Multiple sequence alignment - TraesCS4A01G223100

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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 TraesCS4A01G223100 chr4A 100.000 2672 0 0 1 2672 530936944 530934273 0.000000e+00 4935.0
1 TraesCS4A01G223100 chr4A 86.096 1122 80 27 457 1528 531117662 531118757 0.000000e+00 1138.0
2 TraesCS4A01G223100 chr4B 89.785 1909 132 25 457 2333 95371213 95369336 0.000000e+00 2386.0
3 TraesCS4A01G223100 chr4B 94.895 333 14 3 1 331 95373035 95372704 3.940000e-143 518.0
4 TraesCS4A01G223100 chr4D 92.939 1133 60 9 713 1833 65070428 65069304 0.000000e+00 1631.0
5 TraesCS4A01G223100 chr4D 91.500 400 21 11 1 387 65074570 65074171 3.030000e-149 538.0
6 TraesCS4A01G223100 chr4D 93.770 305 17 1 376 678 65072014 65071710 8.720000e-125 457.0
7 TraesCS4A01G223100 chr4D 77.778 576 101 16 1877 2429 65069035 65068464 1.980000e-86 329.0
8 TraesCS4A01G223100 chr3B 77.061 279 54 10 2092 2365 727947807 727948080 4.610000e-33 152.0
9 TraesCS4A01G223100 chr3D 76.119 268 56 8 2092 2355 548729284 548729547 1.670000e-27 134.0
10 TraesCS4A01G223100 chr7A 83.784 74 10 2 2079 2151 459456033 459455961 4.770000e-08 69.4


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 TraesCS4A01G223100 chr4A 530934273 530936944 2671 True 4935.00 4935 100.00000 1 2672 1 chr4A.!!$R1 2671
1 TraesCS4A01G223100 chr4A 531117662 531118757 1095 False 1138.00 1138 86.09600 457 1528 1 chr4A.!!$F1 1071
2 TraesCS4A01G223100 chr4B 95369336 95373035 3699 True 1452.00 2386 92.34000 1 2333 2 chr4B.!!$R1 2332
3 TraesCS4A01G223100 chr4D 65068464 65074570 6106 True 738.75 1631 88.99675 1 2429 4 chr4D.!!$R1 2428

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
847 5726 0.240678 TTAGGCTGTGTTTGCATGCG 59.759 50.0 14.09 0.0 0.0 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2626 7789 0.038159 CGGGGATCCATAGAGTTCGC 60.038 60.0 15.23 0.0 0.0 4.7 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
87 88 4.082026 GCCAGGTATGCAATTTTCACTCTT 60.082 41.667 0.00 0.00 0.00 2.85
89 90 6.350110 GCCAGGTATGCAATTTTCACTCTTTA 60.350 38.462 0.00 0.00 0.00 1.85
90 91 7.631377 GCCAGGTATGCAATTTTCACTCTTTAT 60.631 37.037 0.00 0.00 0.00 1.40
136 139 7.032580 CAGCTGCTGATAACCTACTATATGAC 58.967 42.308 24.88 0.00 32.44 3.06
210 213 3.635373 GACATGTGCAAGATGGAATGGAT 59.365 43.478 1.15 0.00 42.83 3.41
211 214 4.795469 ACATGTGCAAGATGGAATGGATA 58.205 39.130 0.00 0.00 42.83 2.59
215 218 3.817647 GTGCAAGATGGAATGGATACTCC 59.182 47.826 0.00 0.00 36.96 3.85
228 232 8.207545 GGAATGGATACTCCCTATTATTGCTAG 58.792 40.741 0.00 0.00 35.03 3.42
331 342 5.238868 TGCTACGTACTCCACATATCTCTTC 59.761 44.000 0.00 0.00 0.00 2.87
372 383 9.739276 TTTTATTCTCCAGATACAATGTTGTCT 57.261 29.630 0.99 0.00 42.35 3.41
373 384 8.722480 TTATTCTCCAGATACAATGTTGTCTG 57.278 34.615 16.55 16.55 42.35 3.51
374 385 5.745312 TCTCCAGATACAATGTTGTCTGT 57.255 39.130 19.74 0.00 42.35 3.41
443 2627 5.799435 GGGAAAAATGCAAAAACTTTGTGTG 59.201 36.000 0.00 0.00 0.00 3.82
447 2631 2.600731 TGCAAAAACTTTGTGTGTCGG 58.399 42.857 1.45 0.00 0.00 4.79
460 4059 1.453015 TGTCGGTGCTTTGTGGCTT 60.453 52.632 0.00 0.00 0.00 4.35
496 4095 6.364435 GTCCAAGTTAGTCTAGTTTACAACCG 59.636 42.308 0.00 0.00 0.00 4.44
584 4187 4.147321 GGGATGATACCAACCGTAGTCTA 58.853 47.826 0.00 0.00 36.21 2.59
622 4241 8.954350 AGATGATCGATTCAACAATCTTCTTTT 58.046 29.630 0.00 0.00 38.03 2.27
624 4243 7.236474 TGATCGATTCAACAATCTTCTTTTCG 58.764 34.615 0.00 0.00 36.93 3.46
679 4298 9.880157 ATTTGCTCAATTGACTTTTAGCATTAT 57.120 25.926 15.84 10.94 39.50 1.28
688 4307 9.914834 ATTGACTTTTAGCATTATTACTACCCA 57.085 29.630 0.00 0.00 0.00 4.51
697 4325 2.325583 ATTACTACCCACCACATGCG 57.674 50.000 0.00 0.00 0.00 4.73
698 4326 0.978151 TTACTACCCACCACATGCGT 59.022 50.000 0.00 0.00 0.00 5.24
708 4337 0.317770 CCACATGCGTCGCACTTTTT 60.318 50.000 24.34 2.64 43.04 1.94
758 5637 6.878923 CGGACTTCATATGCCATAATTTCCTA 59.121 38.462 0.00 0.00 0.00 2.94
772 5651 9.512588 CCATAATTTCCTAGTTTGCTCTCATAT 57.487 33.333 0.00 0.00 0.00 1.78
805 5684 7.544566 TCAGATGTTTAAGATGTCGTCTAAACC 59.455 37.037 16.32 8.43 35.67 3.27
811 5690 4.612932 AGATGTCGTCTAAACCTCGTAC 57.387 45.455 0.00 0.00 34.69 3.67
