Multiple sequence alignment - TraesCS7D01G128500

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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 TraesCS7D01G128500 chr7D 100.000 4408 0 0 1 4408 80719521 80723928 0.000000e+00 8141.0
1 TraesCS7D01G128500 chr7D 93.077 260 18 0 1181 1440 80724668 80724409 8.950000e-102 381.0
2 TraesCS7D01G128500 chr5D 98.426 3240 33 7 1181 4408 211816647 211813414 0.000000e+00 5685.0
3 TraesCS7D01G128500 chr5D 94.231 260 15 0 1181 1440 211812674 211812933 8.880000e-107 398.0
4 TraesCS7D01G128500 chr3B 92.595 2836 134 31 1181 3948 659577517 659580344 0.000000e+00 4004.0
5 TraesCS7D01G128500 chr3B 77.654 1620 304 46 1864 3452 568260719 568262311 0.000000e+00 933.0
6 TraesCS7D01G128500 chr3B 91.525 177 14 1 1181 1356 659582648 659582472 4.400000e-60 243.0
7 TraesCS7D01G128500 chr2D 83.793 2826 331 67 1181 3948 584608863 584611619 0.000000e+00 2564.0
8 TraesCS7D01G128500 chr2D 83.734 2828 331 69 1181 3948 257563442 257566200 0.000000e+00 2555.0
9 TraesCS7D01G128500 chr2D 84.410 975 105 25 1 947 380581627 380582582 0.000000e+00 915.0
10 TraesCS7D01G128500 chr2D 84.412 834 108 15 124 947 442016945 442017766 0.000000e+00 800.0
11 TraesCS7D01G128500 chr2D 84.716 458 67 3 3953 4408 257568815 257569271 5.200000e-124 455.0
12 TraesCS7D01G128500 chr2D 82.276 457 62 8 3953 4408 584614233 584614671 1.160000e-100 377.0
13 TraesCS7D01G128500 chr4D 83.646 2825 339 65 1181 3948 469136989 469139747 0.000000e+00 2543.0
14 TraesCS7D01G128500 chr4D 85.803 803 83 21 124 905 465158819 465158027 0.000000e+00 822.0
15 TraesCS7D01G128500 chr4D 84.498 458 68 3 3953 4408 469142347 469142803 2.420000e-122 449.0
16 TraesCS7D01G128500 chr6A 84.793 2558 318 47 1450 3948 8869668 8872213 0.000000e+00 2503.0
17 TraesCS7D01G128500 chr6A 89.827 462 46 1 3948 4408 353644102 353643641 3.800000e-165 592.0
18 TraesCS7D01G128500 chr6A 82.636 645 83 17 323 947 578694124 578693489 1.080000e-150 544.0
19 TraesCS7D01G128500 chr6A 95.455 88 4 0 3861 3948 353658628 353658541 1.650000e-29 141.0
20 TraesCS7D01G128500 chr7A 91.084 1772 125 18 1201 2947 42745906 42747669 0.000000e+00 2366.0
21 TraesCS7D01G128500 chr7A 94.221 1021 44 4 2943 3948 42773772 42774792 0.000000e+00 1544.0
22 TraesCS7D01G128500 chr7A 93.263 475 26 4 3938 4408 42789494 42789966 0.000000e+00 695.0
23 TraesCS7D01G128500 chr7A 88.462 260 30 0 1181 1440 42790710 42790451 9.200000e-82 315.0
24 TraesCS7D01G128500 chr7A 79.808 312 41 12 658 952 598214339 598214033 1.610000e-49 207.0
25 TraesCS7D01G128500 chr4A 80.412 2134 330 53 1888 3943 42255689 42257812 0.000000e+00 1544.0
26 TraesCS7D01G128500 chr3A 80.272 2134 333 53 1888 3943 443988737 443990860 0.000000e+00 1528.0
27 TraesCS7D01G128500 chr3A 83.737 990 96 34 1 949 44229806 44228841 0.000000e+00 876.0
28 TraesCS7D01G128500 chr3A 88.889 45 3 2 2419 2462 145228574 145228531 2.000000e-03 54.7
29 TraesCS7D01G128500 chr2B 82.253 1589 240 27 1897 3451 423903643 423902063 0.000000e+00 1334.0
30 TraesCS7D01G128500 chr2B 83.657 979 108 28 1 947 595268532 595269490 0.000000e+00 874.0
31 TraesCS7D01G128500 chr1D 81.395 1505 233 35 1984 3451 378066412 378067906 0.000000e+00 1184.0
32 TraesCS7D01G128500 chr1D 88.344 815 68 14 154 949 486888318 486887512 0.000000e+00 953.0
33 TraesCS7D01G128500 chr1D 81.282 577 68 28 394 953 433906189 433906742 8.760000e-117 431.0
34 TraesCS7D01G128500 chr3D 86.404 912 94 14 1 899 86362012 86362906 0.000000e+00 970.0
35 TraesCS7D01G128500 chr3D 84.324 976 113 24 1 943 550394190 550395158 0.000000e+00 918.0
36 TraesCS7D01G128500 chr5A 86.989 807 82 15 1 798 425489436 425490228 0.000000e+00 887.0
37 TraesCS7D01G128500 chr1A 86.150 787 93 12 1 777 101085882 101086662 0.000000e+00 835.0
38 TraesCS7D01G128500 chr1A 89.130 92 10 0 3856 3947 275729006 275728915 1.000000e-21 115.0
39 TraesCS7D01G128500 chr2A 85.043 809 102 13 1 798 15091712 15092512 0.000000e+00 806.0
40 TraesCS7D01G128500 chr2A 86.667 180 20 4 773 950 137133752 137133575 3.480000e-46 196.0
41 TraesCS7D01G128500 chr6B 90.476 462 42 2 3948 4408 314787618 314788078 3.770000e-170 608.0
42 TraesCS7D01G128500 chr6B 88.670 203 22 1 1180 1381 314788804 314788602 3.410000e-61 246.0
