Multiple sequence alignment - TraesCS7D01G009900

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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 TraesCS7D01G009900 chr7D 100.000 3364 0 0 1 3364 4719206 4715843 0.000000e+00 6213.0
1 TraesCS7D01G009900 chr7D 88.852 897 83 12 929 1814 4705988 4705098 0.000000e+00 1086.0
2 TraesCS7D01G009900 chr7D 80.401 648 57 26 255 855 4706633 4706009 2.400000e-116 429.0
3 TraesCS7D01G009900 chr7D 84.615 143 6 8 1 129 4706952 4706812 9.800000e-26 128.0
4 TraesCS7D01G009900 chr7A 94.819 1930 68 8 929 2846 4586482 4584573 0.000000e+00 2981.0
5 TraesCS7D01G009900 chr7A 87.991 891 89 12 936 1814 4530467 4529583 0.000000e+00 1037.0
6 TraesCS7D01G009900 chr7A 98.158 380 7 0 2985 3364 4584573 4584194 0.000000e+00 664.0
7 TraesCS7D01G009900 chr7A 81.219 607 72 24 255 853 4587077 4586505 5.120000e-123 451.0
8 TraesCS7D01G009900 chr7A 80.000 540 53 18 355 861 4531014 4530497 6.910000e-92 348.0
9 TraesCS7D01G009900 chr7A 87.748 302 25 4 1906 2198 4529436 4529138 3.210000e-90 342.0
10 TraesCS7D01G009900 chr7A 87.868 272 16 7 1 269 4531312 4531055 1.520000e-78 303.0
11 TraesCS7D01G009900 chr7A 80.193 414 51 21 2199 2604 4486909 4486519 7.110000e-72 281.0
12 TraesCS7D01G009900 chr4A 88.314 676 47 12 926 1596 738933758 738934406 0.000000e+00 782.0
13 TraesCS7D01G009900 chr4A 81.126 604 55 24 312 871 738933157 738933745 2.400000e-116 429.0
14 TraesCS7D01G009900 chr4A 89.925 268 23 2 1900 2167 738934722 738934985 3.210000e-90 342.0
15 TraesCS7D01G009900 chr4A 83.333 330 25 11 312 621 738972091 738971772 9.190000e-71 278.0
16 TraesCS7D01G009900 chr4A 84.571 175 14 6 2228 2402 738935314 738935475 9.660000e-36 161.0
17 TraesCS7D01G009900 chr4A 83.459 133 8 7 1 121 738932813 738932943 9.870000e-21 111.0
18 TraesCS7D01G009900 chr4A 97.674 43 1 0 2 44 738972181 738972139 1.290000e-09 75.0
19 TraesCS7D01G009900 chr1A 85.385 130 18 1 710 839 451726391 451726519 2.110000e-27 134.0
20 TraesCS7D01G009900 chr5B 85.039 127 19 0 713 839 430263819 430263693 2.720000e-26 130.0
21 TraesCS7D01G009900 chr5B 86.765 68 9 0 713 780 430165770 430165703 3.600000e-10 76.8
22 TraesCS7D01G009900 chr3B 84.252 127 20 0 713 839 202592436 202592562 1.270000e-24 124.0
23 TraesCS7D01G009900 chrUn 86.765 68 9 0 713 780 342509080 342509147 3.600000e-10 76.8
24 TraesCS7D01G009900 chrUn 86.765 68 9 0 713 780 382684530 382684463 3.600000e-10 76.8
25 TraesCS7D01G009900 chrUn 86.765 68 9 0 713 780 399641097 399641030 3.600000e-10 76.8
26 TraesCS7D01G009900 chr1D 100.000 35 0 0 805 839 350907020 350907054 7.790000e-07 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G009900 chr7D 4715843 4719206 3363 True 6213.000000 6213 100.000000 1 3364 1 chr7D.!!$R1 3363
1 TraesCS7D01G009900 chr7D 4705098 4706952 1854 True 547.666667 1086 84.622667 1 1814 3 chr7D.!!$R2 1813
2 TraesCS7D01G009900 chr7A 4584194 4587077 2883 True 1365.333333 2981 91.398667 255 3364 3 chr7A.!!$R3 3109
3 TraesCS7D01G009900 chr7A 4529138 4531312 2174 True 507.500000 1037 85.901750 1 2198 4 chr7A.!!$R2 2197
4 TraesCS7D01G009900 chr4A 738932813 738935475 2662 False 365.000000 782 85.479000 1 2402 5 chr4A.!!$F1 2401

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
873 1050 0.032615 TGTTGGCCCTCTTTGTTGGT 60.033 50.000 0.00 0.00 0.00 3.67 F
874 1051 0.389025 GTTGGCCCTCTTTGTTGGTG 59.611 55.000 0.00 0.00 0.00 4.17 F
882 1059 1.000938 CTCTTTGTTGGTGCAAGCTCC 60.001 52.381 6.22 6.22 33.76 4.70 F
1231 1409 1.009829 GTGATCTTTAGGTGGCGCAG 58.990 55.000 10.83 0.00 0.00 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1765 1953 0.394216 CTTTGGGCGATGTCCATCCA 60.394 55.000 1.84 0.0 37.08 3.41 R
2291 2815 0.759436 ACTGTTCCACCTCGACCTGT 60.759 55.000 0.00 0.0 0.00 4.00 R
2315 2839 1.002430 TCCTCACTTGCAACAGCTAGG 59.998 52.381 0.00 0.0 35.79 3.02 R
3127 3659 0.673985 CTTCGCCATATCCTCCACGA 59.326 55.000 0.00 0.0 0.00 4.35 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
