Multiple sequence alignment - TraesCS7D01G008400

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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 TraesCS7D01G008400 chr7D 100.000 2909 0 0 1 2909 4017527 4020435 0.000000e+00 5373.0
1 TraesCS7D01G008400 chr7A 89.619 2177 156 39 441 2578 3851292 3853437 0.000000e+00 2704.0
2 TraesCS7D01G008400 chr7A 96.847 222 6 1 2686 2907 3853440 3853660 1.270000e-98 370.0
3 TraesCS7D01G008400 chr7A 95.902 122 3 2 2569 2689 25411121 25411001 2.290000e-46 196.0
4 TraesCS7D01G008400 chr7A 79.151 259 28 21 18 256 3850862 3851114 3.880000e-34 156.0
5 TraesCS7D01G008400 chr4A 93.221 1667 97 13 929 2588 739594853 739593196 0.000000e+00 2438.0
6 TraesCS7D01G008400 chr4A 94.583 240 12 1 2668 2906 739593158 739592919 1.270000e-98 370.0
7 TraesCS7D01G008400 chr4A 80.260 461 52 16 445 880 739595301 739594855 7.830000e-81 311.0
8 TraesCS7D01G008400 chr4A 96.522 115 4 0 2580 2694 416231395 416231509 1.060000e-44 191.0
9 TraesCS7D01G008400 chr4A 96.522 115 4 0 2572 2686 628491002 628491116 1.060000e-44 191.0
10 TraesCS7D01G008400 chr4A 89.610 77 1 4 197 273 688787088 688787157 1.110000e-14 91.6
11 TraesCS7D01G008400 chr3A 97.391 115 3 0 2578 2692 638776786 638776672 2.290000e-46 196.0
12 TraesCS7D01G008400 chr5D 98.198 111 2 0 2580 2690 539873063 539873173 8.230000e-46 195.0
13 TraesCS7D01G008400 chr2A 97.368 114 3 0 2580 2693 763687569 763687456 8.230000e-46 195.0
14 TraesCS7D01G008400 chr2A 91.912 136 8 3 2563 2696 187955796 187955930 1.380000e-43 187.0
15 TraesCS7D01G008400 chr1A 96.522 115 4 0 2572 2686 366270931 366271045 1.060000e-44 191.0
16 TraesCS7D01G008400 chr1D 91.603 131 9 2 2567 2697 447959453 447959581 2.300000e-41 180.0


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 TraesCS7D01G008400 chr7D 4017527 4020435 2908 False 5373.000000 5373 100.000000 1 2909 1 chr7D.!!$F1 2908
1 TraesCS7D01G008400 chr7A 3850862 3853660 2798 False 1076.666667 2704 88.539000 18 2907 3 chr7A.!!$F1 2889
2 TraesCS7D01G008400 chr4A 739592919 739595301 2382 True 1039.666667 2438 89.354667 445 2906 3 chr4A.!!$R1 2461

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
327 366 0.030908 CGTGCTTCTACCCTCGGATC 59.969 60.0 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1950 2082 0.525761 GGGCTAAAACGCATGCTGAA 59.474 50.0 17.13 0.0 0.0 3.02 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
17 18 3.190878 GCAGCATCCCTTCGTTGG 58.809 61.111 0.00 0.00 0.00 3.77
18 19 3.056313 GCAGCATCCCTTCGTTGGC 62.056 63.158 0.00 0.00 0.00 4.52
19 20 2.436646 AGCATCCCTTCGTTGGCG 60.437 61.111 0.00 0.00 39.92 5.69
20 21 4.179579 GCATCCCTTCGTTGGCGC 62.180 66.667 0.00 0.00 38.14 6.53
21 22 3.864686 CATCCCTTCGTTGGCGCG 61.865 66.667 0.00 0.00 38.14 6.86
22 23 4.077184 ATCCCTTCGTTGGCGCGA 62.077 61.111 12.10 0.00 39.28 5.87
23 24 3.599285 ATCCCTTCGTTGGCGCGAA 62.599 57.895 12.10 14.23 46.78 4.70
24 25 4.084888 CCCTTCGTTGGCGCGAAC 62.085 66.667 23.48 23.48 44.55 3.95
25 26 4.084888 CCTTCGTTGGCGCGAACC 62.085 66.667 26.43 11.30 44.55 3.62
26 27 3.342627 CTTCGTTGGCGCGAACCA 61.343 61.111 26.43 13.97 44.55 3.67
125 142 3.770040 CGTGGACGGAGCCCATCA 61.770 66.667 0.00 0.00 35.91 3.07
126 143 2.125106 GTGGACGGAGCCCATCAC 60.125 66.667 0.00 0.00 35.91 3.06
127 144 3.399181 TGGACGGAGCCCATCACC 61.399 66.667 0.00 0.00 0.00 4.02
163 197 2.436824 GAAAGGCCCGAGTCCAGC 60.437 66.667 0.00 0.00 0.00 4.85
186 220 4.380945 GGCCACATCCAGCCCCAA 62.381 66.667 0.00 0.00 43.76 4.12
187 221 2.042639 GCCACATCCAGCCCCAAT 60.043 61.111 0.00 0.00 0.00 3.16
189 223 1.456331 CCACATCCAGCCCCAATCC 60.456 63.158 0.00 0.00 0.00 3.01
190 224 1.616921 CACATCCAGCCCCAATCCT 59.383 57.895 0.00 0.00 0.00 3.24
193 227 2.087461 ATCCAGCCCCAATCCTCCC 61.087 63.158 0.00 0.00 0.00 4.30
194 228 3.825623 CCAGCCCCAATCCTCCCC 61.826 72.222 0.00 0.00 0.00 4.81
195 229 3.825623 CAGCCCCAATCCTCCCCC 61.826 72.222 0.00 0.00 0.00 5.40
196 230 4.058505 AGCCCCAATCCTCCCCCT 62.059 66.667 0.00 0.00 0.00 4.79
