Multiple sequence alignment - TraesCS7A01G112000

Loading Multiple Alignment...

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 TraesCS7A01G112000 chr7A 100.000 4532 0 0 1 4532 68857833 68862364 0.000000e+00 8370
1 TraesCS7A01G112000 chr7A 87.405 786 75 12 3065 3849 68899068 68899830 0.000000e+00 881
2 TraesCS7A01G112000 chr7A 84.170 518 64 12 4018 4532 68900580 68901082 1.900000e-133 486
3 TraesCS7A01G112000 chr7A 86.538 156 15 4 4098 4253 68319730 68319879 2.800000e-37 167
4 TraesCS7A01G112000 chr7D 87.114 3073 218 88 19 3015 64695766 64698736 0.000000e+00 3317
5 TraesCS7A01G112000 chr7D 93.673 1470 54 13 3067 4532 64698757 64700191 0.000000e+00 2163
6 TraesCS7A01G112000 chr7D 83.140 516 73 10 4018 4532 64735303 64735805 4.130000e-125 459
7 TraesCS7A01G112000 chr7B 88.103 2320 165 56 755 3015 6177227 6179494 0.000000e+00 2652
8 TraesCS7A01G112000 chr7B 93.059 1412 66 14 3065 4475 6179513 6180893 0.000000e+00 2036
9 TraesCS7A01G112000 chr7B 84.091 528 24 14 20 534 6176725 6177205 5.340000e-124 455
10 TraesCS7A01G112000 chr7B 83.104 509 74 8 4024 4532 6373685 6374181 1.920000e-123 453
11 TraesCS7A01G112000 chr7B 82.176 432 65 6 4101 4532 6033428 6033847 1.200000e-95 361
12 TraesCS7A01G112000 chr7B 90.741 270 14 5 707 975 462459890 462459631 2.590000e-92 350
13 TraesCS7A01G112000 chr7B 80.500 400 36 16 19 397 462460488 462460110 7.470000e-68 268
14 TraesCS7A01G112000 chr4B 86.214 486 52 12 1795 2272 368832476 368832954 3.130000e-141 512
15 TraesCS7A01G112000 chr3B 92.339 248 9 3 728 975 680860143 680859906 1.210000e-90 344
16 TraesCS7A01G112000 chr3B 80.882 408 37 16 19 405 680861333 680860946 2.670000e-72 283


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 TraesCS7A01G112000 chr7A 68857833 68862364 4531 False 8370.000000 8370 100.000000 1 4532 1 chr7A.!!$F2 4531
1 TraesCS7A01G112000 chr7A 68899068 68901082 2014 False 683.500000 881 85.787500 3065 4532 2 chr7A.!!$F3 1467
2 TraesCS7A01G112000 chr7D 64695766 64700191 4425 False 2740.000000 3317 90.393500 19 4532 2 chr7D.!!$F2 4513
3 TraesCS7A01G112000 chr7D 64735303 64735805 502 False 459.000000 459 83.140000 4018 4532 1 chr7D.!!$F1 514
4 TraesCS7A01G112000 chr7B 6176725 6180893 4168 False 1714.333333 2652 88.417667 20 4475 3 chr7B.!!$F3 4455
5 TraesCS7A01G112000 chr7B 462459631 462460488 857 True 309.000000 350 85.620500 19 975 2 chr7B.!!$R1 956
6 TraesCS7A01G112000 chr3B 680859906 680861333 1427 True 313.500000 344 86.610500 19 975 2 chr3B.!!$R1 956

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
675 710 0.238289 CTGCGTGCGATTTCCTGTTT 59.762 50.0 0.0 0.0 0.00 2.83 F
1484 2314 0.033504 TTCTCTGTCGAGTTGGGTGC 59.966 55.0 0.0 0.0 38.45 5.01 F
2335 3244 0.234106 CTGAAGACAACGCAGCACTG 59.766 55.0 0.0 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1780 2661 0.524180 CGTAACTCGCGGGGTACTTC 60.524 60.0 29.99 6.34 0.00 3.01 R
2724 3633 0.944386 GAAACAGAGTTGGCGCAAGA 59.056 50.0 10.83 0.00 43.02 3.02 R
3762 4684 0.180642 CCAGCAGACAGAGATGGCAT 59.819 55.0 0.00 0.00 0.00 4.40 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
133 138 0.652592 CAACGCCTGATCGGATTCAC 59.347 55.000 2.08 0.00 33.16 3.18
141 146 2.038329 TCGGATTCACGAGGGGGT 59.962 61.111 0.00 0.00 38.06 4.95
142 147 2.056223 TCGGATTCACGAGGGGGTC 61.056 63.158 0.00 0.00 38.06 4.46
273 296 1.067060 GCTGTTTGTTTGGTGGTCTCC 59.933 52.381 0.00 0.00 0.00 3.71
378 401 0.390472 GGTTCTGGAGAGCTTGGTCG 60.390 60.000 0.00 0.00 0.00 4.79
383 406 2.435059 GAGAGCTTGGTCGGGTGC 60.435 66.667 0.00 0.00 0.00 5.01
412 435 1.007580 GAAAGCCCCGATCTTTCGTC 58.992 55.000 7.77 0.00 43.97 4.20
482 516 0.322816 TCTGATTTGCTGCCCCTGTC 60.323 55.000 0.00 0.00 0.00 3.51
498 533 5.394115 GCCCCTGTCAATTGTTTTATTCGAT 60.394 40.000 5.13 0.00 0.00 3.59
499 534 6.630071 CCCCTGTCAATTGTTTTATTCGATT 58.370 36.000 5.13 0.00 0.00 3.34
532 567 2.478539 GCCATCCTCGTTCAATTTCTGC 60.479 50.000 0.00 0.00 0.00 4.26
533 568 2.749076 CCATCCTCGTTCAATTTCTGCA 59.251 45.455 0.00 0.00 0.00 4.41
542 577 7.043325 CCTCGTTCAATTTCTGCATACTACTAC 60.043 40.741 0.00 0.00 0.00 2.73
546 581 9.032420 GTTCAATTTCTGCATACTACTACTACC 57.968 37.037 0.00 0.00 0.00 3.18
548 583 8.195436 TCAATTTCTGCATACTACTACTACCAC 58.805 37.037 0.00 0.00 0.00 4.16
550 585 6.694877 TTCTGCATACTACTACTACCACTG 57.305 41.667 0.00 0.00 0.00 3.66
