Multiple sequence alignment - TraesCS6B01G297100

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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 TraesCS6B01G297100 chr6B 100.000 2813 0 0 1 2813 533994833 533997645 0.000000e+00 5195
1 TraesCS6B01G297100 chr6B 96.391 665 23 1 1 664 460272150 460272814 0.000000e+00 1094
2 TraesCS6B01G297100 chr6B 100.000 249 0 0 3153 3401 533997985 533998233 8.600000e-126 460
3 TraesCS6B01G297100 chr6B 96.226 106 4 0 3296 3401 401410233 401410338 1.250000e-39 174
4 TraesCS6B01G297100 chr6D 92.579 1900 79 26 667 2518 346978126 346976241 0.000000e+00 2671
5 TraesCS6B01G297100 chr6D 95.977 174 6 1 2546 2719 346976247 346976075 7.190000e-72 281
6 TraesCS6B01G297100 chr1D 91.566 664 55 1 1 663 8059131 8059794 0.000000e+00 915
7 TraesCS6B01G297100 chr1D 90.937 662 59 1 1 661 416786339 416787000 0.000000e+00 889
8 TraesCS6B01G297100 chr1D 84.408 667 100 4 1 665 53959187 53958523 0.000000e+00 652
9 TraesCS6B01G297100 chr1A 90.000 670 62 4 1 667 541778665 541779332 0.000000e+00 861
10 TraesCS6B01G297100 chr3B 89.593 663 68 1 1 662 485443073 485442411 0.000000e+00 841
11 TraesCS6B01G297100 chr5B 89.023 665 69 4 1 663 655075328 655074666 0.000000e+00 821
12 TraesCS6B01G297100 chr5B 87.387 666 75 7 1 662 455356848 455357508 0.000000e+00 756
13 TraesCS6B01G297100 chr5B 96.364 110 3 1 3291 3400 571461006 571460898 2.700000e-41 180
14 TraesCS6B01G297100 chr5B 96.190 105 4 0 3296 3400 3902119 3902015 4.510000e-39 172
15 TraesCS6B01G297100 chr4B 86.165 665 90 2 1 664 37076366 37077029 0.000000e+00 717
16 TraesCS6B01G297100 chr4B 96.154 104 4 0 3296 3399 339464978 339464875 1.620000e-38 171
17 TraesCS6B01G297100 chr2A 98.095 105 2 0 3296 3400 646838115 646838011 2.080000e-42 183
18 TraesCS6B01G297100 chr2A 98.039 102 2 0 3296 3397 172557142 172557041 9.700000e-41 178
19 TraesCS6B01G297100 chr1B 98.039 102 2 0 3296 3397 215515721 215515620 9.700000e-41 178
20 TraesCS6B01G297100 chr2B 95.455 110 5 0 3292 3401 91069224 91069333 3.490000e-40 176
21 TraesCS6B01G297100 chrUn 94.595 111 5 1 3291 3400 12546127 12546017 1.620000e-38 171


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 TraesCS6B01G297100 chr6B 533994833 533998233 3400 False 2827.5 5195 100.000 1 3401 2 chr6B.!!$F3 3400
1 TraesCS6B01G297100 chr6B 460272150 460272814 664 False 1094.0 1094 96.391 1 664 1 chr6B.!!$F2 663
2 TraesCS6B01G297100 chr6D 346976075 346978126 2051 True 1476.0 2671 94.278 667 2719 2 chr6D.!!$R1 2052
3 TraesCS6B01G297100 chr1D 8059131 8059794 663 False 915.0 915 91.566 1 663 1 chr1D.!!$F1 662
4 TraesCS6B01G297100 chr1D 416786339 416787000 661 False 889.0 889 90.937 1 661 1 chr1D.!!$F2 660
5 TraesCS6B01G297100 chr1D 53958523 53959187 664 True 652.0 652 84.408 1 665 1 chr1D.!!$R1 664
6 TraesCS6B01G297100 chr1A 541778665 541779332 667 False 861.0 861 90.000 1 667 1 chr1A.!!$F1 666
7 TraesCS6B01G297100 chr3B 485442411 485443073 662 True 841.0 841 89.593 1 662 1 chr3B.!!$R1 661
8 TraesCS6B01G297100 chr5B 655074666 655075328 662 True 821.0 821 89.023 1 663 1 chr5B.!!$R3 662
9 TraesCS6B01G297100 chr5B 455356848 455357508 660 False 756.0 756 87.387 1 662 1 chr5B.!!$F1 661
10 TraesCS6B01G297100 chr4B 37076366 37077029 663 False 717.0 717 86.165 1 664 1 chr4B.!!$F1 663

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
978 987 0.11734 ACAGGCTAAGTGACCTCCCT 59.883 55.0 0.0 0.0 32.56 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2723 2773 0.250553 CCTGTGTTTTAGGGCGGTGA 60.251 55.0 0.0 0.0 0.0 4.02 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
206 208 3.828451 CAGTGGGAATGGACAAAGACATT 59.172 43.478 0.00 0.00 39.81 2.71
218 220 0.478072 AAGACATTGTGGGTGCAGGA 59.522 50.000 0.00 0.00 0.00 3.86
453 455 6.618196 ACCAGTACTAGGAGAGATTAGAGAGT 59.382 42.308 15.59 0.00 0.00 3.24
523 525 2.422235 CCAATGTACCGGCCCATCTTTA 60.422 50.000 0.00 0.00 0.00 1.85
710 712 1.228510 CCCTTGGGATTCCTCAGGC 59.771 63.158 12.84 0.00 34.61 4.85
755 757 2.514592 CGCACGCATCCAGGGATT 60.515 61.111 0.00 0.00 31.62 3.01
826 835 2.097036 CGGTCTCCCCCATTTTTAACC 58.903 52.381 0.00 0.00 0.00 2.85
828 837 2.463752 GTCTCCCCCATTTTTAACCCC 58.536 52.381 0.00 0.00 0.00 4.95
829 838 2.082669 TCTCCCCCATTTTTAACCCCA 58.917 47.619 0.00 0.00 0.00 4.96
830 839 2.662633 TCTCCCCCATTTTTAACCCCAT 59.337 45.455 0.00 0.00 0.00 4.00
831 840 3.079843 TCTCCCCCATTTTTAACCCCATT 59.920 43.478 0.00 0.00 0.00 3.16
832 841 3.185455 TCCCCCATTTTTAACCCCATTG 58.815 45.455 0.00 0.00 0.00 2.82
833 842 2.356638 CCCCCATTTTTAACCCCATTGC 60.357 50.000 0.00 0.00 0.00 3.56
834 843 2.626840 CCCATTTTTAACCCCATTGCG 58.373 47.619 0.00 0.00 0.00 4.85
835 844 2.006169 CCATTTTTAACCCCATTGCGC 58.994 47.619 0.00 0.00 0.00 6.09
836 845 2.613977 CCATTTTTAACCCCATTGCGCA 60.614 45.455 5.66 5.66 0.00 6.09
838 847 1.333177 TTTTAACCCCATTGCGCACT 58.667 45.000 11.12 0.00 0.00 4.40
839 848 0.885196 TTTAACCCCATTGCGCACTC 59.115 50.000 11.12 0.00 0.00 3.51
840 849 0.250945 TTAACCCCATTGCGCACTCA 60.251 50.000 11.12 0.00 0.00 3.41
841 850 0.676466 TAACCCCATTGCGCACTCAG 60.676 55.000 11.12 0.00 0.00 3.35
842 851 2.046023 CCCCATTGCGCACTCAGA 60.046 61.111 11.12 0.00 0.00 3.27
843 852 1.452651 CCCCATTGCGCACTCAGAT 60.453 57.895 11.12 0.00 0.00 2.90
844 853 1.442526 CCCCATTGCGCACTCAGATC 61.443 60.000 11.12 0.00 0.00 2.75
