Multiple sequence alignment - TraesCS6B01G200000

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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 TraesCS6B01G200000 chr6B 100.000 5272 0 0 1 5272 239872655 239867384 0.000000e+00 9736.0
1 TraesCS6B01G200000 chr6B 83.607 61 10 0 10 70 419448103 419448043 2.050000e-04 58.4
2 TraesCS6B01G200000 chr6A 94.111 3549 148 22 1740 5258 183293615 183290098 0.000000e+00 5339.0
3 TraesCS6B01G200000 chr6A 91.910 754 42 6 922 1663 183294355 183293609 0.000000e+00 1037.0
4 TraesCS6B01G200000 chr6A 84.680 829 76 20 5 816 183297744 183296950 0.000000e+00 780.0
5 TraesCS6B01G200000 chr6A 84.375 832 80 19 2 816 183927249 183928047 0.000000e+00 771.0
6 TraesCS6B01G200000 chr6A 94.915 118 4 1 805 920 183296395 183296278 3.240000e-42 183.0
7 TraesCS6B01G200000 chr6A 93.220 118 6 1 805 920 183928602 183928719 7.020000e-39 172.0
8 TraesCS6B01G200000 chr6A 84.483 58 9 0 13 70 243670929 243670872 2.050000e-04 58.4
9 TraesCS6B01G200000 chr6D 93.719 1799 83 18 2578 4355 140024969 140023180 0.000000e+00 2669.0
10 TraesCS6B01G200000 chr6D 90.722 1994 92 31 650 2587 140028593 140026637 0.000000e+00 2571.0
11 TraesCS6B01G200000 chr6D 91.067 403 32 3 4353 4752 140023100 140022699 4.640000e-150 542.0
12 TraesCS6B01G200000 chrUn 84.168 499 62 13 4772 5259 43290510 43291002 7.990000e-128 468.0
13 TraesCS6B01G200000 chr5B 85.366 410 54 5 4855 5259 678705612 678706020 2.270000e-113 420.0
14 TraesCS6B01G200000 chr5B 83.607 61 10 0 10 70 404576282 404576222 2.050000e-04 58.4
15 TraesCS6B01G200000 chr1B 80.331 544 90 15 4724 5259 484267375 484266841 3.830000e-106 396.0
16 TraesCS6B01G200000 chr7D 80.185 540 87 17 4731 5259 478839776 478839246 2.300000e-103 387.0
17 TraesCS6B01G200000 chr7D 80.527 493 81 13 4774 5259 130174815 130175299 1.080000e-96 364.0
18 TraesCS6B01G200000 chr4A 81.507 438 74 7 4766 5201 705471885 705471453 2.340000e-93 353.0
19 TraesCS6B01G200000 chr3A 81.422 436 68 13 4772 5201 708371734 708371306 1.410000e-90 344.0
20 TraesCS6B01G200000 chr3A 80.734 436 71 13 4772 5201 708393895 708393467 1.420000e-85 327.0
21 TraesCS6B01G200000 chr2B 95.000 40 2 0 7 46 336519884 336519923 4.410000e-06 63.9
22 TraesCS6B01G200000 chr2B 95.000 40 2 0 7 46 336532958 336532997 4.410000e-06 63.9
23 TraesCS6B01G200000 chr2B 84.483 58 9 0 13 70 12682883 12682826 2.050000e-04 58.4
24 TraesCS6B01G200000 chr3B 92.500 40 3 0 7 46 149544650 149544689 2.050000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G200000 chr6B 239867384 239872655 5271 True 9736.000000 9736 100.0000 1 5272 1 chr6B.!!$R1 5271
1 TraesCS6B01G200000 chr6A 183290098 183297744 7646 True 1834.750000 5339 91.4040 5 5258 4 chr6A.!!$R2 5253
2 TraesCS6B01G200000 chr6A 183927249 183928719 1470 False 471.500000 771 88.7975 2 920 2 chr6A.!!$F1 918
3 TraesCS6B01G200000 chr6D 140022699 140028593 5894 True 1927.333333 2669 91.8360 650 4752 3 chr6D.!!$R1 4102
4 TraesCS6B01G200000 chr1B 484266841 484267375 534 True 396.000000 396 80.3310 4724 5259 1 chr1B.!!$R1 535
5 TraesCS6B01G200000 chr7D 478839246 478839776 530 True 387.000000 387 80.1850 4731 5259 1 chr7D.!!$R1 528

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
562 568 0.179086 AGTGCAAAGGTTTTTGGCCG 60.179 50.0 0.00 0.0 43.12 6.13 F
1181 3693 0.178975 TCCAATCGGGCAGGTTTGTT 60.179 50.0 0.00 0.0 36.21 2.83 F
2475 5044 0.381089 GCGTACGCTAGATGGACACT 59.619 55.0 31.95 0.0 38.26 3.55 F
4152 8443 0.609151 CCAACATCTGCCAAATGCCA 59.391 50.0 0.00 0.0 40.16 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2524 5093 0.317854 GTGCTTCGAGGTTGCCAAAC 60.318 55.0 0.0 0.0 35.40 2.93 R
2687 6932 0.176910 GCTCCAAGGCAGTCTCTACC 59.823 60.0 0.0 0.0 0.00 3.18 R
4241 8532 0.753262 CAGGGATACGAACTGAGGGG 59.247 60.0 0.0 0.0 34.21 4.79 R