197 231 3.502875 GCCCCAATCCTCCCCCTC 61.503 72.222 0.00 0.00 0.00 4.30
198 232 2.378522 CCCCAATCCTCCCCCTCT 59.621 66.667 0.00 0.00 0.00 3.69
199 233 2.081161 CCCCAATCCTCCCCCTCTG 61.081 68.421 0.00 0.00 0.00 3.35
232 266 0.969917 ACCGTGATCTGCTCTGCTCT 60.970 55.000 0.00 0.00 0.00 4.09
233 267 0.528033 CCGTGATCTGCTCTGCTCTG 60.528 60.000 0.00 0.00 0.00 3.35
268 307 4.157120 GCCACGGTATGCGTCCCT 62.157 66.667 0.00 0.00 0.00 4.20
272 311 2.838225 CGGTATGCGTCCCTCCCT 60.838 66.667 0.00 0.00 0.00 4.20
274 313 2.508751 GGTATGCGTCCCTCCCTCC 61.509 68.421 0.00 0.00 0.00 4.30
275 314 2.122989 TATGCGTCCCTCCCTCCC 60.123 66.667 0.00 0.00 0.00 4.30
276 315 3.768833 TATGCGTCCCTCCCTCCCC 62.769 68.421 0.00 0.00 0.00 4.81
279 318 4.862823 CGTCCCTCCCTCCCCCTC 62.863 77.778 0.00 0.00 0.00 4.30
280 319 3.369388 GTCCCTCCCTCCCCCTCT 61.369 72.222 0.00 0.00 0.00 3.69
281 320 3.036959 TCCCTCCCTCCCCCTCTC 61.037 72.222 0.00 0.00 0.00 3.20
282 321 4.179599 CCCTCCCTCCCCCTCTCC 62.180 77.778 0.00 0.00 0.00 3.71
283 322 4.179599 CCTCCCTCCCCCTCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
284 323 3.039526 CTCCCTCCCCCTCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
285 324 3.036959 TCCCTCCCCCTCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
286 325 4.548513 CCCTCCCCCTCTCCCTCG 62.549 77.778 0.00 0.00 0.00 4.63
316 355 4.443266 GCGCCTCCTCGTGCTTCT 62.443 66.667 0.00 0.00 36.32 2.85
317 356 3.064987 GCGCCTCCTCGTGCTTCTA 62.065 63.158 0.00 0.00 36.32 2.10
318 357 1.226717 CGCCTCCTCGTGCTTCTAC 60.227 63.158 0.00 0.00 0.00 2.59
319 358 1.142097 GCCTCCTCGTGCTTCTACC 59.858 63.158 0.00 0.00 0.00 3.18
320 359 1.817209 CCTCCTCGTGCTTCTACCC 59.183 63.158 0.00 0.00 0.00 3.69
321 360 0.684805 CCTCCTCGTGCTTCTACCCT 60.685 60.000 0.00 0.00 0.00 4.34
322 361 0.741915 CTCCTCGTGCTTCTACCCTC 59.258 60.000 0.00 0.00 0.00 4.30
323 362 1.030488 TCCTCGTGCTTCTACCCTCG 61.030 60.000 0.00 0.00 0.00 4.63
324 363 1.433879 CTCGTGCTTCTACCCTCGG 59.566 63.158 0.00 0.00 0.00 4.63
325 364 1.001764 TCGTGCTTCTACCCTCGGA 60.002 57.895 0.00 0.00 0.00 4.55
326 365 0.395311 TCGTGCTTCTACCCTCGGAT 60.395 55.000 0.00 0.00 0.00 4.18
327 366 0.030908 CGTGCTTCTACCCTCGGATC 59.969 60.000 0.00 0.00 0.00 3.36
328 367 0.389757 GTGCTTCTACCCTCGGATCC 59.610 60.000 0.00 0.00 0.00 3.36
329 368 1.107538 TGCTTCTACCCTCGGATCCG 61.108 60.000 28.62 28.62 41.35 4.18
336 375 1.455959 CCCTCGGATCCGTTCTCCT 60.456 63.158 32.15 0.00 40.74 3.69
338 377 1.457009 CCTCGGATCCGTTCTCCTCC 61.457 65.000 32.15 0.00 40.74 4.30
348 387 1.160870 TTCTCCTCCCCTCAGCCAA 59.839 57.895 0.00 0.00 0.00 4.52
420 485 3.803162 GCTCCTCTCCTTGCCCCC 61.803 72.222 0.00 0.00 0.00 5.40
483 571 1.146263 GCCCCCAACGGATCTGTAG 59.854 63.158 7.83 2.56 0.00 2.74
522 611 6.820335 AGTGCTATCTGTATTGCATTACTGA 58.180 36.000 22.47 22.47 43.93 3.41
528 617 4.634004 TCTGTATTGCATTACTGAAACCGG 59.366 41.667 19.72 0.00 30.14 5.28
552 648 5.496133 TGCTAGTGATTACTAACGAGTCC 57.504 43.478 0.00 0.00 38.85 3.85
553 649 4.945543 TGCTAGTGATTACTAACGAGTCCA 59.054 41.667 0.00 0.00 38.85 4.02
554 650 5.416639 TGCTAGTGATTACTAACGAGTCCAA 59.583 40.000 0.00 0.00 38.85 3.53
570 666 5.213891 AGTCCAACAAAATTGGTCCATTC 57.786 39.130 5.62 0.00 40.40 2.67
589 685 5.186021 CCATTCCTGTTACTGAGTAGACACT 59.814 44.000 0.00 0.00 37.87 3.55
610 706 1.965935 TGCTTGCTGCTAACTCACAA 58.034 45.000 0.00 0.00 43.37 3.33
612 708 2.886523 TGCTTGCTGCTAACTCACAATT 59.113 40.909 0.00 0.00 43.37 2.32
613 709 3.318839 TGCTTGCTGCTAACTCACAATTT 59.681 39.130 0.00 0.00 43.37 1.82
615 711 4.479619 CTTGCTGCTAACTCACAATTTCC 58.520 43.478 0.00 0.00 0.00 3.13
616 712 2.819608 TGCTGCTAACTCACAATTTCCC 59.180 45.455 0.00 0.00 0.00 3.97
617 713 2.819608 GCTGCTAACTCACAATTTCCCA 59.180 45.455 0.00 0.00 0.00 4.37
620 716 4.661222 TGCTAACTCACAATTTCCCATCA 58.339 39.130 0.00 0.00 0.00 3.07
621 717 4.458989 TGCTAACTCACAATTTCCCATCAC 59.541 41.667 0.00 0.00 0.00 3.06
622 718 4.142381 GCTAACTCACAATTTCCCATCACC 60.142 45.833 0.00 0.00 0.00 4.02
623 719 3.524095 ACTCACAATTTCCCATCACCA 57.476 42.857 0.00 0.00 0.00 4.17
