Multiple sequence alignment - TraesCS5D01G168300

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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 TraesCS5D01G168300 chr5D 100.000 2177 0 0 1 2177 263448183 263446007 0.000000e+00 4021
1 TraesCS5D01G168300 chr5D 96.813 910 24 3 1 905 325506120 325507029 0.000000e+00 1515
2 TraesCS5D01G168300 chr5D 95.930 909 32 3 2 905 361307055 361307963 0.000000e+00 1469
3 TraesCS5D01G168300 chr5D 92.773 1024 49 7 1179 2177 247043582 247042559 0.000000e+00 1458
4 TraesCS5D01G168300 chr5D 98.909 275 3 0 908 1182 503237874 503237600 1.940000e-135 492
5 TraesCS5D01G168300 chr3D 96.484 910 27 3 1 905 163049563 163050472 0.000000e+00 1498
6 TraesCS5D01G168300 chr3D 92.752 1021 49 8 1179 2174 401996367 401997387 0.000000e+00 1452
7 TraesCS5D01G168300 chr6D 96.389 914 23 5 1 905 126325636 126326548 0.000000e+00 1496
8 TraesCS5D01G168300 chr6D 96.276 913 22 6 1 903 109128933 109128023 0.000000e+00 1487
9 TraesCS5D01G168300 chr6D 93.164 1024 44 9 1179 2177 375069661 375070683 0.000000e+00 1480
10 TraesCS5D01G168300 chr6D 92.578 1024 50 7 1179 2177 211324352 211323330 0.000000e+00 1447
11 TraesCS5D01G168300 chr6D 92.285 1024 54 6 1179 2177 346480931 346481954 0.000000e+00 1430
12 TraesCS5D01G168300 chr6D 91.585 1022 54 8 1181 2177 262049346 262050360 0.000000e+00 1382
13 TraesCS5D01G168300 chr6D 90.829 1025 68 13 1179 2177 112117547 112116523 0.000000e+00 1349
14 TraesCS5D01G168300 chr6D 90.918 1024 61 9 1179 2177 96018497 96019513 0.000000e+00 1347
15 TraesCS5D01G168300 chr6D 98.909 275 3 0 908 1182 389254016 389253742 1.940000e-135 492
16 TraesCS5D01G168300 chr6D 98.545 275 4 0 908 1182 389249221 389248947 9.030000e-134 486
17 TraesCS5D01G168300 chr7D 96.370 909 26 4 1 904 263171104 263172010 0.000000e+00 1489
18 TraesCS5D01G168300 chr7D 93.066 1024 46 8 1179 2177 390793142 390794165 0.000000e+00 1474
19 TraesCS5D01G168300 chr7D 92.571 1023 51 8 1180 2177 261561626 261560604 0.000000e+00 1445
20 TraesCS5D01G168300 chr2D 96.268 911 27 5 1 905 100287988 100287079 0.000000e+00 1487
21 TraesCS5D01G168300 chr2D 96.272 912 25 6 1 905 261671065 261671974 0.000000e+00 1487
22 TraesCS5D01G168300 chr2D 92.578 1024 51 8 1179 2177 336410750 336411773 0.000000e+00 1447
23 TraesCS5D01G168300 chr2D 90.234 1024 55 11 1179 2177 314974787 314975790 0.000000e+00 1295
24 TraesCS5D01G168300 chr1D 95.952 914 28 5 1 905 235101823 235102736 0.000000e+00 1474
25 TraesCS5D01G168300 chr1D 93.066 1024 45 9 1179 2177 235102739 235103761 0.000000e+00 1474
26 TraesCS5D01G168300 chr1D 98.545 275 4 0 905 1179 51917407 51917681 9.030000e-134 486
27 TraesCS5D01G168300 chr1D 98.545 275 4 0 905 1179 254385172 254385446 9.030000e-134 486
28 TraesCS5D01G168300 chr4D 92.773 1024 48 9 1179 2177 355365967 355364945 0.000000e+00 1458
29 TraesCS5D01G168300 chr4D 92.683 1025 49 9 1179 2177 25669481 25668457 0.000000e+00 1454
30 TraesCS5D01G168300 chr7A 91.992 1024 56 5 1179 2177 206321066 206322088 0.000000e+00 1413
31 TraesCS5D01G168300 chr7A 88.515 505 32 6 1699 2177 296252626 296253130 2.410000e-164 588
32 TraesCS5D01G168300 chrUn 98.909 275 3 0 905 1179 440227014 440227288 1.940000e-135 492
33 TraesCS5D01G168300 chr3A 98.909 275 3 0 908 1182 593311535 593311261 1.940000e-135 492
34 TraesCS5D01G168300 chr3A 98.909 275 3 0 905 1179 672900671 672900945 1.940000e-135 492
35 TraesCS5D01G168300 chr3B 98.905 274 3 0 910 1183 201536365 201536092 6.980000e-135 490


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 TraesCS5D01G168300 chr5D 263446007 263448183 2176 True 4021 4021 100.000 1 2177 1 chr5D.!!$R2 2176
1 TraesCS5D01G168300 chr5D 325506120 325507029 909 False 1515 1515 96.813 1 905 1 chr5D.!!$F1 904
2 TraesCS5D01G168300 chr5D 361307055 361307963 908 False 1469 1469 95.930 2 905 1 chr5D.!!$F2 903
3 TraesCS5D01G168300 chr5D 247042559 247043582 1023 True 1458 1458 92.773 1179 2177 1 chr5D.!!$R1 998
4 TraesCS5D01G168300 chr3D 163049563 163050472 909 False 1498 1498 96.484 1 905 1 chr3D.!!$F1 904
5 TraesCS5D01G168300 chr3D 401996367 401997387 1020 False 1452 1452 92.752 1179 2174 1 chr3D.!!$F2 995
6 TraesCS5D01G168300 chr6D 126325636 126326548 912 False 1496 1496 96.389 1 905 1 chr6D.!!$F2 904
7 TraesCS5D01G168300 chr6D 109128023 109128933 910 True 1487 1487 96.276 1 903 1 chr6D.!!$R1 902
8 TraesCS5D01G168300 chr6D 375069661 375070683 1022 False 1480 1480 93.164 1179 2177 1 chr6D.!!$F5 998
9 TraesCS5D01G168300 chr6D 211323330 211324352 1022 True 1447 1447 92.578 1179 2177 1 chr6D.!!$R3 998
10 TraesCS5D01G168300 chr6D 346480931 346481954 1023 False 1430 1430 92.285 1179 2177 1 chr6D.!!$F4 998
11 TraesCS5D01G168300 chr6D 262049346 262050360 1014 False 1382 1382 91.585 1181 2177 1 chr6D.!!$F3 996
12 TraesCS5D01G168300 chr6D 112116523 112117547 1024 True 1349 1349 90.829 1179 2177 1 chr6D.!!$R2 998
13 TraesCS5D01G168300 chr6D 96018497 96019513 1016 False 1347 1347 90.918 1179 2177 1 chr6D.!!$F1 998
