2037 0.041090 ATGGGGAACAACATGGGGTC 59.959 55.000 0.00 0.00 0.00 4.46
1939 2051 5.195940 ACATGGGGTCAGAACAGATATTTG 58.804 41.667 0.00 0.00 0.00 2.32
1992 2104 2.672996 GTGTGGCCTTGCGATGGT 60.673 61.111 3.32 0.00 0.00 3.55
2009 2122 1.209621 GGTGCCATCTTACCCCACTA 58.790 55.000 0.00 0.00 0.00 2.74
2014 2127 4.041464 TGCCATCTTACCCCACTACATAA 58.959 43.478 0.00 0.00 0.00 1.90
2217 2342 8.836413 GCCACATTTGTGTTAGCTATATCTTTA 58.164 33.333 9.66 0.00 44.21 1.85
2302 2443 9.132521 GCATGTATAATGAACTATTTGATTGGC 57.867 33.333 0.00 0.00 0.00 4.52
2303 2444 9.630098 CATGTATAATGAACTATTTGATTGGCC 57.370 33.333 0.00 0.00 0.00 5.36
2322 2464 8.840833 ATTGGCCTTTTGTTTTTACGATAATT 57.159 26.923 3.32 0.00 0.00 1.40
2409 2552 5.105392 TGAAGGTGGAATAAATGTTGGATGC 60.105 40.000 0.00 0.00 0.00 3.91
2428 2571 3.206150 TGCCAATTCCTAAATCTCGAGC 58.794 45.455 7.81 0.00 0.00 5.03
2638 2788 7.495606 ACATATTGTCATGTTCATGTCACGTAT 59.504 33.333 10.98 9.92 35.60 3.06
2683 2833 3.010584 AGTTGTTCCTACATCCATGGCTT 59.989 43.478 6.96 0.00 33.44 4.35
2703 2853 9.851686 ATGGCTTCATGTTTATACATTCTCTTA 57.148 29.630 0.00 0.00 42.29 2.10
2825 2985 2.205022 AGCGGCCATGTGCATTATAT 57.795 45.000 2.24 0.00 43.89 0.86
2979 3143 7.283127 GCTATTGAATGGAAAGTAGGTGATTCA 59.717 37.037 0.00 0.00 0.00 2.57
2985 3149 3.942115 GGAAAGTAGGTGATTCAGAAGCC 59.058 47.826 0.00 0.00 0.00 4.35
2990 3154 0.036388 GGTGATTCAGAAGCCACCGA 60.036 55.000 17.13 0.00 39.52 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 96 3.630769 ACCCGACTTCTGTTTTCTTTTCC 59.369 43.478 0.00 0.00 0.00 3.13
102 107 0.391263 GCCTTGGTACCCGACTTCTG 60.391 60.000 10.07 0.00 0.00 3.02
179 184 9.310449 ACTTAACTAACCGGATCATCATAGTAT 57.690 33.333 9.46 0.17 0.00 2.12
180 185 8.701908 ACTTAACTAACCGGATCATCATAGTA 57.298 34.615 9.46 0.00 0.00 1.82
181 186 7.598759 ACTTAACTAACCGGATCATCATAGT 57.401 36.000 9.46 1.97 0.00 2.12
182 187 7.926555 ACAACTTAACTAACCGGATCATCATAG 59.073 37.037 9.46 1.33 0.00 2.23
183 188 7.788026 ACAACTTAACTAACCGGATCATCATA 58.212 34.615 9.46 0.00 0.00 2.15
184 189 6.650120 ACAACTTAACTAACCGGATCATCAT 58.350 36.000 9.46 0.00 0.00 2.45
185 190 6.045072 ACAACTTAACTAACCGGATCATCA 57.955 37.500 9.46 0.00 0.00 3.07
186 191 6.338937 AGACAACTTAACTAACCGGATCATC 58.661 40.000 9.46 0.00 0.00 2.92