624 720 4.051661 ACTCACAATTTCCCATCACCAT 57.948 40.909 0.00 0.00 0.00 3.55
625 721 3.765511 ACTCACAATTTCCCATCACCATG 59.234 43.478 0.00 0.00 0.00 3.66
626 722 3.765511 CTCACAATTTCCCATCACCATGT 59.234 43.478 0.00 0.00 0.00 3.21
627 723 3.510753 TCACAATTTCCCATCACCATGTG 59.489 43.478 0.00 0.00 38.54 3.21
665 761 0.243907 TCTAGAACCGACTGCACAGC 59.756 55.000 0.00 0.00 0.00 4.40
666 762 0.038251 CTAGAACCGACTGCACAGCA 60.038 55.000 0.00 0.00 36.92 4.41
679 795 0.956633 CACAGCAGTTCCAGTTGCAT 59.043 50.000 0.00 0.00 42.67 3.96
731 850 6.759272 TCGGGATCTCAAATACAAATAGAGG 58.241 40.000 0.00 0.00 0.00 3.69
735 855 5.048846 TCTCAAATACAAATAGAGGCCCC 57.951 43.478 0.00 0.00 0.00 5.80
754 874 2.288152 CCCCATTTTCACAAGTTCCACG 60.288 50.000 0.00 0.00 0.00 4.94
755 875 2.621055 CCCATTTTCACAAGTTCCACGA 59.379 45.455 0.00 0.00 0.00 4.35
783 905 4.551702 TTTCATTCAGGCTAGCACTACA 57.448 40.909 18.24 1.98 0.00 2.74
784 906 4.760530 TTCATTCAGGCTAGCACTACAT 57.239 40.909 18.24 4.16 0.00 2.29
785 907 5.869649 TTCATTCAGGCTAGCACTACATA 57.130 39.130 18.24 0.00 0.00 2.29
786 908 5.869649 TCATTCAGGCTAGCACTACATAA 57.130 39.130 18.24 0.90 0.00 1.90
787 909 6.425210 TCATTCAGGCTAGCACTACATAAT 57.575 37.500 18.24 3.26 0.00 1.28
788 910 6.226052 TCATTCAGGCTAGCACTACATAATG 58.774 40.000 18.24 14.37 0.00 1.90
812 934 7.506114 TGATATTACCCTGTTAGGTGAATCAC 58.494 38.462 4.51 4.51 41.42 3.06
829 953 7.239972 GTGAATCACATCTTTTCTTAGACTGC 58.760 38.462 8.74 0.00 34.08 4.40
834 958 5.293079 CACATCTTTTCTTAGACTGCTAGGC 59.707 44.000 0.00 0.00 0.00 3.93
873 1003 1.873698 ATGCTTTGCTTGCCAGTTTG 58.126 45.000 0.00 0.00 0.00 2.93
892 1022 1.298859 GCTTTGCCAGTACCTGTCCG 61.299 60.000 0.00 0.00 0.00 4.79
912 1042 4.878878 GGTTCCATCCACCGATCC 57.121 61.111 0.00 0.00 0.00 3.36
919 1049 1.970640 CCATCCACCGATCCTGTCATA 59.029 52.381 0.00 0.00 0.00 2.15
922 1052 2.677914 TCCACCGATCCTGTCATACAT 58.322 47.619 0.00 0.00 0.00 2.29
923 1053 2.365293 TCCACCGATCCTGTCATACATG 59.635 50.000 0.00 0.00 0.00 3.21
924 1054 2.548707 CCACCGATCCTGTCATACATGG 60.549 54.545 0.00 0.00 0.00 3.66
925 1055 2.103094 CACCGATCCTGTCATACATGGT 59.897 50.000 0.00 0.00 0.00 3.55
926 1056 3.320826 CACCGATCCTGTCATACATGGTA 59.679 47.826 0.00 0.00 0.00 3.25
927 1057 3.574396 ACCGATCCTGTCATACATGGTAG 59.426 47.826 0.00 0.00 0.00 3.18
940 1070 4.142609 ACATGGTAGTACATCTGGCTTG 57.857 45.455 2.06 0.00 0.00 4.01
947 1077 6.554982 TGGTAGTACATCTGGCTTGATAATCT 59.445 38.462 2.06 0.00 0.00 2.40
962 1092 7.443575 GCTTGATAATCTTCTGCATTTCCTCTA 59.556 37.037 0.00 0.00 0.00 2.43
964 1094 7.795047 TGATAATCTTCTGCATTTCCTCTACA 58.205 34.615 0.00 0.00 0.00 2.74
965 1095 8.435187 TGATAATCTTCTGCATTTCCTCTACAT 58.565 33.333 0.00 0.00 0.00 2.29
971 1101 5.674525 TCTGCATTTCCTCTACATTACAGG 58.325 41.667 0.00 0.00 0.00 4.00
973 1103 6.061022 TGCATTTCCTCTACATTACAGGAA 57.939 37.500 0.00 0.00 43.30 3.36
978 1108 9.667107 CATTTCCTCTACATTACAGGAACTTAA 57.333 33.333 0.00 0.00 44.41 1.85
989 1119 7.843490 TTACAGGAACTTAATACACATCTGC 57.157 36.000 0.00 0.00 34.60 4.26
990 1120 5.186198 ACAGGAACTTAATACACATCTGCC 58.814 41.667 0.00 0.00 34.60 4.85
996 1126 2.401583 AATACACATCTGCCGCAGAA 57.598 45.000 26.30 10.55 44.04 3.02
998 1128 0.391130 TACACATCTGCCGCAGAACC 60.391 55.000 26.30 0.00 44.04 3.62
1227 1357 0.985490 GCCTCCTCTGGTGGAAGGAT 60.985 60.000 8.69 0.00 38.51 3.24
1488 1618 1.582968 CACTGTTGCTGACCATGCC 59.417 57.895 0.00 0.00 0.00 4.40
1590 1720 1.717791 CGTACATCCCGGCGAGTGTA 61.718 60.000 9.30 11.48 0.00 2.90
1650 1780 2.060980 AGAGGTCAGGATGGGCGAC 61.061 63.158 0.00 0.00 36.16 5.19
1788 1918 1.915078 CGGCCCAAGTCCTTCTGGAT 61.915 60.000 0.00 0.00 45.29 3.41
1797 1927 0.617535 TCCTTCTGGATTCCCTGCGA 60.618 55.000 0.00 0.00 37.46 5.10
1812 1942 2.701006 CGACGCCGCGAATTCAAT 59.299 55.556 21.79 0.00 0.00 2.57
1824 1954 3.540359 GCGAATTCAATGTCTTCGACTCG 60.540 47.826 18.48 0.00 43.24 4.18
1921 2053 4.641989 ACAAGTACTGAATTCATCCATGCC 59.358 41.667 8.96 0.00 0.00 4.40
1929 2061 1.164411 TTCATCCATGCCGTGTGAAC 58.836 50.000 0.00 0.00 0.00 3.18
