Multiple sequence alignment - TraesCS7B01G347800

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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 TraesCS7B01G347800 chr7B 100.000 2860 0 0 1 2860 603995161 603998020 0.000000e+00 5282.0
1 TraesCS7B01G347800 chr7B 87.629 1261 73 26 721 1923 603746180 603747415 0.000000e+00 1387.0
2 TraesCS7B01G347800 chr7B 91.382 557 29 7 28 578 603745410 603745953 0.000000e+00 745.0
3 TraesCS7B01G347800 chr7B 86.465 628 74 8 1974 2598 580983275 580983894 0.000000e+00 678.0
4 TraesCS7B01G347800 chr7B 85.824 649 60 10 1292 1927 603835488 603836117 0.000000e+00 660.0
5 TraesCS7B01G347800 chr7B 94.424 269 15 0 2592 2860 700962934 700963202 5.700000e-112 414.0
6 TraesCS7B01G347800 chr7B 93.704 270 15 2 2592 2860 635295769 635295501 1.230000e-108 403.0
7 TraesCS7B01G347800 chr7B 94.030 268 10 2 2593 2860 703210386 703210125 4.440000e-108 401.0
8 TraesCS7B01G347800 chr7B 96.667 150 4 1 1 150 603744943 603745091 6.120000e-62 248.0
9 TraesCS7B01G347800 chr7B 94.595 148 7 1 3 150 603744512 603744658 7.970000e-56 228.0
10 TraesCS7B01G347800 chr7B 83.420 193 26 5 81 270 256002834 256002645 1.050000e-39 174.0
11 TraesCS7B01G347800 chr7B 81.818 143 13 3 774 915 603834420 603834550 1.080000e-19 108.0
12 TraesCS7B01G347800 chr7B 97.917 48 0 1 678 724 603995754 603995801 6.570000e-12 82.4
13 TraesCS7B01G347800 chr7B 97.917 48 0 1 594 641 603995838 603995884 6.570000e-12 82.4
14 TraesCS7B01G347800 chr7A 90.300 1268 53 11 721 1973 642188457 642189669 0.000000e+00 1596.0
15 TraesCS7B01G347800 chr7A 92.795 458 27 5 46 500 642187901 642188355 0.000000e+00 658.0
16 TraesCS7B01G347800 chr7A 82.902 193 27 5 81 270 383432675 383432486 4.900000e-38 169.0
17 TraesCS7B01G347800 chr7A 80.465 215 28 12 81 288 247179331 247179538 4.940000e-33 152.0
18 TraesCS7B01G347800 chr7A 93.878 49 2 1 534 582 642188353 642188400 3.950000e-09 73.1
19 TraesCS7B01G347800 chr7A 100.000 39 0 0 670 708 642188434 642188472 3.950000e-09 73.1
20 TraesCS7B01G347800 chr7A 100.000 31 0 0 594 624 642188442 642188472 1.110000e-04 58.4
21 TraesCS7B01G347800 chr7D 89.613 1213 62 15 721 1899 556469464 556470646 0.000000e+00 1483.0
22 TraesCS7B01G347800 chr7D 90.092 545 37 11 46 586 556468878 556469409 0.000000e+00 691.0
23 TraesCS7B01G347800 chr7D 82.524 206 30 5 68 270 339013588 339013790 2.930000e-40 176.0
24 TraesCS7B01G347800 chr2B 88.273 631 64 4 1969 2598 660977028 660977649 0.000000e+00 747.0
25 TraesCS7B01G347800 chr2B 93.680 269 15 2 2593 2860 400744263 400744530 4.440000e-108 401.0
26 TraesCS7B01G347800 chr6D 89.167 600 61 4 2001 2599 458536747 458536151 0.000000e+00 745.0
27 TraesCS7B01G347800 chr6D 78.698 169 26 7 107 271 21833482 21833644 1.400000e-18 104.0
28 TraesCS7B01G347800 chr6D 77.778 153 29 5 107 255 55101359 55101510 3.920000e-14 89.8
29 TraesCS7B01G347800 chr6D 74.641 209 38 12 105 303 423215592 423215389 8.500000e-11 78.7
30 TraesCS7B01G347800 chr4B 87.778 630 66 5 1970 2598 514487982 514488601 0.000000e+00 726.0
31 TraesCS7B01G347800 chr4B 94.776 268 13 1 2593 2860 657873095 657873361 1.590000e-112 416.0
32 TraesCS7B01G347800 chr4B 79.512 205 35 6 71 271 486278914 486279115 3.840000e-29 139.0
33 TraesCS7B01G347800 chr5D 90.323 558 47 5 2044 2597 474817185 474817739 0.000000e+00 725.0
34 TraesCS7B01G347800 chr5D 80.132 151 26 3 123 271 220730113 220729965 3.010000e-20 110.0
35 TraesCS7B01G347800 chr5B 87.122 629 75 5 1972 2598 445235292 445235916 0.000000e+00 708.0
36 TraesCS7B01G347800 chr5B 94.465 271 10 3 2592 2860 684642271 684642004 2.050000e-111 412.0
37 TraesCS7B01G347800 chr5B 100.000 29 0 0 1970 1998 666365962 666365934 1.000000e-03 54.7
38 TraesCS7B01G347800 chr3A 89.369 555 52 6 2040 2594 697755762 697756309 0.000000e+00 691.0
39 TraesCS7B01G347800 chr3A 78.846 104 20 2 1970 2073 671767447 671767548 5.110000e-08 69.4
40 TraesCS7B01G347800 chr6B 89.101 523 48 6 2079 2598 663731668 663731152 2.400000e-180 641.0
41 TraesCS7B01G347800 chr4D 84.430 623 86 10 1973 2592 497873859 497874473 1.130000e-168 603.0
42 TraesCS7B01G347800 chr4D 79.621 211 34 6 55 262 420511648 420511852 2.970000e-30 143.0
43 TraesCS7B01G347800 chr4D 77.311 238 39 13 60 288 108628783 108629014 2.990000e-25 126.0
44 TraesCS7B01G347800 chr4D 77.005 187 35 6 107 288 428481877 428482060 1.810000e-17 100.0
