Multiple sequence alignment - TraesCS2A01G040800

Loading Multiple Alignment...

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 TraesCS2A01G040800 chr2A 100.000 3458 0 0 1 3458 16631518 16628061 0.000000e+00 6386.0
1 TraesCS2A01G040800 chr2A 92.472 1408 80 13 1519 2903 16617150 16615746 0.000000e+00 1989.0
2 TraesCS2A01G040800 chr2A 87.891 958 65 12 3 934 16618617 16617685 0.000000e+00 1079.0
3 TraesCS2A01G040800 chr2A 96.192 499 19 0 930 1428 16617640 16617142 0.000000e+00 817.0
4 TraesCS2A01G040800 chr2A 82.152 409 70 1 1020 1428 733656389 733656794 7.100000e-92 348.0
5 TraesCS2A01G040800 chr2A 82.707 399 52 9 2011 2401 733657771 733658160 4.270000e-89 339.0
6 TraesCS2A01G040800 chr2A 78.862 492 71 19 1531 2022 733657253 733657711 5.610000e-78 302.0
7 TraesCS2A01G040800 chr2A 88.679 212 19 2 2890 3101 16615631 16615425 1.590000e-63 254.0
8 TraesCS2A01G040800 chr2A 94.048 84 5 0 3375 3458 16614419 16614336 1.010000e-25 128.0
9 TraesCS2A01G040800 chr2A 96.552 58 2 0 3097 3154 16614525 16614468 2.840000e-16 97.1
10 TraesCS2A01G040800 chr2D 91.395 1290 73 12 1519 2787 14373766 14375038 0.000000e+00 1733.0
11 TraesCS2A01G040800 chr2D 96.192 499 19 0 930 1428 14373276 14373774 0.000000e+00 817.0
12 TraesCS2A01G040800 chr2D 82.039 618 73 21 352 934 14372617 14373231 3.100000e-135 492.0
13 TraesCS2A01G040800 chr2D 86.513 304 28 6 13 313 14372329 14372622 4.310000e-84 322.0
14 TraesCS2A01G040800 chr2D 94.595 148 8 0 2932 3079 14377047 14377194 2.680000e-56 230.0
15 TraesCS2A01G040800 chr6D 81.532 888 120 23 1522 2405 344058521 344057674 0.000000e+00 691.0
16 TraesCS2A01G040800 chr6D 83.416 404 59 6 1027 1429 344058911 344058515 5.450000e-98 368.0
17 TraesCS2A01G040800 chr6D 94.215 121 7 0 3202 3322 54546791 54546911 5.890000e-43 185.0
18 TraesCS2A01G040800 chr6A 81.060 887 124 24 1523 2405 484409595 484408749 0.000000e+00 667.0
19 TraesCS2A01G040800 chr6A 83.250 400 59 5 1031 1429 484409982 484409590 9.120000e-96 361.0
20 TraesCS2A01G040800 chr6A 93.443 122 7 1 3202 3322 593382072 593382193 2.740000e-41 180.0
21 TraesCS2A01G040800 chr6B 82.403 591 89 9 1818 2405 519323872 519323294 5.150000e-138 501.0
22 TraesCS2A01G040800 chr7B 89.157 166 12 6 3202 3367 233028685 233028844 5.850000e-48 202.0
23 TraesCS2A01G040800 chr5A 96.694 121 4 0 3202 3322 667035088 667034968 5.850000e-48 202.0
24 TraesCS2A01G040800 chr5A 77.885 104 21 2 1209 1311 438787090 438787192 2.880000e-06 63.9
25 TraesCS2A01G040800 chr7D 95.868 121 5 0 3202 3322 480813115 480813235 2.720000e-46 196.0
26 TraesCS2A01G040800 chr5D 95.082 122 5 1 3202 3322 99380978 99381099 1.270000e-44 191.0
27 TraesCS2A01G040800 chr5D 85.526 152 16 6 3198 3346 3896697 3896549 1.660000e-33 154.0