5054 9433 0.472471 ACATTTGGTGTCGTGGGAGT 59.528 50.0 0.0 0.0 35.77 3.85 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
46 47 4.737855 TGAGGATGCAACCTAGTACTTC 57.262 45.455 16.55 2.33 40.73 3.01
100 101 0.592637 TTGCATGAGGAACAAGCGTG 59.407 50.000 0.00 0.00 44.76 5.34
110 111 3.262405 AGGAACAAGCGTGGAGGTAATAA 59.738 43.478 4.26 0.00 0.00 1.40
131 132 4.917906 ACCAGTTTATCTTTCAGAGCCT 57.082 40.909 0.00 0.00 0.00 4.58
181 185 2.597455 CCCTGAATGGACAACAAACCT 58.403 47.619 0.00 0.00 38.35 3.50
183 187 2.958355 CCTGAATGGACAACAAACCTGT 59.042 45.455 0.00 0.00 38.35 4.00
186 190 2.746279 ATGGACAACAAACCTGTGGA 57.254 45.000 0.00 0.00 35.37 4.02
199 203 2.282462 GTGGAGTTGCACCTGGGG 60.282 66.667 0.00 0.00 0.00 4.96
240 244 0.962356 CCAAGTCAATCAAGCCCGCT 60.962 55.000 0.00 0.00 0.00 5.52
268 274 0.333652 TACATCCTGAGGTCGGACCA 59.666 55.000 27.87 8.26 41.95 4.02
269 275 0.325671 ACATCCTGAGGTCGGACCAT 60.326 55.000 27.87 13.63 41.95 3.55
273 279 1.450312 CTGAGGTCGGACCATTGCC 60.450 63.158 27.87 12.04 41.95 4.52
277 283 1.745489 GGTCGGACCATTGCCTGTC 60.745 63.158 22.10 0.00 38.42 3.51
304 310 6.595682 CAGATACACCAAGGGATATGTCTTT 58.404 40.000 0.00 0.00 0.00 2.52
308 314 5.755849 ACACCAAGGGATATGTCTTTTAGG 58.244 41.667 0.00 0.00 0.00 2.69
314 320 3.653352 GGGATATGTCTTTTAGGCCTCCT 59.347 47.826 9.68 0.00 37.71 3.69
315 321 4.104897 GGGATATGTCTTTTAGGCCTCCTT 59.895 45.833 9.68 0.00 34.61 3.36
348 354 9.365311 CGTCAACACGTTATTCATAAATTATCC 57.635 33.333 0.00 0.00 41.42 2.59
376 382 1.203288 AGGGGCAAATTGGGTTCATCA 60.203 47.619 0.00 0.00 0.00 3.07
377 383 1.839354 GGGGCAAATTGGGTTCATCAT 59.161 47.619 0.00 0.00 0.00 2.45
378 384 2.158914 GGGGCAAATTGGGTTCATCATC 60.159 50.000 0.00 0.00 0.00 2.92
403 409 1.968493 AGTAGGCAGAGGTCGACAAAA 59.032 47.619 18.91 0.00 0.00 2.44
407 413 3.600388 AGGCAGAGGTCGACAAAATTAG 58.400 45.455 18.91 1.20 0.00 1.73
418 424 6.073548 GGTCGACAAAATTAGCATAGAGATGG 60.074 42.308 18.91 0.00 33.26 3.51
437 443 2.378547 TGGAAAAGTTGGCTACCATCCT 59.621 45.455 13.44 0.00 31.53 3.24
438 444 2.755103 GGAAAAGTTGGCTACCATCCTG 59.245 50.000 7.71 0.00 31.53 3.86
439 445 3.421844 GAAAAGTTGGCTACCATCCTGT 58.578 45.455 0.00 0.00 31.53 4.00
440 446 4.566907 GGAAAAGTTGGCTACCATCCTGTA 60.567 45.833 7.71 0.00 31.53 2.74
441 447 3.914426 AAGTTGGCTACCATCCTGTAG 57.086 47.619 0.00 0.00 40.96 2.74
497 503 0.366871 GACGCACACTGCTTCATACG 59.633 55.000 0.00 0.00 40.80 3.06
498 504 0.319555 ACGCACACTGCTTCATACGT 60.320 50.000 0.00 0.00 42.25 3.57
499 505 1.068125 ACGCACACTGCTTCATACGTA 60.068 47.619 0.00 0.00 42.25 3.57
500 506 1.583856 CGCACACTGCTTCATACGTAG 59.416 52.381 0.08 0.00 42.25 3.51
505 511 5.975344 GCACACTGCTTCATACGTAGTATTA 59.025 40.000 0.08 0.00 45.78 0.98
535 541 8.364129 ACTATTTATGCAAACTTTGTTGTTGG 57.636 30.769 3.48 0.00 0.00 3.77
542 548 3.708563 AACTTTGTTGTTGGACATCCG 57.291 42.857 0.00 0.00 39.43 4.18
557 563 2.693074 ACATCCGAGTGCAAAGGTTTTT 59.307 40.909 0.00 0.00 0.00 1.94
559 565 1.407258 TCCGAGTGCAAAGGTTTTTGG 59.593 47.619 0.00 0.00 43.12 3.28
562 568 0.179086 AGTGCAAAGGTTTTTGGCCG 60.179 50.000 0.00 0.00 43.12 6.13
597 603 6.011981 TGAGAAGGTAACCCAAGGTTTATCAT 60.012 38.462 4.01 0.00 44.33 2.45
602 620 8.533569 AGGTAACCCAAGGTTTATCATTTATG 57.466 34.615 4.01 0.00 44.33 1.90
608 626 6.382570 CCCAAGGTTTATCATTTATGGAACCA 59.617 38.462 17.53 0.00 37.72 3.67
617 635 4.402155 TCATTTATGGAACCAACCTGCATC 59.598 41.667 0.00 0.00 0.00 3.91
623 641 2.092323 GAACCAACCTGCATCCCTAAC 58.908 52.381 0.00 0.00 0.00 2.34
626 644 1.004745 CCAACCTGCATCCCTAACACT 59.995 52.381 0.00 0.00 0.00 3.55
637 655 1.641577 CCTAACACTTCTAGCGTGGC 58.358 55.000 14.04 0.00 36.71 5.01
640 658 0.393077 AACACTTCTAGCGTGGCTGT 59.607 50.000 14.04 0.00 40.10 4.40