45 TraesCS7B01G347800 chr4D 80.992 121 18 3 171 288 233079311 233079429 1.090000e-14 91.6
46 TraesCS7B01G347800 chr4D 78.231 147 27 4 119 262 114579144 114579000 3.920000e-14 89.8
47 TraesCS7B01G347800 chr4D 74.129 201 46 6 60 255 32412317 32412516 8.500000e-11 78.7
48 TraesCS7B01G347800 chr4D 75.269 186 34 10 110 288 46617291 46617111 8.500000e-11 78.7
49 TraesCS7B01G347800 chr4D 74.603 189 41 7 60 244 343095195 343095010 3.060000e-10 76.8
50 TraesCS7B01G347800 chr4D 82.022 89 12 2 202 288 8207958 8208044 3.950000e-09 73.1
51 TraesCS7B01G347800 chr3B 95.167 269 10 3 2593 2860 793769367 793769101 3.410000e-114 422.0
52 TraesCS7B01G347800 chr1B 94.796 269 11 2 2592 2860 49166170 49165905 1.590000e-112 416.0
53 TraesCS7B01G347800 chr4A 94.403 268 14 1 2593 2860 730670180 730669914 7.370000e-111 411.0
54 TraesCS7B01G347800 chr4A 76.793 237 41 12 60 288 467684098 467683868 1.390000e-23 121.0
55 TraesCS7B01G347800 chr2D 80.172 232 30 12 81 302 326206770 326206995 2.950000e-35 159.0
56 TraesCS7B01G347800 chr2D 78.075 187 32 6 108 288 74147051 74146868 3.010000e-20 110.0
57 TraesCS7B01G347800 chr3D 78.495 186 34 5 107 288 21414450 21414633 1.800000e-22 117.0
58 TraesCS7B01G347800 chr3D 78.495 186 34 5 107 288 21436998 21437181 1.800000e-22 117.0
59 TraesCS7B01G347800 chr3D 77.551 196 28 12 107 288 611747871 611747678 1.400000e-18 104.0
60 TraesCS7B01G347800 chr3D 74.704 253 50 11 60 304 302950950 302951196 1.810000e-17 100.0
61 TraesCS7B01G347800 chr1A 74.803 254 53 8 60 305 537981166 537981416 1.400000e-18 104.0
62 TraesCS7B01G347800 chr1D 76.098 205 39 6 107 303 445264743 445264541 6.520000e-17 99.0
63 TraesCS7B01G347800 chr1D 73.617 235 53 7 60 288 394456346 394456115 6.570000e-12 82.4


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 TraesCS7B01G347800 chr7B 603995161 603998020 2859 False 1815.60 5282 98.611333 1 2860 3 chr7B.!!$F5 2859
1 TraesCS7B01G347800 chr7B 580983275 580983894 619 False 678.00 678 86.465000 1974 2598 1 chr7B.!!$F1 624
2 TraesCS7B01G347800 chr7B 603744512 603747415 2903 False 652.00 1387 92.568250 1 1923 4 chr7B.!!$F3 1922
3 TraesCS7B01G347800 chr7B 603834420 603836117 1697 False 384.00 660 83.821000 774 1927 2 chr7B.!!$F4 1153
4 TraesCS7B01G347800 chr7A 642187901 642189669 1768 False 491.72 1596 95.394600 46 1973 5 chr7A.!!$F2 1927
5 TraesCS7B01G347800 chr7D 556468878 556470646 1768 False 1087.00 1483 89.852500 46 1899 2 chr7D.!!$F2 1853
6 TraesCS7B01G347800 chr2B 660977028 660977649 621 False 747.00 747 88.273000 1969 2598 1 chr2B.!!$F2 629
7 TraesCS7B01G347800 chr6D 458536151 458536747 596 True 745.00 745 89.167000 2001 2599 1 chr6D.!!$R2 598
8 TraesCS7B01G347800 chr4B 514487982 514488601 619 False 726.00 726 87.778000 1970 2598 1 chr4B.!!$F2 628
9 TraesCS7B01G347800 chr5D 474817185 474817739 554 False 725.00 725 90.323000 2044 2597 1 chr5D.!!$F1 553
10 TraesCS7B01G347800 chr5B 445235292 445235916 624 False 708.00 708 87.122000 1972 2598 1 chr5B.!!$F1 626
11 TraesCS7B01G347800 chr3A 697755762 697756309 547 False 691.00 691 89.369000 2040 2594 1 chr3A.!!$F2 554
12 TraesCS7B01G347800 chr6B 663731152 663731668 516 True 641.00 641 89.101000 2079 2598 1 chr6B.!!$R1 519
13 TraesCS7B01G347800 chr4D 497873859 497874473 614 False 603.00 603 84.430000 1973 2592 1 chr4D.!!$F7 619

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
994 2701 1.009389 GCAAGTAGCACGTCGAGCTT 61.009 55.0 22.02 2.66 43.25 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2689 4513 0.320073 TGACGAACCGGCACTAAAGG 60.32 55.0 0.0 0.0 41.22 3.11 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
30 462 5.177327 CCCTTGAAATTCGTCAACCAATTTG 59.823 40.000 3.66 0.00 33.31 2.32
102 534 6.096141 TGGTTTGTCTTAAGTCAAGCATTTGA 59.904 34.615 23.05 4.74 40.92 2.69
314 1188 6.069994 AGGAGGTAGTACTAATAAGGTGCTC 58.930 44.000 3.61 0.00 32.38 4.26
373 1247 1.075374 TGAAAGGTGGTGGAGGATTGG 59.925 52.381 0.00 0.00 0.00 3.16
505 1417 5.500645 GGTTTGCCCTTTCAGATGTATAC 57.499 43.478 0.00 0.00 0.00 1.47
506 1418 4.338400 GGTTTGCCCTTTCAGATGTATACC 59.662 45.833 0.00 0.00 0.00 2.73
507 1419 4.853468 TTGCCCTTTCAGATGTATACCA 57.147 40.909 0.00 0.00 0.00 3.25
508 1420 4.853468 TGCCCTTTCAGATGTATACCAA 57.147 40.909 0.00 0.00 0.00 3.67
509 1421 4.780815 TGCCCTTTCAGATGTATACCAAG 58.219 43.478 0.00 0.00 0.00 3.61
510 1422 4.137543 GCCCTTTCAGATGTATACCAAGG 58.862 47.826 0.00 2.95 0.00 3.61