812 5691 4.005650 AGATGTCGTCTAAACCTCGTACA 58.994 43.478 0.00 0.00 34.69 2.90
822 5701 7.637907 CGTCTAAACCTCGTACAGTAATAACTC 59.362 40.741 0.00 0.00 31.97 3.01
845 5724 6.331845 TCAATATTTAGGCTGTGTTTGCATG 58.668 36.000 0.00 0.00 0.00 4.06
847 5726 0.240678 TTAGGCTGTGTTTGCATGCG 59.759 50.000 14.09 0.00 0.00 4.73
866 5753 4.052608 TGCGAAAATCGTCAGTTTCAGTA 58.947 39.130 1.45 0.00 42.81 2.74
867 5754 4.508492 TGCGAAAATCGTCAGTTTCAGTAA 59.492 37.500 1.45 0.00 42.81 2.24
935 5834 1.261238 GCAGCCAGAGTCACCCTACT 61.261 60.000 0.00 0.00 0.00 2.57
1116 6022 2.805546 GTCCTCGCCGCTATCACA 59.194 61.111 0.00 0.00 0.00 3.58
1131 6037 1.220529 TCACAGTCGTCGTCTTACGT 58.779 50.000 0.00 0.00 43.14 3.57
1199 6105 3.494336 CAGCTTCGCCTTCGCCAG 61.494 66.667 0.00 0.00 35.26 4.85
1354 6260 2.281208 GCCTGTACAACGCCACCA 60.281 61.111 0.00 0.00 0.00 4.17
1677 6583 6.454318 CGGACAAGATCTACTTTTGATGAACG 60.454 42.308 0.00 0.00 36.61 3.95
1772 6688 4.620184 GCATTTCTGTGAGCATTTTCAGTC 59.380 41.667 0.00 0.00 0.00 3.51
1786 6702 0.744874 TCAGTCCCGTGGATTCGATC 59.255 55.000 0.00 0.00 32.73 3.69
1791 6707 2.030981 GTCCCGTGGATTCGATCTAGTC 60.031 54.545 0.00 0.00 32.73 2.59
1800 6716 4.380023 GGATTCGATCTAGTCCGGAATCAG 60.380 50.000 8.16 4.62 31.00 2.90
1805 6721 1.115467 CTAGTCCGGAATCAGTGGCT 58.885 55.000 8.16 0.00 0.00 4.75
1841 6962 5.728351 TTCCAAACGAGTAAAAGACACAG 57.272 39.130 0.00 0.00 0.00 3.66
1978 7132 3.093057 GGAGGATCTACAGCGGATACAT 58.907 50.000 0.00 0.00 33.73 2.29
1989 7143 4.122046 CAGCGGATACATCAAATCTGACA 58.878 43.478 0.00 0.00 33.30 3.58
1997 7151 5.954296 ACATCAAATCTGACACCTCAAAG 57.046 39.130 0.00 0.00 33.30 2.77
1998 7152 4.763793 ACATCAAATCTGACACCTCAAAGG 59.236 41.667 0.00 0.00 36.37 3.11
2001 7155 2.777832 ATCTGACACCTCAAAGGCTC 57.222 50.000 0.00 0.00 39.63 4.70
2002 7156 1.423584 TCTGACACCTCAAAGGCTCA 58.576 50.000 0.00 0.00 39.63 4.26
2013 7168 2.129555 AAAGGCTCATGGGCACGTCT 62.130 55.000 21.47 3.75 43.56 4.18
2042 7197 1.740285 GCGGATAGTGACCCGTCAT 59.260 57.895 0.03 0.00 46.84 3.06
2045 7200 0.464036 GGATAGTGACCCGTCATGCA 59.536 55.000 0.03 0.00 42.18 3.96
2051 7206 1.745087 GTGACCCGTCATGCATCAAAT 59.255 47.619 0.00 0.00 42.18 2.32
2061 7216 6.194463 CGTCATGCATCAAATTATCGTTTCT 58.806 36.000 0.00 0.00 0.00 2.52
2067 7222 8.039603 TGCATCAAATTATCGTTTCTACAACT 57.960 30.769 0.00 0.00 0.00 3.16
2077 7232 6.355397 TCGTTTCTACAACTAGATACCTCG 57.645 41.667 0.00 0.00 30.85 4.63
2119 7274 8.389779 TCCATACAATTATATGCACGTGAAAT 57.610 30.769 22.23 14.33 32.12 2.17
2169 7325 1.183030 TGAGTCCATGTCCGAACGGT 61.183 55.000 12.93 0.00 36.47 4.83
2184 7341 4.742201 GGTTGGCTGCGCTCTCGA 62.742 66.667 9.73 0.00 38.10 4.04
2191 7348 0.849579 GCTGCGCTCTCGAAGTATTC 59.150 55.000 9.73 0.00 43.35 1.75
2226 7383 2.563179 CGAGGTAGAATAGGACATGGGG 59.437 54.545 0.00 0.00 0.00 4.96
2236 7393 1.530419 GACATGGGGCACACACCAA 60.530 57.895 0.00 0.00 40.73 3.67
2254 7411 1.407656 AACTCACGGGACTCAAGGCA 61.408 55.000 0.00 0.00 0.00 4.75
2257 7414 2.847234 ACGGGACTCAAGGCACCA 60.847 61.111 0.00 0.00 0.00 4.17
2286 7443 3.244146 CCCATGCTCTACTCTTCCTCATG 60.244 52.174 0.00 0.00 0.00 3.07
2299 7456 3.723235 CTCATGGGAGCCCGTCACG 62.723 68.421 0.00 0.00 39.42 4.35
2336 7493 4.104066 CGATGTGAGATCGATGATGGATC 58.896 47.826 6.06 9.12 43.59 3.36
2338 7495 3.233507 TGTGAGATCGATGATGGATCCA 58.766 45.455 18.88 18.88 40.93 3.41
2347 7504 3.201342 GATGGATCCATCGTGGTCG 57.799 57.895 33.48 0.00 42.55 4.79
2352 7509 2.701163 GATCCATCGTGGTCGGAGGC 62.701 65.000 4.33 0.00 39.03 4.70
2364 7521 2.040544 CGGAGGCCAACATGTCCAC 61.041 63.158 5.01 0.00 0.00 4.02
2367 7524 1.298859 GAGGCCAACATGTCCACGAC 61.299 60.000 5.01 0.00 0.00 4.34
2404 7567 2.582436 CCGGCCACTTGTATCGGT 59.418 61.111 2.24 0.00 36.38 4.69
2407 7570 1.078426 GGCCACTTGTATCGGTGCT 60.078 57.895 0.00 0.00 32.68 4.40
2408 7571 0.177141 GGCCACTTGTATCGGTGCTA 59.823 55.000 0.00 0.00 32.68 3.49
2416 7579 3.000684 TGTATCGGTGCTAGAGAGTGT 57.999 47.619 0.00 0.00 0.00 3.55
2429 7592 1.445238 GAGTGTGACTCTGCCTCGC 60.445 63.158 0.00 0.00 41.88 5.03
2430 7593 1.872197 GAGTGTGACTCTGCCTCGCT 61.872 60.000 0.00 0.00 41.88 4.93
