Multiple sequence alignment - TraesCS1A01G262000

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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 TraesCS1A01G262000 chr1A 100.000 2530 0 0 1 2530 456652598 456655127 0.000000e+00 4673.0
1 TraesCS1A01G262000 chr1A 92.836 670 41 2 839 1508 541343563 541344225 0.000000e+00 965.0
2 TraesCS1A01G262000 chr1A 92.931 580 33 3 839 1418 541461044 541460473 0.000000e+00 837.0
3 TraesCS1A01G262000 chr1A 84.870 575 49 13 2 556 541461796 541461240 1.710000e-151 545.0
4 TraesCS1A01G262000 chr1A 87.088 364 37 5 1926 2285 541459888 541459531 1.090000e-108 403.0
5 TraesCS1A01G262000 chr1A 89.855 69 7 0 489 557 487572596 487572664 3.470000e-14 89.8
6 TraesCS1A01G262000 chr1A 84.536 97 8 6 1583 1676 541460301 541460209 3.470000e-14 89.8
7 TraesCS1A01G262000 chr3D 88.041 878 59 18 839 1676 114880987 114880116 0.000000e+00 998.0
8 TraesCS1A01G262000 chr3D 84.881 377 39 12 1674 2048 114880009 114879649 5.140000e-97 364.0
9 TraesCS1A01G262000 chr1D 96.902 581 11 2 838 1418 355827826 355828399 0.000000e+00 966.0
10 TraesCS1A01G262000 chr1D 92.526 669 43 5 839 1507 445367074 445366413 0.000000e+00 952.0
11 TraesCS1A01G262000 chr1D 94.042 621 20 8 1674 2289 355828761 355829369 0.000000e+00 926.0
12 TraesCS1A01G262000 chr1D 88.169 803 50 19 2 767 355826993 355827787 0.000000e+00 915.0
13 TraesCS1A01G262000 chr1D 88.112 572 51 9 1 557 446438804 446439373 0.000000e+00 664.0
14 TraesCS1A01G262000 chr1D 92.116 241 19 0 2290 2530 356073269 356073509 8.670000e-90 340.0
15 TraesCS1A01G262000 chr1D 96.386 166 6 0 1512 1677 355828490 355828655 8.920000e-70 274.0
16 TraesCS1A01G262000 chr1D 96.923 65 2 0 1449 1513 355828400 355828464 2.660000e-20 110.0
17 TraesCS1A01G262000 chr1B 92.183 678 44 6 839 1514 610893003 610893673 0.000000e+00 950.0
18 TraesCS1A01G262000 chr1B 91.704 675 43 5 839 1508 608043019 608042353 0.000000e+00 924.0
19 TraesCS1A01G262000 chr1B 90.308 681 35 7 839 1514 608335890 608335236 0.000000e+00 863.0
20 TraesCS1A01G262000 chr1B 86.585 574 57 7 1 557 610562463 610563033 1.290000e-172 616.0
21 TraesCS1A01G262000 chr1B 90.323 93 9 0 674 766 610892869 610892961 3.420000e-24 122.0
22 TraesCS1A01G262000 chr1B 90.323 93 8 1 674 766 608043349 608043258 1.230000e-23 121.0
23 TraesCS1A01G262000 chr1B 92.593 81 5 1 685 765 607138016 607137937 5.720000e-22 115.0
24 TraesCS1A01G262000 chr1B 92.593 81 5 1 685 765 607317149 607317070 5.720000e-22 115.0
25 TraesCS1A01G262000 chr1B 89.855 69 7 0 489 557 521768235 521768303 3.470000e-14 89.8
26 TraesCS1A01G262000 chr1B 85.714 63 8 1 496 557 104480163 104480101 5.840000e-07 65.8
27 TraesCS1A01G262000 chr3A 89.985 679 56 8 839 1510 111104389 111103716 0.000000e+00 867.0
28 TraesCS1A01G262000 chr3A 81.768 543 52 18 1674 2184 111103404 111102877 6.510000e-111 411.0
29 TraesCS1A01G262000 chr3B 81.388 317 33 12 1970 2285 168137273 168136982 4.210000e-58 235.0
30 TraesCS1A01G262000 chr3B 78.613 173 20 5 1512 1676 168137915 168137752 5.760000e-17 99.0


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 TraesCS1A01G262000 chr1A 456652598 456655127 2529 False 4673.0 4673 100.00000 1 2530 1 chr1A.!!$F1 2529
1 TraesCS1A01G262000 chr1A 541343563 541344225 662 False 965.0 965 92.83600 839 1508 1 chr1A.!!$F3 669
2 TraesCS1A01G262000 chr1A 541459531 541461796 2265 True 468.7 837 87.35625 2 2285 4 chr1A.!!$R1 2283
3 TraesCS1A01G262000 chr3D 114879649 114880987 1338 True 681.0 998 86.46100 839 2048 2 chr3D.!!$R1 1209
4 TraesCS1A01G262000 chr1D 445366413 445367074 661 True 952.0 952 92.52600 839 1507 1 chr1D.!!$R1 668
5 TraesCS1A01G262000 chr1D 446438804 446439373 569 False 664.0 664 88.11200 1 557 1 chr1D.!!$F2 556
6 TraesCS1A01G262000 chr1D 355826993 355829369 2376 False 638.2 966 94.48440 2 2289 5 chr1D.!!$F3 2287
7 TraesCS1A01G262000 chr1B 608335236 608335890 654 True 863.0 863 90.30800 839 1514 1 chr1B.!!$R4 675
8 TraesCS1A01G262000 chr1B 610562463 610563033 570 False 616.0 616 86.58500 1 557 1 chr1B.!!$F2 556
9 TraesCS1A01G262000 chr1B 610892869 610893673 804 False 536.0 950 91.25300 674 1514 2 chr1B.!!$F3 840
10 TraesCS1A01G262000 chr1B 608042353 608043349 996 True 522.5 924 91.01350 674 1508 2 chr1B.!!$R5 834
11 TraesCS1A01G262000 chr3A 111102877 111104389 1512 True 639.0 867 85.87650 839 2184 2 chr3A.!!$R1 1345

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
826 1181 0.035534 ATGGCCAAAATTTTCGCCCC 60.036 50.0 29.33 14.91 42.78 5.8 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2443 3196 0.036294 CGTCCTTGTCTTTCCCCTCC 60.036 60.0 0.0 0.0 0.0 4.3 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