641 659 1.254026 ACACTTCTAGCGTGGCTGTA 58.746 50.000 14.04 0.00 40.10 2.74
642 660 1.202582 ACACTTCTAGCGTGGCTGTAG 59.797 52.381 14.04 0.00 40.10 2.74
643 661 1.202582 CACTTCTAGCGTGGCTGTAGT 59.797 52.381 0.00 0.00 40.10 2.73
644 662 1.473278 ACTTCTAGCGTGGCTGTAGTC 59.527 52.381 0.00 0.00 40.10 2.59
645 663 1.472878 CTTCTAGCGTGGCTGTAGTCA 59.527 52.381 0.00 0.00 40.10 3.41
646 664 0.809385 TCTAGCGTGGCTGTAGTCAC 59.191 55.000 6.56 6.56 46.44 3.67
655 673 4.778534 TGGCTGTAGTCACACTAGTTAC 57.221 45.455 0.00 0.00 30.12 2.50
678 696 3.988517 GCTAGTTTCAGCAAGTAACGAGT 59.011 43.478 0.00 0.00 41.40 4.18
679 697 4.143305 GCTAGTTTCAGCAAGTAACGAGTG 60.143 45.833 0.00 0.00 41.40 3.51
687 706 2.603560 GCAAGTAACGAGTGGATAGTGC 59.396 50.000 0.00 0.00 0.00 4.40
692 711 4.870426 AGTAACGAGTGGATAGTGCAAATG 59.130 41.667 0.00 0.00 0.00 2.32
700 719 7.800380 CGAGTGGATAGTGCAAATGAAATATTC 59.200 37.037 0.00 0.00 0.00 1.75
707 726 6.567050 AGTGCAAATGAAATATTCGCATTCT 58.433 32.000 13.66 6.88 31.52 2.40
708 727 7.706159 AGTGCAAATGAAATATTCGCATTCTA 58.294 30.769 13.66 4.84 31.52 2.10
709 728 7.645340 AGTGCAAATGAAATATTCGCATTCTAC 59.355 33.333 13.66 12.59 31.52 2.59
750 769 6.481976 CCGTGGATAAAAGCACAAGTATATGA 59.518 38.462 0.00 0.00 0.00 2.15
751 770 7.173218 CCGTGGATAAAAGCACAAGTATATGAT 59.827 37.037 0.00 0.00 0.00 2.45
872 1459 2.154854 AATCATATGAGGTGCGACCG 57.845 50.000 11.78 0.00 44.90 4.79
910 1497 3.305516 GGCCCCCAACTTGTGCAG 61.306 66.667 0.00 0.00 0.00 4.41
915 3427 1.484240 CCCCCAACTTGTGCAGAAAAA 59.516 47.619 0.00 0.00 0.00 1.94
964 3476 1.971481 TTCGCTGATAGCCTACGGTA 58.029 50.000 0.00 0.00 38.18 4.02
965 3477 1.233019 TCGCTGATAGCCTACGGTAC 58.767 55.000 0.00 0.00 38.18 3.34
987 3499 1.075601 TTCCATTTCCACCTCTGCCT 58.924 50.000 0.00 0.00 0.00 4.75
1072 3584 3.983494 ATCGGCCGATCCTCGCTG 61.983 66.667 34.60 0.00 38.82 5.18
1148 3660 4.840005 GAGGGCTGCGGTGGCTAC 62.840 72.222 0.00 0.00 40.82 3.58
1181 3693 0.178975 TCCAATCGGGCAGGTTTGTT 60.179 50.000 0.00 0.00 36.21 2.83
1215 3727 1.721926 CGCTTCTGTCCTTTCGTTCTC 59.278 52.381 0.00 0.00 0.00 2.87
1216 3728 1.721926 GCTTCTGTCCTTTCGTTCTCG 59.278 52.381 0.00 0.00 38.55 4.04
1217 3729 2.329379 CTTCTGTCCTTTCGTTCTCGG 58.671 52.381 0.00 0.00 37.69 4.63
1237 3749 2.171725 GCATCGTTACAGTCGGGGC 61.172 63.158 0.00 0.00 0.00 5.80
1446 3978 2.202395 TTTGCCTGAAGTGCCCTGC 61.202 57.895 0.00 0.00 0.00 4.85
1533 4065 6.514947 TGAATTGGAACTCTTTTTCATGTGG 58.485 36.000 0.00 0.00 0.00 4.17
1554 4086 6.183360 TGTGGAATGGATCATTGATGTGAATG 60.183 38.462 3.32 0.00 33.90 2.67
1577 4109 7.454553 TGGGGCTTACCTTTCTACAATAATA 57.545 36.000 0.00 0.00 40.03 0.98
1648 4180 7.817962 GGTAAGATGAACTAGTTTAAGTCTGCA 59.182 37.037 10.02 0.61 0.00 4.41
1660 4192 8.723942 AGTTTAAGTCTGCAAAGATACTATGG 57.276 34.615 0.00 0.00 0.00 2.74
1661 4193 8.322091 AGTTTAAGTCTGCAAAGATACTATGGT 58.678 33.333 0.00 0.00 0.00 3.55
1662 4194 8.947115 GTTTAAGTCTGCAAAGATACTATGGTT 58.053 33.333 0.00 0.00 0.00 3.67
1663 4195 9.515226 TTTAAGTCTGCAAAGATACTATGGTTT 57.485 29.630 0.00 0.00 0.00 3.27
1664 4196 9.515226 TTAAGTCTGCAAAGATACTATGGTTTT 57.485 29.630 0.00 0.00 0.00 2.43
1665 4197 8.409358 AAGTCTGCAAAGATACTATGGTTTTT 57.591 30.769 0.00 0.00 0.00 1.94
1688 4220 3.835790 TTTGAAGCGTCACCGGGGG 62.836 63.158 2.42 0.00 31.90 5.40
1839 4387 6.660800 ACTCTGTTTCATGATGATCCTTCAT 58.339 36.000 0.00 3.11 45.39 2.57
1854 4402 3.075148 CCTTCATGATAGGCTGATGCAG 58.925 50.000 0.00 0.00 41.91 4.41
1903 4468 6.498538 ACATGGTATTTCTACAATTTCCCCA 58.501 36.000 0.00 0.00 0.00 4.96
1967 4533 7.643123 ACTCCTTACATCTTGATTATTTGGGT 58.357 34.615 0.00 0.00 0.00 4.51
2142 4711 0.390124 TGTGTACCGAGACCAACACC 59.610 55.000 0.00 0.00 41.17 4.16
2342 4911 5.333568 GCAAAACATGGAAGTTTGATGCTTC 60.334 40.000 14.07 0.00 39.94 3.86
2387 4956 7.015292 TGTCCTACTTGTTCTCATTACTCTTGT 59.985 37.037 0.00 0.00 0.00 3.16