554 589 4.338682 GCATACTACTACTACCACTGCAGT 59.661 45.833 15.25 15.25 0.00 4.40
555 590 5.163540 GCATACTACTACTACCACTGCAGTT 60.164 44.000 18.94 6.43 0.00 3.16
585 620 8.306761 TCTTGAGATTTTGGAGAATTAAAAGGC 58.693 33.333 0.00 0.00 0.00 4.35
587 622 8.193953 TGAGATTTTGGAGAATTAAAAGGCTT 57.806 30.769 0.00 0.00 0.00 4.35
588 623 8.306761 TGAGATTTTGGAGAATTAAAAGGCTTC 58.693 33.333 0.00 0.00 0.00 3.86
589 624 8.427902 AGATTTTGGAGAATTAAAAGGCTTCT 57.572 30.769 0.00 0.00 32.09 2.85
597 632 7.148154 GGAGAATTAAAAGGCTTCTCTTTCTCC 60.148 40.741 27.67 27.67 42.81 3.71
608 643 3.589988 TCTCTTTCTCCGTTTCTCATGC 58.410 45.455 0.00 0.00 0.00 4.06
610 645 3.589988 TCTTTCTCCGTTTCTCATGCTC 58.410 45.455 0.00 0.00 0.00 4.26
612 647 0.537188 TCTCCGTTTCTCATGCTCCC 59.463 55.000 0.00 0.00 0.00 4.30
635 670 2.668024 TGCCGTTGCATGCTCCTA 59.332 55.556 20.33 0.00 44.23 2.94
636 671 1.450134 TGCCGTTGCATGCTCCTAG 60.450 57.895 20.33 5.14 44.23 3.02
640 675 1.212616 CGTTGCATGCTCCTAGTAGC 58.787 55.000 20.33 0.00 43.08 3.58
661 696 0.598065 GCAATTCAGAAACCCTGCGT 59.402 50.000 0.00 0.00 42.62 5.24
662 697 1.666888 GCAATTCAGAAACCCTGCGTG 60.667 52.381 0.00 0.00 42.62 5.34
663 698 0.598065 AATTCAGAAACCCTGCGTGC 59.402 50.000 0.00 0.00 42.62 5.34
664 699 1.577328 ATTCAGAAACCCTGCGTGCG 61.577 55.000 0.00 0.00 42.62 5.34
665 700 2.652382 TTCAGAAACCCTGCGTGCGA 62.652 55.000 0.00 0.00 42.62 5.10
667 702 1.302511 AGAAACCCTGCGTGCGATT 60.303 52.632 0.00 0.00 0.00 3.34
668 703 0.889186 AGAAACCCTGCGTGCGATTT 60.889 50.000 0.00 0.00 0.00 2.17
669 704 0.454452 GAAACCCTGCGTGCGATTTC 60.454 55.000 0.00 0.00 0.00 2.17
670 705 1.862602 AAACCCTGCGTGCGATTTCC 61.863 55.000 0.00 0.00 0.00 3.13
672 707 2.753966 CCCTGCGTGCGATTTCCTG 61.754 63.158 0.00 0.00 0.00 3.86
674 709 1.577328 CCTGCGTGCGATTTCCTGTT 61.577 55.000 0.00 0.00 0.00 3.16
675 710 0.238289 CTGCGTGCGATTTCCTGTTT 59.762 50.000 0.00 0.00 0.00 2.83
676 711 1.463056 CTGCGTGCGATTTCCTGTTTA 59.537 47.619 0.00 0.00 0.00 2.01
678 713 1.463444 GCGTGCGATTTCCTGTTTACT 59.537 47.619 0.00 0.00 0.00 2.24
679 714 2.724839 GCGTGCGATTTCCTGTTTACTG 60.725 50.000 0.00 0.00 0.00 2.74
680 715 2.478894 CGTGCGATTTCCTGTTTACTGT 59.521 45.455 0.00 0.00 0.00 3.55
681 716 3.423123 CGTGCGATTTCCTGTTTACTGTC 60.423 47.826 0.00 0.00 0.00 3.51
682 717 3.746492 GTGCGATTTCCTGTTTACTGTCT 59.254 43.478 0.00 0.00 0.00 3.41
683 718 4.927425 GTGCGATTTCCTGTTTACTGTCTA 59.073 41.667 0.00 0.00 0.00 2.59
684 719 5.062308 GTGCGATTTCCTGTTTACTGTCTAG 59.938 44.000 0.00 0.00 0.00 2.43
685 720 5.047590 TGCGATTTCCTGTTTACTGTCTAGA 60.048 40.000 0.00 0.00 0.00 2.43
686 721 6.043411 GCGATTTCCTGTTTACTGTCTAGAT 58.957 40.000 0.00 0.00 0.00 1.98
687 722 7.147966 TGCGATTTCCTGTTTACTGTCTAGATA 60.148 37.037 0.00 0.00 0.00 1.98
689 724 7.380065 CGATTTCCTGTTTACTGTCTAGATAGC 59.620 40.741 15.79 1.19 0.00 2.97
690 725 7.719871 TTTCCTGTTTACTGTCTAGATAGCT 57.280 36.000 15.79 6.62 0.00 3.32
691 726 6.701145 TCCTGTTTACTGTCTAGATAGCTG 57.299 41.667 15.79 4.56 0.00 4.24
692 727 6.424032 TCCTGTTTACTGTCTAGATAGCTGA 58.576 40.000 15.79 0.00 0.00 4.26
739 1542 3.393800 AGGACACTGAACTTGTTCATCG 58.606 45.455 15.35 11.95 0.00 3.84
747 1550 0.250467 ACTTGTTCATCGGCTGCACT 60.250 50.000 0.50 0.00 0.00 4.40
748 1551 1.001974 ACTTGTTCATCGGCTGCACTA 59.998 47.619 0.50 0.00 0.00 2.74
749 1552 1.662629 CTTGTTCATCGGCTGCACTAG 59.337 52.381 0.50 0.00 0.00 2.57
876 1683 3.381590 GTCTCACCCCAAATAAATCCTGC 59.618 47.826 0.00 0.00 0.00 4.85
877 1684 3.011144 TCTCACCCCAAATAAATCCTGCA 59.989 43.478 0.00 0.00 0.00 4.41
878 1685 3.364549 TCACCCCAAATAAATCCTGCAG 58.635 45.455 6.78 6.78 0.00 4.41
879 1686 3.011144 TCACCCCAAATAAATCCTGCAGA 59.989 43.478 17.39 1.21 0.00 4.26
937 1744 3.578282 GGCAAGGGAATTTTCAAAGGAGA 59.422 43.478 0.00 0.00 0.00 3.71
948 1755 9.623350 GAATTTTCAAAGGAGAAATCTGAAGAG 57.377 33.333 0.00 0.00 37.35 2.85
992 1799 0.733223 GAACTCCTGGTCGACGAAGC 60.733 60.000 9.92 0.00 0.00 3.86
995 1802 1.587043 CTCCTGGTCGACGAAGCAGA 61.587 60.000 17.78 7.92 45.46 4.26
1008 1815 1.792757 AAGCAGAAGCCATGGGGTCA 61.793 55.000 15.13 0.00 43.56 4.02
1110 1917 0.611618 TCCACCCACATCAACATGCC 60.612 55.000 0.00 0.00 32.57 4.40
1111 1918 1.606885 CCACCCACATCAACATGCCC 61.607 60.000 0.00 0.00 32.57 5.36