845 854 0.745486 CCCATTGCGCACTCAGATCA 60.745 55.000 11.12 0.00 0.00 2.92
848 857 1.062148 CATTGCGCACTCAGATCAGTG 59.938 52.381 11.12 8.49 45.82 3.66
858 867 5.793675 CACTCAGATCAGTGCGATTTTAAG 58.206 41.667 0.64 0.00 37.58 1.85
867 876 7.681939 TCAGTGCGATTTTAAGGAATAAACT 57.318 32.000 0.00 0.00 33.26 2.66
908 917 1.001706 CATTGATGCAGAGCCGATTGG 60.002 52.381 0.00 0.00 38.77 3.16
923 932 0.172803 ATTGGTCTAGCACGGACGAC 59.827 55.000 0.00 0.00 34.82 4.34
978 987 0.117340 ACAGGCTAAGTGACCTCCCT 59.883 55.000 0.00 0.00 32.56 4.20
1092 1101 0.106569 CCATGCCCTGCCTCAACATA 60.107 55.000 0.00 0.00 0.00 2.29
1108 1117 1.134560 ACATAGACGAGCGGGAGTTTC 59.865 52.381 0.00 0.00 0.00 2.78
1131 1164 1.298713 CTCAGCGTCCGATTCCGAG 60.299 63.158 0.00 0.00 38.22 4.63
1136 1169 2.030551 CGTCCGATTCCGAGGATGA 58.969 57.895 0.00 0.00 44.24 2.92
1145 1178 0.829602 TCCGAGGATGAGGATGAGGC 60.830 60.000 0.00 0.00 0.00 4.70
1153 1186 3.095163 AGGATGAGGCTGGCCCTG 61.095 66.667 8.11 0.00 46.60 4.45
1159 1192 3.618780 GAGGCTGGCCCTGACTGTG 62.619 68.421 0.00 0.00 46.60 3.66
1167 1200 0.036875 GCCCTGACTGTGCTAGGTTT 59.963 55.000 0.00 0.00 0.00 3.27
1171 1204 2.613977 CCTGACTGTGCTAGGTTTGAGG 60.614 54.545 0.00 0.00 0.00 3.86
1219 1252 1.093972 CAGTGCGGCAACATTGGATA 58.906 50.000 3.23 0.00 0.00 2.59
1234 1267 8.685427 CAACATTGGATATGTTCAGGTTTCATA 58.315 33.333 0.42 0.00 39.94 2.15
1243 1276 6.861065 TGTTCAGGTTTCATACTGTTTCTC 57.139 37.500 0.00 0.00 36.17 2.87
1244 1277 5.465390 TGTTCAGGTTTCATACTGTTTCTCG 59.535 40.000 0.00 0.00 36.17 4.04
1307 1340 4.056125 GCGCTTCCCCAAAGTGGC 62.056 66.667 0.00 0.00 44.19 5.01
1314 1347 0.923358 TCCCCAAAGTGGCGGATATT 59.077 50.000 1.61 0.00 35.79 1.28
1328 1364 4.398247 GCGGATATTGATTCGAATTGCTC 58.602 43.478 12.81 0.37 35.97 4.26
1331 1367 6.128553 GCGGATATTGATTCGAATTGCTCTTA 60.129 38.462 12.81 0.15 35.97 2.10
1387 1423 2.156917 TCAACAGGCTGCATCTTTCTG 58.843 47.619 15.89 0.62 0.00 3.02
1393 1429 2.026641 GGCTGCATCTTTCTGGCATTA 58.973 47.619 0.50 0.00 36.87 1.90
1416 1452 2.534042 TGGACAAAACCTTCACCCAA 57.466 45.000 0.00 0.00 0.00 4.12
1434 1470 3.479370 CAGCTACGTTCTGGCTGC 58.521 61.111 15.49 0.00 45.04 5.25
1461 1497 4.074970 TCTTGGAAGATTTGGAGCTCAAC 58.925 43.478 17.19 0.00 34.67 3.18
1470 1506 0.106708 TGGAGCTCAACTGGTGTGTC 59.893 55.000 17.19 0.00 0.00 3.67
1487 1523 4.217118 GTGTGTCCTTGAAGATGCAGAAAT 59.783 41.667 0.00 0.00 0.00 2.17
1488 1524 4.456911 TGTGTCCTTGAAGATGCAGAAATC 59.543 41.667 0.00 0.00 0.00 2.17
1508 1544 1.128136 CGCATCTTGCACACTGAAGAG 59.872 52.381 0.00 0.00 45.36 2.85
1538 1574 7.208379 CAATTGAGCATTGTACAATTTACCG 57.792 36.000 18.50 8.28 40.63 4.02
1542 1578 4.585879 AGCATTGTACAATTTACCGTCCT 58.414 39.130 18.50 2.97 0.00 3.85
1543 1579 5.736813 AGCATTGTACAATTTACCGTCCTA 58.263 37.500 18.50 0.00 0.00 2.94
1547 1583 5.726980 TGTACAATTTACCGTCCTAGTGT 57.273 39.130 0.00 0.00 0.00 3.55
1566 1602 3.123621 GTGTGCTGACTATCAAAGTTCCG 59.876 47.826 0.00 0.00 39.07 4.30
1582 1618 2.737252 GTTCCGTCTCTTACTTGCTTGG 59.263 50.000 0.00 0.00 0.00 3.61
1587 1623 2.999355 GTCTCTTACTTGCTTGGAGCTG 59.001 50.000 0.00 0.00 42.97 4.24
1591 1627 1.352083 TACTTGCTTGGAGCTGGTCT 58.648 50.000 6.83 0.00 42.97 3.85
1601 1637 3.239449 TGGAGCTGGTCTCTTTTAGTCA 58.761 45.455 6.83 0.00 41.60 3.41
1605 1641 5.234466 AGCTGGTCTCTTTTAGTCACAAT 57.766 39.130 0.00 0.00 0.00 2.71
1616 1652 2.592102 AGTCACAATTGGGATGCTGT 57.408 45.000 14.71 0.00 0.00 4.40
1661 1697 2.568062 TCATCAAAGCCACCATTTGCAT 59.432 40.909 0.00 0.00 37.52 3.96
1666 1702 4.222366 TCAAAGCCACCATTTGCATAATCA 59.778 37.500 0.00 0.00 37.52 2.57
1667 1703 4.822685 AAGCCACCATTTGCATAATCAA 57.177 36.364 0.00 0.00 0.00 2.57
1670 1706 5.362263 AGCCACCATTTGCATAATCAATTC 58.638 37.500 0.00 0.00 0.00 2.17
1675 1711 7.326789 CCACCATTTGCATAATCAATTCGATAC 59.673 37.037 0.00 0.00 32.51 2.24
1676 1712 7.861872 CACCATTTGCATAATCAATTCGATACA 59.138 33.333 0.00 0.00 32.51 2.29
1677 1713 8.077991 ACCATTTGCATAATCAATTCGATACAG 58.922 33.333 0.00 0.00 32.51 2.74
1690 1726 2.562738 TCGATACAGATACTGCCATGGG 59.437 50.000 15.13 0.00 34.37 4.00
1742 1778 6.959639 AGATTTAAAACTGACTGGCTTTCA 57.040 33.333 0.00 0.00 0.00 2.69
1819 1856 5.806818 TCTGTCCCCAATTGTAACGAAATA 58.193 37.500 4.43 0.00 0.00 1.40
1820 1857 5.878116 TCTGTCCCCAATTGTAACGAAATAG 59.122 40.000 4.43 0.00 0.00 1.73
1949 1998 5.573219 ACTGGATGATGTTTTGATTCCTCA 58.427 37.500 0.00 0.00 0.00 3.86
1969 2018 4.264253 TCAATTCAGGCGAATCTTCATGT 58.736 39.130 5.33 0.00 41.12 3.21
2053 2102 6.647212 TCTAAGTGACAAGTTTGATATGCG 57.353 37.500 0.00 0.00 0.00 4.73
2104 2153 7.554835 TGGTTTAGAGAAGCTTACACTTGAAAA 59.445 33.333 0.00 0.00 0.00 2.29
2110 2159 5.979517 AGAAGCTTACACTTGAAAATTGCAC 59.020 36.000 0.00 0.00 28.20 4.57
2123 2172 5.123186 TGAAAATTGCACGGTACTTCCTATG 59.877 40.000 0.00 0.00 0.00 2.23
2229 2279 3.347077 AGCAAGACAGGAGGAAATCTG 57.653 47.619 0.00 0.00 37.07 2.90
2232 2282 3.688673 GCAAGACAGGAGGAAATCTGAAG 59.311 47.826 0.00 0.00 35.20 3.02
2234 2284 5.177326 CAAGACAGGAGGAAATCTGAAGAG 58.823 45.833 0.00 0.00 35.20 2.85
2259 2309 3.790212 TCTCTAGAATACGATGACGCG 57.210 47.619 3.53 3.53 43.96 6.01
2358 2408 2.086251 TTTTGCTTGGCGCTTGGAGG 62.086 55.000 7.64 0.00 40.11 4.30
2434 2484 1.024271 GGCTTGAAGCAGTGAACACA 58.976 50.000 19.89 0.00 44.75 3.72
2443 2493 1.268743 GCAGTGAACACAAGCCACTTC 60.269 52.381 7.68 0.00 38.93 3.01
