Multiple sequence alignment - TraesCS6D01G039300

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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 TraesCS6D01G039300 chr6D 100.000 3086 0 0 1 3086 16197315 16200400 0.000000e+00 5699.0
1 TraesCS6D01G039300 chr7D 96.989 930 26 2 2158 3086 460056990 460056062 0.000000e+00 1561.0
2 TraesCS6D01G039300 chr7D 95.098 102 4 1 799 900 528060317 528060417 3.190000e-35 159.0
3 TraesCS6D01G039300 chr2A 96.555 929 31 1 2159 3086 14449960 14450888 0.000000e+00 1537.0
4 TraesCS6D01G039300 chr2A 95.213 940 29 6 2159 3086 101997939 101998874 0.000000e+00 1472.0
5 TraesCS6D01G039300 chr3D 96.060 939 26 2 2159 3086 578426200 578425262 0.000000e+00 1519.0
6 TraesCS6D01G039300 chr3D 95.172 932 40 3 2158 3086 65444235 65445164 0.000000e+00 1467.0
7 TraesCS6D01G039300 chr3D 94.883 938 37 2 2159 3085 589561155 589560218 0.000000e+00 1456.0
8 TraesCS6D01G039300 chr3D 80.339 295 54 4 1612 1904 588315063 588315355 1.440000e-53 220.0
9 TraesCS6D01G039300 chr3D 85.057 174 23 2 1367 1537 588028410 588028237 1.140000e-39 174.0
10 TraesCS6D01G039300 chr3D 85.057 174 20 2 1367 1534 56879809 56879636 4.090000e-39 172.0
11 TraesCS6D01G039300 chr3D 91.964 112 6 3 799 908 409442094 409442204 1.480000e-33 154.0
12 TraesCS6D01G039300 chr3D 80.556 144 19 5 1402 1538 588367360 588367501 5.440000e-18 102.0
13 TraesCS6D01G039300 chr5B 95.584 951 29 3 2147 3086 280597122 280596174 0.000000e+00 1511.0
14 TraesCS6D01G039300 chr5B 95.634 939 30 2 2159 3086 86024713 86025651 0.000000e+00 1496.0
15 TraesCS6D01G039300 chr2D 95.657 944 28 4 2155 3086 31579393 31580335 0.000000e+00 1504.0
16 TraesCS6D01G039300 chr7B 93.118 930 62 2 2158 3086 584240190 584239262 0.000000e+00 1362.0
17 TraesCS6D01G039300 chr7B 92.593 108 7 1 799 906 245825439 245825333 1.480000e-33 154.0
18 TraesCS6D01G039300 chr4A 93.936 841 48 3 2248 3086 646291038 646290199 0.000000e+00 1267.0
19 TraesCS6D01G039300 chr6B 91.575 546 35 3 1607 2151 27946789 27947324 0.000000e+00 743.0
20 TraesCS6D01G039300 chr6B 91.544 544 28 3 1610 2152 27999395 27998869 0.000000e+00 734.0
21 TraesCS6D01G039300 chr6B 89.871 543 40 7 1056 1590 27999996 27999461 0.000000e+00 684.0
22 TraesCS6D01G039300 chr6B 86.992 615 44 20 997 1581 27946121 27946729 0.000000e+00 660.0
23 TraesCS6D01G039300 chr6B 87.294 425 44 5 2 416 28000897 28000473 7.740000e-131 477.0
24 TraesCS6D01G039300 chr6B 82.653 294 30 15 516 804 27945787 27946064 1.110000e-59 241.0
25 TraesCS6D01G039300 chr6B 81.739 230 23 11 536 760 28000420 28000205 1.140000e-39 174.0
26 TraesCS6D01G039300 chr6A 88.206 602 29 14 1564 2159 16462546 16463111 0.000000e+00 680.0
27 TraesCS6D01G039300 chr6A 92.035 452 25 9 1148 1590 16462088 16462537 2.610000e-175 625.0
28 TraesCS6D01G039300 chr6A 93.985 133 6 2 674 805 16461533 16461664 1.880000e-47 200.0
29 TraesCS6D01G039300 chr6A 92.661 109 6 2 1041 1149 16461939 16462045 4.120000e-34 156.0
30 TraesCS6D01G039300 chr6A 100.000 33 0 0 936 968 16461758 16461790 9.240000e-06 62.1
31 TraesCS6D01G039300 chr2B 85.788 584 38 14 1344 1909 46603758 46604314 7.420000e-161 577.0
32 TraesCS6D01G039300 chr2B 79.420 690 90 22 2 685 46602682 46603325 1.020000e-119 440.0
33 TraesCS6D01G039300 chr2B 78.947 304 26 13 988 1288 46603393 46603661 4.090000e-39 172.0
34 TraesCS6D01G039300 chr2B 97.000 100 3 0 803 902 715928018 715928117 5.290000e-38 169.0
35 TraesCS6D01G039300 chr3B 81.293 294 53 2 1612 1904 786720611 786720903 1.430000e-58 237.0
36 TraesCS6D01G039300 chr3B 85.057 174 20 2 1367 1534 89376000 89376173 4.090000e-39 172.0
37 TraesCS6D01G039300 chr3B 84.483 174 24 2 1367 1537 786143467 786143294 5.290000e-38 169.0
38 TraesCS6D01G039300 chr3A 85.057 174 23 2 1367 1537 717905471 717905298 1.140000e-39 174.0
39 TraesCS6D01G039300 chr3A 76.370 292 62 7 1620 1906 717946659 717946948 1.920000e-32 150.0
40 TraesCS6D01G039300 chr1A 96.000 100 4 0 804 903 157352233 157352134 2.460000e-36 163.0