1112 1919 1.305213 ACCCACATCAACATGCCCC 60.305 57.895 0.00 0.00 32.57 5.80
1123 1939 2.634453 CAACATGCCCCCTTTCTTTTCT 59.366 45.455 0.00 0.00 0.00 2.52
1124 1940 2.976440 ACATGCCCCCTTTCTTTTCTT 58.024 42.857 0.00 0.00 0.00 2.52
1135 1951 5.473846 CCCTTTCTTTTCTTTACCACTCTCC 59.526 44.000 0.00 0.00 0.00 3.71
1140 1956 7.079451 TCTTTTCTTTACCACTCTCCAGAAT 57.921 36.000 0.00 0.00 0.00 2.40
1190 2009 7.305813 TCTTTAAATTTCCCTTTACCCCAAC 57.694 36.000 0.00 0.00 0.00 3.77
1217 2045 1.843376 CCACACCCTGACTCACCCT 60.843 63.158 0.00 0.00 0.00 4.34
1218 2046 1.372683 CACACCCTGACTCACCCTG 59.627 63.158 0.00 0.00 0.00 4.45
1219 2047 1.843376 ACACCCTGACTCACCCTGG 60.843 63.158 0.00 0.00 0.00 4.45
1220 2048 2.930562 ACCCTGACTCACCCTGGC 60.931 66.667 0.00 0.00 0.00 4.85
1221 2049 3.721706 CCCTGACTCACCCTGGCC 61.722 72.222 0.00 0.00 0.00 5.36
1222 2050 3.721706 CCTGACTCACCCTGGCCC 61.722 72.222 0.00 0.00 0.00 5.80
1303 2132 8.496707 TCCACATCATATTCCATCATTATTCG 57.503 34.615 0.00 0.00 0.00 3.34
1348 2177 3.654201 CACCGCTTTGTGCTGCTA 58.346 55.556 0.00 0.00 40.11 3.49
1368 2197 1.299541 CAACTTGGTGACTTGTCGCT 58.700 50.000 13.05 0.00 0.00 4.93
1401 2230 6.828785 TCATAATGGAGGAAAGTAAGAAAGCC 59.171 38.462 0.00 0.00 0.00 4.35
1418 2247 1.157257 GCCTTGGTTTGTTTTGCCGG 61.157 55.000 0.00 0.00 0.00 6.13
1484 2314 0.033504 TTCTCTGTCGAGTTGGGTGC 59.966 55.000 0.00 0.00 38.45 5.01
1487 2317 2.280797 TGTCGAGTTGGGTGCTGC 60.281 61.111 0.00 0.00 0.00 5.25
1496 2326 0.471591 TTGGGTGCTGCCTTGGATTT 60.472 50.000 0.00 0.00 37.43 2.17
1534 2366 4.712425 CTTGCCTGCGTGCCTTGC 62.712 66.667 0.00 0.00 0.00 4.01
1546 2378 0.746063 TGCCTTGCAGAGTTTTGGTG 59.254 50.000 0.00 0.00 33.32 4.17
1620 2452 3.028130 TCGTCAGCATAGGTGTTGGATA 58.972 45.455 0.00 0.00 37.20 2.59
1689 2570 5.480073 TGATATGGTTGGGGAAAACTGAAAG 59.520 40.000 0.00 0.00 42.29 2.62
1712 2593 3.382227 CCATGACCATTCTTTGCTATGCA 59.618 43.478 0.00 0.00 36.47 3.96
1774 2655 8.744652 TGAATTTTCAGAAACTTGTGTTCCTTA 58.255 29.630 3.32 0.00 32.20 2.69
1776 2657 7.931578 TTTTCAGAAACTTGTGTTCCTTAGA 57.068 32.000 0.00 0.00 34.96 2.10
1780 2661 7.985476 TCAGAAACTTGTGTTCCTTAGAAAAG 58.015 34.615 0.00 0.00 34.96 2.27
1783 2664 8.678199 AGAAACTTGTGTTCCTTAGAAAAGAAG 58.322 33.333 2.30 2.30 43.24 2.85
1791 2672 3.055602 TCCTTAGAAAAGAAGTACCCCGC 60.056 47.826 0.00 0.00 34.37 6.13
1794 2675 1.067071 AGAAAAGAAGTACCCCGCGAG 60.067 52.381 8.23 0.00 0.00 5.03
1805 2690 2.807895 CCGCGAGTTACGGTGTGG 60.808 66.667 8.23 0.00 45.70 4.17
1806 2691 2.256158 CGCGAGTTACGGTGTGGA 59.744 61.111 0.00 0.00 42.83 4.02
1816 2701 4.693566 AGTTACGGTGTGGATGTACAAATG 59.306 41.667 0.00 0.00 31.36 2.32
1820 2705 3.120338 CGGTGTGGATGTACAAATGTCAC 60.120 47.826 0.00 6.36 31.36 3.67
1829 2714 5.163302 TGTACAAATGTCACTTTTGGACG 57.837 39.130 20.93 0.00 46.43 4.79
1831 2716 4.712122 ACAAATGTCACTTTTGGACGTT 57.288 36.364 17.82 3.70 44.17 3.99
1833 2718 4.082463 ACAAATGTCACTTTTGGACGTTGT 60.082 37.500 17.82 9.32 42.12 3.32
1853 2738 3.070018 GTTCATTGGACTGGTCTGTGAG 58.930 50.000 0.67 0.00 0.00 3.51
1882 2767 1.003580 GACTGCTGAAATGGGTCCAGA 59.996 52.381 0.00 0.00 0.00 3.86
1883 2768 1.004044 ACTGCTGAAATGGGTCCAGAG 59.996 52.381 0.00 0.00 0.00 3.35
1917 2802 3.138304 TGACTGTTGAATTGGTCCTTCG 58.862 45.455 0.00 0.00 0.00 3.79
1920 2805 4.315803 ACTGTTGAATTGGTCCTTCGTAG 58.684 43.478 0.00 0.00 0.00 3.51
1925 2810 3.260884 TGAATTGGTCCTTCGTAGCTTCT 59.739 43.478 0.00 0.00 0.00 2.85
1947 2832 3.701532 TTTTTCTGCCACGTCGATTTT 57.298 38.095 0.00 0.00 0.00 1.82
1958 2843 3.184379 CACGTCGATTTTGATATGCCGAT 59.816 43.478 0.00 0.00 0.00 4.18
1990 2875 2.978978 TCCCTTGACTCATTCCTTGTGA 59.021 45.455 0.00 0.00 0.00 3.58
1992 2877 4.782691 TCCCTTGACTCATTCCTTGTGATA 59.217 41.667 0.00 0.00 0.00 2.15
2027 2920 7.824779 GTGGTCTAAATTAGAATGAACTCTGGT 59.175 37.037 4.04 0.00 36.40 4.00
2071 2974 4.683832 ACGCTACTGACTACATTCCATTC 58.316 43.478 0.00 0.00 0.00 2.67
2083 2986 6.721208 ACTACATTCCATTCTGGTCAACATTT 59.279 34.615 0.00 0.00 39.03 2.32
2131 3035 3.503827 TTGTCATACCAGCTACAGTCG 57.496 47.619 0.00 0.00 0.00 4.18
2167 3071 2.503356 ACCTGGACATCTGAACATCCTC 59.497 50.000 0.00 0.00 32.06 3.71
2183 3088 6.114187 ACATCCTCGATGAATTAAGCCATA 57.886 37.500 8.57 0.00 42.09 2.74
2326 3235 1.569479 GCAGCGACCCTGAAGACAAC 61.569 60.000 0.00 0.00 44.64 3.32