121 134 4.894784 TCGTGAAAGGTTAGCTTTCTCAT 58.105 39.130 29.01 2.06 40.39 2.90
122 135 4.690748 TCGTGAAAGGTTAGCTTTCTCATG 59.309 41.667 29.01 19.63 40.39 3.07
129 147 4.762251 AGGTTAGCTTTCTCATGGTTGTTC 59.238 41.667 0.00 0.00 0.00 3.18
130 148 4.082733 GGTTAGCTTTCTCATGGTTGTTCC 60.083 45.833 0.00 0.00 0.00 3.62
143 192 2.027745 GGTTGTTCCTCTGCTCTGATCA 60.028 50.000 0.00 0.00 0.00 2.92
176 226 3.366781 GCCTCTGATTCAGTTTGCTTTCC 60.367 47.826 13.23 0.00 32.61 3.13
186 236 9.508567 GATTCAGTTTGCTTTCCAGATAATTAC 57.491 33.333 0.00 0.00 0.00 1.89
195 245 8.950210 TGCTTTCCAGATAATTACTTCTTTCAG 58.050 33.333 0.00 0.00 0.00 3.02
210 260 5.148651 TCTTTCAGTAGTTAGCTGTTCCC 57.851 43.478 0.00 0.00 35.60 3.97
223 273 0.042731 TGTTCCCAGAGGTAGAGGGG 59.957 60.000 0.00 0.00 43.03 4.79
234 284 1.564348 GGTAGAGGGGAAAGATTGGCA 59.436 52.381 0.00 0.00 0.00 4.92
283 357 6.089417 CCTTTGCTCGGTTTGTGAATTTTATC 59.911 38.462 0.00 0.00 0.00 1.75
284 358 5.054390 TGCTCGGTTTGTGAATTTTATCC 57.946 39.130 0.00 0.00 0.00 2.59
401 508 4.687483 GCTGTTTTTCTTGATGTGGATTGG 59.313 41.667 0.00 0.00 0.00 3.16
458 567 4.202245 TCTAGGACACAACATGTTAGCC 57.798 45.455 11.53 10.01 43.56 3.93
467 576 0.546598 ACATGTTAGCCTGTAGCCCC 59.453 55.000 0.00 0.00 45.47 5.80
468 577 0.839946 CATGTTAGCCTGTAGCCCCT 59.160 55.000 0.00 0.00 45.47 4.79
469 578 0.839946 ATGTTAGCCTGTAGCCCCTG 59.160 55.000 0.00 0.00 45.47 4.45
470 579 1.153147 GTTAGCCTGTAGCCCCTGC 60.153 63.158 0.00 0.00 45.47 4.85
472 581 1.204786 TTAGCCTGTAGCCCCTGCAA 61.205 55.000 0.00 0.00 45.47 4.08
475 584 1.669999 GCCTGTAGCCCCTGCAATTG 61.670 60.000 0.00 0.00 41.13 2.32
476 585 0.323725 CCTGTAGCCCCTGCAATTGT 60.324 55.000 7.40 0.00 41.13 2.71
477 586 1.549203 CTGTAGCCCCTGCAATTGTT 58.451 50.000 7.40 0.00 41.13 2.83
478 587 1.474077 CTGTAGCCCCTGCAATTGTTC 59.526 52.381 7.40 0.00 41.13 3.18
479 588 0.451783 GTAGCCCCTGCAATTGTTCG 59.548 55.000 7.40 0.00 41.13 3.95
480 589 0.679640 TAGCCCCTGCAATTGTTCGG 60.680 55.000 7.40 5.19 41.13 4.30
481 590 2.275380 GCCCCTGCAATTGTTCGGT 61.275 57.895 7.40 0.00 37.47 4.69
482 591 1.883021 CCCCTGCAATTGTTCGGTC 59.117 57.895 7.40 0.00 0.00 4.79
483 592 1.501741 CCCTGCAATTGTTCGGTCG 59.498 57.895 7.40 0.00 0.00 4.79
532 647 9.439537 GGCTACTTTTCTGAATATCGATTTTTC 57.560 33.333 1.71 8.44 0.00 2.29
567 682 3.744238 TGAACACCAGATGACTTCGAA 57.256 42.857 0.00 0.00 0.00 3.71
582 697 6.283694 TGACTTCGAATCCTCTATTTCCATG 58.716 40.000 0.00 0.00 0.00 3.66
583 698 6.098266 TGACTTCGAATCCTCTATTTCCATGA 59.902 38.462 0.00 0.00 0.00 3.07
584 699 6.520272 ACTTCGAATCCTCTATTTCCATGAG 58.480 40.000 0.00 0.00 0.00 2.90
585 700 6.098982 ACTTCGAATCCTCTATTTCCATGAGT 59.901 38.462 0.00 0.00 0.00 3.41
586 701 7.287927 ACTTCGAATCCTCTATTTCCATGAGTA 59.712 37.037 0.00 0.00 0.00 2.59
587 702 7.782897 TCGAATCCTCTATTTCCATGAGTAT 57.217 36.000 0.00 0.00 0.00 2.12
588 703 8.195165 TCGAATCCTCTATTTCCATGAGTATT 57.805 34.615 0.00 0.00 0.00 1.89
589 704 9.309224 TCGAATCCTCTATTTCCATGAGTATTA 57.691 33.333 0.00 0.00 0.00 0.98
590 705 9.579768 CGAATCCTCTATTTCCATGAGTATTAG 57.420 37.037 0.00 0.00 0.00 1.73
637 763 4.468510 ACACATAGTTCGAGTCCCCAATTA 59.531 41.667 0.00 0.00 0.00 1.40
642 768 4.261801 AGTTCGAGTCCCCAATTATGTTG 58.738 43.478 0.00 0.00 0.00 3.33
650 776 5.014755 AGTCCCCAATTATGTTGTTAGGACA 59.985 40.000 18.35 0.00 42.95 4.02
651 777 5.891551 GTCCCCAATTATGTTGTTAGGACAT 59.108 40.000 14.79 0.00 40.75 3.06
652 778 7.057894 GTCCCCAATTATGTTGTTAGGACATA 58.942 38.462 14.79 0.00 40.75 2.29
653 779 7.724061 GTCCCCAATTATGTTGTTAGGACATAT 59.276 37.037 14.79 0.00 40.75 1.78
664 790 9.845740 TGTTGTTAGGACATATATATGTTTGCT 57.154 29.630 25.46 17.53 46.20 3.91
711 864 3.286329 TGAGCAGTAATGGACATGCAT 57.714 42.857 0.00 0.00 41.14 3.96
734 910 7.008628 GCATATGAAAACTGTGTTGTTATGCTC 59.991 37.037 18.39 2.10 35.62 4.26
735 911 6.639632 ATGAAAACTGTGTTGTTATGCTCT 57.360 33.333 0.00 0.00 0.00 4.09
784 960 9.246670 TGATAGTCCAAATTTCATTCATCAGTT 57.753 29.630 0.00 0.00 0.00 3.16
