Multiple sequence alignment - TraesCS4B01G162400

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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 TraesCS4B01G162400 chr4B 100.000 2111 0 0 1 2111 327190634 327192744 0.000000e+00 3899.0
1 TraesCS4B01G162400 chr6B 90.633 790 50 9 1325 2108 31680374 31681145 0.000000e+00 1027.0
2 TraesCS4B01G162400 chr6B 92.066 668 47 5 313 976 31679676 31680341 0.000000e+00 935.0
3 TraesCS4B01G162400 chr6B 91.534 189 16 0 1 189 31679489 31679677 5.780000e-66 261.0
4 TraesCS4B01G162400 chr7B 90.265 791 48 11 1325 2108 572055928 572055160 0.000000e+00 1007.0
5 TraesCS4B01G162400 chr7B 91.916 668 49 4 313 976 572056627 572055961 0.000000e+00 929.0
6 TraesCS4B01G162400 chr7B 83.102 793 112 15 1325 2108 16914365 16915144 0.000000e+00 702.0
7 TraesCS4B01G162400 chr7B 82.714 781 98 26 220 969 16913459 16914233 0.000000e+00 660.0
8 TraesCS4B01G162400 chr7B 93.122 189 13 0 1 189 572056814 572056626 5.740000e-71 278.0
9 TraesCS4B01G162400 chr7B 87.059 85 10 1 1 85 16912981 16913064 6.200000e-16 95.3
10 TraesCS4B01G162400 chr5B 90.663 739 46 8 1375 2108 585841777 585842497 0.000000e+00 961.0
11 TraesCS4B01G162400 chr5B 91.629 669 49 6 313 976 585840168 585840834 0.000000e+00 918.0
12 TraesCS4B01G162400 chr5B 91.534 189 16 0 1 189 585839981 585840169 5.780000e-66 261.0
13 TraesCS4B01G162400 chr1A 83.291 796 102 23 1325 2108 362050499 362051275 0.000000e+00 704.0
14 TraesCS4B01G162400 chr1A 83.355 781 94 24 220 969 362049562 362050337 0.000000e+00 689.0
15 TraesCS4B01G162400 chr1A 97.935 339 7 0 978 1316 554459183 554459521 2.330000e-164 588.0
16 TraesCS4B01G162400 chr1A 95.082 61 3 0 25 85 362049105 362049165 1.720000e-16 97.1
17 TraesCS4B01G162400 chr1B 83.483 781 94 26 220 969 37207134 37207910 0.000000e+00 695.0
18 TraesCS4B01G162400 chr1B 82.138 795 117 21 1325 2108 37209022 37209802 0.000000e+00 658.0
19 TraesCS4B01G162400 chr5A 82.915 796 110 19 1325 2111 114399409 114398631 0.000000e+00 693.0
20 TraesCS4B01G162400 chr5A 82.308 780 105 21 220 969 114400317 114399541 0.000000e+00 645.0
21 TraesCS4B01G162400 chr5A 97.353 340 7 2 977 1316 607199379 607199042 5.050000e-161 577.0
22 TraesCS4B01G162400 chr7A 82.811 797 110 20 1325 2111 642527968 642527189 0.000000e+00 688.0
23 TraesCS4B01G162400 chr7A 83.120 782 95 26 220 969 642528876 642528100 0.000000e+00 678.0
24 TraesCS4B01G162400 chr7A 95.161 62 3 0 24 85 112540244 112540305 4.790000e-17 99.0
25 TraesCS4B01G162400 chr7A 95.082 61 3 0 25 85 642529331 642529271 1.720000e-16 97.1
26 TraesCS4B01G162400 chr3D 82.338 804 109 20 1325 2111 573143528 573142741 0.000000e+00 667.0
27 TraesCS4B01G162400 chr3D 82.714 781 99 26 220 969 149861971 149862746 0.000000e+00 662.0
28 TraesCS4B01G162400 chr3D 96.765 340 10 1 978 1316 571593351 571593690 1.090000e-157 566.0
29 TraesCS4B01G162400 chr3D 95.238 63 3 0 23 85 573144891 573144829 1.330000e-17 100.0
30 TraesCS4B01G162400 chr3D 93.548 62 4 0 24 85 149861243 149861304 2.230000e-15 93.5
31 TraesCS4B01G162400 chr7D 97.640 339 8 0 978 1316 77241967 77242305 1.090000e-162 582.0
32 TraesCS4B01G162400 chr5D 97.640 339 8 0 978 1316 512408824 512408486 1.090000e-162 582.0
33 TraesCS4B01G162400 chr5D 97.345 339 9 0 978 1316 512415760 512415422 5.050000e-161 577.0
34 TraesCS4B01G162400 chr5D 96.755 339 11 0 978 1316 6180222 6179884 1.090000e-157 566.0
35 TraesCS4B01G162400 chr6D 97.640 339 7 1 978 1316 45510846 45510509 3.900000e-162 580.0
36 TraesCS4B01G162400 chr1D 97.345 339 9 0 978 1316 254417778 254418116 5.050000e-161 577.0
37 TraesCS4B01G162400 chrUn 76.323 359 70 10 22 369 292840043 292840397 5.990000e-41 178.0
38 TraesCS4B01G162400 chrUn 76.323 359 70 10 22 369 292845498 292845852 5.990000e-41 178.0
39 TraesCS4B01G162400 chrUn 76.323 359 70 10 22 369 332901915 332901561 5.990000e-41 178.0
40 TraesCS4B01G162400 chrUn 76.033 363 67 14 22 369 89177747 89178104 1.000000e-38 171.0


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 TraesCS4B01G162400 chr4B 327190634 327192744 2110 False 3899.000000 3899 100.000000 1 2111 1 chr4B.!!$F1 2110
1 TraesCS4B01G162400 chr6B 31679489 31681145 1656 False 741.000000 1027 91.411000 1 2108 3 chr6B.!!$F1 2107
2 TraesCS4B01G162400 chr7B 572055160 572056814 1654 True 738.000000 1007 91.767667 1 2108 3 chr7B.!!$R1 2107
3 TraesCS4B01G162400 chr7B 16912981 16915144 2163 False 485.766667 702 84.291667 1 2108 3 chr7B.!!$F1 2107
4 TraesCS4B01G162400 chr5B 585839981 585842497 2516 False 713.333333 961 91.275333 1 2108 3 chr5B.!!$F1 2107
5 TraesCS4B01G162400 chr1A 362049105 362051275 2170 False 496.700000 704 87.242667 25 2108 3 chr1A.!!$F2 2083