2335 3244 0.234106 CTGAAGACAACGCAGCACTG 59.766 55.000 0.00 0.00 0.00 3.66
2341 3250 1.160329 ACAACGCAGCACTGGAAGAC 61.160 55.000 0.00 0.00 37.43 3.01
2398 3307 4.084537 CGCCACAAGGTAATATCGACAATC 60.085 45.833 0.00 0.00 37.19 2.67
2402 3311 7.207383 CCACAAGGTAATATCGACAATCTACA 58.793 38.462 0.00 0.00 0.00 2.74
2463 3372 7.582667 AGGTAACATATTGCATTTTCCCTAC 57.417 36.000 0.00 0.00 41.41 3.18
2471 3380 9.630098 CATATTGCATTTTCCCTACATAATCAC 57.370 33.333 0.00 0.00 0.00 3.06
2496 3405 0.962356 AAATGCAGGCAAGGAGGACG 60.962 55.000 0.00 0.00 0.00 4.79
2575 3484 1.526917 AAGCAGACCAGTGCCACAC 60.527 57.895 0.00 0.00 45.20 3.82
2643 3552 1.210155 GCGTGCTTTCATGGTCACC 59.790 57.895 0.00 0.00 0.00 4.02
2676 3585 4.384940 ACAGGAAGAAGAAGCAAGAGAAC 58.615 43.478 0.00 0.00 0.00 3.01
2703 3612 3.384146 TCAAACTTGATGCAAAGCTCCAA 59.616 39.130 0.00 0.00 31.01 3.53
2707 3616 4.964593 ACTTGATGCAAAGCTCCAAAATT 58.035 34.783 0.00 0.00 0.00 1.82
2724 3633 7.734942 TCCAAAATTTGCAGGTAATTCTCTTT 58.265 30.769 0.00 0.00 0.00 2.52
2729 3638 5.376854 TTGCAGGTAATTCTCTTTCTTGC 57.623 39.130 0.00 0.00 0.00 4.01
2732 3641 3.010420 AGGTAATTCTCTTTCTTGCGCC 58.990 45.455 4.18 0.00 0.00 6.53
2733 3642 2.747446 GGTAATTCTCTTTCTTGCGCCA 59.253 45.455 4.18 0.00 0.00 5.69
2743 3652 0.944386 TCTTGCGCCAACTCTGTTTC 59.056 50.000 4.18 0.00 0.00 2.78
2744 3653 0.947244 CTTGCGCCAACTCTGTTTCT 59.053 50.000 4.18 0.00 0.00 2.52
2762 3671 3.507162 TCTTCATCAGAAAGTTGCCCA 57.493 42.857 0.00 0.00 32.35 5.36
2763 3672 4.038271 TCTTCATCAGAAAGTTGCCCAT 57.962 40.909 0.00 0.00 32.35 4.00
2764 3673 4.410099 TCTTCATCAGAAAGTTGCCCATT 58.590 39.130 0.00 0.00 32.35 3.16
2765 3674 4.219070 TCTTCATCAGAAAGTTGCCCATTG 59.781 41.667 0.00 0.00 32.35 2.82
2766 3675 2.827322 TCATCAGAAAGTTGCCCATTGG 59.173 45.455 0.00 0.00 0.00 3.16
2767 3676 2.380064 TCAGAAAGTTGCCCATTGGT 57.620 45.000 1.20 0.00 0.00 3.67
2768 3677 2.676748 TCAGAAAGTTGCCCATTGGTT 58.323 42.857 1.20 0.00 0.00 3.67
2769 3678 2.364970 TCAGAAAGTTGCCCATTGGTTG 59.635 45.455 1.20 0.00 0.00 3.77
2812 3722 9.606631 AGAGTATGAGTTCCTTGACATTTTATC 57.393 33.333 0.00 0.00 0.00 1.75
2971 3882 7.039011 CCATCAGGTTCATACTGGCTACTAATA 60.039 40.741 0.00 0.00 36.62 0.98
2983 3894 6.154534 ACTGGCTACTAATACTCACATCACAA 59.845 38.462 0.00 0.00 0.00 3.33
2984 3895 7.124573 TGGCTACTAATACTCACATCACAAT 57.875 36.000 0.00 0.00 0.00 2.71
3001 3912 9.872721 ACATCACAATTCATTATATTGCAACAA 57.127 25.926 0.00 0.00 36.65 2.83
3015 3926 4.870123 TGCAACAATTCATGCCTAAAGT 57.130 36.364 8.97 0.00 41.87 2.66
3018 3929 6.753180 TGCAACAATTCATGCCTAAAGTTTA 58.247 32.000 8.97 0.00 41.87 2.01
3021 3932 9.533253 GCAACAATTCATGCCTAAAGTTTATAT 57.467 29.630 0.00 0.00 36.56 0.86
3031 3942 8.780846 TGCCTAAAGTTTATATTCGAAACTCA 57.219 30.769 0.00 0.00 44.43 3.41
3032 3943 9.391006 TGCCTAAAGTTTATATTCGAAACTCAT 57.609 29.630 0.00 0.00 44.43 2.90
3033 3944 9.651718 GCCTAAAGTTTATATTCGAAACTCATG 57.348 33.333 0.00 0.00 44.43 3.07
3043 3954 6.992063 ATTCGAAACTCATGATTAACTGCT 57.008 33.333 0.00 0.00 0.00 4.24
3044 3955 6.408858 TTCGAAACTCATGATTAACTGCTC 57.591 37.500 0.00 0.00 0.00 4.26
3045 3956 4.870426 TCGAAACTCATGATTAACTGCTCC 59.130 41.667 0.00 0.00 0.00 4.70
3046 3957 4.631377 CGAAACTCATGATTAACTGCTCCA 59.369 41.667 0.00 0.00 0.00 3.86
3047 3958 5.446473 CGAAACTCATGATTAACTGCTCCAC 60.446 44.000 0.00 0.00 0.00 4.02
3048 3959 4.558226 ACTCATGATTAACTGCTCCACA 57.442 40.909 0.00 0.00 0.00 4.17
3095 4006 9.986157 ATCTCAATGATTATAAACCATATGCCT 57.014 29.630 0.00 0.00 29.59 4.75
3357 4272 2.152016 GACCGGAAAGTTCCCAAGAAG 58.848 52.381 9.46 0.00 44.67 2.85
3378 4293 3.207321 AGAAGTCATCTCCCTCTCCTGAT 59.793 47.826 0.00 0.00 30.46 2.90
3447 4362 2.855514 GCAGAAACCAAAGGCGGCA 61.856 57.895 13.08 0.00 0.00 5.69
3466 4388 4.035102 GCCCTCCCAAGGCGAAGT 62.035 66.667 0.00 0.00 41.41 3.01
3744 4666 3.490933 GGATCTCTACTGTGCGCATTGTA 60.491 47.826 15.91 18.21 0.00 2.41
3760 4682 5.940192 CATTGTATGCGGGTGTGTAATAT 57.060 39.130 0.00 0.00 0.00 1.28
3761 4683 5.688823 CATTGTATGCGGGTGTGTAATATG 58.311 41.667 0.00 0.00 0.00 1.78
3762 4684 4.674281 TGTATGCGGGTGTGTAATATGA 57.326 40.909 0.00 0.00 0.00 2.15
3763 4685 5.222079 TGTATGCGGGTGTGTAATATGAT 57.778 39.130 0.00 0.00 0.00 2.45
3764 4686 4.994217 TGTATGCGGGTGTGTAATATGATG 59.006 41.667 0.00 0.00 0.00 3.07
