Multiple sequence alignment - TraesCS5D01G520900

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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 TraesCS5D01G520900 chr5D 100.000 2450 0 0 1 2450 541956928 541959377 0.000000e+00 4525.0
1 TraesCS5D01G520900 chr4A 90.301 1361 96 20 574 1916 627353236 627351894 0.000000e+00 1749.0
2 TraesCS5D01G520900 chr4A 88.385 551 44 11 1908 2450 627351146 627350608 0.000000e+00 645.0
3 TraesCS5D01G520900 chr4A 96.774 62 2 0 4 65 627354012 627353951 1.200000e-18 104.0
4 TraesCS5D01G520900 chr5B 90.965 1129 72 12 581 1705 684009410 684010512 0.000000e+00 1493.0
5 TraesCS5D01G520900 chr5B 96.552 58 1 1 2 59 684008376 684008432 7.210000e-16 95.3
6 TraesCS5D01G520900 chr2A 88.298 94 9 2 1929 2020 701010333 701010240 7.160000e-21 111.0
7 TraesCS5D01G520900 chrUn 82.203 118 11 6 1000 1117 9954183 9954076 2.590000e-15 93.5
8 TraesCS5D01G520900 chr1A 94.286 35 1 1 2385 2418 588464477 588464511 4.000000e-03 52.8


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 TraesCS5D01G520900 chr5D 541956928 541959377 2449 False 4525.000000 4525 100.0000 1 2450 1 chr5D.!!$F1 2449
1 TraesCS5D01G520900 chr4A 627350608 627354012 3404 True 832.666667 1749 91.8200 4 2450 3 chr4A.!!$R1 2446
2 TraesCS5D01G520900 chr5B 684008376 684010512 2136 False 794.150000 1493 93.7585 2 1705 2 chr5B.!!$F1 1703

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
522 1084 0.030638 CTGGCCGGACTGTTTTGTTG 59.969 55.0 9.82 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1928 3270 0.322546 GTTCACTGACATCCCACCCC 60.323 60.0 0.0 0.0 0.0 4.95 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
59 60 6.567891 GCTTGGTCTACAACTGTTTCAATACC 60.568 42.308 0.00 0.00 34.76 2.73
65 66 3.320826 ACAACTGTTTCAATACCTTGGCC 59.679 43.478 0.00 0.00 32.95 5.36
66 67 2.525368 ACTGTTTCAATACCTTGGCCC 58.475 47.619 0.00 0.00 32.95 5.80
67 68 2.110011 ACTGTTTCAATACCTTGGCCCT 59.890 45.455 0.00 0.00 32.95 5.19
68 69 2.493278 CTGTTTCAATACCTTGGCCCTG 59.507 50.000 0.00 0.00 32.95 4.45
69 70 1.824852 GTTTCAATACCTTGGCCCTGG 59.175 52.381 0.00 4.67 32.95 4.45
70 71 1.080638 TTCAATACCTTGGCCCTGGT 58.919 50.000 18.89 18.89 40.12 4.00
71 72 0.331278 TCAATACCTTGGCCCTGGTG 59.669 55.000 22.51 9.62 37.74 4.17
72 73 1.000359 AATACCTTGGCCCTGGTGC 60.000 57.895 22.51 0.00 37.74 5.01
74 75 1.509548 ATACCTTGGCCCTGGTGCTT 61.510 55.000 22.51 8.19 37.74 3.91
80 81 0.324275 TGGCCCTGGTGCTTAATTCC 60.324 55.000 0.00 0.00 0.00 3.01
83 84 1.379527 CCCTGGTGCTTAATTCCGAC 58.620 55.000 0.00 0.00 0.00 4.79
84 85 1.006832 CCTGGTGCTTAATTCCGACG 58.993 55.000 0.00 0.00 0.00 5.12
93 136 2.702898 TAATTCCGACGTCGACACAA 57.297 45.000 37.65 23.10 43.02 3.33
108 151 3.109619 GACACAATGTCGACTAGCTAGC 58.890 50.000 20.91 6.62 37.67 3.42
111 154 2.123342 CAATGTCGACTAGCTAGCTGC 58.877 52.381 27.68 14.75 43.29 5.25
155 198 2.245096 GTACGTACGTGTGACATGTCC 58.755 52.381 30.25 14.28 35.12 4.02
161 482 1.675641 GTGTGACATGTCCTGGCCC 60.676 63.158 22.85 4.86 28.32 5.80
162 483 2.044946 GTGACATGTCCTGGCCCC 60.045 66.667 22.85 0.00 28.32 5.80
175 496 2.169978 CCTGGCCCCAGTTACTACTAAC 59.830 54.545 12.98 0.00 42.15 2.34
186 508 7.149973 CCAGTTACTACTAACTTGTGCTGTAA 58.850 38.462 0.00 0.00 40.64 2.41
188 510 9.037737 CAGTTACTACTAACTTGTGCTGTAAAA 57.962 33.333 0.00 0.00 40.64 1.52
193 515 9.116067 ACTACTAACTTGTGCTGTAAAAATTGA 57.884 29.630 0.00 0.00 0.00 2.57
198 520 4.481930 TGTGCTGTAAAAATTGACGGAG 57.518 40.909 0.00 0.00 0.00 4.63
225 547 4.270084 CCGTATCGTGTTGAGCATTTATGT 59.730 41.667 0.00 0.00 0.00 2.29
232 554 6.035975 TCGTGTTGAGCATTTATGTATCACTG 59.964 38.462 0.00 0.00 0.00 3.66
234 556 7.182761 GTGTTGAGCATTTATGTATCACTGTC 58.817 38.462 0.00 0.00 0.00 3.51
256 578 1.226888 GACGGTACATGTCGGCTCC 60.227 63.158 0.00 0.00 0.00 4.70