14 TraesCS5D01G168300 chr7D 263171104 263172010 906 False 1489 1489 96.370 1 904 1 chr7D.!!$F1 903
15 TraesCS5D01G168300 chr7D 390793142 390794165 1023 False 1474 1474 93.066 1179 2177 1 chr7D.!!$F2 998
16 TraesCS5D01G168300 chr7D 261560604 261561626 1022 True 1445 1445 92.571 1180 2177 1 chr7D.!!$R1 997
17 TraesCS5D01G168300 chr2D 100287079 100287988 909 True 1487 1487 96.268 1 905 1 chr2D.!!$R1 904
18 TraesCS5D01G168300 chr2D 261671065 261671974 909 False 1487 1487 96.272 1 905 1 chr2D.!!$F1 904
19 TraesCS5D01G168300 chr2D 336410750 336411773 1023 False 1447 1447 92.578 1179 2177 1 chr2D.!!$F3 998
20 TraesCS5D01G168300 chr2D 314974787 314975790 1003 False 1295 1295 90.234 1179 2177 1 chr2D.!!$F2 998
21 TraesCS5D01G168300 chr1D 235101823 235103761 1938 False 1474 1474 94.509 1 2177 2 chr1D.!!$F3 2176
22 TraesCS5D01G168300 chr4D 355364945 355365967 1022 True 1458 1458 92.773 1179 2177 1 chr4D.!!$R2 998
23 TraesCS5D01G168300 chr4D 25668457 25669481 1024 True 1454 1454 92.683 1179 2177 1 chr4D.!!$R1 998
24 TraesCS5D01G168300 chr7A 206321066 206322088 1022 False 1413 1413 91.992 1179 2177 1 chr7A.!!$F1 998
25 TraesCS5D01G168300 chr7A 296252626 296253130 504 False 588 588 88.515 1699 2177 1 chr7A.!!$F2 478

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
773 795 0.250295 CGGTCAACCAGTCCACATGT 60.25 55.0 0.0 0.0 35.14 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1918 1943 0.725686 GTACTCGAGCGCAGTACAGA 59.274 55.0 24.0 8.45 43.94 3.41 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
29 30 0.812549 TTCTATCGCGCACACACCTA 59.187 50.000 8.75 0.00 0.00 3.08
80 81 1.062886 TCACGATCTCCAGGGGATCTT 60.063 52.381 24.69 14.69 37.88 2.40
130 131 2.159476 CCATGTCTGCATTTTCTCCGTG 60.159 50.000 0.00 0.00 31.99 4.94
161 162 2.561419 CGACCTCTCTCCCTTGTTTGTA 59.439 50.000 0.00 0.00 0.00 2.41
179 180 0.474854 TAAGACCCCTCTTGGCCACA 60.475 55.000 3.88 0.00 37.32 4.17
272 275 4.425520 TGCATGTGTGATATGTTTGCATG 58.574 39.130 0.00 0.00 36.58 4.06
400 410 3.996921 AGTTAGGGACTCTCTCACGTA 57.003 47.619 0.00 0.00 41.75 3.57
420 430 7.170828 TCACGTACATAAGCATATGGATGTTTC 59.829 37.037 14.90 0.00 46.15 2.78
701 721 4.329392 TCTCACACGAACACTCTATACCA 58.671 43.478 0.00 0.00 0.00 3.25
773 795 0.250295 CGGTCAACCAGTCCACATGT 60.250 55.000 0.00 0.00 35.14 3.21
782 804 2.503331 CAGTCCACATGTTGCCTTGTA 58.497 47.619 0.00 0.00 0.00 2.41
856 878 8.562949 AAATAAGTAAACTAGAGGCCCATCTA 57.437 34.615 0.00 0.00 0.00 1.98
910 932 3.075186 GGTAGCACCCCGAAACCT 58.925 61.111 0.00 0.00 30.04 3.50
911 933 1.078637 GGTAGCACCCCGAAACCTC 60.079 63.158 0.00 0.00 30.04 3.85
912 934 1.447314 GTAGCACCCCGAAACCTCG 60.447 63.158 0.00 0.00 45.02 4.63
932 954 6.727824 CTCGAAACATGAGGACAAATTACT 57.272 37.500 0.00 0.00 0.00 2.24
933 955 7.133891 CTCGAAACATGAGGACAAATTACTT 57.866 36.000 0.00 0.00 0.00 2.24
934 956 7.129109 TCGAAACATGAGGACAAATTACTTC 57.871 36.000 0.00 0.00 0.00 3.01
935 957 6.934645 TCGAAACATGAGGACAAATTACTTCT 59.065 34.615 0.00 0.00 0.00 2.85
936 958 7.117812 TCGAAACATGAGGACAAATTACTTCTC 59.882 37.037 0.00 0.00 0.00 2.87
937 959 7.118390 CGAAACATGAGGACAAATTACTTCTCT 59.882 37.037 0.00 0.00 0.00 3.10
938 960 8.697507 AAACATGAGGACAAATTACTTCTCTT 57.302 30.769 0.00 0.00 0.00 2.85
939 961 9.793259 AAACATGAGGACAAATTACTTCTCTTA 57.207 29.630 0.00 0.00 0.00 2.10
940 962 9.442047 AACATGAGGACAAATTACTTCTCTTAG 57.558 33.333 0.00 0.00 0.00 2.18
941 963 8.043710 ACATGAGGACAAATTACTTCTCTTAGG 58.956 37.037 0.00 0.00 0.00 2.69
942 964 7.792364 TGAGGACAAATTACTTCTCTTAGGA 57.208 36.000 0.00 0.00 0.00 2.94
943 965 8.202461 TGAGGACAAATTACTTCTCTTAGGAA 57.798 34.615 0.00 0.00 0.00 3.36
944 966 8.095169 TGAGGACAAATTACTTCTCTTAGGAAC 58.905 37.037 0.00 0.00 0.00 3.62
945 967 7.974504 AGGACAAATTACTTCTCTTAGGAACA 58.025 34.615 0.00 0.00 0.00 3.18
946 968 7.878644 AGGACAAATTACTTCTCTTAGGAACAC 59.121 37.037 0.00 0.00 0.00 3.32
947 969 7.660208 GGACAAATTACTTCTCTTAGGAACACA 59.340 37.037 0.00 0.00 0.00 3.72
948 970 9.220767 GACAAATTACTTCTCTTAGGAACACAT 57.779 33.333 0.00 0.00 0.00 3.21
953 975 9.877178 ATTACTTCTCTTAGGAACACATACAAG 57.123 33.333 0.00 0.00 0.00 3.16
954 976 7.540474 ACTTCTCTTAGGAACACATACAAGA 57.460 36.000 0.00 0.00 0.00 3.02
955 977 7.963532 ACTTCTCTTAGGAACACATACAAGAA 58.036 34.615 0.00 0.00 0.00 2.52
956 978 8.429641 ACTTCTCTTAGGAACACATACAAGAAA 58.570 33.333 0.00 0.00 0.00 2.52
957 979 9.273016 CTTCTCTTAGGAACACATACAAGAAAA 57.727 33.333 0.00 0.00 0.00 2.29
958 980 9.621629 TTCTCTTAGGAACACATACAAGAAAAA 57.378 29.630 0.00 0.00 0.00 1.94
959 981 9.273016 TCTCTTAGGAACACATACAAGAAAAAG 57.727 33.333 0.00 0.00 0.00 2.27
960 982 8.391075 TCTTAGGAACACATACAAGAAAAAGG 57.609 34.615 0.00 0.00 0.00 3.11
961 983 8.215050 TCTTAGGAACACATACAAGAAAAAGGA 58.785 33.333 0.00 0.00 0.00 3.36
962 984 8.934023 TTAGGAACACATACAAGAAAAAGGAT 57.066 30.769 0.00 0.00 0.00 3.24
964 986 8.934023 AGGAACACATACAAGAAAAAGGATAA 57.066 30.769 0.00 0.00 0.00 1.75
965 987 8.793592 AGGAACACATACAAGAAAAAGGATAAC 58.206 33.333 0.00 0.00 0.00 1.89