2431 7594 1.735920 GTGTGACTCTGCCTCGCTG 60.736 63.158 0.00 0.00 0.00 5.18
2432 7595 1.903404 TGTGACTCTGCCTCGCTGA 60.903 57.895 0.00 0.00 35.38 4.26
2433 7596 1.445238 GTGACTCTGCCTCGCTGAC 60.445 63.158 0.00 0.00 33.27 3.51
2434 7597 2.202544 GACTCTGCCTCGCTGACG 60.203 66.667 0.00 0.00 42.01 4.35
2435 7598 2.983930 GACTCTGCCTCGCTGACGT 61.984 63.158 0.00 0.00 41.18 4.34
2436 7599 2.202544 CTCTGCCTCGCTGACGTC 60.203 66.667 9.11 9.11 41.18 4.34
2437 7600 2.673341 TCTGCCTCGCTGACGTCT 60.673 61.111 17.92 0.00 41.18 4.18
2438 7601 2.505777 CTGCCTCGCTGACGTCTG 60.506 66.667 17.92 17.57 41.18 3.51
2439 7602 3.274455 CTGCCTCGCTGACGTCTGT 62.274 63.158 21.51 0.00 41.18 3.41
2440 7603 2.505118 GCCTCGCTGACGTCTGTC 60.505 66.667 21.51 13.58 45.71 3.51
2448 7611 2.505118 GACGTCTGTCGCAGCCTC 60.505 66.667 8.70 0.00 44.19 4.70
2449 7612 3.973267 GACGTCTGTCGCAGCCTCC 62.973 68.421 8.70 0.00 44.19 4.30
2450 7613 4.803426 CGTCTGTCGCAGCCTCCC 62.803 72.222 2.45 0.00 0.00 4.30
2451 7614 3.695606 GTCTGTCGCAGCCTCCCA 61.696 66.667 2.45 0.00 0.00 4.37
2452 7615 2.685017 TCTGTCGCAGCCTCCCAT 60.685 61.111 2.45 0.00 0.00 4.00
2453 7616 2.513204 CTGTCGCAGCCTCCCATG 60.513 66.667 0.00 0.00 0.00 3.66
2454 7617 3.002583 TGTCGCAGCCTCCCATGA 61.003 61.111 0.00 0.00 0.00 3.07
2455 7618 2.512515 GTCGCAGCCTCCCATGAC 60.513 66.667 0.00 0.00 0.00 3.06
2456 7619 3.785859 TCGCAGCCTCCCATGACC 61.786 66.667 0.00 0.00 0.00 4.02
2457 7620 3.790437 CGCAGCCTCCCATGACCT 61.790 66.667 0.00 0.00 0.00 3.85
2458 7621 2.191641 GCAGCCTCCCATGACCTC 59.808 66.667 0.00 0.00 0.00 3.85
2459 7622 2.373707 GCAGCCTCCCATGACCTCT 61.374 63.158 0.00 0.00 0.00 3.69
2460 7623 1.525923 CAGCCTCCCATGACCTCTG 59.474 63.158 0.00 0.00 0.00 3.35
2461 7624 2.191641 GCCTCCCATGACCTCTGC 59.808 66.667 0.00 0.00 0.00 4.26
2462 7625 2.914289 CCTCCCATGACCTCTGCC 59.086 66.667 0.00 0.00 0.00 4.85
2463 7626 1.692042 CCTCCCATGACCTCTGCCT 60.692 63.158 0.00 0.00 0.00 4.75
2464 7627 1.694133 CCTCCCATGACCTCTGCCTC 61.694 65.000 0.00 0.00 0.00 4.70
2465 7628 2.025767 CTCCCATGACCTCTGCCTCG 62.026 65.000 0.00 0.00 0.00 4.63
2466 7629 2.202987 CCATGACCTCTGCCTCGC 60.203 66.667 0.00 0.00 0.00 5.03
2467 7630 2.580815 CATGACCTCTGCCTCGCA 59.419 61.111 0.00 0.00 36.92 5.10
2468 7631 1.145598 CATGACCTCTGCCTCGCAT 59.854 57.895 0.00 0.00 38.13 4.73
2469 7632 0.390492 CATGACCTCTGCCTCGCATA 59.610 55.000 0.00 0.00 38.13 3.14
2470 7633 1.123077 ATGACCTCTGCCTCGCATAA 58.877 50.000 0.00 0.00 38.13 1.90
2471 7634 0.175760 TGACCTCTGCCTCGCATAAC 59.824 55.000 0.00 0.00 38.13 1.89
2472 7635 0.872021 GACCTCTGCCTCGCATAACG 60.872 60.000 0.00 0.00 45.62 3.18
2473 7636 1.592669 CCTCTGCCTCGCATAACGG 60.593 63.158 0.00 0.00 43.89 4.44
2474 7637 1.592669 CTCTGCCTCGCATAACGGG 60.593 63.158 0.00 0.00 44.02 5.28
2478 7641 3.261951 CCTCGCATAACGGGCACG 61.262 66.667 6.92 6.92 42.61 5.34
2479 7642 3.925238 CTCGCATAACGGGCACGC 61.925 66.667 9.12 0.00 46.04 5.34
2492 7655 4.969196 CACGCCGCGCCATATCCT 62.969 66.667 13.88 0.00 0.00 3.24
2493 7656 4.235762 ACGCCGCGCCATATCCTT 62.236 61.111 13.88 0.00 0.00 3.36
2494 7657 2.048597 CGCCGCGCCATATCCTTA 60.049 61.111 0.00 0.00 0.00 2.69
2495 7658 2.094659 CGCCGCGCCATATCCTTAG 61.095 63.158 0.00 0.00 0.00 2.18
2496 7659 2.391389 GCCGCGCCATATCCTTAGC 61.391 63.158 0.00 0.00 0.00 3.09
2500 7663 1.014564 GCGCCATATCCTTAGCGGAC 61.015 60.000 0.00 0.00 46.80 4.79
2501 7664 0.603569 CGCCATATCCTTAGCGGACT 59.396 55.000 0.00 0.00 46.80 3.85
2502 7665 1.670087 CGCCATATCCTTAGCGGACTG 60.670 57.143 0.00 0.00 46.80 3.51
2503 7666 1.338200 GCCATATCCTTAGCGGACTGG 60.338 57.143 6.94 6.94 46.80 4.00
2504 7667 1.338200 CCATATCCTTAGCGGACTGGC 60.338 57.143 0.00 0.00 46.80 4.85
2505 7668 0.977395 ATATCCTTAGCGGACTGGCC 59.023 55.000 0.00 0.00 46.80 5.36
2506 7669 0.397957 TATCCTTAGCGGACTGGCCA 60.398 55.000 4.71 4.71 46.80 5.36
2507 7670 1.972660 ATCCTTAGCGGACTGGCCAC 61.973 60.000 0.00 0.00 46.80 5.01
2508 7671 2.509336 CTTAGCGGACTGGCCACG 60.509 66.667 0.00 5.39 35.94 4.94
2509 7672 4.077184 TTAGCGGACTGGCCACGG 62.077 66.667 15.19 6.47 35.94 4.94
2513 7676 4.760047 CGGACTGGCCACGGAAGG 62.760 72.222 0.00 0.00 35.94 3.46