28 TraesCS2A01G040800 chr3B 76.471 374 72 11 1027 1397 732110647 732111007 4.560000e-44 189.0
29 TraesCS2A01G040800 chr3B 94.828 116 6 0 3205 3320 92342184 92342069 7.620000e-42 182.0
30 TraesCS2A01G040800 chr1A 93.388 121 8 0 3202 3322 560851999 560851879 2.740000e-41 180.0
31 TraesCS2A01G040800 chr1A 88.333 60 6 1 2721 2779 403146909 403146850 1.720000e-08 71.3
32 TraesCS2A01G040800 chr2B 81.308 107 13 3 2675 2778 6259391 6259493 2.860000e-11 80.5
33 TraesCS2A01G040800 chr5B 79.808 104 19 2 1209 1311 396160580 396160682 1.330000e-09 75.0
34 TraesCS2A01G040800 chr5B 100.000 32 0 0 2742 2773 546544408 546544439 3.730000e-05 60.2
35 TraesCS2A01G040800 chr5B 94.595 37 1 1 2741 2776 588830377 588830413 4.820000e-04 56.5
36 TraesCS2A01G040800 chr3A 94.595 37 1 1 2741 2776 394454915 394454951 4.820000e-04 56.5
37 TraesCS2A01G040800 chr1D 94.286 35 2 0 2737 2771 270278711 270278677 2.000000e-03 54.7


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 TraesCS2A01G040800 chr2A 16628061 16631518 3457 True 6386.000000 6386 100.000000 1 3458 1 chr2A.!!$R1 3457
1 TraesCS2A01G040800 chr2A 16614336 16618617 4281 True 727.350000 1989 92.639000 3 3458 6 chr2A.!!$R2 3455
2 TraesCS2A01G040800 chr2A 733656389 733658160 1771 False 329.666667 348 81.240333 1020 2401 3 chr2A.!!$F1 1381
3 TraesCS2A01G040800 chr2D 14372329 14377194 4865 False 718.800000 1733 90.146800 13 3079 5 chr2D.!!$F1 3066
4 TraesCS2A01G040800 chr6D 344057674 344058911 1237 True 529.500000 691 82.474000 1027 2405 2 chr6D.!!$R1 1378
5 TraesCS2A01G040800 chr6A 484408749 484409982 1233 True 514.000000 667 82.155000 1031 2405 2 chr6A.!!$R1 1374
6 TraesCS2A01G040800 chr6B 519323294 519323872 578 True 501.000000 501 82.403000 1818 2405 1 chr6B.!!$R1 587

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
323 326 0.320771 CTCGGCCCCTAAATCGATGG 60.321 60.0 0.0 0.0 0.0 3.51 F
403 406 0.924226 TTCCCCTCCCCATTTCCCTC 60.924 60.0 0.0 0.0 0.0 4.30 F
1450 1554 0.034670 GGTCCTCCTTGCTGCTTCAT 60.035 55.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1431 1535 0.034670 ATGAAGCAGCAAGGAGGACC 60.035 55.0 0.00 0.0 0.00 4.46 R
1519 1863 0.321122 CTGAGGAAGGTCACCTGCAC 60.321 60.0 3.46 0.0 37.93 4.57 R
3275 6744 0.250295 TGCGAAGTAGCAGCTTGGTT 60.250 50.0 0.00 0.0 42.92 3.67 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
37 38 4.657814 ATTTGGTCTTTCCTAGCTCCAA 57.342 40.909 0.00 0.00 36.51 3.53
49 50 3.633986 CCTAGCTCCAAAATGATTGGGAC 59.366 47.826 7.33 0.79 33.43 4.46
204 207 5.076182 TGTTTCCTTATGGCATCTTCAACA 58.924 37.500 1.65 5.71 0.00 3.33
242 245 5.362263 GCCCTTATATGTTCGGACACTTTA 58.638 41.667 0.00 0.00 38.91 1.85
256 259 5.394883 CGGACACTTTAAGGCCTCTAATACA 60.395 44.000 5.23 0.00 0.00 2.29