966 988 7.749126 GGAACACATACAAGAAAAAGGATAACG 59.251 37.037 0.00 0.00 0.00 3.18
967 989 7.141100 ACACATACAAGAAAAAGGATAACGG 57.859 36.000 0.00 0.00 0.00 4.44
968 990 6.713450 ACACATACAAGAAAAAGGATAACGGT 59.287 34.615 0.00 0.00 0.00 4.83
969 991 7.021196 CACATACAAGAAAAAGGATAACGGTG 58.979 38.462 0.00 0.00 0.00 4.94
970 992 6.150474 ACATACAAGAAAAAGGATAACGGTGG 59.850 38.462 0.00 0.00 0.00 4.61
971 993 3.254903 ACAAGAAAAAGGATAACGGTGGC 59.745 43.478 0.00 0.00 0.00 5.01
972 994 2.443416 AGAAAAAGGATAACGGTGGCC 58.557 47.619 0.00 0.00 0.00 5.36
973 995 1.475280 GAAAAAGGATAACGGTGGCCC 59.525 52.381 0.00 0.00 0.00 5.80
974 996 0.702316 AAAAGGATAACGGTGGCCCT 59.298 50.000 0.00 0.00 0.00 5.19
975 997 0.255033 AAAGGATAACGGTGGCCCTC 59.745 55.000 0.00 0.00 0.00 4.30
976 998 1.632965 AAGGATAACGGTGGCCCTCC 61.633 60.000 0.00 1.41 0.00 4.30
977 999 2.509422 GATAACGGTGGCCCTCCC 59.491 66.667 0.00 0.00 0.00 4.30
978 1000 2.285818 ATAACGGTGGCCCTCCCA 60.286 61.111 0.00 0.00 42.79 4.37
987 1009 2.280308 TGGCCCTCCCATTAACTACT 57.720 50.000 0.00 0.00 39.18 2.57
988 1010 2.568979 TGGCCCTCCCATTAACTACTT 58.431 47.619 0.00 0.00 39.18 2.24
989 1011 2.508300 TGGCCCTCCCATTAACTACTTC 59.492 50.000 0.00 0.00 39.18 3.01
990 1012 2.508300 GGCCCTCCCATTAACTACTTCA 59.492 50.000 0.00 0.00 0.00 3.02
991 1013 3.138468 GGCCCTCCCATTAACTACTTCAT 59.862 47.826 0.00 0.00 0.00 2.57
992 1014 4.386424 GGCCCTCCCATTAACTACTTCATT 60.386 45.833 0.00 0.00 0.00 2.57
993 1015 5.201243 GCCCTCCCATTAACTACTTCATTT 58.799 41.667 0.00 0.00 0.00 2.32
994 1016 5.656859 GCCCTCCCATTAACTACTTCATTTT 59.343 40.000 0.00 0.00 0.00 1.82
995 1017 6.183360 GCCCTCCCATTAACTACTTCATTTTC 60.183 42.308 0.00 0.00 0.00 2.29
996 1018 6.889722 CCCTCCCATTAACTACTTCATTTTCA 59.110 38.462 0.00 0.00 0.00 2.69
997 1019 7.561356 CCCTCCCATTAACTACTTCATTTTCAT 59.439 37.037 0.00 0.00 0.00 2.57
998 1020 8.971073 CCTCCCATTAACTACTTCATTTTCATT 58.029 33.333 0.00 0.00 0.00 2.57
1034 1056 9.877178 CATAGTAATAGAAATCCATGTCCTACC 57.123 37.037 0.00 0.00 0.00 3.18
1035 1057 6.994221 AGTAATAGAAATCCATGTCCTACCG 58.006 40.000 0.00 0.00 0.00 4.02
1036 1058 6.781014 AGTAATAGAAATCCATGTCCTACCGA 59.219 38.462 0.00 0.00 0.00 4.69
1037 1059 5.730296 ATAGAAATCCATGTCCTACCGAG 57.270 43.478 0.00 0.00 0.00 4.63
1038 1060 3.643237 AGAAATCCATGTCCTACCGAGA 58.357 45.455 0.00 0.00 0.00 4.04
1039 1061 3.385111 AGAAATCCATGTCCTACCGAGAC 59.615 47.826 0.00 0.00 34.72 3.36
1041 1063 1.763968 TCCATGTCCTACCGAGACAG 58.236 55.000 0.00 0.00 46.76 3.51
1042 1064 1.283905 TCCATGTCCTACCGAGACAGA 59.716 52.381 0.00 0.00 46.76 3.41
1043 1065 2.100197 CCATGTCCTACCGAGACAGAA 58.900 52.381 0.00 0.00 46.76 3.02
1044 1066 2.695666 CCATGTCCTACCGAGACAGAAT 59.304 50.000 0.00 0.00 46.76 2.40
1045 1067 3.133003 CCATGTCCTACCGAGACAGAATT 59.867 47.826 0.00 0.00 46.76 2.17
1046 1068 4.383118 CCATGTCCTACCGAGACAGAATTT 60.383 45.833 0.00 0.00 46.76 1.82
1047 1069 5.163447 CCATGTCCTACCGAGACAGAATTTA 60.163 44.000 0.00 0.00 46.76 1.40
1048 1070 5.578005 TGTCCTACCGAGACAGAATTTAG 57.422 43.478 0.00 0.00 39.29 1.85
1049 1071 5.258841 TGTCCTACCGAGACAGAATTTAGA 58.741 41.667 0.00 0.00 39.29 2.10
1050 1072 5.713389 TGTCCTACCGAGACAGAATTTAGAA 59.287 40.000 0.00 0.00 39.29 2.10
1051 1073 6.035217 GTCCTACCGAGACAGAATTTAGAAC 58.965 44.000 0.00 0.00 34.27 3.01
1052 1074 5.950549 TCCTACCGAGACAGAATTTAGAACT 59.049 40.000 0.00 0.00 0.00 3.01
1053 1075 6.436532 TCCTACCGAGACAGAATTTAGAACTT 59.563 38.462 0.00 0.00 0.00 2.66
1054 1076 6.531948 CCTACCGAGACAGAATTTAGAACTTG 59.468 42.308 0.00 0.00 0.00 3.16
1055 1077 4.691216 ACCGAGACAGAATTTAGAACTTGC 59.309 41.667 0.00 0.00 0.00 4.01
1056 1078 4.932200 CCGAGACAGAATTTAGAACTTGCT 59.068 41.667 0.00 0.00 0.00 3.91
1057 1079 6.100004 CCGAGACAGAATTTAGAACTTGCTA 58.900 40.000 0.00 0.00 0.00 3.49
1058 1080 6.758886 CCGAGACAGAATTTAGAACTTGCTAT 59.241 38.462 0.00 0.00 0.00 2.97
1059 1081 7.043059 CCGAGACAGAATTTAGAACTTGCTATC 60.043 40.741 0.00 0.00 0.00 2.08
1060 1082 7.043059 CGAGACAGAATTTAGAACTTGCTATCC 60.043 40.741 0.00 0.00 0.00 2.59
1061 1083 7.856415 AGACAGAATTTAGAACTTGCTATCCT 58.144 34.615 0.00 0.00 0.00 3.24
1062 1084 7.984617 AGACAGAATTTAGAACTTGCTATCCTC 59.015 37.037 0.00 0.00 0.00 3.71
1063 1085 7.856415 ACAGAATTTAGAACTTGCTATCCTCT 58.144 34.615 0.00 0.00 0.00 3.69
1064 1086 8.325046 ACAGAATTTAGAACTTGCTATCCTCTT 58.675 33.333 0.00 0.00 0.00 2.85
1065 1087 8.610896 CAGAATTTAGAACTTGCTATCCTCTTG 58.389 37.037 0.00 0.00 0.00 3.02
1066 1088 6.934048 ATTTAGAACTTGCTATCCTCTTGC 57.066 37.500 0.00 0.00 0.00 4.01
1067 1089 3.274095 AGAACTTGCTATCCTCTTGCC 57.726 47.619 0.00 0.00 0.00 4.52
1068 1090 2.843113 AGAACTTGCTATCCTCTTGCCT 59.157 45.455 0.00 0.00 0.00 4.75
1069 1091 4.033709 AGAACTTGCTATCCTCTTGCCTA 58.966 43.478 0.00 0.00 0.00 3.93
1070 1092 4.471386 AGAACTTGCTATCCTCTTGCCTAA 59.529 41.667 0.00 0.00 0.00 2.69
1071 1093 5.131809 AGAACTTGCTATCCTCTTGCCTAAT 59.868 40.000 0.00 0.00 0.00 1.73
1072 1094 6.327626 AGAACTTGCTATCCTCTTGCCTAATA 59.672 38.462 0.00 0.00 0.00 0.98