259 581 0.671796 CGGTACATGTCGGCTCCATA 59.328 55.000 0.00 0.00 0.00 2.74
260 582 1.602165 CGGTACATGTCGGCTCCATAC 60.602 57.143 0.00 0.00 0.00 2.39
272 594 4.283467 TCGGCTCCATACTGTAGCAATAAT 59.717 41.667 3.03 0.00 38.01 1.28
301 623 9.315525 GAGTTAATTCTGATTTGTACTACCTCC 57.684 37.037 0.00 0.00 0.00 4.30
305 627 6.681729 TTCTGATTTGTACTACCTCCAAGT 57.318 37.500 0.00 0.00 0.00 3.16
318 640 1.334869 CTCCAAGTGACACTTTGCACC 59.665 52.381 18.27 0.00 36.03 5.01
319 641 1.102154 CCAAGTGACACTTTGCACCA 58.898 50.000 18.27 0.00 36.03 4.17
326 648 5.531634 AGTGACACTTTGCACCATATTTTG 58.468 37.500 1.07 0.00 35.67 2.44
327 649 6.959844 AAGTGACACTTTGCACCATATTTTGG 60.960 38.462 15.23 0.00 43.00 3.28
328 650 9.038861 AAGTGACACTTTGCACCATATTTTGGA 62.039 37.037 15.23 0.00 41.03 3.53
355 677 6.704289 ATGCATGTAATACTGATTTGCACT 57.296 33.333 0.00 0.00 38.49 4.40
356 678 5.882553 TGCATGTAATACTGATTTGCACTG 58.117 37.500 0.00 0.00 33.43 3.66
357 679 4.736793 GCATGTAATACTGATTTGCACTGC 59.263 41.667 0.00 0.00 30.06 4.40
358 680 5.676837 GCATGTAATACTGATTTGCACTGCA 60.677 40.000 0.00 0.00 36.47 4.41
360 682 6.513806 TGTAATACTGATTTGCACTGCATT 57.486 33.333 4.10 0.00 38.76 3.56
363 685 7.871973 TGTAATACTGATTTGCACTGCATTTTT 59.128 29.630 4.10 0.00 38.76 1.94
399 854 7.231607 GCACTGCATTTTATTTTTCATGACAG 58.768 34.615 0.00 0.00 32.07 3.51
401 856 6.875195 ACTGCATTTTATTTTTCATGACAGGG 59.125 34.615 0.00 0.00 31.02 4.45
403 858 7.098477 TGCATTTTATTTTTCATGACAGGGAG 58.902 34.615 0.00 0.00 0.00 4.30
404 859 6.536224 GCATTTTATTTTTCATGACAGGGAGG 59.464 38.462 0.00 0.00 0.00 4.30
407 862 2.472695 TTTTCATGACAGGGAGGACG 57.527 50.000 0.00 0.00 0.00 4.79
408 863 1.348064 TTTCATGACAGGGAGGACGT 58.652 50.000 0.00 0.00 0.00 4.34
409 864 2.225382 TTCATGACAGGGAGGACGTA 57.775 50.000 0.00 0.00 0.00 3.57
410 865 1.471119 TCATGACAGGGAGGACGTAC 58.529 55.000 0.00 0.00 0.00 3.67
411 866 1.005569 TCATGACAGGGAGGACGTACT 59.994 52.381 0.00 0.00 0.00 2.73
412 867 2.240414 TCATGACAGGGAGGACGTACTA 59.760 50.000 0.00 0.00 0.00 1.82
413 868 2.119801 TGACAGGGAGGACGTACTAC 57.880 55.000 0.00 0.00 0.00 2.73
414 869 1.340405 TGACAGGGAGGACGTACTACC 60.340 57.143 22.92 22.92 42.18 3.18
415 870 0.033699 ACAGGGAGGACGTACTACCC 60.034 60.000 26.60 23.56 42.93 3.69
416 871 2.720628 AGGGAGGACGTACTACCCT 58.279 57.895 26.60 25.30 42.93 4.34
420 875 2.093816 GGGAGGACGTACTACCCTTTTG 60.094 54.545 19.65 0.00 35.25 2.44
421 876 2.564504 GGAGGACGTACTACCCTTTTGT 59.435 50.000 0.00 0.00 0.00 2.83
424 879 4.635223 AGGACGTACTACCCTTTTGTTTC 58.365 43.478 0.00 0.00 0.00 2.78
448 903 3.055719 CCAACTCGGCGGTGCATT 61.056 61.111 7.21 0.00 0.00 3.56
449 904 2.625823 CCAACTCGGCGGTGCATTT 61.626 57.895 7.21 0.00 0.00 2.32
450 905 1.285641 CAACTCGGCGGTGCATTTT 59.714 52.632 7.21 0.00 0.00 1.82
452 907 1.169661 AACTCGGCGGTGCATTTTCA 61.170 50.000 7.21 0.00 0.00 2.69
453 908 1.154225 CTCGGCGGTGCATTTTCAC 60.154 57.895 7.21 0.00 36.28 3.18
454 909 1.577328 CTCGGCGGTGCATTTTCACT 61.577 55.000 7.21 0.00 37.16 3.41
455 910 1.169661 TCGGCGGTGCATTTTCACTT 61.170 50.000 7.21 0.00 37.16 3.16
456 911 1.003262 CGGCGGTGCATTTTCACTTG 61.003 55.000 0.00 0.00 37.16 3.16
457 912 1.284297 GGCGGTGCATTTTCACTTGC 61.284 55.000 0.00 0.00 39.33 4.01
458 913 1.284297 GCGGTGCATTTTCACTTGCC 61.284 55.000 0.00 0.00 38.08 4.52
459 914 0.031857 CGGTGCATTTTCACTTGCCA 59.968 50.000 0.00 0.00 38.08 4.92
460 915 1.337074 CGGTGCATTTTCACTTGCCAT 60.337 47.619 0.00 0.00 38.08 4.40
467 922 4.143137 GCATTTTCACTTGCCATTTTACGG 60.143 41.667 0.00 0.00 32.66 4.02
468 923 4.657436 TTTTCACTTGCCATTTTACGGT 57.343 36.364 0.00 0.00 0.00 4.83
477 1039 4.439057 TGCCATTTTACGGTCTGATAGAC 58.561 43.478 0.39 0.39 44.32 2.59
492 1054 0.323451 TAGACAGCGGCAGAAGAGGA 60.323 55.000 1.45 0.00 0.00 3.71