187 192 6.295719 AGACAACTTAACTAACCGGATCAT 57.704 37.500 9.46 0.00 0.00 2.45
188 193 5.733620 AGACAACTTAACTAACCGGATCA 57.266 39.130 9.46 0.00 0.00 2.92
189 194 8.713737 ATTAAGACAACTTAACTAACCGGATC 57.286 34.615 9.46 0.00 46.74 3.36
190 195 8.316214 TGATTAAGACAACTTAACTAACCGGAT 58.684 33.333 9.46 0.00 46.74 4.18
191 196 7.669427 TGATTAAGACAACTTAACTAACCGGA 58.331 34.615 9.46 0.00 46.74 5.14
192 197 7.894376 TGATTAAGACAACTTAACTAACCGG 57.106 36.000 0.00 0.00 46.74 5.28
193 198 7.948363 CGTTGATTAAGACAACTTAACTAACCG 59.052 37.037 19.03 11.58 46.74 4.44
194 199 8.768019 ACGTTGATTAAGACAACTTAACTAACC 58.232 33.333 19.03 7.22 46.74 2.85
195 200 9.789029 GACGTTGATTAAGACAACTTAACTAAC 57.211 33.333 19.03 1.55 46.74 2.34
196 201 8.981647 GGACGTTGATTAAGACAACTTAACTAA 58.018 33.333 19.03 0.00 46.74 2.24
197 202 7.326789 CGGACGTTGATTAAGACAACTTAACTA 59.673 37.037 19.03 0.00 46.74 2.24
198 203 6.145048 CGGACGTTGATTAAGACAACTTAACT 59.855 38.462 19.03 4.30 46.74 2.24
199 204 6.074142 ACGGACGTTGATTAAGACAACTTAAC 60.074 38.462 19.03 10.26 46.74 2.01
201 206 5.403166 CACGGACGTTGATTAAGACAACTTA 59.597 40.000 19.03 0.00 43.40 2.24
202 207 4.210537 CACGGACGTTGATTAAGACAACTT 59.789 41.667 19.03 13.40 43.40 2.66
203 208 3.739300 CACGGACGTTGATTAAGACAACT 59.261 43.478 19.03 10.75 43.40 3.16
204 209 3.492011 ACACGGACGTTGATTAAGACAAC 59.508 43.478 14.40 14.40 42.54 3.32
205 210 3.719924 ACACGGACGTTGATTAAGACAA 58.280 40.909 0.00 0.00 0.00 3.18
206 211 3.374220 ACACGGACGTTGATTAAGACA 57.626 42.857 0.00 0.00 0.00 3.41
207 212 4.681025 TGTAACACGGACGTTGATTAAGAC 59.319 41.667 0.00 0.00 0.00 3.01
288 339 7.390162 GGGTACGTACAGAGAATATAGCTAAGT 59.610 40.741 26.02 0.00 0.00 2.24
319 372 6.510478 GCGTCACACTAAGTGTTGATTTACAA 60.510 38.462 0.00 0.00 45.08 2.41
359 422 5.576774 TGCATGTATGAACTTTCTACTGTCG 59.423 40.000 0.00 0.00 0.00 4.35
374 437 3.787634 GTCGTCTTTGCAATGCATGTATG 59.212 43.478 9.39 3.00 38.76 2.39
517 619 5.507315 GGGCAGATGTTATAAATCAAACGGG 60.507 44.000 9.07 0.00 0.00 5.28
594 696 7.591421 AGGTTCCTCCTTTTCGAAAATTTAA 57.409 32.000 22.73 10.76 45.67 1.52
595 697 8.873186 ATAGGTTCCTCCTTTTCGAAAATTTA 57.127 30.769 22.73 10.79 45.67 1.40
596 698 7.776618 ATAGGTTCCTCCTTTTCGAAAATTT 57.223 32.000 22.73 0.00 45.67 1.82