41 TraesCS6D01G039300 chr5D 95.050 101 5 0 803 903 443776620 443776520 3.190000e-35 159.0
42 TraesCS6D01G039300 chr5D 94.898 98 5 0 803 900 253168143 253168240 1.480000e-33 154.0
43 TraesCS6D01G039300 chr1B 92.593 108 6 2 797 903 61488849 61488955 1.480000e-33 154.0
44 TraesCS6D01G039300 chr1B 91.892 111 6 3 793 901 647184771 647184880 5.330000e-33 152.0


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 TraesCS6D01G039300 chr6D 16197315 16200400 3085 False 5699.000000 5699 100.000000 1 3086 1 chr6D.!!$F1 3085
1 TraesCS6D01G039300 chr7D 460056062 460056990 928 True 1561.000000 1561 96.989000 2158 3086 1 chr7D.!!$R1 928
2 TraesCS6D01G039300 chr2A 14449960 14450888 928 False 1537.000000 1537 96.555000 2159 3086 1 chr2A.!!$F1 927
3 TraesCS6D01G039300 chr2A 101997939 101998874 935 False 1472.000000 1472 95.213000 2159 3086 1 chr2A.!!$F2 927
4 TraesCS6D01G039300 chr3D 578425262 578426200 938 True 1519.000000 1519 96.060000 2159 3086 1 chr3D.!!$R2 927
5 TraesCS6D01G039300 chr3D 65444235 65445164 929 False 1467.000000 1467 95.172000 2158 3086 1 chr3D.!!$F1 928
6 TraesCS6D01G039300 chr3D 589560218 589561155 937 True 1456.000000 1456 94.883000 2159 3085 1 chr3D.!!$R4 926
7 TraesCS6D01G039300 chr5B 280596174 280597122 948 True 1511.000000 1511 95.584000 2147 3086 1 chr5B.!!$R1 939
8 TraesCS6D01G039300 chr5B 86024713 86025651 938 False 1496.000000 1496 95.634000 2159 3086 1 chr5B.!!$F1 927
9 TraesCS6D01G039300 chr2D 31579393 31580335 942 False 1504.000000 1504 95.657000 2155 3086 1 chr2D.!!$F1 931
10 TraesCS6D01G039300 chr7B 584239262 584240190 928 True 1362.000000 1362 93.118000 2158 3086 1 chr7B.!!$R2 928
11 TraesCS6D01G039300 chr4A 646290199 646291038 839 True 1267.000000 1267 93.936000 2248 3086 1 chr4A.!!$R1 838
12 TraesCS6D01G039300 chr6B 27945787 27947324 1537 False 548.000000 743 87.073333 516 2151 3 chr6B.!!$F1 1635
13 TraesCS6D01G039300 chr6B 27998869 28000897 2028 True 517.250000 734 87.612000 2 2152 4 chr6B.!!$R1 2150
14 TraesCS6D01G039300 chr6A 16461533 16463111 1578 False 344.620000 680 93.377400 674 2159 5 chr6A.!!$F1 1485
15 TraesCS6D01G039300 chr2B 46602682 46604314 1632 False 396.333333 577 81.385000 2 1909 3 chr2B.!!$F2 1907

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
616 635 0.161024 GTTGAACGAAAGAGCGACCG 59.839 55.0 0.0 0.0 34.83 4.79 F
1046 1235 0.112218 TGCATACCAACAACCCTGCT 59.888 50.0 0.0 0.0 0.00 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1965 2388 0.747283 AGCAGAGCACTAGCATTGGC 60.747 55.000 7.91 0.0 45.49 4.52 R
2178 2602 1.144936 TTGGGGCAAAAACCTTGCG 59.855 52.632 3.58 0.0 45.78 4.85 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
54 55 0.855349 CAGCGGCTACTTAAGATGCG 59.145 55.000 10.09 9.78 33.47 4.73
62 63 2.563471 ACTTAAGATGCGTCGACTCC 57.437 50.000 14.70 5.06 0.00 3.85
66 67 1.532604 AAGATGCGTCGACTCCACCA 61.533 55.000 14.70 3.32 0.00 4.17
91 92 0.733566 CGGTTTGCATGCACATCACC 60.734 55.000 22.58 21.19 0.00 4.02
95 96 1.534336 TTGCATGCACATCACCCCAC 61.534 55.000 22.58 0.00 0.00 4.61
115 120 5.414454 CCCACATTAGTTCCGATTTCTTTGA 59.586 40.000 0.00 0.00 0.00 2.69
159 165 5.643379 TCCAATGTTCAAGTTATTCTGCC 57.357 39.130 0.00 0.00 0.00 4.85
171 177 4.164988 AGTTATTCTGCCACTGCTAGGATT 59.835 41.667 0.00 0.00 38.71 3.01
183 189 7.085116 CCACTGCTAGGATTTATAGTAACTCG 58.915 42.308 0.00 0.00 0.00 4.18
188 194 9.692749 TGCTAGGATTTATAGTAACTCGAAATG 57.307 33.333 0.00 0.00 0.00 2.32
207 213 9.449550 TCGAAATGATATGTGTTGATTTAATGC 57.550 29.630 0.00 0.00 0.00 3.56
244 251 9.459276 CTTTTGTAAATGAAAGTTCACAAAACG 57.541 29.630 12.57 8.18 40.49 3.60
245 252 7.513190 TTGTAAATGAAAGTTCACAAAACGG 57.487 32.000 0.00 0.00 40.49 4.44
255 264 2.645802 TCACAAAACGGCCAACTTAGT 58.354 42.857 2.24 0.00 0.00 2.24
258 267 2.032426 ACAAAACGGCCAACTTAGTTCG 59.968 45.455 2.24 0.00 0.00 3.95
259 268 0.589708 AAACGGCCAACTTAGTTCGC 59.410 50.000 6.16 6.16 0.00 4.70
261 270 0.949105 ACGGCCAACTTAGTTCGCTG 60.949 55.000 19.18 19.18 40.76 5.18