499 1061 1.137825 GGCAGAAGAGGACGAGACG 59.862 63.158 0.00 0.00 0.00 4.18
519 1081 2.644992 GCTGGCCGGACTGTTTTG 59.355 61.111 18.31 0.00 0.00 2.44
520 1082 2.193536 GCTGGCCGGACTGTTTTGT 61.194 57.895 18.31 0.00 0.00 2.83
522 1084 0.030638 CTGGCCGGACTGTTTTGTTG 59.969 55.000 9.82 0.00 0.00 3.33
523 1085 1.299850 GGCCGGACTGTTTTGTTGC 60.300 57.895 5.05 0.00 0.00 4.17
524 1086 1.733526 GCCGGACTGTTTTGTTGCT 59.266 52.632 5.05 0.00 0.00 3.91
525 1087 0.102300 GCCGGACTGTTTTGTTGCTT 59.898 50.000 5.05 0.00 0.00 3.91
526 1088 1.864029 GCCGGACTGTTTTGTTGCTTC 60.864 52.381 5.05 0.00 0.00 3.86
527 1089 1.676006 CCGGACTGTTTTGTTGCTTCT 59.324 47.619 0.00 0.00 0.00 2.85
528 1090 2.875933 CCGGACTGTTTTGTTGCTTCTA 59.124 45.455 0.00 0.00 0.00 2.10
529 1091 3.502211 CCGGACTGTTTTGTTGCTTCTAT 59.498 43.478 0.00 0.00 0.00 1.98
531 1093 5.163854 CCGGACTGTTTTGTTGCTTCTATAG 60.164 44.000 0.00 0.00 0.00 1.31
543 1105 4.632327 GCTTCTATAGCTCCCTTTGGAT 57.368 45.455 0.00 0.00 46.77 3.41
544 1106 4.574892 GCTTCTATAGCTCCCTTTGGATC 58.425 47.826 0.00 0.00 46.77 3.36
545 1107 4.815269 CTTCTATAGCTCCCTTTGGATCG 58.185 47.826 0.00 0.00 40.80 3.69
546 1108 3.165875 TCTATAGCTCCCTTTGGATCGG 58.834 50.000 0.00 0.00 40.80 4.18
547 1109 1.059913 ATAGCTCCCTTTGGATCGGG 58.940 55.000 0.00 0.00 40.80 5.14
548 1110 0.326238 TAGCTCCCTTTGGATCGGGT 60.326 55.000 0.00 0.00 40.80 5.28
549 1111 1.208165 AGCTCCCTTTGGATCGGGTT 61.208 55.000 3.61 0.00 40.80 4.11
550 1112 1.032114 GCTCCCTTTGGATCGGGTTG 61.032 60.000 3.61 0.68 40.80 3.77
551 1113 0.618458 CTCCCTTTGGATCGGGTTGA 59.382 55.000 3.61 0.00 40.80 3.18
552 1114 1.212935 CTCCCTTTGGATCGGGTTGAT 59.787 52.381 3.61 0.00 40.80 2.57
558 1120 4.513519 GATCGGGTTGATCGCACA 57.486 55.556 0.00 0.00 43.84 4.57
559 1121 2.762360 GATCGGGTTGATCGCACAA 58.238 52.632 0.00 0.00 43.84 3.33
560 1122 1.083489 GATCGGGTTGATCGCACAAA 58.917 50.000 0.00 0.00 43.84 2.83
561 1123 1.062587 GATCGGGTTGATCGCACAAAG 59.937 52.381 0.00 0.00 43.84 2.77
562 1124 0.953471 TCGGGTTGATCGCACAAAGG 60.953 55.000 0.00 0.00 0.00 3.11
563 1125 0.953471 CGGGTTGATCGCACAAAGGA 60.953 55.000 0.00 0.00 0.00 3.36
564 1126 0.804989 GGGTTGATCGCACAAAGGAG 59.195 55.000 0.00 0.00 0.00 3.69
565 1127 0.169009 GGTTGATCGCACAAAGGAGC 59.831 55.000 0.00 0.00 0.00 4.70
572 1134 2.972505 CACAAAGGAGCGTGCCGT 60.973 61.111 0.00 0.00 0.00 5.68
650 1212 3.134574 TCCAAAATGTAGTGCGAACCT 57.865 42.857 0.00 0.00 0.00 3.50
658 1220 2.610374 TGTAGTGCGAACCTGACAAAAC 59.390 45.455 0.00 0.00 0.00 2.43
666 1228 6.913673 GTGCGAACCTGACAAAACTATAAAAA 59.086 34.615 0.00 0.00 0.00 1.94
683 1245 8.879759 ACTATAAAAATATGGTGACGTTGTGAG 58.120 33.333 0.00 0.00 0.00 3.51
695 1257 5.636121 GTGACGTTGTGAGTTGGAATACATA 59.364 40.000 0.00 0.00 0.00 2.29
723 1285 1.472082 CCAAAATATGGTGTGCAGCGA 59.528 47.619 0.00 0.00 44.85 4.93
727 1289 1.086696 ATATGGTGTGCAGCGAACAC 58.913 50.000 7.36 7.36 45.81 3.32
798 1361 7.604545 TCCAAAATACAGTGACACAATTATCGA 59.395 33.333 8.59 0.00 0.00 3.59
802 1365 7.715265 ATACAGTGACACAATTATCGAATCC 57.285 36.000 8.59 0.00 0.00 3.01
935 1498 2.740055 GGCACCGCACTCTGTCTG 60.740 66.667 0.00 0.00 0.00 3.51
967 1530 0.391597 TTCCTTCAGTCGACCACACC 59.608 55.000 13.01 0.00 0.00 4.16
979 1542 0.760567 ACCACACCTGAGAGCTCACA 60.761 55.000 17.77 15.44 35.46 3.58
988 1551 1.303074 AGAGCTCACACCGTCCGTA 60.303 57.895 17.77 0.00 0.00 4.02
1494 2062 2.799412 GCTCTCGCCAGATTGTGATTAG 59.201 50.000 0.00 0.00 0.00 1.73
1547 2115 6.948886 TCATAATACTACCTCCATCCAGTCTC 59.051 42.308 0.00 0.00 0.00 3.36
1609 2180 5.968387 AGAACAGTAGTTTCGTGTCAAAG 57.032 39.130 0.00 0.00 38.30 2.77
1611 2182 5.519206 AGAACAGTAGTTTCGTGTCAAAGAC 59.481 40.000 0.00 0.00 38.30 3.01
1709 2280 8.447833 TGTAACCTTGTCGAATAATCAATCAAC 58.552 33.333 0.00 0.00 0.00 3.18