1950 2082 0.524604 GTGTTTGTTGAAAGCGCGGT 60.525 50.000 4.23 4.23 0.00 5.68
1996 2128 3.570912 AACCTGGGGTATCCATTTACG 57.429 47.619 0.00 0.00 46.01 3.18
2091 2223 5.185635 TGATGTAGCTTCCTTTTTCATTGGG 59.814 40.000 0.00 0.00 0.00 4.12
2106 2238 4.148079 TCATTGGGTACATGCTTTGTTGA 58.852 39.130 0.00 0.00 39.87 3.18
2187 2320 3.627577 TGAGCTTGTCCTTTCAGTTGTTC 59.372 43.478 0.00 0.00 0.00 3.18
2214 2347 3.701040 CCCAGATTGTTCCAATACAAGGG 59.299 47.826 0.00 0.00 40.99 3.95
2248 2381 0.920763 TCTGGGATGTGGGGCTTGAT 60.921 55.000 0.00 0.00 0.00 2.57
2277 2414 5.297527 TGCACTGCCATAGTTCAATATTCAG 59.702 40.000 0.00 0.00 37.60 3.02
2303 2442 1.072331 TCTGTTGCAGGAAGAGAACCC 59.928 52.381 0.00 0.00 31.13 4.11
2362 2501 6.118170 ACTTGACAAGGATATGAACCTGATG 58.882 40.000 19.16 0.00 37.85 3.07
2508 2649 6.593382 GGATCTACTCATATGTCTTGATTGCC 59.407 42.308 1.90 0.00 0.00 4.52
2509 2650 5.532557 TCTACTCATATGTCTTGATTGCCG 58.467 41.667 1.90 0.00 0.00 5.69
2513 2654 6.993079 ACTCATATGTCTTGATTGCCGTATA 58.007 36.000 1.90 0.00 0.00 1.47
2558 2699 5.699143 AGATAATCAGGCTGGCTAACATTT 58.301 37.500 15.73 0.00 0.00 2.32
2559 2700 6.131961 AGATAATCAGGCTGGCTAACATTTT 58.868 36.000 15.73 1.00 0.00 1.82
2588 2729 7.964666 AGCATATTAGAATACTACTCCCTCC 57.035 40.000 0.00 0.00 0.00 4.30
2589 2730 6.603997 AGCATATTAGAATACTACTCCCTCCG 59.396 42.308 0.00 0.00 0.00 4.63
2590 2731 6.377712 GCATATTAGAATACTACTCCCTCCGT 59.622 42.308 0.00 0.00 0.00 4.69
2592 2733 6.897706 ATTAGAATACTACTCCCTCCGTTC 57.102 41.667 0.00 0.00 0.00 3.95
2593 2734 3.564264 AGAATACTACTCCCTCCGTTCC 58.436 50.000 0.00 0.00 0.00 3.62
2594 2735 1.978454 ATACTACTCCCTCCGTTCCG 58.022 55.000 0.00 0.00 0.00 4.30
2595 2736 0.911769 TACTACTCCCTCCGTTCCGA 59.088 55.000 0.00 0.00 0.00 4.55
2596 2737 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
2600 2741 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
2601 2742 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
2602 2743 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
2603 2744 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
2605 2746 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2607 2748 1.060122 CCGTTCCGAATTACTTGTCGC 59.940 52.381 0.00 0.00 35.93 5.19
2608 2749 1.722464 CGTTCCGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 35.93 5.10
2609 2750 2.222508 CGTTCCGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 35.93 5.18
2613 2754 4.250464 TCCGAATTACTTGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
2614 2755 4.092821 TCCGAATTACTTGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
2616 2757 5.390461 CCGAATTACTTGTCGCAGAAATGAA 60.390 40.000 0.00 0.00 39.69 2.57
2617 2758 6.250819 CGAATTACTTGTCGCAGAAATGAAT 58.749 36.000 0.00 0.00 39.69 2.57
2618 2759 6.193410 CGAATTACTTGTCGCAGAAATGAATG 59.807 38.462 0.00 0.00 39.69 2.67
2620 2761 7.609760 ATTACTTGTCGCAGAAATGAATGTA 57.390 32.000 0.00 0.00 39.69 2.29
2622 2763 6.111768 ACTTGTCGCAGAAATGAATGTATC 57.888 37.500 0.00 0.00 39.69 2.24
2623 2764 5.877012 ACTTGTCGCAGAAATGAATGTATCT 59.123 36.000 0.00 0.00 39.69 1.98
2624 2765 7.041721 ACTTGTCGCAGAAATGAATGTATCTA 58.958 34.615 0.00 0.00 39.69 1.98
2625 2766 7.223582 ACTTGTCGCAGAAATGAATGTATCTAG 59.776 37.037 0.00 0.00 39.69 2.43
2626 2767 6.805713 TGTCGCAGAAATGAATGTATCTAGA 58.194 36.000 0.00 0.00 39.69 2.43
2628 2769 7.383300 TGTCGCAGAAATGAATGTATCTAGATG 59.617 37.037 15.79 0.00 39.69 2.90
2629 2770 7.383572 GTCGCAGAAATGAATGTATCTAGATGT 59.616 37.037 15.79 0.00 39.69 3.06
2630 2771 8.576442 TCGCAGAAATGAATGTATCTAGATGTA 58.424 33.333 15.79 4.44 0.00 2.29
2631 2772 9.363763 CGCAGAAATGAATGTATCTAGATGTAT 57.636 33.333 15.79 6.61 0.00 2.29
2658 2799 9.547753 TTTAGTTCTAGATACATCCATTTCTGC 57.452 33.333 0.00 0.00 0.00 4.26
2659 2800 6.219473 AGTTCTAGATACATCCATTTCTGCG 58.781 40.000 0.00 0.00 0.00 5.18
2660 2801 6.040955 AGTTCTAGATACATCCATTTCTGCGA 59.959 38.462 0.00 0.00 0.00 5.10
2661 2802 5.773575 TCTAGATACATCCATTTCTGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