73 75 7.934120 AGAGAGGCAGTATTATGTTTATGAACC 59.066 37.037 0.00 0.00 34.80 3.62
140 160 2.689646 GAGTTCTTTGACGGGAGAAGG 58.310 52.381 0.00 0.00 32.91 3.46
153 173 3.685550 CGGGAGAAGGTTTCTAATGGCAT 60.686 47.826 0.00 0.00 40.87 4.40
158 180 5.819991 AGAAGGTTTCTAATGGCATTCTCA 58.180 37.500 17.41 0.00 38.49 3.27
183 205 4.219288 GTGACTCAAAAGGGATGCAGAATT 59.781 41.667 0.00 0.00 0.00 2.17
185 207 5.305128 TGACTCAAAAGGGATGCAGAATTTT 59.695 36.000 0.00 0.00 0.00 1.82
186 208 6.178607 ACTCAAAAGGGATGCAGAATTTTT 57.821 33.333 0.00 0.00 0.00 1.94
265 287 7.712204 ATTTTGTAAAGGGTTATCCGAATGT 57.288 32.000 0.00 0.00 41.52 2.71
299 321 5.500645 AAAAGTGAACTCCAGTTAGCAAC 57.499 39.130 0.00 0.00 37.44 4.17
466 495 7.639039 TGAATTGATATTCACGGTGAATTAGC 58.361 34.615 33.75 24.05 44.03 3.09
467 496 7.281999 TGAATTGATATTCACGGTGAATTAGCA 59.718 33.333 33.75 25.77 44.03 3.49
608 777 2.520741 AACAAACACCTGGCCCCG 60.521 61.111 0.00 0.00 0.00 5.73
632 801 1.794512 CCCACAGCCCAAAAATTTCG 58.205 50.000 0.00 0.00 0.00 3.46
677 846 8.776376 ACATTTGAGTAATTTTGGCCTAAATG 57.224 30.769 23.16 12.70 38.35 2.32
691 860 4.515567 GGCCTAAATGCACTCCTGTAATAC 59.484 45.833 0.00 0.00 0.00 1.89
767 936 8.729805 ACACAAAATTCCTCTGCATTTTAAAA 57.270 26.923 2.51 2.51 32.47 1.52
768 937 9.341078 ACACAAAATTCCTCTGCATTTTAAAAT 57.659 25.926 7.64 7.64 32.47 1.82
769 938 9.601971 CACAAAATTCCTCTGCATTTTAAAATG 57.398 29.630 28.85 28.85 46.55 2.32
770 939 8.785946 ACAAAATTCCTCTGCATTTTAAAATGG 58.214 29.630 31.89 20.90 44.54 3.16
780 949 6.685657 TGCATTTTAAAATGGCCAAAATTCC 58.314 32.000 31.89 17.17 44.54 3.01
781 950 6.492772 TGCATTTTAAAATGGCCAAAATTCCT 59.507 30.769 31.89 0.00 44.54 3.36
782 951 7.028962 GCATTTTAAAATGGCCAAAATTCCTC 58.971 34.615 31.89 13.91 44.54 3.71
783 952 7.309073 GCATTTTAAAATGGCCAAAATTCCTCA 60.309 33.333 31.89 0.00 44.54 3.86
784 953 8.574737 CATTTTAAAATGGCCAAAATTCCTCAA 58.425 29.630 26.58 0.00 41.54 3.02
785 954 8.525290 TTTTAAAATGGCCAAAATTCCTCAAA 57.475 26.923 10.96 0.07 0.00 2.69
787 956 8.703378 TTAAAATGGCCAAAATTCCTCAAATT 57.297 26.923 10.96 0.00 39.30 1.82
789 958 4.284829 TGGCCAAAATTCCTCAAATTCC 57.715 40.909 0.61 0.00 36.54 3.01
790 959 3.909364 TGGCCAAAATTCCTCAAATTCCT 59.091 39.130 0.61 0.00 36.54 3.36
791 960 4.020307 TGGCCAAAATTCCTCAAATTCCTC 60.020 41.667 0.61 0.00 36.54 3.71
792 961 4.223700 GGCCAAAATTCCTCAAATTCCTCT 59.776 41.667 0.00 0.00 36.54 3.69
797 967 6.616237 AAATTCCTCAAATTCCTCTGCATT 57.384 33.333 0.00 0.00 36.54 3.56
822 1177 5.921004 TTCTGAAATGGCCAAAATTTTCG 57.079 34.783 10.96 11.50 32.13 3.46
823 1178 3.745458 TCTGAAATGGCCAAAATTTTCGC 59.255 39.130 10.96 11.57 32.13 4.70
824 1179 2.810852 TGAAATGGCCAAAATTTTCGCC 59.189 40.909 26.93 26.93 43.57 5.54
825 1180 1.819928 AATGGCCAAAATTTTCGCCC 58.180 45.000 29.33 16.94 42.78 6.13
826 1181 0.035534 ATGGCCAAAATTTTCGCCCC 60.036 50.000 29.33 14.91 42.78 5.80
827 1182 1.739929 GGCCAAAATTTTCGCCCCG 60.740 57.895 24.31 2.91 38.32 5.73
828 1183 2.387445 GCCAAAATTTTCGCCCCGC 61.387 57.895 9.13 0.00 0.00 6.13
829 1184 1.005630 CCAAAATTTTCGCCCCGCA 60.006 52.632 0.00 0.00 0.00 5.69
830 1185 0.601311 CCAAAATTTTCGCCCCGCAA 60.601 50.000 0.00 0.00 0.00 4.85
831 1186 1.437625 CAAAATTTTCGCCCCGCAAT 58.562 45.000 0.00 0.00 0.00 3.56
832 1187 1.803555 CAAAATTTTCGCCCCGCAATT 59.196 42.857 0.00 0.00 0.00 2.32
833 1188 2.177394 AAATTTTCGCCCCGCAATTT 57.823 40.000 0.00 0.00 30.46 1.82
834 1189 2.177394 AATTTTCGCCCCGCAATTTT 57.823 40.000 0.00 0.00 0.00 1.82
835 1190 2.177394 ATTTTCGCCCCGCAATTTTT 57.823 40.000 0.00 0.00 0.00 1.94
885 1240 4.733542 CCCGCCAATCCACCGGTT 62.734 66.667 2.97 0.00 40.38 4.44
1047 1413 2.684881 CCAAATCACATCACCAGTAGCC 59.315 50.000 0.00 0.00 0.00 3.93
1048 1414 3.346315 CAAATCACATCACCAGTAGCCA 58.654 45.455 0.00 0.00 0.00 4.75
1049 1415 2.996249 ATCACATCACCAGTAGCCAG 57.004 50.000 0.00 0.00 0.00 4.85
1050 1416 1.644509 TCACATCACCAGTAGCCAGT 58.355 50.000 0.00 0.00 0.00 4.00
1051 1417 2.815158 TCACATCACCAGTAGCCAGTA 58.185 47.619 0.00 0.00 0.00 2.74
1052 1418 2.760650 TCACATCACCAGTAGCCAGTAG 59.239 50.000 0.00 0.00 0.00 2.57
1053 1419 1.482593 ACATCACCAGTAGCCAGTAGC 59.517 52.381 0.00 0.00 44.25 3.58
1058 1424 1.141881 CAGTAGCCAGTAGCCACCG 59.858 63.158 0.00 0.00 45.47 4.94
1439 1814 4.796231 GCCGACGGTCGCATGTCT 62.796 66.667 24.26 0.00 38.82 3.41
1440 1815 2.579787 CCGACGGTCGCATGTCTC 60.580 66.667 24.26 0.00 38.82 3.36
1441 1816 2.485582 CGACGGTCGCATGTCTCT 59.514 61.111 18.36 0.00 31.14 3.10