43 TraesCS7D01G128500 chr1B 78.639 529 58 27 466 947 600026155 600025635 2.580000e-77 300.0
44 TraesCS7D01G128500 chr7B 89.100 211 12 5 1181 1390 552555347 552555147 7.320000e-63 252.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G128500 chr7D 80719521 80723928 4407 False 8141.0 8141 100.0000 1 4408 1 chr7D.!!$F1 4407
1 TraesCS7D01G128500 chr5D 211813414 211816647 3233 True 5685.0 5685 98.4260 1181 4408 1 chr5D.!!$R1 3227
2 TraesCS7D01G128500 chr3B 659577517 659580344 2827 False 4004.0 4004 92.5950 1181 3948 1 chr3B.!!$F2 2767
3 TraesCS7D01G128500 chr3B 568260719 568262311 1592 False 933.0 933 77.6540 1864 3452 1 chr3B.!!$F1 1588
4 TraesCS7D01G128500 chr2D 257563442 257569271 5829 False 1505.0 2555 84.2250 1181 4408 2 chr2D.!!$F3 3227
5 TraesCS7D01G128500 chr2D 584608863 584614671 5808 False 1470.5 2564 83.0345 1181 4408 2 chr2D.!!$F4 3227
6 TraesCS7D01G128500 chr2D 380581627 380582582 955 False 915.0 915 84.4100 1 947 1 chr2D.!!$F1 946
7 TraesCS7D01G128500 chr2D 442016945 442017766 821 False 800.0 800 84.4120 124 947 1 chr2D.!!$F2 823
8 TraesCS7D01G128500 chr4D 469136989 469142803 5814 False 1496.0 2543 84.0720 1181 4408 2 chr4D.!!$F1 3227
9 TraesCS7D01G128500 chr4D 465158027 465158819 792 True 822.0 822 85.8030 124 905 1 chr4D.!!$R1 781
10 TraesCS7D01G128500 chr6A 8869668 8872213 2545 False 2503.0 2503 84.7930 1450 3948 1 chr6A.!!$F1 2498
11 TraesCS7D01G128500 chr6A 578693489 578694124 635 True 544.0 544 82.6360 323 947 1 chr6A.!!$R3 624
12 TraesCS7D01G128500 chr7A 42745906 42747669 1763 False 2366.0 2366 91.0840 1201 2947 1 chr7A.!!$F1 1746
13 TraesCS7D01G128500 chr7A 42773772 42774792 1020 False 1544.0 1544 94.2210 2943 3948 1 chr7A.!!$F2 1005
14 TraesCS7D01G128500 chr4A 42255689 42257812 2123 False 1544.0 1544 80.4120 1888 3943 1 chr4A.!!$F1 2055
15 TraesCS7D01G128500 chr3A 443988737 443990860 2123 False 1528.0 1528 80.2720 1888 3943 1 chr3A.!!$F1 2055
16 TraesCS7D01G128500 chr3A 44228841 44229806 965 True 876.0 876 83.7370 1 949 1 chr3A.!!$R1 948
17 TraesCS7D01G128500 chr2B 423902063 423903643 1580 True 1334.0 1334 82.2530 1897 3451 1 chr2B.!!$R1 1554
18 TraesCS7D01G128500 chr2B 595268532 595269490 958 False 874.0 874 83.6570 1 947 1 chr2B.!!$F1 946
19 TraesCS7D01G128500 chr1D 378066412 378067906 1494 False 1184.0 1184 81.3950 1984 3451 1 chr1D.!!$F1 1467
20 TraesCS7D01G128500 chr1D 486887512 486888318 806 True 953.0 953 88.3440 154 949 1 chr1D.!!$R1 795
21 TraesCS7D01G128500 chr1D 433906189 433906742 553 False 431.0 431 81.2820 394 953 1 chr1D.!!$F2 559
22 TraesCS7D01G128500 chr3D 86362012 86362906 894 False 970.0 970 86.4040 1 899 1 chr3D.!!$F1 898
23 TraesCS7D01G128500 chr3D 550394190 550395158 968 False 918.0 918 84.3240 1 943 1 chr3D.!!$F2 942
24 TraesCS7D01G128500 chr5A 425489436 425490228 792 False 887.0 887 86.9890 1 798 1 chr5A.!!$F1 797
25 TraesCS7D01G128500 chr1A 101085882 101086662 780 False 835.0 835 86.1500 1 777 1 chr1A.!!$F1 776
26 TraesCS7D01G128500 chr2A 15091712 15092512 800 False 806.0 806 85.0430 1 798 1 chr2A.!!$F1 797
27 TraesCS7D01G128500 chr1B 600025635 600026155 520 True 300.0 300 78.6390 466 947 1 chr1B.!!$R1 481

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
971 1104 0.539986 GGGACTCCCACTGCGAAATA 59.460 55.0 9.53 0.00 44.65 1.40 F
1144 1277 0.035317 TGGAGCTCACAATCGCACTT 59.965 50.0 17.19 0.00 0.00 3.16 F
1151 1284 0.166597 CACAATCGCACTTGACGCAT 59.833 50.0 2.50 0.00 0.00 4.73 F
1152 1285 0.874390 ACAATCGCACTTGACGCATT 59.126 45.0 2.50 0.00 0.00 3.56 F
1158 1291 1.026718 GCACTTGACGCATTAGGCCT 61.027 55.0 11.78 11.78 40.31 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2654 2869 3.765381 TCCTGCATGGAACTTCATTTCA 58.235 40.909 2.78 0.0 42.94 2.69 R
2807 3032 6.501805 TGTTATCCCAAGGTGCATAGAGATAT 59.498 38.462 0.00 0.0 0.00 1.63 R
3315 3543 8.267894 ACTACTACATGAGCCACAAGAAATATT 58.732 33.333 0.00 0.0 0.00 1.28 R
3323 3551 2.301583 TGCACTACTACATGAGCCACAA 59.698 45.455 0.00 0.0 0.00 3.33 R
3642 3925 6.485830 ACTTCTAGCACATTTCCATAGCTA 57.514 37.500 0.00 0.0 36.80 3.32 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
148 167 3.715015 GAGGTTCGGCTCCTCCTT 58.285 61.111 9.27 0.00 43.90 3.36
333 372 3.606886 GTCAAGCCAAAGACGGAGA 57.393 52.632 0.00 0.00 0.00 3.71