2402 4971 5.523013 ACTCTTGTACTCGTCGTAGTTAC 57.477 43.478 0.00 0.00 0.00 2.50
2403 4972 5.233988 ACTCTTGTACTCGTCGTAGTTACT 58.766 41.667 0.00 0.00 0.00 2.24
2404 4973 6.390721 ACTCTTGTACTCGTCGTAGTTACTA 58.609 40.000 0.00 0.00 0.00 1.82
2405 4974 6.529829 ACTCTTGTACTCGTCGTAGTTACTAG 59.470 42.308 0.00 0.00 0.00 2.57
2406 4975 5.289675 TCTTGTACTCGTCGTAGTTACTAGC 59.710 44.000 0.00 0.00 0.00 3.42
2407 4976 4.748892 TGTACTCGTCGTAGTTACTAGCT 58.251 43.478 0.00 0.00 0.00 3.32
2408 4977 5.891451 TGTACTCGTCGTAGTTACTAGCTA 58.109 41.667 0.00 0.00 0.00 3.32
2428 4997 0.523072 ATGCTTTGGTTAGCGCACAG 59.477 50.000 11.47 0.00 44.18 3.66
2438 5007 2.993899 GTTAGCGCACAGTTGTCTACAT 59.006 45.455 11.47 0.00 0.00 2.29
2458 5027 9.673454 TCTACATTATACATTACACTGTTAGCG 57.327 33.333 0.00 0.00 0.00 4.26
2475 5044 0.381089 GCGTACGCTAGATGGACACT 59.619 55.000 31.95 0.00 38.26 3.55
2476 5045 1.860399 GCGTACGCTAGATGGACACTG 60.860 57.143 31.95 0.00 38.26 3.66
2501 5070 6.889301 ATTCTGCATTGAAGTTCTTCAGAA 57.111 33.333 20.61 20.61 41.43 3.02
2519 5088 2.825532 AGAACTGTTTGTTGCAACCACT 59.174 40.909 26.14 8.30 39.30 4.00
2524 5093 4.039151 TGTTTGTTGCAACCACTGTATG 57.961 40.909 26.14 0.00 0.00 2.39
2537 5106 2.095768 CACTGTATGTTTGGCAACCTCG 60.096 50.000 0.00 0.00 31.02 4.63
2556 5125 3.095685 CGAAGCACTGTTTCATCTTCG 57.904 47.619 8.03 8.03 46.17 3.79
2575 5144 5.292101 TCTTCGCTTAGCTTTCTTGATTAGC 59.708 40.000 1.76 0.00 35.16 3.09
2619 6864 1.560505 AGACATTTGGGGATTGCCAC 58.439 50.000 0.00 0.00 38.42 5.01
2639 6884 2.102925 ACTGGGTTCAATTTGGCAAGTG 59.897 45.455 0.00 3.29 0.00 3.16
2644 6889 3.431486 GGTTCAATTTGGCAAGTGTCCAA 60.431 43.478 0.00 3.90 41.47 3.53
2687 6932 6.267928 AGGCATACCCTAGTACTTACATGAAG 59.732 42.308 0.00 1.36 44.08 3.02
2900 7147 9.061610 CACAACACAAACTTAAGTAAAACTGAG 57.938 33.333 8.92 3.60 0.00 3.35
3033 7281 0.940126 CTCAGCAATGGTGATACCGC 59.060 55.000 15.87 0.00 42.58 5.68
3041 7289 2.309528 TGGTGATACCGCTTGATGAC 57.690 50.000 0.00 0.00 42.58 3.06
3218 7494 9.010029 TGTCAGTTTTTAAGTTTCTTCTTGTCT 57.990 29.630 0.00 0.00 0.00 3.41
3291 7567 3.306019 GGCAAGTGAACAAGGGGTTATTG 60.306 47.826 0.00 0.00 40.63 1.90
3337 7614 6.879458 AGTAATGGTCCAAACTTCATCAGTAC 59.121 38.462 0.00 0.00 32.94 2.73
3469 7751 3.199677 TGACCGTTCAACAATTCGAAGT 58.800 40.909 3.35 0.00 0.00 3.01
3503 7785 3.968649 ACTGTGTGTGCATCAAAATGTC 58.031 40.909 0.00 0.00 35.18 3.06
3625 7907 0.804989 GTCCATCTTTGCCAGAACCG 59.195 55.000 0.00 0.00 34.16 4.44
3643 7925 1.577328 CGTCGGGCTGCAAAGTGATT 61.577 55.000 0.50 0.00 0.00 2.57
3774 8056 2.158711 GCATCTGGTTGGATGATGAGGA 60.159 50.000 8.41 0.00 44.01 3.71
3781 8063 3.947834 GGTTGGATGATGAGGATTTCGTT 59.052 43.478 0.00 0.00 0.00 3.85
3829 8111 2.404923 TTGTGACACCGAACAAGGAA 57.595 45.000 2.45 0.00 32.66 3.36
4098 8389 9.760660 CAGTTAGCTAGTTTTAATCATGTCAAC 57.239 33.333 0.00 0.00 0.00 3.18
4142 8433 5.215160 GTTTACTGCAAACTCCAACATCTG 58.785 41.667 0.00 0.00 42.79 2.90
4152 8443 0.609151 CCAACATCTGCCAAATGCCA 59.391 50.000 0.00 0.00 40.16 4.92
4210 8501 4.508861 CCCAATTGCTCAAACACTTTTCAG 59.491 41.667 0.00 0.00 0.00 3.02
4274 8565 4.679905 CGTATCCCTGTCCCTTACTGAAAC 60.680 50.000 0.00 0.00 0.00 2.78
4282 8574 0.323451 CCTTACTGAAACCCCCTGCC 60.323 60.000 0.00 0.00 0.00 4.85
4381 8755 0.035317 TACTGGCAGCAGTGTTCCTG 59.965 55.000 15.89 0.00 44.53 3.86
4394 8768 2.165437 GTGTTCCTGTTGGTCTTTGCAA 59.835 45.455 0.00 0.00 34.23 4.08
4407 8781 6.118170 TGGTCTTTGCAAAAATCATTTGGAA 58.882 32.000 13.84 4.12 37.83 3.53
4476 8851 7.861872 ACGAAAACACTCTTCTACTCTAGTTTC 59.138 37.037 0.00 0.00 0.00 2.78
4536 8911 6.749139 AGGCTTTTAGTGAAATGTTTCCTTC 58.251 36.000 3.26 0.00 36.36 3.46
4561 8937 4.609691 AAACGAGGTTTGCGTAATATGG 57.390 40.909 0.00 0.00 41.75 2.74