1442 1817 1.583967 CGACGGTCGCATGTCTCTC 60.584 63.158 18.36 0.00 31.14 3.20
1443 1818 1.803943 GACGGTCGCATGTCTCTCT 59.196 57.895 0.00 0.00 32.37 3.10
1483 1892 1.749258 GCTTGATGGAACCCCGACC 60.749 63.158 0.00 0.00 34.29 4.79
1575 2057 2.153057 GCGTTTCTGAATTTGTTTCGCC 59.847 45.455 0.00 0.00 37.13 5.54
1737 2443 6.883756 TGGTGATTTGTCTGCATTTCATACTA 59.116 34.615 0.00 0.00 0.00 1.82
1738 2444 7.148255 TGGTGATTTGTCTGCATTTCATACTAC 60.148 37.037 0.00 0.00 0.00 2.73
1739 2445 7.148255 GGTGATTTGTCTGCATTTCATACTACA 60.148 37.037 0.00 0.00 0.00 2.74
1772 2497 5.665459 AGATTGAGTTTCTATCCTTGACCG 58.335 41.667 0.00 0.00 30.60 4.79
1775 2500 3.194968 TGAGTTTCTATCCTTGACCGGAC 59.805 47.826 9.46 1.07 35.52 4.79
1779 2504 2.385803 TCTATCCTTGACCGGACTTCC 58.614 52.381 9.46 0.00 35.52 3.46
1798 2523 4.314740 TCCTGGTGTACAAATTTGTTGC 57.685 40.909 27.66 20.17 42.35 4.17
1863 2590 1.993370 GGTTCGTGCTAACTGCTAGTG 59.007 52.381 0.00 0.00 43.37 2.74
1864 2591 1.390463 GTTCGTGCTAACTGCTAGTGC 59.610 52.381 0.00 0.00 43.37 4.40
1865 2592 0.888619 TCGTGCTAACTGCTAGTGCT 59.111 50.000 0.00 0.00 43.37 4.40
1895 2622 9.193806 AGTTAATTAGGATCATCATTTGTGCTT 57.806 29.630 0.00 0.00 0.00 3.91
1915 2642 9.979578 TGTGCTTTTATTTCTGTTGATTTGTAT 57.020 25.926 0.00 0.00 0.00 2.29
1917 2644 9.979578 TGCTTTTATTTCTGTTGATTTGTATGT 57.020 25.926 0.00 0.00 0.00 2.29
1982 2717 3.684788 ACTGTGGAATTGCGAATACAGAC 59.315 43.478 18.06 0.00 38.97 3.51
2009 2750 1.002868 CCCTCTTGGCAGTGACAGG 60.003 63.158 0.56 0.56 0.00 4.00
2118 2866 7.217200 AGCAGCTCCGATAAATGAATACTAAA 58.783 34.615 0.00 0.00 0.00 1.85
2205 2954 5.734720 CACACCAAGTTAGATGGATACTGT 58.265 41.667 0.00 0.00 40.56 3.55
2234 2983 6.976925 CCACAGAAAATTAGCCATCATTCTTC 59.023 38.462 0.00 0.00 0.00 2.87
2253 3002 5.120399 TCTTCTCGTTTGGCTTTGAAGTAA 58.880 37.500 0.00 0.00 34.37 2.24
2289 3042 7.608308 AAAGATGTTTGCTCATTAGAGAGTC 57.392 36.000 0.00 0.00 44.98 3.36
2290 3043 6.543430 AGATGTTTGCTCATTAGAGAGTCT 57.457 37.500 0.00 0.00 44.98 3.24
2291 3044 6.945218 AGATGTTTGCTCATTAGAGAGTCTT 58.055 36.000 0.00 0.00 44.98 3.01
2292 3045 6.817641 AGATGTTTGCTCATTAGAGAGTCTTG 59.182 38.462 0.00 0.00 44.98 3.02
2293 3046 5.240891 TGTTTGCTCATTAGAGAGTCTTGG 58.759 41.667 0.00 0.00 44.98 3.61
2294 3047 4.478206 TTGCTCATTAGAGAGTCTTGGG 57.522 45.455 0.00 0.00 44.98 4.12
2295 3048 3.713003 TGCTCATTAGAGAGTCTTGGGA 58.287 45.455 0.00 0.00 44.98 4.37
2296 3049 4.293494 TGCTCATTAGAGAGTCTTGGGAT 58.707 43.478 0.00 0.00 44.98 3.85
2297 3050 4.100653 TGCTCATTAGAGAGTCTTGGGATG 59.899 45.833 0.00 0.00 44.98 3.51
2298 3051 4.630111 CTCATTAGAGAGTCTTGGGATGC 58.370 47.826 0.00 0.00 44.98 3.91
2299 3052 4.033009 TCATTAGAGAGTCTTGGGATGCA 58.967 43.478 0.00 0.00 0.00 3.96
2300 3053 4.471025 TCATTAGAGAGTCTTGGGATGCAA 59.529 41.667 0.00 0.00 0.00 4.08
2301 3054 4.908601 TTAGAGAGTCTTGGGATGCAAA 57.091 40.909 0.00 0.00 0.00 3.68
2302 3055 3.347077 AGAGAGTCTTGGGATGCAAAG 57.653 47.619 0.00 0.00 0.00 2.77
2303 3056 2.026449 AGAGAGTCTTGGGATGCAAAGG 60.026 50.000 0.96 0.00 0.00 3.11
2304 3057 1.988107 AGAGTCTTGGGATGCAAAGGA 59.012 47.619 0.96 0.00 0.00 3.36
2305 3058 2.026449 AGAGTCTTGGGATGCAAAGGAG 60.026 50.000 0.96 0.00 0.00 3.69
2306 3059 1.005215 AGTCTTGGGATGCAAAGGAGG 59.995 52.381 0.96 0.00 0.00 4.30
2307 3060 0.323725 TCTTGGGATGCAAAGGAGGC 60.324 55.000 0.96 0.00 0.00 4.70
2308 3061 0.324091 CTTGGGATGCAAAGGAGGCT 60.324 55.000 0.00 0.00 0.00 4.58
2309 3062 0.114954 TTGGGATGCAAAGGAGGCTT 59.885 50.000 0.00 0.00 0.00 4.35
2310 3063 0.323725 TGGGATGCAAAGGAGGCTTC 60.324 55.000 0.00 0.00 35.40 3.86
2311 3064 1.379642 GGGATGCAAAGGAGGCTTCG 61.380 60.000 0.00 0.00 36.58 3.79
2312 3065 1.379642 GGATGCAAAGGAGGCTTCGG 61.380 60.000 0.00 0.00 36.58 4.30
2313 3066 1.997928 GATGCAAAGGAGGCTTCGGC 61.998 60.000 0.00 0.00 40.88 5.54
2314 3067 2.672996 GCAAAGGAGGCTTCGGCA 60.673 61.111 2.82 0.00 43.96 5.69
2315 3068 2.694760 GCAAAGGAGGCTTCGGCAG 61.695 63.158 2.82 0.00 43.96 4.85
2333 3086 4.598894 CCCGCGATGCAGAGGAGG 62.599 72.222 8.23 0.00 32.51 4.30
2334 3087 3.531207 CCGCGATGCAGAGGAGGA 61.531 66.667 8.23 0.00 32.51 3.71
2335 3088 2.027314 CGCGATGCAGAGGAGGAG 59.973 66.667 0.00 0.00 0.00 3.69
2336 3089 2.420890 GCGATGCAGAGGAGGAGG 59.579 66.667 0.00 0.00 0.00 4.30
2337 3090 2.130426 GCGATGCAGAGGAGGAGGA 61.130 63.158 0.00 0.00 0.00 3.71
2338 3091 1.680522 GCGATGCAGAGGAGGAGGAA 61.681 60.000 0.00 0.00 0.00 3.36
2339 3092 1.047002 CGATGCAGAGGAGGAGGAAT 58.953 55.000 0.00 0.00 0.00 3.01
2340 3093 1.000731 CGATGCAGAGGAGGAGGAATC 59.999 57.143 0.00 0.00 0.00 2.52