6 TraesCS4B01G162400 chr1B 37207134 37209802 2668 False 676.500000 695 82.810500 220 2108 2 chr1B.!!$F1 1888
7 TraesCS4B01G162400 chr5A 114398631 114400317 1686 True 669.000000 693 82.611500 220 2111 2 chr5A.!!$R2 1891
8 TraesCS4B01G162400 chr7A 642527189 642529331 2142 True 487.700000 688 87.004333 25 2111 3 chr7A.!!$R1 2086
9 TraesCS4B01G162400 chr3D 573142741 573144891 2150 True 383.500000 667 88.788000 23 2111 2 chr3D.!!$R1 2088
10 TraesCS4B01G162400 chr3D 149861243 149862746 1503 False 377.750000 662 88.131000 24 969 2 chr3D.!!$F2 945

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
776 1332 1.208259 TATGCGCAAGATGCAGTACG 58.792 50.0 17.11 0.0 46.98 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1877 4431 0.253347 AGTCATCCACTCACCCCCAT 60.253 55.0 0.0 0.0 0.0 4.0 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
111 213 7.062371 CGGTAATCGAAGGAAATCTCACATATC 59.938 40.741 0.00 0.00 42.43 1.63
123 227 9.823647 GAAATCTCACATATCCTCAGTAAAAGA 57.176 33.333 0.00 0.00 0.00 2.52
149 253 7.100458 AGGTCACATATACAAATTGGCTTTC 57.900 36.000 0.00 0.00 0.00 2.62
238 773 8.978874 AAGAAATAGATTGTATACATGGTGCA 57.021 30.769 6.36 0.00 0.00 4.57
245 780 8.922931 AGATTGTATACATGGTGCATAAATGA 57.077 30.769 6.36 0.00 0.00 2.57
261 796 7.068470 TGCATAAATGAAATCTTCACATGCCTA 59.932 33.333 19.38 8.10 43.48 3.93
269 804 7.560991 TGAAATCTTCACATGCCTATACCAAAT 59.439 33.333 0.00 0.00 34.08 2.32
272 807 3.831323 TCACATGCCTATACCAAATGGG 58.169 45.455 4.17 0.00 44.81 4.00
306 844 5.572896 CGAAAACAAAGAATTATGTCAGCCC 59.427 40.000 0.00 0.00 0.00 5.19
313 851 3.382546 AGAATTATGTCAGCCCAATGCAC 59.617 43.478 0.00 0.00 44.83 4.57
348 886 2.880890 GTGGAGGGCATCACATTCATAC 59.119 50.000 0.08 0.00 34.32 2.39
352 890 1.526887 GGGCATCACATTCATACGACG 59.473 52.381 0.00 0.00 0.00 5.12
364 905 2.424601 TCATACGACGGTCCTAACAAGG 59.575 50.000 1.91 0.00 0.00 3.61
418 968 4.665833 ACTAAATACTACCATGCGAGCA 57.334 40.909 0.00 0.00 0.00 4.26
435 985 3.990469 CGAGCAGGATATGTGGTAATCAC 59.010 47.826 0.00 0.00 46.23 3.06
552 1103 7.986889 ACATGAAAAGGCTTATCAAAACAAACT 59.013 29.630 0.00 0.00 0.00 2.66
596 1147 8.859156 CGCTACACTTGCACAAATTAAATAATT 58.141 29.630 0.00 0.00 37.49 1.40
622 1173 6.073112 CCCAAATTGAAATGTCAACCAATCAC 60.073 38.462 0.00 0.00 46.40 3.06
649 1200 4.290155 CACCTGTGTTGCATACAGAAAAC 58.710 43.478 25.03 3.89 46.52 2.43
654 1205 6.312426 CCTGTGTTGCATACAGAAAACAAAAA 59.688 34.615 25.03 0.00 46.52 1.94
660 1211 7.489574 TGCATACAGAAAACAAAAATTTCCC 57.510 32.000 0.00 0.00 37.47 3.97
668 1219 5.692115 AAACAAAAATTTCCCAGTCAGGT 57.308 34.783 0.00 0.00 34.66 4.00
671 1222 4.901250 ACAAAAATTTCCCAGTCAGGTCAT 59.099 37.500 0.00 0.00 34.66 3.06
776 1332 1.208259 TATGCGCAAGATGCAGTACG 58.792 50.000 17.11 0.00 46.98 3.67
802 1358 2.743938 CATGTATCCAGTGCGTCCTAC 58.256 52.381 0.00 0.00 0.00 3.18
925 1490 8.514594 ACATACATAAAACTTGTTCATCTGTGG 58.485 33.333 0.00 0.00 0.00 4.17
933 1498 7.765695 AACTTGTTCATCTGTGGAAACATAT 57.234 32.000 0.00 0.00 46.14 1.78
976 2614 8.891671 ACAATCAAGTTATTGCAAGTTTGAAT 57.108 26.923 16.45 9.39 39.93 2.57
977 2615 9.979578 ACAATCAAGTTATTGCAAGTTTGAATA 57.020 25.926 16.45 0.00 39.93 1.75
1009 2647 9.717942 ATCTTGGAGATTATGTAATGCTTACTC 57.282 33.333 7.33 0.00 32.41 2.59
1010 2648 8.928448 TCTTGGAGATTATGTAATGCTTACTCT 58.072 33.333 0.00 3.06 37.06 3.24
1011 2649 9.202273 CTTGGAGATTATGTAATGCTTACTCTC 57.798 37.037 0.00 10.88 37.06 3.20
1012 2650 8.250143 TGGAGATTATGTAATGCTTACTCTCA 57.750 34.615 16.05 0.00 36.31 3.27
1013 2651 8.704668 TGGAGATTATGTAATGCTTACTCTCAA 58.295 33.333 16.05 8.85 36.31 3.02
1014 2652 9.547753 GGAGATTATGTAATGCTTACTCTCAAA 57.452 33.333 16.05 4.92 36.31 2.69
1021 2659 9.683069 ATGTAATGCTTACTCTCAAACTTTTTG 57.317 29.630 7.33 0.00 37.06 2.44
1022 2660 8.682710 TGTAATGCTTACTCTCAAACTTTTTGT 58.317 29.630 7.33 0.00 37.06 2.83
1023 2661 9.516314 GTAATGCTTACTCTCAAACTTTTTGTT 57.484 29.630 0.00 0.00 35.39 2.83
1083 2721 8.101309 TCTTTGGATTCTTATCTAATGACCCA 57.899 34.615 0.00 0.00 33.45 4.51
1084 2722 8.213679 TCTTTGGATTCTTATCTAATGACCCAG 58.786 37.037 0.00 0.00 33.45 4.45
1085 2723 6.439636 TGGATTCTTATCTAATGACCCAGG 57.560 41.667 0.00 0.00 0.00 4.45
1086 2724 6.150332 TGGATTCTTATCTAATGACCCAGGA 58.850 40.000 0.00 0.00 0.00 3.86
1087 2725 6.043243 TGGATTCTTATCTAATGACCCAGGAC 59.957 42.308 0.00 0.00 0.00 3.85
1088 2726 5.531122 TTCTTATCTAATGACCCAGGACG 57.469 43.478 0.00 0.00 0.00 4.79
1089 2727 3.895656 TCTTATCTAATGACCCAGGACGG 59.104 47.826 0.00 0.00 0.00 4.79
1090 2728 2.471815 ATCTAATGACCCAGGACGGA 57.528 50.000 0.00 0.00 36.56 4.69
1091 2729 2.241281 TCTAATGACCCAGGACGGAA 57.759 50.000 0.00 0.00 36.56 4.30
1092 2730 2.759355 TCTAATGACCCAGGACGGAAT 58.241 47.619 0.00 0.00 36.56 3.01