262 271 1.502190 GGCCAACTTAGTTCGCTGC 59.498 57.895 13.76 5.92 30.82 5.25
268 277 4.651994 CCAACTTAGTTCGCTGCAATTAG 58.348 43.478 0.00 0.00 0.00 1.73
274 283 3.138304 AGTTCGCTGCAATTAGTTCACA 58.862 40.909 0.00 0.00 0.00 3.58
275 284 3.753272 AGTTCGCTGCAATTAGTTCACAT 59.247 39.130 0.00 0.00 0.00 3.21
291 300 7.701539 AGTTCACATACCTCAAATTTATGCA 57.298 32.000 0.00 0.00 0.00 3.96
294 303 5.359576 TCACATACCTCAAATTTATGCACCC 59.640 40.000 0.00 0.00 0.00 4.61
295 304 4.338118 ACATACCTCAAATTTATGCACCCG 59.662 41.667 0.00 0.00 0.00 5.28
302 311 5.590145 TCAAATTTATGCACCCGAATCATG 58.410 37.500 0.00 0.00 0.00 3.07
362 374 9.734984 TTTCAATGATGCTATGATGACTCATAT 57.265 29.630 0.00 0.00 42.17 1.78
435 449 0.871722 GTATGCACTTTGTCCGCACA 59.128 50.000 0.00 0.00 38.73 4.57
439 453 1.011242 CACTTTGTCCGCACACACG 60.011 57.895 0.00 0.00 29.76 4.49
444 458 1.019805 TTGTCCGCACACACGAACAA 61.020 50.000 0.00 0.00 34.06 2.83
448 462 1.425267 CCGCACACACGAACAAGTCA 61.425 55.000 0.00 0.00 34.06 3.41
449 463 0.315059 CGCACACACGAACAAGTCAC 60.315 55.000 0.00 0.00 34.06 3.67
450 464 1.006832 GCACACACGAACAAGTCACT 58.993 50.000 0.00 0.00 0.00 3.41
458 472 1.152756 AACAAGTCACTGGGTGCCC 60.153 57.895 0.00 0.00 32.98 5.36
460 474 2.450502 AAGTCACTGGGTGCCCCT 60.451 61.111 11.10 0.00 45.70 4.79
470 484 3.695606 GTGCCCCTGACTCGAGCA 61.696 66.667 13.61 10.73 0.00 4.26
471 485 3.695606 TGCCCCTGACTCGAGCAC 61.696 66.667 13.61 7.83 0.00 4.40
485 499 1.784525 GAGCACGATACATAGGGCAC 58.215 55.000 0.00 0.00 39.68 5.01
491 505 0.314302 GATACATAGGGCACGTCGCT 59.686 55.000 9.31 9.13 41.91 4.93
495 509 0.530650 CATAGGGCACGTCGCTGAAT 60.531 55.000 12.54 0.41 41.91 2.57
498 512 2.456119 GGGCACGTCGCTGAATGAG 61.456 63.158 9.31 0.00 41.91 2.90
499 513 2.397252 GCACGTCGCTGAATGAGC 59.603 61.111 0.00 0.00 45.20 4.26
500 514 3.084579 CACGTCGCTGAATGAGCC 58.915 61.111 0.00 0.00 46.01 4.70
502 516 1.446792 ACGTCGCTGAATGAGCCAG 60.447 57.895 0.00 0.00 46.01 4.85
503 517 2.169789 CGTCGCTGAATGAGCCAGG 61.170 63.158 0.00 0.00 46.01 4.45
505 519 2.437180 CGCTGAATGAGCCAGGCA 60.437 61.111 15.80 0.00 46.01 4.75
506 520 2.758089 CGCTGAATGAGCCAGGCAC 61.758 63.158 15.80 8.35 46.01 5.01
507 521 1.676635 GCTGAATGAGCCAGGCACA 60.677 57.895 14.58 14.58 42.54 4.57
509 523 0.322277 CTGAATGAGCCAGGCACACT 60.322 55.000 14.51 2.31 31.30 3.55
521 535 0.462759 GGCACACTGGCAGTATCTCC 60.463 60.000 21.59 14.71 43.14 3.71
526 540 2.012673 CACTGGCAGTATCTCCAAAGC 58.987 52.381 21.59 0.00 30.98 3.51
527 541 1.065126 ACTGGCAGTATCTCCAAAGCC 60.065 52.381 20.61 0.00 42.32 4.35
555 569 0.948678 TACGGCAACTGACCTTTTGC 59.051 50.000 0.00 0.00 46.14 3.68
562 576 2.559998 ACTGACCTTTTGCAACAACG 57.440 45.000 0.00 0.00 0.00 4.10
573 592 2.152830 TGCAACAACGGTATGTAACCC 58.847 47.619 0.00 0.00 46.62 4.11
604 623 0.386731 GCGGTTTCCATGGTTGAACG 60.387 55.000 12.58 13.93 0.00 3.95
610 629 4.537015 GTTTCCATGGTTGAACGAAAGAG 58.463 43.478 12.58 0.00 0.00 2.85
612 631 1.135972 CCATGGTTGAACGAAAGAGCG 60.136 52.381 2.57 0.00 37.29 5.03
616 635 0.161024 GTTGAACGAAAGAGCGACCG 59.839 55.000 0.00 0.00 34.83 4.79
619 638 2.760387 GAACGAAAGAGCGACCGGGT 62.760 60.000 6.32 0.00 34.83 5.28
620 639 1.526575 AACGAAAGAGCGACCGGGTA 61.527 55.000 6.32 0.00 34.83 3.69
622 641 0.388907 CGAAAGAGCGACCGGGTAAA 60.389 55.000 6.32 0.00 0.00 2.01
623 642 1.799544 GAAAGAGCGACCGGGTAAAA 58.200 50.000 6.32 0.00 0.00 1.52
625 644 0.321034 AAGAGCGACCGGGTAAAACC 60.321 55.000 6.32 0.00 37.60 3.27
657 676 0.521291 TTTTCGCATGGCAGCTACAC 59.479 50.000 0.00 0.00 0.00 2.90
662 681 1.233019 GCATGGCAGCTACACATAGG 58.767 55.000 0.00 0.00 0.00 2.57
668 687 2.683362 GGCAGCTACACATAGGGAAAAC 59.317 50.000 0.00 0.00 0.00 2.43
670 689 3.756434 GCAGCTACACATAGGGAAAACAA 59.244 43.478 0.00 0.00 0.00 2.83
680 699 7.070571 ACACATAGGGAAAACAATCCAGAAAAA 59.929 33.333 0.00 0.00 41.55 1.94
685 704 5.530543 GGGAAAACAATCCAGAAAAATGCAA 59.469 36.000 0.00 0.00 41.55 4.08
810 832 5.983540 GCAAATAGCTGCTATATACTCCCT 58.016 41.667 21.56 1.70 39.34 4.20