511 1423 4.137543 CCCTTTCAGATGTATACCAAGGC 58.862 47.826 0.00 0.00 0.00 4.35
516 1428 3.136443 TCAGATGTATACCAAGGCCCAAG 59.864 47.826 0.00 0.00 0.00 3.61
544 1457 2.030274 CCCTCCAATCGACAAAACAACC 60.030 50.000 0.00 0.00 0.00 3.77
609 1523 8.492415 ACTATAGCTTCATAGGGTGTAATCAA 57.508 34.615 8.13 0.00 33.53 2.57
612 1526 4.884164 AGCTTCATAGGGTGTAATCAAAGC 59.116 41.667 0.00 0.00 37.46 3.51
613 1527 4.640201 GCTTCATAGGGTGTAATCAAAGCA 59.360 41.667 0.00 0.00 37.23 3.91
614 1528 5.449177 GCTTCATAGGGTGTAATCAAAGCAC 60.449 44.000 0.00 0.00 37.23 4.40
615 1529 4.188462 TCATAGGGTGTAATCAAAGCACG 58.812 43.478 0.00 0.00 34.25 5.34
616 1530 2.851263 AGGGTGTAATCAAAGCACGA 57.149 45.000 0.00 0.00 34.25 4.35
617 1531 3.350219 AGGGTGTAATCAAAGCACGAT 57.650 42.857 0.00 0.00 34.25 3.73
618 1532 3.686016 AGGGTGTAATCAAAGCACGATT 58.314 40.909 0.00 0.00 36.97 3.34
620 1534 4.156008 AGGGTGTAATCAAAGCACGATTTC 59.844 41.667 0.00 0.00 34.89 2.17
623 1537 5.342259 GGTGTAATCAAAGCACGATTTCAAC 59.658 40.000 0.00 2.28 33.64 3.18
624 1538 6.142817 GTGTAATCAAAGCACGATTTCAACT 58.857 36.000 0.00 0.00 33.64 3.16
625 1539 6.086765 GTGTAATCAAAGCACGATTTCAACTG 59.913 38.462 0.00 0.00 33.64 3.16
631 1545 2.031682 AGCACGATTTCAACTGCTTCAC 60.032 45.455 0.00 0.00 36.57 3.18
633 1547 3.791789 GCACGATTTCAACTGCTTCACAA 60.792 43.478 0.00 0.00 0.00 3.33
668 1657 9.751542 CAGTACTACTTCTATGGATTTGTAAGG 57.248 37.037 0.00 0.00 0.00 2.69
708 1734 6.142817 GTGTAATCAAAGCACGATTTCAACT 58.857 36.000 0.00 0.00 33.64 3.16
709 1735 6.086765 GTGTAATCAAAGCACGATTTCAACTG 59.913 38.462 0.00 0.00 33.64 3.16
710 1736 2.998772 TCAAAGCACGATTTCAACTGC 58.001 42.857 0.00 0.00 0.00 4.40
711 1737 2.618241 TCAAAGCACGATTTCAACTGCT 59.382 40.909 0.00 0.00 41.83 4.24
713 1739 2.977405 AGCACGATTTCAACTGCTTC 57.023 45.000 0.00 0.00 36.57 3.86
714 1740 2.221169 AGCACGATTTCAACTGCTTCA 58.779 42.857 0.00 0.00 36.57 3.02
715 1741 2.618241 AGCACGATTTCAACTGCTTCAA 59.382 40.909 0.00 0.00 36.57 2.69
716 1742 3.066621 AGCACGATTTCAACTGCTTCAAA 59.933 39.130 0.00 0.00 36.57 2.69
717 1743 3.796178 GCACGATTTCAACTGCTTCAAAA 59.204 39.130 0.00 0.00 0.00 2.44
718 1744 4.267452 GCACGATTTCAACTGCTTCAAAAA 59.733 37.500 0.00 0.00 0.00 1.94
769 1801 7.252612 TCACTCAAACTAATGGGTAAGATCA 57.747 36.000 0.00 0.00 30.46 2.92
824 1856 2.887152 GCCTGGTCAACTTGAGTGATTT 59.113 45.455 0.00 0.00 0.00 2.17
825 1857 3.319122 GCCTGGTCAACTTGAGTGATTTT 59.681 43.478 0.00 0.00 0.00 1.82
826 1858 4.202151 GCCTGGTCAACTTGAGTGATTTTT 60.202 41.667 0.00 0.00 0.00 1.94
920 1970 1.900585 TTGCGCAGATCTCAACGTGC 61.901 55.000 11.31 8.88 35.48 5.34
948 2649 7.728847 TTACGTAGACACTAGACAGTAACAA 57.271 36.000 0.00 0.00 32.21 2.83
994 2701 1.009389 GCAAGTAGCACGTCGAGCTT 61.009 55.000 22.02 2.66 43.25 3.74
1092 2805 1.537135 GCTCTAGCCTACCTTCGCTTG 60.537 57.143 0.00 0.00 36.53 4.01
1093 2806 0.460311 TCTAGCCTACCTTCGCTTGC 59.540 55.000 0.00 0.00 36.53 4.01
1094 2807 0.530870 CTAGCCTACCTTCGCTTGCC 60.531 60.000 0.00 0.00 36.53 4.52
1095 2808 2.292794 TAGCCTACCTTCGCTTGCCG 62.293 60.000 0.00 0.00 36.53 5.69
1682 3476 2.125326 CAGCCCCTGCATGACCATG 61.125 63.158 0.00 5.67 41.13 3.66
1771 3565 1.598130 GACCATAGGCCATGCGGTC 60.598 63.158 15.28 15.28 37.05 4.79
1772 3566 2.666190 CCATAGGCCATGCGGTCG 60.666 66.667 5.01 0.00 43.99 4.79
1773 3567 3.349006 CATAGGCCATGCGGTCGC 61.349 66.667 5.01 8.54 43.99 5.19
1937 3751 9.106070 AGTTACACAATTTTAAGTTTCTCTCGT 57.894 29.630 0.00 0.00 0.00 4.18
1943 3757 8.674607 ACAATTTTAAGTTTCTCTCGTTCACTT 58.325 29.630 0.00 0.00 0.00 3.16
1978 3792 9.717942 GACTGGTATTATGAGATTTAGAGCATT 57.282 33.333 0.00 0.00 0.00 3.56
2015 3829 1.409982 GCACGGCGCGCAAAATAAAT 61.410 50.000 34.42 5.08 0.00 1.40
2077 3891 4.007644 CTGGCTCCAGCGGTCACA 62.008 66.667 2.59 0.00 43.26 3.58
2185 4007 7.563906 TCCAAACAAAACCAAGAAGATCAAAT 58.436 30.769 0.00 0.00 0.00 2.32
2276 4099 8.714179 CCAATACAACAAATAGTTCGACACTAA 58.286 33.333 10.21 0.00 41.56 2.24
2319 4143 6.257423 TCAAACATACAAATCATCATGCGTC 58.743 36.000 0.00 0.00 0.00 5.19
2473 4297 3.845781 GGATGTCCCAAGAGCTCATAA 57.154 47.619 17.77 0.00 34.14 1.90
2506 4330 7.568349 AGTCTAAATCTTGACCATGCTCATTA 58.432 34.615 0.00 0.00 34.02 1.90
2594 4418 0.680280 TCTAGCCGGTCCTCTCACAC 60.680 60.000 1.90 0.00 0.00 3.82
2600 4424 0.171455 CGGTCCTCTCACACTAGTGC 59.829 60.000 22.90 3.62 45.49 4.40
2601 4425 1.257743 GGTCCTCTCACACTAGTGCA 58.742 55.000 22.90 8.79 45.49 4.57