597 699 8.873186 TTATAGGTTCCTCCTTTTCGAAAATT 57.127 30.769 22.73 4.49 45.67 1.82
599 701 9.387257 GTATTATAGGTTCCTCCTTTTCGAAAA 57.613 33.333 21.35 21.35 45.67 2.29
600 702 8.765517 AGTATTATAGGTTCCTCCTTTTCGAAA 58.234 33.333 6.47 6.47 45.67 3.46
601 703 8.315220 AGTATTATAGGTTCCTCCTTTTCGAA 57.685 34.615 0.00 0.00 45.67 3.71
602 704 7.909485 AGTATTATAGGTTCCTCCTTTTCGA 57.091 36.000 0.00 0.00 45.67 3.71
641 743 9.574516 AATGGAATTGGGTGTCTTATATAGTTC 57.425 33.333 0.00 0.00 33.44 3.01
705 809 5.664294 ATGTTTGATGGATTGCTTGCTAA 57.336 34.783 0.00 0.00 0.00 3.09
732 836 1.959282 CCAAAGCTTCTGATATGGCCC 59.041 52.381 0.00 0.00 0.00 5.80
743 847 1.203287 GATGCCAAGGACCAAAGCTTC 59.797 52.381 0.00 0.00 0.00 3.86
799 903 0.025898 CATCATTGAGCTCGCACACG 59.974 55.000 9.64 0.00 42.01 4.49
803 907 2.004733 CAAGTCATCATTGAGCTCGCA 58.995 47.619 9.64 0.00 30.85 5.10
825 929 3.443045 CGTGCCTTGCCACCATCC 61.443 66.667 0.00 0.00 32.10 3.51
867 971 1.569493 CGCCACTGCTTGTACACAC 59.431 57.895 0.00 0.00 34.43 3.82
878 982 1.448540 CCTTGTAGCTCCGCCACTG 60.449 63.158 0.00 0.00 0.00 3.66
879 983 1.192146 TTCCTTGTAGCTCCGCCACT 61.192 55.000 0.00 0.00 0.00 4.00
880 984 0.107654 ATTCCTTGTAGCTCCGCCAC 60.108 55.000 0.00 0.00 0.00 5.01
881 985 0.618458 AATTCCTTGTAGCTCCGCCA 59.382 50.000 0.00 0.00 0.00 5.69
882 986 1.671328 GAAATTCCTTGTAGCTCCGCC 59.329 52.381 0.00 0.00 0.00 6.13
883 987 1.671328 GGAAATTCCTTGTAGCTCCGC 59.329 52.381 4.46 0.00 32.53 5.54
884 988 2.939103 CAGGAAATTCCTTGTAGCTCCG 59.061 50.000 12.63 0.00 46.91 4.63
885 989 3.282885 CCAGGAAATTCCTTGTAGCTCC 58.717 50.000 12.63 0.00 46.91 4.70
886 990 3.282885 CCCAGGAAATTCCTTGTAGCTC 58.717 50.000 12.63 0.00 46.91 4.09
887 991 2.621668 GCCCAGGAAATTCCTTGTAGCT 60.622 50.000 12.63 0.00 46.91 3.32
888 992 1.751351 GCCCAGGAAATTCCTTGTAGC 59.249 52.381 12.63 8.97 46.91 3.58
889 993 2.017049 CGCCCAGGAAATTCCTTGTAG 58.983 52.381 12.63 0.71 46.91 2.74
890 994 1.340600 CCGCCCAGGAAATTCCTTGTA 60.341 52.381 12.63 0.00 46.91 2.41
891 995 0.611896 CCGCCCAGGAAATTCCTTGT 60.612 55.000 12.63 0.00 46.91 3.16
892 996 1.322538 CCCGCCCAGGAAATTCCTTG 61.323 60.000 12.63 9.07 46.91 3.61
893 997 1.000359 CCCGCCCAGGAAATTCCTT 60.000 57.895 12.63 0.00 46.91 3.36