2461 2511 7.068593 AGCCACTTCTGCAATGCTTATTATTTA 59.931 33.333 6.82 0.00 0.00 1.40
2510 2560 5.070770 TCTGCCATTTGCGAATGTAATTT 57.929 34.783 22.42 0.00 45.60 1.82
2686 2736 4.082190 TCTGATATAGCCGATACTGCAACC 60.082 45.833 0.00 0.00 0.00 3.77
2687 2737 3.832490 TGATATAGCCGATACTGCAACCT 59.168 43.478 0.00 0.00 0.00 3.50
2715 2765 4.645535 CCATTGGATGGGAGTACATACTG 58.354 47.826 0.00 0.00 46.86 2.74
2719 2769 2.368875 GGATGGGAGTACATACTGGTGG 59.631 54.545 0.00 0.00 36.50 4.61
2720 2770 2.932184 TGGGAGTACATACTGGTGGA 57.068 50.000 0.00 0.00 36.50 4.02
2721 2771 3.193395 TGGGAGTACATACTGGTGGAA 57.807 47.619 0.00 0.00 36.50 3.53
2722 2772 3.522759 TGGGAGTACATACTGGTGGAAA 58.477 45.455 0.00 0.00 36.50 3.13
2723 2773 4.108570 TGGGAGTACATACTGGTGGAAAT 58.891 43.478 0.00 0.00 36.50 2.17
2724 2774 4.163458 TGGGAGTACATACTGGTGGAAATC 59.837 45.833 0.00 0.00 36.50 2.17
2725 2775 4.163458 GGGAGTACATACTGGTGGAAATCA 59.837 45.833 0.00 0.00 36.50 2.57
2726 2776 5.116882 GGAGTACATACTGGTGGAAATCAC 58.883 45.833 0.00 0.00 40.06 3.06
2734 2784 3.562397 GTGGAAATCACCGCCCTAA 57.438 52.632 0.00 0.00 40.39 2.69
2735 2785 1.828979 GTGGAAATCACCGCCCTAAA 58.171 50.000 0.00 0.00 40.39 1.85
2736 2786 2.164338 GTGGAAATCACCGCCCTAAAA 58.836 47.619 0.00 0.00 40.39 1.52
2737 2787 2.094906 GTGGAAATCACCGCCCTAAAAC 60.095 50.000 0.00 0.00 40.39 2.43
2738 2788 2.164338 GGAAATCACCGCCCTAAAACA 58.836 47.619 0.00 0.00 0.00 2.83
2739 2789 2.094906 GGAAATCACCGCCCTAAAACAC 60.095 50.000 0.00 0.00 0.00 3.32
2740 2790 2.279935 AATCACCGCCCTAAAACACA 57.720 45.000 0.00 0.00 0.00 3.72
2741 2791 1.821216 ATCACCGCCCTAAAACACAG 58.179 50.000 0.00 0.00 0.00 3.66
2742 2792 0.250553 TCACCGCCCTAAAACACAGG 60.251 55.000 0.00 0.00 0.00 4.00
2743 2793 0.250553 CACCGCCCTAAAACACAGGA 60.251 55.000 0.00 0.00 34.91 3.86
2744 2794 0.475044 ACCGCCCTAAAACACAGGAA 59.525 50.000 0.00 0.00 34.91 3.36
2745 2795 0.879090 CCGCCCTAAAACACAGGAAC 59.121 55.000 0.00 0.00 34.91 3.62
2746 2796 1.600023 CGCCCTAAAACACAGGAACA 58.400 50.000 0.00 0.00 34.91 3.18
2747 2797 1.535462 CGCCCTAAAACACAGGAACAG 59.465 52.381 0.00 0.00 34.91 3.16
2748 2798 1.269723 GCCCTAAAACACAGGAACAGC 59.730 52.381 0.00 0.00 34.91 4.40
2749 2799 1.535462 CCCTAAAACACAGGAACAGCG 59.465 52.381 0.00 0.00 34.91 5.18
2750 2800 2.218603 CCTAAAACACAGGAACAGCGT 58.781 47.619 0.00 0.00 34.91 5.07
2751 2801 3.395639 CCTAAAACACAGGAACAGCGTA 58.604 45.455 0.00 0.00 34.91 4.42
2752 2802 4.000988 CCTAAAACACAGGAACAGCGTAT 58.999 43.478 0.00 0.00 34.91 3.06
2753 2803 3.896648 AAAACACAGGAACAGCGTATG 57.103 42.857 0.00 0.00 0.00 2.39
2754 2804 1.156736 AACACAGGAACAGCGTATGC 58.843 50.000 0.00 0.00 43.24 3.14
2755 2805 0.673644 ACACAGGAACAGCGTATGCC 60.674 55.000 2.51 0.00 44.31 4.40
2756 2806 0.391661 CACAGGAACAGCGTATGCCT 60.392 55.000 2.51 0.00 44.31 4.75
2757 2807 1.134818 CACAGGAACAGCGTATGCCTA 60.135 52.381 2.51 0.00 44.31 3.93
2758 2808 1.553248 ACAGGAACAGCGTATGCCTAA 59.447 47.619 2.51 0.00 44.31 2.69
2759 2809 2.170607 ACAGGAACAGCGTATGCCTAAT 59.829 45.455 2.51 0.00 44.31 1.73
2760 2810 2.802816 CAGGAACAGCGTATGCCTAATC 59.197 50.000 2.51 0.00 44.31 1.75
2761 2811 2.700897 AGGAACAGCGTATGCCTAATCT 59.299 45.455 2.51 0.00 44.31 2.40
2762 2812 2.802816 GGAACAGCGTATGCCTAATCTG 59.197 50.000 2.51 0.00 44.31 2.90
2763 2813 1.871080 ACAGCGTATGCCTAATCTGC 58.129 50.000 2.51 0.00 44.31 4.26
2764 2814 1.414181 ACAGCGTATGCCTAATCTGCT 59.586 47.619 2.51 0.00 44.31 4.24
2765 2815 2.628178 ACAGCGTATGCCTAATCTGCTA 59.372 45.455 2.51 0.00 44.31 3.49
2766 2816 3.259374 ACAGCGTATGCCTAATCTGCTAT 59.741 43.478 2.51 0.00 44.31 2.97
2767 2817 3.615937 CAGCGTATGCCTAATCTGCTATG 59.384 47.826 2.51 0.00 44.31 2.23
2768 2818 3.259374 AGCGTATGCCTAATCTGCTATGT 59.741 43.478 2.51 0.00 44.31 2.29
2769 2819 3.997021 GCGTATGCCTAATCTGCTATGTT 59.003 43.478 0.00 0.00 33.98 2.71
2770 2820 4.092091 GCGTATGCCTAATCTGCTATGTTC 59.908 45.833 0.00 0.00 33.98 3.18
2771 2821 5.473931 CGTATGCCTAATCTGCTATGTTCT 58.526 41.667 0.00 0.00 0.00 3.01
2772 2822 5.928839 CGTATGCCTAATCTGCTATGTTCTT 59.071 40.000 0.00 0.00 0.00 2.52
2773 2823 6.425114 CGTATGCCTAATCTGCTATGTTCTTT 59.575 38.462 0.00 0.00 0.00 2.52
2774 2824 7.041780 CGTATGCCTAATCTGCTATGTTCTTTT 60.042 37.037 0.00 0.00 0.00 2.27
2775 2825 7.651027 ATGCCTAATCTGCTATGTTCTTTTT 57.349 32.000 0.00 0.00 0.00 1.94
2793 2843 2.375014 TTTTCCCCCTCAGTTCAACC 57.625 50.000 0.00 0.00 0.00 3.77
2794 2844 1.227249 TTTCCCCCTCAGTTCAACCA 58.773 50.000 0.00 0.00 0.00 3.67
2795 2845 0.771127 TTCCCCCTCAGTTCAACCAG 59.229 55.000 0.00 0.00 0.00 4.00
2796 2846 0.401395 TCCCCCTCAGTTCAACCAGT 60.401 55.000 0.00 0.00 0.00 4.00
2797 2847 1.132657 TCCCCCTCAGTTCAACCAGTA 60.133 52.381 0.00 0.00 0.00 2.74
2798 2848 1.279271 CCCCCTCAGTTCAACCAGTAG 59.721 57.143 0.00 0.00 0.00 2.57
2799 2849 1.279271 CCCCTCAGTTCAACCAGTAGG 59.721 57.143 0.00 0.00 42.21 3.18
2812 2862 2.898705 CCAGTAGGTGATCTGTCTTGC 58.101 52.381 0.00 0.00 0.00 4.01
3169 3219 4.748679 CAGAAGTTGCAGCGGCGC 62.749 66.667 26.86 26.86 45.35 6.53
3172 3222 4.697756 AAGTTGCAGCGGCGCCTA 62.698 61.111 30.40 12.61 45.35 3.93
3184 3234 2.813908 CGCCTACCACGGTTGCTC 60.814 66.667 0.00 0.00 0.00 4.26
3185 3235 2.436115 GCCTACCACGGTTGCTCC 60.436 66.667 0.00 0.00 0.00 4.70
3194 3244 3.733960 GGTTGCTCCGCCGAAACC 61.734 66.667 0.00 0.00 35.66 3.27