426 466 0.967887 CAAGGAGGAGGAGCTCGACA 60.968 60.000 7.83 0.00 0.00 4.35
569 612 3.456039 GACGACAACGACGACGGC 61.456 66.667 12.58 0.00 44.46 5.68
767 853 9.961266 CTTTATATAACGTCAAACATGTCGAAA 57.039 29.630 11.17 0.00 0.00 3.46
776 894 7.276878 ACGTCAAACATGTCGAAATATATGTCA 59.723 33.333 11.17 0.00 32.97 3.58
778 896 9.425893 GTCAAACATGTCGAAATATATGTCAAG 57.574 33.333 0.00 0.00 32.97 3.02
783 901 8.946085 ACATGTCGAAATATATGTCAAGTTTGT 58.054 29.630 3.79 0.00 0.00 2.83
808 927 3.377439 ACTTTGCCGAATTCCGTTTTTC 58.623 40.909 0.00 0.00 36.31 2.29
921 1054 0.887387 GCGATTTTATGCGCCCCCTA 60.887 55.000 4.18 0.00 46.93 3.53
949 1082 0.749649 ACGGCTGGAGATGCTCTAAG 59.250 55.000 0.00 0.00 0.00 2.18
950 1083 1.035923 CGGCTGGAGATGCTCTAAGA 58.964 55.000 0.00 0.00 0.00 2.10
952 1085 2.545532 CGGCTGGAGATGCTCTAAGAAG 60.546 54.545 0.00 0.00 0.00 2.85
954 1087 2.224257 GCTGGAGATGCTCTAAGAAGGG 60.224 54.545 0.00 0.00 0.00 3.95
955 1088 3.303938 CTGGAGATGCTCTAAGAAGGGA 58.696 50.000 0.00 0.00 0.00 4.20
956 1089 3.034635 TGGAGATGCTCTAAGAAGGGAC 58.965 50.000 0.00 0.00 0.00 4.46
958 1091 3.320826 GGAGATGCTCTAAGAAGGGACTC 59.679 52.174 0.00 0.00 38.49 3.36
959 1092 3.304829 AGATGCTCTAAGAAGGGACTCC 58.695 50.000 0.00 0.00 38.49 3.85
960 1093 1.867363 TGCTCTAAGAAGGGACTCCC 58.133 55.000 5.90 5.90 45.90 4.30
969 1102 2.747686 GGGACTCCCACTGCGAAA 59.252 61.111 9.53 0.00 44.65 3.46
970 1103 1.299976 GGGACTCCCACTGCGAAAT 59.700 57.895 9.53 0.00 44.65 2.17
971 1104 0.539986 GGGACTCCCACTGCGAAATA 59.460 55.000 9.53 0.00 44.65 1.40
972 1105 1.065709 GGGACTCCCACTGCGAAATAA 60.066 52.381 9.53 0.00 44.65 1.40
973 1106 2.617021 GGGACTCCCACTGCGAAATAAA 60.617 50.000 9.53 0.00 44.65 1.40
974 1107 3.078837 GGACTCCCACTGCGAAATAAAA 58.921 45.455 0.00 0.00 0.00 1.52
975 1108 3.504520 GGACTCCCACTGCGAAATAAAAA 59.495 43.478 0.00 0.00 0.00 1.94
994 1127 4.541973 AAAACTATCGGTACCGGTTTCT 57.458 40.909 32.80 19.83 40.25 2.52
995 1128 5.659440 AAAACTATCGGTACCGGTTTCTA 57.341 39.130 32.80 14.07 40.25 2.10
996 1129 4.639135 AACTATCGGTACCGGTTTCTAC 57.361 45.455 32.80 4.06 40.25 2.59
997 1130 2.952310 ACTATCGGTACCGGTTTCTACC 59.048 50.000 32.80 14.05 41.33 3.18
1017 1150 2.537639 GGATACCGAAAAAGCGTTGG 57.462 50.000 0.00 0.00 0.00 3.77
1018 1151 2.078392 GGATACCGAAAAAGCGTTGGA 58.922 47.619 0.00 0.00 0.00 3.53
1019 1152 2.681344 GGATACCGAAAAAGCGTTGGAT 59.319 45.455 0.00 0.00 0.00 3.41
1020 1153 3.242641 GGATACCGAAAAAGCGTTGGATC 60.243 47.826 0.00 0.00 0.00 3.36
1021 1154 0.879090 ACCGAAAAAGCGTTGGATCC 59.121 50.000 4.20 4.20 0.00 3.36
1022 1155 0.878416 CCGAAAAAGCGTTGGATCCA 59.122 50.000 11.44 11.44 0.00 3.41
1023 1156 1.472480 CCGAAAAAGCGTTGGATCCAT 59.528 47.619 17.06 0.00 0.00 3.41
1024 1157 2.094752 CCGAAAAAGCGTTGGATCCATT 60.095 45.455 17.06 4.53 0.00 3.16
1025 1158 3.171277 CGAAAAAGCGTTGGATCCATTC 58.829 45.455 17.06 13.14 0.00 2.67
1026 1159 3.119849 CGAAAAAGCGTTGGATCCATTCT 60.120 43.478 17.06 10.05 0.00 2.40
1027 1160 3.855689 AAAAGCGTTGGATCCATTCTG 57.144 42.857 17.06 6.96 0.00 3.02
1028 1161 1.098050 AAGCGTTGGATCCATTCTGC 58.902 50.000 17.06 16.45 0.00 4.26
1029 1162 1.091771 AGCGTTGGATCCATTCTGCG 61.092 55.000 17.06 15.43 0.00 5.18
1030 1163 1.369091 GCGTTGGATCCATTCTGCGT 61.369 55.000 17.06 0.00 0.00 5.24
1031 1164 1.086696 CGTTGGATCCATTCTGCGTT 58.913 50.000 17.06 0.00 0.00 4.84
1032 1165 1.202065 CGTTGGATCCATTCTGCGTTG 60.202 52.381 17.06 0.00 0.00 4.10
1033 1166 0.810648 TTGGATCCATTCTGCGTTGC 59.189 50.000 17.06 0.00 0.00 4.17
1034 1167 1.353103 GGATCCATTCTGCGTTGCG 59.647 57.895 6.95 0.00 0.00 4.85
1035 1168 1.369091 GGATCCATTCTGCGTTGCGT 61.369 55.000 6.95 0.00 0.00 5.24
1036 1169 0.247814 GATCCATTCTGCGTTGCGTG 60.248 55.000 0.00 0.00 0.00 5.34
1037 1170 2.257286 ATCCATTCTGCGTTGCGTGC 62.257 55.000 0.00 0.00 0.00 5.34
1038 1171 2.866510 CATTCTGCGTTGCGTGCG 60.867 61.111 0.00 0.00 34.24 5.34
1039 1172 3.345808 ATTCTGCGTTGCGTGCGT 61.346 55.556 0.00 0.00 34.24 5.24
1040 1173 2.024868 ATTCTGCGTTGCGTGCGTA 61.025 52.632 0.00 0.00 34.24 4.42
1041 1174 1.955529 ATTCTGCGTTGCGTGCGTAG 61.956 55.000 6.23 6.23 42.02 3.51
1042 1175 3.103289 CTGCGTTGCGTGCGTAGA 61.103 61.111 6.63 0.00 43.00 2.59
1043 1176 2.653967 CTGCGTTGCGTGCGTAGAA 61.654 57.895 6.63 0.00 43.00 2.10