895 999 3.147595 GCCCGCCCAGGAAATTCC 61.148 66.667 3.29 3.29 45.00 3.01
896 1000 3.147595 GGCCCGCCCAGGAAATTC 61.148 66.667 0.00 0.00 45.00 2.17
897 1001 3.537961 TTGGCCCGCCCAGGAAATT 62.538 57.895 0.00 0.00 46.39 1.82
898 1002 3.963124 CTTGGCCCGCCCAGGAAAT 62.963 63.158 0.00 0.00 46.39 2.17
899 1003 4.676951 CTTGGCCCGCCCAGGAAA 62.677 66.667 0.00 0.00 46.39 3.13
916 1020 1.244816 AGTTTTAGTCCGCCTTTGGC 58.755 50.000 0.00 0.00 46.75 4.52
917 1021 4.048504 CAAAAGTTTTAGTCCGCCTTTGG 58.951 43.478 0.00 0.00 0.00 3.28
918 1022 3.489416 GCAAAAGTTTTAGTCCGCCTTTG 59.511 43.478 0.00 0.00 0.00 2.77
919 1023 3.491964 GGCAAAAGTTTTAGTCCGCCTTT 60.492 43.478 15.78 0.00 35.39 3.11
920 1024 2.035449 GGCAAAAGTTTTAGTCCGCCTT 59.965 45.455 15.78 0.00 35.39 4.35
921 1025 1.611977 GGCAAAAGTTTTAGTCCGCCT 59.388 47.619 15.78 0.00 35.39 5.52
922 1026 1.336517 GGGCAAAAGTTTTAGTCCGCC 60.337 52.381 15.06 15.06 37.57 6.13
923 1027 1.611977 AGGGCAAAAGTTTTAGTCCGC 59.388 47.619 0.00 0.00 0.00 5.54
924 1028 4.070009 ACTAGGGCAAAAGTTTTAGTCCG 58.930 43.478 0.00 0.00 0.00 4.79
925 1029 6.236409 ACTACTAGGGCAAAAGTTTTAGTCC 58.764 40.000 0.00 6.89 0.00 3.85
926 1030 6.370994 GGACTACTAGGGCAAAAGTTTTAGTC 59.629 42.308 12.25 12.25 32.06 2.59
927 1031 6.183361 TGGACTACTAGGGCAAAAGTTTTAGT 60.183 38.462 0.00 3.47 0.00 2.24
928 1032 6.235664 TGGACTACTAGGGCAAAAGTTTTAG 58.764 40.000 0.00 0.00 0.00 1.85
929 1033 6.183361 ACTGGACTACTAGGGCAAAAGTTTTA 60.183 38.462 0.00 0.00 0.00 1.52
930 1034 5.056553 TGGACTACTAGGGCAAAAGTTTT 57.943 39.130 0.00 0.00 0.00 2.43
931 1035 4.104261 ACTGGACTACTAGGGCAAAAGTTT 59.896 41.667 0.00 0.00 0.00 2.66
932 1036 3.651423 ACTGGACTACTAGGGCAAAAGTT 59.349 43.478 0.00 0.00 0.00 2.66
933 1037 3.248888 ACTGGACTACTAGGGCAAAAGT 58.751 45.455 0.00 0.00 0.00 2.66
934 1038 3.983044 ACTGGACTACTAGGGCAAAAG 57.017 47.619 0.00 0.00 0.00 2.27
935 1039 4.717279 AAACTGGACTACTAGGGCAAAA 57.283 40.909 0.00 0.00 0.00 2.44
936 1040 4.717279 AAAACTGGACTACTAGGGCAAA 57.283 40.909 0.00 0.00 0.00 3.68
937 1041 4.594062 TGTAAAACTGGACTACTAGGGCAA 59.406 41.667 0.00 0.00 0.00 4.52
938 1042 4.161876 TGTAAAACTGGACTACTAGGGCA 58.838 43.478 0.00 0.00 0.00 5.36
939 1043 4.222366 ACTGTAAAACTGGACTACTAGGGC 59.778 45.833 0.00 0.00 0.00 5.19