271 274 7.873505 GCCTCTAATACAATTCCTCGTTTATCT 59.126 37.037 0.00 0.00 0.00 1.98
282 285 4.521639 TCCTCGTTTATCTGCATACCGTAT 59.478 41.667 0.00 0.00 0.00 3.06
307 310 2.890474 CCGAAATCCCCGCACTCG 60.890 66.667 0.00 0.00 0.00 4.18
323 326 0.320771 CTCGGCCCCTAAATCGATGG 60.321 60.000 0.00 0.00 0.00 3.51
403 406 0.924226 TTCCCCTCCCCATTTCCCTC 60.924 60.000 0.00 0.00 0.00 4.30
409 412 1.622442 CCCCATTTCCCTCCTCCCA 60.622 63.158 0.00 0.00 0.00 4.37
464 469 1.204113 CCTCCAAGCTTCACCCCTCT 61.204 60.000 0.00 0.00 0.00 3.69
530 539 2.427245 ATGCGTAGGCCGAGCTCTT 61.427 57.895 12.85 0.00 39.56 2.85
605 616 2.262915 CTGACCTGACGGCACCTC 59.737 66.667 0.00 0.00 0.00 3.85
636 649 2.687370 CTATGTAGGCATGTGCGCATA 58.313 47.619 15.91 12.79 43.26 3.14
760 773 4.339247 GGATGGACACATAGGGAACATTTG 59.661 45.833 0.00 0.00 37.47 2.32
789 814 1.268896 TGTTCTCGGTTGACTGTCGAC 60.269 52.381 18.03 18.03 0.00 4.20
851 876 6.763715 AATACATTGGGAGGTGCTCTTATA 57.236 37.500 0.00 0.00 0.00 0.98
852 877 6.959606 ATACATTGGGAGGTGCTCTTATAT 57.040 37.500 0.00 0.00 0.00 0.86
853 878 4.978099 ACATTGGGAGGTGCTCTTATATG 58.022 43.478 0.00 0.00 0.00 1.78
854 879 4.660303 ACATTGGGAGGTGCTCTTATATGA 59.340 41.667 0.00 0.00 0.00 2.15
855 880 5.132648 ACATTGGGAGGTGCTCTTATATGAA 59.867 40.000 0.00 0.00 0.00 2.57
876 923 2.836981 ACATGTGAGGAAGAAGGGAGAG 59.163 50.000 0.00 0.00 0.00 3.20
934 986 4.021719 CAGGTGGAAAGAGATGCATGTTTT 60.022 41.667 2.46 0.00 0.00 2.43
1025 1126 4.074526 GGGCAGCTCAGTGCGAGA 62.075 66.667 0.00 0.00 45.45 4.04
1041 1142 1.611851 AGAGGTGGAGTCCTGCCTG 60.612 63.158 24.34 0.00 38.02 4.85
1052 1153 2.186903 CTGCCTGGTAACGCCGAT 59.813 61.111 0.00 0.00 41.21 4.18
1188 1292 1.788886 GCCGACGACTTCTTTAACGTT 59.211 47.619 5.88 5.88 39.04 3.99
1265 1369 4.838486 CCTCGGCGTCGACTCTGC 62.838 72.222 8.66 9.69 40.88 4.26
1429 1533 2.112815 GTATTGGCCGTGCAGGTCC 61.113 63.158 5.57 2.01 46.38 4.46
1430 1534 3.673956 TATTGGCCGTGCAGGTCCG 62.674 63.158 5.57 0.00 46.38 4.79
1437 1541 4.083862 GTGCAGGTCCGGGTCCTC 62.084 72.222 10.06 6.38 32.37 3.71
1442 1546 4.097361 GGTCCGGGTCCTCCTTGC 62.097 72.222 0.00 0.00 0.00 4.01
1445 1549 4.785453 CCGGGTCCTCCTTGCTGC 62.785 72.222 0.00 0.00 0.00 5.25
1447 1551 2.759795 GGGTCCTCCTTGCTGCTT 59.240 61.111 0.00 0.00 0.00 3.91
1449 1553 1.376466 GGTCCTCCTTGCTGCTTCA 59.624 57.895 0.00 0.00 0.00 3.02
1450 1554 0.034670 GGTCCTCCTTGCTGCTTCAT 60.035 55.000 0.00 0.00 0.00 2.57
1453 1557 1.101331 CCTCCTTGCTGCTTCATTCC 58.899 55.000 0.00 0.00 0.00 3.01
1455 1559 2.376109 CTCCTTGCTGCTTCATTCCAT 58.624 47.619 0.00 0.00 0.00 3.41
1456 1560 2.758979 CTCCTTGCTGCTTCATTCCATT 59.241 45.455 0.00 0.00 0.00 3.16
1457 1561 3.167485 TCCTTGCTGCTTCATTCCATTT 58.833 40.909 0.00 0.00 0.00 2.32