797 973 6.424812 TCATTCATCAGTTACACTGTTGTCTG 59.575 38.462 12.51 11.21 46.03 3.51
801 977 7.269316 TCATCAGTTACACTGTTGTCTGTTAA 58.731 34.615 12.51 0.00 46.03 2.01
841 1017 5.741011 AGTTACTCTGTTTCAACAACTGGA 58.259 37.500 0.00 0.00 38.66 3.86
842 1018 5.817816 AGTTACTCTGTTTCAACAACTGGAG 59.182 40.000 5.53 5.53 38.66 3.86
870 1047 2.771372 ACAAATGTTGGCCCTCTTTGTT 59.229 40.909 13.82 3.34 36.85 2.83
871 1048 3.132925 CAAATGTTGGCCCTCTTTGTTG 58.867 45.455 0.00 0.00 0.00 3.33
872 1049 1.341080 ATGTTGGCCCTCTTTGTTGG 58.659 50.000 0.00 0.00 0.00 3.77
873 1050 0.032615 TGTTGGCCCTCTTTGTTGGT 60.033 50.000 0.00 0.00 0.00 3.67
874 1051 0.389025 GTTGGCCCTCTTTGTTGGTG 59.611 55.000 0.00 0.00 0.00 4.17
882 1059 1.000938 CTCTTTGTTGGTGCAAGCTCC 60.001 52.381 6.22 6.22 33.76 4.70
902 1079 4.703897 TCCGCTACTGCTTATGCTAATTT 58.296 39.130 1.96 0.00 40.48 1.82
908 1085 7.095229 CGCTACTGCTTATGCTAATTTTCCATA 60.095 37.037 1.96 0.00 40.48 2.74
909 1086 8.734386 GCTACTGCTTATGCTAATTTTCCATAT 58.266 33.333 1.96 0.00 40.48 1.78
1086 1263 3.446161 CCAGTGTCGACTACCTGGAAATA 59.554 47.826 29.72 2.32 43.73 1.40
1225 1403 5.530915 TGTCAAGGTTTGTGATCTTTAGGTG 59.469 40.000 0.00 0.00 0.00 4.00
1231 1409 1.009829 GTGATCTTTAGGTGGCGCAG 58.990 55.000 10.83 0.00 0.00 5.18
1261 1443 7.989947 AGTTTATTACTTATCAGGACCCTGA 57.010 36.000 19.87 19.87 45.02 3.86
1347 1529 6.564328 AGGAGCAACTTGAAACTGTAAAAAG 58.436 36.000 0.00 0.00 0.00 2.27
1637 1823 4.433805 GCATTTTTCTGCAGAATGAAAGCG 60.434 41.667 28.89 20.37 41.87 4.68
1677 1865 4.281525 TGTTTTTCTTGTTGGCTCGTAC 57.718 40.909 0.00 0.00 0.00 3.67
1700 1888 7.470289 ACTTTGATTATCGAAGTCTATGTGC 57.530 36.000 19.15 0.00 45.45 4.57
1701 1889 7.268586 ACTTTGATTATCGAAGTCTATGTGCT 58.731 34.615 19.15 0.00 45.45 4.40
1731 1919 3.009723 ACAAGATCTGCACATAAACGGG 58.990 45.455 0.00 0.00 0.00 5.28
1765 1953 1.140452 AGGATCGCTGAGCAATGATGT 59.860 47.619 4.88 0.00 0.00 3.06
1800 1991 5.201243 GCCCAAAGAAACATAGGTCCTATT 58.799 41.667 8.83 0.00 0.00 1.73
1832 2047 6.651975 AGCCATACACTCTAATACAGGTAC 57.348 41.667 0.00 0.00 0.00 3.34
1903 2150 8.759641 GCATACACTCTAAATCAATGAGTACAG 58.240 37.037 0.00 0.00 38.80 2.74
1951 2198 9.261180 CTTCAGTGATTCAGAACTTAGTACAAA 57.739 33.333 0.00 0.00 0.00 2.83
2004 2251 1.788258 AAGATGATATGAGCACGCCG 58.212 50.000 0.00 0.00 0.00 6.46
2020 2267 4.472286 CACGCCGACATTTCATTAAGTTT 58.528 39.130 0.00 0.00 0.00 2.66
2291 2815 5.252547 TCATGCTTACCTTCTATTGTTGCA 58.747 37.500 0.00 0.00 0.00 4.08
2315 2839 0.387929 TCGAGGTGGAACAGTGTGTC 59.612 55.000 0.00 0.00 41.80 3.67
2321 2845 1.344763 GTGGAACAGTGTGTCCTAGCT 59.655 52.381 18.99 0.00 41.80 3.32
2445 2971 7.345192 GCTGGTGTTGAATAGTGTTATAATCG 58.655 38.462 0.00 0.00 0.00 3.34
2495 3021 5.570234 TTCAGAACCTTGGTGTGTAAAAC 57.430 39.130 0.00 0.00 0.00 2.43
2525 3051 4.504461 CACTTTGATTCGCGCTTCTACTAT 59.496 41.667 5.56 0.00 0.00 2.12
2526 3052 5.685954 CACTTTGATTCGCGCTTCTACTATA 59.314 40.000 5.56 0.00 0.00 1.31
2628 3154 3.515104 TCTCAGTGTAATGTGATGCCTGA 59.485 43.478 0.00 0.00 0.00 3.86
2681 3207 6.106003 TCTGCACATACTAGTGTATTGTTGG 58.894 40.000 5.39 0.00 41.52 3.77
2721 3247 7.669089 AGCTAAGCTTATCCTCTAAAGTTCT 57.331 36.000 6.64 0.00 33.89 3.01
2722 3248 8.084985 AGCTAAGCTTATCCTCTAAAGTTCTT 57.915 34.615 6.64 0.00 33.89 2.52
2723 3249 8.544622 AGCTAAGCTTATCCTCTAAAGTTCTTT 58.455 33.333 6.64 3.33 33.89 2.52
2724 3250 8.822855 GCTAAGCTTATCCTCTAAAGTTCTTTC 58.177 37.037 6.64 0.00 0.00 2.62
2725 3251 9.877178 CTAAGCTTATCCTCTAAAGTTCTTTCA 57.123 33.333 6.64 0.00 0.00 2.69
2726 3252 8.785329 AAGCTTATCCTCTAAAGTTCTTTCAG 57.215 34.615 0.00 0.38 0.00 3.02
2809 3341 2.220313 TGCTTGCTCAAATTTTTGGCC 58.780 42.857 0.00 0.00 38.66 5.36
2846 3378 1.269517 CGCATCAGAGAGCTAAGGACC 60.270 57.143 0.00 0.00 0.00 4.46
2847 3379 2.038659 GCATCAGAGAGCTAAGGACCT 58.961 52.381 0.00 0.00 0.00 3.85
2848 3380 3.226777 GCATCAGAGAGCTAAGGACCTA 58.773 50.000 0.00 0.00 0.00 3.08
2849 3381 3.255642 GCATCAGAGAGCTAAGGACCTAG 59.744 52.174 0.00 0.00 0.00 3.02