2602 4426 1.203523 GGTCCTCTCACACTAGTGCAG 59.796 57.143 22.90 17.82 45.49 4.41
2603 4427 2.163509 GTCCTCTCACACTAGTGCAGA 58.836 52.381 22.90 20.75 45.49 4.26
2604 4428 2.558795 GTCCTCTCACACTAGTGCAGAA 59.441 50.000 22.90 7.60 45.49 3.02
2605 4429 2.558795 TCCTCTCACACTAGTGCAGAAC 59.441 50.000 22.90 0.00 45.49 3.01
2606 4430 2.353208 CCTCTCACACTAGTGCAGAACC 60.353 54.545 22.90 0.00 45.49 3.62
2607 4431 1.269723 TCTCACACTAGTGCAGAACCG 59.730 52.381 22.90 9.46 45.49 4.44
2608 4432 0.317160 TCACACTAGTGCAGAACCGG 59.683 55.000 22.90 0.00 45.49 5.28
2609 4433 1.004918 ACACTAGTGCAGAACCGGC 60.005 57.895 22.90 0.00 0.00 6.13
2610 4434 1.741770 CACTAGTGCAGAACCGGCC 60.742 63.158 10.54 0.00 0.00 6.13
2611 4435 1.913762 ACTAGTGCAGAACCGGCCT 60.914 57.895 0.00 0.00 0.00 5.19
2612 4436 1.296715 CTAGTGCAGAACCGGCCTT 59.703 57.895 0.00 0.00 0.00 4.35
2613 4437 0.321653 CTAGTGCAGAACCGGCCTTT 60.322 55.000 0.00 0.00 0.00 3.11
2614 4438 0.978151 TAGTGCAGAACCGGCCTTTA 59.022 50.000 0.00 0.00 0.00 1.85
2615 4439 0.321653 AGTGCAGAACCGGCCTTTAG 60.322 55.000 0.00 0.00 0.00 1.85
2616 4440 0.605589 GTGCAGAACCGGCCTTTAGT 60.606 55.000 0.00 0.00 0.00 2.24
2617 4441 0.605319 TGCAGAACCGGCCTTTAGTG 60.605 55.000 0.00 0.00 0.00 2.74
2618 4442 1.923227 GCAGAACCGGCCTTTAGTGC 61.923 60.000 0.00 0.20 0.00 4.40
2619 4443 1.002502 AGAACCGGCCTTTAGTGCC 60.003 57.895 0.00 0.00 45.70 5.01
2624 4448 3.587095 GGCCTTTAGTGCCGGTTC 58.413 61.111 1.90 0.00 39.48 3.62
2625 4449 2.396157 GGCCTTTAGTGCCGGTTCG 61.396 63.158 1.90 0.00 39.48 3.95
2626 4450 1.670083 GCCTTTAGTGCCGGTTCGT 60.670 57.895 1.90 0.00 0.00 3.85
2627 4451 0.390209 GCCTTTAGTGCCGGTTCGTA 60.390 55.000 1.90 0.00 0.00 3.43
2628 4452 1.940752 GCCTTTAGTGCCGGTTCGTAA 60.941 52.381 1.90 0.00 0.00 3.18
2629 4453 1.728425 CCTTTAGTGCCGGTTCGTAAC 59.272 52.381 1.90 0.00 0.00 2.50
2630 4454 1.387756 CTTTAGTGCCGGTTCGTAACG 59.612 52.381 1.90 0.00 0.00 3.18
2635 4459 2.047939 CCGGTTCGTAACGGCCTT 60.048 61.111 5.32 0.00 43.96 4.35
2636 4460 1.668793 CCGGTTCGTAACGGCCTTT 60.669 57.895 5.32 0.00 43.96 3.11
2637 4461 0.389687 CCGGTTCGTAACGGCCTTTA 60.390 55.000 5.32 0.00 43.96 1.85
2638 4462 0.994263 CGGTTCGTAACGGCCTTTAG 59.006 55.000 1.13 0.00 0.00 1.85
2639 4463 1.669795 CGGTTCGTAACGGCCTTTAGT 60.670 52.381 1.13 0.00 0.00 2.24
2640 4464 1.728425 GGTTCGTAACGGCCTTTAGTG 59.272 52.381 1.13 0.00 0.00 2.74
2641 4465 1.127397 GTTCGTAACGGCCTTTAGTGC 59.873 52.381 1.13 0.00 0.00 4.40
2642 4466 0.390209 TCGTAACGGCCTTTAGTGCC 60.390 55.000 1.13 0.00 45.70 5.01
2647 4471 4.090723 GGCCTTTAGTGCCGGTTT 57.909 55.556 1.90 0.00 39.48 3.27
2648 4472 1.584495 GGCCTTTAGTGCCGGTTTG 59.416 57.895 1.90 0.00 39.48 2.93
2649 4473 1.080772 GCCTTTAGTGCCGGTTTGC 60.081 57.895 1.90 0.00 0.00 3.68
2650 4474 1.584495 CCTTTAGTGCCGGTTTGCC 59.416 57.895 1.90 0.00 0.00 4.52
2651 4475 1.175983 CCTTTAGTGCCGGTTTGCCA 61.176 55.000 1.90 0.00 34.09 4.92
2652 4476 0.671251 CTTTAGTGCCGGTTTGCCAA 59.329 50.000 1.90 0.00 34.09 4.52
2653 4477 0.386113 TTTAGTGCCGGTTTGCCAAC 59.614 50.000 1.90 0.00 34.09 3.77
2667 4491 3.625745 CCAACCGGCACTAAAGAGT 57.374 52.632 0.00 0.00 35.80 3.24
2679 4503 4.554960 ACTAAAGAGTGGGGACTAAAGC 57.445 45.455 0.00 0.00 33.41 3.51
2680 4504 2.881111 AAAGAGTGGGGACTAAAGCC 57.119 50.000 0.00 0.00 0.00 4.35
2681 4505 0.992695 AAGAGTGGGGACTAAAGCCC 59.007 55.000 0.00 0.00 45.25 5.19
2703 4527 2.761160 CCCCCTTTAGTGCCGGTT 59.239 61.111 1.90 0.00 0.00 4.44
2704 4528 1.378119 CCCCCTTTAGTGCCGGTTC 60.378 63.158 1.90 0.00 0.00 3.62
2705 4529 1.743995 CCCCTTTAGTGCCGGTTCG 60.744 63.158 1.90 0.00 0.00 3.95
2706 4530 1.004200 CCCTTTAGTGCCGGTTCGT 60.004 57.895 1.90 0.00 0.00 3.85
2707 4531 1.017701 CCCTTTAGTGCCGGTTCGTC 61.018 60.000 1.90 0.00 0.00 4.20
2708 4532 0.320073 CCTTTAGTGCCGGTTCGTCA 60.320 55.000 1.90 0.00 0.00 4.35
2709 4533 0.788391 CTTTAGTGCCGGTTCGTCAC 59.212 55.000 1.90 1.53 0.00 3.67
2710 4534 0.940519 TTTAGTGCCGGTTCGTCACG 60.941 55.000 1.90 0.00 35.97 4.35
2711 4535 1.794151 TTAGTGCCGGTTCGTCACGA 61.794 55.000 1.90 0.00 35.97 4.35
2712 4536 1.794151 TAGTGCCGGTTCGTCACGAA 61.794 55.000 9.01 9.01 43.75 3.85
2721 4545 4.764336 CGTCACGAACCGGCGCTA 62.764 66.667 7.64 0.00 33.86 4.26
2722 4546 2.431260 GTCACGAACCGGCGCTAA 60.431 61.111 7.64 0.00 33.86 3.09
2723 4547 2.023223 GTCACGAACCGGCGCTAAA 61.023 57.895 7.64 0.00 33.86 1.85
2724 4548 1.735198 TCACGAACCGGCGCTAAAG 60.735 57.895 7.64 0.00 33.86 1.85