811 833 6.045955 GCAAATAGCTGCTATATACTCCCTC 58.954 44.000 21.56 2.11 39.34 4.30
812 834 6.578023 CAAATAGCTGCTATATACTCCCTCC 58.422 44.000 21.56 0.00 0.00 4.30
813 835 2.729194 AGCTGCTATATACTCCCTCCG 58.271 52.381 0.00 0.00 0.00 4.63
814 836 2.041891 AGCTGCTATATACTCCCTCCGT 59.958 50.000 0.00 0.00 0.00 4.69
815 837 2.826725 GCTGCTATATACTCCCTCCGTT 59.173 50.000 0.00 0.00 0.00 4.44
816 838 3.119424 GCTGCTATATACTCCCTCCGTTC 60.119 52.174 0.00 0.00 0.00 3.95
817 839 3.428532 TGCTATATACTCCCTCCGTTCC 58.571 50.000 0.00 0.00 0.00 3.62
818 840 2.422832 GCTATATACTCCCTCCGTTCCG 59.577 54.545 0.00 0.00 0.00 4.30
819 841 2.965671 ATATACTCCCTCCGTTCCGA 57.034 50.000 0.00 0.00 0.00 4.55
820 842 2.734755 TATACTCCCTCCGTTCCGAA 57.265 50.000 0.00 0.00 0.00 4.30
821 843 1.856629 ATACTCCCTCCGTTCCGAAA 58.143 50.000 0.00 0.00 0.00 3.46
822 844 1.856629 TACTCCCTCCGTTCCGAAAT 58.143 50.000 0.00 0.00 0.00 2.17
823 845 1.856629 ACTCCCTCCGTTCCGAAATA 58.143 50.000 0.00 0.00 0.00 1.40
824 846 1.755380 ACTCCCTCCGTTCCGAAATAG 59.245 52.381 0.00 0.00 0.00 1.73
825 847 2.029623 CTCCCTCCGTTCCGAAATAGA 58.970 52.381 0.00 0.00 0.00 1.98
826 848 2.628657 CTCCCTCCGTTCCGAAATAGAT 59.371 50.000 0.00 0.00 0.00 1.98
827 849 2.364324 TCCCTCCGTTCCGAAATAGATG 59.636 50.000 0.00 0.00 0.00 2.90
828 850 2.364324 CCCTCCGTTCCGAAATAGATGA 59.636 50.000 0.00 0.00 0.00 2.92
829 851 3.381949 CCTCCGTTCCGAAATAGATGAC 58.618 50.000 0.00 0.00 0.00 3.06
830 852 3.381949 CTCCGTTCCGAAATAGATGACC 58.618 50.000 0.00 0.00 0.00 4.02
831 853 2.101917 TCCGTTCCGAAATAGATGACCC 59.898 50.000 0.00 0.00 0.00 4.46
832 854 2.159014 CCGTTCCGAAATAGATGACCCA 60.159 50.000 0.00 0.00 0.00 4.51
833 855 3.527533 CGTTCCGAAATAGATGACCCAA 58.472 45.455 0.00 0.00 0.00 4.12
834 856 4.127171 CGTTCCGAAATAGATGACCCAAT 58.873 43.478 0.00 0.00 0.00 3.16
835 857 4.574828 CGTTCCGAAATAGATGACCCAATT 59.425 41.667 0.00 0.00 0.00 2.32
836 858 5.065988 CGTTCCGAAATAGATGACCCAATTT 59.934 40.000 0.00 0.00 0.00 1.82
837 859 6.404293 CGTTCCGAAATAGATGACCCAATTTT 60.404 38.462 0.00 0.00 0.00 1.82
838 860 7.201661 CGTTCCGAAATAGATGACCCAATTTTA 60.202 37.037 0.00 0.00 0.00 1.52
839 861 8.630037 GTTCCGAAATAGATGACCCAATTTTAT 58.370 33.333 0.00 0.00 0.00 1.40
840 862 9.854668 TTCCGAAATAGATGACCCAATTTTATA 57.145 29.630 0.00 0.00 0.00 0.98
841 863 9.280174 TCCGAAATAGATGACCCAATTTTATAC 57.720 33.333 0.00 0.00 0.00 1.47
842 864 9.284968 CCGAAATAGATGACCCAATTTTATACT 57.715 33.333 0.00 0.00 0.00 2.12
887 909 7.219484 ACAAAGTTGAGTCATCTATTTTGGG 57.781 36.000 14.35 1.71 40.00 4.12
888 910 7.004086 ACAAAGTTGAGTCATCTATTTTGGGA 58.996 34.615 14.35 0.00 40.00 4.37
889 911 7.040409 ACAAAGTTGAGTCATCTATTTTGGGAC 60.040 37.037 14.35 0.00 40.00 4.46
890 912 5.178797 AGTTGAGTCATCTATTTTGGGACG 58.821 41.667 1.70 0.00 33.84 4.79
891 913 4.137116 TGAGTCATCTATTTTGGGACGG 57.863 45.455 0.00 0.00 33.84 4.79
892 914 3.772572 TGAGTCATCTATTTTGGGACGGA 59.227 43.478 0.00 0.00 33.84 4.69
893 915 4.141937 TGAGTCATCTATTTTGGGACGGAG 60.142 45.833 0.00 0.00 33.84 4.63
894 916 3.134804 AGTCATCTATTTTGGGACGGAGG 59.865 47.826 0.00 0.00 33.84 4.30
895 917 2.438021 TCATCTATTTTGGGACGGAGGG 59.562 50.000 0.00 0.00 0.00 4.30
896 918 2.257391 TCTATTTTGGGACGGAGGGA 57.743 50.000 0.00 0.00 0.00 4.20
897 919 2.116238 TCTATTTTGGGACGGAGGGAG 58.884 52.381 0.00 0.00 0.00 4.30
898 920 1.838077 CTATTTTGGGACGGAGGGAGT 59.162 52.381 0.00 0.00 0.00 3.85
899 921 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
929 964 9.086336 CACAAAGTTGTTATTGATCACAAAGTT 57.914 29.630 0.00 0.00 39.91 2.66
930 965 9.086336 ACAAAGTTGTTATTGATCACAAAGTTG 57.914 29.630 0.00 6.95 38.47 3.16
931 966 9.086336 CAAAGTTGTTATTGATCACAAAGTTGT 57.914 29.630 0.00 0.00 43.36 3.32
932 967 9.651913 AAAGTTGTTATTGATCACAAAGTTGTT 57.348 25.926 0.00 0.00 39.91 2.83
934 969 9.730420 AGTTGTTATTGATCACAAAGTTGTTAC 57.270 29.630 0.00 0.00 39.91 2.50
968 1064 9.528018 CAGTTATTTGTGTGGAATTACAAACTT 57.472 29.630 12.35 0.48 46.01 2.66