2662 2803 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
2663 2804 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
2664 2805 1.645034 ACATCCATTTCTGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
2665 2806 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
2666 2807 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
2667 2808 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
2668 2809 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
2669 2810 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
2673 2814 3.306917 TTCTGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
2728 2870 6.535274 AGAAAAATTCTTGCAAGCAATGTC 57.465 33.333 21.99 16.79 36.36 3.06
2732 2874 5.856126 AATTCTTGCAAGCAATGTCATTG 57.144 34.783 21.99 19.42 43.06 2.82
2847 2989 3.501062 TCAGTCACAGTTAGGTACGACAG 59.499 47.826 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.436646 CGCCAACGAAGGGATGCT 60.437 61.111 0.00 0.00 43.93 3.79
3 4 4.179579 GCGCCAACGAAGGGATGC 62.180 66.667 0.00 0.00 43.93 3.91
4 5 3.864686 CGCGCCAACGAAGGGATG 61.865 66.667 0.00 0.00 43.93 3.51
6 7 4.302509 TTCGCGCCAACGAAGGGA 62.303 61.111 0.00 0.00 46.39 4.20
14 15 4.912485 TCCGTTGGTTCGCGCCAA 62.912 61.111 13.34 13.34 45.37 4.52
15 16 4.912485 TTCCGTTGGTTCGCGCCA 62.912 61.111 0.00 0.00 36.62 5.69
16 17 4.379143 GTTCCGTTGGTTCGCGCC 62.379 66.667 0.00 0.00 0.00 6.53
17 18 4.712873 CGTTCCGTTGGTTCGCGC 62.713 66.667 0.00 0.00 0.00 6.86
18 19 4.067016 CCGTTCCGTTGGTTCGCG 62.067 66.667 0.00 0.00 0.00 5.87
19 20 2.246042 TTCCGTTCCGTTGGTTCGC 61.246 57.895 0.00 0.00 0.00 4.70
20 21 1.566077 GTTCCGTTCCGTTGGTTCG 59.434 57.895 0.00 0.00 0.00 3.95
21 22 1.566077 CGTTCCGTTCCGTTGGTTC 59.434 57.895 0.00 0.00 0.00 3.62
22 23 1.888638 CCGTTCCGTTCCGTTGGTT 60.889 57.895 0.00 0.00 0.00 3.67
23 24 2.280321 CCGTTCCGTTCCGTTGGT 60.280 61.111 0.00 0.00 0.00 3.67
24 25 3.045492 CCCGTTCCGTTCCGTTGG 61.045 66.667 0.00 0.00 0.00 3.77
25 26 2.280321 ACCCGTTCCGTTCCGTTG 60.280 61.111 0.00 0.00 0.00 4.10
26 27 2.280321 CACCCGTTCCGTTCCGTT 60.280 61.111 0.00 0.00 0.00 4.44
27 28 4.303993 CCACCCGTTCCGTTCCGT 62.304 66.667 0.00 0.00 0.00 4.69
48 49 2.110420 GGGGGCGTTATCCTTCGG 59.890 66.667 0.00 0.00 0.00 4.30
50 51 2.590859 GCGGGGGCGTTATCCTTC 60.591 66.667 0.00 0.00 0.00 3.46
144 161 2.920912 TGGACTCGGGCCTTTCGT 60.921 61.111 0.84 0.00 0.00 3.85
147 164 4.035102 GGCTGGACTCGGGCCTTT 62.035 66.667 0.84 0.00 42.31 3.11
170 204 2.042639 ATTGGGGCTGGATGTGGC 60.043 61.111 0.00 0.00 0.00 5.01
178 212 3.825623 GGGGGAGGATTGGGGCTG 61.826 72.222 0.00 0.00 0.00 4.85
179 213 4.058505 AGGGGGAGGATTGGGGCT 62.059 66.667 0.00 0.00 0.00 5.19
180 214 3.502875 GAGGGGGAGGATTGGGGC 61.503 72.222 0.00 0.00 0.00 5.80
183 217 2.761465 GGCAGAGGGGGAGGATTGG 61.761 68.421 0.00 0.00 0.00 3.16
184 218 2.761465 GGGCAGAGGGGGAGGATTG 61.761 68.421 0.00 0.00 0.00 2.67
185 219 2.368878 GGGCAGAGGGGGAGGATT 60.369 66.667 0.00 0.00 0.00 3.01
186 220 4.888325 CGGGCAGAGGGGGAGGAT 62.888 72.222 0.00 0.00 0.00 3.24
189 223 4.787280 AGACGGGCAGAGGGGGAG 62.787 72.222 0.00 0.00 0.00 4.30
190 224 4.779733 GAGACGGGCAGAGGGGGA 62.780 72.222 0.00 0.00 0.00 4.81
263 302 3.369388 AGAGGGGGAGGGAGGGAC 61.369 72.222 0.00 0.00 0.00 4.46
264 303 3.036959 GAGAGGGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
266 305 4.179599 GGGAGAGGGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
268 307 3.036959 GAGGGAGAGGGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
299 338 3.064987 TAGAAGCACGAGGAGGCGC 62.065 63.158 0.00 0.00 34.54 6.53
300 339 1.226717 GTAGAAGCACGAGGAGGCG 60.227 63.158 0.00 0.00 34.54 5.52
301 340 1.142097 GGTAGAAGCACGAGGAGGC 59.858 63.158 0.00 0.00 0.00 4.70
302 341 0.684805 AGGGTAGAAGCACGAGGAGG 60.685 60.000 0.00 0.00 0.00 4.30
303 342 0.741915 GAGGGTAGAAGCACGAGGAG 59.258 60.000 0.00 0.00 0.00 3.69
304 343 1.030488 CGAGGGTAGAAGCACGAGGA 61.030 60.000 0.00 0.00 0.00 3.71
305 344 1.433879 CGAGGGTAGAAGCACGAGG 59.566 63.158 0.00 0.00 0.00 4.63
306 345 1.030488 TCCGAGGGTAGAAGCACGAG 61.030 60.000 0.00 0.00 0.00 4.18