2341 3094 1.347378 GATGCAGAGGAGGAGGAATCC 59.653 57.143 0.00 0.00 37.07 3.01
2342 3095 0.692419 TGCAGAGGAGGAGGAATCCC 60.692 60.000 0.00 0.00 37.57 3.85
2344 3097 1.974197 GCAGAGGAGGAGGAATCCCTT 60.974 57.143 0.00 0.00 44.53 3.95
2345 3098 2.486716 CAGAGGAGGAGGAATCCCTTT 58.513 52.381 0.00 0.00 44.53 3.11
2346 3099 2.172293 CAGAGGAGGAGGAATCCCTTTG 59.828 54.545 0.00 0.00 44.53 2.77
2347 3100 2.200955 GAGGAGGAGGAATCCCTTTGT 58.799 52.381 0.00 0.00 44.53 2.83
2348 3101 1.918957 AGGAGGAGGAATCCCTTTGTG 59.081 52.381 0.00 0.00 44.53 3.33
2349 3102 1.683319 GGAGGAGGAATCCCTTTGTGC 60.683 57.143 0.00 0.00 44.53 4.57
2350 3103 0.332972 AGGAGGAATCCCTTTGTGCC 59.667 55.000 0.00 0.00 44.53 5.01
2351 3104 0.684479 GGAGGAATCCCTTTGTGCCC 60.684 60.000 0.00 0.00 44.53 5.36
2352 3105 1.000896 AGGAATCCCTTTGTGCCCG 60.001 57.895 0.00 0.00 40.78 6.13
2353 3106 2.710902 GGAATCCCTTTGTGCCCGC 61.711 63.158 0.00 0.00 0.00 6.13
2354 3107 3.051392 GAATCCCTTTGTGCCCGCG 62.051 63.158 0.00 0.00 0.00 6.46
2355 3108 3.860930 AATCCCTTTGTGCCCGCGT 62.861 57.895 4.92 0.00 0.00 6.01
2356 3109 2.472414 AATCCCTTTGTGCCCGCGTA 62.472 55.000 4.92 0.00 0.00 4.42
2357 3110 2.869503 ATCCCTTTGTGCCCGCGTAG 62.870 60.000 4.92 0.00 0.00 3.51
2375 3128 3.452786 CTCAGAAGCGGCGGAGGA 61.453 66.667 9.78 0.00 0.00 3.71
2376 3129 3.423162 CTCAGAAGCGGCGGAGGAG 62.423 68.421 9.78 0.00 0.00 3.69
2377 3130 4.521062 CAGAAGCGGCGGAGGAGG 62.521 72.222 9.78 0.00 0.00 4.30
2385 3138 3.706373 GCGGAGGAGGGCAGTCAA 61.706 66.667 0.00 0.00 0.00 3.18
2386 3139 2.581354 CGGAGGAGGGCAGTCAAG 59.419 66.667 0.00 0.00 0.00 3.02
2387 3140 1.984570 CGGAGGAGGGCAGTCAAGA 60.985 63.158 0.00 0.00 0.00 3.02
2388 3141 1.599576 GGAGGAGGGCAGTCAAGAC 59.400 63.158 0.00 0.00 0.00 3.01
2389 3142 1.194781 GGAGGAGGGCAGTCAAGACA 61.195 60.000 2.72 0.00 0.00 3.41
2390 3143 0.687354 GAGGAGGGCAGTCAAGACAA 59.313 55.000 2.72 0.00 0.00 3.18
2391 3144 1.280421 GAGGAGGGCAGTCAAGACAAT 59.720 52.381 2.72 0.00 0.00 2.71
2392 3145 1.004044 AGGAGGGCAGTCAAGACAATG 59.996 52.381 2.72 0.00 0.00 2.82
2393 3146 1.457346 GAGGGCAGTCAAGACAATGG 58.543 55.000 2.72 0.00 0.00 3.16
2394 3147 0.610232 AGGGCAGTCAAGACAATGGC 60.610 55.000 2.72 5.37 37.49 4.40
2395 3148 0.895100 GGGCAGTCAAGACAATGGCA 60.895 55.000 14.76 0.00 39.78 4.92
2396 3149 0.961019 GGCAGTCAAGACAATGGCAA 59.039 50.000 9.97 0.00 38.07 4.52
2397 3150 1.340889 GGCAGTCAAGACAATGGCAAA 59.659 47.619 9.97 0.00 38.07 3.68
2398 3151 2.224018 GGCAGTCAAGACAATGGCAAAA 60.224 45.455 9.97 0.00 38.07 2.44
2399 3152 3.555586 GGCAGTCAAGACAATGGCAAAAT 60.556 43.478 9.97 0.00 38.07 1.82
2400 3153 4.321899 GGCAGTCAAGACAATGGCAAAATA 60.322 41.667 9.97 0.00 38.07 1.40
2401 3154 4.622740 GCAGTCAAGACAATGGCAAAATAC 59.377 41.667 2.72 0.00 0.00 1.89
2402 3155 5.163513 CAGTCAAGACAATGGCAAAATACC 58.836 41.667 2.72 0.00 0.00 2.73
2403 3156 4.832266 AGTCAAGACAATGGCAAAATACCA 59.168 37.500 2.72 0.00 42.61 3.25
2404 3157 5.304101 AGTCAAGACAATGGCAAAATACCAA 59.696 36.000 2.72 0.00 41.49 3.67
2405 3158 5.988561 GTCAAGACAATGGCAAAATACCAAA 59.011 36.000 0.00 0.00 41.49 3.28
2406 3159 6.146021 GTCAAGACAATGGCAAAATACCAAAG 59.854 38.462 0.00 0.00 41.49 2.77
2407 3160 4.568956 AGACAATGGCAAAATACCAAAGC 58.431 39.130 0.00 0.00 41.49 3.51
2408 3161 3.673902 ACAATGGCAAAATACCAAAGCC 58.326 40.909 0.00 0.00 41.49 4.35
2411 3164 2.278026 GGCAAAATACCAAAGCCGAG 57.722 50.000 0.00 0.00 35.42 4.63
2412 3165 1.544246 GGCAAAATACCAAAGCCGAGT 59.456 47.619 0.00 0.00 35.42 4.18
2413 3166 2.595386 GCAAAATACCAAAGCCGAGTG 58.405 47.619 0.00 0.00 0.00 3.51
2414 3167 2.671070 GCAAAATACCAAAGCCGAGTGG 60.671 50.000 0.00 0.00 41.00 4.00
2416 3169 2.109425 AATACCAAAGCCGAGTGGTC 57.891 50.000 0.00 0.00 45.18 4.02
2417 3170 0.252197 ATACCAAAGCCGAGTGGTCC 59.748 55.000 0.00 0.00 45.18 4.46
2418 3171 2.162338 TACCAAAGCCGAGTGGTCCG 62.162 60.000 0.00 0.00 45.18 4.79
2419 3172 3.423154 CAAAGCCGAGTGGTCCGC 61.423 66.667 0.00 0.00 37.67 5.54
2424 3177 4.129737 CCGAGTGGTCCGCGTCAT 62.130 66.667 4.92 0.00 0.00 3.06
2425 3178 2.880879 CGAGTGGTCCGCGTCATG 60.881 66.667 4.92 0.00 0.00 3.07
2426 3179 2.509336 GAGTGGTCCGCGTCATGG 60.509 66.667 4.92 0.00 0.00 3.66
2427 3180 4.760047 AGTGGTCCGCGTCATGGC 62.760 66.667 4.92 0.00 0.00 4.40
2443 3196 4.785453 GCCGGACTGCCTCCCAAG 62.785 72.222 5.05 0.00 35.21 3.61
2444 3197 4.101448 CCGGACTGCCTCCCAAGG 62.101 72.222 0.00 0.00 46.44 3.61
2445 3198 3.003173 CGGACTGCCTCCCAAGGA 61.003 66.667 0.00 0.00 46.67 3.36
2446 3199 2.993853 GGACTGCCTCCCAAGGAG 59.006 66.667 3.51 3.51 46.67 3.69
2458 3211 2.206576 CCAAGGAGGGGAAAGACAAG 57.793 55.000 0.00 0.00 0.00 3.16