998 1187 7.758613 TTTTTGAAACGGAGGAATTACAAAC 57.241 32.000 0.00 0.00 0.00 2.93
1019 1208 2.029838 ATGATGCGTGGAAAGAGACC 57.970 50.000 0.00 0.00 0.00 3.85
1024 1213 2.669240 GTGGAAAGAGACCGGGGG 59.331 66.667 6.32 0.00 0.00 5.40
1025 1214 3.327404 TGGAAAGAGACCGGGGGC 61.327 66.667 6.32 0.00 0.00 5.80
1026 1215 4.111053 GGAAAGAGACCGGGGGCC 62.111 72.222 6.32 0.00 0.00 5.80
1027 1216 3.009714 GAAAGAGACCGGGGGCCT 61.010 66.667 6.32 0.00 0.00 5.19
1028 1217 3.330720 AAAGAGACCGGGGGCCTG 61.331 66.667 6.32 0.00 0.00 4.85
1032 1221 4.815973 AGACCGGGGGCCTGCATA 62.816 66.667 6.32 0.00 0.00 3.14
1036 1225 4.122149 CGGGGGCCTGCATACCAA 62.122 66.667 0.84 0.00 0.00 3.67
1037 1226 2.442087 GGGGGCCTGCATACCAAC 60.442 66.667 0.84 0.14 0.00 3.77
1039 1228 1.304879 GGGGCCTGCATACCAACAA 60.305 57.895 0.84 0.00 0.00 2.83
1041 1230 1.604147 GGGCCTGCATACCAACAACC 61.604 60.000 0.84 0.00 0.00 3.77
1042 1231 1.604147 GGCCTGCATACCAACAACCC 61.604 60.000 0.00 0.00 0.00 4.11
1043 1232 0.611896 GCCTGCATACCAACAACCCT 60.612 55.000 0.00 0.00 0.00 4.34
1044 1233 1.176527 CCTGCATACCAACAACCCTG 58.823 55.000 0.00 0.00 0.00 4.45
1046 1235 0.112218 TGCATACCAACAACCCTGCT 59.888 50.000 0.00 0.00 0.00 4.24
1047 1236 1.256812 GCATACCAACAACCCTGCTT 58.743 50.000 0.00 0.00 0.00 3.91
1048 1237 1.067635 GCATACCAACAACCCTGCTTG 60.068 52.381 0.00 0.00 0.00 4.01
1060 1270 1.397390 CCTGCTTGGATTGGATGCCC 61.397 60.000 0.00 0.00 38.35 5.36
1313 1607 2.152016 GGTGTCCTTCCTGTTTACTGC 58.848 52.381 0.00 0.00 0.00 4.40
1315 1613 2.054799 TGTCCTTCCTGTTTACTGCCT 58.945 47.619 0.00 0.00 0.00 4.75
1330 1628 0.467844 TGCCTGTTTGTGTGGCTGAT 60.468 50.000 0.00 0.00 46.23 2.90
1355 1668 4.030452 GTGTGAAGCCAGCCGCAC 62.030 66.667 5.74 5.74 41.38 5.34
1602 1977 5.850557 TTTTTCCTTCTCAAACTGCATGA 57.149 34.783 0.00 0.00 0.00 3.07
1753 2175 1.671379 GCAGGTCGGGGTGTTTCTC 60.671 63.158 0.00 0.00 0.00 2.87
1951 2374 2.190578 GGGGAACTGATGCCTCCG 59.809 66.667 0.00 0.00 40.01 4.63
1954 2377 0.744771 GGGAACTGATGCCTCCGTTC 60.745 60.000 14.89 14.89 41.97 3.95
1965 2388 1.429463 CCTCCGTTCGTTTCTTCAGG 58.571 55.000 0.00 0.00 0.00 3.86
1967 2390 0.601841 TCCGTTCGTTTCTTCAGGCC 60.602 55.000 0.00 0.00 0.00 5.19
1972 2396 0.881118 TCGTTTCTTCAGGCCAATGC 59.119 50.000 5.01 0.00 0.00 3.56
1986 2410 1.406477 CCAATGCTAGTGCTCTGCTCA 60.406 52.381 0.00 0.00 40.48 4.26
1987 2411 2.562635 CAATGCTAGTGCTCTGCTCAT 58.437 47.619 0.00 0.00 40.48 2.90
1988 2412 2.943690 CAATGCTAGTGCTCTGCTCATT 59.056 45.455 0.00 2.96 40.48 2.57
1989 2413 4.124970 CAATGCTAGTGCTCTGCTCATTA 58.875 43.478 0.00 0.00 40.48 1.90
2000 2424 8.206867 AGTGCTCTGCTCATTAATTAGATTGTA 58.793 33.333 0.66 0.00 0.00 2.41
2024 2448 1.461127 GCAGATCGTCACAAACTCCAC 59.539 52.381 0.00 0.00 0.00 4.02
2062 2486 5.579753 ACTCCTTGATGCTCCATGATATT 57.420 39.130 0.00 0.00 0.00 1.28
2108 2532 3.057876 TGAACATTTCGGTGGCACATTAC 60.058 43.478 20.82 0.25 44.52 1.89
2178 2602 4.439253 AATACCCAAGCCTCTATTCCAC 57.561 45.455 0.00 0.00 0.00 4.02
2287 2711 2.562635 TGGCTGTGTACAAACGCTTTA 58.437 42.857 0.00 0.00 37.03 1.85
2296 2720 6.017026 TGTGTACAAACGCTTTATGGATTCAA 60.017 34.615 0.00 0.00 37.03 2.69
2393 2828 3.197790 CGGTGCCGCTTCCATCAG 61.198 66.667 0.00 0.00 0.00 2.90
2470 2905 6.582636 TCTAGAGTCTGCTTTTTGTTTCTGA 58.417 36.000 1.86 0.00 0.00 3.27
2640 3076 1.203994 CTTCCTGTCGTAATGGACCGT 59.796 52.381 0.00 0.00 36.07 4.83
2717 3153 1.891919 GGGTTGTCTTGCTGCGTCA 60.892 57.895 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 0.454600 GGTGGAGTCGACGCATCTTA 59.545 55.000 21.01 0.00 0.00 2.10
50 51 1.079819 CTTGGTGGAGTCGACGCAT 60.080 57.895 21.01 0.00 0.00 4.73
52 53 3.112709 GCTTGGTGGAGTCGACGC 61.113 66.667 11.19 11.19 0.00 5.19
54 55 2.432628 CCGCTTGGTGGAGTCGAC 60.433 66.667 7.70 7.70 34.74 4.20
62 63 4.999939 GCAAACCGCCGCTTGGTG 63.000 66.667 0.36 0.00 40.35 4.17
66 67 4.722855 GCATGCAAACCGCCGCTT 62.723 61.111 14.21 0.00 41.33 4.68
84 85 2.355716 CGGAACTAATGTGGGGTGATGT 60.356 50.000 0.00 0.00 0.00 3.06