307 346 0.395311 ATCCGAGGGTAGAAGCACGA 60.395 55.000 0.00 0.00 0.00 4.35
308 347 0.030908 GATCCGAGGGTAGAAGCACG 59.969 60.000 0.00 0.00 0.00 5.34
309 348 0.389757 GGATCCGAGGGTAGAAGCAC 59.610 60.000 0.00 0.00 0.00 4.40
310 349 1.107538 CGGATCCGAGGGTAGAAGCA 61.108 60.000 30.62 0.00 42.83 3.91
311 350 1.108132 ACGGATCCGAGGGTAGAAGC 61.108 60.000 39.55 0.00 42.83 3.86
312 351 1.337387 GAACGGATCCGAGGGTAGAAG 59.663 57.143 39.55 7.81 42.83 2.85
313 352 1.064166 AGAACGGATCCGAGGGTAGAA 60.064 52.381 39.55 0.00 42.83 2.10
314 353 0.549950 AGAACGGATCCGAGGGTAGA 59.450 55.000 39.55 0.00 42.83 2.59
315 354 0.953003 GAGAACGGATCCGAGGGTAG 59.047 60.000 39.55 10.20 42.83 3.18
316 355 0.466922 GGAGAACGGATCCGAGGGTA 60.467 60.000 39.55 0.00 42.83 3.69
317 356 1.757340 GGAGAACGGATCCGAGGGT 60.757 63.158 39.55 20.90 42.83 4.34
318 357 1.455959 AGGAGAACGGATCCGAGGG 60.456 63.158 39.55 12.21 42.02 4.30
319 358 1.457009 GGAGGAGAACGGATCCGAGG 61.457 65.000 39.55 12.61 42.02 4.63
320 359 1.457009 GGGAGGAGAACGGATCCGAG 61.457 65.000 39.55 13.42 42.02 4.63
321 360 1.455217 GGGAGGAGAACGGATCCGA 60.455 63.158 39.55 0.00 42.02 4.55
322 361 2.499827 GGGGAGGAGAACGGATCCG 61.500 68.421 32.20 32.20 42.02 4.18
323 362 1.075151 AGGGGAGGAGAACGGATCC 60.075 63.158 0.00 0.00 37.07 3.36
324 363 0.397254 TGAGGGGAGGAGAACGGATC 60.397 60.000 0.00 0.00 0.00 3.36
325 364 0.397816 CTGAGGGGAGGAGAACGGAT 60.398 60.000 0.00 0.00 0.00 4.18
326 365 1.000486 CTGAGGGGAGGAGAACGGA 60.000 63.158 0.00 0.00 0.00 4.69
327 366 2.726351 GCTGAGGGGAGGAGAACGG 61.726 68.421 0.00 0.00 0.00 4.44
328 367 2.726351 GGCTGAGGGGAGGAGAACG 61.726 68.421 0.00 0.00 0.00 3.95
329 368 1.201429 TTGGCTGAGGGGAGGAGAAC 61.201 60.000 0.00 0.00 0.00 3.01
464 552 2.644555 CTACAGATCCGTTGGGGGCG 62.645 65.000 0.00 0.00 36.01 6.13
469 557 1.683917 AGCTAGCTACAGATCCGTTGG 59.316 52.381 17.69 0.00 0.00 3.77
470 558 2.287909 GGAGCTAGCTACAGATCCGTTG 60.288 54.545 22.69 0.00 41.01 4.10
472 560 1.611519 GGAGCTAGCTACAGATCCGT 58.388 55.000 22.69 0.00 41.01 4.69
522 611 4.281898 AGTAATCACTAGCAACCGGTTT 57.718 40.909 19.55 6.97 31.45 3.27
528 617 5.742926 GGACTCGTTAGTAATCACTAGCAAC 59.257 44.000 0.00 0.00 38.11 4.17
552 648 4.959723 ACAGGAATGGACCAATTTTGTTG 58.040 39.130 0.00 0.00 0.00 3.33
553 649 5.628797 AACAGGAATGGACCAATTTTGTT 57.371 34.783 0.00 5.19 0.00 2.83
554 650 5.838521 AGTAACAGGAATGGACCAATTTTGT 59.161 36.000 0.00 0.00 0.00 2.83
570 666 4.686554 GCAAAGTGTCTACTCAGTAACAGG 59.313 45.833 1.44 0.00 35.69 4.00
620 716 2.935238 GCGTTGTCCTACATCACATGGT 60.935 50.000 0.00 0.00 33.60 3.55
621 717 1.665679 GCGTTGTCCTACATCACATGG 59.334 52.381 0.00 0.00 33.60 3.66
622 718 1.665679 GGCGTTGTCCTACATCACATG 59.334 52.381 0.00 0.00 0.00 3.21
623 719 1.277842 TGGCGTTGTCCTACATCACAT 59.722 47.619 0.00 0.00 0.00 3.21
624 720 0.682292 TGGCGTTGTCCTACATCACA 59.318 50.000 0.00 0.00 0.00 3.58
625 721 1.803334 TTGGCGTTGTCCTACATCAC 58.197 50.000 0.00 0.00 0.00 3.06
626 722 2.779755 ATTGGCGTTGTCCTACATCA 57.220 45.000 0.00 0.00 0.00 3.07
627 723 3.270877 AGAATTGGCGTTGTCCTACATC 58.729 45.455 0.00 0.00 0.00 3.06
638 734 1.549170 AGTCGGTTCTAGAATTGGCGT 59.451 47.619 8.75 0.00 0.00 5.68
665 761 4.919168 CACAATACAATGCAACTGGAACTG 59.081 41.667 0.00 0.00 0.00 3.16
666 762 4.022068 CCACAATACAATGCAACTGGAACT 60.022 41.667 0.00 0.00 0.00 3.01
667 763 4.236935 CCACAATACAATGCAACTGGAAC 58.763 43.478 0.00 0.00 0.00 3.62
668 764 3.257873 CCCACAATACAATGCAACTGGAA 59.742 43.478 0.00 0.00 0.00 3.53
669 765 2.824936 CCCACAATACAATGCAACTGGA 59.175 45.455 0.00 0.00 0.00 3.86
670 766 2.674747 GCCCACAATACAATGCAACTGG 60.675 50.000 0.00 0.00 0.00 4.00
671 767 2.231964 AGCCCACAATACAATGCAACTG 59.768 45.455 0.00 0.00 0.00 3.16
672 768 2.528564 AGCCCACAATACAATGCAACT 58.471 42.857 0.00 0.00 0.00 3.16
679 795 4.076394 GGTTCAGTTAGCCCACAATACAA 58.924 43.478 0.00 0.00 0.00 2.41
709 825 5.707764 GGCCTCTATTTGTATTTGAGATCCC 59.292 44.000 0.00 0.00 0.00 3.85
721 840 3.245948 TGAAAATGGGGGCCTCTATTTGT 60.246 43.478 26.01 16.16 0.00 2.83