3195 3245 2.975799 GTTGCTCCGCCGAAACCA 60.976 61.111 0.00 0.00 0.00 3.67
3196 3246 2.203224 TTGCTCCGCCGAAACCAA 60.203 55.556 0.00 0.00 0.00 3.67
3197 3247 1.602323 TTGCTCCGCCGAAACCAAT 60.602 52.632 0.00 0.00 0.00 3.16
3198 3248 1.861542 TTGCTCCGCCGAAACCAATG 61.862 55.000 0.00 0.00 0.00 2.82
3199 3249 2.038269 GCTCCGCCGAAACCAATGA 61.038 57.895 0.00 0.00 0.00 2.57
3200 3250 1.982073 GCTCCGCCGAAACCAATGAG 61.982 60.000 0.00 0.00 0.00 2.90
3201 3251 1.982073 CTCCGCCGAAACCAATGAGC 61.982 60.000 0.00 0.00 0.00 4.26
3202 3252 2.040544 CCGCCGAAACCAATGAGCT 61.041 57.895 0.00 0.00 0.00 4.09
3203 3253 1.425428 CGCCGAAACCAATGAGCTC 59.575 57.895 6.82 6.82 0.00 4.09
3204 3254 1.298157 CGCCGAAACCAATGAGCTCA 61.298 55.000 20.79 20.79 0.00 4.26
3205 3255 0.169009 GCCGAAACCAATGAGCTCAC 59.831 55.000 20.97 3.08 0.00 3.51
3206 3256 1.813513 CCGAAACCAATGAGCTCACT 58.186 50.000 20.97 4.71 0.00 3.41
3207 3257 1.466167 CCGAAACCAATGAGCTCACTG 59.534 52.381 20.97 19.41 0.00 3.66
3208 3258 2.146342 CGAAACCAATGAGCTCACTGT 58.854 47.619 22.55 15.16 0.00 3.55
3209 3259 2.549754 CGAAACCAATGAGCTCACTGTT 59.450 45.455 22.55 19.54 0.00 3.16
3210 3260 3.003689 CGAAACCAATGAGCTCACTGTTT 59.996 43.478 27.09 27.09 31.35 2.83
3211 3261 4.498009 CGAAACCAATGAGCTCACTGTTTT 60.498 41.667 27.28 23.87 29.91 2.43
3212 3262 5.343307 AAACCAATGAGCTCACTGTTTTT 57.657 34.783 22.55 17.44 0.00 1.94
3236 3286 2.943449 TTTTTGGAAAAGAACCGCGT 57.057 40.000 4.92 0.00 0.00 6.01
3237 3287 2.943449 TTTTGGAAAAGAACCGCGTT 57.057 40.000 4.92 0.00 0.00 4.84
3238 3288 4.367386 TTTTTGGAAAAGAACCGCGTTA 57.633 36.364 4.92 0.00 0.00 3.18
3239 3289 4.571372 TTTTGGAAAAGAACCGCGTTAT 57.429 36.364 4.92 0.00 0.00 1.89
3240 3290 4.571372 TTTGGAAAAGAACCGCGTTATT 57.429 36.364 4.92 0.13 0.00 1.40
3241 3291 3.546002 TGGAAAAGAACCGCGTTATTG 57.454 42.857 4.92 0.00 27.18 1.90
3242 3292 3.139850 TGGAAAAGAACCGCGTTATTGA 58.860 40.909 4.92 0.00 27.18 2.57
3243 3293 3.564644 TGGAAAAGAACCGCGTTATTGAA 59.435 39.130 4.92 0.00 27.18 2.69
3244 3294 4.216687 TGGAAAAGAACCGCGTTATTGAAT 59.783 37.500 4.92 0.00 27.18 2.57
3245 3295 5.158494 GGAAAAGAACCGCGTTATTGAATT 58.842 37.500 4.92 0.00 27.18 2.17
3246 3296 5.285370 GGAAAAGAACCGCGTTATTGAATTC 59.715 40.000 4.92 0.00 27.18 2.17
3247 3297 3.651562 AGAACCGCGTTATTGAATTCG 57.348 42.857 4.92 0.00 0.00 3.34
3248 3298 2.098870 GAACCGCGTTATTGAATTCGC 58.901 47.619 4.92 14.14 44.23 4.70
3249 3299 0.375803 ACCGCGTTATTGAATTCGCC 59.624 50.000 16.84 5.10 44.73 5.54
3250 3300 0.375454 CCGCGTTATTGAATTCGCCA 59.625 50.000 16.84 0.00 44.73 5.69
3251 3301 1.452717 CGCGTTATTGAATTCGCCAC 58.547 50.000 16.84 0.00 44.73 5.01
3252 3302 1.201976 CGCGTTATTGAATTCGCCACA 60.202 47.619 16.84 0.00 44.73 4.17
3253 3303 2.173964 GCGTTATTGAATTCGCCACAC 58.826 47.619 13.49 0.00 42.33 3.82
3254 3304 2.159572 GCGTTATTGAATTCGCCACACT 60.160 45.455 13.49 0.00 42.33 3.55
3255 3305 3.416277 CGTTATTGAATTCGCCACACTG 58.584 45.455 0.04 0.00 0.00 3.66
3256 3306 3.120338 CGTTATTGAATTCGCCACACTGT 60.120 43.478 0.04 0.00 0.00 3.55
3257 3307 4.612712 CGTTATTGAATTCGCCACACTGTT 60.613 41.667 0.04 0.00 0.00 3.16
3258 3308 2.772568 TTGAATTCGCCACACTGTTG 57.227 45.000 0.04 0.00 0.00 3.33
3259 3309 1.674359 TGAATTCGCCACACTGTTGT 58.326 45.000 0.04 0.00 35.84 3.32
3275 3325 7.458038 CACTGTTGTGGTTTGTAAAAATACC 57.542 36.000 0.00 0.00 40.33 2.73
3276 3326 7.036220 CACTGTTGTGGTTTGTAAAAATACCA 58.964 34.615 0.00 0.00 40.33 3.25
3277 3327 7.221838 CACTGTTGTGGTTTGTAAAAATACCAG 59.778 37.037 0.00 0.00 41.07 4.00
3278 3328 6.043411 TGTTGTGGTTTGTAAAAATACCAGC 58.957 36.000 0.00 0.00 41.07 4.85
3279 3329 5.854010 TGTGGTTTGTAAAAATACCAGCA 57.146 34.783 0.00 0.00 41.07 4.41
3280 3330 6.412362 TGTGGTTTGTAAAAATACCAGCAT 57.588 33.333 0.00 0.00 41.07 3.79
3281 3331 6.821388 TGTGGTTTGTAAAAATACCAGCATT 58.179 32.000 0.00 0.00 41.07 3.56
3282 3332 6.703607 TGTGGTTTGTAAAAATACCAGCATTG 59.296 34.615 0.00 0.00 41.07 2.82
3283 3333 6.704050 GTGGTTTGTAAAAATACCAGCATTGT 59.296 34.615 0.00 0.00 41.07 2.71
3284 3334 7.868415 GTGGTTTGTAAAAATACCAGCATTGTA 59.132 33.333 0.00 0.00 41.07 2.41
3285 3335 7.868415 TGGTTTGTAAAAATACCAGCATTGTAC 59.132 33.333 0.00 0.00 35.82 2.90
3286 3336 8.085909 GGTTTGTAAAAATACCAGCATTGTACT 58.914 33.333 0.00 0.00 0.00 2.73
3287 3337 9.471084 GTTTGTAAAAATACCAGCATTGTACTT 57.529 29.630 0.00 0.00 0.00 2.24
3296 3346 8.677148 ATACCAGCATTGTACTTTAGTTATGG 57.323 34.615 0.00 0.00 0.00 2.74
3297 3347 5.885912 ACCAGCATTGTACTTTAGTTATGGG 59.114 40.000 0.00 0.00 0.00 4.00
3298 3348 6.119536 CCAGCATTGTACTTTAGTTATGGGA 58.880 40.000 0.00 0.00 0.00 4.37
3299 3349 6.601613 CCAGCATTGTACTTTAGTTATGGGAA 59.398 38.462 0.00 0.00 0.00 3.97
3300 3350 7.201732 CCAGCATTGTACTTTAGTTATGGGAAG 60.202 40.741 0.00 0.00 0.00 3.46
3301 3351 7.336931 CAGCATTGTACTTTAGTTATGGGAAGT 59.663 37.037 0.00 0.00 36.42 3.01
3302 3352 7.336931 AGCATTGTACTTTAGTTATGGGAAGTG 59.663 37.037 0.00 0.00 34.46 3.16
3303 3353 7.120726 GCATTGTACTTTAGTTATGGGAAGTGT 59.879 37.037 0.00 0.00 34.46 3.55
3304 3354 9.010029 CATTGTACTTTAGTTATGGGAAGTGTT 57.990 33.333 0.00 0.00 34.46 3.32
3305 3355 8.983702 TTGTACTTTAGTTATGGGAAGTGTTT 57.016 30.769 0.00 0.00 34.46 2.83
3306 3356 8.385898 TGTACTTTAGTTATGGGAAGTGTTTG 57.614 34.615 0.00 0.00 34.46 2.93
3307 3357 7.994334 TGTACTTTAGTTATGGGAAGTGTTTGT 59.006 33.333 0.00 0.00 34.46 2.83