2459 3212 1.272147 CCAAGGAGGGGAAAGACAAGG 60.272 57.143 0.00 0.00 0.00 3.61
2460 3213 1.705186 CAAGGAGGGGAAAGACAAGGA 59.295 52.381 0.00 0.00 0.00 3.36
2461 3214 1.363246 AGGAGGGGAAAGACAAGGAC 58.637 55.000 0.00 0.00 0.00 3.85
2462 3215 0.036294 GGAGGGGAAAGACAAGGACG 60.036 60.000 0.00 0.00 0.00 4.79
2463 3216 0.036294 GAGGGGAAAGACAAGGACGG 60.036 60.000 0.00 0.00 0.00 4.79
2464 3217 1.674651 GGGGAAAGACAAGGACGGC 60.675 63.158 0.00 0.00 0.00 5.68
2465 3218 2.033194 GGGAAAGACAAGGACGGCG 61.033 63.158 4.80 4.80 0.00 6.46
2466 3219 2.033194 GGAAAGACAAGGACGGCGG 61.033 63.158 13.24 0.00 0.00 6.13
2467 3220 2.668550 AAAGACAAGGACGGCGGC 60.669 61.111 13.24 8.60 0.00 6.53
2481 3234 4.933064 CGGCGGATCGGACAGCTC 62.933 72.222 6.95 0.00 0.00 4.09
2482 3235 3.532155 GGCGGATCGGACAGCTCT 61.532 66.667 4.16 0.00 0.00 4.09
2483 3236 2.279120 GCGGATCGGACAGCTCTG 60.279 66.667 4.16 0.00 0.00 3.35
2484 3237 2.775856 GCGGATCGGACAGCTCTGA 61.776 63.158 4.16 0.00 36.18 3.27
2485 3238 1.064946 CGGATCGGACAGCTCTGAC 59.935 63.158 3.60 0.00 34.43 3.51
2486 3239 1.657751 CGGATCGGACAGCTCTGACA 61.658 60.000 3.60 0.00 34.43 3.58
2487 3240 0.532573 GGATCGGACAGCTCTGACAA 59.467 55.000 3.60 0.00 34.43 3.18
2488 3241 1.137872 GGATCGGACAGCTCTGACAAT 59.862 52.381 3.60 0.00 34.43 2.71
2489 3242 2.200067 GATCGGACAGCTCTGACAATG 58.800 52.381 3.60 0.00 34.43 2.82
2490 3243 1.256812 TCGGACAGCTCTGACAATGA 58.743 50.000 3.60 0.00 0.00 2.57
2491 3244 1.203287 TCGGACAGCTCTGACAATGAG 59.797 52.381 3.60 0.00 34.87 2.90
2499 3252 2.471818 CTCTGACAATGAGCAGATCCG 58.528 52.381 9.96 0.00 40.11 4.18
2500 3253 0.935898 CTGACAATGAGCAGATCCGC 59.064 55.000 0.00 0.00 34.06 5.54
2501 3254 0.462581 TGACAATGAGCAGATCCGCC 60.463 55.000 0.00 0.00 0.00 6.13
2502 3255 1.153086 ACAATGAGCAGATCCGCCC 60.153 57.895 0.00 0.00 0.00 6.13
2503 3256 1.895707 CAATGAGCAGATCCGCCCC 60.896 63.158 0.00 0.00 0.00 5.80
2504 3257 3.466791 AATGAGCAGATCCGCCCCG 62.467 63.158 0.00 0.00 0.00 5.73
2506 3259 3.620785 GAGCAGATCCGCCCCGAT 61.621 66.667 0.00 0.00 0.00 4.18
2507 3260 3.581687 GAGCAGATCCGCCCCGATC 62.582 68.421 0.00 0.00 39.21 3.69
2508 3261 4.688966 GCAGATCCGCCCCGATCC 62.689 72.222 0.00 0.00 39.67 3.36
2509 3262 3.233980 CAGATCCGCCCCGATCCA 61.234 66.667 0.00 0.00 39.67 3.41
2510 3263 2.203847 AGATCCGCCCCGATCCAT 60.204 61.111 0.00 0.00 39.67 3.41
2511 3264 1.843376 AGATCCGCCCCGATCCATT 60.843 57.895 0.00 0.00 39.67 3.16
2512 3265 1.376037 GATCCGCCCCGATCCATTC 60.376 63.158 0.00 0.00 33.83 2.67
2513 3266 2.804828 GATCCGCCCCGATCCATTCC 62.805 65.000 0.00 0.00 33.83 3.01
2514 3267 4.988598 CCGCCCCGATCCATTCCG 62.989 72.222 0.00 0.00 0.00 4.30
2517 3270 4.235762 CCCCGATCCATTCCGCGT 62.236 66.667 4.92 0.00 0.00 6.01
2518 3271 2.661866 CCCGATCCATTCCGCGTC 60.662 66.667 4.92 0.00 0.00 5.19
2519 3272 2.417516 CCGATCCATTCCGCGTCT 59.582 61.111 4.92 0.00 0.00 4.18
2520 3273 1.227263 CCGATCCATTCCGCGTCTT 60.227 57.895 4.92 0.00 0.00 3.01
2521 3274 1.215655 CCGATCCATTCCGCGTCTTC 61.216 60.000 4.92 0.00 0.00 2.87
2522 3275 1.540607 CGATCCATTCCGCGTCTTCG 61.541 60.000 4.92 0.00 40.37 3.79
2523 3276 0.248907 GATCCATTCCGCGTCTTCGA 60.249 55.000 4.92 0.00 39.71 3.71
2524 3277 0.527817 ATCCATTCCGCGTCTTCGAC 60.528 55.000 4.92 0.00 39.71 4.20
2525 3278 2.165301 CCATTCCGCGTCTTCGACC 61.165 63.158 4.92 0.00 39.71 4.79
2526 3279 2.165301 CATTCCGCGTCTTCGACCC 61.165 63.158 4.92 0.00 39.71 4.46
2527 3280 3.366739 ATTCCGCGTCTTCGACCCC 62.367 63.158 4.92 0.00 39.71 4.95
2529 3282 3.136123 CCGCGTCTTCGACCCCTA 61.136 66.667 4.92 0.00 39.71 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 116 2.821378 TCCCGTCAAAGAACTCGTATCA 59.179 45.455 0.00 0.00 0.00 2.15
140 160 6.094603 AGTCACATGAGAATGCCATTAGAAAC 59.905 38.462 0.00 0.00 0.00 2.78
153 173 4.705110 TCCCTTTTGAGTCACATGAGAA 57.295 40.909 0.00 0.00 0.00 2.87
158 180 3.087031 CTGCATCCCTTTTGAGTCACAT 58.913 45.455 0.00 0.00 0.00 3.21
183 205 3.778265 AGAAGCTTAATGGCCTCCAAAA 58.222 40.909 3.32 0.00 36.95 2.44
185 207 3.685550 GCTAGAAGCTTAATGGCCTCCAA 60.686 47.826 3.32 0.00 38.45 3.53
186 208 2.158755 GCTAGAAGCTTAATGGCCTCCA 60.159 50.000 3.32 0.00 38.45 3.86
252 274 7.562454 TTAGGATTCAAACATTCGGATAACC 57.438 36.000 0.00 0.00 0.00 2.85
293 315 6.735678 TGCTATTCTCATTTTTCGTTGCTA 57.264 33.333 0.00 0.00 0.00 3.49
297 319 8.624701 CATCAATGCTATTCTCATTTTTCGTT 57.375 30.769 0.00 0.00 32.30 3.85
456 485 7.391148 TTCCAAGATAAGTTGCTAATTCACC 57.609 36.000 0.00 0.00 0.00 4.02
527 570 7.912056 ATTTTCTCTGTCGAAATGAGAATGA 57.088 32.000 19.63 14.35 43.52 2.57
677 846 6.470557 TGTTTAAACGTATTACAGGAGTGC 57.529 37.500 13.45 0.00 0.00 4.40