3765 4687 2.217750 TGCGGGTGTGTAATATGATGC 58.782 47.619 0.00 0.00 0.00 3.91
3766 4688 1.535462 GCGGGTGTGTAATATGATGCC 59.465 52.381 0.00 0.00 0.00 4.40
3785 4715 0.462225 CATCTCTGTCTGCTGGGCTG 60.462 60.000 0.00 0.00 0.00 4.85
3884 4814 8.487313 TGTGTAACATATTGTTGTAGGTGATC 57.513 34.615 3.22 0.00 45.67 2.92
3885 4815 7.276878 TGTGTAACATATTGTTGTAGGTGATCG 59.723 37.037 3.22 0.00 45.67 3.69
3886 4816 7.490079 GTGTAACATATTGTTGTAGGTGATCGA 59.510 37.037 3.22 0.00 41.30 3.59
3931 5428 0.894835 GTGCCGGGGACATGATTTTT 59.105 50.000 14.36 0.00 0.00 1.94
3987 5513 6.913170 TCAAATTCAAACTGCATCTACTTCC 58.087 36.000 0.00 0.00 0.00 3.46
4058 5584 7.605309 GCATTTGGAATTTTCTCTTCTTTCCAT 59.395 33.333 3.74 0.00 43.82 3.41
4059 5585 8.932791 CATTTGGAATTTTCTCTTCTTTCCATG 58.067 33.333 3.74 0.00 43.82 3.66
4060 5586 7.601705 TTGGAATTTTCTCTTCTTTCCATGT 57.398 32.000 3.74 0.00 43.82 3.21
4118 5644 2.359975 CAGGGAAGAACCACCGCC 60.360 66.667 0.00 0.00 41.20 6.13
4395 5921 1.870055 TACACCTCGAAGCCACCGAC 61.870 60.000 0.00 0.00 32.18 4.79
4475 6001 1.399744 TTCTGACACGAGCAGGTGGT 61.400 55.000 11.22 0.00 42.23 4.16
4476 6002 1.069765 CTGACACGAGCAGGTGGTT 59.930 57.895 11.22 0.00 42.23 3.67
4482 6008 1.525995 CGAGCAGGTGGTTGTTGGT 60.526 57.895 0.00 0.00 0.00 3.67
4484 6010 0.751643 GAGCAGGTGGTTGTTGGTGT 60.752 55.000 0.00 0.00 0.00 4.16
4485 6011 0.751643 AGCAGGTGGTTGTTGGTGTC 60.752 55.000 0.00 0.00 0.00 3.67
4489 6015 3.578272 TGGTTGTTGGTGTCGCGC 61.578 61.111 0.00 0.00 0.00 6.86
4496 6022 3.583276 TTGGTGTCGCGCAGGTAGG 62.583 63.158 8.75 0.00 0.00 3.18
4512 6038 0.928505 TAGGTGTACCCAGGGATCGA 59.071 55.000 14.54 0.00 36.42 3.59
4524 6050 1.063567 AGGGATCGAGGAGTACTGCTT 60.064 52.381 18.76 2.21 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.742201 CCCGTCCTGCACCTCGTG 62.742 72.222 0.00 0.00 36.51 4.35
232 238 0.107945 CGAGAGGCAGGGGAAAGAAG 60.108 60.000 0.00 0.00 0.00 2.85
378 401 0.391793 CTTTCTTCCTCCTCGCACCC 60.392 60.000 0.00 0.00 0.00 4.61
383 406 1.222113 GGGGCTTTCTTCCTCCTCG 59.778 63.158 0.00 0.00 0.00 4.63
410 433 1.627297 AAATCTCTCGGGCCCTGGAC 61.627 60.000 22.43 0.00 0.00 4.02
412 435 1.147153 GAAATCTCTCGGGCCCTGG 59.853 63.158 22.43 12.56 0.00 4.45
482 516 8.567221 GTCAACTCGAATCGAATAAAACAATTG 58.433 33.333 6.84 3.24 34.74 2.32
498 533 1.079405 GATGGCGGGTCAACTCGAA 60.079 57.895 6.60 0.00 0.00 3.71
499 534 2.577059 GATGGCGGGTCAACTCGA 59.423 61.111 6.60 0.00 0.00 4.04
532 567 6.452494 AACTGCAGTGGTAGTAGTAGTATG 57.548 41.667 22.49 0.00 39.19 2.39
533 568 7.477945 AAAACTGCAGTGGTAGTAGTAGTAT 57.522 36.000 22.49 0.00 39.19 2.12
571 606 7.148154 GGAGAAAGAGAAGCCTTTTAATTCTCC 60.148 40.741 17.91 17.91 46.58 3.71
582 617 2.635427 AGAAACGGAGAAAGAGAAGCCT 59.365 45.455 0.00 0.00 0.00 4.58
585 620 4.092675 GCATGAGAAACGGAGAAAGAGAAG 59.907 45.833 0.00 0.00 0.00 2.85
587 622 3.259374 AGCATGAGAAACGGAGAAAGAGA 59.741 43.478 0.00 0.00 0.00 3.10
588 623 3.594134 AGCATGAGAAACGGAGAAAGAG 58.406 45.455 0.00 0.00 0.00 2.85
589 624 3.589988 GAGCATGAGAAACGGAGAAAGA 58.410 45.455 0.00 0.00 0.00 2.52
630 665 4.662468 TCTGAATTGCTGCTACTAGGAG 57.338 45.455 0.00 0.00 36.68 3.69
632 667 4.333926 GGTTTCTGAATTGCTGCTACTAGG 59.666 45.833 0.00 0.00 0.00 3.02
634 669 4.019321 AGGGTTTCTGAATTGCTGCTACTA 60.019 41.667 0.00 0.00 0.00 1.82
635 670 3.084786 GGGTTTCTGAATTGCTGCTACT 58.915 45.455 0.00 0.00 0.00 2.57
636 671 3.084786 AGGGTTTCTGAATTGCTGCTAC 58.915 45.455 0.00 0.00 0.00 3.58
640 675 1.401931 CGCAGGGTTTCTGAATTGCTG 60.402 52.381 11.91 0.00 46.18 4.41
643 678 1.666888 GCACGCAGGGTTTCTGAATTG 60.667 52.381 0.00 0.00 46.18 2.32
661 696 4.002906 AGACAGTAAACAGGAAATCGCA 57.997 40.909 0.00 0.00 0.00 5.10
662 697 5.408356 TCTAGACAGTAAACAGGAAATCGC 58.592 41.667 0.00 0.00 0.00 4.58
663 698 7.380065 GCTATCTAGACAGTAAACAGGAAATCG 59.620 40.741 0.00 0.00 0.00 3.34
664 699 8.417884 AGCTATCTAGACAGTAAACAGGAAATC 58.582 37.037 0.00 0.00 0.00 2.17
665 700 8.200792 CAGCTATCTAGACAGTAAACAGGAAAT 58.799 37.037 0.00 0.00 0.00 2.17
667 702 6.890268 TCAGCTATCTAGACAGTAAACAGGAA 59.110 38.462 0.00 0.00 0.00 3.36
668 703 6.319152 GTCAGCTATCTAGACAGTAAACAGGA 59.681 42.308 0.00 0.00 32.68 3.86
669 704 6.095580 TGTCAGCTATCTAGACAGTAAACAGG 59.904 42.308 0.00 0.00 37.36 4.00
670 705 7.089770 TGTCAGCTATCTAGACAGTAAACAG 57.910 40.000 0.00 0.00 37.36 3.16