1073 1095 6.107901 ACTTGCTATCCTCTTGCCTAATAG 57.892 41.667 0.00 0.00 0.00 1.73
1074 1096 5.012561 ACTTGCTATCCTCTTGCCTAATAGG 59.987 44.000 0.99 0.99 38.80 2.57
1089 1111 5.934781 CCTAATAGGCAAAGATTGACCTCT 58.065 41.667 0.00 0.00 40.48 3.69
1090 1112 5.762218 CCTAATAGGCAAAGATTGACCTCTG 59.238 44.000 0.00 0.00 40.48 3.35
1091 1113 4.851639 ATAGGCAAAGATTGACCTCTGT 57.148 40.909 8.62 0.00 40.48 3.41
1092 1114 5.957771 ATAGGCAAAGATTGACCTCTGTA 57.042 39.130 8.62 0.00 40.48 2.74
1093 1115 4.213564 AGGCAAAGATTGACCTCTGTAG 57.786 45.455 0.00 0.00 40.48 2.74
1094 1116 3.840666 AGGCAAAGATTGACCTCTGTAGA 59.159 43.478 0.00 0.00 40.48 2.59
1095 1117 4.287067 AGGCAAAGATTGACCTCTGTAGAA 59.713 41.667 0.00 0.00 40.48 2.10
1096 1118 5.003804 GGCAAAGATTGACCTCTGTAGAAA 58.996 41.667 0.00 0.00 30.38 2.52
1097 1119 5.123027 GGCAAAGATTGACCTCTGTAGAAAG 59.877 44.000 0.00 0.00 30.38 2.62
1098 1120 5.934625 GCAAAGATTGACCTCTGTAGAAAGA 59.065 40.000 0.00 0.00 0.00 2.52
1099 1121 6.128418 GCAAAGATTGACCTCTGTAGAAAGAC 60.128 42.308 0.00 0.00 0.00 3.01
1100 1122 6.926630 AAGATTGACCTCTGTAGAAAGACT 57.073 37.500 0.00 0.00 0.00 3.24
1101 1123 6.279513 AGATTGACCTCTGTAGAAAGACTG 57.720 41.667 0.00 0.00 0.00 3.51
1102 1124 6.013379 AGATTGACCTCTGTAGAAAGACTGA 58.987 40.000 0.00 0.00 0.00 3.41
1103 1125 6.667414 AGATTGACCTCTGTAGAAAGACTGAT 59.333 38.462 0.00 0.00 0.00 2.90
1104 1126 6.672266 TTGACCTCTGTAGAAAGACTGATT 57.328 37.500 0.00 0.00 0.00 2.57
1105 1127 6.274157 TGACCTCTGTAGAAAGACTGATTC 57.726 41.667 0.00 0.00 0.00 2.52
1106 1128 5.775195 TGACCTCTGTAGAAAGACTGATTCA 59.225 40.000 0.00 0.00 0.00 2.57
1107 1129 6.438741 TGACCTCTGTAGAAAGACTGATTCAT 59.561 38.462 0.00 0.00 0.00 2.57
1108 1130 7.038729 TGACCTCTGTAGAAAGACTGATTCATT 60.039 37.037 0.00 0.00 0.00 2.57
1109 1131 7.327214 ACCTCTGTAGAAAGACTGATTCATTC 58.673 38.462 0.00 0.00 32.94 2.67
1110 1132 6.475076 CCTCTGTAGAAAGACTGATTCATTCG 59.525 42.308 0.00 0.00 37.08 3.34
1111 1133 6.333416 TCTGTAGAAAGACTGATTCATTCGG 58.667 40.000 0.00 0.00 37.08 4.30
1112 1134 6.152831 TCTGTAGAAAGACTGATTCATTCGGA 59.847 38.462 0.00 0.00 37.08 4.55
1113 1135 6.878317 TGTAGAAAGACTGATTCATTCGGAT 58.122 36.000 0.00 0.00 37.08 4.18
1114 1136 6.980978 TGTAGAAAGACTGATTCATTCGGATC 59.019 38.462 0.00 0.00 37.08 3.36
1115 1137 5.982356 AGAAAGACTGATTCATTCGGATCA 58.018 37.500 0.00 0.00 37.08 2.92
1116 1138 6.409704 AGAAAGACTGATTCATTCGGATCAA 58.590 36.000 0.00 0.00 37.08 2.57
1117 1139 7.052873 AGAAAGACTGATTCATTCGGATCAAT 58.947 34.615 0.00 0.00 37.08 2.57
1118 1140 8.206867 AGAAAGACTGATTCATTCGGATCAATA 58.793 33.333 0.00 0.00 37.08 1.90
1119 1141 8.915057 AAAGACTGATTCATTCGGATCAATAT 57.085 30.769 0.00 0.00 34.56 1.28
1120 1142 7.902387 AGACTGATTCATTCGGATCAATATG 57.098 36.000 0.00 0.00 34.56 1.78
1121 1143 7.674120 AGACTGATTCATTCGGATCAATATGA 58.326 34.615 0.00 0.00 34.56 2.15
1122 1144 7.818446 AGACTGATTCATTCGGATCAATATGAG 59.182 37.037 0.00 0.00 34.56 2.90
1123 1145 6.877855 ACTGATTCATTCGGATCAATATGAGG 59.122 38.462 0.00 0.00 34.56 3.86
1124 1146 7.008021 TGATTCATTCGGATCAATATGAGGA 57.992 36.000 0.00 0.00 0.00 3.71
1125 1147 6.875726 TGATTCATTCGGATCAATATGAGGAC 59.124 38.462 0.00 0.00 0.00 3.85
1126 1148 5.152623 TCATTCGGATCAATATGAGGACC 57.847 43.478 0.00 0.00 0.00 4.46
1127 1149 4.020218 TCATTCGGATCAATATGAGGACCC 60.020 45.833 0.00 0.00 0.00 4.46
1128 1150 2.970987 TCGGATCAATATGAGGACCCA 58.029 47.619 0.00 0.00 0.00 4.51
1129 1151 3.313791 TCGGATCAATATGAGGACCCAA 58.686 45.455 0.00 0.00 0.00 4.12
1130 1152 3.071023 TCGGATCAATATGAGGACCCAAC 59.929 47.826 0.00 0.00 0.00 3.77
1131 1153 3.071602 CGGATCAATATGAGGACCCAACT 59.928 47.826 0.00 0.00 0.00 3.16
1132 1154 4.646572 GGATCAATATGAGGACCCAACTC 58.353 47.826 0.00 0.00 35.55 3.01
1133 1155 4.505742 GGATCAATATGAGGACCCAACTCC 60.506 50.000 0.00 0.00 34.06 3.85
1134 1156 2.434336 TCAATATGAGGACCCAACTCCG 59.566 50.000 0.00 0.00 35.20 4.63
1135 1157 2.170607 CAATATGAGGACCCAACTCCGT 59.829 50.000 0.00 0.00 35.20 4.69
1136 1158 1.946984 TATGAGGACCCAACTCCGTT 58.053 50.000 0.00 0.00 35.20 4.44
1137 1159 0.324943 ATGAGGACCCAACTCCGTTG 59.675 55.000 0.00 0.00 42.49 4.10
1138 1160 1.671379 GAGGACCCAACTCCGTTGC 60.671 63.158 1.34 0.00 41.62 4.17
1139 1161 2.112297 GGACCCAACTCCGTTGCA 59.888 61.111 1.34 0.00 41.62 4.08
1140 1162 1.303317 GGACCCAACTCCGTTGCAT 60.303 57.895 1.34 0.00 41.62 3.96
1141 1163 0.893727 GGACCCAACTCCGTTGCATT 60.894 55.000 1.34 0.00 41.62 3.56
1142 1164 0.240945 GACCCAACTCCGTTGCATTG 59.759 55.000 1.34 0.00 41.62 2.82
1143 1165 1.080569 CCCAACTCCGTTGCATTGC 60.081 57.895 0.46 0.46 41.62 3.56
1144 1166 1.080569 CCAACTCCGTTGCATTGCC 60.081 57.895 6.12 0.00 41.62 4.52
1145 1167 1.659233 CAACTCCGTTGCATTGCCA 59.341 52.632 6.12 0.00 36.73 4.92
1146 1168 0.387622 CAACTCCGTTGCATTGCCAG 60.388 55.000 6.12 0.00 36.73 4.85
1147 1169 0.537143 AACTCCGTTGCATTGCCAGA 60.537 50.000 6.12 0.00 0.00 3.86
1148 1170 0.537143 ACTCCGTTGCATTGCCAGAA 60.537 50.000 6.12 0.00 0.00 3.02