940 1044 5.997384 ACTGTAAAACTGGACTACTAGGG 57.003 43.478 0.00 0.00 0.00 3.53
941 1045 9.201127 GTAAAACTGTAAAACTGGACTACTAGG 57.799 37.037 0.00 0.00 0.00 3.02
942 1046 9.201127 GGTAAAACTGTAAAACTGGACTACTAG 57.799 37.037 0.00 0.00 0.00 2.57
943 1047 8.927411 AGGTAAAACTGTAAAACTGGACTACTA 58.073 33.333 0.00 0.00 0.00 1.82
944 1048 7.799081 AGGTAAAACTGTAAAACTGGACTACT 58.201 34.615 0.00 0.00 0.00 2.57
945 1049 8.442632 AAGGTAAAACTGTAAAACTGGACTAC 57.557 34.615 0.00 0.00 0.00 2.73
947 1051 7.949690 AAAGGTAAAACTGTAAAACTGGACT 57.050 32.000 0.00 0.00 0.00 3.85
964 1068 8.795513 GCCAAAACCACTTAAGTATAAAGGTAA 58.204 33.333 8.04 0.00 32.27 2.85
965 1069 8.165397 AGCCAAAACCACTTAAGTATAAAGGTA 58.835 33.333 8.04 0.00 32.27 3.08
966 1070 7.008332 AGCCAAAACCACTTAAGTATAAAGGT 58.992 34.615 8.04 8.25 33.32 3.50
967 1071 7.175990 TGAGCCAAAACCACTTAAGTATAAAGG 59.824 37.037 8.04 7.57 0.00 3.11
968 1072 8.106247 TGAGCCAAAACCACTTAAGTATAAAG 57.894 34.615 8.04 0.00 0.00 1.85
969 1073 8.519526 CATGAGCCAAAACCACTTAAGTATAAA 58.480 33.333 8.04 0.00 0.00 1.40
970 1074 7.362574 GCATGAGCCAAAACCACTTAAGTATAA 60.363 37.037 8.04 0.00 33.58 0.98
971 1075 6.094881 GCATGAGCCAAAACCACTTAAGTATA 59.905 38.462 8.04 0.00 33.58 1.47
972 1076 5.105756 GCATGAGCCAAAACCACTTAAGTAT 60.106 40.000 8.04 0.00 33.58 2.12
973 1077 4.217550 GCATGAGCCAAAACCACTTAAGTA 59.782 41.667 8.04 0.00 33.58 2.24
974 1078 3.005791 GCATGAGCCAAAACCACTTAAGT 59.994 43.478 1.12 1.12 33.58 2.24
975 1079 3.256631 AGCATGAGCCAAAACCACTTAAG 59.743 43.478 0.00 0.00 43.56 1.85
976 1080 3.005684 CAGCATGAGCCAAAACCACTTAA 59.994 43.478 0.00 0.00 43.56 1.85
977 1081 2.557924 CAGCATGAGCCAAAACCACTTA 59.442 45.455 0.00 0.00 43.56 2.24
978 1082 1.342174 CAGCATGAGCCAAAACCACTT 59.658 47.619 0.00 0.00 43.56 3.16
979 1083 0.963962 CAGCATGAGCCAAAACCACT 59.036 50.000 0.00 0.00 43.56 4.00
980 1084 0.037975 CCAGCATGAGCCAAAACCAC 60.038 55.000 0.00 0.00 43.56 4.16
981 1085 0.178967 TCCAGCATGAGCCAAAACCA 60.179 50.000 0.00 0.00 43.56 3.67
982 1086 1.134907 CATCCAGCATGAGCCAAAACC 60.135 52.381 0.00 0.00 43.56 3.27
983 1087 1.134907 CCATCCAGCATGAGCCAAAAC 60.135 52.381 0.00 0.00 43.56 2.43
984 1088 1.187974 CCATCCAGCATGAGCCAAAA 58.812 50.000 0.00 0.00 43.56 2.44