3308 3358 7.272037 ACTTTAGTTATGGGAAGTGTTTGTG 57.728 36.000 0.00 0.00 31.59 3.33
3309 3359 6.264518 ACTTTAGTTATGGGAAGTGTTTGTGG 59.735 38.462 0.00 0.00 31.59 4.17
3310 3360 2.890945 AGTTATGGGAAGTGTTTGTGGC 59.109 45.455 0.00 0.00 0.00 5.01
3311 3361 1.917872 TATGGGAAGTGTTTGTGGCC 58.082 50.000 0.00 0.00 0.00 5.36
3312 3362 1.178534 ATGGGAAGTGTTTGTGGCCG 61.179 55.000 0.00 0.00 0.00 6.13
3313 3363 2.561037 GGGAAGTGTTTGTGGCCGG 61.561 63.158 0.00 0.00 0.00 6.13
3314 3364 1.826487 GGAAGTGTTTGTGGCCGGT 60.826 57.895 1.90 0.00 0.00 5.28
3315 3365 1.358759 GAAGTGTTTGTGGCCGGTG 59.641 57.895 1.90 0.00 0.00 4.94
3316 3366 2.677573 GAAGTGTTTGTGGCCGGTGC 62.678 60.000 1.90 0.00 0.00 5.01
3317 3367 4.622456 GTGTTTGTGGCCGGTGCG 62.622 66.667 1.90 0.00 38.85 5.34
3369 3419 4.842139 GTGCGTACGATCTCTTTTTGAT 57.158 40.909 21.65 0.00 0.00 2.57
3370 3420 4.812293 GTGCGTACGATCTCTTTTTGATC 58.188 43.478 21.65 0.00 37.53 2.92
3371 3421 3.863424 TGCGTACGATCTCTTTTTGATCC 59.137 43.478 21.65 0.00 37.59 3.36
3372 3422 3.863424 GCGTACGATCTCTTTTTGATCCA 59.137 43.478 21.65 0.00 37.59 3.41
3373 3423 4.328983 GCGTACGATCTCTTTTTGATCCAA 59.671 41.667 21.65 0.00 37.59 3.53
3374 3424 5.500931 GCGTACGATCTCTTTTTGATCCAAG 60.501 44.000 21.65 0.00 37.59 3.61
3375 3425 5.005779 CGTACGATCTCTTTTTGATCCAAGG 59.994 44.000 10.44 0.00 37.59 3.61
3376 3426 5.165961 ACGATCTCTTTTTGATCCAAGGA 57.834 39.130 0.00 0.00 37.59 3.36
3377 3427 4.938226 ACGATCTCTTTTTGATCCAAGGAC 59.062 41.667 0.00 0.00 37.59 3.85
3378 3428 4.937620 CGATCTCTTTTTGATCCAAGGACA 59.062 41.667 0.00 0.00 37.59 4.02
3379 3429 5.163814 CGATCTCTTTTTGATCCAAGGACAC 60.164 44.000 0.00 0.00 37.59 3.67
3380 3430 4.398319 TCTCTTTTTGATCCAAGGACACC 58.602 43.478 0.00 0.00 0.00 4.16
3381 3431 3.146066 TCTTTTTGATCCAAGGACACCG 58.854 45.455 0.00 0.00 0.00 4.94
3382 3432 2.649531 TTTTGATCCAAGGACACCGT 57.350 45.000 0.00 0.00 0.00 4.83
3383 3433 2.649531 TTTGATCCAAGGACACCGTT 57.350 45.000 0.00 0.00 0.00 4.44
3384 3434 1.890876 TTGATCCAAGGACACCGTTG 58.109 50.000 0.00 0.00 37.77 4.10
3385 3435 0.605319 TGATCCAAGGACACCGTTGC 60.605 55.000 0.00 0.00 36.97 4.17
3386 3436 1.635663 GATCCAAGGACACCGTTGCG 61.636 60.000 0.00 0.00 36.97 4.85
3387 3437 4.025401 CCAAGGACACCGTTGCGC 62.025 66.667 0.00 0.00 36.97 6.09
3388 3438 4.025401 CAAGGACACCGTTGCGCC 62.025 66.667 4.18 0.00 32.39 6.53
3389 3439 4.555709 AAGGACACCGTTGCGCCA 62.556 61.111 4.18 0.00 0.00 5.69
3396 3446 3.339464 CCGTTGCGCCACGTGTTA 61.339 61.111 28.92 0.00 38.57 2.41
3397 3447 2.673114 CCGTTGCGCCACGTGTTAT 61.673 57.895 28.92 0.00 38.57 1.89
3398 3448 1.225637 CGTTGCGCCACGTGTTATC 60.226 57.895 24.30 1.18 35.34 1.75
3399 3449 1.225637 GTTGCGCCACGTGTTATCG 60.226 57.895 15.65 12.76 0.00 2.92
3400 3450 1.665282 TTGCGCCACGTGTTATCGT 60.665 52.632 15.65 0.00 45.10 3.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 3.188159 TGCGTTTGACAGTAGAAACCT 57.812 42.857 0.00 0.00 0.00 3.50
206 208 2.772191 ACACCTCCTGCACCCACA 60.772 61.111 0.00 0.00 0.00 4.17
545 547 3.188460 CAGTCCAACTTTCGGTAACCATG 59.812 47.826 0.00 0.00 0.00 3.66
751 753 1.152943 GAGAAGGGGGCGGAAATCC 60.153 63.158 0.00 0.00 0.00 3.01
826 835 0.745486 TGATCTGAGTGCGCAATGGG 60.745 55.000 18.12 7.78 0.00 4.00
828 837 1.062148 CACTGATCTGAGTGCGCAATG 59.938 52.381 18.12 0.82 37.16 2.82
829 838 1.366679 CACTGATCTGAGTGCGCAAT 58.633 50.000 14.00 12.73 37.16 3.56
830 839 2.831597 CACTGATCTGAGTGCGCAA 58.168 52.632 14.00 0.00 37.16 4.85
831 840 4.584688 CACTGATCTGAGTGCGCA 57.415 55.556 5.66 5.66 37.16 6.09
835 844 5.220548 CCTTAAAATCGCACTGATCTGAGTG 60.221 44.000 6.60 7.67 45.34 3.51
836 845 4.872691 CCTTAAAATCGCACTGATCTGAGT 59.127 41.667 6.60 0.00 35.84 3.41
838 847 5.084818 TCCTTAAAATCGCACTGATCTGA 57.915 39.130 6.60 0.00 35.84 3.27
839 848 5.801350 TTCCTTAAAATCGCACTGATCTG 57.199 39.130 0.00 0.00 35.84 2.90
840 849 8.398665 GTTTATTCCTTAAAATCGCACTGATCT 58.601 33.333 0.00 0.00 35.84 2.75
841 850 8.398665 AGTTTATTCCTTAAAATCGCACTGATC 58.601 33.333 0.00 0.00 35.84 2.92
842 851 8.281212 AGTTTATTCCTTAAAATCGCACTGAT 57.719 30.769 0.00 0.00 39.67 2.90
843 852 7.681939 AGTTTATTCCTTAAAATCGCACTGA 57.318 32.000 0.00 0.00 31.69 3.41
867 876 7.390162 TCAATGCATCACAGTTCACAAAGTATA 59.610 33.333 0.00 0.00 0.00 1.47
872 881 4.915158 TCAATGCATCACAGTTCACAAA 57.085 36.364 0.00 0.00 0.00 2.83
908 917 2.099831 CCGTCGTCCGTGCTAGAC 59.900 66.667 0.00 0.00 33.66 2.59
978 987 1.229625 AGTGTGGAGGAGGCCATCA 60.230 57.895 5.01 0.00 40.68 3.07
1092 1101 2.567049 CGAAACTCCCGCTCGTCT 59.433 61.111 0.00 0.00 0.00 4.18
1119 1128 0.315568 CCTCATCCTCGGAATCGGAC 59.684 60.000 0.00 0.00 36.95 4.79
1125 1158 1.709578 CCTCATCCTCATCCTCGGAA 58.290 55.000 0.00 0.00 32.12 4.30
1131 1164 1.072852 GCCAGCCTCATCCTCATCC 59.927 63.158 0.00 0.00 0.00 3.51
1136 1169 3.095163 CAGGGCCAGCCTCATCCT 61.095 66.667 6.18 0.00 36.10 3.24
1153 1186 3.618690 ATCCTCAAACCTAGCACAGTC 57.381 47.619 0.00 0.00 0.00 3.51
1159 1192 3.596214 TGACGAAATCCTCAAACCTAGC 58.404 45.455 0.00 0.00 0.00 3.42
1167 1200 3.873361 GCAGATTGATGACGAAATCCTCA 59.127 43.478 0.00 0.00 34.02 3.86
1171 1204 5.670149 ATCAGCAGATTGATGACGAAATC 57.330 39.130 0.00 0.00 46.19 2.17
1219 1252 6.147821 CGAGAAACAGTATGAAACCTGAACAT 59.852 38.462 0.00 0.00 39.69 2.71
1234 1267 7.653767 ATTTAATCTTTCGTCGAGAAACAGT 57.346 32.000 0.00 0.57 43.35 3.55