672 707 7.708051 TCATGTCAGCTATCTAGACAGTAAAC 58.292 38.462 9.39 0.00 44.51 2.01
674 709 7.057264 ACTCATGTCAGCTATCTAGACAGTAA 58.943 38.462 9.39 0.00 44.51 2.24
675 710 6.596621 ACTCATGTCAGCTATCTAGACAGTA 58.403 40.000 9.39 0.66 44.51 2.74
676 711 5.445069 ACTCATGTCAGCTATCTAGACAGT 58.555 41.667 9.39 0.71 44.51 3.55
678 713 5.689835 AGACTCATGTCAGCTATCTAGACA 58.310 41.667 6.32 6.32 45.20 3.41
679 714 5.762711 TGAGACTCATGTCAGCTATCTAGAC 59.237 44.000 0.00 0.00 45.20 2.59
680 715 5.934781 TGAGACTCATGTCAGCTATCTAGA 58.065 41.667 0.00 0.00 45.20 2.43
681 716 5.997129 TCTGAGACTCATGTCAGCTATCTAG 59.003 44.000 5.42 0.00 44.19 2.43
682 717 5.934781 TCTGAGACTCATGTCAGCTATCTA 58.065 41.667 5.42 0.00 44.19 1.98
683 718 4.790937 TCTGAGACTCATGTCAGCTATCT 58.209 43.478 5.42 0.00 44.19 1.98
684 719 4.821260 TCTCTGAGACTCATGTCAGCTATC 59.179 45.833 5.42 0.00 44.19 2.08
685 720 4.790937 TCTCTGAGACTCATGTCAGCTAT 58.209 43.478 5.42 0.00 44.19 2.97
686 721 4.080638 TCTCTCTGAGACTCATGTCAGCTA 60.081 45.833 5.42 0.00 44.19 3.32
687 722 3.018856 CTCTCTGAGACTCATGTCAGCT 58.981 50.000 5.42 0.00 44.19 4.24
689 724 5.357596 TGAATCTCTCTGAGACTCATGTCAG 59.642 44.000 5.42 4.99 39.49 3.51
690 725 5.259632 TGAATCTCTCTGAGACTCATGTCA 58.740 41.667 5.42 0.00 39.49 3.58
691 726 5.357878 ACTGAATCTCTCTGAGACTCATGTC 59.642 44.000 5.42 0.00 42.62 3.06
692 727 5.263599 ACTGAATCTCTCTGAGACTCATGT 58.736 41.667 5.42 7.07 42.62 3.21
716 751 3.904800 TGAACAAGTTCAGTGTCCTGA 57.095 42.857 11.34 0.00 45.95 3.86
747 1550 2.837591 TGGATGGAAACTGCTAGTGCTA 59.162 45.455 0.00 0.00 40.48 3.49
748 1551 1.630369 TGGATGGAAACTGCTAGTGCT 59.370 47.619 0.00 0.00 40.48 4.40
749 1552 2.113860 TGGATGGAAACTGCTAGTGC 57.886 50.000 0.00 0.00 40.20 4.40
750 1553 2.421424 GCTTGGATGGAAACTGCTAGTG 59.579 50.000 0.00 0.00 0.00 2.74
751 1554 2.619074 GGCTTGGATGGAAACTGCTAGT 60.619 50.000 0.00 0.00 0.00 2.57
752 1555 2.019984 GGCTTGGATGGAAACTGCTAG 58.980 52.381 0.00 0.00 0.00 3.42
937 1744 5.504665 CGAAGTTTGTGTGCTCTTCAGATTT 60.505 40.000 0.00 0.00 36.93 2.17
992 1799 1.077212 CCTGACCCCATGGCTTCTG 60.077 63.158 6.09 8.33 33.59 3.02
995 1802 3.350163 CCCCTGACCCCATGGCTT 61.350 66.667 6.09 0.00 33.59 4.35
1110 1917 5.386060 AGAGTGGTAAAGAAAAGAAAGGGG 58.614 41.667 0.00 0.00 0.00 4.79
1111 1918 5.473846 GGAGAGTGGTAAAGAAAAGAAAGGG 59.526 44.000 0.00 0.00 0.00 3.95
1112 1919 6.062095 TGGAGAGTGGTAAAGAAAAGAAAGG 58.938 40.000 0.00 0.00 0.00 3.11
1123 1939 4.844085 TCTTGGATTCTGGAGAGTGGTAAA 59.156 41.667 0.00 0.00 0.00 2.01
1124 1940 4.425772 TCTTGGATTCTGGAGAGTGGTAA 58.574 43.478 0.00 0.00 0.00 2.85
1175 1994 1.430075 GGAAGGTTGGGGTAAAGGGAA 59.570 52.381 0.00 0.00 0.00 3.97
1190 2009 1.228245 CAGGGTGTGGTGTGGAAGG 60.228 63.158 0.00 0.00 0.00 3.46
1219 2047 3.464494 GAAGGCATGCAAGGGGGC 61.464 66.667 21.36 0.00 0.00 5.80
1220 2048 3.142838 CGAAGGCATGCAAGGGGG 61.143 66.667 21.36 0.00 0.00 5.40
1221 2049 1.660560 CTTCGAAGGCATGCAAGGGG 61.661 60.000 21.36 4.33 0.00 4.79
1222 2050 1.805254 CTTCGAAGGCATGCAAGGG 59.195 57.895 21.36 5.86 0.00 3.95
1368 2197 3.949586 TCCTCCATTATGATTGCCACA 57.050 42.857 0.00 0.00 0.00 4.17
1401 2230 1.285578 CACCGGCAAAACAAACCAAG 58.714 50.000 0.00 0.00 0.00 3.61
1418 2247 2.831526 ACACCTTTCCCATTATTGCCAC 59.168 45.455 0.00 0.00 0.00 5.01
1484 2314 1.483415 CCATCCCAAAATCCAAGGCAG 59.517 52.381 0.00 0.00 0.00 4.85
1487 2317 2.501316 GTTCCCATCCCAAAATCCAAGG 59.499 50.000 0.00 0.00 0.00 3.61
1496 2326 1.001503 GGCATGGTTCCCATCCCAA 59.998 57.895 0.00 0.00 41.36 4.12
1529 2361 1.000938 GCTCACCAAAACTCTGCAAGG 60.001 52.381 0.00 0.00 0.00 3.61
1534 2366 2.481952 GCAGTAGCTCACCAAAACTCTG 59.518 50.000 0.00 0.00 37.91 3.35
1535 2367 2.772287 GCAGTAGCTCACCAAAACTCT 58.228 47.619 0.00 0.00 37.91 3.24
1562 2394 0.679002 CCAGTGGGCAAGGTCAGATG 60.679 60.000 0.00 0.00 0.00 2.90
1620 2452 8.753497 TGACATAACTCATCTAGTATCACAGT 57.247 34.615 0.00 0.00 37.50 3.55
1689 2570 3.797865 GCATAGCAAAGAATGGTCATGGC 60.798 47.826 0.00 0.00 40.93 4.40
1712 2593 8.428063 TCTGACCCAAAATGTTGTTGATTAATT 58.572 29.630 0.00 0.00 32.40 1.40
1713 2594 7.961351 TCTGACCCAAAATGTTGTTGATTAAT 58.039 30.769 0.00 0.00 32.40 1.40
1714 2595 7.353414 TCTGACCCAAAATGTTGTTGATTAA 57.647 32.000 0.00 0.00 32.40 1.40
1715 2596 6.968263 TCTGACCCAAAATGTTGTTGATTA 57.032 33.333 0.00 0.00 32.40 1.75