1739 2310 8.970691 TTGCTAAGATTAATTCAAGTTTCAGC 57.029 30.769 0.00 0.00 0.00 4.26
1740 2311 7.538575 TGCTAAGATTAATTCAAGTTTCAGCC 58.461 34.615 0.00 0.00 0.00 4.85
1741 2312 6.688813 GCTAAGATTAATTCAAGTTTCAGCCG 59.311 38.462 0.00 0.00 0.00 5.52
1742 2313 6.817765 AAGATTAATTCAAGTTTCAGCCGA 57.182 33.333 0.00 0.00 0.00 5.54
1743 2314 7.396540 AAGATTAATTCAAGTTTCAGCCGAT 57.603 32.000 0.00 0.00 0.00 4.18
1744 2315 6.789262 AGATTAATTCAAGTTTCAGCCGATG 58.211 36.000 0.00 0.00 0.00 3.84
1762 2333 5.691305 GCCGATGCTATATTCATGAGATCTC 59.309 44.000 16.21 16.21 33.53 2.75
1792 2363 8.696410 GGATATCCGTGCAAAATTTTCTTTTA 57.304 30.769 5.86 0.00 0.00 1.52
1796 2367 6.801575 TCCGTGCAAAATTTTCTTTTAGACT 58.198 32.000 0.00 0.00 0.00 3.24
1799 2370 8.387354 CCGTGCAAAATTTTCTTTTAGACTTTT 58.613 29.630 0.00 0.00 0.00 2.27
1800 2371 9.753669 CGTGCAAAATTTTCTTTTAGACTTTTT 57.246 25.926 0.00 0.00 0.00 1.94
1827 2398 6.018262 TGTCTTCCTTTTTACATGTTCTGTCG 60.018 38.462 2.30 0.00 39.39 4.35
1833 2404 4.725556 TTTACATGTTCTGTCGCTTGAC 57.274 40.909 2.30 0.00 43.19 3.18
1842 2413 3.146847 TCTGTCGCTTGACTGAGACTTA 58.853 45.455 1.51 0.00 43.17 2.24
1845 2430 3.568430 TGTCGCTTGACTGAGACTTAGAA 59.432 43.478 0.47 0.00 43.29 2.10
1857 2442 6.490040 ACTGAGACTTAGAATGAGATCTAGCC 59.510 42.308 0.47 0.00 33.64 3.93
1858 2443 6.368805 TGAGACTTAGAATGAGATCTAGCCA 58.631 40.000 0.00 0.00 33.64 4.75
1876 2461 3.268334 AGCCACACCCATCAATAAACCTA 59.732 43.478 0.00 0.00 0.00 3.08
1878 2463 4.037923 GCCACACCCATCAATAAACCTATG 59.962 45.833 0.00 0.00 0.00 2.23
1920 3262 5.801531 ACGGTATAGATATCTGGCAAACA 57.198 39.130 15.79 0.00 0.00 2.83
1923 3265 7.224297 ACGGTATAGATATCTGGCAAACATTT 58.776 34.615 15.79 0.00 0.00 2.32
1924 3266 7.173218 ACGGTATAGATATCTGGCAAACATTTG 59.827 37.037 15.79 0.00 41.03 2.32
1934 3276 0.035176 CAAACATTTGCTGGGGGTGG 59.965 55.000 0.00 0.00 0.00 4.61
1938 3280 1.002017 ATTTGCTGGGGGTGGGATG 59.998 57.895 0.00 0.00 0.00 3.51
1943 3285 1.925455 CTGGGGGTGGGATGTCAGT 60.925 63.158 0.00 0.00 0.00 3.41
1953 3295 1.745489 GATGTCAGTGAACGCCCCC 60.745 63.158 0.00 0.00 0.00 5.40
1954 3296 2.463589 GATGTCAGTGAACGCCCCCA 62.464 60.000 0.00 0.00 0.00 4.96
1966 3308 1.075748 GCCCCCAAGCCATCTGATT 60.076 57.895 0.00 0.00 0.00 2.57
1968 3310 1.117150 CCCCCAAGCCATCTGATTTG 58.883 55.000 0.00 0.00 0.00 2.32
1969 3311 1.342275 CCCCCAAGCCATCTGATTTGA 60.342 52.381 2.85 0.00 0.00 2.69
1970 3312 2.674420 CCCCAAGCCATCTGATTTGAT 58.326 47.619 2.85 0.00 0.00 2.57
1971 3313 2.626743 CCCCAAGCCATCTGATTTGATC 59.373 50.000 2.85 0.00 0.00 2.92
1972 3314 3.563223 CCCAAGCCATCTGATTTGATCT 58.437 45.455 2.85 0.00 0.00 2.75
1973 3315 3.568853 CCCAAGCCATCTGATTTGATCTC 59.431 47.826 2.85 0.00 0.00 2.75
1974 3316 4.204799 CCAAGCCATCTGATTTGATCTCA 58.795 43.478 2.85 0.00 0.00 3.27
1975 3317 4.036498 CCAAGCCATCTGATTTGATCTCAC 59.964 45.833 2.85 0.00 0.00 3.51
1976 3318 3.464907 AGCCATCTGATTTGATCTCACG 58.535 45.455 0.00 0.00 0.00 4.35
1978 3320 3.801698 CCATCTGATTTGATCTCACGGT 58.198 45.455 0.00 0.00 0.00 4.83
1979 3321 3.558829 CCATCTGATTTGATCTCACGGTG 59.441 47.826 0.56 0.56 0.00 4.94
2020 3363 5.469760 ACTCCCTGCAAATTAAACAAAATGC 59.530 36.000 0.00 0.00 35.58 3.56
2025 3368 6.072618 CCTGCAAATTAAACAAAATGCCATGA 60.073 34.615 0.00 0.00 34.65 3.07
2028 3371 7.040617 TGCAAATTAAACAAAATGCCATGACAT 60.041 29.630 0.00 0.00 34.65 3.06
2031 3374 9.896263 AAATTAAACAAAATGCCATGACATTTC 57.104 25.926 18.67 0.00 46.80 2.17
2044 3387 6.751888 GCCATGACATTTCTGTAAAATACCAC 59.248 38.462 0.00 0.00 35.14 4.16
2048 3391 5.020795 ACATTTCTGTAAAATACCACCCCC 58.979 41.667 0.00 0.00 32.49 5.40
2061 3404 1.120795 CACCCCCAGCCACACAAAAT 61.121 55.000 0.00 0.00 0.00 1.82
2062 3405 1.120795 ACCCCCAGCCACACAAAATG 61.121 55.000 0.00 0.00 0.00 2.32