1044 1177 2.093983 GCGTTGCGTGCGTAGAAG 59.906 61.111 0.00 0.00 0.00 2.85
1045 1178 2.654912 GCGTTGCGTGCGTAGAAGT 61.655 57.895 0.00 0.00 0.00 3.01
1046 1179 1.411089 CGTTGCGTGCGTAGAAGTC 59.589 57.895 0.00 0.00 0.00 3.01
1047 1180 1.411089 GTTGCGTGCGTAGAAGTCG 59.589 57.895 0.00 0.00 0.00 4.18
1048 1181 1.000233 GTTGCGTGCGTAGAAGTCGA 61.000 55.000 0.00 0.00 0.00 4.20
1049 1182 0.109458 TTGCGTGCGTAGAAGTCGAT 60.109 50.000 0.00 0.00 0.00 3.59
1050 1183 0.109458 TGCGTGCGTAGAAGTCGATT 60.109 50.000 0.00 0.00 0.00 3.34
1051 1184 1.130938 TGCGTGCGTAGAAGTCGATTA 59.869 47.619 0.00 0.00 0.00 1.75
1052 1185 2.223409 TGCGTGCGTAGAAGTCGATTAT 60.223 45.455 0.00 0.00 0.00 1.28
1053 1186 2.151360 GCGTGCGTAGAAGTCGATTATG 59.849 50.000 0.00 0.00 0.00 1.90
1054 1187 3.360533 CGTGCGTAGAAGTCGATTATGT 58.639 45.455 0.00 0.00 0.00 2.29
1055 1188 4.521010 CGTGCGTAGAAGTCGATTATGTA 58.479 43.478 0.00 0.00 0.00 2.29
1056 1189 4.375117 CGTGCGTAGAAGTCGATTATGTAC 59.625 45.833 0.00 0.00 0.00 2.90
1057 1190 4.674211 GTGCGTAGAAGTCGATTATGTACC 59.326 45.833 0.00 0.00 0.00 3.34
1058 1191 3.904824 GCGTAGAAGTCGATTATGTACCG 59.095 47.826 0.00 0.00 0.00 4.02
1059 1192 4.553547 GCGTAGAAGTCGATTATGTACCGT 60.554 45.833 0.00 0.00 0.00 4.83
1060 1193 5.333339 GCGTAGAAGTCGATTATGTACCGTA 60.333 44.000 0.00 0.00 0.00 4.02
1061 1194 6.295110 CGTAGAAGTCGATTATGTACCGTAG 58.705 44.000 0.00 0.00 0.00 3.51
1062 1195 6.074088 CGTAGAAGTCGATTATGTACCGTAGT 60.074 42.308 0.00 0.00 0.00 2.73
1063 1196 6.297694 AGAAGTCGATTATGTACCGTAGTC 57.702 41.667 0.00 0.00 0.00 2.59
1064 1197 5.819379 AGAAGTCGATTATGTACCGTAGTCA 59.181 40.000 0.00 0.00 0.00 3.41
1065 1198 6.317140 AGAAGTCGATTATGTACCGTAGTCAA 59.683 38.462 0.00 0.00 0.00 3.18
1066 1199 6.630444 AGTCGATTATGTACCGTAGTCAAT 57.370 37.500 0.00 0.00 0.00 2.57
1067 1200 6.436261 AGTCGATTATGTACCGTAGTCAATG 58.564 40.000 0.00 0.00 0.00 2.82
1068 1201 5.116680 GTCGATTATGTACCGTAGTCAATGC 59.883 44.000 0.00 0.00 0.00 3.56
1069 1202 4.979815 CGATTATGTACCGTAGTCAATGCA 59.020 41.667 0.00 0.00 0.00 3.96
1070 1203 5.633601 CGATTATGTACCGTAGTCAATGCAT 59.366 40.000 0.00 0.00 0.00 3.96
1071 1204 6.183359 CGATTATGTACCGTAGTCAATGCATC 60.183 42.308 0.00 0.00 0.00 3.91
1072 1205 4.672587 ATGTACCGTAGTCAATGCATCT 57.327 40.909 0.00 0.00 0.00 2.90
1073 1206 5.784578 ATGTACCGTAGTCAATGCATCTA 57.215 39.130 0.00 0.00 0.00 1.98
1074 1207 4.928601 TGTACCGTAGTCAATGCATCTAC 58.071 43.478 12.03 12.03 0.00 2.59
1075 1208 4.399934 TGTACCGTAGTCAATGCATCTACA 59.600 41.667 18.79 4.36 35.26 2.74
1076 1209 4.046938 ACCGTAGTCAATGCATCTACAG 57.953 45.455 18.79 12.64 35.26 2.74
1077 1210 3.447586 ACCGTAGTCAATGCATCTACAGT 59.552 43.478 18.79 13.13 35.26 3.55
1078 1211 3.798878 CCGTAGTCAATGCATCTACAGTG 59.201 47.826 18.79 6.24 36.99 3.66
1079 1212 3.798878 CGTAGTCAATGCATCTACAGTGG 59.201 47.826 18.79 4.47 36.34 4.00
1080 1213 3.272574 AGTCAATGCATCTACAGTGGG 57.727 47.619 0.00 0.00 36.34 4.61
1081 1214 1.672881 GTCAATGCATCTACAGTGGGC 59.327 52.381 0.00 0.00 36.34 5.36
1082 1215 1.281577 TCAATGCATCTACAGTGGGCA 59.718 47.619 0.00 0.00 36.34 5.36
1083 1216 2.093890 CAATGCATCTACAGTGGGCAA 58.906 47.619 0.00 0.00 38.08 4.52
1084 1217 2.492881 CAATGCATCTACAGTGGGCAAA 59.507 45.455 0.00 0.00 38.08 3.68
1085 1218 2.512692 TGCATCTACAGTGGGCAAAT 57.487 45.000 0.00 0.00 0.00 2.32
1086 1219 2.093890 TGCATCTACAGTGGGCAAATG 58.906 47.619 0.00 0.00 0.00 2.32
1087 1220 2.290832 TGCATCTACAGTGGGCAAATGA 60.291 45.455 0.00 0.00 0.00 2.57
1088 1221 2.954318 GCATCTACAGTGGGCAAATGAT 59.046 45.455 0.00 0.00 0.00 2.45
1089 1222 3.382546 GCATCTACAGTGGGCAAATGATT 59.617 43.478 0.00 0.00 0.00 2.57
1090 1223 4.142093 GCATCTACAGTGGGCAAATGATTT 60.142 41.667 0.00 0.00 0.00 2.17
1091 1224 5.625197 GCATCTACAGTGGGCAAATGATTTT 60.625 40.000 0.00 0.00 0.00 1.82
1092 1225 6.400568 CATCTACAGTGGGCAAATGATTTTT 58.599 36.000 0.00 0.00 0.00 1.94
1126 1259 8.955002 GTGTATTCGTACACAATAGATACAGTG 58.045 37.037 12.44 0.00 46.96 3.66
1127 1260 8.132995 TGTATTCGTACACAATAGATACAGTGG 58.867 37.037 0.00 0.00 36.35 4.00
1128 1261 6.762702 TTCGTACACAATAGATACAGTGGA 57.237 37.500 0.00 0.00 36.35 4.02
1129 1262 6.373186 TCGTACACAATAGATACAGTGGAG 57.627 41.667 0.00 0.00 36.35 3.86
1130 1263 4.976731 CGTACACAATAGATACAGTGGAGC 59.023 45.833 0.00 0.00 36.35 4.70