2850 3382 3.586470 TCAGAGAGCTAAGGACCTAGG 57.414 52.381 7.41 7.41 0.00 3.02
2851 3383 2.175931 TCAGAGAGCTAAGGACCTAGGG 59.824 54.545 14.81 0.00 0.00 3.53
2852 3384 2.091555 CAGAGAGCTAAGGACCTAGGGT 60.092 54.545 14.81 0.00 39.44 4.34
2853 3385 2.588248 AGAGAGCTAAGGACCTAGGGTT 59.412 50.000 14.81 6.14 35.25 4.11
2854 3386 3.013073 AGAGAGCTAAGGACCTAGGGTTT 59.987 47.826 14.81 6.81 35.25 3.27
2855 3387 3.376636 AGAGCTAAGGACCTAGGGTTTC 58.623 50.000 14.81 1.01 35.25 2.78
2856 3388 3.105283 GAGCTAAGGACCTAGGGTTTCA 58.895 50.000 14.81 0.00 35.25 2.69
2857 3389 3.712218 GAGCTAAGGACCTAGGGTTTCAT 59.288 47.826 14.81 0.00 35.25 2.57
2858 3390 3.456277 AGCTAAGGACCTAGGGTTTCATG 59.544 47.826 14.81 0.00 35.25 3.07
2859 3391 3.200165 GCTAAGGACCTAGGGTTTCATGT 59.800 47.826 14.81 0.00 35.25 3.21
2860 3392 4.407945 GCTAAGGACCTAGGGTTTCATGTA 59.592 45.833 14.81 0.00 35.25 2.29
2861 3393 4.838904 AAGGACCTAGGGTTTCATGTAC 57.161 45.455 14.81 0.00 35.25 2.90
2862 3394 4.076175 AGGACCTAGGGTTTCATGTACT 57.924 45.455 14.81 0.00 35.25 2.73
2863 3395 5.216665 AGGACCTAGGGTTTCATGTACTA 57.783 43.478 14.81 0.00 35.25 1.82
2864 3396 5.596763 AGGACCTAGGGTTTCATGTACTAA 58.403 41.667 14.81 0.00 35.25 2.24
2865 3397 5.661759 AGGACCTAGGGTTTCATGTACTAAG 59.338 44.000 14.81 0.00 35.25 2.18
2866 3398 5.354842 ACCTAGGGTTTCATGTACTAAGC 57.645 43.478 14.81 0.00 27.29 3.09
2867 3399 4.781087 ACCTAGGGTTTCATGTACTAAGCA 59.219 41.667 14.81 0.00 27.29 3.91
2868 3400 5.249852 ACCTAGGGTTTCATGTACTAAGCAA 59.750 40.000 14.81 0.00 27.29 3.91
2869 3401 6.069615 ACCTAGGGTTTCATGTACTAAGCAAT 60.070 38.462 14.81 0.00 27.29 3.56
2870 3402 6.828785 CCTAGGGTTTCATGTACTAAGCAATT 59.171 38.462 0.00 0.00 0.00 2.32
2871 3403 7.990886 CCTAGGGTTTCATGTACTAAGCAATTA 59.009 37.037 0.00 0.00 0.00 1.40
2872 3404 9.391006 CTAGGGTTTCATGTACTAAGCAATTAA 57.609 33.333 0.00 0.00 0.00 1.40
2873 3405 8.281212 AGGGTTTCATGTACTAAGCAATTAAG 57.719 34.615 0.00 0.00 0.00 1.85
2874 3406 8.107095 AGGGTTTCATGTACTAAGCAATTAAGA 58.893 33.333 0.00 0.00 0.00 2.10
2875 3407 8.736244 GGGTTTCATGTACTAAGCAATTAAGAA 58.264 33.333 0.00 0.00 0.00 2.52
2880 3412 8.883731 TCATGTACTAAGCAATTAAGAAAGAGC 58.116 33.333 0.00 0.00 0.00 4.09
2881 3413 8.668353 CATGTACTAAGCAATTAAGAAAGAGCA 58.332 33.333 0.00 0.00 0.00 4.26
2882 3414 8.615878 TGTACTAAGCAATTAAGAAAGAGCAA 57.384 30.769 0.00 0.00 0.00 3.91
2883 3415 9.062524 TGTACTAAGCAATTAAGAAAGAGCAAA 57.937 29.630 0.00 0.00 0.00 3.68
2886 3418 9.987272 ACTAAGCAATTAAGAAAGAGCAAATTT 57.013 25.926 0.00 0.00 0.00 1.82
2928 3460 8.777865 TCATAAGTTTGAGTTGAGTTAGATGG 57.222 34.615 0.00 0.00 0.00 3.51
2929 3461 7.824289 TCATAAGTTTGAGTTGAGTTAGATGGG 59.176 37.037 0.00 0.00 0.00 4.00
2930 3462 5.825593 AGTTTGAGTTGAGTTAGATGGGA 57.174 39.130 0.00 0.00 0.00 4.37
2931 3463 6.380079 AGTTTGAGTTGAGTTAGATGGGAT 57.620 37.500 0.00 0.00 0.00 3.85
2932 3464 6.176183 AGTTTGAGTTGAGTTAGATGGGATG 58.824 40.000 0.00 0.00 0.00 3.51
2933 3465 6.013379 AGTTTGAGTTGAGTTAGATGGGATGA 60.013 38.462 0.00 0.00 0.00 2.92
2934 3466 6.373005 TTGAGTTGAGTTAGATGGGATGAA 57.627 37.500 0.00 0.00 0.00 2.57
2935 3467 6.566079 TGAGTTGAGTTAGATGGGATGAAT 57.434 37.500 0.00 0.00 0.00 2.57
2936 3468 6.586344 TGAGTTGAGTTAGATGGGATGAATC 58.414 40.000 0.00 0.00 0.00 2.52
2937 3469 5.934781 AGTTGAGTTAGATGGGATGAATCC 58.065 41.667 0.26 0.26 46.41 3.01
2938 3470 5.669447 AGTTGAGTTAGATGGGATGAATCCT 59.331 40.000 9.18 0.00 46.35 3.24
2939 3471 6.846505 AGTTGAGTTAGATGGGATGAATCCTA 59.153 38.462 9.18 3.52 46.35 2.94
2940 3472 7.348274 AGTTGAGTTAGATGGGATGAATCCTAA 59.652 37.037 9.18 0.00 46.35 2.69
2941 3473 7.690454 TGAGTTAGATGGGATGAATCCTAAA 57.310 36.000 9.18 0.00 46.35 1.85
2942 3474 7.509546 TGAGTTAGATGGGATGAATCCTAAAC 58.490 38.462 9.18 5.24 46.35 2.01
2943 3475 7.127186 TGAGTTAGATGGGATGAATCCTAAACA 59.873 37.037 9.18 0.00 46.35 2.83
2944 3476 7.872138 AGTTAGATGGGATGAATCCTAAACAA 58.128 34.615 9.18 0.00 46.35 2.83
2945 3477 8.336235 AGTTAGATGGGATGAATCCTAAACAAA 58.664 33.333 9.18 0.00 46.35 2.83