1093 2731 2.698797 TCTAATGACCCAGGACGGAATC 59.301 50.000 0.00 0.00 36.56 2.52
1101 2739 2.202892 GGACGGAATCCTGGACGC 60.203 66.667 0.00 0.00 45.22 5.19
1102 2740 2.582498 GACGGAATCCTGGACGCG 60.582 66.667 3.53 3.53 0.00 6.01
1103 2741 3.060020 GACGGAATCCTGGACGCGA 62.060 63.158 15.93 0.00 0.00 5.87
1104 2742 2.278857 CGGAATCCTGGACGCGAG 60.279 66.667 15.93 0.00 0.00 5.03
1105 2743 2.107141 GGAATCCTGGACGCGAGG 59.893 66.667 15.93 10.08 0.00 4.63
1106 2744 2.423898 GGAATCCTGGACGCGAGGA 61.424 63.158 15.93 16.23 42.25 3.71
1107 2745 1.066587 GAATCCTGGACGCGAGGAG 59.933 63.158 15.93 4.41 41.41 3.69
1108 2746 1.668101 GAATCCTGGACGCGAGGAGT 61.668 60.000 15.93 14.88 41.41 3.85
1109 2747 0.395311 AATCCTGGACGCGAGGAGTA 60.395 55.000 15.93 0.00 41.41 2.59
1110 2748 0.395311 ATCCTGGACGCGAGGAGTAA 60.395 55.000 15.93 0.00 41.41 2.24
1111 2749 0.609957 TCCTGGACGCGAGGAGTAAA 60.610 55.000 15.93 0.00 33.54 2.01
1112 2750 0.245539 CCTGGACGCGAGGAGTAAAA 59.754 55.000 15.93 0.00 30.68 1.52
1113 2751 1.337447 CCTGGACGCGAGGAGTAAAAA 60.337 52.381 15.93 0.00 30.68 1.94
1114 2752 2.618053 CTGGACGCGAGGAGTAAAAAT 58.382 47.619 15.93 0.00 0.00 1.82
1115 2753 3.000727 CTGGACGCGAGGAGTAAAAATT 58.999 45.455 15.93 0.00 0.00 1.82
1116 2754 2.997986 TGGACGCGAGGAGTAAAAATTC 59.002 45.455 15.93 0.00 0.00 2.17
1117 2755 2.350804 GGACGCGAGGAGTAAAAATTCC 59.649 50.000 15.93 0.00 0.00 3.01
1118 2756 2.997986 GACGCGAGGAGTAAAAATTCCA 59.002 45.455 15.93 0.00 35.88 3.53
1119 2757 3.606687 ACGCGAGGAGTAAAAATTCCAT 58.393 40.909 15.93 0.00 35.88 3.41
1120 2758 4.007659 ACGCGAGGAGTAAAAATTCCATT 58.992 39.130 15.93 0.00 35.88 3.16
1121 2759 4.457949 ACGCGAGGAGTAAAAATTCCATTT 59.542 37.500 15.93 0.00 35.88 2.32
1122 2760 5.048294 ACGCGAGGAGTAAAAATTCCATTTT 60.048 36.000 15.93 0.00 43.83 1.82
1146 2784 8.934507 TTTTGTTCTTATTGGATTTGTTTCGT 57.065 26.923 0.00 0.00 0.00 3.85
1148 2786 9.453325 TTTGTTCTTATTGGATTTGTTTCGTAC 57.547 29.630 0.00 0.00 0.00 3.67
1149 2787 8.155821 TGTTCTTATTGGATTTGTTTCGTACA 57.844 30.769 0.00 0.00 34.12 2.90
1150 2788 8.788806 TGTTCTTATTGGATTTGTTTCGTACAT 58.211 29.630 0.00 0.00 36.44 2.29
1151 2789 9.620660 GTTCTTATTGGATTTGTTTCGTACATT 57.379 29.630 0.00 0.00 36.44 2.71
1169 2807 9.406828 TCGTACATTTATCTATGAGAAAATCCG 57.593 33.333 0.00 0.00 0.00 4.18
1170 2808 8.648097 CGTACATTTATCTATGAGAAAATCCGG 58.352 37.037 0.00 0.00 0.00 5.14
1171 2809 7.986085 ACATTTATCTATGAGAAAATCCGGG 57.014 36.000 0.00 0.00 0.00 5.73
1172 2810 6.942576 ACATTTATCTATGAGAAAATCCGGGG 59.057 38.462 0.00 0.00 0.00 5.73
1173 2811 5.499004 TTATCTATGAGAAAATCCGGGGG 57.501 43.478 0.00 0.00 0.00 5.40
1174 2812 2.771688 TCTATGAGAAAATCCGGGGGT 58.228 47.619 0.00 0.00 0.00 4.95
1175 2813 2.704065 TCTATGAGAAAATCCGGGGGTC 59.296 50.000 0.00 0.00 0.00 4.46
1176 2814 1.295020 ATGAGAAAATCCGGGGGTCA 58.705 50.000 0.00 0.00 0.00 4.02
1177 2815 0.618458 TGAGAAAATCCGGGGGTCAG 59.382 55.000 0.00 0.00 0.00 3.51
1178 2816 0.909623 GAGAAAATCCGGGGGTCAGA 59.090 55.000 0.00 0.00 0.00 3.27
1179 2817 1.280998 GAGAAAATCCGGGGGTCAGAA 59.719 52.381 0.00 0.00 0.00 3.02
1180 2818 1.923148 AGAAAATCCGGGGGTCAGAAT 59.077 47.619 0.00 0.00 0.00 2.40
1181 2819 2.311841 AGAAAATCCGGGGGTCAGAATT 59.688 45.455 0.00 0.00 0.00 2.17
1182 2820 2.437085 AAATCCGGGGGTCAGAATTC 57.563 50.000 0.00 0.00 0.00 2.17
1183 2821 1.596496 AATCCGGGGGTCAGAATTCT 58.404 50.000 0.88 0.88 0.00 2.40
1184 2822 1.596496 ATCCGGGGGTCAGAATTCTT 58.404 50.000 4.86 0.00 0.00 2.52
1185 2823 1.368374 TCCGGGGGTCAGAATTCTTT 58.632 50.000 4.86 0.00 0.00 2.52
1186 2824 1.280998 TCCGGGGGTCAGAATTCTTTC 59.719 52.381 4.86 1.70 0.00 2.62
1187 2825 1.682087 CCGGGGGTCAGAATTCTTTCC 60.682 57.143 4.86 10.79 31.84 3.13
1188 2826 1.004277 CGGGGGTCAGAATTCTTTCCA 59.996 52.381 20.53 0.10 31.84 3.53
1189 2827 2.554344 CGGGGGTCAGAATTCTTTCCAA 60.554 50.000 20.53 0.00 31.84 3.53
1190 2828 3.713003 GGGGGTCAGAATTCTTTCCAAT 58.287 45.455 20.53 0.00 31.84 3.16
1191 2829 4.096681 GGGGGTCAGAATTCTTTCCAATT 58.903 43.478 20.53 0.00 31.84 2.32
1192 2830 4.160439 GGGGGTCAGAATTCTTTCCAATTC 59.840 45.833 20.53 8.56 41.37 2.17
1193 2831 4.142381 GGGGTCAGAATTCTTTCCAATTCG 60.142 45.833 20.53 3.48 44.40 3.34
1194 2832 4.700213 GGGTCAGAATTCTTTCCAATTCGA 59.300 41.667 20.53 5.46 44.40 3.71
1195 2833 5.183140 GGGTCAGAATTCTTTCCAATTCGAA 59.817 40.000 20.53 0.00 44.40 3.71
1196 2834 6.294508 GGGTCAGAATTCTTTCCAATTCGAAA 60.295 38.462 20.53 0.00 44.40 3.46
1197 2835 6.803807 GGTCAGAATTCTTTCCAATTCGAAAG 59.196 38.462 16.73 16.73 46.72 2.62
1198 2836 7.363431 GTCAGAATTCTTTCCAATTCGAAAGT 58.637 34.615 20.49 6.24 45.89 2.66
1199 2837 7.535599 GTCAGAATTCTTTCCAATTCGAAAGTC 59.464 37.037 20.49 13.26 45.89 3.01