2063 3406 1.004679 CCCCAGCCACACAAAATGC 60.005 57.895 0.00 0.00 0.00 3.56
2064 3407 1.004679 CCCAGCCACACAAAATGCC 60.005 57.895 0.00 0.00 0.00 4.40
2065 3408 1.747145 CCAGCCACACAAAATGCCA 59.253 52.632 0.00 0.00 0.00 4.92
2066 3409 0.322322 CCAGCCACACAAAATGCCAT 59.678 50.000 0.00 0.00 0.00 4.40
2067 3410 1.673626 CCAGCCACACAAAATGCCATC 60.674 52.381 0.00 0.00 0.00 3.51
2094 3438 2.693864 CACCCTGCCATCCCTCCT 60.694 66.667 0.00 0.00 0.00 3.69
2163 3507 3.696281 TCATGTGCTTGCAAATATCGG 57.304 42.857 0.00 0.00 0.00 4.18
2166 3510 1.340502 TGTGCTTGCAAATATCGGGGA 60.341 47.619 0.00 0.00 0.00 4.81
2171 3515 4.081198 TGCTTGCAAATATCGGGGAAAAAT 60.081 37.500 0.00 0.00 0.00 1.82
2271 3616 8.085296 ACACGTGAAGCCAAAATTTATATGAAA 58.915 29.630 25.01 0.00 0.00 2.69
2374 3719 4.202357 GGGAGCCATATCTGTACATTCACA 60.202 45.833 0.00 0.00 0.00 3.58
2378 3723 7.661437 GGAGCCATATCTGTACATTCACATTTA 59.339 37.037 0.00 0.00 0.00 1.40
2418 3763 0.462759 GAGGTGATTTGGAGCTCGGG 60.463 60.000 7.83 0.00 0.00 5.14
2421 3766 0.250513 GTGATTTGGAGCTCGGGTCT 59.749 55.000 7.83 0.00 0.00 3.85
2423 3768 0.537188 GATTTGGAGCTCGGGTCTGA 59.463 55.000 7.83 0.00 0.00 3.27
2424 3769 0.539051 ATTTGGAGCTCGGGTCTGAG 59.461 55.000 7.83 2.57 39.05 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 1.478105 GAATTAAGCACCAGGGCCAAG 59.522 52.381 6.18 0.00 0.00 3.61
65 66 1.006832 CGTCGGAATTAAGCACCAGG 58.993 55.000 0.00 0.00 0.00 4.45
66 67 1.659098 GACGTCGGAATTAAGCACCAG 59.341 52.381 0.00 0.00 0.00 4.00
67 68 1.717194 GACGTCGGAATTAAGCACCA 58.283 50.000 0.00 0.00 0.00 4.17
68 69 0.643820 CGACGTCGGAATTAAGCACC 59.356 55.000 29.70 0.00 35.37 5.01
69 70 1.319669 GTCGACGTCGGAATTAAGCAC 59.680 52.381 35.05 19.65 40.29 4.40
70 71 1.068402 TGTCGACGTCGGAATTAAGCA 60.068 47.619 35.05 18.06 40.29 3.91
71 72 1.319669 GTGTCGACGTCGGAATTAAGC 59.680 52.381 35.05 16.04 40.29 3.09
72 73 2.587956 TGTGTCGACGTCGGAATTAAG 58.412 47.619 35.05 7.30 40.29 1.85
74 75 2.702898 TTGTGTCGACGTCGGAATTA 57.297 45.000 35.05 15.12 40.29 1.40
93 136 0.309302 CGCAGCTAGCTAGTCGACAT 59.691 55.000 18.86 5.54 42.61 3.06
137 180 0.956633 AGGACATGTCACACGTACGT 59.043 50.000 26.47 16.72 0.00 3.57
140 183 0.037697 GCCAGGACATGTCACACGTA 60.038 55.000 26.47 0.00 0.00 3.57
141 184 1.301716 GCCAGGACATGTCACACGT 60.302 57.895 26.47 3.36 0.00 4.49
142 185 2.034879 GGCCAGGACATGTCACACG 61.035 63.158 26.47 11.80 0.00 4.49
143 186 1.675641 GGGCCAGGACATGTCACAC 60.676 63.158 26.47 12.58 0.00 3.82
155 198 3.105283 AGTTAGTAGTAACTGGGGCCAG 58.895 50.000 19.94 3.40 45.99 4.85
161 482 5.539048 ACAGCACAAGTTAGTAGTAACTGG 58.461 41.667 21.05 20.20 46.88 4.00
162 483 8.583810 TTTACAGCACAAGTTAGTAGTAACTG 57.416 34.615 21.05 16.80 46.88 3.16
175 496 4.854399 TCCGTCAATTTTTACAGCACAAG 58.146 39.130 0.00 0.00 0.00 3.16
198 520 3.074504 TGCTCAACACGATACGGATAC 57.925 47.619 0.00 0.00 0.00 2.24
208 530 6.183360 ACAGTGATACATAAATGCTCAACACG 60.183 38.462 0.00 0.00 0.00 4.49
211 533 6.036083 ACGACAGTGATACATAAATGCTCAAC 59.964 38.462 0.00 0.00 0.00 3.18
225 547 1.660607 GTACCGTCGACGACAGTGATA 59.339 52.381 37.65 14.96 43.02 2.15
232 554 2.921996 GACATGTACCGTCGACGAC 58.078 57.895 37.65 27.80 43.02 4.34
292 614 4.502604 GCAAAGTGTCACTTGGAGGTAGTA 60.503 45.833 22.17 0.00 38.66 1.82
301 623 4.771590 ATATGGTGCAAAGTGTCACTTG 57.228 40.909 18.84 13.34 38.66 3.16
305 627 4.880759 CCAAAATATGGTGCAAAGTGTCA 58.119 39.130 0.00 0.00 44.85 3.58
326 648 9.941664 GCAAATCAGTATTACATGCATATATCC 57.058 33.333 0.00 0.00 30.18 2.59
330 652 8.294577 CAGTGCAAATCAGTATTACATGCATAT 58.705 33.333 0.00 0.00 38.16 1.78
332 654 6.500910 CAGTGCAAATCAGTATTACATGCAT 58.499 36.000 0.00 0.00 38.16 3.96
335 657 5.882553 TGCAGTGCAAATCAGTATTACATG 58.117 37.500 17.26 0.00 34.76 3.21
336 658 6.704289 ATGCAGTGCAAATCAGTATTACAT 57.296 33.333 23.90 0.00 43.62 2.29