91 92 5.414454 TCAAAGAAATCGGAACTAATGTGGG 59.586 40.000 0.00 0.00 0.00 4.61
159 165 7.872881 TCGAGTTACTATAAATCCTAGCAGTG 58.127 38.462 0.00 0.00 0.00 3.66
188 194 8.330302 GGCAAAAGCATTAAATCAACACATATC 58.670 33.333 0.00 0.00 0.00 1.63
194 200 5.226194 AGGGCAAAAGCATTAAATCAACA 57.774 34.783 0.00 0.00 0.00 3.33
207 213 8.655651 TTTCATTTACAAAAGTAGGGCAAAAG 57.344 30.769 0.00 0.00 0.00 2.27
244 251 1.234615 TGCAGCGAACTAAGTTGGCC 61.235 55.000 0.00 0.00 45.80 5.36
245 252 0.591170 TTGCAGCGAACTAAGTTGGC 59.409 50.000 0.00 0.00 45.19 4.52
255 264 4.094294 GGTATGTGAACTAATTGCAGCGAA 59.906 41.667 0.00 0.00 0.00 4.70
258 267 4.635765 TGAGGTATGTGAACTAATTGCAGC 59.364 41.667 0.00 0.00 0.00 5.25
259 268 6.741992 TTGAGGTATGTGAACTAATTGCAG 57.258 37.500 0.00 0.00 0.00 4.41
261 270 8.986477 AAATTTGAGGTATGTGAACTAATTGC 57.014 30.769 0.00 0.00 0.00 3.56
268 277 6.751888 GGTGCATAAATTTGAGGTATGTGAAC 59.248 38.462 0.00 0.00 0.00 3.18
274 283 4.787551 TCGGGTGCATAAATTTGAGGTAT 58.212 39.130 0.00 0.00 0.00 2.73
275 284 4.223556 TCGGGTGCATAAATTTGAGGTA 57.776 40.909 0.00 0.00 0.00 3.08
291 300 0.251121 TGCCAACACATGATTCGGGT 60.251 50.000 0.00 0.00 0.00 5.28
294 303 3.770263 ATCTTGCCAACACATGATTCG 57.230 42.857 0.00 0.00 32.24 3.34
295 304 4.980434 GCATATCTTGCCAACACATGATTC 59.020 41.667 0.00 0.00 46.15 2.52
362 374 9.982291 GAAGCAAAATTTAATACTATCACGACA 57.018 29.630 0.00 0.00 0.00 4.35
384 398 5.961396 AGGAAGCATGAATGATATGAAGC 57.039 39.130 0.00 0.00 0.00 3.86
391 405 5.021458 AGAAACCAAGGAAGCATGAATGAT 58.979 37.500 0.00 0.00 0.00 2.45
392 406 4.410099 AGAAACCAAGGAAGCATGAATGA 58.590 39.130 0.00 0.00 0.00 2.57
435 449 0.539986 ACCCAGTGACTTGTTCGTGT 59.460 50.000 0.00 0.00 0.00 4.49
439 453 2.331265 GGCACCCAGTGACTTGTTC 58.669 57.895 0.00 0.00 38.75 3.18
470 484 0.309922 CGACGTGCCCTATGTATCGT 59.690 55.000 0.00 0.00 0.00 3.73
471 485 1.002250 GCGACGTGCCCTATGTATCG 61.002 60.000 0.00 0.00 37.76 2.92
482 496 2.397252 GCTCATTCAGCGACGTGC 59.603 61.111 0.00 0.00 46.98 5.34
491 505 0.607217 CAGTGTGCCTGGCTCATTCA 60.607 55.000 24.39 10.88 37.54 2.57
500 514 0.251354 AGATACTGCCAGTGTGCCTG 59.749 55.000 7.83 0.00 41.15 4.85
502 516 0.462759 GGAGATACTGCCAGTGTGCC 60.463 60.000 7.83 0.94 0.00 5.01
503 517 0.250234 TGGAGATACTGCCAGTGTGC 59.750 55.000 7.83 0.00 0.00 4.57
505 519 2.616510 GCTTTGGAGATACTGCCAGTGT 60.617 50.000 7.83 0.00 35.23 3.55
506 520 2.012673 GCTTTGGAGATACTGCCAGTG 58.987 52.381 7.83 0.00 35.23 3.66
507 521 1.065126 GGCTTTGGAGATACTGCCAGT 60.065 52.381 1.54 1.54 40.04 4.00
509 523 1.289160 AGGCTTTGGAGATACTGCCA 58.711 50.000 0.00 0.00 42.46 4.92
511 525 4.790765 AAAAAGGCTTTGGAGATACTGC 57.209 40.909 14.19 0.00 0.00 4.40
547 561 2.691011 ACATACCGTTGTTGCAAAAGGT 59.309 40.909 12.45 12.45 43.23 3.50
562 576 5.235831 GCTCTAATTGAACGGGTTACATACC 59.764 44.000 0.00 0.00 46.99 2.73
573 592 2.739913 TGGAAACCGCTCTAATTGAACG 59.260 45.455 0.00 0.00 34.38 3.95
604 623 1.462283 GTTTTACCCGGTCGCTCTTTC 59.538 52.381 0.00 0.00 0.00 2.62
616 635 5.648178 ATGATGGTTTTACGGTTTTACCC 57.352 39.130 0.00 0.00 33.75 3.69
619 638 6.362820 GCGAAAATGATGGTTTTACGGTTTTA 59.637 34.615 0.00 0.00 31.80 1.52
620 639 5.176039 GCGAAAATGATGGTTTTACGGTTTT 59.824 36.000 0.00 0.00 31.80 2.43
622 641 4.231439 GCGAAAATGATGGTTTTACGGTT 58.769 39.130 0.00 0.00 31.80 4.44
623 642 3.253677 TGCGAAAATGATGGTTTTACGGT 59.746 39.130 0.00 0.00 31.80 4.83
625 644 4.265085 CCATGCGAAAATGATGGTTTTACG 59.735 41.667 0.00 0.00 33.26 3.18
626 645 4.032786 GCCATGCGAAAATGATGGTTTTAC 59.967 41.667 0.00 0.00 39.17 2.01
627 646 4.180057 GCCATGCGAAAATGATGGTTTTA 58.820 39.130 0.00 0.00 39.17 1.52
628 647 3.002102 GCCATGCGAAAATGATGGTTTT 58.998 40.909 0.00 0.00 39.17 2.43
657 676 7.064966 GCATTTTTCTGGATTGTTTTCCCTATG 59.935 37.037 0.00 0.00 34.67 2.23
662 681 6.616774 TTGCATTTTTCTGGATTGTTTTCC 57.383 33.333 0.00 0.00 36.24 3.13
668 687 9.590451 ACACTATATTTGCATTTTTCTGGATTG 57.410 29.630 0.00 0.00 0.00 2.67
685 704 7.094634 GCTGCCATGTTTATGCTACACTATATT 60.095 37.037 0.00 0.00 32.79 1.28