4563 8939 1.937223 CGAGGTTTGCGTAATATGGCA 59.063 47.619 0.00 0.00 37.39 4.92
4596 8972 4.456911 TGTTGCTCTGATTTTGACCAGATC 59.543 41.667 0.00 0.00 38.57 2.75
4647 9025 3.434596 GCCGATAGAGGTTTGGGGTAATT 60.435 47.826 0.00 0.00 39.76 1.40
4650 9028 4.814771 CGATAGAGGTTTGGGGTAATTGAC 59.185 45.833 0.00 0.00 39.76 3.18
4704 9082 8.263640 CCAAAATAAATGTCCCCACATAAATGA 58.736 33.333 0.00 0.00 42.89 2.57
4873 9251 8.845227 TCTCTAGAAATGCAACTAGAGTGATAG 58.155 37.037 31.33 19.18 34.37 2.08
4894 9272 8.957466 TGATAGAACCCTATATGATGAGTTACG 58.043 37.037 0.00 0.00 35.81 3.18
4908 9286 5.954296 TGAGTTACGACAAGCTAGTAAGT 57.046 39.130 9.80 9.80 36.89 2.24
4946 9325 7.923878 ACACACAAGAAAGTAAAACAACAAGTT 59.076 29.630 0.00 0.00 43.89 2.66
5054 9433 2.235402 GGAGAGTGGGGAACAACGAATA 59.765 50.000 0.00 0.00 0.00 1.75
5066 9445 1.990563 CAACGAATACTCCCACGACAC 59.009 52.381 0.00 0.00 0.00 3.67
5131 9511 3.721021 CTTAGGTTCCCTTCCACTAGGA 58.279 50.000 0.00 0.00 43.93 2.94
5141 9521 3.634910 CCTTCCACTAGGAGTAGCTCTTC 59.365 52.174 0.00 0.00 46.74 2.87
5214 9603 0.034337 GCTCCCGAGTAACACAACCA 59.966 55.000 0.00 0.00 0.00 3.67
5243 9632 4.928601 GTTTCCCACAAAACCAAGAGTAC 58.071 43.478 0.00 0.00 33.86 2.73
5252 9641 8.410141 CCACAAAACCAAGAGTACAAAGATTTA 58.590 33.333 0.00 0.00 0.00 1.40
5259 9648 8.877195 ACCAAGAGTACAAAGATTTACTAGGAA 58.123 33.333 0.00 0.00 0.00 3.36
5260 9649 9.152595 CCAAGAGTACAAAGATTTACTAGGAAC 57.847 37.037 0.00 0.00 0.00 3.62
5261 9650 8.861101 CAAGAGTACAAAGATTTACTAGGAACG 58.139 37.037 0.00 0.00 0.00 3.95
5262 9651 8.345724 AGAGTACAAAGATTTACTAGGAACGA 57.654 34.615 0.00 0.00 0.00 3.85
5263 9652 8.800332 AGAGTACAAAGATTTACTAGGAACGAA 58.200 33.333 0.00 0.00 0.00 3.85
5264 9653 8.754230 AGTACAAAGATTTACTAGGAACGAAC 57.246 34.615 0.00 0.00 0.00 3.95
5265 9654 6.701432 ACAAAGATTTACTAGGAACGAACG 57.299 37.500 0.00 0.00 0.00 3.95
5266 9655 6.449698 ACAAAGATTTACTAGGAACGAACGA 58.550 36.000 0.14 0.00 0.00 3.85
5267 9656 6.925165 ACAAAGATTTACTAGGAACGAACGAA 59.075 34.615 0.14 0.00 0.00 3.85
5268 9657 6.941218 AAGATTTACTAGGAACGAACGAAC 57.059 37.500 0.14 0.00 0.00 3.95
5269 9658 6.264841 AGATTTACTAGGAACGAACGAACT 57.735 37.500 0.14 0.00 0.00 3.01
5270 9659 6.685657 AGATTTACTAGGAACGAACGAACTT 58.314 36.000 0.14 0.00 0.00 2.66
5271 9660 6.585322 AGATTTACTAGGAACGAACGAACTTG 59.415 38.462 0.14 0.50 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.554134 GCAAGATCGTCATGTGATGGAATG 60.554 45.833 7.73 3.86 0.00 2.67
3 4 2.093553 TGCAAGATCGTCATGTGATGGA 60.094 45.455 7.73 0.00 0.00 3.41
7 8 3.192466 CTCATGCAAGATCGTCATGTGA 58.808 45.455 17.91 7.00 38.82 3.58
69 70 5.988310 TCCTCATGCAAGATTTTGACATT 57.012 34.783 0.00 0.00 36.36 2.71
100 101 9.110502 CTGAAAGATAAACTGGTTATTACCTCC 57.889 37.037 2.04 0.00 40.35 4.30
110 111 4.566488 CCAGGCTCTGAAAGATAAACTGGT 60.566 45.833 0.00 0.00 45.62 4.00
151 152 1.494721 TCCATTCAGGGGCTGATAACC 59.505 52.381 0.00 0.00 40.39 2.85
153 154 2.204463 TGTCCATTCAGGGGCTGATAA 58.796 47.619 0.00 0.00 40.39 1.75
158 159 0.482446 TTGTTGTCCATTCAGGGGCT 59.518 50.000 0.00 0.00 38.24 5.19
159 160 1.000843 GTTTGTTGTCCATTCAGGGGC 59.999 52.381 0.00 0.00 38.24 5.80
160 161 1.618343 GGTTTGTTGTCCATTCAGGGG 59.382 52.381 0.00 0.00 38.24 4.79
181 185 2.515398 CCCAGGTGCAACTCCACA 59.485 61.111 0.00 0.00 37.46 4.17
183 187 1.852157 ATCCCCAGGTGCAACTCCA 60.852 57.895 0.00 0.00 36.74 3.86
186 190 1.729267 AACCATCCCCAGGTGCAACT 61.729 55.000 0.00 0.00 39.86 3.16
199 203 4.262249 GGTACCTGCTGATCTAGAACCATC 60.262 50.000 4.06 0.00 0.00 3.51
240 244 3.378512 ACCTCAGGATGTAGCTTGATCA 58.621 45.455 0.00 0.00 37.40 2.92
251 257 0.833287 AATGGTCCGACCTCAGGATG 59.167 55.000 18.54 0.00 39.58 3.51
268 274 0.541392 TGTATCTGCGGACAGGCAAT 59.459 50.000 0.00 0.00 44.59 3.56
269 275 0.391130 GTGTATCTGCGGACAGGCAA 60.391 55.000 0.00 0.00 44.59 4.52