691 860 4.854399 TCAGGCACTCAAATGTTTAAACG 58.146 39.130 13.45 0.93 34.60 3.60
752 921 4.205065 TGGCCATTTTAAAATGCAGAGG 57.795 40.909 28.17 18.50 43.38 3.69
767 936 4.537288 AGGAATTTGAGGAATTTTGGCCAT 59.463 37.500 6.09 0.00 38.06 4.40
768 937 3.909364 AGGAATTTGAGGAATTTTGGCCA 59.091 39.130 0.00 0.00 38.06 5.36
769 938 4.223700 AGAGGAATTTGAGGAATTTTGGCC 59.776 41.667 0.00 0.00 38.06 5.36
770 939 5.173664 CAGAGGAATTTGAGGAATTTTGGC 58.826 41.667 0.00 0.00 38.06 4.52
797 967 7.192232 CGAAAATTTTGGCCATTTCAGAAAAA 58.808 30.769 22.94 12.44 32.64 1.94
801 971 3.745458 GCGAAAATTTTGGCCATTTCAGA 59.255 39.130 22.93 0.00 36.12 3.27
837 1192 3.667326 TATGGCGGCGGCTCGAAAA 62.667 57.895 33.21 13.39 39.81 2.29
846 1201 2.659897 GTCAGAGCTATGGCGGCG 60.660 66.667 8.78 0.51 44.37 6.46
885 1240 3.876589 GACGTGGCCGGAAGCTTGA 62.877 63.158 5.05 0.00 43.05 3.02
1024 1379 3.622206 GCTACTGGTGATGTGATTTGGGA 60.622 47.826 0.00 0.00 0.00 4.37
1026 1381 2.684881 GGCTACTGGTGATGTGATTTGG 59.315 50.000 0.00 0.00 0.00 3.28
1047 1413 2.813908 GAACGGCGGTGGCTACTG 60.814 66.667 13.24 4.35 39.81 2.74
1048 1414 4.078516 GGAACGGCGGTGGCTACT 62.079 66.667 13.24 0.00 39.81 2.57
1049 1415 4.078516 AGGAACGGCGGTGGCTAC 62.079 66.667 13.24 0.00 39.81 3.58
1050 1416 3.766691 GAGGAACGGCGGTGGCTA 61.767 66.667 13.24 0.00 39.81 3.93
1070 1436 2.434185 TGCGAGCGGATGTGGAAC 60.434 61.111 0.00 0.00 37.35 3.62
1433 1808 2.279120 GGCGGCGAGAGAGACATG 60.279 66.667 12.98 0.00 0.00 3.21
1434 1809 2.441164 AGGCGGCGAGAGAGACAT 60.441 61.111 12.98 0.00 0.00 3.06
1435 1810 3.443925 CAGGCGGCGAGAGAGACA 61.444 66.667 12.98 0.00 0.00 3.41
1436 1811 4.863925 GCAGGCGGCGAGAGAGAC 62.864 72.222 12.98 0.00 0.00 3.36
1483 1892 2.989840 CAGGAAACAGCGAACTAGACAG 59.010 50.000 0.00 0.00 0.00 3.51
1575 2057 1.226746 GACCCAACAGAGACCAAACG 58.773 55.000 0.00 0.00 0.00 3.60
1737 2443 6.692486 AGAAACTCAATCTACAACTCGATGT 58.308 36.000 0.00 0.00 37.32 3.06
1738 2444 8.864069 ATAGAAACTCAATCTACAACTCGATG 57.136 34.615 0.00 0.00 32.50 3.84
1739 2445 8.138712 GGATAGAAACTCAATCTACAACTCGAT 58.861 37.037 0.00 0.00 32.50 3.59
1772 2497 4.583073 ACAAATTTGTACACCAGGAAGTCC 59.417 41.667 22.10 0.00 40.16 3.85
1775 2500 4.744631 GCAACAAATTTGTACACCAGGAAG 59.255 41.667 23.53 5.80 41.31 3.46
1779 2504 4.050553 CAGGCAACAAATTTGTACACCAG 58.949 43.478 23.53 16.78 41.31 4.00
1798 2523 6.692486 AGATAGTTTCACAGTACAAGTCAGG 58.308 40.000 0.00 0.00 0.00 3.86
1943 2678 1.002033 CAGTTGGAAGCACAGTTCAGC 60.002 52.381 0.00 0.00 0.00 4.26
1982 2717 2.009774 CTGCCAAGAGGGTATCGTTTG 58.990 52.381 0.00 0.00 39.65 2.93
2009 2750 7.206981 TCAATTCAACTGAAGGATGAAGTTC 57.793 36.000 0.00 0.00 36.59 3.01
2118 2866 2.037620 GCATCCTGCTCGGGACAGAT 62.038 60.000 8.11 0.00 40.96 2.90
2184 2933 5.977635 TCACAGTATCCATCTAACTTGGTG 58.022 41.667 0.00 0.00 35.64 4.17
2205 2954 5.508567 TGATGGCTAATTTTCTGTGGATCA 58.491 37.500 0.00 0.00 0.00 2.92
2234 2983 5.169836 AGTTTACTTCAAAGCCAAACGAG 57.830 39.130 11.70 0.00 38.38 4.18
2273 3026 4.096681 TCCCAAGACTCTCTAATGAGCAA 58.903 43.478 0.00 0.00 40.03 3.91
2289 3042 0.324091 AGCCTCCTTTGCATCCCAAG 60.324 55.000 0.00 0.00 34.34 3.61
2290 3043 0.114954 AAGCCTCCTTTGCATCCCAA 59.885 50.000 0.00 0.00 0.00 4.12
2291 3044 0.323725 GAAGCCTCCTTTGCATCCCA 60.324 55.000 0.00 0.00 0.00 4.37
2292 3045 1.379642 CGAAGCCTCCTTTGCATCCC 61.380 60.000 0.00 0.00 0.00 3.85
2293 3046 1.379642 CCGAAGCCTCCTTTGCATCC 61.380 60.000 0.00 0.00 32.10 3.51
2294 3047 1.997928 GCCGAAGCCTCCTTTGCATC 61.998 60.000 0.00 0.00 32.10 3.91
2295 3048 2.048603 GCCGAAGCCTCCTTTGCAT 61.049 57.895 0.00 0.00 32.10 3.96
2296 3049 2.672996 GCCGAAGCCTCCTTTGCA 60.673 61.111 0.00 0.00 32.10 4.08
2297 3050 2.672996 TGCCGAAGCCTCCTTTGC 60.673 61.111 0.00 0.00 38.69 3.68
2298 3051 3.583383 CTGCCGAAGCCTCCTTTG 58.417 61.111 0.00 0.00 38.69 2.77
2316 3069 4.598894 CCTCCTCTGCATCGCGGG 62.599 72.222 6.13 0.00 35.34 6.13
2317 3070 3.496875 CTCCTCCTCTGCATCGCGG 62.497 68.421 6.13 0.00 36.06 6.46
2318 3071 2.027314 CTCCTCCTCTGCATCGCG 59.973 66.667 0.00 0.00 0.00 5.87
2319 3072 1.680522 TTCCTCCTCCTCTGCATCGC 61.681 60.000 0.00 0.00 0.00 4.58
2320 3073 1.000731 GATTCCTCCTCCTCTGCATCG 59.999 57.143 0.00 0.00 0.00 3.84
2321 3074 1.347378 GGATTCCTCCTCCTCTGCATC 59.653 57.143 0.00 0.00 38.65 3.91
2322 3075 1.433121 GGATTCCTCCTCCTCTGCAT 58.567 55.000 0.00 0.00 38.65 3.96
2323 3076 0.692419 GGGATTCCTCCTCCTCTGCA 60.692 60.000 2.01 0.00 41.74 4.41
2324 3077 0.399806 AGGGATTCCTCCTCCTCTGC 60.400 60.000 2.01 0.00 39.80 4.26
2325 3078 2.172293 CAAAGGGATTCCTCCTCCTCTG 59.828 54.545 0.00 0.00 44.07 3.35