337 659 6.513806 AATGCAGTGCAAATCAGTATTACA 57.486 33.333 23.90 0.00 43.62 2.41
363 685 1.422531 ATGCAGTGCCCCTTCAAAAA 58.577 45.000 13.72 0.00 0.00 1.94
364 686 1.422531 AATGCAGTGCCCCTTCAAAA 58.577 45.000 13.72 0.00 0.00 2.44
365 687 1.422531 AAATGCAGTGCCCCTTCAAA 58.577 45.000 13.72 0.00 0.00 2.69
366 688 1.422531 AAAATGCAGTGCCCCTTCAA 58.577 45.000 13.72 0.00 0.00 2.69
368 690 3.893326 AATAAAATGCAGTGCCCCTTC 57.107 42.857 13.72 0.00 0.00 3.46
371 693 4.322567 TGAAAAATAAAATGCAGTGCCCC 58.677 39.130 13.72 0.00 0.00 5.80
372 694 5.642919 TCATGAAAAATAAAATGCAGTGCCC 59.357 36.000 13.72 0.00 0.00 5.36
373 695 6.147492 TGTCATGAAAAATAAAATGCAGTGCC 59.853 34.615 13.72 0.00 0.00 5.01
374 696 7.119605 TGTCATGAAAAATAAAATGCAGTGC 57.880 32.000 8.58 8.58 0.00 4.40
375 697 7.148540 CCCTGTCATGAAAAATAAAATGCAGTG 60.149 37.037 0.00 0.00 0.00 3.66
378 833 7.002250 TCCCTGTCATGAAAAATAAAATGCA 57.998 32.000 0.00 0.00 0.00 3.96
399 854 1.857965 AAAGGGTAGTACGTCCTCCC 58.142 55.000 7.34 7.34 38.50 4.30
401 856 3.949842 ACAAAAGGGTAGTACGTCCTC 57.050 47.619 0.00 0.00 0.00 3.71
403 858 3.748048 GGAAACAAAAGGGTAGTACGTCC 59.252 47.826 0.00 1.57 0.00 4.79
404 859 3.748048 GGGAAACAAAAGGGTAGTACGTC 59.252 47.826 0.00 0.00 0.00 4.34
407 862 3.076621 CGGGGAAACAAAAGGGTAGTAC 58.923 50.000 0.00 0.00 0.00 2.73
408 863 2.040145 CCGGGGAAACAAAAGGGTAGTA 59.960 50.000 0.00 0.00 0.00 1.82
409 864 1.202964 CCGGGGAAACAAAAGGGTAGT 60.203 52.381 0.00 0.00 0.00 2.73
410 865 1.541379 CCGGGGAAACAAAAGGGTAG 58.459 55.000 0.00 0.00 0.00 3.18
411 866 0.540133 GCCGGGGAAACAAAAGGGTA 60.540 55.000 2.18 0.00 0.00 3.69
412 867 1.835267 GCCGGGGAAACAAAAGGGT 60.835 57.895 2.18 0.00 0.00 4.34
413 868 2.579657 GGCCGGGGAAACAAAAGGG 61.580 63.158 2.18 0.00 0.00 3.95
414 869 2.579657 GGGCCGGGGAAACAAAAGG 61.580 63.158 2.18 0.00 0.00 3.11
415 870 1.403687 TTGGGCCGGGGAAACAAAAG 61.404 55.000 2.18 0.00 0.00 2.27
416 871 1.382695 TTGGGCCGGGGAAACAAAA 60.383 52.632 2.18 0.00 0.00 2.44
420 875 2.675423 GAGTTGGGCCGGGGAAAC 60.675 66.667 2.18 0.00 0.00 2.78
421 876 4.338710 CGAGTTGGGCCGGGGAAA 62.339 66.667 2.18 0.00 0.00 3.13
440 895 0.031857 TGGCAAGTGAAAATGCACCG 59.968 50.000 0.00 0.00 44.32 4.94
443 898 4.447054 CGTAAAATGGCAAGTGAAAATGCA 59.553 37.500 0.00 0.00 44.32 3.96
446 901 5.010617 AGACCGTAAAATGGCAAGTGAAAAT 59.989 36.000 0.00 0.00 0.00 1.82
448 903 3.886505 AGACCGTAAAATGGCAAGTGAAA 59.113 39.130 0.00 0.00 0.00 2.69
449 904 3.252215 CAGACCGTAAAATGGCAAGTGAA 59.748 43.478 0.00 0.00 0.00 3.18
450 905 2.811431 CAGACCGTAAAATGGCAAGTGA 59.189 45.455 0.00 0.00 0.00 3.41
452 907 3.134574 TCAGACCGTAAAATGGCAAGT 57.865 42.857 0.00 0.00 0.00 3.16
453 908 5.006746 GTCTATCAGACCGTAAAATGGCAAG 59.993 44.000 0.00 0.00 39.28 4.01
454 909 4.873827 GTCTATCAGACCGTAAAATGGCAA 59.126 41.667 0.00 0.00 39.28 4.52
455 910 4.081365 TGTCTATCAGACCGTAAAATGGCA 60.081 41.667 3.97 0.00 44.44 4.92
456 911 4.439057 TGTCTATCAGACCGTAAAATGGC 58.561 43.478 3.97 0.00 44.44 4.40
457 912 4.508124 GCTGTCTATCAGACCGTAAAATGG 59.492 45.833 3.97 0.00 44.44 3.16
458 913 4.207224 CGCTGTCTATCAGACCGTAAAATG 59.793 45.833 3.97 0.00 44.44 2.32
459 914 4.360563 CGCTGTCTATCAGACCGTAAAAT 58.639 43.478 3.97 0.00 44.44 1.82
460 915 3.428452 CCGCTGTCTATCAGACCGTAAAA 60.428 47.826 3.97 0.00 44.44 1.52
467 922 0.741326 TCTGCCGCTGTCTATCAGAC 59.259 55.000 0.00 0.00 46.27 3.51
468 923 1.406898 CTTCTGCCGCTGTCTATCAGA 59.593 52.381 0.00 0.00 46.27 3.27
477 1039 2.507992 CGTCCTCTTCTGCCGCTG 60.508 66.667 0.00 0.00 0.00 5.18
535 1097 1.299541 CGATCAACCCGATCCAAAGG 58.700 55.000 0.00 0.00 46.85 3.11
537 1099 0.035915 TGCGATCAACCCGATCCAAA 60.036 50.000 0.00 0.00 46.85 3.28
538 1100 0.742990 GTGCGATCAACCCGATCCAA 60.743 55.000 0.00 0.00 46.85 3.53