2514 7677 3.637273 GGACTGGCCACGGAAGGT 61.637 66.667 0.00 0.00 36.34 3.50
2515 7678 2.047179 GACTGGCCACGGAAGGTC 60.047 66.667 0.00 2.41 0.00 3.85
2516 7679 2.526873 ACTGGCCACGGAAGGTCT 60.527 61.111 0.00 0.00 33.35 3.85
2517 7680 2.266055 CTGGCCACGGAAGGTCTC 59.734 66.667 0.00 0.00 33.35 3.36
2518 7681 3.316573 CTGGCCACGGAAGGTCTCC 62.317 68.421 0.00 0.00 41.40 3.71
2519 7682 3.003763 GGCCACGGAAGGTCTCCT 61.004 66.667 0.00 0.00 42.85 3.69
2520 7683 2.579738 GCCACGGAAGGTCTCCTC 59.420 66.667 0.00 0.00 42.85 3.71
2521 7684 2.885861 CCACGGAAGGTCTCCTCG 59.114 66.667 0.00 0.00 42.85 4.63
2522 7685 1.977544 CCACGGAAGGTCTCCTCGT 60.978 63.158 0.00 0.00 42.85 4.18
2523 7686 1.507174 CACGGAAGGTCTCCTCGTC 59.493 63.158 0.68 0.00 42.85 4.20
2524 7687 2.039405 ACGGAAGGTCTCCTCGTCG 61.039 63.158 0.00 0.00 42.85 5.12
2525 7688 2.762234 CGGAAGGTCTCCTCGTCGG 61.762 68.421 0.00 0.00 42.85 4.79
2526 7689 2.490685 GAAGGTCTCCTCGTCGGC 59.509 66.667 0.00 0.00 30.89 5.54
2527 7690 3.398353 GAAGGTCTCCTCGTCGGCG 62.398 68.421 1.15 1.15 39.92 6.46
2535 7698 3.902063 CTCGTCGGCGCGTCAATG 61.902 66.667 12.89 0.00 38.14 2.82
2536 7699 4.407694 TCGTCGGCGCGTCAATGA 62.408 61.111 12.89 0.00 38.14 2.57
2537 7700 3.474904 CGTCGGCGCGTCAATGAA 61.475 61.111 12.89 0.00 0.00 2.57
2538 7701 2.395690 GTCGGCGCGTCAATGAAG 59.604 61.111 12.89 0.00 0.00 3.02
2539 7702 2.813474 TCGGCGCGTCAATGAAGG 60.813 61.111 12.89 0.00 0.00 3.46
2540 7703 3.864686 CGGCGCGTCAATGAAGGG 61.865 66.667 12.89 8.70 0.00 3.95
2541 7704 3.508840 GGCGCGTCAATGAAGGGG 61.509 66.667 5.47 5.50 0.00 4.79
2542 7705 2.746277 GCGCGTCAATGAAGGGGT 60.746 61.111 8.43 0.00 0.00 4.95
2543 7706 2.332654 GCGCGTCAATGAAGGGGTT 61.333 57.895 8.43 0.00 0.00 4.11
2544 7707 1.501741 CGCGTCAATGAAGGGGTTG 59.498 57.895 0.00 0.00 0.00 3.77
2545 7708 1.212751 GCGTCAATGAAGGGGTTGC 59.787 57.895 0.00 0.00 0.00 4.17
2546 7709 1.523154 GCGTCAATGAAGGGGTTGCA 61.523 55.000 0.00 0.00 0.00 4.08
2547 7710 0.240945 CGTCAATGAAGGGGTTGCAC 59.759 55.000 0.00 0.00 0.00 4.57
2548 7711 1.620822 GTCAATGAAGGGGTTGCACT 58.379 50.000 0.00 0.00 0.00 4.40
2549 7712 1.270550 GTCAATGAAGGGGTTGCACTG 59.729 52.381 0.00 0.00 0.00 3.66
2550 7713 1.133513 TCAATGAAGGGGTTGCACTGT 60.134 47.619 0.00 0.00 0.00 3.55
2551 7714 2.107378 TCAATGAAGGGGTTGCACTGTA 59.893 45.455 0.00 0.00 0.00 2.74
2552 7715 3.091545 CAATGAAGGGGTTGCACTGTAT 58.908 45.455 0.00 0.00 0.00 2.29
2553 7716 2.198827 TGAAGGGGTTGCACTGTATG 57.801 50.000 0.00 0.00 0.00 2.39
2554 7717 1.271871 TGAAGGGGTTGCACTGTATGG 60.272 52.381 0.00 0.00 0.00 2.74
2555 7718 0.611896 AAGGGGTTGCACTGTATGGC 60.612 55.000 0.00 0.00 0.00 4.40
2556 7719 2.406616 GGGGTTGCACTGTATGGCG 61.407 63.158 0.00 0.00 0.00 5.69
2557 7720 1.674322 GGGTTGCACTGTATGGCGT 60.674 57.895 0.00 0.00 0.00 5.68
2558 7721 1.241315 GGGTTGCACTGTATGGCGTT 61.241 55.000 0.00 0.00 0.00 4.84
2559 7722 0.168128 GGTTGCACTGTATGGCGTTC 59.832 55.000 0.00 0.00 0.00 3.95
2560 7723 0.179225 GTTGCACTGTATGGCGTTCG 60.179 55.000 0.00 0.00 0.00 3.95
2561 7724 1.295357 TTGCACTGTATGGCGTTCGG 61.295 55.000 0.00 0.00 0.00 4.30
2562 7725 1.447140 GCACTGTATGGCGTTCGGA 60.447 57.895 0.00 0.00 0.00 4.55
2563 7726 1.017177 GCACTGTATGGCGTTCGGAA 61.017 55.000 0.00 0.00 0.00 4.30
2564 7727 0.999406 CACTGTATGGCGTTCGGAAG 59.001 55.000 0.00 0.00 0.00 3.46
2565 7728 0.739813 ACTGTATGGCGTTCGGAAGC 60.740 55.000 0.00 0.00 0.00 3.86
2578 7741 4.400961 GAAGCCGCACTGCCTCCT 62.401 66.667 0.00 0.00 0.00 3.69
2579 7742 4.711949 AAGCCGCACTGCCTCCTG 62.712 66.667 0.00 0.00 0.00 3.86
2582 7745 4.007644 CCGCACTGCCTCCTGTGA 62.008 66.667 5.13 0.00 41.75 3.58
2583 7746 2.433838 CGCACTGCCTCCTGTGAG 60.434 66.667 5.13 0.00 41.75 3.51
2591 7754 2.898738 CTCCTGTGAGGCAGCGAT 59.101 61.111 0.00 0.00 43.71 4.58
2592 7755 1.521010 CTCCTGTGAGGCAGCGATG 60.521 63.158 0.00 0.00 43.71 3.84
2593 7756 1.953231 CTCCTGTGAGGCAGCGATGA 61.953 60.000 4.02 0.00 43.71 2.92
2594 7757 1.812922 CCTGTGAGGCAGCGATGAC 60.813 63.158 4.02 0.00 43.71 3.06
2595 7758 2.125952 TGTGAGGCAGCGATGACG 60.126 61.111 4.02 0.00 42.93 4.35
2605 7768 3.545481 CGATGACGCACCTCGCAC 61.545 66.667 0.00 0.00 42.60 5.34