1243 1276 4.490890 GTCGGCAAATTTAATCTTTCGTCG 59.509 41.667 0.00 0.00 0.00 5.12
1244 1277 4.791676 GGTCGGCAAATTTAATCTTTCGTC 59.208 41.667 0.00 0.00 0.00 4.20
1307 1340 5.852738 AGAGCAATTCGAATCAATATCCG 57.147 39.130 11.83 0.00 0.00 4.18
1328 1364 7.148440 TGGAACCGAAACGTGGTAATTTATAAG 60.148 37.037 0.00 0.00 39.29 1.73
1331 1367 5.002516 TGGAACCGAAACGTGGTAATTTAT 58.997 37.500 0.00 0.00 39.29 1.40
1387 1423 4.600692 AGGTTTTGTCCAAAGTAATGCC 57.399 40.909 0.00 0.00 0.00 4.40
1393 1429 2.764010 GGGTGAAGGTTTTGTCCAAAGT 59.236 45.455 0.00 0.00 0.00 2.66
1434 1470 1.004277 TCCAAATCTTCCAAGACCGGG 59.996 52.381 6.32 0.00 37.98 5.73
1461 1497 1.808945 GCATCTTCAAGGACACACCAG 59.191 52.381 0.00 0.00 42.04 4.00
1470 1506 2.421073 TGCGATTTCTGCATCTTCAAGG 59.579 45.455 0.00 0.00 37.44 3.61
1530 1566 3.259876 TCAGCACACTAGGACGGTAAATT 59.740 43.478 0.00 0.00 0.00 1.82
1538 1574 4.720649 TTGATAGTCAGCACACTAGGAC 57.279 45.455 0.00 0.00 32.28 3.85
1542 1578 5.479306 GGAACTTTGATAGTCAGCACACTA 58.521 41.667 0.00 0.00 35.54 2.74
1543 1579 4.319177 GGAACTTTGATAGTCAGCACACT 58.681 43.478 0.00 0.00 35.54 3.55
1547 1583 3.258372 AGACGGAACTTTGATAGTCAGCA 59.742 43.478 0.00 0.00 35.54 4.41
1566 1602 2.999355 CAGCTCCAAGCAAGTAAGAGAC 59.001 50.000 1.29 0.00 45.56 3.36
1582 1618 4.258702 TGTGACTAAAAGAGACCAGCTC 57.741 45.455 0.00 0.00 44.29 4.09
1587 1623 5.313712 TCCCAATTGTGACTAAAAGAGACC 58.686 41.667 4.43 0.00 0.00 3.85
1591 1627 5.183713 CAGCATCCCAATTGTGACTAAAAGA 59.816 40.000 4.43 0.00 0.00 2.52
1616 1652 1.075542 CGGCATCTCGTTTGCTACAA 58.924 50.000 6.87 0.00 40.03 2.41
1661 1697 7.666623 TGGCAGTATCTGTATCGAATTGATTA 58.333 34.615 0.00 0.00 33.66 1.75
1666 1702 5.240891 CCATGGCAGTATCTGTATCGAATT 58.759 41.667 0.00 0.00 33.43 2.17
1667 1703 4.323028 CCCATGGCAGTATCTGTATCGAAT 60.323 45.833 6.09 0.00 33.43 3.34
1670 1706 2.562738 TCCCATGGCAGTATCTGTATCG 59.437 50.000 6.09 0.00 33.43 2.92
1675 1711 0.763652 AGCTCCCATGGCAGTATCTG 59.236 55.000 6.09 0.00 34.12 2.90
1676 1712 1.419387 GAAGCTCCCATGGCAGTATCT 59.581 52.381 6.09 0.00 0.00 1.98
1677 1713 1.419387 AGAAGCTCCCATGGCAGTATC 59.581 52.381 6.09 3.91 0.00 2.24
1690 1726 6.128254 ACGTTAATTAGGCTGAAAAGAAGCTC 60.128 38.462 0.00 0.00 40.64 4.09
1742 1778 0.824759 GGAGAGACATACCGGTGCTT 59.175 55.000 19.93 0.00 0.00 3.91
1819 1856 2.157738 GGCAAGATGCTCAAACACTCT 58.842 47.619 2.00 0.00 44.28 3.24
1820 1857 1.881973 TGGCAAGATGCTCAAACACTC 59.118 47.619 2.00 0.00 44.28 3.51
1949 1998 4.142315 CCAACATGAAGATTCGCCTGAATT 60.142 41.667 0.00 0.00 44.79 2.17
2053 2102 2.417787 GCATTGTTCAGAAAGCATCCCC 60.418 50.000 0.00 0.00 0.00 4.81
2104 2153 3.906720 ACATAGGAAGTACCGTGCAAT 57.093 42.857 0.00 0.00 44.74 3.56
2110 2159 4.730949 TCAAGGAACATAGGAAGTACCG 57.269 45.455 0.00 0.00 44.74 4.02
2123 2172 3.384467 AGCTAGAGCAGAGATCAAGGAAC 59.616 47.826 4.01 0.00 45.16 3.62
2232 2282 4.702612 TCATCGTATTCTAGAGATGCCCTC 59.297 45.833 12.62 0.00 40.01 4.30
2234 2284 4.673061 CGTCATCGTATTCTAGAGATGCCC 60.673 50.000 12.62 6.86 40.01 5.36
2259 2309 2.675032 GCTTGGGCATTGGAAAGTAAGC 60.675 50.000 0.00 0.00 38.54 3.09
2358 2408 8.997621 TCACAATGTTAGTATTCTGTAGGTTC 57.002 34.615 0.00 0.00 0.00 3.62
2409 2459 2.498167 TCACTGCTTCAAGCCTTCTTC 58.502 47.619 7.01 0.00 41.51 2.87
2434 2484 1.335145 AAGCATTGCAGAAGTGGCTT 58.665 45.000 11.91 0.00 36.82 4.35
2443 2493 9.403110 GAGGAACATAAATAATAAGCATTGCAG 57.597 33.333 11.91 0.00 0.00 4.41
2461 2511 6.183360 CGCATGTTACATTTAAGGAGGAACAT 60.183 38.462 0.00 8.03 36.69 2.71
2480 2530 1.509463 CAAATGGCAGAGCGCATGT 59.491 52.632 11.47 0.00 45.17 3.21
2588 2638 9.753674 AGAATATCCAGAAATGAACCAAAGTAA 57.246 29.630 0.00 0.00 0.00 2.24
2719 2769 2.554893 TGTGTTTTAGGGCGGTGATTTC 59.445 45.455 0.00 0.00 0.00 2.17
2720 2770 2.556622 CTGTGTTTTAGGGCGGTGATTT 59.443 45.455 0.00 0.00 0.00 2.17
2721 2771 2.159382 CTGTGTTTTAGGGCGGTGATT 58.841 47.619 0.00 0.00 0.00 2.57
2722 2772 1.613255 CCTGTGTTTTAGGGCGGTGAT 60.613 52.381 0.00 0.00 0.00 3.06
2723 2773 0.250553 CCTGTGTTTTAGGGCGGTGA 60.251 55.000 0.00 0.00 0.00 4.02
2724 2774 0.250553 TCCTGTGTTTTAGGGCGGTG 60.251 55.000 0.00 0.00 35.96 4.94
2725 2775 0.475044 TTCCTGTGTTTTAGGGCGGT 59.525 50.000 0.00 0.00 35.96 5.68
2726 2776 0.879090 GTTCCTGTGTTTTAGGGCGG 59.121 55.000 0.00 0.00 35.96 6.13
2727 2777 1.535462 CTGTTCCTGTGTTTTAGGGCG 59.465 52.381 0.00 0.00 35.96 6.13
2728 2778 1.269723 GCTGTTCCTGTGTTTTAGGGC 59.730 52.381 0.00 0.00 35.96 5.19
2729 2779 1.535462 CGCTGTTCCTGTGTTTTAGGG 59.465 52.381 0.00 0.00 35.96 3.53
2730 2780 2.218603 ACGCTGTTCCTGTGTTTTAGG 58.781 47.619 0.00 0.00 36.63 2.69
2731 2781 4.669197 GCATACGCTGTTCCTGTGTTTTAG 60.669 45.833 0.00 0.00 34.30 1.85
2732 2782 3.187637 GCATACGCTGTTCCTGTGTTTTA 59.812 43.478 0.00 0.00 34.30 1.52
2733 2783 2.031157 GCATACGCTGTTCCTGTGTTTT 60.031 45.455 0.00 0.00 34.30 2.43
2734 2784 1.535462 GCATACGCTGTTCCTGTGTTT 59.465 47.619 0.00 0.00 34.30 2.83
2735 2785 1.156736 GCATACGCTGTTCCTGTGTT 58.843 50.000 0.00 0.00 34.30 3.32
2736 2786 0.673644 GGCATACGCTGTTCCTGTGT 60.674 55.000 0.00 0.00 38.60 3.72
2737 2787 0.391661 AGGCATACGCTGTTCCTGTG 60.392 55.000 0.00 0.00 38.60 3.66
2738 2788 1.191535 TAGGCATACGCTGTTCCTGT 58.808 50.000 0.00 0.00 38.60 4.00
2739 2789 2.309528 TTAGGCATACGCTGTTCCTG 57.690 50.000 0.00 0.00 38.60 3.86
2740 2790 2.700897 AGATTAGGCATACGCTGTTCCT 59.299 45.455 0.00 0.00 38.60 3.36