1131 1264 5.221067 CGTACACAATAGATACAGTGGAGCT 60.221 44.000 0.00 0.00 36.35 4.09
1132 1265 5.269505 ACACAATAGATACAGTGGAGCTC 57.730 43.478 4.71 4.71 36.35 4.09
1133 1266 4.711846 ACACAATAGATACAGTGGAGCTCA 59.288 41.667 17.19 0.00 36.35 4.26
1134 1267 5.046529 CACAATAGATACAGTGGAGCTCAC 58.953 45.833 17.19 11.76 46.39 3.51
1141 1274 4.284123 GTGGAGCTCACAATCGCA 57.716 55.556 17.19 0.00 45.39 5.10
1142 1275 1.790387 GTGGAGCTCACAATCGCAC 59.210 57.895 17.19 8.61 45.39 5.34
1143 1276 0.671781 GTGGAGCTCACAATCGCACT 60.672 55.000 17.19 0.00 45.39 4.40
1144 1277 0.035317 TGGAGCTCACAATCGCACTT 59.965 50.000 17.19 0.00 0.00 3.16
1145 1278 0.445436 GGAGCTCACAATCGCACTTG 59.555 55.000 17.19 0.00 0.00 3.16
1146 1279 1.432514 GAGCTCACAATCGCACTTGA 58.567 50.000 9.40 0.00 0.00 3.02
1147 1280 1.127582 GAGCTCACAATCGCACTTGAC 59.872 52.381 9.40 0.00 0.00 3.18
1148 1281 0.179240 GCTCACAATCGCACTTGACG 60.179 55.000 2.50 0.00 0.00 4.35
1149 1282 0.179240 CTCACAATCGCACTTGACGC 60.179 55.000 2.50 0.00 0.00 5.19
1150 1283 0.878086 TCACAATCGCACTTGACGCA 60.878 50.000 2.50 0.00 0.00 5.24
1151 1284 0.166597 CACAATCGCACTTGACGCAT 59.833 50.000 2.50 0.00 0.00 4.73
1152 1285 0.874390 ACAATCGCACTTGACGCATT 59.126 45.000 2.50 0.00 0.00 3.56
1153 1286 2.073056 ACAATCGCACTTGACGCATTA 58.927 42.857 2.50 0.00 0.00 1.90
1154 1287 2.094258 ACAATCGCACTTGACGCATTAG 59.906 45.455 2.50 0.00 0.00 1.73
1155 1288 1.290203 ATCGCACTTGACGCATTAGG 58.710 50.000 0.00 0.00 0.00 2.69
1156 1289 1.060937 CGCACTTGACGCATTAGGC 59.939 57.895 0.00 0.00 39.90 3.93
1157 1290 1.429423 GCACTTGACGCATTAGGCC 59.571 57.895 0.00 0.00 40.31 5.19
1158 1291 1.026718 GCACTTGACGCATTAGGCCT 61.027 55.000 11.78 11.78 40.31 5.19
1159 1292 1.742411 GCACTTGACGCATTAGGCCTA 60.742 52.381 8.91 8.91 40.31 3.93
1160 1293 2.838736 CACTTGACGCATTAGGCCTAT 58.161 47.619 14.74 0.00 40.31 2.57
1161 1294 2.802816 CACTTGACGCATTAGGCCTATC 59.197 50.000 14.74 8.39 40.31 2.08
1162 1295 2.700897 ACTTGACGCATTAGGCCTATCT 59.299 45.455 14.74 0.86 40.31 1.98
1163 1296 3.134804 ACTTGACGCATTAGGCCTATCTT 59.865 43.478 14.74 0.00 40.31 2.40
1164 1297 3.386768 TGACGCATTAGGCCTATCTTC 57.613 47.619 14.74 9.57 40.31 2.87
1165 1298 2.698274 TGACGCATTAGGCCTATCTTCA 59.302 45.455 14.74 11.92 40.31 3.02
1166 1299 3.133901 TGACGCATTAGGCCTATCTTCAA 59.866 43.478 14.74 0.00 40.31 2.69
1167 1300 3.733337 ACGCATTAGGCCTATCTTCAAG 58.267 45.455 14.74 4.57 40.31 3.02
1168 1301 3.388024 ACGCATTAGGCCTATCTTCAAGA 59.612 43.478 14.74 0.00 40.31 3.02
1169 1302 3.743396 CGCATTAGGCCTATCTTCAAGAC 59.257 47.826 14.74 0.00 40.31 3.01
1170 1303 4.068599 GCATTAGGCCTATCTTCAAGACC 58.931 47.826 14.74 0.00 36.11 3.85
1171 1304 4.202409 GCATTAGGCCTATCTTCAAGACCT 60.202 45.833 14.74 0.00 36.11 3.85
1172 1305 5.546526 CATTAGGCCTATCTTCAAGACCTC 58.453 45.833 14.74 0.00 0.00 3.85
1173 1306 3.413105 AGGCCTATCTTCAAGACCTCT 57.587 47.619 1.29 0.00 0.00 3.69
1174 1307 3.037549 AGGCCTATCTTCAAGACCTCTG 58.962 50.000 1.29 0.00 0.00 3.35
1175 1308 2.769095 GGCCTATCTTCAAGACCTCTGT 59.231 50.000 0.00 0.00 0.00 3.41
1176 1309 3.181470 GGCCTATCTTCAAGACCTCTGTC 60.181 52.174 0.00 0.00 42.09 3.51
1249 1382 4.020218 TCAGTCCTGGAAGTTGAGTATTGG 60.020 45.833 0.00 0.00 0.00 3.16
2362 2571 8.270030 TGTGGATGAAAGTCAAGATATTCAGAT 58.730 33.333 0.00 0.00 35.47 2.90
3642 3925 9.481340 GAATTTCAACAAGAGCCTTTAAGAATT 57.519 29.630 0.00 0.00 0.00 2.17
4163 7058 4.449391 CAACTTTGGACGGGTCGT 57.551 55.556 0.00 0.00 45.10 4.34
4262 7157 1.808343 GCACATCTGACACTGATTGCA 59.192 47.619 0.89 0.00 32.43 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
148 167 1.713647 AGGACTGAGAGGAGGAAGACA 59.286 52.381 0.00 0.00 0.00 3.41
192 231 2.241880 CCTTGACGCCGAACAACGT 61.242 57.895 0.00 0.00 46.91 3.99
195 234 2.975799 GGCCTTGACGCCGAACAA 60.976 61.111 0.00 0.00 39.64 2.83
426 466 4.947147 TTTGAGGGCTGCCGCGTT 62.947 61.111 13.40 0.00 36.88 4.84
609 658 2.041265 CCTGCTGGACCCCTACCT 59.959 66.667 2.92 0.00 34.57 3.08
695 756 1.213013 GAAGAAGTCGCCGAGAGCA 59.787 57.895 0.00 0.00 44.04 4.26
740 819 8.914328 TCGACATGTTTGACGTTATATAAAGA 57.086 30.769 14.31 0.00 40.94 2.52
778 896 4.026062 GGAATTCGGCAAAGTTCAACAAAC 60.026 41.667 0.00 0.00 38.21 2.93