1149 1171 0.813184 CTCCGTTGCATTGCCAGAAT 59.187 50.000 6.12 0.00 0.00 2.40
1150 1172 0.810648 TCCGTTGCATTGCCAGAATC 59.189 50.000 6.12 0.00 0.00 2.52
1151 1173 0.179129 CCGTTGCATTGCCAGAATCC 60.179 55.000 6.12 0.00 0.00 3.01
1152 1174 0.527113 CGTTGCATTGCCAGAATCCA 59.473 50.000 6.12 0.00 0.00 3.41
1153 1175 1.135527 CGTTGCATTGCCAGAATCCAT 59.864 47.619 6.12 0.00 0.00 3.41
1154 1176 2.546778 GTTGCATTGCCAGAATCCATG 58.453 47.619 6.12 0.00 0.00 3.66
1155 1177 1.855295 TGCATTGCCAGAATCCATGT 58.145 45.000 6.12 0.00 0.00 3.21
1156 1178 2.181125 TGCATTGCCAGAATCCATGTT 58.819 42.857 6.12 0.00 0.00 2.71
1157 1179 2.166870 TGCATTGCCAGAATCCATGTTC 59.833 45.455 6.12 0.00 0.00 3.18
1158 1180 2.482490 GCATTGCCAGAATCCATGTTCC 60.482 50.000 0.00 0.00 0.00 3.62
1159 1181 2.601240 TTGCCAGAATCCATGTTCCA 57.399 45.000 0.00 0.00 0.00 3.53
1160 1182 2.832643 TGCCAGAATCCATGTTCCAT 57.167 45.000 0.00 0.00 0.00 3.41
1161 1183 3.949586 TGCCAGAATCCATGTTCCATA 57.050 42.857 0.00 0.00 0.00 2.74
1162 1184 4.458256 TGCCAGAATCCATGTTCCATAT 57.542 40.909 0.00 0.00 0.00 1.78
1163 1185 4.806892 TGCCAGAATCCATGTTCCATATT 58.193 39.130 0.00 0.00 0.00 1.28
1164 1186 5.210430 TGCCAGAATCCATGTTCCATATTT 58.790 37.500 0.00 0.00 0.00 1.40
1165 1187 5.069383 TGCCAGAATCCATGTTCCATATTTG 59.931 40.000 0.00 0.00 0.00 2.32
1166 1188 5.302568 GCCAGAATCCATGTTCCATATTTGA 59.697 40.000 0.00 0.00 0.00 2.69
1167 1189 6.183360 GCCAGAATCCATGTTCCATATTTGAA 60.183 38.462 0.00 0.00 0.00 2.69
1168 1190 7.431249 CCAGAATCCATGTTCCATATTTGAAG 58.569 38.462 0.00 0.00 0.00 3.02
1169 1191 6.921857 CAGAATCCATGTTCCATATTTGAAGC 59.078 38.462 0.00 0.00 0.00 3.86
1170 1192 4.898829 TCCATGTTCCATATTTGAAGCG 57.101 40.909 0.00 0.00 0.00 4.68
1171 1193 3.631686 TCCATGTTCCATATTTGAAGCGG 59.368 43.478 0.00 0.00 0.00 5.52
1172 1194 3.243501 CCATGTTCCATATTTGAAGCGGG 60.244 47.826 0.00 0.00 0.00 6.13
1173 1195 3.080300 TGTTCCATATTTGAAGCGGGT 57.920 42.857 0.00 0.00 0.00 5.28
1174 1196 3.426615 TGTTCCATATTTGAAGCGGGTT 58.573 40.909 0.00 0.00 0.00 4.11
1175 1197 3.192422 TGTTCCATATTTGAAGCGGGTTG 59.808 43.478 0.00 0.00 0.00 3.77
1176 1198 3.358111 TCCATATTTGAAGCGGGTTGA 57.642 42.857 0.00 0.00 0.00 3.18
1177 1199 3.013921 TCCATATTTGAAGCGGGTTGAC 58.986 45.455 0.00 0.00 0.00 3.18
1217 1239 3.406764 GCATTGAGGACACACTTCTTCT 58.593 45.455 0.00 0.00 0.00 2.85
1318 1340 1.946081 CAACACACACCAGCACACATA 59.054 47.619 0.00 0.00 0.00 2.29
1329 1351 0.655733 GCACACATATACACCGGTGC 59.344 55.000 34.26 12.69 43.78 5.01
1332 1354 0.179094 CACATATACACCGGTGCCGT 60.179 55.000 34.26 21.52 37.81 5.68
1351 1373 1.215382 CGCCAGTTGAGATGGACGA 59.785 57.895 0.00 0.00 40.51 4.20
1409 1431 4.161295 CATCCGGCGAGCCTGGAA 62.161 66.667 23.67 12.56 40.28 3.53
1828 1852 5.013495 CCTGCTATCTTCCCCAGATTAATGA 59.987 44.000 0.00 0.00 39.47 2.57
1892 1917 4.998788 TCTTCGACATTGTCATCTCGAAT 58.001 39.130 16.61 0.00 42.52 3.34
1986 2011 1.971505 TAGCCTCCACATTGCCTCGG 61.972 60.000 0.00 0.00 0.00 4.63
2001 2026 1.337260 CCTCGGCGAATCTCTAATGGG 60.337 57.143 12.13 0.00 0.00 4.00
2041 2067 3.319755 CCACAACAAGACATCAATTGGC 58.680 45.455 5.42 0.00 0.00 4.52
2056 2082 3.726557 ATTGGCAAGAGATCACTCCAA 57.273 42.857 13.32 13.32 43.53 3.53
2067 2093 5.095236 GAGATCACTCCAACTGTTCCACAG 61.095 50.000 2.23 2.23 42.90 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 0.684805 GGGTGGGAGATCGAGTGACT 60.685 60.000 0.00 0.00 0.00 3.41
80 81 7.397476 AGGAGAGAGTGTATGTTTGTCATAGAA 59.603 37.037 0.00 0.00 39.36 2.10
130 131 0.461339 AGAGAGGTCGAGAGAGACGC 60.461 60.000 0.00 0.00 43.49 5.19
161 162 1.142688 ATGTGGCCAAGAGGGGTCTT 61.143 55.000 7.24 0.00 37.04 3.01
179 180 2.035632 CGAGAGAAAGACCCCTAGCAT 58.964 52.381 0.00 0.00 0.00 3.79
300 304 4.487714 AAGAGACAAGGACAACACTCAA 57.512 40.909 0.00 0.00 0.00 3.02
313 318 1.663643 GTGCGTGTGTGAAAGAGACAA 59.336 47.619 0.00 0.00 27.62 3.18
400 410 7.566760 TTTCGAAACATCCATATGCTTATGT 57.433 32.000 6.47 9.52 36.50 2.29
420 430 5.880341 ACTTTTCTGAGGTTTGACTTTTCG 58.120 37.500 0.00 0.00 0.00 3.46
478 488 9.636789 TTGTGATGAATCTAATGATCTTTCCAT 57.363 29.630 0.00 0.00 31.51 3.41
571 581 7.931407 AAAGTCAAACTTTTGAAACTTTGACCT 59.069 29.630 23.56 15.41 45.38 3.85
701 721 3.119245 ACACAGTGAGCGTATAATCCGTT 60.119 43.478 7.81 0.00 0.00 4.44
773 795 1.871039 GAACACGAGCTTACAAGGCAA 59.129 47.619 0.00 0.00 0.00 4.52
782 804 3.057456 ACGAAGATACAGAACACGAGCTT 60.057 43.478 0.00 0.00 0.00 3.74
856 878 1.654317 TGTTTACTTCACCGCGTGTT 58.346 45.000 4.92 0.00 34.79 3.32
909 931 6.727824 AGTAATTTGTCCTCATGTTTCGAG 57.272 37.500 0.00 0.00 0.00 4.04
910 932 6.934645 AGAAGTAATTTGTCCTCATGTTTCGA 59.065 34.615 0.00 0.00 0.00 3.71
911 933 7.118390 AGAGAAGTAATTTGTCCTCATGTTTCG 59.882 37.037 0.00 0.00 29.54 3.46
912 934 8.329203 AGAGAAGTAATTTGTCCTCATGTTTC 57.671 34.615 0.00 0.00 29.54 2.78
913 935 8.697507 AAGAGAAGTAATTTGTCCTCATGTTT 57.302 30.769 0.00 0.00 29.54 2.83
914 936 9.442047 CTAAGAGAAGTAATTTGTCCTCATGTT 57.558 33.333 0.00 0.00 29.54 2.71