752 773 2.355126 ACTCACTGTCTGCGCACG 60.355 61.111 5.66 2.75 0.00 5.34
813 835 6.451064 AAATTGGGTCATCTATTTCGGAAC 57.549 37.500 0.00 0.00 0.00 3.62
814 836 8.760980 ATAAAATTGGGTCATCTATTTCGGAA 57.239 30.769 0.00 0.00 0.00 4.30
815 837 9.280174 GTATAAAATTGGGTCATCTATTTCGGA 57.720 33.333 0.00 0.00 0.00 4.55
816 838 9.284968 AGTATAAAATTGGGTCATCTATTTCGG 57.715 33.333 0.00 0.00 0.00 4.30
861 883 8.960591 CCCAAAATAGATGACTCAACTTTGTAT 58.039 33.333 0.00 0.00 0.00 2.29
862 884 8.160765 TCCCAAAATAGATGACTCAACTTTGTA 58.839 33.333 0.00 0.00 0.00 2.41
863 885 7.004086 TCCCAAAATAGATGACTCAACTTTGT 58.996 34.615 0.00 0.00 0.00 2.83
864 886 7.308435 GTCCCAAAATAGATGACTCAACTTTG 58.692 38.462 0.00 0.00 0.00 2.77
865 887 6.149474 CGTCCCAAAATAGATGACTCAACTTT 59.851 38.462 0.00 0.00 0.00 2.66
866 888 5.643777 CGTCCCAAAATAGATGACTCAACTT 59.356 40.000 0.00 0.00 0.00 2.66
867 889 5.178797 CGTCCCAAAATAGATGACTCAACT 58.821 41.667 0.00 0.00 0.00 3.16
868 890 4.332819 CCGTCCCAAAATAGATGACTCAAC 59.667 45.833 0.00 0.00 0.00 3.18
869 891 4.224147 TCCGTCCCAAAATAGATGACTCAA 59.776 41.667 0.00 0.00 0.00 3.02
870 892 3.772572 TCCGTCCCAAAATAGATGACTCA 59.227 43.478 0.00 0.00 0.00 3.41
871 893 4.372656 CTCCGTCCCAAAATAGATGACTC 58.627 47.826 0.00 0.00 0.00 3.36
872 894 3.134804 CCTCCGTCCCAAAATAGATGACT 59.865 47.826 0.00 0.00 0.00 3.41
873 895 3.467803 CCTCCGTCCCAAAATAGATGAC 58.532 50.000 0.00 0.00 0.00 3.06
874 896 2.438021 CCCTCCGTCCCAAAATAGATGA 59.562 50.000 0.00 0.00 0.00 2.92
875 897 2.438021 TCCCTCCGTCCCAAAATAGATG 59.562 50.000 0.00 0.00 0.00 2.90
876 898 2.706190 CTCCCTCCGTCCCAAAATAGAT 59.294 50.000 0.00 0.00 0.00 1.98
877 899 2.116238 CTCCCTCCGTCCCAAAATAGA 58.884 52.381 0.00 0.00 0.00 1.98
878 900 1.838077 ACTCCCTCCGTCCCAAAATAG 59.162 52.381 0.00 0.00 0.00 1.73
879 901 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
880 902 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
881 903 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
882 904 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
883 905 2.178325 TGATATACTCCCTCCGTCCCAA 59.822 50.000 0.00 0.00 0.00 4.12
884 906 1.784593 TGATATACTCCCTCCGTCCCA 59.215 52.381 0.00 0.00 0.00 4.37
885 907 2.169330 GTGATATACTCCCTCCGTCCC 58.831 57.143 0.00 0.00 0.00 4.46
886 908 2.872732 TGTGATATACTCCCTCCGTCC 58.127 52.381 0.00 0.00 0.00 4.79
887 909 4.341520 ACTTTGTGATATACTCCCTCCGTC 59.658 45.833 0.00 0.00 0.00 4.79
888 910 4.287552 ACTTTGTGATATACTCCCTCCGT 58.712 43.478 0.00 0.00 0.00 4.69
889 911 4.939052 ACTTTGTGATATACTCCCTCCG 57.061 45.455 0.00 0.00 0.00 4.63
890 912 5.990668 ACAACTTTGTGATATACTCCCTCC 58.009 41.667 0.00 0.00 40.49 4.30
891 913 9.614792 AATAACAACTTTGTGATATACTCCCTC 57.385 33.333 0.00 0.00 41.31 4.30
892 914 9.396022 CAATAACAACTTTGTGATATACTCCCT 57.604 33.333 0.00 0.00 41.31 4.20
893 915 9.391006 TCAATAACAACTTTGTGATATACTCCC 57.609 33.333 0.00 0.00 41.31 4.30
920 955 3.128349 GAGCGGAGTAACAACTTTGTGA 58.872 45.455 0.00 0.00 41.31 3.58
924 959 2.104281 ACTGGAGCGGAGTAACAACTTT 59.896 45.455 0.00 0.00 0.00 2.66
925 960 1.692519 ACTGGAGCGGAGTAACAACTT 59.307 47.619 0.00 0.00 0.00 2.66
926 961 1.339097 ACTGGAGCGGAGTAACAACT 58.661 50.000 0.00 0.00 0.00 3.16
929 964 4.250464 CAAATAACTGGAGCGGAGTAACA 58.750 43.478 0.00 0.00 0.00 2.41
930 965 4.092968 CACAAATAACTGGAGCGGAGTAAC 59.907 45.833 0.00 0.00 0.00 2.50
931 966 4.250464 CACAAATAACTGGAGCGGAGTAA 58.750 43.478 0.00 0.00 0.00 2.24
932 967 3.259876 ACACAAATAACTGGAGCGGAGTA 59.740 43.478 0.00 0.00 0.00 2.59
934 969 2.416547 CACACAAATAACTGGAGCGGAG 59.583 50.000 0.00 0.00 0.00 4.63
975 1071 7.102847 AGTTTGTAATTCCTCCGTTTCAAAA 57.897 32.000 0.00 0.00 30.20 2.44
976 1072 6.702716 AGTTTGTAATTCCTCCGTTTCAAA 57.297 33.333 0.00 0.00 0.00 2.69
977 1073 7.662258 TCATAGTTTGTAATTCCTCCGTTTCAA 59.338 33.333 0.00 0.00 0.00 2.69
979 1075 7.605410 TCATAGTTTGTAATTCCTCCGTTTC 57.395 36.000 0.00 0.00 0.00 2.78
980 1076 7.415206 GCATCATAGTTTGTAATTCCTCCGTTT 60.415 37.037 0.00 0.00 0.00 3.60