2606 7769 3.188786 GATGACGCACCTCGCACC 61.189 66.667 0.00 0.00 42.60 5.01
2613 7776 3.770040 CACCTCGCACCGGATCCA 61.770 66.667 9.46 0.00 0.00 3.41
2614 7777 3.000819 ACCTCGCACCGGATCCAA 61.001 61.111 9.46 0.00 0.00 3.53
2615 7778 2.202932 CCTCGCACCGGATCCAAG 60.203 66.667 9.46 4.76 0.00 3.61
2616 7779 2.892425 CTCGCACCGGATCCAAGC 60.892 66.667 9.46 11.08 0.00 4.01
2620 7783 4.776322 CACCGGATCCAAGCGCCA 62.776 66.667 9.46 0.00 0.00 5.69
2621 7784 3.797353 ACCGGATCCAAGCGCCAT 61.797 61.111 9.46 0.00 0.00 4.40
2622 7785 2.516930 CCGGATCCAAGCGCCATT 60.517 61.111 13.41 0.00 0.00 3.16
2623 7786 2.120909 CCGGATCCAAGCGCCATTT 61.121 57.895 13.41 0.00 0.00 2.32
2624 7787 1.064621 CGGATCCAAGCGCCATTTG 59.935 57.895 13.41 1.56 0.00 2.32
2625 7788 1.438814 GGATCCAAGCGCCATTTGG 59.561 57.895 18.26 18.26 45.17 3.28
2626 7789 1.438814 GATCCAAGCGCCATTTGGG 59.561 57.895 22.43 4.33 44.18 4.12
2638 7801 1.949525 CCATTTGGGCGAACTCTATGG 59.050 52.381 0.00 0.00 0.00 2.74
2639 7802 2.421388 CCATTTGGGCGAACTCTATGGA 60.421 50.000 5.09 0.00 34.39 3.41
2640 7803 3.480470 CATTTGGGCGAACTCTATGGAT 58.520 45.455 0.00 0.00 0.00 3.41
2641 7804 2.910688 TTGGGCGAACTCTATGGATC 57.089 50.000 0.00 0.00 0.00 3.36
2642 7805 1.048601 TGGGCGAACTCTATGGATCC 58.951 55.000 4.20 4.20 0.00 3.36
2643 7806 0.321996 GGGCGAACTCTATGGATCCC 59.678 60.000 9.90 0.00 0.00 3.85
2644 7807 0.321996 GGCGAACTCTATGGATCCCC 59.678 60.000 9.90 0.00 0.00 4.81
2645 7808 0.038159 GCGAACTCTATGGATCCCCG 60.038 60.000 9.90 0.00 34.29 5.73
2646 7809 0.038159 CGAACTCTATGGATCCCCGC 60.038 60.000 9.90 0.00 34.29 6.13
2647 7810 1.343069 GAACTCTATGGATCCCCGCT 58.657 55.000 9.90 0.00 34.29 5.52
2648 7811 1.001406 GAACTCTATGGATCCCCGCTG 59.999 57.143 9.90 0.00 34.29 5.18
2649 7812 0.833834 ACTCTATGGATCCCCGCTGG 60.834 60.000 9.90 0.00 34.29 4.85
2657 7820 2.833582 TCCCCGCTGGATCGAGTC 60.834 66.667 6.60 0.00 38.61 3.36
2666 7829 2.750815 GGATCGAGTCCAACCGTTG 58.249 57.895 4.12 4.12 46.96 4.10
2667 7830 0.037605 GGATCGAGTCCAACCGTTGT 60.038 55.000 10.34 0.00 46.96 3.32
2668 7831 1.347320 GATCGAGTCCAACCGTTGTC 58.653 55.000 10.34 3.52 0.00 3.18
2669 7832 0.677288 ATCGAGTCCAACCGTTGTCA 59.323 50.000 10.34 0.00 0.00 3.58
2670 7833 0.249155 TCGAGTCCAACCGTTGTCAC 60.249 55.000 10.34 6.51 0.00 3.67
2671 7834 1.545614 CGAGTCCAACCGTTGTCACG 61.546 60.000 10.34 9.10 46.71 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 88 8.389779 TGAAATGCAGAACAAGTCAGTTATAA 57.610 30.769 0.00 0.00 0.00 0.98
89 90 6.882610 TGAAATGCAGAACAAGTCAGTTAT 57.117 33.333 0.00 0.00 0.00 1.89
136 139 2.028112 TGGAGATTGGAGACCTGAAACG 60.028 50.000 0.00 0.00 0.00 3.60
241 245 9.338291 CGTACATATCATAGCGTACTGTTTTAT 57.662 33.333 0.00 0.00 33.61 1.40
247 251 5.923665 TGACGTACATATCATAGCGTACTG 58.076 41.667 0.00 3.33 33.61 2.74
249 253 6.800408 ACAATGACGTACATATCATAGCGTAC 59.200 38.462 5.05 0.00 38.38 3.67
331 342 9.062524 TGGAGAATAAAAATATCCATTACCACG 57.937 33.333 0.00 0.00 35.16 4.94
443 2627 0.948678 TTAAGCCACAAAGCACCGAC 59.051 50.000 0.00 0.00 34.23 4.79
447 2631 2.979813 CGTTGATTAAGCCACAAAGCAC 59.020 45.455 0.00 0.00 34.23 4.40
460 4059 3.583966 ACTAACTTGGACCCCGTTGATTA 59.416 43.478 5.92 0.00 0.00 1.75
496 4095 9.027202 TGGTTTAATCCCCAAATAGTTTAAGTC 57.973 33.333 0.02 0.00 0.00 3.01
584 4187 8.722480 TGAATCGATCATCTCTTGTTTATTGT 57.278 30.769 0.00 0.00 31.50 2.71
622 4241 1.153449 CGGGCAAGTAGGCATTCGA 60.153 57.895 0.00 0.00 46.44 3.71
624 4243 0.107654 ACTCGGGCAAGTAGGCATTC 60.108 55.000 0.00 0.00 46.44 2.67
679 4298 3.844911 CGCATGTGGTGGGTAGTAA 57.155 52.632 0.00 0.00 36.12 2.24
687 4306 2.116736 AAAGTGCGACGCATGTGGTG 62.117 55.000 27.23 3.40 41.91 4.17
688 4307 1.444119 AAAAGTGCGACGCATGTGGT 61.444 50.000 27.23 7.96 41.91 4.16
711 5577 1.078778 TCGCCTAATCGCCTGCAAA 60.079 52.632 0.00 0.00 0.00 3.68
758 5637 6.712095 TCTGAAACAACATATGAGAGCAAACT 59.288 34.615 10.38 0.00 0.00 2.66
772 5651 7.011950 ACGACATCTTAAACATCTGAAACAACA 59.988 33.333 0.00 0.00 0.00 3.33
822 5701 5.005971 GCATGCAAACACAGCCTAAATATTG 59.994 40.000 14.21 0.00 0.00 1.90
845 5724 3.521524 ACTGAAACTGACGATTTTCGC 57.478 42.857 0.00 0.00 45.12 4.70
866 5753 8.961634 GGATACTTCCTCTTGCTAAGAAAAATT 58.038 33.333 0.00 0.00 39.14 1.82