1200 2838 6.803807 CAGAATTCTTTCCAATTCGAAAGTCC 59.196 38.462 20.49 11.01 45.89 3.85
1201 2839 5.644977 ATTCTTTCCAATTCGAAAGTCCC 57.355 39.130 20.49 0.00 45.89 4.46
1202 2840 4.093472 TCTTTCCAATTCGAAAGTCCCA 57.907 40.909 20.49 3.71 45.89 4.37
1203 2841 4.465886 TCTTTCCAATTCGAAAGTCCCAA 58.534 39.130 20.49 3.40 45.89 4.12
1204 2842 4.890581 TCTTTCCAATTCGAAAGTCCCAAA 59.109 37.500 20.49 2.80 45.89 3.28
1205 2843 5.538433 TCTTTCCAATTCGAAAGTCCCAAAT 59.462 36.000 20.49 0.00 45.89 2.32
1206 2844 4.782019 TCCAATTCGAAAGTCCCAAATG 57.218 40.909 0.00 0.00 0.00 2.32
1207 2845 4.402829 TCCAATTCGAAAGTCCCAAATGA 58.597 39.130 0.00 0.00 0.00 2.57
1208 2846 5.016173 TCCAATTCGAAAGTCCCAAATGAT 58.984 37.500 0.00 0.00 0.00 2.45
1209 2847 5.125417 TCCAATTCGAAAGTCCCAAATGATC 59.875 40.000 0.00 0.00 0.00 2.92
1210 2848 5.343249 CAATTCGAAAGTCCCAAATGATCC 58.657 41.667 0.00 0.00 0.00 3.36
1211 2849 3.712016 TCGAAAGTCCCAAATGATCCA 57.288 42.857 0.00 0.00 0.00 3.41
1212 2850 4.027674 TCGAAAGTCCCAAATGATCCAA 57.972 40.909 0.00 0.00 0.00 3.53
1213 2851 4.009675 TCGAAAGTCCCAAATGATCCAAG 58.990 43.478 0.00 0.00 0.00 3.61
1214 2852 3.129287 CGAAAGTCCCAAATGATCCAAGG 59.871 47.826 0.00 0.00 0.00 3.61
1215 2853 2.834638 AGTCCCAAATGATCCAAGGG 57.165 50.000 0.00 0.00 40.98 3.95
1216 2854 2.287584 AGTCCCAAATGATCCAAGGGA 58.712 47.619 7.91 7.91 45.94 4.20
1218 2856 1.063717 TCCCAAATGATCCAAGGGAGC 60.064 52.381 7.91 0.00 43.39 4.70
1219 2857 1.027357 CCAAATGATCCAAGGGAGCG 58.973 55.000 0.00 0.00 41.58 5.03
1220 2858 1.027357 CAAATGATCCAAGGGAGCGG 58.973 55.000 0.00 0.00 41.58 5.52
1221 2859 0.918983 AAATGATCCAAGGGAGCGGA 59.081 50.000 0.00 0.00 41.58 5.54
1222 2860 0.918983 AATGATCCAAGGGAGCGGAA 59.081 50.000 0.00 0.00 41.58 4.30
1223 2861 0.918983 ATGATCCAAGGGAGCGGAAA 59.081 50.000 0.00 0.00 41.58 3.13
1224 2862 0.253044 TGATCCAAGGGAGCGGAAAG 59.747 55.000 0.00 0.00 41.58 2.62
1225 2863 0.541863 GATCCAAGGGAGCGGAAAGA 59.458 55.000 0.00 0.00 34.05 2.52
1226 2864 0.543749 ATCCAAGGGAGCGGAAAGAG 59.456 55.000 0.00 0.00 34.05 2.85
1227 2865 0.544357 TCCAAGGGAGCGGAAAGAGA 60.544 55.000 0.00 0.00 0.00 3.10
1228 2866 0.107945 CCAAGGGAGCGGAAAGAGAG 60.108 60.000 0.00 0.00 0.00 3.20
1229 2867 0.107945 CAAGGGAGCGGAAAGAGAGG 60.108 60.000 0.00 0.00 0.00 3.69
1230 2868 1.268283 AAGGGAGCGGAAAGAGAGGG 61.268 60.000 0.00 0.00 0.00 4.30
1231 2869 1.686110 GGGAGCGGAAAGAGAGGGA 60.686 63.158 0.00 0.00 0.00 4.20
1232 2870 1.051556 GGGAGCGGAAAGAGAGGGAT 61.052 60.000 0.00 0.00 0.00 3.85
1233 2871 0.833949 GGAGCGGAAAGAGAGGGATT 59.166 55.000 0.00 0.00 0.00 3.01
1234 2872 1.202592 GGAGCGGAAAGAGAGGGATTC 60.203 57.143 0.00 0.00 0.00 2.52
1235 2873 0.461961 AGCGGAAAGAGAGGGATTCG 59.538 55.000 0.00 0.00 0.00 3.34
1236 2874 0.460311 GCGGAAAGAGAGGGATTCGA 59.540 55.000 0.00 0.00 0.00 3.71
1237 2875 1.134788 GCGGAAAGAGAGGGATTCGAA 60.135 52.381 0.00 0.00 0.00 3.71
1238 2876 2.677037 GCGGAAAGAGAGGGATTCGAAA 60.677 50.000 0.00 0.00 0.00 3.46
1239 2877 2.930682 CGGAAAGAGAGGGATTCGAAAC 59.069 50.000 0.00 0.00 0.00 2.78
1240 2878 3.271729 GGAAAGAGAGGGATTCGAAACC 58.728 50.000 15.69 15.69 0.00 3.27
1241 2879 3.055021 GGAAAGAGAGGGATTCGAAACCT 60.055 47.826 22.08 21.41 37.31 3.50
1244 2882 3.364277 GAGGGATTCGAAACCTCGG 57.636 57.895 26.56 0.00 45.49 4.63
1245 2883 0.535797 GAGGGATTCGAAACCTCGGT 59.464 55.000 26.56 11.11 45.49 4.69
1246 2884 1.753073 GAGGGATTCGAAACCTCGGTA 59.247 52.381 26.56 0.00 45.49 4.02
1247 2885 1.479730 AGGGATTCGAAACCTCGGTAC 59.520 52.381 22.08 6.27 45.49 3.34
1248 2886 1.205417 GGGATTCGAAACCTCGGTACA 59.795 52.381 22.08 0.00 45.49 2.90
1249 2887 2.354003 GGGATTCGAAACCTCGGTACAA 60.354 50.000 22.08 0.00 45.49 2.41
1250 2888 3.328505 GGATTCGAAACCTCGGTACAAA 58.671 45.455 16.62 0.00 45.49 2.83
1251 2889 3.747529 GGATTCGAAACCTCGGTACAAAA 59.252 43.478 16.62 0.00 45.49 2.44
1252 2890 4.213906 GGATTCGAAACCTCGGTACAAAAA 59.786 41.667 16.62 0.00 45.49 1.94
1286 2924 4.474226 GATTAGCAATCCACCGCTTTAG 57.526 45.455 0.00 0.00 39.70 1.85
1287 2925 3.343941 TTAGCAATCCACCGCTTTAGT 57.656 42.857 0.00 0.00 39.70 2.24
1288 2926 1.739067 AGCAATCCACCGCTTTAGTC 58.261 50.000 0.00 0.00 33.81 2.59
1289 2927 0.733150 GCAATCCACCGCTTTAGTCC 59.267 55.000 0.00 0.00 0.00 3.85
1290 2928 1.948611 GCAATCCACCGCTTTAGTCCA 60.949 52.381 0.00 0.00 0.00 4.02
1291 2929 1.737793 CAATCCACCGCTTTAGTCCAC 59.262 52.381 0.00 0.00 0.00 4.02
1292 2930 1.276622 ATCCACCGCTTTAGTCCACT 58.723 50.000 0.00 0.00 0.00 4.00
1293 2931 0.606604 TCCACCGCTTTAGTCCACTC 59.393 55.000 0.00 0.00 0.00 3.51
1294 2932 0.320374 CCACCGCTTTAGTCCACTCA 59.680 55.000 0.00 0.00 0.00 3.41
1295 2933 1.673033 CCACCGCTTTAGTCCACTCAG 60.673 57.143 0.00 0.00 0.00 3.35