783 901 1.950909 ACGGAATTCGGCAAAGTTCAA 59.049 42.857 12.54 0.00 44.45 2.69
871 1002 2.104132 GCCGGCGCTAAAATTGGG 59.896 61.111 12.58 0.00 0.00 4.12
921 1054 2.690881 TCCAGCCGTTAGCCCCAT 60.691 61.111 0.00 0.00 45.47 4.00
949 1082 1.827399 TTCGCAGTGGGAGTCCCTTC 61.827 60.000 28.73 20.35 45.70 3.46
950 1083 1.415672 TTTCGCAGTGGGAGTCCCTT 61.416 55.000 28.73 14.44 45.70 3.95
952 1085 0.539986 TATTTCGCAGTGGGAGTCCC 59.460 55.000 22.54 22.54 45.71 4.46
954 1087 4.759516 TTTTTATTTCGCAGTGGGAGTC 57.240 40.909 10.06 0.00 0.00 3.36
972 1105 4.898320 AGAAACCGGTACCGATAGTTTTT 58.102 39.130 35.41 25.25 42.83 1.94
973 1106 4.541973 AGAAACCGGTACCGATAGTTTT 57.458 40.909 35.41 22.52 42.83 2.43
974 1107 4.142160 GGTAGAAACCGGTACCGATAGTTT 60.142 45.833 35.41 31.41 42.83 2.66
975 1108 3.381590 GGTAGAAACCGGTACCGATAGTT 59.618 47.826 35.41 25.74 42.83 2.24
976 1109 2.952310 GGTAGAAACCGGTACCGATAGT 59.048 50.000 35.41 21.48 42.83 2.12
977 1110 3.632855 GGTAGAAACCGGTACCGATAG 57.367 52.381 35.41 20.78 42.83 2.08
998 1131 2.078392 TCCAACGCTTTTTCGGTATCC 58.922 47.619 0.00 0.00 0.00 2.59
999 1132 3.242641 GGATCCAACGCTTTTTCGGTATC 60.243 47.826 6.95 0.00 0.00 2.24
1000 1133 2.681344 GGATCCAACGCTTTTTCGGTAT 59.319 45.455 6.95 0.00 0.00 2.73
1001 1134 2.078392 GGATCCAACGCTTTTTCGGTA 58.922 47.619 6.95 0.00 0.00 4.02
1002 1135 0.879090 GGATCCAACGCTTTTTCGGT 59.121 50.000 6.95 0.00 0.00 4.69
1003 1136 0.878416 TGGATCCAACGCTTTTTCGG 59.122 50.000 13.46 0.00 0.00 4.30
1004 1137 2.919666 ATGGATCCAACGCTTTTTCG 57.080 45.000 20.67 0.00 0.00 3.46
1005 1138 4.168760 CAGAATGGATCCAACGCTTTTTC 58.831 43.478 20.67 15.57 0.00 2.29
1006 1139 3.614870 GCAGAATGGATCCAACGCTTTTT 60.615 43.478 20.67 6.34 35.86 1.94
1007 1140 2.094545 GCAGAATGGATCCAACGCTTTT 60.095 45.455 20.67 7.18 35.86 2.27
1008 1141 1.474077 GCAGAATGGATCCAACGCTTT 59.526 47.619 20.67 8.02 35.86 3.51
1009 1142 1.098050 GCAGAATGGATCCAACGCTT 58.902 50.000 20.67 8.46 35.86 4.68
1010 1143 1.091771 CGCAGAATGGATCCAACGCT 61.092 55.000 20.67 13.25 35.86 5.07
1011 1144 1.353103 CGCAGAATGGATCCAACGC 59.647 57.895 20.67 16.95 35.86 4.84
1012 1145 1.086696 AACGCAGAATGGATCCAACG 58.913 50.000 20.67 18.65 35.86 4.10
1013 1146 1.468054 GCAACGCAGAATGGATCCAAC 60.468 52.381 20.67 15.80 35.86 3.77
1014 1147 0.810648 GCAACGCAGAATGGATCCAA 59.189 50.000 20.67 1.96 35.86 3.53
1015 1148 1.368345 CGCAACGCAGAATGGATCCA 61.368 55.000 18.88 18.88 35.86 3.41
1016 1149 1.353103 CGCAACGCAGAATGGATCC 59.647 57.895 4.20 4.20 35.86 3.36
1017 1150 0.247814 CACGCAACGCAGAATGGATC 60.248 55.000 0.00 0.00 35.86 3.36
1018 1151 1.796151 CACGCAACGCAGAATGGAT 59.204 52.632 0.00 0.00 35.86 3.41
1019 1152 2.965147 GCACGCAACGCAGAATGGA 61.965 57.895 0.00 0.00 35.86 3.41
1020 1153 2.502510 GCACGCAACGCAGAATGG 60.503 61.111 0.00 0.00 35.86 3.16
1021 1154 2.221704 TACGCACGCAACGCAGAATG 62.222 55.000 0.00 0.00 40.87 2.67
1022 1155 1.955529 CTACGCACGCAACGCAGAAT 61.956 55.000 0.00 0.00 0.00 2.40
1023 1156 2.653967 CTACGCACGCAACGCAGAA 61.654 57.895 0.00 0.00 0.00 3.02
1024 1157 3.103289 CTACGCACGCAACGCAGA 61.103 61.111 0.00 0.00 0.00 4.26
1025 1158 2.534264 CTTCTACGCACGCAACGCAG 62.534 60.000 0.00 0.00 0.00 5.18
1026 1159 2.653967 CTTCTACGCACGCAACGCA 61.654 57.895 0.00 0.00 0.00 5.24
1027 1160 2.093983 CTTCTACGCACGCAACGC 59.906 61.111 0.00 0.00 0.00 4.84
1028 1161 1.411089 GACTTCTACGCACGCAACG 59.589 57.895 0.00 0.00 0.00 4.10
1029 1162 1.000233 TCGACTTCTACGCACGCAAC 61.000 55.000 0.00 0.00 0.00 4.17
1030 1163 0.109458 ATCGACTTCTACGCACGCAA 60.109 50.000 0.00 0.00 0.00 4.85
1031 1164 0.109458 AATCGACTTCTACGCACGCA 60.109 50.000 0.00 0.00 0.00 5.24
1032 1165 1.818850 TAATCGACTTCTACGCACGC 58.181 50.000 0.00 0.00 0.00 5.34
1033 1166 3.360533 ACATAATCGACTTCTACGCACG 58.639 45.455 0.00 0.00 0.00 5.34
1034 1167 4.674211 GGTACATAATCGACTTCTACGCAC 59.326 45.833 0.00 0.00 0.00 5.34
1035 1168 4.553351 CGGTACATAATCGACTTCTACGCA 60.553 45.833 0.00 0.00 0.00 5.24
1036 1169 3.904824 CGGTACATAATCGACTTCTACGC 59.095 47.826 0.00 0.00 0.00 4.42
1037 1170 5.088141 ACGGTACATAATCGACTTCTACG 57.912 43.478 0.00 0.00 0.00 3.51
1038 1171 7.042456 TGACTACGGTACATAATCGACTTCTAC 60.042 40.741 0.00 0.00 0.00 2.59
1039 1172 6.986231 TGACTACGGTACATAATCGACTTCTA 59.014 38.462 0.00 0.00 0.00 2.10