2741 2791 2.802816 CAGATTAGGCATACGCTGTTCC 59.197 50.000 0.00 0.00 38.60 3.62
2742 2792 2.221981 GCAGATTAGGCATACGCTGTTC 59.778 50.000 8.05 0.00 38.60 3.18
2743 2793 2.158900 AGCAGATTAGGCATACGCTGTT 60.159 45.455 8.05 0.80 38.60 3.16
2744 2794 1.414181 AGCAGATTAGGCATACGCTGT 59.586 47.619 8.05 0.00 38.60 4.40
2745 2795 2.160822 AGCAGATTAGGCATACGCTG 57.839 50.000 3.11 3.11 38.60 5.18
2746 2796 3.259374 ACATAGCAGATTAGGCATACGCT 59.741 43.478 0.00 0.00 38.60 5.07
2747 2797 3.589988 ACATAGCAGATTAGGCATACGC 58.410 45.455 0.00 0.00 37.44 4.42
2748 2798 5.473931 AGAACATAGCAGATTAGGCATACG 58.526 41.667 0.00 0.00 0.00 3.06
2749 2799 7.736447 AAAGAACATAGCAGATTAGGCATAC 57.264 36.000 0.00 0.00 0.00 2.39
2750 2800 8.752005 AAAAAGAACATAGCAGATTAGGCATA 57.248 30.769 0.00 0.00 0.00 3.14
2751 2801 7.651027 AAAAAGAACATAGCAGATTAGGCAT 57.349 32.000 0.00 0.00 0.00 4.40
2773 2823 2.023888 TGGTTGAACTGAGGGGGAAAAA 60.024 45.455 0.00 0.00 0.00 1.94
2774 2824 1.571457 TGGTTGAACTGAGGGGGAAAA 59.429 47.619 0.00 0.00 0.00 2.29
2775 2825 1.144913 CTGGTTGAACTGAGGGGGAAA 59.855 52.381 0.00 0.00 0.00 3.13
2776 2826 0.771127 CTGGTTGAACTGAGGGGGAA 59.229 55.000 0.00 0.00 0.00 3.97
2777 2827 0.401395 ACTGGTTGAACTGAGGGGGA 60.401 55.000 0.00 0.00 0.00 4.81
2778 2828 1.279271 CTACTGGTTGAACTGAGGGGG 59.721 57.143 0.00 0.00 0.00 5.40
2779 2829 1.279271 CCTACTGGTTGAACTGAGGGG 59.721 57.143 0.00 0.00 0.00 4.79
2780 2830 1.978580 ACCTACTGGTTGAACTGAGGG 59.021 52.381 0.00 0.00 46.05 4.30
2781 2831 2.632996 TCACCTACTGGTTGAACTGAGG 59.367 50.000 0.00 0.01 46.05 3.86
2782 2832 4.221703 AGATCACCTACTGGTTGAACTGAG 59.778 45.833 0.00 0.00 46.05 3.35
2783 2833 4.021104 CAGATCACCTACTGGTTGAACTGA 60.021 45.833 13.74 0.00 46.05 3.41
2784 2834 4.248859 CAGATCACCTACTGGTTGAACTG 58.751 47.826 0.00 0.00 46.05 3.16
2785 2835 3.904339 ACAGATCACCTACTGGTTGAACT 59.096 43.478 0.00 0.00 46.05 3.01
2786 2836 4.021016 AGACAGATCACCTACTGGTTGAAC 60.021 45.833 0.00 0.00 46.05 3.18
2787 2837 4.160329 AGACAGATCACCTACTGGTTGAA 58.840 43.478 0.00 0.00 46.05 2.69
2788 2838 3.779444 AGACAGATCACCTACTGGTTGA 58.221 45.455 0.00 0.00 46.05 3.18
2789 2839 4.248859 CAAGACAGATCACCTACTGGTTG 58.751 47.826 0.00 0.00 46.05 3.77
2790 2840 3.307059 GCAAGACAGATCACCTACTGGTT 60.307 47.826 0.00 0.00 46.05 3.67
2792 2842 2.898705 GCAAGACAGATCACCTACTGG 58.101 52.381 0.00 0.00 38.30 4.00
3152 3202 4.748679 GCGCCGCTGCAACTTCTG 62.749 66.667 0.00 0.00 37.32 3.02
3155 3205 4.697756 TAGGCGCCGCTGCAACTT 62.698 61.111 23.20 1.83 37.32 2.66
3167 3217 2.813908 GAGCAACCGTGGTAGGCG 60.814 66.667 9.20 0.00 35.00 5.52
3168 3218 2.436115 GGAGCAACCGTGGTAGGC 60.436 66.667 7.35 7.35 35.00 3.93
3182 3232 1.982073 GCTCATTGGTTTCGGCGGAG 61.982 60.000 7.21 3.97 0.00 4.63
3183 3233 2.038269 GCTCATTGGTTTCGGCGGA 61.038 57.895 7.21 0.00 0.00 5.54
3184 3234 1.982073 GAGCTCATTGGTTTCGGCGG 61.982 60.000 9.40 0.00 0.00 6.13
3185 3235 1.298157 TGAGCTCATTGGTTTCGGCG 61.298 55.000 13.74 0.00 0.00 6.46
3186 3236 0.169009 GTGAGCTCATTGGTTTCGGC 59.831 55.000 21.47 0.00 0.00 5.54
3187 3237 1.466167 CAGTGAGCTCATTGGTTTCGG 59.534 52.381 26.87 7.53 30.99 4.30
3188 3238 2.146342 ACAGTGAGCTCATTGGTTTCG 58.854 47.619 34.13 15.23 37.82 3.46
3189 3239 4.574599 AAACAGTGAGCTCATTGGTTTC 57.425 40.909 34.13 15.55 39.96 2.78
3217 3267 2.943449 ACGCGGTTCTTTTCCAAAAA 57.057 40.000 12.47 0.00 0.00 1.94
3218 3268 2.943449 AACGCGGTTCTTTTCCAAAA 57.057 40.000 12.47 0.00 0.00 2.44
3219 3269 4.036498 TCAATAACGCGGTTCTTTTCCAAA 59.964 37.500 12.47 0.00 0.00 3.28
3220 3270 3.564644 TCAATAACGCGGTTCTTTTCCAA 59.435 39.130 12.47 0.00 0.00 3.53
3221 3271 3.139850 TCAATAACGCGGTTCTTTTCCA 58.860 40.909 12.47 0.00 0.00 3.53
3222 3272 3.817148 TCAATAACGCGGTTCTTTTCC 57.183 42.857 12.47 0.00 0.00 3.13
3223 3273 5.002189 CGAATTCAATAACGCGGTTCTTTTC 59.998 40.000 12.47 2.72 0.00 2.29
3224 3274 4.849383 CGAATTCAATAACGCGGTTCTTTT 59.151 37.500 12.47 0.00 0.00 2.27
3225 3275 4.399978 CGAATTCAATAACGCGGTTCTTT 58.600 39.130 12.47 0.00 0.00 2.52
3226 3276 3.726782 GCGAATTCAATAACGCGGTTCTT 60.727 43.478 12.47 0.00 41.49 2.52
3227 3277 2.222953 GCGAATTCAATAACGCGGTTCT 60.223 45.455 12.47 0.00 41.49 3.01
3228 3278 2.098870 GCGAATTCAATAACGCGGTTC 58.901 47.619 12.47 0.00 41.49 3.62
3229 3279 2.168201 GCGAATTCAATAACGCGGTT 57.832 45.000 12.47 5.03 41.49 4.44
3230 3280 3.889780 GCGAATTCAATAACGCGGT 57.110 47.368 12.47 6.42 41.49 5.68
3234 3284 3.120338 ACAGTGTGGCGAATTCAATAACG 60.120 43.478 6.22 0.00 0.00 3.18
3235 3285 4.419522 ACAGTGTGGCGAATTCAATAAC 57.580 40.909 6.22 0.00 0.00 1.89
3236 3286 4.277174 ACAACAGTGTGGCGAATTCAATAA 59.723 37.500 6.22 0.00 36.31 1.40
3237 3287 3.818210 ACAACAGTGTGGCGAATTCAATA 59.182 39.130 6.22 0.00 36.31 1.90
3238 3288 2.622942 ACAACAGTGTGGCGAATTCAAT 59.377 40.909 6.22 0.00 36.31 2.57
3239 3289 2.020720 ACAACAGTGTGGCGAATTCAA 58.979 42.857 6.22 0.00 36.31 2.69
3240 3290 1.674359 ACAACAGTGTGGCGAATTCA 58.326 45.000 6.22 0.00 36.31 2.57
3250 3300 7.036829 GGTATTTTTACAAACCACAACAGTGT 58.963 34.615 0.00 0.00 39.07 3.55
3251 3301 7.036220 TGGTATTTTTACAAACCACAACAGTG 58.964 34.615 0.00 0.00 37.09 3.66
3252 3302 7.171630 TGGTATTTTTACAAACCACAACAGT 57.828 32.000 0.00 0.00 37.09 3.55
3253 3303 6.200097 GCTGGTATTTTTACAAACCACAACAG 59.800 38.462 0.00 0.00 37.09 3.16
3254 3304 6.043411 GCTGGTATTTTTACAAACCACAACA 58.957 36.000 0.00 0.00 37.09 3.33