2946 3478 8.966868 GTTAGATGGGATGAATCCTAAACAAAA 58.033 33.333 9.18 0.32 46.35 2.44
2947 3479 9.713684 TTAGATGGGATGAATCCTAAACAAAAT 57.286 29.630 9.18 0.00 46.35 1.82
2948 3480 8.613922 AGATGGGATGAATCCTAAACAAAATT 57.386 30.769 9.18 0.00 46.35 1.82
2949 3481 8.699130 AGATGGGATGAATCCTAAACAAAATTC 58.301 33.333 9.18 0.00 46.35 2.17
2950 3482 7.181569 TGGGATGAATCCTAAACAAAATTCC 57.818 36.000 9.18 0.00 46.35 3.01
2951 3483 6.156083 TGGGATGAATCCTAAACAAAATTCCC 59.844 38.462 9.18 0.00 46.35 3.97
2952 3484 6.384015 GGGATGAATCCTAAACAAAATTCCCT 59.616 38.462 9.18 0.00 46.35 4.20
2953 3485 7.563556 GGGATGAATCCTAAACAAAATTCCCTA 59.436 37.037 9.18 0.00 46.35 3.53
2954 3486 9.147732 GGATGAATCCTAAACAAAATTCCCTAT 57.852 33.333 1.86 0.00 43.73 2.57
2958 3490 9.817809 GAATCCTAAACAAAATTCCCTATTTCC 57.182 33.333 0.00 0.00 35.39 3.13
2959 3491 8.909423 ATCCTAAACAAAATTCCCTATTTCCA 57.091 30.769 0.00 0.00 35.39 3.53
2960 3492 8.728596 TCCTAAACAAAATTCCCTATTTCCAA 57.271 30.769 0.00 0.00 35.39 3.53
2961 3493 8.811994 TCCTAAACAAAATTCCCTATTTCCAAG 58.188 33.333 0.00 0.00 35.39 3.61
2962 3494 8.811994 CCTAAACAAAATTCCCTATTTCCAAGA 58.188 33.333 0.00 0.00 35.39 3.02
2963 3495 9.639601 CTAAACAAAATTCCCTATTTCCAAGAC 57.360 33.333 0.00 0.00 35.39 3.01
2964 3496 6.605471 ACAAAATTCCCTATTTCCAAGACC 57.395 37.500 0.00 0.00 35.39 3.85
2965 3497 5.483937 ACAAAATTCCCTATTTCCAAGACCC 59.516 40.000 0.00 0.00 35.39 4.46
2966 3498 5.552430 AAATTCCCTATTTCCAAGACCCT 57.448 39.130 0.00 0.00 30.55 4.34
2967 3499 6.668133 AAATTCCCTATTTCCAAGACCCTA 57.332 37.500 0.00 0.00 30.55 3.53
2968 3500 5.913946 ATTCCCTATTTCCAAGACCCTAG 57.086 43.478 0.00 0.00 0.00 3.02
2969 3501 4.637288 TCCCTATTTCCAAGACCCTAGA 57.363 45.455 0.00 0.00 0.00 2.43
2970 3502 4.967871 TCCCTATTTCCAAGACCCTAGAA 58.032 43.478 0.00 0.00 0.00 2.10
2971 3503 5.548573 TCCCTATTTCCAAGACCCTAGAAT 58.451 41.667 0.00 0.00 0.00 2.40
2972 3504 6.699688 TCCCTATTTCCAAGACCCTAGAATA 58.300 40.000 0.00 0.00 0.00 1.75
2973 3505 7.143741 TCCCTATTTCCAAGACCCTAGAATAA 58.856 38.462 0.00 0.00 0.00 1.40
2974 3506 7.292591 TCCCTATTTCCAAGACCCTAGAATAAG 59.707 40.741 0.00 0.00 0.00 1.73
2975 3507 7.292591 CCCTATTTCCAAGACCCTAGAATAAGA 59.707 40.741 0.00 0.00 0.00 2.10
2976 3508 8.714906 CCTATTTCCAAGACCCTAGAATAAGAA 58.285 37.037 0.00 0.00 0.00 2.52
2977 3509 9.549078 CTATTTCCAAGACCCTAGAATAAGAAC 57.451 37.037 0.00 0.00 0.00 3.01
2978 3510 5.952347 TCCAAGACCCTAGAATAAGAACC 57.048 43.478 0.00 0.00 0.00 3.62
2979 3511 5.600749 TCCAAGACCCTAGAATAAGAACCT 58.399 41.667 0.00 0.00 0.00 3.50
2980 3512 6.748969 TCCAAGACCCTAGAATAAGAACCTA 58.251 40.000 0.00 0.00 0.00 3.08
2981 3513 7.194050 TCCAAGACCCTAGAATAAGAACCTAA 58.806 38.462 0.00 0.00 0.00 2.69
2982 3514 7.849904 TCCAAGACCCTAGAATAAGAACCTAAT 59.150 37.037 0.00 0.00 0.00 1.73
2983 3515 8.151596 CCAAGACCCTAGAATAAGAACCTAATC 58.848 40.741 0.00 0.00 0.00 1.75
2984 3516 7.859026 AGACCCTAGAATAAGAACCTAATCC 57.141 40.000 0.00 0.00 0.00 3.01
3003 3535 1.737793 CCTAAGTGCTTAAAGGTGGCG 59.262 52.381 0.00 0.00 0.00 5.69
3061 3593 2.262774 CTCCATGACCACCCCTCAGC 62.263 65.000 0.00 0.00 0.00 4.26
3127 3659 1.079819 CTCACGCCCTTGTCATCGT 60.080 57.895 0.00 0.00 35.35 3.73
3309 3841 2.436539 CCGACGACTCGCATGTGTG 61.437 63.158 6.09 6.46 38.70 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 134 1.423584 TCAGAGCAGAGGAACAACCA 58.576 50.000 0.00 0.00 42.04 3.67
122 135 2.027745 TGATCAGAGCAGAGGAACAACC 60.028 50.000 0.00 0.00 39.35 3.77
129 147 0.900421 TGGTGTGATCAGAGCAGAGG 59.100 55.000 19.69 0.00 0.00 3.69
130 148 2.483363 GGATGGTGTGATCAGAGCAGAG 60.483 54.545 26.05 0.00 35.56 3.35
143 192 0.622738 ATCAGAGGCTGGGATGGTGT 60.623 55.000 0.00 0.00 31.51 4.16
186 236 5.639931 GGGAACAGCTAACTACTGAAAGAAG 59.360 44.000 0.00 0.00 38.55 2.85
210 260 3.135530 CCAATCTTTCCCCTCTACCTCTG 59.864 52.174 0.00 0.00 0.00 3.35
284 358 2.110011 TCCTTGAAAAAGGAGAAGGGGG 59.890 50.000 3.04 0.00 43.68 5.40
310 384 2.267174 AGCTGAGAATGCTGTGTGTT 57.733 45.000 0.00 0.00 39.56 3.32