985 1089 0.685131 CCCATCCAGCATGAGCCAAA 60.685 55.000 0.00 0.00 43.56 3.28
986 1090 1.076559 CCCATCCAGCATGAGCCAA 60.077 57.895 0.00 0.00 43.56 4.52
987 1091 2.599032 CCCATCCAGCATGAGCCA 59.401 61.111 0.00 0.00 43.56 4.75
988 1092 2.910994 GCCCATCCAGCATGAGCC 60.911 66.667 0.00 0.00 43.56 4.70
989 1093 2.910994 GGCCCATCCAGCATGAGC 60.911 66.667 0.00 0.00 39.69 4.26
990 1094 2.599032 TGGCCCATCCAGCATGAG 59.401 61.111 0.00 0.00 40.72 2.90
1000 1104 4.764771 AACAGCGCCATGGCCCAT 62.765 61.111 30.79 14.07 37.98 4.00
1001 1105 4.992740 AAACAGCGCCATGGCCCA 62.993 61.111 30.79 0.00 37.98 5.36
1002 1106 3.694538 AAAACAGCGCCATGGCCC 61.695 61.111 30.79 22.68 37.98 5.80
1003 1107 2.432972 CAAAACAGCGCCATGGCC 60.433 61.111 30.79 22.29 37.98 5.36
1004 1108 1.284297 GAACAAAACAGCGCCATGGC 61.284 55.000 27.67 27.67 37.85 4.40
1005 1109 0.667184 GGAACAAAACAGCGCCATGG 60.667 55.000 7.63 7.63 0.00 3.66
1006 1110 0.314935 AGGAACAAAACAGCGCCATG 59.685 50.000 2.29 0.00 0.00 3.66
1007 1111 1.904287 TAGGAACAAAACAGCGCCAT 58.096 45.000 2.29 0.00 0.00 4.40
1008 1112 1.539388 CATAGGAACAAAACAGCGCCA 59.461 47.619 2.29 0.00 0.00 5.69
1009 1113 1.539827 ACATAGGAACAAAACAGCGCC 59.460 47.619 2.29 0.00 0.00 6.53
1010 1114 2.989422 ACATAGGAACAAAACAGCGC 57.011 45.000 0.00 0.00 0.00 5.92
1011 1115 3.684788 AGCTACATAGGAACAAAACAGCG 59.315 43.478 0.00 0.00 0.00 5.18
1012 1116 4.095036 GGAGCTACATAGGAACAAAACAGC 59.905 45.833 0.00 0.00 0.00 4.40
1013 1117 4.330074 CGGAGCTACATAGGAACAAAACAG 59.670 45.833 0.00 0.00 0.00 3.16
1014 1118 4.250464 CGGAGCTACATAGGAACAAAACA 58.750 43.478 0.00 0.00 0.00 2.83
1015 1119 4.859629 CGGAGCTACATAGGAACAAAAC 57.140 45.455 0.00 0.00 0.00 2.43
1032 1136 0.670546 CCTTGTACACACTGGCGGAG 60.671 60.000 0.00 0.00 0.00 4.63
1033 1137 1.116536 TCCTTGTACACACTGGCGGA 61.117 55.000 0.00 0.00 0.00 5.54
1034 1138 0.036388 ATCCTTGTACACACTGGCGG 60.036 55.000 0.00 0.00 0.00 6.13
1035 1139 1.078709 CATCCTTGTACACACTGGCG 58.921 55.000 0.00 0.00 0.00 5.69
1036 1140 0.804989 GCATCCTTGTACACACTGGC 59.195 55.000 0.00 0.00 0.00 4.85
1037 1141 2.079158 CTGCATCCTTGTACACACTGG 58.921 52.381 0.00 0.00 0.00 4.00
1039 1143 3.141398 CAACTGCATCCTTGTACACACT 58.859 45.455 0.00 0.00 0.00 3.55
1056 1160 3.340814 AATCGATGTGCCTTCTCAACT 57.659 42.857 0.00 0.00 0.00 3.16