2326 3079 2.226013 ACAAAGGGATTCCTCCTCCTCT 60.226 50.000 0.00 0.00 44.07 3.69
2327 3080 2.092699 CACAAAGGGATTCCTCCTCCTC 60.093 54.545 0.00 0.00 44.07 3.71
2328 3081 1.918957 CACAAAGGGATTCCTCCTCCT 59.081 52.381 0.00 0.00 44.07 3.69
2329 3082 1.683319 GCACAAAGGGATTCCTCCTCC 60.683 57.143 0.00 0.00 44.07 4.30
2330 3083 1.683319 GGCACAAAGGGATTCCTCCTC 60.683 57.143 0.00 0.00 44.07 3.71
2331 3084 0.332972 GGCACAAAGGGATTCCTCCT 59.667 55.000 0.00 0.00 44.07 3.69
2332 3085 0.684479 GGGCACAAAGGGATTCCTCC 60.684 60.000 0.00 0.00 44.07 4.30
2333 3086 1.032114 CGGGCACAAAGGGATTCCTC 61.032 60.000 0.00 0.00 44.07 3.71
2335 3088 2.710902 GCGGGCACAAAGGGATTCC 61.711 63.158 0.00 0.00 0.00 3.01
2336 3089 2.885113 GCGGGCACAAAGGGATTC 59.115 61.111 0.00 0.00 0.00 2.52
2337 3090 2.472414 TACGCGGGCACAAAGGGATT 62.472 55.000 12.47 0.00 0.00 3.01
2338 3091 2.869503 CTACGCGGGCACAAAGGGAT 62.870 60.000 12.47 0.00 0.00 3.85
2339 3092 3.599285 CTACGCGGGCACAAAGGGA 62.599 63.158 12.47 0.00 0.00 4.20
2340 3093 3.124921 CTACGCGGGCACAAAGGG 61.125 66.667 12.47 0.00 0.00 3.95
2341 3094 3.799755 GCTACGCGGGCACAAAGG 61.800 66.667 12.47 0.00 0.00 3.11
2342 3095 2.740714 GAGCTACGCGGGCACAAAG 61.741 63.158 23.74 6.03 0.00 2.77
2343 3096 2.740826 GAGCTACGCGGGCACAAA 60.741 61.111 23.74 0.00 0.00 2.83
2344 3097 3.932580 CTGAGCTACGCGGGCACAA 62.933 63.158 23.74 10.78 30.84 3.33
2345 3098 4.435436 CTGAGCTACGCGGGCACA 62.435 66.667 23.74 21.80 0.00 4.57
2346 3099 3.642778 TTCTGAGCTACGCGGGCAC 62.643 63.158 23.74 18.99 0.00 5.01
2347 3100 3.356639 CTTCTGAGCTACGCGGGCA 62.357 63.158 23.74 8.40 0.00 5.36
2348 3101 2.583593 CTTCTGAGCTACGCGGGC 60.584 66.667 12.47 14.92 0.00 6.13
2349 3102 2.583593 GCTTCTGAGCTACGCGGG 60.584 66.667 12.47 3.66 45.65 6.13
2350 3103 2.951745 CGCTTCTGAGCTACGCGG 60.952 66.667 12.47 0.00 46.96 6.46
2351 3104 2.951745 CCGCTTCTGAGCTACGCG 60.952 66.667 3.53 3.53 46.96 6.01
2352 3105 3.258290 GCCGCTTCTGAGCTACGC 61.258 66.667 0.00 0.00 46.96 4.42
2353 3106 2.951745 CGCCGCTTCTGAGCTACG 60.952 66.667 0.00 0.00 46.96 3.51
2354 3107 2.583593 CCGCCGCTTCTGAGCTAC 60.584 66.667 0.00 0.00 46.96 3.58
2355 3108 2.754254 TCCGCCGCTTCTGAGCTA 60.754 61.111 0.00 0.00 46.96 3.32
2356 3109 4.140599 CTCCGCCGCTTCTGAGCT 62.141 66.667 0.00 0.00 46.96 4.09
2358 3111 3.423162 CTCCTCCGCCGCTTCTGAG 62.423 68.421 0.00 0.00 0.00 3.35
2359 3112 3.452786 CTCCTCCGCCGCTTCTGA 61.453 66.667 0.00 0.00 0.00 3.27
2360 3113 4.521062 CCTCCTCCGCCGCTTCTG 62.521 72.222 0.00 0.00 0.00 3.02
2368 3121 3.672295 CTTGACTGCCCTCCTCCGC 62.672 68.421 0.00 0.00 0.00 5.54
2369 3122 1.984570 TCTTGACTGCCCTCCTCCG 60.985 63.158 0.00 0.00 0.00 4.63
2370 3123 1.194781 TGTCTTGACTGCCCTCCTCC 61.195 60.000 2.35 0.00 0.00 4.30
2371 3124 0.687354 TTGTCTTGACTGCCCTCCTC 59.313 55.000 2.35 0.00 0.00 3.71
2372 3125 1.004044 CATTGTCTTGACTGCCCTCCT 59.996 52.381 2.35 0.00 0.00 3.69
2373 3126 1.457346 CATTGTCTTGACTGCCCTCC 58.543 55.000 2.35 0.00 0.00 4.30
2374 3127 1.457346 CCATTGTCTTGACTGCCCTC 58.543 55.000 2.35 0.00 0.00 4.30
2375 3128 0.610232 GCCATTGTCTTGACTGCCCT 60.610 55.000 2.35 0.00 0.00 5.19
2376 3129 0.895100 TGCCATTGTCTTGACTGCCC 60.895 55.000 2.35 0.00 0.00 5.36
2377 3130 0.961019 TTGCCATTGTCTTGACTGCC 59.039 50.000 2.35 0.00 0.00 4.85
2378 3131 2.798976 TTTGCCATTGTCTTGACTGC 57.201 45.000 2.35 1.42 0.00 4.40
2379 3132 5.163513 GGTATTTTGCCATTGTCTTGACTG 58.836 41.667 2.35 0.00 0.00 3.51
2380 3133 4.832266 TGGTATTTTGCCATTGTCTTGACT 59.168 37.500 2.35 0.00 0.00 3.41
2381 3134 5.132897 TGGTATTTTGCCATTGTCTTGAC 57.867 39.130 0.00 0.00 0.00 3.18
2382 3135 5.798125 TTGGTATTTTGCCATTGTCTTGA 57.202 34.783 0.00 0.00 35.71 3.02
2383 3136 5.106987 GCTTTGGTATTTTGCCATTGTCTTG 60.107 40.000 0.00 0.00 35.71 3.02
2384 3137 4.996758 GCTTTGGTATTTTGCCATTGTCTT 59.003 37.500 0.00 0.00 35.71 3.01
2385 3138 4.563374 GGCTTTGGTATTTTGCCATTGTCT 60.563 41.667 0.00 0.00 42.79 3.41
2386 3139 3.684305 GGCTTTGGTATTTTGCCATTGTC 59.316 43.478 0.00 0.00 42.79 3.18
2387 3140 3.673902 GGCTTTGGTATTTTGCCATTGT 58.326 40.909 0.00 0.00 42.79 2.71
2388 3141 2.672381 CGGCTTTGGTATTTTGCCATTG 59.328 45.455 0.00 0.00 43.38 2.82
2389 3142 2.564947 TCGGCTTTGGTATTTTGCCATT 59.435 40.909 0.00 0.00 43.38 3.16
2390 3143 2.166254 CTCGGCTTTGGTATTTTGCCAT 59.834 45.455 0.00 0.00 43.38 4.40
2391 3144 1.543802 CTCGGCTTTGGTATTTTGCCA 59.456 47.619 0.00 0.00 43.38 4.92
2392 3145 1.544246 ACTCGGCTTTGGTATTTTGCC 59.456 47.619 0.00 0.00 40.14 4.52
2393 3146 2.595386 CACTCGGCTTTGGTATTTTGC 58.405 47.619 0.00 0.00 0.00 3.68