1760 2641 7.939784 ACTTCTTTTCTAAGGAACACAAGTT 57.060 32.000 0.00 0.00 41.64 2.66
1774 2655 0.971386 TCGCGGGGTACTTCTTTTCT 59.029 50.000 6.13 0.00 0.00 2.52
1776 2657 0.683412 ACTCGCGGGGTACTTCTTTT 59.317 50.000 12.42 0.00 0.00 2.27
1780 2661 0.524180 CGTAACTCGCGGGGTACTTC 60.524 60.000 29.99 6.34 0.00 3.01
1783 2664 2.102946 CCGTAACTCGCGGGGTAC 59.897 66.667 24.38 24.38 44.98 3.34
1791 2672 2.095110 TGTACATCCACACCGTAACTCG 60.095 50.000 0.00 0.00 39.52 4.18
1794 2675 4.453136 ACATTTGTACATCCACACCGTAAC 59.547 41.667 0.00 0.00 0.00 2.50
1805 2690 5.851177 CGTCCAAAAGTGACATTTGTACATC 59.149 40.000 11.65 0.00 36.31 3.06
1806 2691 5.298276 ACGTCCAAAAGTGACATTTGTACAT 59.702 36.000 11.65 0.00 36.31 2.29
1816 2701 3.750639 TGAACAACGTCCAAAAGTGAC 57.249 42.857 0.00 0.00 0.00 3.67
1820 2705 4.041723 GTCCAATGAACAACGTCCAAAAG 58.958 43.478 0.00 0.00 0.00 2.27
1829 2714 3.003689 CACAGACCAGTCCAATGAACAAC 59.996 47.826 0.00 0.00 0.00 3.32
1831 2716 2.437651 TCACAGACCAGTCCAATGAACA 59.562 45.455 0.00 0.00 0.00 3.18
1833 2718 2.972021 TCTCACAGACCAGTCCAATGAA 59.028 45.455 0.00 0.00 0.00 2.57
1853 2738 4.154918 CCCATTTCAGCAGTCAAGTTACTC 59.845 45.833 0.00 0.00 0.00 2.59
1893 2778 5.449862 CGAAGGACCAATTCAACAGTCAAAA 60.450 40.000 0.00 0.00 0.00 2.44
1894 2779 4.036262 CGAAGGACCAATTCAACAGTCAAA 59.964 41.667 0.00 0.00 0.00 2.69
1958 2843 1.992557 AGTCAAGGGATGTTAGGCCAA 59.007 47.619 5.01 0.00 0.00 4.52
2027 2920 6.347888 GCGTTTACTAGAACAGCCAATTTGTA 60.348 38.462 0.00 0.00 0.00 2.41
2033 2926 3.396260 AGCGTTTACTAGAACAGCCAA 57.604 42.857 0.00 0.00 33.02 4.52
2035 2928 3.858238 CAGTAGCGTTTACTAGAACAGCC 59.142 47.826 0.00 0.00 33.02 4.85
2071 2974 8.647143 AAAGTTTCATTGTAAATGTTGACCAG 57.353 30.769 0.26 0.00 0.00 4.00
2107 3011 5.459107 CGACTGTAGCTGGTATGACAAATAC 59.541 44.000 0.00 0.00 0.00 1.89
2131 3035 4.339814 TGTCCAGGTGAAAACCAATAACAC 59.660 41.667 0.00 0.00 0.00 3.32
2167 3071 9.729023 TGTAAATGTTTATGGCTTAATTCATCG 57.271 29.630 9.78 0.00 0.00 3.84
2326 3235 2.031516 CCAGTCTTCCAGTGCTGCG 61.032 63.158 0.00 0.00 0.00 5.18
2335 3244 1.222113 GGTAGCTGCCCAGTCTTCC 59.778 63.158 10.19 0.00 0.00 3.46
2398 3307 8.719478 CAGTAGAAATGAAGTTTTTGCTGTAG 57.281 34.615 0.00 0.00 38.75 2.74
2402 3311 8.250332 TCAAACAGTAGAAATGAAGTTTTTGCT 58.750 29.630 0.00 0.00 29.02 3.91
2430 3339 5.606505 TGCAATATGTTACCTATTCGCTCA 58.393 37.500 12.01 0.00 0.00 4.26
2463 3372 5.163530 TGCCTGCATTTAAGTGGTGATTATG 60.164 40.000 0.00 0.00 0.00 1.90
2471 3380 2.165030 CTCCTTGCCTGCATTTAAGTGG 59.835 50.000 0.00 0.00 0.00 4.00
2575 3484 4.991153 TCCAAGACTGTATGTAGCTCAG 57.009 45.455 0.00 0.00 35.60 3.35
2643 3552 2.668212 TTCCTGTTGCGCCCTTCG 60.668 61.111 4.18 0.00 42.12 3.79
2694 3603 3.843893 ACCTGCAAATTTTGGAGCTTT 57.156 38.095 21.34 8.06 46.38 3.51
2697 3606 5.482006 AGAATTACCTGCAAATTTTGGAGC 58.518 37.500 21.34 9.50 46.38 4.70
2703 3612 7.386025 GCAAGAAAGAGAATTACCTGCAAATTT 59.614 33.333 0.00 0.00 0.00 1.82
2707 3616 4.083324 CGCAAGAAAGAGAATTACCTGCAA 60.083 41.667 0.00 0.00 43.02 4.08
2724 3633 0.944386 GAAACAGAGTTGGCGCAAGA 59.056 50.000 10.83 0.00 43.02 3.02
2729 3638 2.807967 TGATGAAGAAACAGAGTTGGCG 59.192 45.455 0.00 0.00 0.00 5.69
2743 3652 4.491676 CAATGGGCAACTTTCTGATGAAG 58.508 43.478 0.00 0.00 33.28 3.02
2744 3653 3.258872 CCAATGGGCAACTTTCTGATGAA 59.741 43.478 0.00 0.00 0.00 2.57
2758 3667 5.007682 TCTAGTAAAGTTCAACCAATGGGC 58.992 41.667 3.55 0.00 37.90 5.36
2760 3669 6.934645 TGTCTCTAGTAAAGTTCAACCAATGG 59.065 38.462 0.00 0.00 0.00 3.16
2762 3671 8.429641 TCTTGTCTCTAGTAAAGTTCAACCAAT 58.570 33.333 0.00 0.00 0.00 3.16
2763 3672 7.788026 TCTTGTCTCTAGTAAAGTTCAACCAA 58.212 34.615 0.00 0.00 0.00 3.67
2764 3673 7.069578 ACTCTTGTCTCTAGTAAAGTTCAACCA 59.930 37.037 0.00 0.00 0.00 3.67
2765 3674 7.435305 ACTCTTGTCTCTAGTAAAGTTCAACC 58.565 38.462 0.00 0.00 0.00 3.77
2768 3677 9.516546 TCATACTCTTGTCTCTAGTAAAGTTCA 57.483 33.333 0.00 0.00 30.03 3.18
2769 3678 9.997482 CTCATACTCTTGTCTCTAGTAAAGTTC 57.003 37.037 0.00 0.00 30.03 3.01
2792 3702 6.716628 AGCAAGATAAAATGTCAAGGAACTCA 59.283 34.615 0.00 0.00 38.49 3.41
2971 3882 8.905850 TGCAATATAATGAATTGTGATGTGAGT 58.094 29.630 0.00 0.00 36.82 3.41
2983 3894 8.995220 GGCATGAATTGTTGCAATATAATGAAT 58.005 29.630 0.59 0.28 40.66 2.57