2725 4549 2.025418 CACGAACCGGCGCTAAAGT 61.025 57.895 7.64 0.00 33.86 2.66
2726 4550 2.025418 ACGAACCGGCGCTAAAGTG 61.025 57.895 7.64 0.00 33.86 3.16
2727 4551 1.735198 CGAACCGGCGCTAAAGTGA 60.735 57.895 7.64 0.00 0.00 3.41
2728 4552 1.785951 GAACCGGCGCTAAAGTGAC 59.214 57.895 7.64 0.00 0.00 3.67
2729 4553 0.947180 GAACCGGCGCTAAAGTGACA 60.947 55.000 7.64 0.00 31.75 3.58
2730 4554 1.226030 AACCGGCGCTAAAGTGACAC 61.226 55.000 7.64 0.00 31.75 3.67
2731 4555 2.388232 CCGGCGCTAAAGTGACACC 61.388 63.158 7.64 0.00 31.75 4.16
2732 4556 1.666553 CGGCGCTAAAGTGACACCA 60.667 57.895 7.64 0.00 31.75 4.17
2733 4557 1.866925 GGCGCTAAAGTGACACCAC 59.133 57.895 7.64 0.00 43.50 4.16
2734 4558 0.882927 GGCGCTAAAGTGACACCACA 60.883 55.000 7.64 0.00 45.54 4.17
2735 4559 1.156736 GCGCTAAAGTGACACCACAT 58.843 50.000 0.00 0.00 45.54 3.21
2736 4560 1.135972 GCGCTAAAGTGACACCACATG 60.136 52.381 0.00 0.00 45.54 3.21
2737 4561 1.464608 CGCTAAAGTGACACCACATGG 59.535 52.381 0.84 0.00 45.54 3.66
2738 4562 1.200020 GCTAAAGTGACACCACATGGC 59.800 52.381 0.84 0.00 45.54 4.40
2742 4566 2.825264 TGACACCACATGGCACGA 59.175 55.556 0.00 0.00 43.52 4.35
2743 4567 1.301637 TGACACCACATGGCACGAG 60.302 57.895 0.00 0.00 43.52 4.18
2744 4568 2.669569 ACACCACATGGCACGAGC 60.670 61.111 0.00 0.00 39.32 5.03
2745 4569 3.792047 CACCACATGGCACGAGCG 61.792 66.667 0.00 0.00 43.41 5.03
2746 4570 4.002506 ACCACATGGCACGAGCGA 62.003 61.111 0.00 0.00 43.41 4.93
2747 4571 3.190849 CCACATGGCACGAGCGAG 61.191 66.667 0.00 0.00 43.41 5.03
2748 4572 2.125952 CACATGGCACGAGCGAGA 60.126 61.111 0.00 0.00 43.41 4.04
2749 4573 2.125912 ACATGGCACGAGCGAGAC 60.126 61.111 0.00 0.00 43.41 3.36
2750 4574 2.182791 CATGGCACGAGCGAGACT 59.817 61.111 0.00 0.00 43.41 3.24
2751 4575 1.875813 CATGGCACGAGCGAGACTC 60.876 63.158 0.00 0.00 43.41 3.36
2758 4582 2.872001 GAGCGAGACTCGTGTGCG 60.872 66.667 24.80 0.52 42.81 5.34
2762 4586 2.175078 GAGACTCGTGTGCGCGTA 59.825 61.111 8.43 0.00 36.09 4.42
2763 4587 1.863880 GAGACTCGTGTGCGCGTAG 60.864 63.158 8.43 0.00 36.09 3.51
2764 4588 2.874780 GACTCGTGTGCGCGTAGG 60.875 66.667 8.43 0.00 36.09 3.18
2765 4589 3.318539 GACTCGTGTGCGCGTAGGA 62.319 63.158 8.43 4.37 36.09 2.94
2766 4590 2.874780 CTCGTGTGCGCGTAGGAC 60.875 66.667 8.43 1.68 41.99 3.85
2771 4595 3.816580 TGTGCGCGTAGGACATTAA 57.183 47.368 8.43 0.00 46.44 1.40
2772 4596 2.303163 TGTGCGCGTAGGACATTAAT 57.697 45.000 8.43 0.00 46.44 1.40
2773 4597 3.439895 TGTGCGCGTAGGACATTAATA 57.560 42.857 8.43 0.00 46.44 0.98
2774 4598 3.117794 TGTGCGCGTAGGACATTAATAC 58.882 45.455 8.43 0.00 46.44 1.89
2775 4599 2.473984 GTGCGCGTAGGACATTAATACC 59.526 50.000 8.43 3.50 41.21 2.73
2776 4600 1.717645 GCGCGTAGGACATTAATACCG 59.282 52.381 8.43 0.00 0.00 4.02
2777 4601 2.322161 CGCGTAGGACATTAATACCGG 58.678 52.381 0.00 0.00 0.00 5.28
2778 4602 2.287788 CGCGTAGGACATTAATACCGGT 60.288 50.000 13.98 13.98 0.00 5.28
2779 4603 3.721035 GCGTAGGACATTAATACCGGTT 58.279 45.455 15.04 0.00 0.00 4.44
2780 4604 3.492011 GCGTAGGACATTAATACCGGTTG 59.508 47.826 15.04 7.13 0.00 3.77
2781 4605 4.053295 CGTAGGACATTAATACCGGTTGG 58.947 47.826 15.04 0.00 42.84 3.77
2800 4624 3.676291 GGTAACACCAACCGGTACTAA 57.324 47.619 8.00 0.00 46.94 2.24
2801 4625 4.001618 GGTAACACCAACCGGTACTAAA 57.998 45.455 8.00 0.00 46.94 1.85
2802 4626 4.578871 GGTAACACCAACCGGTACTAAAT 58.421 43.478 8.00 0.00 46.94 1.40
2803 4627 4.392754 GGTAACACCAACCGGTACTAAATG 59.607 45.833 8.00 0.00 46.94 2.32
2804 4628 3.775261 ACACCAACCGGTACTAAATGT 57.225 42.857 8.00 4.16 46.94 2.71
2805 4629 4.089408 ACACCAACCGGTACTAAATGTT 57.911 40.909 8.00 0.00 46.94 2.71
2806 4630 4.463070 ACACCAACCGGTACTAAATGTTT 58.537 39.130 8.00 0.00 46.94 2.83
2807 4631 4.276431 ACACCAACCGGTACTAAATGTTTG 59.724 41.667 8.00 3.32 46.94 2.93
2808 4632 3.822167 ACCAACCGGTACTAAATGTTTGG 59.178 43.478 8.00 10.60 46.71 3.28
2809 4633 3.191791 CCAACCGGTACTAAATGTTTGGG 59.808 47.826 8.00 0.00 31.35 4.12
2810 4634 3.076079 ACCGGTACTAAATGTTTGGGG 57.924 47.619 4.49 0.00 0.00 4.96
2811 4635 2.291089 ACCGGTACTAAATGTTTGGGGG 60.291 50.000 4.49 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.235016 TGACGAATTTCAAGGGGGTTG 58.765 47.619 0.00 0.00 37.52 3.77
2 3 2.626266 GTTGACGAATTTCAAGGGGGTT 59.374 45.455 0.00 0.00 36.15 4.11
30 462 4.932146 ACAAAGTACATCCTTTTGTGCAC 58.068 39.130 10.75 10.75 41.85 4.57
140 1012 9.213799 GGACCTATTGATACTGATTTGATCTTC 57.786 37.037 0.00 0.00 0.00 2.87