326 416 3.118592 CCAGAAATCTAAGGACGGAAGCT 60.119 47.826 0.00 0.00 0.00 3.74
401 508 1.401018 GCAAGTAATGCGACCCAACAC 60.401 52.381 0.00 0.00 46.87 3.32
458 567 1.474077 GAACAATTGCAGGGGCTACAG 59.526 52.381 5.05 0.00 41.91 2.74
467 576 1.721489 CGAACGACCGAACAATTGCAG 60.721 52.381 5.05 0.00 0.00 4.41
468 577 0.233590 CGAACGACCGAACAATTGCA 59.766 50.000 5.05 0.00 0.00 4.08
469 578 0.452122 CCGAACGACCGAACAATTGC 60.452 55.000 5.05 0.00 0.00 3.56
470 579 1.141645 TCCGAACGACCGAACAATTG 58.858 50.000 3.24 3.24 0.00 2.32
472 581 1.067425 TGATCCGAACGACCGAACAAT 60.067 47.619 0.00 0.00 0.00 2.71
475 584 0.109412 ACTGATCCGAACGACCGAAC 60.109 55.000 0.00 0.00 0.00 3.95
476 585 0.109458 CACTGATCCGAACGACCGAA 60.109 55.000 0.00 0.00 0.00 4.30
477 586 1.239296 ACACTGATCCGAACGACCGA 61.239 55.000 0.00 0.00 0.00 4.69
478 587 0.388134 AACACTGATCCGAACGACCG 60.388 55.000 0.00 0.00 0.00 4.79
479 588 2.642139 TAACACTGATCCGAACGACC 57.358 50.000 0.00 0.00 0.00 4.79
480 589 3.241995 GCATTAACACTGATCCGAACGAC 60.242 47.826 0.00 0.00 0.00 4.34
481 590 2.927477 GCATTAACACTGATCCGAACGA 59.073 45.455 0.00 0.00 0.00 3.85
482 591 2.030457 GGCATTAACACTGATCCGAACG 59.970 50.000 0.00 0.00 0.00 3.95
483 592 3.270877 AGGCATTAACACTGATCCGAAC 58.729 45.455 0.00 0.00 0.00 3.95
546 661 3.744238 TCGAAGTCATCTGGTGTTCAA 57.256 42.857 0.00 0.00 0.00 2.69
562 677 6.485830 ACTCATGGAAATAGAGGATTCGAA 57.514 37.500 0.00 0.00 33.76 3.71
564 679 9.579768 CTAATACTCATGGAAATAGAGGATTCG 57.420 37.037 2.62 0.00 40.98 3.34
623 746 3.992943 ACAACATAATTGGGGACTCGA 57.007 42.857 0.00 0.00 0.00 4.04
624 747 4.574828 CCTAACAACATAATTGGGGACTCG 59.425 45.833 0.00 0.00 0.00 4.18
628 754 5.522315 TGTCCTAACAACATAATTGGGGA 57.478 39.130 0.00 0.00 30.70 4.81
688 841 4.018490 TGCATGTCCATTACTGCTCATTT 58.982 39.130 0.00 0.00 34.94 2.32
693 846 4.976864 TCATATGCATGTCCATTACTGCT 58.023 39.130 10.16 0.00 34.94 4.24
694 847 5.694231 TTCATATGCATGTCCATTACTGC 57.306 39.130 10.16 0.00 34.65 4.40
697 850 7.433131 CACAGTTTTCATATGCATGTCCATTAC 59.567 37.037 10.16 0.00 33.57 1.89
703 856 6.151691 ACAACACAGTTTTCATATGCATGTC 58.848 36.000 10.16 0.00 33.57 3.06
711 864 7.744087 AGAGCATAACAACACAGTTTTCATA 57.256 32.000 0.00 0.00 33.07 2.15
740 916 8.580720 GGACTATCAAAGATAGTAGCAGAATGA 58.419 37.037 17.05 0.00 34.67 2.57
784 960 9.991388 GTTTTTGTATTAACAGACAACAGTGTA 57.009 29.630 0.00 0.00 38.41 2.90
841 1017 2.514803 GGCCAACATTTGTGACCTACT 58.485 47.619 0.00 0.00 0.00 2.57
842 1018 1.544246 GGGCCAACATTTGTGACCTAC 59.456 52.381 4.39 0.00 0.00 3.18
916 1093 9.484806 AGAATGGACAATTAGGATTCTTCAAAT 57.515 29.630 0.00 0.00 30.82 2.32
917 1094 8.884124 AGAATGGACAATTAGGATTCTTCAAA 57.116 30.769 0.00 0.00 30.82 2.69
918 1095 9.973661 TTAGAATGGACAATTAGGATTCTTCAA 57.026 29.630 0.00 0.00 35.50 2.69
919 1096 9.973661 TTTAGAATGGACAATTAGGATTCTTCA 57.026 29.630 0.00 0.00 35.50 3.02
924 1101 9.136323 GGTCATTTAGAATGGACAATTAGGATT 57.864 33.333 1.25 0.00 32.00 3.01
925 1102 8.506083 AGGTCATTTAGAATGGACAATTAGGAT 58.494 33.333 1.25 0.00 32.00 3.24
926 1103 7.872138 AGGTCATTTAGAATGGACAATTAGGA 58.128 34.615 1.25 0.00 32.00 2.94
927 1104 9.799106 ATAGGTCATTTAGAATGGACAATTAGG 57.201 33.333 1.25 0.00 32.00 2.69
959 1136 6.597672 TCGGTTGCTAACAGAATATCACAAAT 59.402 34.615 0.00 0.00 32.68 2.32
982 1159 6.873605 TCATCCATATATAACCTGCAAGTTCG 59.126 38.462 3.41 0.00 0.00 3.95
1086 1263 3.744426 CGAGTTTATCAACCGTGGTCTTT 59.256 43.478 0.00 0.00 32.70 2.52
1125 1302 5.512232 GAAGTCCACTTTCTCATCCTTGAGT 60.512 44.000 3.15 0.00 42.09 3.41
1251 1433 8.517878 CAGCATAATAAATAAATCAGGGTCCTG 58.482 37.037 10.62 10.62 44.86 3.86
1347 1529 4.385358 TGTTTTGCTTCTTCAAGTTCCC 57.615 40.909 0.00 0.00 31.45 3.97
1657 1845 4.547406 AGTACGAGCCAACAAGAAAAAC 57.453 40.909 0.00 0.00 0.00 2.43
1658 1846 5.124138 TCAAAGTACGAGCCAACAAGAAAAA 59.876 36.000 0.00 0.00 0.00 1.94
1677 1865 7.706281 AGCACATAGACTTCGATAATCAAAG 57.294 36.000 0.00 0.00 0.00 2.77
1731 1919 3.873952 AGCGATCCTTTGAGTAGCATTTC 59.126 43.478 0.00 0.00 0.00 2.17