731 850 1.001974 GGAACTTGTGAAAATGGGGGC 59.998 52.381 0.00 0.00 0.00 5.80
735 855 3.628017 GTCGTGGAACTTGTGAAAATGG 58.372 45.455 0.00 0.00 31.75 3.16
754 874 3.221964 AGCCTGAATGAAAATTGCGTC 57.778 42.857 0.00 0.00 0.00 5.19
755 875 3.428045 GCTAGCCTGAATGAAAATTGCGT 60.428 43.478 2.29 0.00 0.00 5.24
785 907 8.723365 TGATTCACCTAACAGGGTAATATCATT 58.277 33.333 0.00 0.00 40.58 2.57
786 908 8.157476 GTGATTCACCTAACAGGGTAATATCAT 58.843 37.037 5.44 0.00 40.58 2.45
787 909 7.126573 TGTGATTCACCTAACAGGGTAATATCA 59.873 37.037 14.05 0.00 40.58 2.15
788 910 7.506114 TGTGATTCACCTAACAGGGTAATATC 58.494 38.462 14.05 0.00 40.58 1.63
812 934 4.813697 GGCCTAGCAGTCTAAGAAAAGATG 59.186 45.833 0.00 0.00 0.00 2.90
829 953 2.827921 AGCCTGATTGTTTTTGGCCTAG 59.172 45.455 3.32 0.00 44.19 3.02
834 958 4.389687 GCATAACAGCCTGATTGTTTTTGG 59.610 41.667 0.00 0.00 39.36 3.28
912 1042 6.450545 CCAGATGTACTACCATGTATGACAG 58.549 44.000 0.00 0.00 0.00 3.51
919 1049 3.774766 TCAAGCCAGATGTACTACCATGT 59.225 43.478 0.00 0.00 0.00 3.21
922 1052 6.554982 AGATTATCAAGCCAGATGTACTACCA 59.445 38.462 0.00 0.00 0.00 3.25
923 1053 6.998802 AGATTATCAAGCCAGATGTACTACC 58.001 40.000 0.00 0.00 0.00 3.18
924 1054 8.364142 AGAAGATTATCAAGCCAGATGTACTAC 58.636 37.037 0.00 0.00 0.00 2.73
925 1055 8.363390 CAGAAGATTATCAAGCCAGATGTACTA 58.637 37.037 0.00 0.00 0.00 1.82
926 1056 7.215789 CAGAAGATTATCAAGCCAGATGTACT 58.784 38.462 0.00 0.00 0.00 2.73
927 1057 6.073331 GCAGAAGATTATCAAGCCAGATGTAC 60.073 42.308 0.00 0.00 0.00 2.90
940 1070 8.845413 ATGTAGAGGAAATGCAGAAGATTATC 57.155 34.615 0.00 0.00 0.00 1.75
947 1077 6.070251 TCCTGTAATGTAGAGGAAATGCAGAA 60.070 38.462 0.00 0.00 44.37 3.02
962 1092 9.383519 CAGATGTGTATTAAGTTCCTGTAATGT 57.616 33.333 0.00 0.00 0.00 2.71
964 1094 7.499232 GGCAGATGTGTATTAAGTTCCTGTAAT 59.501 37.037 0.00 0.00 0.00 1.89
965 1095 6.821665 GGCAGATGTGTATTAAGTTCCTGTAA 59.178 38.462 0.00 0.00 0.00 2.41
967 1097 5.186198 GGCAGATGTGTATTAAGTTCCTGT 58.814 41.667 0.00 0.00 0.00 4.00
971 1101 3.621268 TGCGGCAGATGTGTATTAAGTTC 59.379 43.478 0.00 0.00 0.00 3.01
973 1103 3.118775 TCTGCGGCAGATGTGTATTAAGT 60.119 43.478 27.76 0.00 35.39 2.24
978 1108 1.656652 GTTCTGCGGCAGATGTGTAT 58.343 50.000 31.20 0.00 40.39 2.29
989 1119 2.046023 TGCTCATGGGTTCTGCGG 60.046 61.111 0.00 0.00 0.00 5.69
990 1120 2.110967 CCTGCTCATGGGTTCTGCG 61.111 63.158 0.00 0.00 0.00 5.18
1227 1357 1.069090 GCAGACCTTGTCGACCACA 59.931 57.895 14.12 0.00 37.67 4.17
1368 1498 3.144120 CTCAGGGATGGCGTCCTCG 62.144 68.421 24.35 15.63 46.91 4.63
1548 1678 0.603707 TCTTCCCTTGCTTGCTCACG 60.604 55.000 0.00 0.00 0.00 4.35
1723 1853 4.363990 CTCTGCCGGCACAGACGT 62.364 66.667 29.03 0.00 41.72 4.34
1797 1927 1.019278 AGACATTGAATTCGCGGCGT 61.019 50.000 22.90 2.36 0.00 5.68
1824 1954 2.029844 GACTCCACTGGACAAGCGC 61.030 63.158 0.00 0.00 0.00 5.92
1921 2053 1.128878 TCAACAAACACGGTTCACACG 59.871 47.619 0.00 0.00 37.36 4.49
1929 2061 1.528248 CGCGCTTTCAACAAACACGG 61.528 55.000 5.56 0.00 0.00 4.94
1950 2082 0.525761 GGGCTAAAACGCATGCTGAA 59.474 50.000 17.13 0.00 0.00 3.02
1996 2128 7.750229 TCATCATCAAGCTTATTACATTCCC 57.250 36.000 0.00 0.00 0.00 3.97
2091 2223 3.317993 ACAACCCTCAACAAAGCATGTAC 59.682 43.478 0.00 0.00 42.99 2.90
2106 2238 3.945981 ACAAACGAAACAAACAACCCT 57.054 38.095 0.00 0.00 0.00 4.34
2187 2320 3.362040 TGGAACAATCTGGGCAAGG 57.638 52.632 0.00 0.00 31.92 3.61
2214 2347 1.476007 CCAGAGGATCCATCGACCCC 61.476 65.000 15.82 0.00 33.66 4.95
2248 2381 2.954989 TGAACTATGGCAGTGCAACAAA 59.045 40.909 18.61 0.00 40.11 2.83
2277 2414 1.070758 TCTTCCTGCAACAGAGGTCAC 59.929 52.381 0.00 0.00 32.44 3.67
2303 2442 3.604582 CTGCCTAACCCTTTCTCTCTTG 58.395 50.000 0.00 0.00 0.00 3.02
2362 2501 3.578688 CTTGCACCAATGGAGTTAAAGC 58.421 45.455 6.16 0.00 0.00 3.51
2589 2730 2.991190 TCTGCGACAAGTAATTCGGAAC 59.009 45.455 0.00 0.00 35.02 3.62
2590 2731 3.306917 TCTGCGACAAGTAATTCGGAA 57.693 42.857 0.00 0.00 35.02 4.30
2592 2733 4.092821 TCATTTCTGCGACAAGTAATTCGG 59.907 41.667 0.00 0.00 35.73 4.30