915 937 8.043710 CCTAAGAGAAGTAATTTGTCCTCATGT 58.956 37.037 0.00 0.00 29.54 3.21
916 938 8.260818 TCCTAAGAGAAGTAATTTGTCCTCATG 58.739 37.037 0.00 0.00 29.54 3.07
917 939 8.380742 TCCTAAGAGAAGTAATTTGTCCTCAT 57.619 34.615 0.00 0.00 29.54 2.90
918 940 7.792364 TCCTAAGAGAAGTAATTTGTCCTCA 57.208 36.000 0.00 0.00 29.54 3.86
919 941 8.095169 TGTTCCTAAGAGAAGTAATTTGTCCTC 58.905 37.037 0.00 0.00 29.54 3.71
920 942 7.878644 GTGTTCCTAAGAGAAGTAATTTGTCCT 59.121 37.037 0.00 0.00 29.54 3.85
921 943 7.660208 TGTGTTCCTAAGAGAAGTAATTTGTCC 59.340 37.037 0.00 0.00 29.54 4.02
922 944 8.603242 TGTGTTCCTAAGAGAAGTAATTTGTC 57.397 34.615 0.00 0.00 0.00 3.18
927 949 9.877178 CTTGTATGTGTTCCTAAGAGAAGTAAT 57.123 33.333 0.00 0.00 0.00 1.89
928 950 9.085645 TCTTGTATGTGTTCCTAAGAGAAGTAA 57.914 33.333 0.00 0.00 0.00 2.24
929 951 8.645814 TCTTGTATGTGTTCCTAAGAGAAGTA 57.354 34.615 0.00 0.00 0.00 2.24
930 952 7.540474 TCTTGTATGTGTTCCTAAGAGAAGT 57.460 36.000 0.00 0.00 0.00 3.01
931 953 8.833231 TTTCTTGTATGTGTTCCTAAGAGAAG 57.167 34.615 0.00 0.00 0.00 2.85
932 954 9.621629 TTTTTCTTGTATGTGTTCCTAAGAGAA 57.378 29.630 0.00 0.00 0.00 2.87
933 955 9.273016 CTTTTTCTTGTATGTGTTCCTAAGAGA 57.727 33.333 0.00 0.00 0.00 3.10
934 956 8.507249 CCTTTTTCTTGTATGTGTTCCTAAGAG 58.493 37.037 0.00 0.00 0.00 2.85
935 957 8.215050 TCCTTTTTCTTGTATGTGTTCCTAAGA 58.785 33.333 0.00 0.00 0.00 2.10
936 958 8.391075 TCCTTTTTCTTGTATGTGTTCCTAAG 57.609 34.615 0.00 0.00 0.00 2.18
937 959 8.934023 ATCCTTTTTCTTGTATGTGTTCCTAA 57.066 30.769 0.00 0.00 0.00 2.69
939 961 8.793592 GTTATCCTTTTTCTTGTATGTGTTCCT 58.206 33.333 0.00 0.00 0.00 3.36
940 962 7.749126 CGTTATCCTTTTTCTTGTATGTGTTCC 59.251 37.037 0.00 0.00 0.00 3.62
941 963 7.749126 CCGTTATCCTTTTTCTTGTATGTGTTC 59.251 37.037 0.00 0.00 0.00 3.18
942 964 7.229907 ACCGTTATCCTTTTTCTTGTATGTGTT 59.770 33.333 0.00 0.00 0.00 3.32
943 965 6.713450 ACCGTTATCCTTTTTCTTGTATGTGT 59.287 34.615 0.00 0.00 0.00 3.72
944 966 7.021196 CACCGTTATCCTTTTTCTTGTATGTG 58.979 38.462 0.00 0.00 0.00 3.21
945 967 6.150474 CCACCGTTATCCTTTTTCTTGTATGT 59.850 38.462 0.00 0.00 0.00 2.29
946 968 6.551736 CCACCGTTATCCTTTTTCTTGTATG 58.448 40.000 0.00 0.00 0.00 2.39
947 969 5.124936 GCCACCGTTATCCTTTTTCTTGTAT 59.875 40.000 0.00 0.00 0.00 2.29
948 970 4.456566 GCCACCGTTATCCTTTTTCTTGTA 59.543 41.667 0.00 0.00 0.00 2.41
949 971 3.254903 GCCACCGTTATCCTTTTTCTTGT 59.745 43.478 0.00 0.00 0.00 3.16
950 972 3.366985 GGCCACCGTTATCCTTTTTCTTG 60.367 47.826 0.00 0.00 0.00 3.02
951 973 2.823747 GGCCACCGTTATCCTTTTTCTT 59.176 45.455 0.00 0.00 0.00 2.52
952 974 2.443416 GGCCACCGTTATCCTTTTTCT 58.557 47.619 0.00 0.00 0.00 2.52
953 975 1.475280 GGGCCACCGTTATCCTTTTTC 59.525 52.381 4.39 0.00 0.00 2.29
954 976 1.076513 AGGGCCACCGTTATCCTTTTT 59.923 47.619 6.18 0.00 43.47 1.94
955 977 0.702316 AGGGCCACCGTTATCCTTTT 59.298 50.000 6.18 0.00 43.47 2.27
956 978 0.255033 GAGGGCCACCGTTATCCTTT 59.745 55.000 6.18 0.00 43.47 3.11
957 979 1.632965 GGAGGGCCACCGTTATCCTT 61.633 60.000 6.18 0.00 43.47 3.36
958 980 2.070650 GGAGGGCCACCGTTATCCT 61.071 63.158 6.18 0.00 43.47 3.24
959 981 2.509422 GGAGGGCCACCGTTATCC 59.491 66.667 6.18 0.00 43.47 2.59
960 982 1.705997 ATGGGAGGGCCACCGTTATC 61.706 60.000 14.16 0.00 43.47 1.75
961 983 1.286305 AATGGGAGGGCCACCGTTAT 61.286 55.000 19.49 9.43 43.47 1.89
962 984 0.620990 TAATGGGAGGGCCACCGTTA 60.621 55.000 21.29 21.29 43.47 3.18
963 985 1.502527 TTAATGGGAGGGCCACCGTT 61.503 55.000 22.94 22.94 43.47 4.44
964 986 1.926489 TTAATGGGAGGGCCACCGT 60.926 57.895 14.16 9.99 43.47 4.83
965 987 1.453197 GTTAATGGGAGGGCCACCG 60.453 63.158 14.16 0.00 43.47 4.94
966 988 1.133884 GTAGTTAATGGGAGGGCCACC 60.134 57.143 12.12 12.12 35.15 4.61
967 989 1.844497 AGTAGTTAATGGGAGGGCCAC 59.156 52.381 6.18 0.00 35.15 5.01
968 990 2.280308 AGTAGTTAATGGGAGGGCCA 57.720 50.000 6.18 0.00 35.15 5.36
969 991 2.508300 TGAAGTAGTTAATGGGAGGGCC 59.492 50.000 0.00 0.00 0.00 5.80
970 992 3.926058 TGAAGTAGTTAATGGGAGGGC 57.074 47.619 0.00 0.00 0.00 5.19
971 993 6.889722 TGAAAATGAAGTAGTTAATGGGAGGG 59.110 38.462 0.00 0.00 0.00 4.30
972 994 7.938140 TGAAAATGAAGTAGTTAATGGGAGG 57.062 36.000 0.00 0.00 0.00 4.30
1008 1030 9.877178 GGTAGGACATGGATTTCTATTACTATG 57.123 37.037 0.00 0.00 0.00 2.23
1009 1031 8.750298 CGGTAGGACATGGATTTCTATTACTAT 58.250 37.037 0.00 0.00 0.00 2.12
1010 1032 7.946219 TCGGTAGGACATGGATTTCTATTACTA 59.054 37.037 0.00 0.00 0.00 1.82
1011 1033 6.781014 TCGGTAGGACATGGATTTCTATTACT 59.219 38.462 0.00 0.00 0.00 2.24
1012 1034 6.989659 TCGGTAGGACATGGATTTCTATTAC 58.010 40.000 0.00 0.00 0.00 1.89
1013 1035 7.008332 TCTCGGTAGGACATGGATTTCTATTA 58.992 38.462 0.00 0.00 0.00 0.98
1014 1036 5.839063 TCTCGGTAGGACATGGATTTCTATT 59.161 40.000 0.00 0.00 0.00 1.73
1015 1037 5.244178 GTCTCGGTAGGACATGGATTTCTAT 59.756 44.000 0.00 0.00 34.23 1.98
1016 1038 4.583489 GTCTCGGTAGGACATGGATTTCTA 59.417 45.833 0.00 0.00 34.23 2.10
1017 1039 3.385111 GTCTCGGTAGGACATGGATTTCT 59.615 47.826 0.00 0.00 34.23 2.52
1018 1040 3.132289 TGTCTCGGTAGGACATGGATTTC 59.868 47.826 0.00 0.00 38.57 2.17