2984 3895 8.205512 AGGCATGAATTGTTGCAATATAATGAA 58.794 29.630 0.59 0.00 40.66 2.57
2992 3903 5.797051 ACTTTAGGCATGAATTGTTGCAAT 58.203 33.333 0.59 0.00 40.66 3.56
3018 3929 8.668510 AGCAGTTAATCATGAGTTTCGAATAT 57.331 30.769 0.00 0.00 0.00 1.28
3021 3932 5.351465 GGAGCAGTTAATCATGAGTTTCGAA 59.649 40.000 0.00 0.00 0.00 3.71
3022 3933 4.870426 GGAGCAGTTAATCATGAGTTTCGA 59.130 41.667 0.00 0.00 0.00 3.71
3023 3934 4.631377 TGGAGCAGTTAATCATGAGTTTCG 59.369 41.667 0.00 0.00 0.00 3.46
3025 3936 5.316167 TGTGGAGCAGTTAATCATGAGTTT 58.684 37.500 0.00 0.00 0.00 2.66
3026 3937 4.910195 TGTGGAGCAGTTAATCATGAGTT 58.090 39.130 0.00 0.00 0.00 3.01
3027 3938 4.223700 TCTGTGGAGCAGTTAATCATGAGT 59.776 41.667 0.09 0.00 45.23 3.41
3042 3953 8.485706 ACATAAATGTTACAGTGCTCTGTGGAG 61.486 40.741 27.28 11.37 44.71 3.86
3043 3954 6.744056 ACATAAATGTTACAGTGCTCTGTGGA 60.744 38.462 27.28 15.09 44.71 4.02
3044 3955 5.412594 ACATAAATGTTACAGTGCTCTGTGG 59.587 40.000 27.28 10.28 44.71 4.17
3045 3956 6.486253 ACATAAATGTTACAGTGCTCTGTG 57.514 37.500 27.28 12.29 44.71 3.66
3046 3957 8.260818 AGATACATAAATGTTACAGTGCTCTGT 58.739 33.333 23.57 23.57 46.91 3.41
3047 3958 8.654230 AGATACATAAATGTTACAGTGCTCTG 57.346 34.615 14.08 14.08 43.01 3.35
3048 3959 8.478066 TGAGATACATAAATGTTACAGTGCTCT 58.522 33.333 0.12 0.00 41.97 4.09
3049 3960 8.648557 TGAGATACATAAATGTTACAGTGCTC 57.351 34.615 0.12 0.00 41.97 4.26
3050 3961 9.618890 ATTGAGATACATAAATGTTACAGTGCT 57.381 29.630 0.12 0.00 41.97 4.40
3051 3962 9.655769 CATTGAGATACATAAATGTTACAGTGC 57.344 33.333 0.12 0.00 41.97 4.40
3093 4004 2.629656 CCACTGCAAAAGGGCGAGG 61.630 63.158 0.00 0.00 36.28 4.63
3095 4006 1.600636 CTCCACTGCAAAAGGGCGA 60.601 57.895 0.00 0.00 36.28 5.54
3357 4272 3.025322 TCAGGAGAGGGAGATGACTTC 57.975 52.381 0.00 0.00 0.00 3.01
3378 4293 3.940209 TTCGCTACCGGTTTCTTCTTA 57.060 42.857 15.04 0.00 34.56 2.10
3466 4388 2.233922 GGTTCCTCTTCATGTCCTTCGA 59.766 50.000 0.00 0.00 0.00 3.71
3744 4666 2.813754 GCATCATATTACACACCCGCAT 59.186 45.455 0.00 0.00 0.00 4.73
3759 4681 1.769465 AGCAGACAGAGATGGCATCAT 59.231 47.619 27.93 14.16 36.09 2.45
3760 4682 1.134491 CAGCAGACAGAGATGGCATCA 60.134 52.381 27.93 0.00 0.00 3.07
3761 4683 1.584175 CAGCAGACAGAGATGGCATC 58.416 55.000 19.78 19.78 0.00 3.91
3762 4684 0.180642 CCAGCAGACAGAGATGGCAT 59.819 55.000 0.00 0.00 0.00 4.40
3763 4685 1.600638 CCAGCAGACAGAGATGGCA 59.399 57.895 0.00 0.00 0.00 4.92
3764 4686 1.153208 CCCAGCAGACAGAGATGGC 60.153 63.158 0.00 0.00 0.00 4.40
3765 4687 1.153208 GCCCAGCAGACAGAGATGG 60.153 63.158 0.00 0.00 0.00 3.51
3766 4688 0.462225 CAGCCCAGCAGACAGAGATG 60.462 60.000 0.00 0.00 0.00 2.90
3808 4738 5.702670 TCATGAACAGAGATGGAACTTGAAC 59.297 40.000 0.00 0.00 0.00 3.18
3883 4813 5.833667 AGTCCTTTGTCTGATATATGGTCGA 59.166 40.000 0.00 0.00 0.00 4.20
3884 4814 5.923114 CAGTCCTTTGTCTGATATATGGTCG 59.077 44.000 0.00 0.00 34.02 4.79
3885 4815 7.055667 TCAGTCCTTTGTCTGATATATGGTC 57.944 40.000 0.00 0.00 36.04 4.02
3886 4816 7.419518 CCTTCAGTCCTTTGTCTGATATATGGT 60.420 40.741 0.00 0.00 39.85 3.55
4007 5533 7.108841 TCTAGGTATACACAAGCTGGTTTAG 57.891 40.000 5.01 0.00 0.00 1.85
4058 5584 2.159254 GCTCTGGAAACTGTGCAAAACA 60.159 45.455 0.00 0.00 44.87 2.83
4059 5585 2.463876 GCTCTGGAAACTGTGCAAAAC 58.536 47.619 0.00 0.00 44.87 2.43
4060 5586 1.065401 CGCTCTGGAAACTGTGCAAAA 59.935 47.619 0.00 0.00 45.51 2.44
4118 5644 0.676782 CCGGGGAAGTACAAAGCTGG 60.677 60.000 0.00 0.00 0.00 4.85
4288 5814 1.001624 TGAGCGAGCAATCATCGTTG 58.998 50.000 0.00 0.00 42.13 4.10
4365 5891 0.802222 CGAGGTGTACACGCTGGATG 60.802 60.000 19.41 1.81 0.00 3.51
4434 5960 1.276989 GGGAGGTCATGTTCGTTGGTA 59.723 52.381 0.00 0.00 0.00 3.25
4438 5964 1.003233 GAAGGGGAGGTCATGTTCGTT 59.997 52.381 0.00 0.00 0.00 3.85
4475 6001 2.646117 TACCTGCGCGACACCAACAA 62.646 55.000 12.10 0.00 0.00 2.83
4476 6002 3.153270 TACCTGCGCGACACCAACA 62.153 57.895 12.10 0.00 0.00 3.33
4482 6008 1.972752 TACACCTACCTGCGCGACA 60.973 57.895 12.10 6.68 0.00 4.35
4484 6010 2.703798 GGTACACCTACCTGCGCGA 61.704 63.158 12.10 0.00 39.70 5.87
4485 6011 2.202703 GGTACACCTACCTGCGCG 60.203 66.667 0.00 0.00 39.70 6.86
4489 6015 0.042131 TCCCTGGGTACACCTACCTG 59.958 60.000 13.56 0.00 42.22 4.00
4496 6022 0.396695 TCCTCGATCCCTGGGTACAC 60.397 60.000 13.56 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.