1765 1953 0.394216 CTTTGGGCGATGTCCATCCA 60.394 55.000 1.84 0.00 37.08 3.41
1800 1991 2.171237 AGAGTGTATGGCTTGCATGCTA 59.829 45.455 22.27 17.89 0.00 3.49
1832 2047 8.915057 AGTACAAATTCAGGGATCTATCATTG 57.085 34.615 0.00 0.00 0.00 2.82
1903 2150 6.090483 AGCCATACATGTATGTCTGTACTC 57.910 41.667 33.33 16.97 40.90 2.59
2004 2251 7.147976 AGCAAGGACAAACTTAATGAAATGTC 58.852 34.615 0.00 0.00 37.14 3.06
2020 2267 1.361204 TCCAATCAGGAGCAAGGACA 58.639 50.000 0.00 0.00 43.07 4.02
2108 2355 6.451064 AACAAATGGTAATTAGTAGCAGCC 57.549 37.500 0.00 0.00 43.24 4.85
2291 2815 0.759436 ACTGTTCCACCTCGACCTGT 60.759 55.000 0.00 0.00 0.00 4.00
2315 2839 1.002430 TCCTCACTTGCAACAGCTAGG 59.998 52.381 0.00 0.00 35.79 3.02
2321 2845 2.575532 CTTCCTTCCTCACTTGCAACA 58.424 47.619 0.00 0.00 0.00 3.33
2402 2926 3.005897 CCAGCGTCATAGGTAGCTAACAT 59.994 47.826 12.26 0.00 37.94 2.71
2404 2928 2.361438 ACCAGCGTCATAGGTAGCTAAC 59.639 50.000 5.62 0.00 37.94 2.34
2495 3021 1.650153 CGCGAATCAAAGTGCCAAATG 59.350 47.619 0.00 0.00 0.00 2.32
2628 3154 5.032846 TCCAAGGGACTATTCATCACTCTT 58.967 41.667 0.00 0.00 38.49 2.85
2681 3207 6.442112 AGCTTAGCTTCACTTGAAAATGAAC 58.558 36.000 0.00 0.00 33.89 3.18
2720 3246 7.878477 ATCATGCACAAACATAAACTGAAAG 57.122 32.000 0.00 0.00 42.29 2.62
2721 3247 9.926158 ATAATCATGCACAAACATAAACTGAAA 57.074 25.926 0.00 0.00 0.00 2.69
2722 3248 9.356433 CATAATCATGCACAAACATAAACTGAA 57.644 29.630 0.00 0.00 0.00 3.02
2723 3249 8.522003 ACATAATCATGCACAAACATAAACTGA 58.478 29.630 0.00 0.00 35.39 3.41
2724 3250 8.692110 ACATAATCATGCACAAACATAAACTG 57.308 30.769 0.00 0.00 35.39 3.16
2725 3251 9.709495 AAACATAATCATGCACAAACATAAACT 57.291 25.926 0.00 0.00 35.39 2.66
2809 3341 1.305930 GCGGTGGGGAGCAAGTTTAG 61.306 60.000 0.00 0.00 0.00 1.85
2846 3378 7.865706 AATTGCTTAGTACATGAAACCCTAG 57.134 36.000 0.00 0.00 0.00 3.02
2847 3379 9.391006 CTTAATTGCTTAGTACATGAAACCCTA 57.609 33.333 0.00 0.00 0.00 3.53
2848 3380 8.107095 TCTTAATTGCTTAGTACATGAAACCCT 58.893 33.333 0.00 0.00 0.00 4.34
2849 3381 8.276252 TCTTAATTGCTTAGTACATGAAACCC 57.724 34.615 0.00 0.00 0.00 4.11
2854 3386 8.883731 GCTCTTTCTTAATTGCTTAGTACATGA 58.116 33.333 0.00 0.00 0.00 3.07
2855 3387 8.668353 TGCTCTTTCTTAATTGCTTAGTACATG 58.332 33.333 0.00 0.00 0.00 3.21
2856 3388 8.792830 TGCTCTTTCTTAATTGCTTAGTACAT 57.207 30.769 0.00 0.00 0.00 2.29
2857 3389 8.615878 TTGCTCTTTCTTAATTGCTTAGTACA 57.384 30.769 0.00 0.00 0.00 2.90
2860 3392 9.987272 AAATTTGCTCTTTCTTAATTGCTTAGT 57.013 25.926 0.00 0.00 0.00 2.24
2895 3427 9.288576 ACTCAACTCAAACTTATGATTTGATCA 57.711 29.630 9.53 0.00 43.56 2.92
2902 3434 9.388506 CCATCTAACTCAACTCAAACTTATGAT 57.611 33.333 0.00 0.00 0.00 2.45
2903 3435 7.824289 CCCATCTAACTCAACTCAAACTTATGA 59.176 37.037 0.00 0.00 0.00 2.15
2904 3436 7.824289 TCCCATCTAACTCAACTCAAACTTATG 59.176 37.037 0.00 0.00 0.00 1.90
2905 3437 7.918076 TCCCATCTAACTCAACTCAAACTTAT 58.082 34.615 0.00 0.00 0.00 1.73
2906 3438 7.311092 TCCCATCTAACTCAACTCAAACTTA 57.689 36.000 0.00 0.00 0.00 2.24
2907 3439 6.187727 TCCCATCTAACTCAACTCAAACTT 57.812 37.500 0.00 0.00 0.00 2.66
2908 3440 5.825593 TCCCATCTAACTCAACTCAAACT 57.174 39.130 0.00 0.00 0.00 2.66
2909 3441 6.173339 TCATCCCATCTAACTCAACTCAAAC 58.827 40.000 0.00 0.00 0.00 2.93
2910 3442 6.373005 TCATCCCATCTAACTCAACTCAAA 57.627 37.500 0.00 0.00 0.00 2.69
2911 3443 6.373005 TTCATCCCATCTAACTCAACTCAA 57.627 37.500 0.00 0.00 0.00 3.02
2912 3444 6.408548 GGATTCATCCCATCTAACTCAACTCA 60.409 42.308 0.00 0.00 41.20 3.41
2913 3445 5.994668 GGATTCATCCCATCTAACTCAACTC 59.005 44.000 0.00 0.00 41.20 3.01
2914 3446 5.934781 GGATTCATCCCATCTAACTCAACT 58.065 41.667 0.00 0.00 41.20 3.16
2932 3464 9.817809 GGAAATAGGGAATTTTGTTTAGGATTC 57.182 33.333 0.00 0.00 37.93 2.52
2933 3465 9.332713 TGGAAATAGGGAATTTTGTTTAGGATT 57.667 29.630 0.00 0.00 37.93 3.01
2934 3466 8.909423 TGGAAATAGGGAATTTTGTTTAGGAT 57.091 30.769 0.00 0.00 37.93 3.24
2935 3467 8.728596 TTGGAAATAGGGAATTTTGTTTAGGA 57.271 30.769 0.00 0.00 37.93 2.94