539 1101 1.153449 GTGCGATCAACCCGATCCA 60.153 57.895 0.00 0.00 46.85 3.41
540 1102 0.742990 TTGTGCGATCAACCCGATCC 60.743 55.000 0.00 0.00 46.85 3.36
541 1103 1.062587 CTTTGTGCGATCAACCCGATC 59.937 52.381 0.00 0.00 46.19 3.69
542 1104 1.086696 CTTTGTGCGATCAACCCGAT 58.913 50.000 0.00 0.00 36.91 4.18
543 1105 0.953471 CCTTTGTGCGATCAACCCGA 60.953 55.000 0.00 0.00 0.00 5.14
544 1106 0.953471 TCCTTTGTGCGATCAACCCG 60.953 55.000 0.00 0.00 0.00 5.28
545 1107 0.804989 CTCCTTTGTGCGATCAACCC 59.195 55.000 0.00 0.00 0.00 4.11
546 1108 0.169009 GCTCCTTTGTGCGATCAACC 59.831 55.000 0.00 0.00 0.00 3.77
547 1109 3.683581 GCTCCTTTGTGCGATCAAC 57.316 52.632 0.00 0.00 0.00 3.18
566 1128 0.958382 TTGGCCTTACATCACGGCAC 60.958 55.000 3.32 0.00 45.53 5.01
567 1129 0.250945 TTTGGCCTTACATCACGGCA 60.251 50.000 3.32 0.00 45.53 5.69
568 1130 1.065551 GATTTGGCCTTACATCACGGC 59.934 52.381 3.32 0.00 43.03 5.68
569 1131 1.676006 GGATTTGGCCTTACATCACGG 59.324 52.381 3.32 0.00 0.00 4.94
570 1132 1.676006 GGGATTTGGCCTTACATCACG 59.324 52.381 3.32 0.00 0.00 4.35
571 1133 2.031870 GGGGATTTGGCCTTACATCAC 58.968 52.381 3.32 0.78 0.00 3.06
572 1134 1.643286 TGGGGATTTGGCCTTACATCA 59.357 47.619 3.32 0.00 0.00 3.07
582 1144 7.592051 CAACATATTTTGTTTTGGGGATTTGG 58.408 34.615 0.00 0.00 46.51 3.28
632 1194 3.249799 TGTCAGGTTCGCACTACATTTTG 59.750 43.478 0.00 0.00 0.00 2.44
658 1220 8.879759 ACTCACAACGTCACCATATTTTTATAG 58.120 33.333 0.00 0.00 0.00 1.31
666 1228 3.007506 TCCAACTCACAACGTCACCATAT 59.992 43.478 0.00 0.00 0.00 1.78
712 1274 0.030638 AATTGTGTTCGCTGCACACC 59.969 50.000 17.34 4.13 45.20 4.16
780 1343 5.582269 CAGGATTCGATAATTGTGTCACTGT 59.418 40.000 4.27 0.00 0.00 3.55
798 1361 2.040412 GGACCACCTCTTTGTCAGGATT 59.960 50.000 0.00 0.00 34.75 3.01
802 1365 2.638480 TTGGACCACCTCTTTGTCAG 57.362 50.000 0.00 0.00 37.04 3.51
834 1397 5.249622 ACCTTGGGGTTTTATTATTGTTGGG 59.750 40.000 0.00 0.00 44.73 4.12
967 1530 1.214062 GGACGGTGTGAGCTCTCAG 59.786 63.158 18.38 10.57 40.75 3.35
979 1542 1.291272 GTTGCCTCTTACGGACGGT 59.709 57.895 0.00 0.00 0.00 4.83
988 1551 1.228552 ACGCCATTGGTTGCCTCTT 60.229 52.632 4.26 0.00 0.00 2.85
1042 1605 2.113139 CCACTTGAAGGGCACGGT 59.887 61.111 0.00 0.00 0.00 4.83
1494 2062 8.754080 AGAGGCAATCTATAATATAGGTGTGAC 58.246 37.037 7.38 5.73 36.10 3.67
1499 2067 8.901472 TGACAGAGGCAATCTATAATATAGGT 57.099 34.615 7.38 0.00 36.10 3.08
1508 2076 8.754080 GGTAGTATTATGACAGAGGCAATCTAT 58.246 37.037 0.00 0.00 36.10 1.98
1527 2095 4.169068 ACAGAGACTGGATGGAGGTAGTAT 59.831 45.833 0.00 0.00 35.51 2.12
1547 2115 6.222038 TGGTAACTAAGAGGCAATCTACAG 57.778 41.667 0.00 0.00 35.15 2.74
1706 2277 9.430838 CTTGAATTAATCTTAGCAATCTCGTTG 57.569 33.333 0.00 0.00 40.90 4.10
1709 2280 9.994432 AAACTTGAATTAATCTTAGCAATCTCG 57.006 29.630 0.00 0.00 0.00 4.04
1717 2288 7.974675 TCGGCTGAAACTTGAATTAATCTTAG 58.025 34.615 0.00 0.00 0.00 2.18
1725 2296 3.221964 GCATCGGCTGAAACTTGAATT 57.778 42.857 0.00 0.00 36.96 2.17
1739 2310 6.803642 TGAGATCTCATGAATATAGCATCGG 58.196 40.000 21.67 0.00 34.14 4.18
1770 2341 8.573035 AGTCTAAAAGAAAATTTTGCACGGATA 58.427 29.630 8.47 0.00 0.00 2.59
1799 2370 8.527810 ACAGAACATGTAAAAAGGAAGACAAAA 58.472 29.630 0.00 0.00 41.60 2.44
1800 2371 8.062065 ACAGAACATGTAAAAAGGAAGACAAA 57.938 30.769 0.00 0.00 41.60 2.83
1801 2372 7.466725 CGACAGAACATGTAAAAAGGAAGACAA 60.467 37.037 0.00 0.00 44.17 3.18
1802 2373 6.018262 CGACAGAACATGTAAAAAGGAAGACA 60.018 38.462 0.00 0.00 44.17 3.41
1803 2374 6.363473 CGACAGAACATGTAAAAAGGAAGAC 58.637 40.000 0.00 0.00 44.17 3.01
1804 2375 5.049680 GCGACAGAACATGTAAAAAGGAAGA 60.050 40.000 0.00 0.00 44.17 2.87
1805 2376 5.049405 AGCGACAGAACATGTAAAAAGGAAG 60.049 40.000 0.00 0.00 44.17 3.46
1809 2380 5.621228 GTCAAGCGACAGAACATGTAAAAAG 59.379 40.000 0.00 0.00 44.17 2.27