981 1077 6.038271 GCATCATAGTTTGTAATTCCTCCGTT 59.962 38.462 0.00 0.00 0.00 4.44
982 1078 5.527582 GCATCATAGTTTGTAATTCCTCCGT 59.472 40.000 0.00 0.00 0.00 4.69
983 1079 5.333339 CGCATCATAGTTTGTAATTCCTCCG 60.333 44.000 0.00 0.00 0.00 4.63
984 1080 5.527582 ACGCATCATAGTTTGTAATTCCTCC 59.472 40.000 0.00 0.00 0.00 4.30
985 1081 6.422223 CACGCATCATAGTTTGTAATTCCTC 58.578 40.000 0.00 0.00 0.00 3.71
986 1082 5.296780 CCACGCATCATAGTTTGTAATTCCT 59.703 40.000 0.00 0.00 0.00 3.36
994 1094 4.631377 TCTCTTTCCACGCATCATAGTTTG 59.369 41.667 0.00 0.00 0.00 2.93
998 1187 3.126831 GGTCTCTTTCCACGCATCATAG 58.873 50.000 0.00 0.00 0.00 2.23
1019 1208 4.122149 TTGGTATGCAGGCCCCCG 62.122 66.667 0.00 0.00 0.00 5.73
1024 1213 0.611896 AGGGTTGTTGGTATGCAGGC 60.612 55.000 0.00 0.00 0.00 4.85
1025 1214 1.176527 CAGGGTTGTTGGTATGCAGG 58.823 55.000 0.00 0.00 0.00 4.85
1026 1215 0.527565 GCAGGGTTGTTGGTATGCAG 59.472 55.000 0.00 0.00 33.92 4.41
1027 1216 0.112218 AGCAGGGTTGTTGGTATGCA 59.888 50.000 0.00 0.00 36.15 3.96
1028 1217 1.067635 CAAGCAGGGTTGTTGGTATGC 60.068 52.381 3.17 0.00 0.00 3.14
1031 1220 0.847373 TCCAAGCAGGGTTGTTGGTA 59.153 50.000 9.99 0.00 41.39 3.25
1032 1221 0.188342 ATCCAAGCAGGGTTGTTGGT 59.812 50.000 9.99 0.00 41.39 3.67
1039 1228 0.685458 GCATCCAATCCAAGCAGGGT 60.685 55.000 0.00 0.00 38.24 4.34
1041 1230 1.397390 GGGCATCCAATCCAAGCAGG 61.397 60.000 0.00 0.00 39.47 4.85
1042 1231 1.731433 CGGGCATCCAATCCAAGCAG 61.731 60.000 0.00 0.00 0.00 4.24
1043 1232 1.753848 CGGGCATCCAATCCAAGCA 60.754 57.895 0.00 0.00 0.00 3.91
1044 1233 0.825010 ATCGGGCATCCAATCCAAGC 60.825 55.000 0.00 0.00 0.00 4.01
1046 1235 0.467844 CCATCGGGCATCCAATCCAA 60.468 55.000 0.00 0.00 0.00 3.53
1047 1236 1.151221 CCATCGGGCATCCAATCCA 59.849 57.895 0.00 0.00 0.00 3.41
1048 1237 0.468029 AACCATCGGGCATCCAATCC 60.468 55.000 0.00 0.00 37.90 3.01
1060 1270 0.736325 GACCGACTCACCAACCATCG 60.736 60.000 0.00 0.00 0.00 3.84
1296 1569 2.224548 ACAGGCAGTAAACAGGAAGGAC 60.225 50.000 0.00 0.00 0.00 3.85
1313 1607 1.267806 GTCATCAGCCACACAAACAGG 59.732 52.381 0.00 0.00 0.00 4.00
1315 1613 1.133823 AGGTCATCAGCCACACAAACA 60.134 47.619 0.00 0.00 0.00 2.83
1330 1628 2.055689 CTGGCTTCACACCCAGGTCA 62.056 60.000 0.00 0.00 43.87 4.02
1354 1667 0.252421 TGGACTCCCTGCAGATCTGT 60.252 55.000 23.38 8.29 0.00 3.41
1355 1668 1.070445 GATGGACTCCCTGCAGATCTG 59.930 57.143 18.84 18.84 0.00 2.90
1491 1808 2.860972 GAAGAGGAAGCAGTCGGCCC 62.861 65.000 0.00 0.00 46.50 5.80
1602 1977 2.286197 GAGGGCCTGGTAGGGGTT 60.286 66.667 12.95 0.00 35.37 4.11
1753 2175 3.425359 GCTTGTTGATGAAGTGGATGTCG 60.425 47.826 0.00 0.00 0.00 4.35
1927 2350 1.547675 GGCATCAGTTCCCCTGTTCAA 60.548 52.381 0.00 0.00 42.19 2.69
1951 2374 2.922335 GCATTGGCCTGAAGAAACGAAC 60.922 50.000 3.32 0.00 0.00 3.95
1954 2377 0.883833 AGCATTGGCCTGAAGAAACG 59.116 50.000 3.32 0.00 42.56 3.60
1965 2388 0.747283 AGCAGAGCACTAGCATTGGC 60.747 55.000 7.91 0.00 45.49 4.52
1967 2390 2.019948 TGAGCAGAGCACTAGCATTG 57.980 50.000 7.91 0.00 45.49 2.82
1972 2396 8.710551 CAATCTAATTAATGAGCAGAGCACTAG 58.289 37.037 0.00 0.00 0.00 2.57
1986 2410 9.935241 ACGATCTGCTCATACAATCTAATTAAT 57.065 29.630 0.00 0.00 0.00 1.40
1987 2411 9.411801 GACGATCTGCTCATACAATCTAATTAA 57.588 33.333 0.00 0.00 0.00 1.40
1988 2412 8.576442 TGACGATCTGCTCATACAATCTAATTA 58.424 33.333 0.00 0.00 0.00 1.40
1989 2413 7.383572 GTGACGATCTGCTCATACAATCTAATT 59.616 37.037 0.00 0.00 0.00 1.40
2000 2424 3.257393 GAGTTTGTGACGATCTGCTCAT 58.743 45.455 0.00 0.00 0.00 2.90
2024 2448 6.005823 TCAAGGAGTATATGGATTTGGCATG 58.994 40.000 0.00 0.00 0.00 4.06
2062 2486 6.037500 CAGTCGCAGATGAAGAATTATTCCAA 59.962 38.462 10.19 0.00 40.67 3.53
2178 2602 1.144936 TTGGGGCAAAAACCTTGCG 59.855 52.632 3.58 0.00 45.78 4.85
2393 2828 2.016096 GCAAGAACCCTCCAGATCAGC 61.016 57.143 0.00 0.00 0.00 4.26
2470 2905 2.452813 CGACTACAGCGGCGCAAAT 61.453 57.895 35.02 20.48 0.00 2.32


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

AutoCloner maintained by Alex Coulton.