2936 3468 8.811994 TCTTGGAAATAGGGAATTTTGTTTAGG 58.188 33.333 0.00 0.00 37.93 2.69
2937 3469 9.639601 GTCTTGGAAATAGGGAATTTTGTTTAG 57.360 33.333 0.00 0.00 37.93 1.85
2938 3470 8.590204 GGTCTTGGAAATAGGGAATTTTGTTTA 58.410 33.333 0.00 0.00 37.93 2.01
2939 3471 7.450074 GGTCTTGGAAATAGGGAATTTTGTTT 58.550 34.615 0.00 0.00 37.93 2.83
2940 3472 6.013725 GGGTCTTGGAAATAGGGAATTTTGTT 60.014 38.462 0.00 0.00 37.93 2.83
2941 3473 5.483937 GGGTCTTGGAAATAGGGAATTTTGT 59.516 40.000 0.00 0.00 37.93 2.83
2942 3474 5.721480 AGGGTCTTGGAAATAGGGAATTTTG 59.279 40.000 0.00 0.00 37.93 2.44
2943 3475 5.915628 AGGGTCTTGGAAATAGGGAATTTT 58.084 37.500 0.00 0.00 37.93 1.82
2944 3476 5.552430 AGGGTCTTGGAAATAGGGAATTT 57.448 39.130 0.00 0.00 40.59 1.82
2945 3477 5.976870 TCTAGGGTCTTGGAAATAGGGAATT 59.023 40.000 0.00 0.00 0.00 2.17
2946 3478 5.548573 TCTAGGGTCTTGGAAATAGGGAAT 58.451 41.667 0.00 0.00 0.00 3.01
2947 3479 4.967871 TCTAGGGTCTTGGAAATAGGGAA 58.032 43.478 0.00 0.00 0.00 3.97
2948 3480 4.637288 TCTAGGGTCTTGGAAATAGGGA 57.363 45.455 0.00 0.00 0.00 4.20
2949 3481 5.913946 ATTCTAGGGTCTTGGAAATAGGG 57.086 43.478 0.00 0.00 0.00 3.53
2950 3482 8.263854 TCTTATTCTAGGGTCTTGGAAATAGG 57.736 38.462 0.00 0.00 0.00 2.57
2951 3483 9.549078 GTTCTTATTCTAGGGTCTTGGAAATAG 57.451 37.037 0.00 0.00 0.00 1.73
2952 3484 8.491958 GGTTCTTATTCTAGGGTCTTGGAAATA 58.508 37.037 0.00 0.00 0.00 1.40
2953 3485 7.184753 AGGTTCTTATTCTAGGGTCTTGGAAAT 59.815 37.037 0.00 0.00 0.00 2.17
2954 3486 6.504279 AGGTTCTTATTCTAGGGTCTTGGAAA 59.496 38.462 0.00 0.00 0.00 3.13
2955 3487 6.030082 AGGTTCTTATTCTAGGGTCTTGGAA 58.970 40.000 0.00 0.00 0.00 3.53
2956 3488 5.600749 AGGTTCTTATTCTAGGGTCTTGGA 58.399 41.667 0.00 0.00 0.00 3.53
2957 3489 5.959583 AGGTTCTTATTCTAGGGTCTTGG 57.040 43.478 0.00 0.00 0.00 3.61
2958 3490 8.151596 GGATTAGGTTCTTATTCTAGGGTCTTG 58.848 40.741 0.00 0.00 0.00 3.02
2959 3491 8.074991 AGGATTAGGTTCTTATTCTAGGGTCTT 58.925 37.037 0.00 0.00 0.00 3.01
2960 3492 7.606581 AGGATTAGGTTCTTATTCTAGGGTCT 58.393 38.462 0.00 0.00 0.00 3.85
2961 3493 7.859026 AGGATTAGGTTCTTATTCTAGGGTC 57.141 40.000 0.00 0.00 0.00 4.46
2962 3494 9.382307 CTTAGGATTAGGTTCTTATTCTAGGGT 57.618 37.037 0.00 0.00 0.00 4.34
2963 3495 9.382307 ACTTAGGATTAGGTTCTTATTCTAGGG 57.618 37.037 0.00 0.00 0.00 3.53
2965 3497 9.699703 GCACTTAGGATTAGGTTCTTATTCTAG 57.300 37.037 0.00 0.00 0.00 2.43
2966 3498 9.435570 AGCACTTAGGATTAGGTTCTTATTCTA 57.564 33.333 0.00 0.00 0.00 2.10
2967 3499 8.325477 AGCACTTAGGATTAGGTTCTTATTCT 57.675 34.615 0.00 0.00 0.00 2.40
2968 3500 8.966069 AAGCACTTAGGATTAGGTTCTTATTC 57.034 34.615 0.00 0.00 0.00 1.75
2971 3503 9.886132 CTTTAAGCACTTAGGATTAGGTTCTTA 57.114 33.333 0.00 0.00 28.51 2.10
2972 3504 7.829706 CCTTTAAGCACTTAGGATTAGGTTCTT 59.170 37.037 0.00 0.00 30.13 2.52
2973 3505 7.037514 ACCTTTAAGCACTTAGGATTAGGTTCT 60.038 37.037 6.27 0.00 0.00 3.01
2974 3506 7.065923 CACCTTTAAGCACTTAGGATTAGGTTC 59.934 40.741 6.27 0.00 0.00 3.62
2975 3507 6.884836 CACCTTTAAGCACTTAGGATTAGGTT 59.115 38.462 6.27 0.00 0.00 3.50
2976 3508 6.415573 CACCTTTAAGCACTTAGGATTAGGT 58.584 40.000 6.27 0.00 0.00 3.08
2977 3509 5.823045 CCACCTTTAAGCACTTAGGATTAGG 59.177 44.000 6.27 0.00 0.00 2.69
2978 3510 5.297029 GCCACCTTTAAGCACTTAGGATTAG 59.703 44.000 6.27 0.00 0.00 1.73
2979 3511 5.190677 GCCACCTTTAAGCACTTAGGATTA 58.809 41.667 6.27 0.00 0.00 1.75
2980 3512 4.017126 GCCACCTTTAAGCACTTAGGATT 58.983 43.478 6.27 0.00 0.00 3.01
2981 3513 3.621558 GCCACCTTTAAGCACTTAGGAT 58.378 45.455 6.27 0.00 0.00 3.24
2982 3514 2.614481 CGCCACCTTTAAGCACTTAGGA 60.614 50.000 6.27 0.00 0.00 2.94
2983 3515 1.737793 CGCCACCTTTAAGCACTTAGG 59.262 52.381 0.00 0.00 0.00 2.69
2984 3516 1.737793 CCGCCACCTTTAAGCACTTAG 59.262 52.381 0.00 0.00 0.00 2.18
3003 3535 1.383523 GTCCTAAGGCAAGCACATCC 58.616 55.000 0.00 0.00 0.00 3.51
3061 3593 0.872021 GCCCGATCACGCTCACTAAG 60.872 60.000 0.00 0.00 38.29 2.18
3127 3659 0.673985 CTTCGCCATATCCTCCACGA 59.326 55.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.