867 5754 8.109634 TGGATACTTCCTCTTGCTAAGAAAAAT 58.890 33.333 0.00 0.00 43.07 1.82
935 5834 3.636231 CGGACTGGGCCACTTGGA 61.636 66.667 0.00 0.00 37.39 3.53
1029 5935 0.899253 TTCGTGGTGGTCCATACGGA 60.899 55.000 23.26 16.49 46.20 4.69
1107 6013 0.374063 AGACGACGACTGTGATAGCG 59.626 55.000 0.00 0.00 33.90 4.26
1116 6022 1.398960 CCGAAACGTAAGACGACGACT 60.399 52.381 0.00 0.00 46.05 4.18
1454 6360 1.273606 TCTGCTTCTTGAAGTCCTCCG 59.726 52.381 11.41 0.00 0.00 4.63
1614 6520 1.007734 GACCTCAGCGAACACGACA 60.008 57.895 0.00 0.00 0.00 4.35
1653 6559 6.590292 TCGTTCATCAAAAGTAGATCTTGTCC 59.410 38.462 0.00 0.00 36.40 4.02
1740 6656 3.673052 GCTCACAGAAATGCGGCAAATAA 60.673 43.478 6.82 0.00 0.00 1.40
1748 6664 3.567530 TGAAAATGCTCACAGAAATGCG 58.432 40.909 0.00 0.00 0.00 4.73
1772 6688 1.269998 GGACTAGATCGAATCCACGGG 59.730 57.143 0.00 0.00 0.00 5.28
1786 6702 1.115467 AGCCACTGATTCCGGACTAG 58.885 55.000 1.83 5.35 0.00 2.57
1791 6707 2.825836 GGCAGCCACTGATTCCGG 60.826 66.667 6.55 0.00 32.44 5.14
1800 6716 1.080298 GCAAGACAATGGCAGCCAC 60.080 57.895 19.10 3.49 35.80 5.01
1805 6721 1.702182 TTGGAAGCAAGACAATGGCA 58.298 45.000 0.00 0.00 0.00 4.92
1841 6962 1.328986 GCGAAGACCAAAGCTGATAGC 59.671 52.381 0.00 0.00 42.84 2.97
1860 6981 1.480954 TCTCCGGTAGATGTTGAAGGC 59.519 52.381 0.00 0.00 0.00 4.35
1978 7132 3.149196 GCCTTTGAGGTGTCAGATTTGA 58.851 45.455 0.00 0.00 37.80 2.69
1989 7143 1.000396 GCCCATGAGCCTTTGAGGT 60.000 57.895 0.00 0.00 37.80 3.85
1997 7151 2.821366 CAGACGTGCCCATGAGCC 60.821 66.667 0.00 0.00 0.00 4.70
1998 7152 1.812922 CTCAGACGTGCCCATGAGC 60.813 63.158 0.00 0.00 33.41 4.26
2001 7155 3.190849 CGCTCAGACGTGCCCATG 61.191 66.667 0.00 0.00 0.00 3.66
2020 7175 1.362717 CGGGTCACTATCCGCGAAT 59.637 57.895 8.23 0.00 43.81 3.34
2029 7184 1.190643 TGATGCATGACGGGTCACTA 58.809 50.000 2.46 0.00 43.11 2.74
2042 7197 8.039603 AGTTGTAGAAACGATAATTTGATGCA 57.960 30.769 0.00 0.00 0.00 3.96
2051 7206 8.554528 CGAGGTATCTAGTTGTAGAAACGATAA 58.445 37.037 0.00 0.00 38.82 1.75
2061 7216 8.613060 ATTCGTAATCGAGGTATCTAGTTGTA 57.387 34.615 0.00 0.00 46.81 2.41
2090 7245 9.495572 TCACGTGCATATAATTGTATGGATTTA 57.504 29.630 19.97 5.89 35.35 1.40
2106 7261 6.089417 CGCATAGATTAGATTTCACGTGCATA 59.911 38.462 11.67 0.00 0.00 3.14
2119 7274 2.484651 GACGAGCTCCGCATAGATTAGA 59.515 50.000 8.47 0.00 43.32 2.10
2150 7306 1.183030 ACCGTTCGGACATGGACTCA 61.183 55.000 18.28 0.00 0.00 3.41
2184 7341 0.795735 CGACGACCGCACGAATACTT 60.796 55.000 6.49 0.00 37.03 2.24
2214 7371 0.255890 GTGTGTGCCCCATGTCCTAT 59.744 55.000 0.00 0.00 0.00 2.57
2226 7383 2.542907 CCCGTGAGTTGGTGTGTGC 61.543 63.158 0.00 0.00 0.00 4.57
2236 7393 1.837051 TGCCTTGAGTCCCGTGAGT 60.837 57.895 0.00 0.00 0.00 3.41
2254 7411 1.817087 AGAGCATGGGAGATGATGGT 58.183 50.000 0.00 0.00 33.06 3.55
2257 7414 4.130719 AGAGTAGAGCATGGGAGATGAT 57.869 45.455 0.00 0.00 0.00 2.45
2336 7493 4.530857 GGCCTCCGACCACGATGG 62.531 72.222 0.00 0.00 45.02 3.51
2338 7495 3.000819 TTGGCCTCCGACCACGAT 61.001 61.111 3.32 0.00 42.66 3.73
2352 7509 0.721154 CATCGTCGTGGACATGTTGG 59.279 55.000 0.00 0.00 32.09 3.77
2383 7546 1.800681 GATACAAGTGGCCGGCAAC 59.199 57.895 27.42 27.42 0.00 4.17
2395 7558 3.128764 CACACTCTCTAGCACCGATACAA 59.871 47.826 0.00 0.00 0.00 2.41
2416 7579 2.965783 GTCAGCGAGGCAGAGTCA 59.034 61.111 0.00 0.00 0.00 3.41
2422 7585 3.268965 GACAGACGTCAGCGAGGCA 62.269 63.158 19.50 0.00 42.13 4.75
2423 7586 2.505118 GACAGACGTCAGCGAGGC 60.505 66.667 19.50 0.00 42.13 4.70
2429 7592 2.807045 GGCTGCGACAGACGTCAG 60.807 66.667 19.50 12.96 42.74 3.51
2430 7593 3.268965 GAGGCTGCGACAGACGTCA 62.269 63.158 19.50 0.00 45.59 4.35
2431 7594 2.505118 GAGGCTGCGACAGACGTC 60.505 66.667 7.70 7.70 45.59 4.34
2432 7595 4.057428 GGAGGCTGCGACAGACGT 62.057 66.667 10.46 0.00 45.59 4.34
2433 7596 4.803426 GGGAGGCTGCGACAGACG 62.803 72.222 10.46 0.00 45.59 4.18
2434 7597 3.023949 ATGGGAGGCTGCGACAGAC 62.024 63.158 10.46 7.69 40.37 3.51
2435 7598 2.685017 ATGGGAGGCTGCGACAGA 60.685 61.111 10.46 0.00 32.44 3.41
2436 7599 2.513204 CATGGGAGGCTGCGACAG 60.513 66.667 0.00 2.92 34.12 3.51
2437 7600 3.002583 TCATGGGAGGCTGCGACA 61.003 61.111 0.00 0.00 0.00 4.35