1040 1173 5.819379 TGACTACGGTACATAATCGACTTCT 59.181 40.000 0.00 0.00 0.00 2.85
1041 1174 6.052840 TGACTACGGTACATAATCGACTTC 57.947 41.667 0.00 0.00 0.00 3.01
1042 1175 6.441093 TTGACTACGGTACATAATCGACTT 57.559 37.500 0.00 0.00 0.00 3.01
1043 1176 6.436261 CATTGACTACGGTACATAATCGACT 58.564 40.000 0.00 0.00 0.00 4.18
1044 1177 5.116680 GCATTGACTACGGTACATAATCGAC 59.883 44.000 0.00 0.00 0.00 4.20
1045 1178 5.217393 GCATTGACTACGGTACATAATCGA 58.783 41.667 0.00 0.00 0.00 3.59
1046 1179 4.979815 TGCATTGACTACGGTACATAATCG 59.020 41.667 0.00 0.00 0.00 3.34
1047 1180 6.868864 AGATGCATTGACTACGGTACATAATC 59.131 38.462 0.00 0.00 0.00 1.75
1048 1181 6.759272 AGATGCATTGACTACGGTACATAAT 58.241 36.000 0.00 0.00 0.00 1.28
1049 1182 6.156748 AGATGCATTGACTACGGTACATAA 57.843 37.500 0.00 0.00 0.00 1.90
1050 1183 5.784578 AGATGCATTGACTACGGTACATA 57.215 39.130 0.00 0.00 0.00 2.29
1051 1184 4.672587 AGATGCATTGACTACGGTACAT 57.327 40.909 0.00 0.00 0.00 2.29
1052 1185 4.399934 TGTAGATGCATTGACTACGGTACA 59.600 41.667 15.47 2.34 39.19 2.90
1053 1186 4.928601 TGTAGATGCATTGACTACGGTAC 58.071 43.478 15.47 0.00 39.19 3.34
1054 1187 5.183014 CTGTAGATGCATTGACTACGGTA 57.817 43.478 18.36 4.48 39.19 4.02
1055 1188 3.447586 ACTGTAGATGCATTGACTACGGT 59.552 43.478 23.26 23.26 45.70 4.83
1056 1189 3.798878 CACTGTAGATGCATTGACTACGG 59.201 47.826 22.31 22.31 44.29 4.02
1057 1190 3.798878 CCACTGTAGATGCATTGACTACG 59.201 47.826 15.47 13.05 39.19 3.51
1058 1191 4.122776 CCCACTGTAGATGCATTGACTAC 58.877 47.826 14.24 14.24 37.55 2.73
1059 1192 3.432186 GCCCACTGTAGATGCATTGACTA 60.432 47.826 0.00 0.00 0.00 2.59
1060 1193 2.681976 GCCCACTGTAGATGCATTGACT 60.682 50.000 0.00 0.00 0.00 3.41
1061 1194 1.672881 GCCCACTGTAGATGCATTGAC 59.327 52.381 0.00 2.58 0.00 3.18
1062 1195 1.281577 TGCCCACTGTAGATGCATTGA 59.718 47.619 0.00 0.00 0.00 2.57
1063 1196 1.753930 TGCCCACTGTAGATGCATTG 58.246 50.000 0.00 0.00 0.00 2.82
1064 1197 2.512692 TTGCCCACTGTAGATGCATT 57.487 45.000 0.00 0.00 0.00 3.56
1065 1198 2.512692 TTTGCCCACTGTAGATGCAT 57.487 45.000 0.00 0.00 0.00 3.96
1066 1199 2.093890 CATTTGCCCACTGTAGATGCA 58.906 47.619 0.00 0.00 0.00 3.96
1067 1200 2.368439 TCATTTGCCCACTGTAGATGC 58.632 47.619 0.00 0.00 0.00 3.91
1068 1201 5.587388 AAATCATTTGCCCACTGTAGATG 57.413 39.130 0.00 0.00 0.00 2.90
1069 1202 6.610075 AAAAATCATTTGCCCACTGTAGAT 57.390 33.333 0.00 0.00 0.00 1.98
1101 1234 8.132995 CCACTGTATCTATTGTGTACGAATACA 58.867 37.037 0.00 0.00 39.06 2.29
1102 1235 8.347771 TCCACTGTATCTATTGTGTACGAATAC 58.652 37.037 0.00 0.00 0.00 1.89
1103 1236 8.454570 TCCACTGTATCTATTGTGTACGAATA 57.545 34.615 0.00 0.00 0.00 1.75
1104 1237 7.342769 TCCACTGTATCTATTGTGTACGAAT 57.657 36.000 0.00 0.00 0.00 3.34
1105 1238 6.679638 GCTCCACTGTATCTATTGTGTACGAA 60.680 42.308 0.00 0.00 0.00 3.85
1106 1239 5.220989 GCTCCACTGTATCTATTGTGTACGA 60.221 44.000 0.00 0.00 0.00 3.43
1107 1240 4.976731 GCTCCACTGTATCTATTGTGTACG 59.023 45.833 0.00 0.00 0.00 3.67
1108 1241 6.150396 AGCTCCACTGTATCTATTGTGTAC 57.850 41.667 0.00 0.00 0.00 2.90
1109 1242 5.891551 TGAGCTCCACTGTATCTATTGTGTA 59.108 40.000 12.15 0.00 0.00 2.90
1110 1243 4.711846 TGAGCTCCACTGTATCTATTGTGT 59.288 41.667 12.15 0.00 0.00 3.72
1111 1244 5.046529 GTGAGCTCCACTGTATCTATTGTG 58.953 45.833 12.15 0.00 42.44 3.33
1112 1245 4.711846 TGTGAGCTCCACTGTATCTATTGT 59.288 41.667 12.15 0.00 45.86 2.71
1113 1246 5.268118 TGTGAGCTCCACTGTATCTATTG 57.732 43.478 12.15 0.00 45.86 1.90
1114 1247 5.939764 TTGTGAGCTCCACTGTATCTATT 57.060 39.130 12.15 0.00 45.86 1.73
1115 1248 5.278709 CGATTGTGAGCTCCACTGTATCTAT 60.279 44.000 12.15 0.00 45.86 1.98
1116 1249 4.036852 CGATTGTGAGCTCCACTGTATCTA 59.963 45.833 12.15 0.00 45.86 1.98
1117 1250 3.181482 CGATTGTGAGCTCCACTGTATCT 60.181 47.826 12.15 0.00 45.86 1.98
1118 1251 3.119291 CGATTGTGAGCTCCACTGTATC 58.881 50.000 12.15 11.80 45.86 2.24
1119 1252 2.739932 GCGATTGTGAGCTCCACTGTAT 60.740 50.000 12.15 5.35 45.86 2.29
1120 1253 1.404181 GCGATTGTGAGCTCCACTGTA 60.404 52.381 12.15 1.01 45.86 2.74
1121 1254 0.671781 GCGATTGTGAGCTCCACTGT 60.672 55.000 12.15 3.00 45.86 3.55
1122 1255 0.671472 TGCGATTGTGAGCTCCACTG 60.671 55.000 12.15 2.80 45.86 3.66
1123 1256 0.671781 GTGCGATTGTGAGCTCCACT 60.672 55.000 12.15 3.00 45.86 4.00