1019 1041 3.104512 TGTCTCGGTAGGACATGGATTT 58.895 45.455 0.00 0.00 38.57 2.17
1020 1042 2.695666 CTGTCTCGGTAGGACATGGATT 59.304 50.000 0.00 0.00 41.90 3.01
1021 1043 2.091830 TCTGTCTCGGTAGGACATGGAT 60.092 50.000 0.00 0.00 41.90 3.41
1022 1044 1.283905 TCTGTCTCGGTAGGACATGGA 59.716 52.381 0.00 0.00 41.90 3.41
1023 1045 1.763968 TCTGTCTCGGTAGGACATGG 58.236 55.000 0.00 0.00 41.90 3.66
1024 1046 4.392921 AATTCTGTCTCGGTAGGACATG 57.607 45.455 0.00 0.00 41.90 3.21
1025 1047 5.892119 TCTAAATTCTGTCTCGGTAGGACAT 59.108 40.000 0.00 0.00 41.90 3.06
1026 1048 5.258841 TCTAAATTCTGTCTCGGTAGGACA 58.741 41.667 0.00 0.00 40.78 4.02
1027 1049 5.831702 TCTAAATTCTGTCTCGGTAGGAC 57.168 43.478 0.00 0.00 0.00 3.85
1028 1050 5.950549 AGTTCTAAATTCTGTCTCGGTAGGA 59.049 40.000 0.00 0.00 0.00 2.94
1029 1051 6.210287 AGTTCTAAATTCTGTCTCGGTAGG 57.790 41.667 0.00 0.00 0.00 3.18
1030 1052 6.035112 GCAAGTTCTAAATTCTGTCTCGGTAG 59.965 42.308 0.00 0.00 0.00 3.18
1031 1053 5.867716 GCAAGTTCTAAATTCTGTCTCGGTA 59.132 40.000 0.00 0.00 0.00 4.02
1032 1054 4.691216 GCAAGTTCTAAATTCTGTCTCGGT 59.309 41.667 0.00 0.00 0.00 4.69
1033 1055 4.932200 AGCAAGTTCTAAATTCTGTCTCGG 59.068 41.667 0.00 0.00 0.00 4.63
1034 1056 7.043059 GGATAGCAAGTTCTAAATTCTGTCTCG 60.043 40.741 0.00 0.00 0.00 4.04
1035 1057 7.984617 AGGATAGCAAGTTCTAAATTCTGTCTC 59.015 37.037 0.00 0.00 0.00 3.36
1036 1058 7.856415 AGGATAGCAAGTTCTAAATTCTGTCT 58.144 34.615 0.00 0.00 0.00 3.41
1037 1059 7.984617 AGAGGATAGCAAGTTCTAAATTCTGTC 59.015 37.037 0.00 0.00 0.00 3.51
1038 1060 7.856415 AGAGGATAGCAAGTTCTAAATTCTGT 58.144 34.615 0.00 0.00 0.00 3.41
1039 1061 8.610896 CAAGAGGATAGCAAGTTCTAAATTCTG 58.389 37.037 0.00 0.00 0.00 3.02
1040 1062 7.281999 GCAAGAGGATAGCAAGTTCTAAATTCT 59.718 37.037 0.00 0.00 0.00 2.40
1041 1063 7.413644 GCAAGAGGATAGCAAGTTCTAAATTC 58.586 38.462 0.00 0.00 0.00 2.17
1042 1064 6.319911 GGCAAGAGGATAGCAAGTTCTAAATT 59.680 38.462 0.00 0.00 0.00 1.82
1043 1065 5.825151 GGCAAGAGGATAGCAAGTTCTAAAT 59.175 40.000 0.00 0.00 0.00 1.40
1044 1066 5.045578 AGGCAAGAGGATAGCAAGTTCTAAA 60.046 40.000 0.00 0.00 0.00 1.85
1045 1067 4.471386 AGGCAAGAGGATAGCAAGTTCTAA 59.529 41.667 0.00 0.00 0.00 2.10
1046 1068 4.033709 AGGCAAGAGGATAGCAAGTTCTA 58.966 43.478 0.00 0.00 0.00 2.10
1047 1069 2.843113 AGGCAAGAGGATAGCAAGTTCT 59.157 45.455 0.00 0.00 0.00 3.01
1048 1070 3.274095 AGGCAAGAGGATAGCAAGTTC 57.726 47.619 0.00 0.00 0.00 3.01
1049 1071 4.844349 TTAGGCAAGAGGATAGCAAGTT 57.156 40.909 0.00 0.00 0.00 2.66
1050 1072 5.012561 CCTATTAGGCAAGAGGATAGCAAGT 59.987 44.000 0.00 0.00 44.57 3.16
1051 1073 5.486526 CCTATTAGGCAAGAGGATAGCAAG 58.513 45.833 0.00 0.00 44.57 4.01
1052 1074 5.489792 CCTATTAGGCAAGAGGATAGCAA 57.510 43.478 0.00 0.00 44.57 3.91
1066 1088 5.762218 CAGAGGTCAATCTTTGCCTATTAGG 59.238 44.000 5.28 5.28 37.33 2.69
1067 1089 6.352516 ACAGAGGTCAATCTTTGCCTATTAG 58.647 40.000 4.08 0.00 37.33 1.73
1068 1090 6.313519 ACAGAGGTCAATCTTTGCCTATTA 57.686 37.500 4.08 0.00 37.33 0.98
1069 1091 5.184892 ACAGAGGTCAATCTTTGCCTATT 57.815 39.130 4.08 0.00 37.33 1.73
1070 1092 4.851639 ACAGAGGTCAATCTTTGCCTAT 57.148 40.909 4.08 0.00 37.33 2.57
1071 1093 5.023452 TCTACAGAGGTCAATCTTTGCCTA 58.977 41.667 4.08 0.00 37.33 3.93
1072 1094 3.840666 TCTACAGAGGTCAATCTTTGCCT 59.159 43.478 3.82 3.82 39.02 4.75
1073 1095 4.207891 TCTACAGAGGTCAATCTTTGCC 57.792 45.455 0.00 0.00 0.00 4.52
1074 1096 5.934625 TCTTTCTACAGAGGTCAATCTTTGC 59.065 40.000 0.00 0.00 0.00 3.68
1075 1097 7.117523 CAGTCTTTCTACAGAGGTCAATCTTTG 59.882 40.741 0.00 0.00 0.00 2.77
1076 1098 7.015682 TCAGTCTTTCTACAGAGGTCAATCTTT 59.984 37.037 0.00 0.00 0.00 2.52
1077 1099 6.495181 TCAGTCTTTCTACAGAGGTCAATCTT 59.505 38.462 0.00 0.00 0.00 2.40
1078 1100 6.013379 TCAGTCTTTCTACAGAGGTCAATCT 58.987 40.000 0.00 0.00 0.00 2.40
1079 1101 6.274157 TCAGTCTTTCTACAGAGGTCAATC 57.726 41.667 0.00 0.00 0.00 2.67
1080 1102 6.865834 ATCAGTCTTTCTACAGAGGTCAAT 57.134 37.500 0.00 0.00 0.00 2.57
1081 1103 6.267699 TGAATCAGTCTTTCTACAGAGGTCAA 59.732 38.462 0.00 0.00 0.00 3.18
1082 1104 5.775195 TGAATCAGTCTTTCTACAGAGGTCA 59.225 40.000 0.00 0.00 0.00 4.02
1083 1105 6.274157 TGAATCAGTCTTTCTACAGAGGTC 57.726 41.667 0.00 0.00 0.00 3.85
1084 1106 6.865834 ATGAATCAGTCTTTCTACAGAGGT 57.134 37.500 0.00 0.00 0.00 3.85
1085 1107 6.475076 CGAATGAATCAGTCTTTCTACAGAGG 59.525 42.308 9.07 0.00 37.95 3.69
1086 1108 6.475076 CCGAATGAATCAGTCTTTCTACAGAG 59.525 42.308 9.07 0.00 37.95 3.35
1087 1109 6.152831 TCCGAATGAATCAGTCTTTCTACAGA 59.847 38.462 9.07 0.00 37.95 3.41
1088 1110 6.333416 TCCGAATGAATCAGTCTTTCTACAG 58.667 40.000 9.07 0.00 37.95 2.74
1089 1111 6.280855 TCCGAATGAATCAGTCTTTCTACA 57.719 37.500 9.07 0.00 37.95 2.74
1090 1112 6.980978 TGATCCGAATGAATCAGTCTTTCTAC 59.019 38.462 9.07 0.00 37.95 2.59
1091 1113 7.112452 TGATCCGAATGAATCAGTCTTTCTA 57.888 36.000 9.07 0.00 37.95 2.10
1092 1114 5.982356 TGATCCGAATGAATCAGTCTTTCT 58.018 37.500 9.07 0.00 37.95 2.52
1093 1115 6.668541 TTGATCCGAATGAATCAGTCTTTC 57.331 37.500 9.07 3.84 37.16 2.62