3255 3305 6.043411 TGCTGGTATTTTTACAAACCACAAC 58.957 36.000 0.00 0.00 37.09 3.32
3256 3306 6.222038 TGCTGGTATTTTTACAAACCACAA 57.778 33.333 0.00 0.00 37.09 3.33
3257 3307 5.854010 TGCTGGTATTTTTACAAACCACA 57.146 34.783 0.00 0.00 37.09 4.17
3258 3308 6.704050 ACAATGCTGGTATTTTTACAAACCAC 59.296 34.615 0.00 0.00 37.09 4.16
3259 3309 6.821388 ACAATGCTGGTATTTTTACAAACCA 58.179 32.000 0.00 0.00 39.66 3.67
3260 3310 8.085909 AGTACAATGCTGGTATTTTTACAAACC 58.914 33.333 0.00 0.00 0.00 3.27
3261 3311 9.471084 AAGTACAATGCTGGTATTTTTACAAAC 57.529 29.630 0.00 0.00 0.00 2.93
3270 3320 9.120538 CCATAACTAAAGTACAATGCTGGTATT 57.879 33.333 0.00 0.00 0.00 1.89
3271 3321 7.719633 CCCATAACTAAAGTACAATGCTGGTAT 59.280 37.037 0.00 0.00 0.00 2.73
3272 3322 7.051623 CCCATAACTAAAGTACAATGCTGGTA 58.948 38.462 0.00 0.00 0.00 3.25
3273 3323 5.885912 CCCATAACTAAAGTACAATGCTGGT 59.114 40.000 0.00 0.00 0.00 4.00
3274 3324 6.119536 TCCCATAACTAAAGTACAATGCTGG 58.880 40.000 0.00 0.00 0.00 4.85
3275 3325 7.336931 ACTTCCCATAACTAAAGTACAATGCTG 59.663 37.037 0.00 0.00 30.47 4.41
3276 3326 7.336931 CACTTCCCATAACTAAAGTACAATGCT 59.663 37.037 0.00 0.00 31.06 3.79
3277 3327 7.120726 ACACTTCCCATAACTAAAGTACAATGC 59.879 37.037 0.00 0.00 31.06 3.56
3278 3328 8.561738 ACACTTCCCATAACTAAAGTACAATG 57.438 34.615 0.00 0.00 31.06 2.82
3279 3329 9.582648 AAACACTTCCCATAACTAAAGTACAAT 57.417 29.630 0.00 0.00 31.06 2.71
3280 3330 8.842280 CAAACACTTCCCATAACTAAAGTACAA 58.158 33.333 0.00 0.00 31.06 2.41
3281 3331 7.994334 ACAAACACTTCCCATAACTAAAGTACA 59.006 33.333 0.00 0.00 31.06 2.90
3282 3332 8.287503 CACAAACACTTCCCATAACTAAAGTAC 58.712 37.037 0.00 0.00 31.06 2.73
3283 3333 7.446013 CCACAAACACTTCCCATAACTAAAGTA 59.554 37.037 0.00 0.00 31.06 2.24
3284 3334 6.264518 CCACAAACACTTCCCATAACTAAAGT 59.735 38.462 0.00 0.00 32.34 2.66
3285 3335 6.677913 CCACAAACACTTCCCATAACTAAAG 58.322 40.000 0.00 0.00 0.00 1.85
3286 3336 5.010213 GCCACAAACACTTCCCATAACTAAA 59.990 40.000 0.00 0.00 0.00 1.85
3287 3337 4.521256 GCCACAAACACTTCCCATAACTAA 59.479 41.667 0.00 0.00 0.00 2.24
3288 3338 4.076394 GCCACAAACACTTCCCATAACTA 58.924 43.478 0.00 0.00 0.00 2.24
3289 3339 2.890945 GCCACAAACACTTCCCATAACT 59.109 45.455 0.00 0.00 0.00 2.24
3290 3340 2.029380 GGCCACAAACACTTCCCATAAC 60.029 50.000 0.00 0.00 0.00 1.89
3291 3341 2.243810 GGCCACAAACACTTCCCATAA 58.756 47.619 0.00 0.00 0.00 1.90
3292 3342 1.884497 CGGCCACAAACACTTCCCATA 60.884 52.381 2.24 0.00 0.00 2.74
3293 3343 1.178534 CGGCCACAAACACTTCCCAT 61.179 55.000 2.24 0.00 0.00 4.00
3294 3344 1.826054 CGGCCACAAACACTTCCCA 60.826 57.895 2.24 0.00 0.00 4.37
3295 3345 2.561037 CCGGCCACAAACACTTCCC 61.561 63.158 2.24 0.00 0.00 3.97
3296 3346 1.826487 ACCGGCCACAAACACTTCC 60.826 57.895 0.00 0.00 0.00 3.46
3297 3347 1.358759 CACCGGCCACAAACACTTC 59.641 57.895 0.00 0.00 0.00 3.01
3298 3348 2.781158 GCACCGGCCACAAACACTT 61.781 57.895 0.00 0.00 0.00 3.16
3299 3349 3.216292 GCACCGGCCACAAACACT 61.216 61.111 0.00 0.00 0.00 3.55
3300 3350 4.622456 CGCACCGGCCACAAACAC 62.622 66.667 0.00 0.00 36.38 3.32
3348 3398 4.259850 GGATCAAAAAGAGATCGTACGCAC 60.260 45.833 11.24 6.90 42.16 5.34
3349 3399 3.863424 GGATCAAAAAGAGATCGTACGCA 59.137 43.478 11.24 0.00 42.16 5.24
3350 3400 3.863424 TGGATCAAAAAGAGATCGTACGC 59.137 43.478 11.24 0.00 42.16 4.42
3351 3401 5.005779 CCTTGGATCAAAAAGAGATCGTACG 59.994 44.000 9.53 9.53 42.16 3.67
3352 3402 6.036191 GTCCTTGGATCAAAAAGAGATCGTAC 59.964 42.308 0.00 0.00 42.16 3.67
3353 3403 6.106673 GTCCTTGGATCAAAAAGAGATCGTA 58.893 40.000 0.00 0.00 42.16 3.43
3354 3404 4.938226 GTCCTTGGATCAAAAAGAGATCGT 59.062 41.667 0.00 0.00 42.16 3.73
3355 3405 4.937620 TGTCCTTGGATCAAAAAGAGATCG 59.062 41.667 0.00 0.00 42.16 3.69
3356 3406 5.124617 GGTGTCCTTGGATCAAAAAGAGATC 59.875 44.000 0.00 0.00 40.86 2.75
3357 3407 5.012893 GGTGTCCTTGGATCAAAAAGAGAT 58.987 41.667 0.00 0.00 0.00 2.75
3358 3408 4.398319 GGTGTCCTTGGATCAAAAAGAGA 58.602 43.478 0.00 0.00 0.00 3.10
3359 3409 3.189287 CGGTGTCCTTGGATCAAAAAGAG 59.811 47.826 0.00 0.00 0.00 2.85
3360 3410 3.146066 CGGTGTCCTTGGATCAAAAAGA 58.854 45.455 0.00 0.00 0.00 2.52
3361 3411 2.884639 ACGGTGTCCTTGGATCAAAAAG 59.115 45.455 0.00 0.00 0.00 2.27
3362 3412 2.938838 ACGGTGTCCTTGGATCAAAAA 58.061 42.857 0.00 0.00 0.00 1.94
3363 3413 2.621055 CAACGGTGTCCTTGGATCAAAA 59.379 45.455 0.00 0.00 0.00 2.44
3364 3414 2.226330 CAACGGTGTCCTTGGATCAAA 58.774 47.619 0.00 0.00 0.00 2.69
3365 3415 1.890876 CAACGGTGTCCTTGGATCAA 58.109 50.000 0.00 0.00 0.00 2.57
3366 3416 0.605319 GCAACGGTGTCCTTGGATCA 60.605 55.000 0.66 0.00 0.00 2.92
3367 3417 1.635663 CGCAACGGTGTCCTTGGATC 61.636 60.000 0.66 0.00 0.00 3.36
3368 3418 1.671054 CGCAACGGTGTCCTTGGAT 60.671 57.895 0.66 0.00 0.00 3.41
3369 3419 2.280524 CGCAACGGTGTCCTTGGA 60.281 61.111 0.66 0.00 0.00 3.53
3370 3420 4.025401 GCGCAACGGTGTCCTTGG 62.025 66.667 0.30 0.00 0.00 3.61
3371 3421 4.025401 GGCGCAACGGTGTCCTTG 62.025 66.667 10.83 0.00 0.00 3.61
3372 3422 4.555709 TGGCGCAACGGTGTCCTT 62.556 61.111 10.83 0.00 0.00 3.36
3381 3431 1.225637 CGATAACACGTGGCGCAAC 60.226 57.895 21.57 7.52 0.00 4.17
3382 3432 1.665282 ACGATAACACGTGGCGCAA 60.665 52.632 21.57 0.00 44.84 4.85
3383 3433 2.048970 ACGATAACACGTGGCGCA 60.049 55.556 21.57 1.59 44.84 6.09


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

AutoCloner maintained by Alex Coulton.