274 1148 4.204799 ACCTCCTTGTTTTTACTCCACAC 58.795 43.478 0.00 0.00 0.00 3.82
373 1247 4.501921 GCTGTTTTGCATTGCTATAGCTTC 59.498 41.667 24.61 11.58 42.66 3.86
500 1412 0.924090 ACCCTTGGGCCTTGGTATAC 59.076 55.000 4.53 0.00 0.00 1.47
503 1415 0.699981 GTTACCCTTGGGCCTTGGTA 59.300 55.000 4.53 10.11 32.27 3.25
504 1416 1.463375 GTTACCCTTGGGCCTTGGT 59.537 57.895 14.92 14.92 34.85 3.67
505 1417 1.304962 GGTTACCCTTGGGCCTTGG 60.305 63.158 4.53 6.75 0.00 3.61
506 1418 1.304962 GGGTTACCCTTGGGCCTTG 60.305 63.158 14.22 0.00 41.34 3.61
507 1419 3.187313 GGGTTACCCTTGGGCCTT 58.813 61.111 14.22 0.00 41.34 4.35
582 1496 9.769677 TGATTACACCCTATGAAGCTATAGTAT 57.230 33.333 0.84 0.00 0.00 2.12
584 1498 8.492415 TTGATTACACCCTATGAAGCTATAGT 57.508 34.615 0.84 0.00 0.00 2.12
586 1500 7.878127 GCTTTGATTACACCCTATGAAGCTATA 59.122 37.037 0.00 0.00 35.39 1.31
587 1501 6.712547 GCTTTGATTACACCCTATGAAGCTAT 59.287 38.462 0.00 0.00 35.39 2.97
589 1503 4.884164 GCTTTGATTACACCCTATGAAGCT 59.116 41.667 0.00 0.00 35.39 3.74
590 1504 4.640201 TGCTTTGATTACACCCTATGAAGC 59.360 41.667 0.00 0.00 37.92 3.86
591 1505 5.220662 CGTGCTTTGATTACACCCTATGAAG 60.221 44.000 0.00 0.00 0.00 3.02
592 1506 4.634004 CGTGCTTTGATTACACCCTATGAA 59.366 41.667 0.00 0.00 0.00 2.57
593 1507 4.081365 TCGTGCTTTGATTACACCCTATGA 60.081 41.667 0.00 0.00 0.00 2.15
594 1508 4.188462 TCGTGCTTTGATTACACCCTATG 58.812 43.478 0.00 0.00 0.00 2.23
595 1509 4.481368 TCGTGCTTTGATTACACCCTAT 57.519 40.909 0.00 0.00 0.00 2.57
596 1510 3.965379 TCGTGCTTTGATTACACCCTA 57.035 42.857 0.00 0.00 0.00 3.53
597 1511 2.851263 TCGTGCTTTGATTACACCCT 57.149 45.000 0.00 0.00 0.00 4.34
598 1512 4.083003 TGAAATCGTGCTTTGATTACACCC 60.083 41.667 0.26 0.00 35.07 4.61
599 1513 5.041951 TGAAATCGTGCTTTGATTACACC 57.958 39.130 0.26 0.00 35.07 4.16
602 1516 5.059710 GCAGTTGAAATCGTGCTTTGATTAC 59.940 40.000 0.26 0.00 35.07 1.89
604 1518 3.983344 GCAGTTGAAATCGTGCTTTGATT 59.017 39.130 0.00 0.00 37.65 2.57
605 1519 3.254166 AGCAGTTGAAATCGTGCTTTGAT 59.746 39.130 0.00 0.00 43.80 2.57
607 1521 3.004024 AGCAGTTGAAATCGTGCTTTG 57.996 42.857 0.00 0.00 43.80 2.77
612 1526 3.607422 TGTGAAGCAGTTGAAATCGTG 57.393 42.857 0.00 0.00 0.00 4.35
613 1527 4.630894 TTTGTGAAGCAGTTGAAATCGT 57.369 36.364 0.00 0.00 0.00 3.73
614 1528 5.947503 TTTTTGTGAAGCAGTTGAAATCG 57.052 34.783 0.00 0.00 0.00 3.34
644 1633 9.530633 CACCTTACAAATCCATAGAAGTAGTAC 57.469 37.037 0.00 0.00 0.00 2.73
645 1634 8.701895 CCACCTTACAAATCCATAGAAGTAGTA 58.298 37.037 0.00 0.00 0.00 1.82
646 1635 7.402071 TCCACCTTACAAATCCATAGAAGTAGT 59.598 37.037 0.00 0.00 0.00 2.73
647 1636 7.792032 TCCACCTTACAAATCCATAGAAGTAG 58.208 38.462 0.00 0.00 0.00 2.57
649 1638 6.636454 TCCACCTTACAAATCCATAGAAGT 57.364 37.500 0.00 0.00 0.00 3.01
650 1639 8.408601 CAAATCCACCTTACAAATCCATAGAAG 58.591 37.037 0.00 0.00 0.00 2.85
651 1640 7.893302 ACAAATCCACCTTACAAATCCATAGAA 59.107 33.333 0.00 0.00 0.00 2.10
652 1641 7.410174 ACAAATCCACCTTACAAATCCATAGA 58.590 34.615 0.00 0.00 0.00 1.98
653 1642 7.339212 TGACAAATCCACCTTACAAATCCATAG 59.661 37.037 0.00 0.00 0.00 2.23
654 1643 7.178573 TGACAAATCCACCTTACAAATCCATA 58.821 34.615 0.00 0.00 0.00 2.74
656 1645 5.389520 TGACAAATCCACCTTACAAATCCA 58.610 37.500 0.00 0.00 0.00 3.41
660 1649 5.949354 CCCTATGACAAATCCACCTTACAAA 59.051 40.000 0.00 0.00 0.00 2.83
661 1650 5.014755 ACCCTATGACAAATCCACCTTACAA 59.985 40.000 0.00 0.00 0.00 2.41
662 1651 4.538490 ACCCTATGACAAATCCACCTTACA 59.462 41.667 0.00 0.00 0.00 2.41
663 1652 4.881850 CACCCTATGACAAATCCACCTTAC 59.118 45.833 0.00 0.00 0.00 2.34
664 1653 4.538490 ACACCCTATGACAAATCCACCTTA 59.462 41.667 0.00 0.00 0.00 2.69
665 1654 3.333680 ACACCCTATGACAAATCCACCTT 59.666 43.478 0.00 0.00 0.00 3.50
667 1656 3.366052 ACACCCTATGACAAATCCACC 57.634 47.619 0.00 0.00 0.00 4.61
668 1657 6.119536 TGATTACACCCTATGACAAATCCAC 58.880 40.000 0.00 0.00 30.83 4.02
719 1745 3.807071 GGCATGGTTGAAATCGTGTTTTT 59.193 39.130 0.00 0.00 0.00 1.94
720 1746 3.069443 AGGCATGGTTGAAATCGTGTTTT 59.931 39.130 0.00 0.00 0.00 2.43
721 1747 2.627699 AGGCATGGTTGAAATCGTGTTT 59.372 40.909 0.00 0.00 0.00 2.83
722 1748 2.238521 AGGCATGGTTGAAATCGTGTT 58.761 42.857 0.00 0.00 0.00 3.32
723 1749 1.909700 AGGCATGGTTGAAATCGTGT 58.090 45.000 0.00 0.00 0.00 4.49
724 1750 4.096231 TGAATAGGCATGGTTGAAATCGTG 59.904 41.667 0.00 0.00 0.00 4.35
725 1751 4.096382 GTGAATAGGCATGGTTGAAATCGT 59.904 41.667 0.00 0.00 0.00 3.73