1814 2385 3.005367 TCAGTCAAGCGACAGAACATGTA 59.995 43.478 0.00 0.00 44.17 2.29
1821 2392 1.610363 AGTCTCAGTCAAGCGACAGA 58.390 50.000 0.00 0.00 45.23 3.41
1822 2393 2.430546 AAGTCTCAGTCAAGCGACAG 57.569 50.000 0.00 0.00 45.23 3.51
1827 2398 5.960113 TCTCATTCTAAGTCTCAGTCAAGC 58.040 41.667 0.00 0.00 0.00 4.01
1833 2404 6.489700 TGGCTAGATCTCATTCTAAGTCTCAG 59.510 42.308 0.00 0.00 0.00 3.35
1842 2413 2.703007 GGGTGTGGCTAGATCTCATTCT 59.297 50.000 0.00 0.00 0.00 2.40
1845 2430 2.180946 TGGGTGTGGCTAGATCTCAT 57.819 50.000 0.00 0.00 0.00 2.90
1857 2442 7.279615 TCTACATAGGTTTATTGATGGGTGTG 58.720 38.462 0.00 0.00 0.00 3.82
1858 2443 7.446106 TCTACATAGGTTTATTGATGGGTGT 57.554 36.000 0.00 0.00 0.00 4.16
1899 2485 7.521529 CAAATGTTTGCCAGATATCTATACCG 58.478 38.462 4.54 0.00 0.00 4.02
1920 3262 1.002017 CATCCCACCCCCAGCAAAT 59.998 57.895 0.00 0.00 0.00 2.32
1923 3265 3.338250 GACATCCCACCCCCAGCA 61.338 66.667 0.00 0.00 0.00 4.41
1924 3266 3.338250 TGACATCCCACCCCCAGC 61.338 66.667 0.00 0.00 0.00 4.85
1928 3270 0.322546 GTTCACTGACATCCCACCCC 60.323 60.000 0.00 0.00 0.00 4.95
1934 3276 1.745489 GGGGCGTTCACTGACATCC 60.745 63.158 0.00 0.00 0.00 3.51
1938 3280 1.966451 CTTGGGGGCGTTCACTGAC 60.966 63.158 0.00 0.00 0.00 3.51
1943 3285 3.936772 GATGGCTTGGGGGCGTTCA 62.937 63.158 0.00 0.00 44.11 3.18
1953 3295 4.260661 CGTGAGATCAAATCAGATGGCTTG 60.261 45.833 0.00 0.00 0.00 4.01
1954 3296 3.875727 CGTGAGATCAAATCAGATGGCTT 59.124 43.478 0.00 0.00 0.00 4.35
1966 3308 2.198827 AATTGCCACCGTGAGATCAA 57.801 45.000 0.00 0.00 0.00 2.57
1968 3310 3.244976 CAAAAATTGCCACCGTGAGATC 58.755 45.455 0.00 0.00 0.00 2.75
1969 3311 3.302365 CAAAAATTGCCACCGTGAGAT 57.698 42.857 0.00 0.00 0.00 2.75
1970 3312 2.791383 CAAAAATTGCCACCGTGAGA 57.209 45.000 0.00 0.00 0.00 3.27
2002 3345 6.261603 TGTCATGGCATTTTGTTTAATTTGCA 59.738 30.769 0.00 0.00 0.00 4.08
2020 3363 7.257722 GGTGGTATTTTACAGAAATGTCATGG 58.742 38.462 0.00 0.00 0.00 3.66
2025 3368 5.020795 GGGGGTGGTATTTTACAGAAATGT 58.979 41.667 0.00 0.00 0.00 2.71
2028 3371 4.668636 CTGGGGGTGGTATTTTACAGAAA 58.331 43.478 0.00 0.00 0.00 2.52
2031 3374 2.375146 GCTGGGGGTGGTATTTTACAG 58.625 52.381 0.00 0.00 0.00 2.74
2044 3387 1.672898 CATTTTGTGTGGCTGGGGG 59.327 57.895 0.00 0.00 0.00 5.40
2048 3391 1.274167 AGATGGCATTTTGTGTGGCTG 59.726 47.619 0.00 0.00 42.13 4.85
2063 3406 1.450312 GGGTGAACGCCTCAGATGG 60.450 63.158 4.41 0.00 33.60 3.51
2064 3407 0.742281 CAGGGTGAACGCCTCAGATG 60.742 60.000 4.41 0.00 33.60 2.90
2065 3408 1.599047 CAGGGTGAACGCCTCAGAT 59.401 57.895 4.41 0.00 33.60 2.90
2066 3409 3.059982 CAGGGTGAACGCCTCAGA 58.940 61.111 4.41 0.00 33.60 3.27
2067 3410 2.743928 GCAGGGTGAACGCCTCAG 60.744 66.667 4.41 0.00 33.60 3.35
2078 3421 1.074167 CTAGGAGGGATGGCAGGGT 60.074 63.158 0.00 0.00 0.00 4.34
2094 3438 1.669760 CCCTTGCGAACGGTTGCTA 60.670 57.895 15.09 5.29 0.00 3.49
2229 3574 8.800031 GCTTCACGTGTTAAACAATTTTAGAAA 58.200 29.630 16.51 0.00 0.00 2.52
2247 3592 8.921670 GTTTTCATATAAATTTTGGCTTCACGT 58.078 29.630 0.00 0.00 0.00 4.49
2271 3616 4.320023 TCCACACGTGCAAGTTATATGTT 58.680 39.130 17.22 0.00 0.00 2.71
2286 3631 8.661257 TCAACAATATATGTAAAGTTCCACACG 58.339 33.333 0.00 0.00 42.99 4.49
2324 3669 8.836109 GCATAAACGGCAATTTTTAAATCAAAC 58.164 29.630 0.00 0.00 0.00 2.93
2327 3672 6.756176 CGCATAAACGGCAATTTTTAAATCA 58.244 32.000 0.00 0.00 0.00 2.57
2343 3688 2.744202 CAGATATGGCTCCCGCATAAAC 59.256 50.000 0.00 0.00 38.10 2.01
2383 3728 8.514594 CAAATCACCTCACTTGTAATTATGTGT 58.485 33.333 12.60 0.82 0.00 3.72
2384 3729 7.970061 CCAAATCACCTCACTTGTAATTATGTG 59.030 37.037 8.83 8.83 0.00 3.21
2387 3732 7.067494 GCTCCAAATCACCTCACTTGTAATTAT 59.933 37.037 0.00 0.00 0.00 1.28
2395 3740 2.613977 CGAGCTCCAAATCACCTCACTT 60.614 50.000 8.47 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.