273 279 1.645034 CTTGGTGTATCTGCGGACAG 58.355 55.000 0.00 0.00 45.95 3.51
277 283 0.469917 ATCCCTTGGTGTATCTGCGG 59.530 55.000 0.00 0.00 0.00 5.69
304 310 1.073284 ACGCTCAAAAAGGAGGCCTAA 59.927 47.619 4.42 0.00 35.41 2.69
308 314 0.951558 TTGACGCTCAAAAAGGAGGC 59.048 50.000 0.00 0.00 32.71 4.70
348 354 4.546674 ACCCAATTTGCCCCTCTTTATAG 58.453 43.478 0.00 0.00 0.00 1.31
355 361 1.482182 GATGAACCCAATTTGCCCCTC 59.518 52.381 0.00 0.00 0.00 4.30
356 362 1.203288 TGATGAACCCAATTTGCCCCT 60.203 47.619 0.00 0.00 0.00 4.79
403 409 6.264067 GCCAACTTTTCCATCTCTATGCTAAT 59.736 38.462 0.00 0.00 0.00 1.73
407 413 3.950395 AGCCAACTTTTCCATCTCTATGC 59.050 43.478 0.00 0.00 0.00 3.14
418 424 3.421844 ACAGGATGGTAGCCAACTTTTC 58.578 45.455 0.00 0.00 43.62 2.29
437 443 2.623878 TTCTTCAACCAACCGCTACA 57.376 45.000 0.00 0.00 0.00 2.74
438 444 3.065648 TGTTTTCTTCAACCAACCGCTAC 59.934 43.478 0.00 0.00 0.00 3.58
439 445 3.280295 TGTTTTCTTCAACCAACCGCTA 58.720 40.909 0.00 0.00 0.00 4.26
440 446 2.096248 TGTTTTCTTCAACCAACCGCT 58.904 42.857 0.00 0.00 0.00 5.52
441 447 2.570442 TGTTTTCTTCAACCAACCGC 57.430 45.000 0.00 0.00 0.00 5.68
442 448 5.432885 AGTATGTTTTCTTCAACCAACCG 57.567 39.130 0.00 0.00 0.00 4.44
443 449 6.801575 TGAAGTATGTTTTCTTCAACCAACC 58.198 36.000 5.34 0.00 44.29 3.77
469 475 1.859998 GCAGTGTGCGTCAAACTTTCC 60.860 52.381 0.59 0.00 28.04 3.13
470 476 1.466855 GCAGTGTGCGTCAAACTTTC 58.533 50.000 0.59 0.00 28.04 2.62
471 477 3.622459 GCAGTGTGCGTCAAACTTT 57.378 47.368 0.59 0.00 28.04 2.66
514 520 6.166279 TGTCCAACAACAAAGTTTGCATAAA 58.834 32.000 15.59 0.00 0.00 1.40
525 531 2.616376 CACTCGGATGTCCAACAACAAA 59.384 45.455 0.00 0.00 35.14 2.83
527 533 1.877637 CACTCGGATGTCCAACAACA 58.122 50.000 0.00 0.00 35.14 3.33
535 541 1.523758 AACCTTTGCACTCGGATGTC 58.476 50.000 2.37 0.00 0.00 3.06
542 548 1.581934 GGCCAAAAACCTTTGCACTC 58.418 50.000 0.00 0.00 40.61 3.51
557 563 1.228429 CTCAAGGGAAAACCGGCCA 60.228 57.895 0.00 0.00 46.96 5.36
559 565 0.881796 CTTCTCAAGGGAAAACCGGC 59.118 55.000 0.00 0.00 46.96 6.13
580 586 8.973182 GTTCCATAAATGATAAACCTTGGGTTA 58.027 33.333 2.19 0.00 46.20 2.85
597 603 3.096092 GGATGCAGGTTGGTTCCATAAA 58.904 45.455 0.00 0.00 0.00 1.40
602 620 0.623723 TAGGGATGCAGGTTGGTTCC 59.376 55.000 0.00 0.00 0.00 3.62
608 626 2.644798 AGAAGTGTTAGGGATGCAGGTT 59.355 45.455 0.00 0.00 0.00 3.50
617 635 1.739371 GCCACGCTAGAAGTGTTAGGG 60.739 57.143 14.82 3.85 36.71 3.53
623 641 1.202582 ACTACAGCCACGCTAGAAGTG 59.797 52.381 10.67 10.67 36.40 3.16
626 644 1.201647 GTGACTACAGCCACGCTAGAA 59.798 52.381 0.00 0.00 36.40 2.10
637 655 4.681835 AGCGTAACTAGTGTGACTACAG 57.318 45.455 0.00 0.00 37.52 2.74
654 672 2.729882 CGTTACTTGCTGAAACTAGCGT 59.270 45.455 0.00 0.00 46.61 5.07
655 673 2.984471 TCGTTACTTGCTGAAACTAGCG 59.016 45.455 0.00 0.00 46.61 4.26
663 681 3.762288 ACTATCCACTCGTTACTTGCTGA 59.238 43.478 0.00 0.00 0.00 4.26
678 696 6.039159 TGCGAATATTTCATTTGCACTATCCA 59.961 34.615 7.63 0.00 41.86 3.41
679 697 6.437928 TGCGAATATTTCATTTGCACTATCC 58.562 36.000 7.63 0.00 41.86 2.59
700 719 8.328864 GGTTCTTATTTGTTCTAGTAGAATGCG 58.671 37.037 15.53 2.04 36.50 4.73
707 726 7.230849 TCCACGGTTCTTATTTGTTCTAGTA 57.769 36.000 0.00 0.00 0.00 1.82
708 727 6.105397 TCCACGGTTCTTATTTGTTCTAGT 57.895 37.500 0.00 0.00 0.00 2.57
709 728 8.712285 TTATCCACGGTTCTTATTTGTTCTAG 57.288 34.615 0.00 0.00 0.00 2.43
722 741 3.252458 ACTTGTGCTTTTATCCACGGTTC 59.748 43.478 0.00 0.00 34.77 3.62
767 786 5.536916 CCCCGTTCTAATTCTCTAGATGAGT 59.463 44.000 0.00 0.00 43.13 3.41
770 789 4.561105 GCCCCGTTCTAATTCTCTAGATG 58.439 47.826 0.00 0.00 0.00 2.90
771 790 3.579151 GGCCCCGTTCTAATTCTCTAGAT 59.421 47.826 0.00 0.00 0.00 1.98
773 792 2.966516 AGGCCCCGTTCTAATTCTCTAG 59.033 50.000 0.00 0.00 0.00 2.43