1179 1283 1.808411 TAGCCTTTGTCGCCTTGAAG 58.192 50.000 0.00 0.00 0.00 3.02
1221 1325 2.986492 TCCGGTAGGAACCCTCTTG 58.014 57.895 0.00 0.00 45.12 3.02
1449 1559 2.571757 CCTCCGTAGCAGCGACAA 59.428 61.111 6.46 0.00 0.00 3.18
1470 1580 2.294074 TGCCAGTTTTGAGCTTAACGT 58.706 42.857 0.00 0.00 0.00 3.99
1504 1614 0.036010 CCACCAACTCTTGCTCCGAT 60.036 55.000 0.00 0.00 0.00 4.18
1558 1668 0.037877 CATCATCCATGAGCCCTCCC 59.962 60.000 0.00 0.00 40.64 4.30
1596 1706 1.059098 AGTGGTGAGACTGCCATTCA 58.941 50.000 0.00 0.00 37.09 2.57
1693 1803 0.321564 TGTTGGCTGGAACATCCTCG 60.322 55.000 0.00 0.00 46.24 4.63
1769 1879 9.566432 GTAAAATTGGAATGTCATATCTCCTCT 57.434 33.333 4.12 0.00 0.00 3.69
1852 1962 4.754618 TCGCTAGTATTGCCATAACCAATG 59.245 41.667 0.00 0.00 34.87 2.82
1867 1977 6.097356 CCAATACTTTGTTCTGTCGCTAGTA 58.903 40.000 0.00 0.00 0.00 1.82
1877 1987 7.639113 TCTTCAACAACCAATACTTTGTTCT 57.361 32.000 0.00 0.00 42.67 3.01
1903 2013 1.343277 CCCCATGTTGTTCCCCATGAT 60.343 52.381 0.00 0.00 40.70 2.45
1925 2037 8.728337 TTCTCCATTCTCAAATATCTGTTCTG 57.272 34.615 0.00 0.00 0.00 3.02
1939 2051 3.742640 CGGGAATGTCCTTCTCCATTCTC 60.743 52.174 10.99 7.13 44.04 2.87
1992 2104 1.959710 TGTAGTGGGGTAAGATGGCA 58.040 50.000 0.00 0.00 0.00 4.92
2067 2180 4.851010 ACTTAATTAAAGTGCACGCGTTT 58.149 34.783 10.22 9.41 46.90 3.60
2068 2181 4.477302 ACTTAATTAAAGTGCACGCGTT 57.523 36.364 10.22 9.76 46.90 4.84
2244 2377 4.202050 ACAAGAGGCAACACAATTCACTTC 60.202 41.667 0.00 0.00 41.41 3.01
2371 2513 4.053295 CCACCTTCAAGCTTCAACATTTG 58.947 43.478 0.00 0.00 0.00 2.32
2409 2552 4.878397 AGTTGCTCGAGATTTAGGAATTGG 59.122 41.667 18.75 0.00 0.00 3.16
2428 2571 3.931907 TGGTCCATCCTAATCCAGTTG 57.068 47.619 0.00 0.00 37.07 3.16
2580 2726 4.769345 TTTGAGCACCCCAAAAAGAAAT 57.231 36.364 0.00 0.00 31.36 2.17
2638 2788 7.031372 ACTATGTATTTTCAGTAAGCGACGAA 58.969 34.615 0.00 0.00 0.00 3.85
2703 2853 8.370182 AGAGATTGTACAATTTGGCTGAAAAAT 58.630 29.630 21.63 0.00 0.00 1.82
2769 2929 4.163458 ACAACCTCCTAACTGTCAGTCAAA 59.837 41.667 5.82 0.00 0.00 2.69
2895 3057 5.104776 GCTATGGACCCTATGATGCTAATCA 60.105 44.000 0.00 0.00 46.71 2.57
2996 3160 3.508840 CCAATTCGTCGGCAGCCC 61.509 66.667 5.63 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.