2593 2734 5.203358 TCATTTCTGCGACAAGTAATTCG 57.797 39.130 0.00 0.00 38.31 3.34
2594 2735 7.023575 ACATTCATTTCTGCGACAAGTAATTC 58.976 34.615 0.00 0.00 0.00 2.17
2595 2736 6.913170 ACATTCATTTCTGCGACAAGTAATT 58.087 32.000 0.00 0.00 0.00 1.40
2596 2737 6.500684 ACATTCATTTCTGCGACAAGTAAT 57.499 33.333 0.00 0.00 0.00 1.89
2600 2741 6.355397 AGATACATTCATTTCTGCGACAAG 57.645 37.500 0.00 0.00 0.00 3.16
2601 2742 7.264947 TCTAGATACATTCATTTCTGCGACAA 58.735 34.615 0.00 0.00 0.00 3.18
2602 2743 6.805713 TCTAGATACATTCATTTCTGCGACA 58.194 36.000 0.00 0.00 0.00 4.35
2603 2744 7.383572 ACATCTAGATACATTCATTTCTGCGAC 59.616 37.037 4.54 0.00 0.00 5.19
2605 2746 7.649370 ACATCTAGATACATTCATTTCTGCG 57.351 36.000 4.54 0.00 0.00 5.18
2632 2773 9.547753 GCAGAAATGGATGTATCTAGAACTAAA 57.452 33.333 0.00 0.00 0.00 1.85
2633 2774 7.867909 CGCAGAAATGGATGTATCTAGAACTAA 59.132 37.037 0.00 0.00 0.00 2.24
2634 2775 7.230712 TCGCAGAAATGGATGTATCTAGAACTA 59.769 37.037 0.00 0.00 0.00 2.24
2635 2776 6.040955 TCGCAGAAATGGATGTATCTAGAACT 59.959 38.462 0.00 0.00 0.00 3.01
2636 2777 6.144724 GTCGCAGAAATGGATGTATCTAGAAC 59.855 42.308 0.00 0.00 39.69 3.01
2637 2778 6.216569 GTCGCAGAAATGGATGTATCTAGAA 58.783 40.000 0.00 0.00 39.69 2.10
2638 2779 5.562890 CGTCGCAGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 39.69 2.43
2639 2780 4.618912 CGTCGCAGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 39.69 2.43
2640 2781 4.277423 TCGTCGCAGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 39.69 1.98
2641 2782 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
2642 2783 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
2643 2784 3.181475 ACTCGTCGCAGAAATGGATGTAT 60.181 43.478 0.00 0.00 39.69 2.29
2644 2785 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
2645 2786 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
2646 2787 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
2647 2788 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
2648 2789 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
2649 2790 4.334443 CAAATTACTCGTCGCAGAAATGG 58.666 43.478 0.00 0.00 39.69 3.16
2650 2791 4.092821 TCCAAATTACTCGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
2651 2792 4.250464 TCCAAATTACTCGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
2652 2793 3.655486 TCCAAATTACTCGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
2653 2794 3.306917 TCCAAATTACTCGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
2654 2795 2.991190 GTTCCAAATTACTCGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
2655 2796 2.222508 CGTTCCAAATTACTCGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
2656 2797 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
2657 2798 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
2658 2799 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
2659 2800 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
2660 2801 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
2661 2802 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
2662 2803 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
2663 2804 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
2664 2805 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
2665 2806 4.098894 ACTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
2666 2807 2.910977 ACTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
2667 2808 2.547990 ACTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
2668 2809 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
2669 2810 1.621814 CAACTACTCCCTCCGTTCCAA 59.378 52.381 0.00 0.00 0.00 3.53
2673 2814 2.226962 TAGCAACTACTCCCTCCGTT 57.773 50.000 0.00 0.00 0.00 4.44
2728 2870 8.084073 TGAGGAACTTCTTTTCTTTATGCAATG 58.916 33.333 0.00 0.00 41.55 2.82
2732 2874 8.084684 ACAATGAGGAACTTCTTTTCTTTATGC 58.915 33.333 0.00 0.00 41.55 3.14
2847 2989 6.538021 ACATCATAGAGAAAAGTGAGATGTGC 59.462 38.462 0.00 0.00 42.08 4.57


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

AutoCloner maintained by Alex Coulton.