1296 2934 0.037232 ACCGCTTTAGTCCACTCAGC 60.037 55.000 2.04 2.04 0.00 4.26
1297 2935 0.741221 CCGCTTTAGTCCACTCAGCC 60.741 60.000 5.59 0.00 31.87 4.85
1298 2936 0.037326 CGCTTTAGTCCACTCAGCCA 60.037 55.000 5.59 0.00 31.87 4.75
1299 2937 1.406069 CGCTTTAGTCCACTCAGCCAT 60.406 52.381 5.59 0.00 31.87 4.40
1300 2938 2.284190 GCTTTAGTCCACTCAGCCATC 58.716 52.381 0.94 0.00 0.00 3.51
1301 2939 2.093235 GCTTTAGTCCACTCAGCCATCT 60.093 50.000 0.94 0.00 0.00 2.90
1302 2940 3.791245 CTTTAGTCCACTCAGCCATCTC 58.209 50.000 0.00 0.00 0.00 2.75
1303 2941 1.781786 TAGTCCACTCAGCCATCTCC 58.218 55.000 0.00 0.00 0.00 3.71
1304 2942 0.980231 AGTCCACTCAGCCATCTCCC 60.980 60.000 0.00 0.00 0.00 4.30
1305 2943 1.690633 TCCACTCAGCCATCTCCCC 60.691 63.158 0.00 0.00 0.00 4.81
1306 2944 1.997311 CCACTCAGCCATCTCCCCA 60.997 63.158 0.00 0.00 0.00 4.96
1307 2945 1.222936 CACTCAGCCATCTCCCCAC 59.777 63.158 0.00 0.00 0.00 4.61
1308 2946 2.362369 ACTCAGCCATCTCCCCACG 61.362 63.158 0.00 0.00 0.00 4.94
1309 2947 2.284625 TCAGCCATCTCCCCACGT 60.285 61.111 0.00 0.00 0.00 4.49
1310 2948 1.903877 CTCAGCCATCTCCCCACGTT 61.904 60.000 0.00 0.00 0.00 3.99
1311 2949 1.450312 CAGCCATCTCCCCACGTTC 60.450 63.158 0.00 0.00 0.00 3.95
1312 2950 2.124695 GCCATCTCCCCACGTTCC 60.125 66.667 0.00 0.00 0.00 3.62
1313 2951 2.966732 GCCATCTCCCCACGTTCCA 61.967 63.158 0.00 0.00 0.00 3.53
1314 2952 1.682849 CCATCTCCCCACGTTCCAA 59.317 57.895 0.00 0.00 0.00 3.53
1315 2953 0.037590 CCATCTCCCCACGTTCCAAA 59.962 55.000 0.00 0.00 0.00 3.28
1316 2954 1.546773 CCATCTCCCCACGTTCCAAAA 60.547 52.381 0.00 0.00 0.00 2.44
1317 2955 2.235016 CATCTCCCCACGTTCCAAAAA 58.765 47.619 0.00 0.00 0.00 1.94
1378 3908 5.119694 CCCAGCTAGAGTGATTAGGTTTTC 58.880 45.833 0.00 0.00 0.00 2.29
1444 3987 7.393515 AGAAAGACATTACAGGAATTTGTACCC 59.606 37.037 0.00 0.00 33.50 3.69
1560 4112 7.679783 TGGAATAGATCTTTGTGTTCTTGAGA 58.320 34.615 0.00 0.00 0.00 3.27
1612 4164 0.182299 TGGTGTCAGTGCCATCACAA 59.818 50.000 0.00 0.00 45.49 3.33
1627 4179 8.850156 GTGCCATCACAAGGTAAAATTAGATAT 58.150 33.333 0.00 0.00 42.66 1.63
1733 4286 7.458397 ACTCATAACTGAAAAAGGACCACATA 58.542 34.615 0.00 0.00 0.00 2.29
1849 4403 2.364970 CTGGCTCTATCAGTTCAGGAGG 59.635 54.545 0.00 0.00 0.00 4.30
1859 4413 4.389374 TCAGTTCAGGAGGAAATTCACAC 58.611 43.478 0.00 0.00 37.23 3.82
1899 4453 0.035056 GGGGTGAGTGGATGACTTGG 60.035 60.000 0.00 0.00 33.83 3.61
1906 4460 3.588842 TGAGTGGATGACTTGGGAGAAAT 59.411 43.478 0.00 0.00 33.83 2.17
1939 4496 6.869913 GCAAATTTGAATGAAGAGGATTGTCA 59.130 34.615 22.31 0.00 0.00 3.58
1945 4502 8.868522 TTGAATGAAGAGGATTGTCAAGTTAT 57.131 30.769 0.00 0.00 0.00 1.89
2037 4594 9.807649 GGATTTTCAACTATGAATAAGCATTGT 57.192 29.630 0.00 0.00 44.70 2.71
2049 4606 8.673626 TGAATAAGCATTGTCGAAGATTTTTC 57.326 30.769 0.00 0.00 40.67 2.29
2050 4607 7.754924 TGAATAAGCATTGTCGAAGATTTTTCC 59.245 33.333 0.00 0.00 40.67 3.13
2051 4608 4.440839 AGCATTGTCGAAGATTTTTCCC 57.559 40.909 0.00 0.00 40.67 3.97
2052 4609 3.193479 AGCATTGTCGAAGATTTTTCCCC 59.807 43.478 0.00 0.00 40.67 4.81
2054 4611 4.398044 GCATTGTCGAAGATTTTTCCCCTA 59.602 41.667 0.00 0.00 40.67 3.53
2055 4612 5.449177 GCATTGTCGAAGATTTTTCCCCTAG 60.449 44.000 0.00 0.00 40.67 3.02
2057 4614 5.693769 TGTCGAAGATTTTTCCCCTAGAT 57.306 39.130 0.00 0.00 40.67 1.98
2058 4615 6.062258 TGTCGAAGATTTTTCCCCTAGATT 57.938 37.500 0.00 0.00 40.67 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 191 6.825610 ACTGAGGATATGTGAGATTTCCTTC 58.174 40.000 3.27 0.00 36.95 3.46
111 213 9.099454 GTATATGTGACCTTTCTTTTACTGAGG 57.901 37.037 0.00 0.00 0.00 3.86
123 227 7.480760 AAGCCAATTTGTATATGTGACCTTT 57.519 32.000 0.00 0.00 0.00 3.11
233 768 6.019318 GCATGTGAAGATTTCATTTATGCACC 60.019 38.462 20.78 1.22 44.49 5.01
234 769 6.019318 GGCATGTGAAGATTTCATTTATGCAC 60.019 38.462 23.71 16.22 45.53 4.57
245 780 7.201938 CCATTTGGTATAGGCATGTGAAGATTT 60.202 37.037 0.00 0.00 0.00 2.17
261 796 2.548464 ACATGGTGCCCATTTGGTAT 57.452 45.000 4.15 0.00 42.23 2.73
269 804 0.671251 GTTTTCGAACATGGTGCCCA 59.329 50.000 0.00 0.00 38.19 5.36
272 807 3.701241 TCTTTGTTTTCGAACATGGTGC 58.299 40.909 0.00 0.00 32.01 5.01
279 815 7.148967 GGCTGACATAATTCTTTGTTTTCGAAC 60.149 37.037 0.00 0.00 0.00 3.95
287 823 5.625197 GCATTGGGCTGACATAATTCTTTGT 60.625 40.000 0.00 0.00 40.25 2.83
288 824 4.807304 GCATTGGGCTGACATAATTCTTTG 59.193 41.667 0.00 0.00 40.25 2.77
294 832 2.034124 GGTGCATTGGGCTGACATAAT 58.966 47.619 0.00 0.00 45.15 1.28
306 844 0.899720 AGAAATGGCCAGGTGCATTG 59.100 50.000 13.05 0.00 43.89 2.82
313 851 1.180029 CTCCACAAGAAATGGCCAGG 58.820 55.000 13.05 3.99 37.13 4.45
454 1005 6.089417 GCATGGTTGCTCTTTAACAATACAAC 59.911 38.462 0.00 0.00 45.77 3.32