1124 1257 0.671781 AGTGCGATTGTGAGCTCCAC 60.672 55.000 12.15 9.94 45.88 4.02
1125 1258 0.035317 AAGTGCGATTGTGAGCTCCA 59.965 50.000 12.15 6.01 0.00 3.86
1126 1259 0.445436 CAAGTGCGATTGTGAGCTCC 59.555 55.000 12.15 3.09 0.00 4.70
1127 1260 1.127582 GTCAAGTGCGATTGTGAGCTC 59.872 52.381 6.82 6.82 0.00 4.09
1128 1261 1.151668 GTCAAGTGCGATTGTGAGCT 58.848 50.000 0.00 0.00 0.00 4.09
1129 1262 0.179240 CGTCAAGTGCGATTGTGAGC 60.179 55.000 0.00 0.00 0.00 4.26
1130 1263 0.179240 GCGTCAAGTGCGATTGTGAG 60.179 55.000 0.00 0.00 0.00 3.51
1131 1264 0.878086 TGCGTCAAGTGCGATTGTGA 60.878 50.000 0.00 0.00 34.24 3.58
1132 1265 0.166597 ATGCGTCAAGTGCGATTGTG 59.833 50.000 0.00 0.00 34.24 3.33
1133 1266 0.874390 AATGCGTCAAGTGCGATTGT 59.126 45.000 0.00 0.00 34.24 2.71
1134 1267 2.537529 CCTAATGCGTCAAGTGCGATTG 60.538 50.000 0.00 0.00 34.24 2.67
1135 1268 1.665679 CCTAATGCGTCAAGTGCGATT 59.334 47.619 0.00 0.00 34.24 3.34
1136 1269 1.290203 CCTAATGCGTCAAGTGCGAT 58.710 50.000 0.00 0.00 34.24 4.58
1137 1270 1.358725 GCCTAATGCGTCAAGTGCGA 61.359 55.000 0.00 0.00 34.24 5.10
1138 1271 1.060937 GCCTAATGCGTCAAGTGCG 59.939 57.895 0.00 0.00 34.24 5.34
1139 1272 1.026718 AGGCCTAATGCGTCAAGTGC 61.027 55.000 1.29 0.00 42.61 4.40
1140 1273 2.309528 TAGGCCTAATGCGTCAAGTG 57.690 50.000 10.98 0.00 42.61 3.16
1141 1274 2.700897 AGATAGGCCTAATGCGTCAAGT 59.299 45.455 18.42 0.00 42.61 3.16
1142 1275 3.393089 AGATAGGCCTAATGCGTCAAG 57.607 47.619 18.42 0.00 42.61 3.02
1143 1276 3.133901 TGAAGATAGGCCTAATGCGTCAA 59.866 43.478 18.42 5.81 42.61 3.18
1144 1277 2.698274 TGAAGATAGGCCTAATGCGTCA 59.302 45.455 18.42 18.40 42.61 4.35
1145 1278 3.386768 TGAAGATAGGCCTAATGCGTC 57.613 47.619 18.42 16.19 42.61 5.19
1146 1279 3.388024 TCTTGAAGATAGGCCTAATGCGT 59.612 43.478 18.42 7.66 42.61 5.24
1147 1280 3.743396 GTCTTGAAGATAGGCCTAATGCG 59.257 47.826 18.42 2.18 42.61 4.73
1148 1281 4.068599 GGTCTTGAAGATAGGCCTAATGC 58.931 47.826 18.42 8.01 34.50 3.56
1149 1282 5.559148 AGGTCTTGAAGATAGGCCTAATG 57.441 43.478 18.42 2.20 45.68 1.90
1154 1287 2.769095 ACAGAGGTCTTGAAGATAGGCC 59.231 50.000 0.00 0.00 37.67 5.19
1155 1288 4.053469 GACAGAGGTCTTGAAGATAGGC 57.947 50.000 0.00 0.00 40.99 3.93
1167 1300 5.163468 TGCAATTATCTCAGAGACAGAGGTC 60.163 44.000 0.91 0.00 44.66 3.85
1168 1301 4.713814 TGCAATTATCTCAGAGACAGAGGT 59.286 41.667 0.91 0.00 33.92 3.85
1169 1302 5.049167 GTGCAATTATCTCAGAGACAGAGG 58.951 45.833 0.91 0.00 33.92 3.69
1170 1303 4.739228 CGTGCAATTATCTCAGAGACAGAG 59.261 45.833 0.91 0.00 34.42 3.35
1171 1304 4.158579 ACGTGCAATTATCTCAGAGACAGA 59.841 41.667 0.91 0.00 0.00 3.41
1172 1305 4.428209 ACGTGCAATTATCTCAGAGACAG 58.572 43.478 0.91 0.00 0.00 3.51
1173 1306 4.456280 ACGTGCAATTATCTCAGAGACA 57.544 40.909 0.91 0.00 0.00 3.41
1174 1307 6.209361 TGATACGTGCAATTATCTCAGAGAC 58.791 40.000 0.91 0.00 0.00 3.36
1175 1308 6.391227 TGATACGTGCAATTATCTCAGAGA 57.609 37.500 1.54 1.54 0.00 3.10
1176 1309 6.309980 GGATGATACGTGCAATTATCTCAGAG 59.690 42.308 14.09 0.00 0.00 3.35
1177 1310 6.159293 GGATGATACGTGCAATTATCTCAGA 58.841 40.000 14.09 0.00 0.00 3.27
1178 1311 5.349817 GGGATGATACGTGCAATTATCTCAG 59.650 44.000 14.09 0.00 0.00 3.35
1179 1312 5.237815 GGGATGATACGTGCAATTATCTCA 58.762 41.667 14.09 3.32 0.00 3.27
1249 1382 3.821421 AGAATCAGGACCGTATTGGAC 57.179 47.619 0.00 0.00 42.00 4.02
1641 1816 2.692368 GAGGGCCCTCCATCACCA 60.692 66.667 38.25 0.00 42.49 4.17
1709 1885 3.756933 AAACCGTGCCTAAGTAGTTCA 57.243 42.857 0.00 0.00 0.00 3.18
2362 2571 9.126151 TGAGTTTTACAAATAACTGGTCATGAA 57.874 29.630 0.00 0.00 34.88 2.57
2653 2868 4.346730 TCCTGCATGGAACTTCATTTCAT 58.653 39.130 2.78 0.00 42.94 2.57
2654 2869 3.765381 TCCTGCATGGAACTTCATTTCA 58.235 40.909 2.78 0.00 42.94 2.69
2807 3032 6.501805 TGTTATCCCAAGGTGCATAGAGATAT 59.498 38.462 0.00 0.00 0.00 1.63
3315 3543 8.267894 ACTACTACATGAGCCACAAGAAATATT 58.732 33.333 0.00 0.00 0.00 1.28
3323 3551 2.301583 TGCACTACTACATGAGCCACAA 59.698 45.455 0.00 0.00 0.00 3.33
3642 3925 6.485830 ACTTCTAGCACATTTCCATAGCTA 57.514 37.500 0.00 0.00 36.80 3.32
4163 7058 0.618458 GAGGTAATGGTGTGGCTCCA 59.382 55.000 0.00 0.00 39.41 3.86
4262 7157 1.983691 CCCAGATCAGGCATGGTAGAT 59.016 52.381 0.00 0.00 31.85 1.98


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

AutoCloner maintained by Alex Coulton.