2438 7601 2.512515 GTCATGGGAGGCTGCGAC 60.513 66.667 0.00 0.00 0.00 5.19
2439 7602 3.785859 GGTCATGGGAGGCTGCGA 61.786 66.667 0.00 0.00 0.00 5.10
2440 7603 3.746949 GAGGTCATGGGAGGCTGCG 62.747 68.421 0.00 0.00 0.00 5.18
2441 7604 2.191641 GAGGTCATGGGAGGCTGC 59.808 66.667 0.00 0.00 0.00 5.25
2442 7605 1.525923 CAGAGGTCATGGGAGGCTG 59.474 63.158 0.00 0.00 0.00 4.85
2443 7606 2.373707 GCAGAGGTCATGGGAGGCT 61.374 63.158 0.00 0.00 0.00 4.58
2444 7607 2.191641 GCAGAGGTCATGGGAGGC 59.808 66.667 0.00 0.00 0.00 4.70
2445 7608 1.692042 AGGCAGAGGTCATGGGAGG 60.692 63.158 0.00 0.00 0.00 4.30
2446 7609 1.828768 GAGGCAGAGGTCATGGGAG 59.171 63.158 0.00 0.00 0.00 4.30
2447 7610 2.060383 CGAGGCAGAGGTCATGGGA 61.060 63.158 0.00 0.00 0.00 4.37
2448 7611 2.503061 CGAGGCAGAGGTCATGGG 59.497 66.667 0.00 0.00 0.00 4.00
2449 7612 2.202987 GCGAGGCAGAGGTCATGG 60.203 66.667 0.00 0.00 0.00 3.66
2450 7613 0.390492 TATGCGAGGCAGAGGTCATG 59.610 55.000 0.00 0.00 43.65 3.07
2451 7614 1.123077 TTATGCGAGGCAGAGGTCAT 58.877 50.000 0.00 0.00 43.65 3.06
2452 7615 0.175760 GTTATGCGAGGCAGAGGTCA 59.824 55.000 0.00 0.00 43.65 4.02
2453 7616 0.872021 CGTTATGCGAGGCAGAGGTC 60.872 60.000 0.00 0.00 43.65 3.85
2454 7617 1.141881 CGTTATGCGAGGCAGAGGT 59.858 57.895 0.00 0.00 43.65 3.85
2455 7618 1.592669 CCGTTATGCGAGGCAGAGG 60.593 63.158 0.00 0.00 43.65 3.69
2456 7619 1.592669 CCCGTTATGCGAGGCAGAG 60.593 63.158 0.00 0.00 43.65 3.35
2457 7620 2.499205 CCCGTTATGCGAGGCAGA 59.501 61.111 0.00 0.00 43.65 4.26
2461 7624 3.261951 CGTGCCCGTTATGCGAGG 61.262 66.667 0.00 0.00 44.77 4.63
2462 7625 3.925238 GCGTGCCCGTTATGCGAG 61.925 66.667 0.00 0.00 44.77 5.03
2475 7638 4.969196 AGGATATGGCGCGGCGTG 62.969 66.667 34.58 17.40 0.00 5.34
2476 7639 2.765250 CTAAGGATATGGCGCGGCGT 62.765 60.000 30.71 30.71 0.00 5.68
2477 7640 2.048597 TAAGGATATGGCGCGGCG 60.049 61.111 28.22 19.62 0.00 6.46
2478 7641 2.391389 GCTAAGGATATGGCGCGGC 61.391 63.158 27.61 27.61 0.00 6.53
2479 7642 2.094659 CGCTAAGGATATGGCGCGG 61.095 63.158 8.83 0.00 41.08 6.46
2480 7643 2.094659 CCGCTAAGGATATGGCGCG 61.095 63.158 0.00 0.00 45.21 6.86
2481 7644 1.292223 TCCGCTAAGGATATGGCGC 59.708 57.895 0.00 0.00 45.98 6.53
2490 7653 2.125106 GTGGCCAGTCCGCTAAGG 60.125 66.667 5.11 0.00 42.12 2.69
2491 7654 2.509336 CGTGGCCAGTCCGCTAAG 60.509 66.667 5.11 0.00 43.21 2.18
2492 7655 4.077184 CCGTGGCCAGTCCGCTAA 62.077 66.667 5.11 0.00 43.21 3.09
2496 7659 4.760047 CCTTCCGTGGCCAGTCCG 62.760 72.222 5.11 6.44 37.80 4.79
2497 7660 3.607370 GACCTTCCGTGGCCAGTCC 62.607 68.421 5.11 0.00 0.00 3.85
2498 7661 2.047179 GACCTTCCGTGGCCAGTC 60.047 66.667 5.11 5.00 0.00 3.51
2499 7662 2.526873 AGACCTTCCGTGGCCAGT 60.527 61.111 5.11 0.00 0.00 4.00
2500 7663 2.266055 GAGACCTTCCGTGGCCAG 59.734 66.667 5.11 0.00 0.00 4.85
2501 7664 3.319198 GGAGACCTTCCGTGGCCA 61.319 66.667 0.00 0.00 35.91 5.36
2509 7672 2.490685 GCCGACGAGGAGACCTTC 59.509 66.667 0.00 0.00 45.00 3.46
2510 7673 3.441290 CGCCGACGAGGAGACCTT 61.441 66.667 0.00 0.00 43.02 3.50
2518 7681 3.902063 CATTGACGCGCCGACGAG 61.902 66.667 5.73 0.00 43.93 4.18
2519 7682 3.900393 TTCATTGACGCGCCGACGA 62.900 57.895 5.73 0.00 43.93 4.20
2520 7683 3.406060 CTTCATTGACGCGCCGACG 62.406 63.158 5.73 0.00 44.07 5.12
2521 7684 2.395690 CTTCATTGACGCGCCGAC 59.604 61.111 5.73 0.00 0.00 4.79
2522 7685 2.813474 CCTTCATTGACGCGCCGA 60.813 61.111 5.73 0.00 0.00 5.54
2523 7686 3.864686 CCCTTCATTGACGCGCCG 61.865 66.667 5.73 0.00 0.00 6.46
2524 7687 3.508840 CCCCTTCATTGACGCGCC 61.509 66.667 5.73 0.00 0.00 6.53
2525 7688 2.332654 AACCCCTTCATTGACGCGC 61.333 57.895 5.73 0.00 0.00 6.86
2526 7689 1.501741 CAACCCCTTCATTGACGCG 59.498 57.895 3.53 3.53 0.00 6.01
2527 7690 1.212751 GCAACCCCTTCATTGACGC 59.787 57.895 0.00 0.00 0.00 5.19
2528 7691 0.240945 GTGCAACCCCTTCATTGACG 59.759 55.000 0.00 0.00 0.00 4.35
2529 7692 1.270550 CAGTGCAACCCCTTCATTGAC 59.729 52.381 0.00 0.00 37.80 3.18
2530 7693 1.133513 ACAGTGCAACCCCTTCATTGA 60.134 47.619 0.00 0.00 37.80 2.57
2531 7694 1.331214 ACAGTGCAACCCCTTCATTG 58.669 50.000 0.00 0.00 37.80 2.82
2532 7695 2.969821 TACAGTGCAACCCCTTCATT 57.030 45.000 0.00 0.00 37.80 2.57