726 1752 4.336433 AGTGAATAGGCATGGTTGAAATCG 59.664 41.667 0.00 0.00 0.00 3.34
727 1753 5.357878 TGAGTGAATAGGCATGGTTGAAATC 59.642 40.000 0.00 0.00 0.00 2.17
728 1754 5.263599 TGAGTGAATAGGCATGGTTGAAAT 58.736 37.500 0.00 0.00 0.00 2.17
729 1755 4.661222 TGAGTGAATAGGCATGGTTGAAA 58.339 39.130 0.00 0.00 0.00 2.69
730 1756 4.299586 TGAGTGAATAGGCATGGTTGAA 57.700 40.909 0.00 0.00 0.00 2.69
731 1757 3.998913 TGAGTGAATAGGCATGGTTGA 57.001 42.857 0.00 0.00 0.00 3.18
732 1758 4.460382 AGTTTGAGTGAATAGGCATGGTTG 59.540 41.667 0.00 0.00 0.00 3.77
733 1759 4.666512 AGTTTGAGTGAATAGGCATGGTT 58.333 39.130 0.00 0.00 0.00 3.67
734 1760 4.307032 AGTTTGAGTGAATAGGCATGGT 57.693 40.909 0.00 0.00 0.00 3.55
735 1761 6.238842 CCATTAGTTTGAGTGAATAGGCATGG 60.239 42.308 0.00 0.00 0.00 3.66
769 1801 3.228188 TGGATTCCACAAGACAAGCTT 57.772 42.857 0.00 0.00 37.29 3.74
825 1857 5.746245 CGCCATTACAAGTTGACTTCAAAAA 59.254 36.000 10.54 0.00 37.63 1.94
826 1858 5.163602 ACGCCATTACAAGTTGACTTCAAAA 60.164 36.000 10.54 0.00 37.63 2.44
827 1859 4.336993 ACGCCATTACAAGTTGACTTCAAA 59.663 37.500 10.54 0.00 37.63 2.69
828 1860 3.880490 ACGCCATTACAAGTTGACTTCAA 59.120 39.130 10.54 0.00 33.11 2.69
829 1861 3.249799 CACGCCATTACAAGTTGACTTCA 59.750 43.478 10.54 0.00 33.11 3.02
830 1862 3.364964 CCACGCCATTACAAGTTGACTTC 60.365 47.826 10.54 0.00 33.11 3.01
920 1970 6.238610 ACTGTCTAGTGTCTACGTAAACTG 57.761 41.667 12.95 5.99 35.34 3.16
948 2649 4.813161 CCATCACTGAAAGATGCGTAGATT 59.187 41.667 0.00 0.00 41.13 2.40
994 2701 4.927425 GGTGACGCTTCTTTATAGACAACA 59.073 41.667 0.00 0.00 0.00 3.33
1323 3039 1.341679 TGGTGGTATCGCCTCTAGTGT 60.342 52.381 7.20 0.00 43.72 3.55
1619 3413 2.675348 GCTGCATGACTTGTAGACTTCC 59.325 50.000 10.09 0.00 40.21 3.46
1682 3476 5.669122 CAATCCTTTTGTTGAAATTGACGC 58.331 37.500 0.00 0.00 0.00 5.19
1782 3576 6.041409 CAGATAGAGTTGACCATGGAGTACAT 59.959 42.308 21.47 8.02 41.57 2.29
1978 3792 3.959975 GTTGCGCGCCTGTTGGAA 61.960 61.111 30.77 11.58 34.57 3.53
2015 3829 5.505165 GACTATTTCGACGTTGTAAAGCA 57.495 39.130 1.96 0.00 0.00 3.91
2133 3951 0.820871 ATGTTGTTTGTGTTGGGCGT 59.179 45.000 0.00 0.00 0.00 5.68
2276 4099 8.939201 TGTTTGATGTTGTATGTTTGATGTTT 57.061 26.923 0.00 0.00 0.00 2.83
2319 4143 0.947244 GGCATGGAATAGCCGACAAG 59.053 55.000 0.00 0.00 41.70 3.16
2473 4297 7.962995 TGGTCAAGATTTAGACTACTCTCAT 57.037 36.000 0.00 0.00 35.18 2.90
2546 4370 6.196079 GGATCAAAAGATCCTTTGGTACAC 57.804 41.667 15.19 1.28 45.78 2.90
2594 4418 0.321653 AAAGGCCGGTTCTGCACTAG 60.322 55.000 1.90 0.00 0.00 2.57
2599 4423 1.923227 GCACTAAAGGCCGGTTCTGC 61.923 60.000 1.90 0.00 0.00 4.26
2600 4424 1.305930 GGCACTAAAGGCCGGTTCTG 61.306 60.000 1.90 0.00 42.39 3.02
2601 4425 1.002502 GGCACTAAAGGCCGGTTCT 60.003 57.895 1.90 0.00 42.39 3.01
2602 4426 3.587095 GGCACTAAAGGCCGGTTC 58.413 61.111 1.90 0.00 42.39 3.62
2608 4432 0.390209 TACGAACCGGCACTAAAGGC 60.390 55.000 0.00 0.00 0.00 4.35
2609 4433 1.728425 GTTACGAACCGGCACTAAAGG 59.272 52.381 0.00 0.00 0.00 3.11
2610 4434 1.387756 CGTTACGAACCGGCACTAAAG 59.612 52.381 0.00 0.00 0.00 1.85
2611 4435 1.417372 CGTTACGAACCGGCACTAAA 58.583 50.000 0.00 0.00 0.00 1.85
2612 4436 0.388391 CCGTTACGAACCGGCACTAA 60.388 55.000 6.24 0.00 37.43 2.24
2613 4437 1.212490 CCGTTACGAACCGGCACTA 59.788 57.895 6.24 0.00 37.43 2.74
2614 4438 2.048877 CCGTTACGAACCGGCACT 60.049 61.111 6.24 0.00 37.43 4.40
2618 4442 0.389687 TAAAGGCCGTTACGAACCGG 60.390 55.000 6.24 0.00 46.90 5.28
2619 4443 0.994263 CTAAAGGCCGTTACGAACCG 59.006 55.000 6.24 0.00 0.00 4.44
2620 4444 1.728425 CACTAAAGGCCGTTACGAACC 59.272 52.381 6.24 7.54 0.00 3.62
2621 4445 1.127397 GCACTAAAGGCCGTTACGAAC 59.873 52.381 6.24 0.00 0.00 3.95
2622 4446 1.431496 GCACTAAAGGCCGTTACGAA 58.569 50.000 6.24 0.00 0.00 3.85
2623 4447 0.390209 GGCACTAAAGGCCGTTACGA 60.390 55.000 6.24 0.00 42.39 3.43
2624 4448 2.084013 GGCACTAAAGGCCGTTACG 58.916 57.895 7.08 6.68 42.39 3.18
2631 4455 1.080772 GCAAACCGGCACTAAAGGC 60.081 57.895 0.00 0.00 0.00 4.35
2632 4456 1.584495 GGCAAACCGGCACTAAAGG 59.416 57.895 0.00 0.00 40.76 3.11
2649 4473 1.156736 CACTCTTTAGTGCCGGTTGG 58.843 55.000 1.90 0.00 46.28 3.77
2658 4482 3.263681 GGCTTTAGTCCCCACTCTTTAGT 59.736 47.826 0.00 0.00 35.91 2.24
2659 4483 3.370633 GGGCTTTAGTCCCCACTCTTTAG 60.371 52.174 0.00 0.00 41.13 1.85
2660 4484 2.574824 GGGCTTTAGTCCCCACTCTTTA 59.425 50.000 0.00 0.00 41.13 1.85