485 1036 5.304614 GGTCTGCCACTTCCTTACATATAGA 59.695 44.000 0.00 0.00 34.09 1.98
552 1103 1.742831 GCGACACCATTTTCCATGCTA 59.257 47.619 0.00 0.00 0.00 3.49
596 1147 5.620738 TTGGTTGACATTTCAATTTGGGA 57.379 34.783 0.00 0.00 43.72 4.37
622 1173 1.269448 GTATGCAACACAGGTGGTTGG 59.731 52.381 4.24 0.00 44.41 3.77
649 1200 4.935352 TGACCTGACTGGGAAATTTTTG 57.065 40.909 3.15 0.00 41.11 2.44
654 1205 1.637553 AGCATGACCTGACTGGGAAAT 59.362 47.619 0.00 0.00 41.11 2.17
660 1211 9.096160 GATATATCAATTAGCATGACCTGACTG 57.904 37.037 7.89 0.00 0.00 3.51
898 1456 9.333497 CACAGATGAACAAGTTTTATGTATGTG 57.667 33.333 0.00 0.00 0.00 3.21
925 1490 6.646653 TGCTAGATGAACGGATGATATGTTTC 59.353 38.462 0.00 0.00 0.00 2.78
933 1498 3.885724 TGTTGCTAGATGAACGGATGA 57.114 42.857 0.00 0.00 0.00 2.92
997 2635 9.516314 AACAAAAAGTTTGAGAGTAAGCATTAC 57.484 29.630 7.68 0.00 44.43 1.89
1057 2695 8.727149 TGGGTCATTAGATAAGAATCCAAAGAT 58.273 33.333 0.00 0.00 31.98 2.40
1058 2696 8.101309 TGGGTCATTAGATAAGAATCCAAAGA 57.899 34.615 0.00 0.00 31.98 2.52
1059 2697 7.446625 CCTGGGTCATTAGATAAGAATCCAAAG 59.553 40.741 0.00 0.00 31.98 2.77
1060 2698 7.128728 TCCTGGGTCATTAGATAAGAATCCAAA 59.871 37.037 0.00 0.00 31.98 3.28
1061 2699 6.619437 TCCTGGGTCATTAGATAAGAATCCAA 59.381 38.462 0.00 0.00 31.98 3.53
1062 2700 6.043243 GTCCTGGGTCATTAGATAAGAATCCA 59.957 42.308 0.00 0.00 31.98 3.41
1063 2701 6.468543 GTCCTGGGTCATTAGATAAGAATCC 58.531 44.000 0.00 0.00 31.98 3.01
1064 2702 6.159988 CGTCCTGGGTCATTAGATAAGAATC 58.840 44.000 0.00 0.00 0.00 2.52
1065 2703 5.012148 CCGTCCTGGGTCATTAGATAAGAAT 59.988 44.000 0.00 0.00 0.00 2.40
1066 2704 4.344102 CCGTCCTGGGTCATTAGATAAGAA 59.656 45.833 0.00 0.00 0.00 2.52
1068 2706 3.895656 TCCGTCCTGGGTCATTAGATAAG 59.104 47.826 0.00 0.00 38.76 1.73
1069 2707 3.918566 TCCGTCCTGGGTCATTAGATAA 58.081 45.455 0.00 0.00 38.76 1.75
1070 2708 3.605726 TCCGTCCTGGGTCATTAGATA 57.394 47.619 0.00 0.00 38.76 1.98
1071 2709 2.471815 TCCGTCCTGGGTCATTAGAT 57.528 50.000 0.00 0.00 38.76 1.98
1072 2710 2.241281 TTCCGTCCTGGGTCATTAGA 57.759 50.000 0.00 0.00 38.76 2.10
1073 2711 2.224305 GGATTCCGTCCTGGGTCATTAG 60.224 54.545 0.00 0.00 44.16 1.73
1074 2712 1.766496 GGATTCCGTCCTGGGTCATTA 59.234 52.381 0.00 0.00 44.16 1.90
1075 2713 0.546598 GGATTCCGTCCTGGGTCATT 59.453 55.000 0.00 0.00 44.16 2.57
1076 2714 2.221918 GGATTCCGTCCTGGGTCAT 58.778 57.895 0.00 0.00 44.16 3.06
1077 2715 3.721868 GGATTCCGTCCTGGGTCA 58.278 61.111 0.00 0.00 44.16 4.02
1085 2723 2.582498 CGCGTCCAGGATTCCGTC 60.582 66.667 0.00 0.00 0.00 4.79
1086 2724 3.064987 CTCGCGTCCAGGATTCCGT 62.065 63.158 5.77 0.00 0.00 4.69
1087 2725 2.278857 CTCGCGTCCAGGATTCCG 60.279 66.667 5.77 0.00 0.00 4.30
1088 2726 2.107141 CCTCGCGTCCAGGATTCC 59.893 66.667 5.77 0.00 31.91 3.01
1089 2727 1.066587 CTCCTCGCGTCCAGGATTC 59.933 63.158 14.70 0.00 39.44 2.52
1090 2728 0.395311 TACTCCTCGCGTCCAGGATT 60.395 55.000 14.70 11.97 39.44 3.01
1091 2729 0.395311 TTACTCCTCGCGTCCAGGAT 60.395 55.000 14.70 8.45 39.44 3.24
1092 2730 0.609957 TTTACTCCTCGCGTCCAGGA 60.610 55.000 13.75 13.75 37.75 3.86
1093 2731 0.245539 TTTTACTCCTCGCGTCCAGG 59.754 55.000 5.77 5.90 0.00 4.45
1094 2732 2.074547 TTTTTACTCCTCGCGTCCAG 57.925 50.000 5.77 2.47 0.00 3.86
1095 2733 2.754946 ATTTTTACTCCTCGCGTCCA 57.245 45.000 5.77 0.00 0.00 4.02
1096 2734 2.350804 GGAATTTTTACTCCTCGCGTCC 59.649 50.000 5.77 0.00 0.00 4.79
1097 2735 2.997986 TGGAATTTTTACTCCTCGCGTC 59.002 45.455 5.77 0.00 32.51 5.19
1098 2736 3.048337 TGGAATTTTTACTCCTCGCGT 57.952 42.857 5.77 0.00 32.51 6.01
1099 2737 4.616181 AATGGAATTTTTACTCCTCGCG 57.384 40.909 0.00 0.00 26.74 5.87
1120 2758 9.372369 ACGAAACAAATCCAATAAGAACAAAAA 57.628 25.926 0.00 0.00 0.00 1.94
1121 2759 8.934507 ACGAAACAAATCCAATAAGAACAAAA 57.065 26.923 0.00 0.00 0.00 2.44
1122 2760 9.453325 GTACGAAACAAATCCAATAAGAACAAA 57.547 29.630 0.00 0.00 0.00 2.83
1123 2761 8.622157 TGTACGAAACAAATCCAATAAGAACAA 58.378 29.630 0.00 0.00 34.29 2.83
1124 2762 8.155821 TGTACGAAACAAATCCAATAAGAACA 57.844 30.769 0.00 0.00 34.29 3.18
1125 2763 9.620660 AATGTACGAAACAAATCCAATAAGAAC 57.379 29.630 0.00 0.00 42.70 3.01
1143 2781 9.406828 CGGATTTTCTCATAGATAAATGTACGA 57.593 33.333 0.00 0.00 0.00 3.43
1144 2782 8.648097 CCGGATTTTCTCATAGATAAATGTACG 58.352 37.037 0.00 0.00 0.00 3.67
1145 2783 8.936864 CCCGGATTTTCTCATAGATAAATGTAC 58.063 37.037 0.73 0.00 0.00 2.90
1146 2784 8.100791 CCCCGGATTTTCTCATAGATAAATGTA 58.899 37.037 0.73 0.00 0.00 2.29
1147 2785 6.942576 CCCCGGATTTTCTCATAGATAAATGT 59.057 38.462 0.73 0.00 0.00 2.71
1148 2786 6.375455 CCCCCGGATTTTCTCATAGATAAATG 59.625 42.308 0.73 0.00 0.00 2.32
1149 2787 6.045577 ACCCCCGGATTTTCTCATAGATAAAT 59.954 38.462 0.73 0.00 0.00 1.40