774 793 3.042059 AGGCCCCGTTCTAATTCTCTA 57.958 47.619 0.00 0.00 0.00 2.43
778 797 6.713450 TGAATTTATAGGCCCCGTTCTAATTC 59.287 38.462 0.00 7.15 0.00 2.17
786 805 5.313712 CACTAATGAATTTATAGGCCCCGT 58.686 41.667 0.00 0.00 0.00 5.28
872 1459 4.048470 GGAACCTGGGACCTGGGC 62.048 72.222 17.23 9.33 39.05 5.36
915 3427 3.165875 TCGTCAGAGTCCCTTCATTCTT 58.834 45.455 0.00 0.00 0.00 2.52
920 3432 1.613925 CACTTCGTCAGAGTCCCTTCA 59.386 52.381 0.00 0.00 0.00 3.02
924 3436 1.079750 GGCACTTCGTCAGAGTCCC 60.080 63.158 0.00 0.00 0.00 4.46
964 3476 1.064825 AGAGGTGGAAATGGAACCGT 58.935 50.000 0.00 0.00 39.07 4.83
965 3477 1.453155 CAGAGGTGGAAATGGAACCG 58.547 55.000 0.00 0.00 39.07 4.44
966 3478 1.177401 GCAGAGGTGGAAATGGAACC 58.823 55.000 0.00 0.00 0.00 3.62
967 3479 1.177401 GGCAGAGGTGGAAATGGAAC 58.823 55.000 0.00 0.00 0.00 3.62
968 3480 1.075601 AGGCAGAGGTGGAAATGGAA 58.924 50.000 0.00 0.00 0.00 3.53
973 3485 3.054361 GGAGAATTAGGCAGAGGTGGAAA 60.054 47.826 0.00 0.00 0.00 3.13
987 3499 1.056660 GGGCCATCGGAGGAGAATTA 58.943 55.000 4.39 0.00 0.00 1.40
1063 3575 2.932614 CGATTTTCTTCACAGCGAGGAT 59.067 45.455 0.00 0.00 28.41 3.24
1072 3584 0.518559 GACGGCGCGATTTTCTTCAC 60.519 55.000 12.10 0.00 0.00 3.18
1215 3727 1.410737 CCGACTGTAACGATGCACCG 61.411 60.000 0.00 0.00 0.00 4.94
1216 3728 1.082117 CCCGACTGTAACGATGCACC 61.082 60.000 0.00 0.00 0.00 5.01
1217 3729 1.082117 CCCCGACTGTAACGATGCAC 61.082 60.000 0.00 0.00 0.00 4.57
1380 3904 6.526566 AATTATAACCGATGAAACGCTCTC 57.473 37.500 0.00 0.00 0.00 3.20
1446 3978 9.612620 GTATACAAAGGAAACAGACTCAAAATG 57.387 33.333 0.00 0.00 0.00 2.32
1533 4065 5.279306 CCCCATTCACATCAATGATCCATTC 60.279 44.000 0.00 0.00 36.03 2.67
1554 4086 8.161425 TCATATTATTGTAGAAAGGTAAGCCCC 58.839 37.037 0.00 0.00 34.57 5.80
1839 4387 1.832998 TCACACTGCATCAGCCTATCA 59.167 47.619 0.00 0.00 41.13 2.15
2092 4661 4.645762 TCATGTATGTGAGAGCAGAGAC 57.354 45.455 0.00 0.00 30.89 3.36
2142 4711 2.485814 GCAAAAGGGACTGCTAAGAGTG 59.514 50.000 0.00 0.00 40.86 3.51
2342 4911 4.976116 GGACAGTTTGTTTCGAAAAGATGG 59.024 41.667 13.10 3.87 0.00 3.51
2387 4956 6.074088 GCATTAGCTAGTAACTACGACGAGTA 60.074 42.308 0.00 0.00 37.91 2.59
2405 4974 1.132262 TGCGCTAACCAAAGCATTAGC 59.868 47.619 9.73 6.02 46.47 3.09
2406 4975 2.161410 TGTGCGCTAACCAAAGCATTAG 59.839 45.455 9.73 0.00 42.91 1.73
2407 4976 2.155279 TGTGCGCTAACCAAAGCATTA 58.845 42.857 9.73 0.00 42.91 1.90
2408 4977 0.958091 TGTGCGCTAACCAAAGCATT 59.042 45.000 9.73 0.00 42.91 3.56
2438 5007 6.414694 GCGTACGCTAACAGTGTAATGTATAA 59.585 38.462 31.95 0.00 42.16 0.98
2458 5027 4.832590 ATACAGTGTCCATCTAGCGTAC 57.167 45.455 0.00 0.00 0.00 3.67
2460 5029 3.954904 AGAATACAGTGTCCATCTAGCGT 59.045 43.478 0.00 0.00 0.00 5.07
2501 5070 1.892474 ACAGTGGTTGCAACAAACAGT 59.108 42.857 29.55 24.04 0.00 3.55
2519 5088 2.552599 TCGAGGTTGCCAAACATACA 57.447 45.000 0.00 0.00 38.10 2.29
2524 5093 0.317854 GTGCTTCGAGGTTGCCAAAC 60.318 55.000 0.00 0.00 35.40 2.93
2537 5106 2.481952 AGCGAAGATGAAACAGTGCTTC 59.518 45.455 0.00 0.00 33.45 3.86
2556 5125 6.863126 TGTTTTGCTAATCAAGAAAGCTAAGC 59.137 34.615 8.59 9.21 37.16 3.09
2575 5144 9.552114 CTTTCTATAACTCTGCAGATTGTTTTG 57.448 33.333 22.07 10.34 0.00 2.44
2619 6864 2.102925 ACACTTGCCAAATTGAACCCAG 59.897 45.455 0.00 0.00 0.00 4.45
2687 6932 0.176910 GCTCCAAGGCAGTCTCTACC 59.823 60.000 0.00 0.00 0.00 3.18
2900 7147 9.890352 CTTTCTGCAATCTATAGGAAATAAAGC 57.110 33.333 0.00 0.00 0.00 3.51
3152 7400 7.237209 ACTAAGAGTAAATGACGGGTTAAGT 57.763 36.000 0.00 0.00 0.00 2.24
3195 7471 9.422196 CGTAGACAAGAAGAAACTTAAAAACTG 57.578 33.333 0.00 0.00 0.00 3.16
3196 7472 8.121086 GCGTAGACAAGAAGAAACTTAAAAACT 58.879 33.333 0.00 0.00 0.00 2.66
3197 7473 7.906527 TGCGTAGACAAGAAGAAACTTAAAAAC 59.093 33.333 0.00 0.00 0.00 2.43