2394 3147 2.556622 ACCACTCGGCTTTGGTATTTTG 59.443 45.455 0.12 0.00 44.68 2.44
2395 3148 2.817844 GACCACTCGGCTTTGGTATTTT 59.182 45.455 1.94 0.00 46.56 1.82
2396 3149 2.433436 GACCACTCGGCTTTGGTATTT 58.567 47.619 1.94 0.00 46.56 1.40
2397 3150 1.339727 GGACCACTCGGCTTTGGTATT 60.340 52.381 1.94 0.00 46.56 1.89
2398 3151 0.252197 GGACCACTCGGCTTTGGTAT 59.748 55.000 1.94 0.00 46.56 2.73
2399 3152 1.675219 GGACCACTCGGCTTTGGTA 59.325 57.895 1.94 0.00 46.56 3.25
2401 3154 2.742372 CGGACCACTCGGCTTTGG 60.742 66.667 0.00 0.00 39.00 3.28
2402 3155 3.423154 GCGGACCACTCGGCTTTG 61.423 66.667 0.00 0.00 39.18 2.77
2407 3160 4.129737 ATGACGCGGACCACTCGG 62.130 66.667 12.47 0.00 38.77 4.63
2408 3161 2.880879 CATGACGCGGACCACTCG 60.881 66.667 12.47 0.00 0.00 4.18
2409 3162 2.509336 CCATGACGCGGACCACTC 60.509 66.667 12.47 0.00 0.00 3.51
2410 3163 4.760047 GCCATGACGCGGACCACT 62.760 66.667 12.47 0.00 0.00 4.00
2429 3182 2.993853 CTCCTTGGGAGGCAGTCC 59.006 66.667 5.73 0.00 45.43 3.85
2439 3192 1.272147 CCTTGTCTTTCCCCTCCTTGG 60.272 57.143 0.00 0.00 0.00 3.61
2440 3193 1.705186 TCCTTGTCTTTCCCCTCCTTG 59.295 52.381 0.00 0.00 0.00 3.61
2441 3194 1.705745 GTCCTTGTCTTTCCCCTCCTT 59.294 52.381 0.00 0.00 0.00 3.36
2442 3195 1.363246 GTCCTTGTCTTTCCCCTCCT 58.637 55.000 0.00 0.00 0.00 3.69
2443 3196 0.036294 CGTCCTTGTCTTTCCCCTCC 60.036 60.000 0.00 0.00 0.00 4.30
2444 3197 0.036294 CCGTCCTTGTCTTTCCCCTC 60.036 60.000 0.00 0.00 0.00 4.30
2445 3198 2.067197 CCGTCCTTGTCTTTCCCCT 58.933 57.895 0.00 0.00 0.00 4.79
2446 3199 1.674651 GCCGTCCTTGTCTTTCCCC 60.675 63.158 0.00 0.00 0.00 4.81
2447 3200 2.033194 CGCCGTCCTTGTCTTTCCC 61.033 63.158 0.00 0.00 0.00 3.97
2448 3201 2.033194 CCGCCGTCCTTGTCTTTCC 61.033 63.158 0.00 0.00 0.00 3.13
2449 3202 2.677979 GCCGCCGTCCTTGTCTTTC 61.678 63.158 0.00 0.00 0.00 2.62
2450 3203 2.668550 GCCGCCGTCCTTGTCTTT 60.669 61.111 0.00 0.00 0.00 2.52
2464 3217 4.933064 GAGCTGTCCGATCCGCCG 62.933 72.222 0.00 0.00 0.00 6.46
2465 3218 3.532155 AGAGCTGTCCGATCCGCC 61.532 66.667 0.00 0.00 0.00 6.13
2466 3219 2.279120 CAGAGCTGTCCGATCCGC 60.279 66.667 0.00 0.00 0.00 5.54
2467 3220 1.064946 GTCAGAGCTGTCCGATCCG 59.935 63.158 0.00 0.00 0.00 4.18
2468 3221 0.532573 TTGTCAGAGCTGTCCGATCC 59.467 55.000 0.00 0.00 0.00 3.36
2469 3222 2.159184 TCATTGTCAGAGCTGTCCGATC 60.159 50.000 0.00 0.00 0.00 3.69
2470 3223 1.827344 TCATTGTCAGAGCTGTCCGAT 59.173 47.619 0.00 0.00 0.00 4.18
2471 3224 1.203287 CTCATTGTCAGAGCTGTCCGA 59.797 52.381 0.00 0.00 0.00 4.55
2472 3225 1.638133 CTCATTGTCAGAGCTGTCCG 58.362 55.000 0.00 0.00 0.00 4.79
2479 3232 2.471818 CGGATCTGCTCATTGTCAGAG 58.528 52.381 13.62 0.00 41.95 3.35
2480 3233 1.472201 GCGGATCTGCTCATTGTCAGA 60.472 52.381 19.63 11.61 42.72 3.27
2481 3234 0.935898 GCGGATCTGCTCATTGTCAG 59.064 55.000 19.63 3.43 0.00 3.51
2482 3235 0.462581 GGCGGATCTGCTCATTGTCA 60.463 55.000 25.27 0.00 34.52 3.58
2483 3236 1.162800 GGGCGGATCTGCTCATTGTC 61.163 60.000 25.27 7.28 34.69 3.18
2484 3237 1.153086 GGGCGGATCTGCTCATTGT 60.153 57.895 25.27 0.00 34.69 2.71
2485 3238 1.895707 GGGGCGGATCTGCTCATTG 60.896 63.158 27.42 0.00 36.95 2.82
2486 3239 2.512896 GGGGCGGATCTGCTCATT 59.487 61.111 27.42 0.00 36.95 2.57
2487 3240 3.933722 CGGGGCGGATCTGCTCAT 61.934 66.667 27.42 0.00 36.95 2.90
2489 3242 3.581687 GATCGGGGCGGATCTGCTC 62.582 68.421 25.27 22.26 39.75 4.26
2490 3243 3.620785 GATCGGGGCGGATCTGCT 61.621 66.667 25.27 5.66 39.75 4.24
2491 3244 4.688966 GGATCGGGGCGGATCTGC 62.689 72.222 18.73 18.73 41.99 4.26
2492 3245 2.116983 AATGGATCGGGGCGGATCTG 62.117 60.000 14.34 0.00 41.99 2.90
2493 3246 1.831652 GAATGGATCGGGGCGGATCT 61.832 60.000 14.34 0.00 41.99 2.75
2494 3247 1.376037 GAATGGATCGGGGCGGATC 60.376 63.158 8.24 8.24 41.67 3.36
2495 3248 2.750350 GAATGGATCGGGGCGGAT 59.250 61.111 0.00 0.00 0.00 4.18
2496 3249 3.556306 GGAATGGATCGGGGCGGA 61.556 66.667 0.00 0.00 0.00 5.54
2497 3250 4.988598 CGGAATGGATCGGGGCGG 62.989 72.222 0.00 0.00 0.00 6.13
2500 3253 4.235762 ACGCGGAATGGATCGGGG 62.236 66.667 12.47 1.12 43.98 5.73
2501 3254 2.644555 AAGACGCGGAATGGATCGGG 62.645 60.000 12.47 0.00 43.41 5.14
2502 3255 1.215655 GAAGACGCGGAATGGATCGG 61.216 60.000 12.47 0.00 0.00 4.18
2503 3256 1.540607 CGAAGACGCGGAATGGATCG 61.541 60.000 12.47 6.68 0.00 3.69
2504 3257 0.248907 TCGAAGACGCGGAATGGATC 60.249 55.000 12.47 0.00 39.58 3.36
2505 3258 1.813859 TCGAAGACGCGGAATGGAT 59.186 52.632 12.47 0.00 39.58 3.41
2506 3259 3.280211 TCGAAGACGCGGAATGGA 58.720 55.556 12.47 0.00 39.58 3.41


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

AutoCloner maintained by Alex Coulton.