1094 1116 8.781196 CATATTGATCCGAATGAATCAGTCTTT 58.219 33.333 9.07 0.00 0.00 2.52
1095 1117 8.152898 TCATATTGATCCGAATGAATCAGTCTT 58.847 33.333 9.07 0.00 0.00 3.01
1096 1118 7.674120 TCATATTGATCCGAATGAATCAGTCT 58.326 34.615 9.07 0.00 0.00 3.24
1097 1119 7.064371 CCTCATATTGATCCGAATGAATCAGTC 59.936 40.741 0.00 0.00 0.00 3.51
1098 1120 6.877855 CCTCATATTGATCCGAATGAATCAGT 59.122 38.462 0.00 0.00 0.00 3.41
1099 1121 7.064371 GTCCTCATATTGATCCGAATGAATCAG 59.936 40.741 0.00 0.00 0.00 2.90
1100 1122 6.875726 GTCCTCATATTGATCCGAATGAATCA 59.124 38.462 0.00 0.00 0.00 2.57
1101 1123 6.314896 GGTCCTCATATTGATCCGAATGAATC 59.685 42.308 0.00 0.00 0.00 2.52
1102 1124 6.176183 GGTCCTCATATTGATCCGAATGAAT 58.824 40.000 0.00 0.00 0.00 2.57
1103 1125 5.513094 GGGTCCTCATATTGATCCGAATGAA 60.513 44.000 0.00 0.00 0.00 2.57
1104 1126 4.020218 GGGTCCTCATATTGATCCGAATGA 60.020 45.833 0.00 0.00 0.00 2.57
1105 1127 4.256920 GGGTCCTCATATTGATCCGAATG 58.743 47.826 0.00 0.00 0.00 2.67
1106 1128 3.909995 TGGGTCCTCATATTGATCCGAAT 59.090 43.478 0.00 0.00 0.00 3.34
1107 1129 3.313791 TGGGTCCTCATATTGATCCGAA 58.686 45.455 0.00 0.00 0.00 4.30
1108 1130 2.970987 TGGGTCCTCATATTGATCCGA 58.029 47.619 0.00 0.00 0.00 4.55
1109 1131 3.071602 AGTTGGGTCCTCATATTGATCCG 59.928 47.826 0.00 0.00 0.00 4.18
1110 1132 4.505742 GGAGTTGGGTCCTCATATTGATCC 60.506 50.000 0.00 0.00 33.30 3.36
1111 1133 4.646572 GGAGTTGGGTCCTCATATTGATC 58.353 47.826 0.00 0.00 33.30 2.92
1112 1134 3.071602 CGGAGTTGGGTCCTCATATTGAT 59.928 47.826 0.00 0.00 34.00 2.57
1113 1135 2.434336 CGGAGTTGGGTCCTCATATTGA 59.566 50.000 0.00 0.00 34.00 2.57
1114 1136 2.170607 ACGGAGTTGGGTCCTCATATTG 59.829 50.000 0.00 0.00 37.78 1.90
1115 1137 2.478292 ACGGAGTTGGGTCCTCATATT 58.522 47.619 0.00 0.00 37.78 1.28
1116 1138 2.176247 ACGGAGTTGGGTCCTCATAT 57.824 50.000 0.00 0.00 37.78 1.78
1117 1139 3.703804 ACGGAGTTGGGTCCTCATA 57.296 52.632 0.00 0.00 37.78 2.15
1118 1140 4.561155 ACGGAGTTGGGTCCTCAT 57.439 55.556 0.00 0.00 37.78 2.90
1130 1152 0.813184 ATTCTGGCAATGCAACGGAG 59.187 50.000 7.79 0.00 0.00 4.63
1131 1153 0.810648 GATTCTGGCAATGCAACGGA 59.189 50.000 7.79 0.00 0.00 4.69
1132 1154 0.179129 GGATTCTGGCAATGCAACGG 60.179 55.000 7.79 0.00 0.00 4.44
1133 1155 0.527113 TGGATTCTGGCAATGCAACG 59.473 50.000 7.79 0.00 0.00 4.10
1134 1156 2.093869 ACATGGATTCTGGCAATGCAAC 60.094 45.455 7.79 0.00 31.88 4.17
1135 1157 2.181125 ACATGGATTCTGGCAATGCAA 58.819 42.857 7.79 0.00 31.88 4.08
1136 1158 1.855295 ACATGGATTCTGGCAATGCA 58.145 45.000 7.79 0.00 32.64 3.96
1137 1159 2.482490 GGAACATGGATTCTGGCAATGC 60.482 50.000 0.00 0.00 0.00 3.56
1138 1160 2.761767 TGGAACATGGATTCTGGCAATG 59.238 45.455 0.00 0.00 0.00 2.82
1139 1161 3.104519 TGGAACATGGATTCTGGCAAT 57.895 42.857 0.00 0.00 0.00 3.56
1140 1162 2.601240 TGGAACATGGATTCTGGCAA 57.399 45.000 0.00 0.00 0.00 4.52
1154 1176 3.442273 TCAACCCGCTTCAAATATGGAAC 59.558 43.478 0.00 0.00 0.00 3.62
1155 1177 3.442273 GTCAACCCGCTTCAAATATGGAA 59.558 43.478 0.00 0.00 0.00 3.53
1156 1178 3.013921 GTCAACCCGCTTCAAATATGGA 58.986 45.455 0.00 0.00 0.00 3.41
1157 1179 2.099098 GGTCAACCCGCTTCAAATATGG 59.901 50.000 0.00 0.00 0.00 2.74
1158 1180 3.420839 GGTCAACCCGCTTCAAATATG 57.579 47.619 0.00 0.00 0.00 1.78
1170 1192 3.602483 TCAATTTACTAGCGGTCAACCC 58.398 45.455 0.00 0.00 0.00 4.11
1171 1193 3.621715 CCTCAATTTACTAGCGGTCAACC 59.378 47.826 0.00 0.00 0.00 3.77
1172 1194 3.621715 CCCTCAATTTACTAGCGGTCAAC 59.378 47.826 0.00 0.00 0.00 3.18
1173 1195 3.869065 CCCTCAATTTACTAGCGGTCAA 58.131 45.455 0.00 0.00 0.00 3.18
1174 1196 2.419574 GCCCTCAATTTACTAGCGGTCA 60.420 50.000 0.00 0.00 0.00 4.02
1175 1197 2.210961 GCCCTCAATTTACTAGCGGTC 58.789 52.381 0.00 0.00 0.00 4.79
1176 1198 1.472728 CGCCCTCAATTTACTAGCGGT 60.473 52.381 0.00 0.00 38.52 5.68
1177 1199 1.217882 CGCCCTCAATTTACTAGCGG 58.782 55.000 0.00 0.00 38.52 5.52
1318 1340 4.807039 GCGACGGCACCGGTGTAT 62.807 66.667 33.92 20.37 44.69 2.29
1329 1351 1.811266 CCATCTCAACTGGCGACGG 60.811 63.158 0.00 0.00 44.60 4.79
1332 1354 1.215382 CGTCCATCTCAACTGGCGA 59.785 57.895 0.00 0.00 36.23 5.54
1351 1373 2.980233 GCTTGTTGGCTGCCTCGT 60.980 61.111 21.03 0.00 0.00 4.18
1409 1431 1.535685 GGGGAGGCTGCTGATGAAT 59.464 57.895 5.84 0.00 0.00 2.57
1575 1598 4.479993 GGAGACTGCGGCCATGCT 62.480 66.667 2.24 0.00 35.36 3.79
1918 1943 0.725686 GTACTCGAGCGCAGTACAGA 59.274 55.000 24.00 8.45 43.94 3.41
1986 2011 5.527582 ACACATAAACCCATTAGAGATTCGC 59.472 40.000 0.00 0.00 0.00 4.70
2001 2026 1.202348 GGGCCAGCAAGACACATAAAC 59.798 52.381 4.39 0.00 0.00 2.01
2041 2067 3.999663 GGAACAGTTGGAGTGATCTCTTG 59.000 47.826 0.00 0.00 40.29 3.02
2067 2093 1.909376 TACAAGCAATCTCTCGACGC 58.091 50.000 0.00 0.00 0.00 5.19
2068 2094 2.716504 CGATACAAGCAATCTCTCGACG 59.283 50.000 0.00 0.00 0.00 5.12
2069 2095 3.046390 CCGATACAAGCAATCTCTCGAC 58.954 50.000 0.00 0.00 0.00 4.20
2071 2097 3.355626 TCCGATACAAGCAATCTCTCG 57.644 47.619 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.