1150 2788 5.371472 ACCCCCGGATTTTCTCATAGATAAA 59.629 40.000 0.73 0.00 0.00 1.40
1151 2789 4.911522 ACCCCCGGATTTTCTCATAGATAA 59.088 41.667 0.73 0.00 0.00 1.75
1152 2790 4.499472 ACCCCCGGATTTTCTCATAGATA 58.501 43.478 0.73 0.00 0.00 1.98
1153 2791 3.327439 ACCCCCGGATTTTCTCATAGAT 58.673 45.455 0.73 0.00 0.00 1.98
1154 2792 2.704065 GACCCCCGGATTTTCTCATAGA 59.296 50.000 0.73 0.00 0.00 1.98
1155 2793 2.438021 TGACCCCCGGATTTTCTCATAG 59.562 50.000 0.73 0.00 0.00 2.23
1156 2794 2.438021 CTGACCCCCGGATTTTCTCATA 59.562 50.000 0.73 0.00 0.00 2.15
1157 2795 1.212935 CTGACCCCCGGATTTTCTCAT 59.787 52.381 0.73 0.00 0.00 2.90
1158 2796 0.618458 CTGACCCCCGGATTTTCTCA 59.382 55.000 0.73 0.00 0.00 3.27
1159 2797 0.909623 TCTGACCCCCGGATTTTCTC 59.090 55.000 0.73 0.00 0.00 2.87
1160 2798 1.368374 TTCTGACCCCCGGATTTTCT 58.632 50.000 0.73 0.00 0.00 2.52
1161 2799 2.437085 ATTCTGACCCCCGGATTTTC 57.563 50.000 0.73 0.00 0.00 2.29
1162 2800 2.311841 AGAATTCTGACCCCCGGATTTT 59.688 45.455 7.30 0.00 0.00 1.82
1163 2801 1.923148 AGAATTCTGACCCCCGGATTT 59.077 47.619 7.30 0.00 0.00 2.17
1164 2802 1.596496 AGAATTCTGACCCCCGGATT 58.404 50.000 7.30 0.00 0.00 3.01
1165 2803 1.596496 AAGAATTCTGACCCCCGGAT 58.404 50.000 9.17 0.00 0.00 4.18
1166 2804 1.280998 GAAAGAATTCTGACCCCCGGA 59.719 52.381 9.17 0.00 32.57 5.14
1167 2805 1.682087 GGAAAGAATTCTGACCCCCGG 60.682 57.143 9.17 0.00 35.79 5.73
1168 2806 1.004277 TGGAAAGAATTCTGACCCCCG 59.996 52.381 21.01 0.00 35.79 5.73
1169 2807 2.899303 TGGAAAGAATTCTGACCCCC 57.101 50.000 21.01 13.44 35.79 5.40
1170 2808 4.142381 CGAATTGGAAAGAATTCTGACCCC 60.142 45.833 21.01 14.76 39.32 4.95
1171 2809 4.700213 TCGAATTGGAAAGAATTCTGACCC 59.300 41.667 21.01 16.63 39.32 4.46
1172 2810 5.880054 TCGAATTGGAAAGAATTCTGACC 57.120 39.130 9.17 15.19 39.32 4.02
1183 2821 5.303078 TCATTTGGGACTTTCGAATTGGAAA 59.697 36.000 13.99 13.99 34.87 3.13
1184 2822 4.830046 TCATTTGGGACTTTCGAATTGGAA 59.170 37.500 0.00 0.00 0.00 3.53
1185 2823 4.402829 TCATTTGGGACTTTCGAATTGGA 58.597 39.130 0.00 0.00 0.00 3.53
1186 2824 4.782019 TCATTTGGGACTTTCGAATTGG 57.218 40.909 0.00 0.00 0.00 3.16
1187 2825 5.105797 TGGATCATTTGGGACTTTCGAATTG 60.106 40.000 0.00 0.00 0.00 2.32
1188 2826 5.016173 TGGATCATTTGGGACTTTCGAATT 58.984 37.500 0.00 0.00 0.00 2.17
1189 2827 4.599041 TGGATCATTTGGGACTTTCGAAT 58.401 39.130 0.00 0.00 0.00 3.34
1190 2828 4.027674 TGGATCATTTGGGACTTTCGAA 57.972 40.909 0.00 0.00 0.00 3.71
1191 2829 3.712016 TGGATCATTTGGGACTTTCGA 57.288 42.857 0.00 0.00 0.00 3.71
1192 2830 3.129287 CCTTGGATCATTTGGGACTTTCG 59.871 47.826 0.00 0.00 0.00 3.46
1193 2831 3.448660 CCCTTGGATCATTTGGGACTTTC 59.551 47.826 6.49 0.00 40.23 2.62
1194 2832 3.077391 TCCCTTGGATCATTTGGGACTTT 59.923 43.478 9.90 0.00 41.57 2.66
1195 2833 2.654385 TCCCTTGGATCATTTGGGACTT 59.346 45.455 9.90 0.00 41.57 3.01
1196 2834 2.243221 CTCCCTTGGATCATTTGGGACT 59.757 50.000 9.90 0.00 41.57 3.85
1197 2835 2.659428 CTCCCTTGGATCATTTGGGAC 58.341 52.381 9.90 0.00 41.57 4.46
1198 2836 1.063717 GCTCCCTTGGATCATTTGGGA 60.064 52.381 12.41 12.41 43.93 4.37
1199 2837 1.406903 GCTCCCTTGGATCATTTGGG 58.593 55.000 0.00 0.38 39.22 4.12
1200 2838 1.027357 CGCTCCCTTGGATCATTTGG 58.973 55.000 0.00 0.00 0.00 3.28
1201 2839 1.027357 CCGCTCCCTTGGATCATTTG 58.973 55.000 0.00 0.00 0.00 2.32
1202 2840 0.918983 TCCGCTCCCTTGGATCATTT 59.081 50.000 0.00 0.00 0.00 2.32
1203 2841 0.918983 TTCCGCTCCCTTGGATCATT 59.081 50.000 0.00 0.00 33.42 2.57
1204 2842 0.918983 TTTCCGCTCCCTTGGATCAT 59.081 50.000 0.00 0.00 33.42 2.45
1205 2843 0.253044 CTTTCCGCTCCCTTGGATCA 59.747 55.000 0.00 0.00 33.42 2.92
1206 2844 0.541863 TCTTTCCGCTCCCTTGGATC 59.458 55.000 0.00 0.00 33.42 3.36
1207 2845 0.543749 CTCTTTCCGCTCCCTTGGAT 59.456 55.000 0.00 0.00 33.42 3.41
1208 2846 0.544357 TCTCTTTCCGCTCCCTTGGA 60.544 55.000 0.00 0.00 0.00 3.53
1209 2847 0.107945 CTCTCTTTCCGCTCCCTTGG 60.108 60.000 0.00 0.00 0.00 3.61
1210 2848 0.107945 CCTCTCTTTCCGCTCCCTTG 60.108 60.000 0.00 0.00 0.00 3.61
1211 2849 1.268283 CCCTCTCTTTCCGCTCCCTT 61.268 60.000 0.00 0.00 0.00 3.95
1212 2850 1.687493 CCCTCTCTTTCCGCTCCCT 60.687 63.158 0.00 0.00 0.00 4.20
1213 2851 1.051556 ATCCCTCTCTTTCCGCTCCC 61.052 60.000 0.00 0.00 0.00 4.30
1214 2852 0.833949 AATCCCTCTCTTTCCGCTCC 59.166 55.000 0.00 0.00 0.00 4.70
1215 2853 1.537135 CGAATCCCTCTCTTTCCGCTC 60.537 57.143 0.00 0.00 0.00 5.03
1216 2854 0.461961 CGAATCCCTCTCTTTCCGCT 59.538 55.000 0.00 0.00 0.00 5.52
1217 2855 0.460311 TCGAATCCCTCTCTTTCCGC 59.540 55.000 0.00 0.00 0.00 5.54
1218 2856 2.930682 GTTTCGAATCCCTCTCTTTCCG 59.069 50.000 0.00 0.00 0.00 4.30
1219 2857 3.055021 AGGTTTCGAATCCCTCTCTTTCC 60.055 47.826 19.42 0.52 0.00 3.13