2533 7696 2.621407 CCATACAGTGCAACCCCTTCAT 60.621 50.000 0.00 0.00 37.80 2.57
2534 7697 1.271871 CCATACAGTGCAACCCCTTCA 60.272 52.381 0.00 0.00 37.80 3.02
2535 7698 1.463674 CCATACAGTGCAACCCCTTC 58.536 55.000 0.00 0.00 37.80 3.46
2536 7699 0.611896 GCCATACAGTGCAACCCCTT 60.612 55.000 0.00 0.00 37.80 3.95
2537 7700 1.000896 GCCATACAGTGCAACCCCT 60.001 57.895 0.00 0.00 37.80 4.79
2538 7701 2.406616 CGCCATACAGTGCAACCCC 61.407 63.158 0.00 0.00 37.80 4.95
2539 7702 1.241315 AACGCCATACAGTGCAACCC 61.241 55.000 0.00 0.00 37.80 4.11
2540 7703 0.168128 GAACGCCATACAGTGCAACC 59.832 55.000 0.00 0.00 37.80 3.77
2541 7704 0.179225 CGAACGCCATACAGTGCAAC 60.179 55.000 0.00 0.00 0.00 4.17
2542 7705 1.295357 CCGAACGCCATACAGTGCAA 61.295 55.000 0.00 0.00 0.00 4.08
2543 7706 1.739929 CCGAACGCCATACAGTGCA 60.740 57.895 0.00 0.00 0.00 4.57
2544 7707 1.017177 TTCCGAACGCCATACAGTGC 61.017 55.000 0.00 0.00 0.00 4.40
2545 7708 0.999406 CTTCCGAACGCCATACAGTG 59.001 55.000 0.00 0.00 0.00 3.66
2546 7709 0.739813 GCTTCCGAACGCCATACAGT 60.740 55.000 0.00 0.00 0.00 3.55
2547 7710 1.429148 GGCTTCCGAACGCCATACAG 61.429 60.000 13.60 0.00 45.59 2.74
2548 7711 1.448893 GGCTTCCGAACGCCATACA 60.449 57.895 13.60 0.00 45.59 2.29
2549 7712 3.406559 GGCTTCCGAACGCCATAC 58.593 61.111 13.60 0.00 45.59 2.39
2565 7728 3.947132 CTCACAGGAGGCAGTGCGG 62.947 68.421 9.45 0.00 37.51 5.69
2566 7729 2.433838 CTCACAGGAGGCAGTGCG 60.434 66.667 9.45 0.00 37.51 5.34
2578 7741 2.125952 CGTCATCGCTGCCTCACA 60.126 61.111 0.00 0.00 0.00 3.58
2596 7759 3.309436 TTGGATCCGGTGCGAGGTG 62.309 63.158 7.39 0.00 0.00 4.00
2597 7760 3.000819 TTGGATCCGGTGCGAGGT 61.001 61.111 7.39 0.00 0.00 3.85
2598 7761 2.202932 CTTGGATCCGGTGCGAGG 60.203 66.667 7.39 0.00 0.00 4.63
2599 7762 2.892425 GCTTGGATCCGGTGCGAG 60.892 66.667 7.39 4.90 33.03 5.03
2603 7766 4.776322 TGGCGCTTGGATCCGGTG 62.776 66.667 7.64 10.24 0.00 4.94
2604 7767 2.837031 AAATGGCGCTTGGATCCGGT 62.837 55.000 7.64 0.00 0.00 5.28
2605 7768 2.120909 AAATGGCGCTTGGATCCGG 61.121 57.895 7.64 0.00 0.00 5.14
2606 7769 1.064621 CAAATGGCGCTTGGATCCG 59.935 57.895 7.64 0.00 0.00 4.18
2607 7770 1.438814 CCAAATGGCGCTTGGATCC 59.561 57.895 19.30 4.20 45.31 3.36
2608 7771 1.438814 CCCAAATGGCGCTTGGATC 59.561 57.895 24.16 0.21 45.31 3.36
2609 7772 3.619938 CCCAAATGGCGCTTGGAT 58.380 55.556 24.16 2.59 45.31 3.41
2618 7781 1.949525 CCATAGAGTTCGCCCAAATGG 59.050 52.381 0.00 0.00 37.09 3.16
2619 7782 2.917933 TCCATAGAGTTCGCCCAAATG 58.082 47.619 0.00 0.00 0.00 2.32
2620 7783 3.496870 GGATCCATAGAGTTCGCCCAAAT 60.497 47.826 6.95 0.00 0.00 2.32
2621 7784 2.158813 GGATCCATAGAGTTCGCCCAAA 60.159 50.000 6.95 0.00 0.00 3.28
2622 7785 1.416401 GGATCCATAGAGTTCGCCCAA 59.584 52.381 6.95 0.00 0.00 4.12
2623 7786 1.048601 GGATCCATAGAGTTCGCCCA 58.951 55.000 6.95 0.00 0.00 5.36
2624 7787 0.321996 GGGATCCATAGAGTTCGCCC 59.678 60.000 15.23 0.00 0.00 6.13
2625 7788 0.321996 GGGGATCCATAGAGTTCGCC 59.678 60.000 15.23 0.00 34.59 5.54
2626 7789 0.038159 CGGGGATCCATAGAGTTCGC 60.038 60.000 15.23 0.00 0.00 4.70
2627 7790 0.038159 GCGGGGATCCATAGAGTTCG 60.038 60.000 15.23 5.06 0.00 3.95
2628 7791 1.001406 CAGCGGGGATCCATAGAGTTC 59.999 57.143 15.23 0.00 0.00 3.01
2629 7792 1.051812 CAGCGGGGATCCATAGAGTT 58.948 55.000 15.23 0.00 0.00 3.01
2630 7793 0.833834 CCAGCGGGGATCCATAGAGT 60.834 60.000 15.23 0.00 40.01 3.24
2631 7794 0.542938 TCCAGCGGGGATCCATAGAG 60.543 60.000 15.23 0.00 42.15 2.43
2632 7795 1.546738 TCCAGCGGGGATCCATAGA 59.453 57.895 15.23 0.00 42.15 1.98
2633 7796 4.215370 TCCAGCGGGGATCCATAG 57.785 61.111 15.23 5.00 42.15 2.23
2649 7812 1.336517 TGACAACGGTTGGACTCGATC 60.337 52.381 23.51 11.23 34.12 3.69
2650 7813 0.677288 TGACAACGGTTGGACTCGAT 59.323 50.000 23.51 1.80 34.12 3.59
2651 7814 0.249155 GTGACAACGGTTGGACTCGA 60.249 55.000 23.51 2.86 34.12 4.04
2652 7815 1.545614 CGTGACAACGGTTGGACTCG 61.546 60.000 23.51 21.60 46.25 4.18
2653 7816 2.222592 CGTGACAACGGTTGGACTC 58.777 57.895 23.51 13.18 46.25 3.36
2654 7817 4.431035 CGTGACAACGGTTGGACT 57.569 55.556 23.51 4.03 46.25 3.85


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

AutoCloner maintained by Alex Coulton.