2661 4485 1.354705 GGGCTTTAGTCCCCACTCTTT 59.645 52.381 0.00 0.00 41.13 2.52
2662 4486 0.992695 GGGCTTTAGTCCCCACTCTT 59.007 55.000 0.00 0.00 41.13 2.85
2663 4487 2.698168 GGGCTTTAGTCCCCACTCT 58.302 57.895 0.00 0.00 41.13 3.24
2686 4510 1.378119 GAACCGGCACTAAAGGGGG 60.378 63.158 0.00 0.00 0.00 5.40
2687 4511 1.743995 CGAACCGGCACTAAAGGGG 60.744 63.158 0.00 0.00 0.00 4.79
2688 4512 1.004200 ACGAACCGGCACTAAAGGG 60.004 57.895 0.00 0.00 0.00 3.95
2689 4513 0.320073 TGACGAACCGGCACTAAAGG 60.320 55.000 0.00 0.00 41.22 3.11
2690 4514 3.204505 TGACGAACCGGCACTAAAG 57.795 52.632 0.00 0.00 41.22 1.85
2704 4528 4.764336 TAGCGCCGGTTCGTGACG 62.764 66.667 2.29 0.00 0.00 4.35
2705 4529 1.952266 CTTTAGCGCCGGTTCGTGAC 61.952 60.000 2.29 0.00 0.00 3.67
2706 4530 1.735198 CTTTAGCGCCGGTTCGTGA 60.735 57.895 2.29 0.00 0.00 4.35
2707 4531 2.025418 ACTTTAGCGCCGGTTCGTG 61.025 57.895 2.29 0.00 0.00 4.35
2708 4532 2.025418 CACTTTAGCGCCGGTTCGT 61.025 57.895 2.29 0.00 0.00 3.85
2709 4533 1.735198 TCACTTTAGCGCCGGTTCG 60.735 57.895 2.29 0.00 0.00 3.95
2710 4534 0.947180 TGTCACTTTAGCGCCGGTTC 60.947 55.000 2.29 0.00 0.00 3.62
2711 4535 1.070105 TGTCACTTTAGCGCCGGTT 59.930 52.632 2.29 0.00 0.00 4.44
2712 4536 1.666872 GTGTCACTTTAGCGCCGGT 60.667 57.895 2.29 0.00 0.00 5.28
2713 4537 2.388232 GGTGTCACTTTAGCGCCGG 61.388 63.158 2.29 0.00 0.00 6.13
2714 4538 1.666553 TGGTGTCACTTTAGCGCCG 60.667 57.895 2.29 0.00 35.70 6.46
2715 4539 0.882927 TGTGGTGTCACTTTAGCGCC 60.883 55.000 2.29 0.00 43.94 6.53
2716 4540 1.135972 CATGTGGTGTCACTTTAGCGC 60.136 52.381 0.00 0.00 43.94 5.92
2717 4541 1.464608 CCATGTGGTGTCACTTTAGCG 59.535 52.381 2.35 0.00 43.94 4.26
2718 4542 1.200020 GCCATGTGGTGTCACTTTAGC 59.800 52.381 2.35 0.00 43.94 3.09
2719 4543 2.226437 GTGCCATGTGGTGTCACTTTAG 59.774 50.000 2.35 0.00 43.94 1.85
2720 4544 2.226330 GTGCCATGTGGTGTCACTTTA 58.774 47.619 2.35 0.00 43.94 1.85
2721 4545 1.032014 GTGCCATGTGGTGTCACTTT 58.968 50.000 2.35 0.00 43.94 2.66
2722 4546 1.165907 CGTGCCATGTGGTGTCACTT 61.166 55.000 2.35 0.00 43.94 3.16
2723 4547 1.597854 CGTGCCATGTGGTGTCACT 60.598 57.895 2.35 0.00 43.94 3.41
2724 4548 1.568612 CTCGTGCCATGTGGTGTCAC 61.569 60.000 0.35 0.00 43.87 3.67
2725 4549 1.301637 CTCGTGCCATGTGGTGTCA 60.302 57.895 0.35 0.00 37.57 3.58
2726 4550 2.680913 GCTCGTGCCATGTGGTGTC 61.681 63.158 0.00 0.00 37.57 3.67
2727 4551 2.669569 GCTCGTGCCATGTGGTGT 60.670 61.111 0.00 0.00 37.57 4.16
2728 4552 3.792047 CGCTCGTGCCATGTGGTG 61.792 66.667 3.52 0.00 37.57 4.17
2729 4553 3.939837 CTCGCTCGTGCCATGTGGT 62.940 63.158 3.52 0.00 37.57 4.16
2730 4554 3.190849 CTCGCTCGTGCCATGTGG 61.191 66.667 3.52 0.00 35.36 4.17
2731 4555 2.125952 TCTCGCTCGTGCCATGTG 60.126 61.111 3.52 0.00 35.36 3.21
2732 4556 2.125912 GTCTCGCTCGTGCCATGT 60.126 61.111 3.52 0.00 35.36 3.21
2733 4557 1.875813 GAGTCTCGCTCGTGCCATG 60.876 63.158 3.52 0.00 34.13 3.66
2734 4558 2.492090 GAGTCTCGCTCGTGCCAT 59.508 61.111 3.52 0.00 34.13 4.40
2741 4565 2.872001 CGCACACGAGTCTCGCTC 60.872 66.667 22.00 7.71 45.12 5.03
2749 4573 2.867333 ATGTCCTACGCGCACACGAG 62.867 60.000 5.73 0.00 43.93 4.18
2750 4574 2.480853 AATGTCCTACGCGCACACGA 62.481 55.000 5.73 0.00 43.93 4.35
2751 4575 0.799152 TAATGTCCTACGCGCACACG 60.799 55.000 5.73 0.00 44.07 4.49
2752 4576 1.352114 TTAATGTCCTACGCGCACAC 58.648 50.000 5.73 0.00 0.00 3.82
2753 4577 2.303163 ATTAATGTCCTACGCGCACA 57.697 45.000 5.73 3.63 0.00 4.57
2754 4578 2.473984 GGTATTAATGTCCTACGCGCAC 59.526 50.000 5.73 0.00 0.00 5.34
2755 4579 2.746269 GGTATTAATGTCCTACGCGCA 58.254 47.619 5.73 0.00 0.00 6.09
2756 4580 1.717645 CGGTATTAATGTCCTACGCGC 59.282 52.381 5.73 0.00 0.00 6.86
2757 4581 2.287788 ACCGGTATTAATGTCCTACGCG 60.288 50.000 4.49 3.53 0.00 6.01
2758 4582 3.375782 ACCGGTATTAATGTCCTACGC 57.624 47.619 4.49 0.00 0.00 4.42
2759 4583 4.053295 CCAACCGGTATTAATGTCCTACG 58.947 47.826 8.00 0.00 0.00 3.51
2760 4584 5.027293 ACCAACCGGTATTAATGTCCTAC 57.973 43.478 8.00 0.00 46.71 3.18
2787 4611 3.191791 CCCAAACATTTAGTACCGGTTGG 59.808 47.826 15.04 10.33 42.84 3.77
2788 4612 3.191791 CCCCAAACATTTAGTACCGGTTG 59.808 47.826 15.04 6.22 0.00 3.77
2789 4613 3.423749 CCCCAAACATTTAGTACCGGTT 58.576 45.455 15.04 0.00 0.00 4.44
2790 4614 2.291089 CCCCCAAACATTTAGTACCGGT 60.291 50.000 13.98 13.98 0.00 5.28
2791 4615 2.371306 CCCCCAAACATTTAGTACCGG 58.629 52.381 0.00 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.