1220 2858 4.185394 GAGGTTTCGAATCCCTCTCTTTC 58.815 47.826 25.88 12.43 41.31 2.62
1221 2859 4.209307 GAGGTTTCGAATCCCTCTCTTT 57.791 45.455 25.88 8.35 41.31 2.52
1222 2860 3.897141 GAGGTTTCGAATCCCTCTCTT 57.103 47.619 25.88 8.94 41.31 2.85
1265 2903 3.877508 ACTAAAGCGGTGGATTGCTAATC 59.122 43.478 0.00 0.00 41.46 1.75
1266 2904 3.877508 GACTAAAGCGGTGGATTGCTAAT 59.122 43.478 0.00 0.00 41.46 1.73
1267 2905 3.267483 GACTAAAGCGGTGGATTGCTAA 58.733 45.455 0.00 0.00 41.46 3.09
1268 2906 2.419574 GGACTAAAGCGGTGGATTGCTA 60.420 50.000 0.00 0.00 41.46 3.49
1269 2907 1.679032 GGACTAAAGCGGTGGATTGCT 60.679 52.381 0.00 0.00 44.97 3.91
1270 2908 0.733150 GGACTAAAGCGGTGGATTGC 59.267 55.000 0.00 0.00 0.00 3.56
1271 2909 1.737793 GTGGACTAAAGCGGTGGATTG 59.262 52.381 0.00 0.00 0.00 2.67
1272 2910 1.628846 AGTGGACTAAAGCGGTGGATT 59.371 47.619 0.00 0.00 0.00 3.01
1273 2911 1.207329 GAGTGGACTAAAGCGGTGGAT 59.793 52.381 0.00 0.00 0.00 3.41
1274 2912 0.606604 GAGTGGACTAAAGCGGTGGA 59.393 55.000 0.00 0.00 0.00 4.02
1275 2913 0.320374 TGAGTGGACTAAAGCGGTGG 59.680 55.000 0.00 0.00 0.00 4.61
1276 2914 1.714794 CTGAGTGGACTAAAGCGGTG 58.285 55.000 0.00 0.00 0.00 4.94
1277 2915 0.037232 GCTGAGTGGACTAAAGCGGT 60.037 55.000 0.00 0.00 0.00 5.68
1278 2916 0.741221 GGCTGAGTGGACTAAAGCGG 60.741 60.000 7.51 0.00 36.90 5.52
1279 2917 0.037326 TGGCTGAGTGGACTAAAGCG 60.037 55.000 7.51 0.00 36.90 4.68
1280 2918 2.093235 AGATGGCTGAGTGGACTAAAGC 60.093 50.000 5.69 5.69 35.91 3.51
1281 2919 3.431486 GGAGATGGCTGAGTGGACTAAAG 60.431 52.174 0.00 0.00 0.00 1.85
1282 2920 2.501723 GGAGATGGCTGAGTGGACTAAA 59.498 50.000 0.00 0.00 0.00 1.85
1283 2921 2.111384 GGAGATGGCTGAGTGGACTAA 58.889 52.381 0.00 0.00 0.00 2.24
1284 2922 1.689575 GGGAGATGGCTGAGTGGACTA 60.690 57.143 0.00 0.00 0.00 2.59
1285 2923 0.980231 GGGAGATGGCTGAGTGGACT 60.980 60.000 0.00 0.00 0.00 3.85
1286 2924 1.524482 GGGAGATGGCTGAGTGGAC 59.476 63.158 0.00 0.00 0.00 4.02
1287 2925 1.690633 GGGGAGATGGCTGAGTGGA 60.691 63.158 0.00 0.00 0.00 4.02
1288 2926 1.997311 TGGGGAGATGGCTGAGTGG 60.997 63.158 0.00 0.00 0.00 4.00
1289 2927 1.222936 GTGGGGAGATGGCTGAGTG 59.777 63.158 0.00 0.00 0.00 3.51
1290 2928 2.362369 CGTGGGGAGATGGCTGAGT 61.362 63.158 0.00 0.00 0.00 3.41
1291 2929 1.903877 AACGTGGGGAGATGGCTGAG 61.904 60.000 0.00 0.00 0.00 3.35
1292 2930 1.899437 GAACGTGGGGAGATGGCTGA 61.899 60.000 0.00 0.00 0.00 4.26
1293 2931 1.450312 GAACGTGGGGAGATGGCTG 60.450 63.158 0.00 0.00 0.00 4.85
1294 2932 2.670148 GGAACGTGGGGAGATGGCT 61.670 63.158 0.00 0.00 0.00 4.75
1295 2933 2.124695 GGAACGTGGGGAGATGGC 60.125 66.667 0.00 0.00 0.00 4.40
1296 2934 0.037590 TTTGGAACGTGGGGAGATGG 59.962 55.000 0.00 0.00 0.00 3.51
1297 2935 1.904287 TTTTGGAACGTGGGGAGATG 58.096 50.000 0.00 0.00 0.00 2.90
1298 2936 2.668144 TTTTTGGAACGTGGGGAGAT 57.332 45.000 0.00 0.00 0.00 2.75
1409 3943 6.367969 TCCTGTAATGTCTTTCTTTAGAACGC 59.632 38.462 0.00 0.00 33.13 4.84
1437 3980 3.243704 GCAGAAAGCAATGTTGGGTACAA 60.244 43.478 0.00 0.00 44.79 2.41
1477 4022 6.349243 TCTTATTACAGTTCCGACTTCCAA 57.651 37.500 0.00 0.00 32.54 3.53
1478 4023 5.988310 TCTTATTACAGTTCCGACTTCCA 57.012 39.130 0.00 0.00 32.54 3.53
1479 4024 7.662604 TTTTCTTATTACAGTTCCGACTTCC 57.337 36.000 0.00 0.00 32.54 3.46
1560 4112 4.098914 TGATTGAACCTTACAAGCTGGT 57.901 40.909 0.00 0.00 35.18 4.00
1639 4191 7.329588 TGCTCTCTAATTCATTAGTACGTGA 57.670 36.000 0.00 0.00 40.41 4.35
1859 4413 7.874016 CACCCCCATACAATATTTCATTGAATG 59.126 37.037 0.00 0.00 33.51 2.67
1877 4431 0.253347 AGTCATCCACTCACCCCCAT 60.253 55.000 0.00 0.00 0.00 4.00
1899 4453 7.656707 TCAAATTTGCAAGCTTTATTTCTCC 57.343 32.000 13.54 0.00 0.00 3.71
1906 4460 7.385752 CCTCTTCATTCAAATTTGCAAGCTTTA 59.614 33.333 13.54 0.00 0.00 1.85
1939 4496 6.011628 TGAAATCCCCTTCTCCAAGATAACTT 60.012 38.462 0.00 0.00 36.73 2.66
1945 4502 2.986019 TGTGAAATCCCCTTCTCCAAGA 59.014 45.455 0.00 0.00 0.00 3.02
2037 4594 7.931948 GTCATAATCTAGGGGAAAAATCTTCGA 59.068 37.037 0.00 0.00 0.00 3.71
2049 4606 4.130118 GTTGCACAGTCATAATCTAGGGG 58.870 47.826 0.00 0.00 0.00 4.79
2050 4607 4.572389 GTGTTGCACAGTCATAATCTAGGG 59.428 45.833 0.00 0.00 34.08 3.53
2051 4608 5.178061 TGTGTTGCACAGTCATAATCTAGG 58.822 41.667 0.00 0.00 39.62 3.02
2052 4609 6.147656 TGTTGTGTTGCACAGTCATAATCTAG 59.852 38.462 2.17 0.00 45.39 2.43
2054 4611 4.821260 TGTTGTGTTGCACAGTCATAATCT 59.179 37.500 2.17 0.00 45.39 2.40
2055 4612 5.107109 TGTTGTGTTGCACAGTCATAATC 57.893 39.130 2.17 0.00 45.39 1.75
2057 4614 5.067023 TGAATGTTGTGTTGCACAGTCATAA 59.933 36.000 15.96 9.42 45.39 1.90
2058 4615 4.578105 TGAATGTTGTGTTGCACAGTCATA 59.422 37.500 15.96 5.74 45.39 2.15


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

AutoCloner maintained by Alex Coulton.