3198 7474 7.906527 GTGCGTAGACAAGAAGAAACTTAAAAA 59.093 33.333 0.00 0.00 0.00 1.94
3199 7475 7.064847 TGTGCGTAGACAAGAAGAAACTTAAAA 59.935 33.333 0.00 0.00 0.00 1.52
3200 7476 6.535865 TGTGCGTAGACAAGAAGAAACTTAAA 59.464 34.615 0.00 0.00 0.00 1.52
3201 7477 6.044046 TGTGCGTAGACAAGAAGAAACTTAA 58.956 36.000 0.00 0.00 0.00 1.85
3218 7494 3.731565 GCAAGAATGAATGCATGTGCGTA 60.732 43.478 0.00 0.00 45.83 4.42
3297 7573 8.802267 TGGACCATTACTTAAAAGAAATTGAGG 58.198 33.333 0.00 0.00 0.00 3.86
3354 7636 4.947388 GGTGACTGCCAGTAATATGGAAAA 59.053 41.667 0.00 0.00 43.57 2.29
3469 7751 5.586643 TGCACACACAGTTTGAATAAGTACA 59.413 36.000 0.00 0.00 0.00 2.90
3503 7785 3.131933 CAGTACCTGAGTGATCCTTGAGG 59.868 52.174 0.00 0.00 32.44 3.86
3553 7835 6.995091 GGTTTCTACAGCCAGATGAAGATAAT 59.005 38.462 0.00 0.00 0.00 1.28
3625 7907 1.130561 GTAATCACTTTGCAGCCCGAC 59.869 52.381 0.00 0.00 0.00 4.79
3643 7925 5.836898 AGACTTTACCGGTATGGATGATGTA 59.163 40.000 16.67 0.00 42.00 2.29
3774 8056 2.270352 TGAACCCTCAGCAACGAAAT 57.730 45.000 0.00 0.00 0.00 2.17
3781 8063 2.655090 TCATGTTTGAACCCTCAGCA 57.345 45.000 0.00 0.00 31.69 4.41
3829 8111 1.078143 GAAGCGGGGCATGAGAAGT 60.078 57.895 0.00 0.00 0.00 3.01
4152 8443 4.344679 TGTGAAGGAACATGGAAAGCAATT 59.655 37.500 0.00 0.00 0.00 2.32
4210 8501 5.028549 TCTCATGTCCTCAAGAATAAGGC 57.971 43.478 0.00 0.00 32.37 4.35
4241 8532 0.753262 CAGGGATACGAACTGAGGGG 59.247 60.000 0.00 0.00 34.21 4.79
4244 8535 1.409427 GGGACAGGGATACGAACTGAG 59.591 57.143 0.00 0.00 36.17 3.35
4274 8565 1.421646 CAAGGACTATAAGGCAGGGGG 59.578 57.143 0.00 0.00 0.00 5.40
4333 8625 6.878389 TCATGTAGCTTTTATGTGACACATGA 59.122 34.615 27.66 18.83 45.13 3.07
4381 8755 6.038050 TCCAAATGATTTTTGCAAAGACCAAC 59.962 34.615 12.41 3.48 0.00 3.77
4394 8768 7.227116 CACACAAGAATGGTTCCAAATGATTTT 59.773 33.333 0.00 0.00 0.00 1.82
4407 8781 3.297134 AGGTTGACACACAAGAATGGT 57.703 42.857 0.00 0.00 39.30 3.55
4447 8821 6.830114 AGAGTAGAAGAGTGTTTTCGTTTG 57.170 37.500 0.00 0.00 0.00 2.93
4452 8827 8.361889 AGGAAACTAGAGTAGAAGAGTGTTTTC 58.638 37.037 0.00 0.00 40.61 2.29
4476 8851 5.219343 TCAATGAGAGGTATATGTGCAGG 57.781 43.478 0.00 0.00 0.00 4.85
4536 8911 6.292168 CCATATTACGCAAACCTCGTTTAGAG 60.292 42.308 0.00 0.00 46.44 2.43
4561 8937 3.058016 TCAGAGCAACACATAGCTTTTGC 60.058 43.478 0.00 0.00 42.04 3.68
4563 8939 5.972107 AATCAGAGCAACACATAGCTTTT 57.028 34.783 0.00 0.00 42.04 2.27
4596 8972 8.964772 ACTGAAAATTCCAAATTCCAGATAGAG 58.035 33.333 15.51 0.00 0.00 2.43
4647 9025 4.643784 GGGTCCGTAAAGATCTCTAAGTCA 59.356 45.833 0.00 0.00 0.00 3.41
4650 9028 3.321396 GGGGGTCCGTAAAGATCTCTAAG 59.679 52.174 0.00 0.00 0.00 2.18
4704 9082 9.258629 TCCTTCAATTACATCTCCAAATTCAAT 57.741 29.630 0.00 0.00 0.00 2.57
4824 9202 8.090788 AGAACTTATATTTCTGCCCTTGACTA 57.909 34.615 0.00 0.00 31.88 2.59
4866 9244 8.964533 AACTCATCATATAGGGTTCTATCACT 57.035 34.615 0.00 0.00 37.39 3.41
4873 9251 6.978338 TGTCGTAACTCATCATATAGGGTTC 58.022 40.000 0.00 0.00 0.00 3.62
4894 9272 6.221659 ACCTTGTGTAACTTACTAGCTTGTC 58.778 40.000 3.45 0.00 38.04 3.18
4908 9286 6.655848 ACTTTCTTGTGTGTTACCTTGTGTAA 59.344 34.615 0.00 0.00 37.09 2.41
4929 9307 8.410912 CCCTAGCTTAACTTGTTGTTTTACTTT 58.589 33.333 0.00 0.00 39.89 2.66
4946 9325 6.014647 TCAGTTGTCTCTTAACCCTAGCTTA 58.985 40.000 0.00 0.00 0.00 3.09
5054 9433 0.472471 ACATTTGGTGTCGTGGGAGT 59.528 50.000 0.00 0.00 35.77 3.85
5066 9445 2.558359 GGGAACAAGGTGAGACATTTGG 59.442 50.000 0.00 0.00 0.00 3.28
5141 9521 1.664649 TGAGTGTTTGGAGCTCGCG 60.665 57.895 7.83 0.00 32.32 5.87
5233 9622 8.431910 TCCTAGTAAATCTTTGTACTCTTGGT 57.568 34.615 0.00 0.00 32.79 3.67
5243 9632 6.939551 TCGTTCGTTCCTAGTAAATCTTTG 57.060 37.500 0.00 0.00 0.00 2.77


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

AutoCloner maintained by Alex Coulton.