1460 1564 4.421948 CTTGCTGCTTCATTCCATTTCTC 58.578 43.478 0.00 0.00 0.00 2.87
1463 1567 2.421073 CTGCTTCATTCCATTTCTCGCA 59.579 45.455 0.00 0.00 0.00 5.10
1464 1568 2.819019 TGCTTCATTCCATTTCTCGCAA 59.181 40.909 0.00 0.00 0.00 4.85
1465 1569 3.255395 TGCTTCATTCCATTTCTCGCAAA 59.745 39.130 0.00 0.00 0.00 3.68
1466 1570 4.236935 GCTTCATTCCATTTCTCGCAAAA 58.763 39.130 0.00 0.00 0.00 2.44
1467 1571 4.685628 GCTTCATTCCATTTCTCGCAAAAA 59.314 37.500 0.00 0.00 0.00 1.94
1468 1572 5.349543 GCTTCATTCCATTTCTCGCAAAAAT 59.650 36.000 0.00 0.00 0.00 1.82
1469 1573 6.128472 GCTTCATTCCATTTCTCGCAAAAATT 60.128 34.615 0.00 0.00 0.00 1.82
1470 1574 7.063308 GCTTCATTCCATTTCTCGCAAAAATTA 59.937 33.333 0.00 0.00 0.00 1.40
1473 1577 7.869937 TCATTCCATTTCTCGCAAAAATTAACA 59.130 29.630 0.00 0.00 0.00 2.41
1475 1579 8.600449 TTCCATTTCTCGCAAAAATTAACATT 57.400 26.923 0.00 0.00 0.00 2.71
1476 1580 8.238481 TCCATTTCTCGCAAAAATTAACATTC 57.762 30.769 0.00 0.00 0.00 2.67
1477 1581 7.061673 TCCATTTCTCGCAAAAATTAACATTCG 59.938 33.333 0.00 0.00 0.00 3.34
1478 1582 7.148820 CCATTTCTCGCAAAAATTAACATTCGT 60.149 33.333 0.00 0.00 0.00 3.85
1479 1583 6.667981 TTCTCGCAAAAATTAACATTCGTG 57.332 33.333 0.00 0.00 0.00 4.35
1480 1584 4.615121 TCTCGCAAAAATTAACATTCGTGC 59.385 37.500 0.00 0.00 32.41 5.34
1482 1586 3.479548 CGCAAAAATTAACATTCGTGCGG 60.480 43.478 17.38 7.06 44.32 5.69
1484 1588 4.662891 GCAAAAATTAACATTCGTGCGGTG 60.663 41.667 0.00 0.00 0.00 4.94
1486 1590 5.359716 AAAATTAACATTCGTGCGGTGTA 57.640 34.783 4.58 0.00 0.00 2.90
1487 1591 4.330740 AATTAACATTCGTGCGGTGTAC 57.669 40.909 4.58 0.00 0.00 2.90
1489 1593 0.598158 AACATTCGTGCGGTGTACGT 60.598 50.000 7.27 0.00 46.52 3.57
1490 1594 0.240678 ACATTCGTGCGGTGTACGTA 59.759 50.000 7.27 0.00 46.52 3.57
1491 1595 1.335780 ACATTCGTGCGGTGTACGTAA 60.336 47.619 0.00 2.07 46.52 3.18
1493 1597 3.055045 CGTGCGGTGTACGTAACG 58.945 61.111 0.00 3.95 46.52 3.18
1503 1847 2.756025 TACGTAACGTACCGGGGCG 61.756 63.158 16.52 16.52 41.54 6.13
1506 1850 3.757828 TAACGTACCGGGGCGTGG 61.758 66.667 22.66 1.47 41.42 4.94
1727 2191 2.021068 ATCCACGCTGAGACCATCCG 62.021 60.000 0.00 0.00 0.00 4.18
2341 2894 4.338710 TGTACCTGTTGGCCGCCC 62.339 66.667 7.03 0.00 36.63 6.13
2406 2959 1.233019 CTCACCACAAGTTCCAGCAG 58.767 55.000 0.00 0.00 0.00 4.24
2438 2994 2.591923 TGTATGCCAACTTCTTGCCAA 58.408 42.857 0.00 0.00 0.00 4.52
2459 3015 1.684450 TGAACGTCCTAAGCTGTGACA 59.316 47.619 10.15 0.00 0.00 3.58
2472 3034 3.999001 AGCTGTGACAATATATGCATCCG 59.001 43.478 0.19 0.00 0.00 4.18
2500 3062 6.583912 ATGTGTGGATTAATTTCGTAGACG 57.416 37.500 0.00 0.00 34.32 4.18
2541 3110 1.256117 CAGCTTGCTTTTGTGCGTTTC 59.744 47.619 0.00 0.00 35.36 2.78
2609 3178 8.594881 ACTGAGATTTGGATGTTATATTCGTC 57.405 34.615 0.00 0.00 0.00 4.20
2628 3199 3.146066 GTCAGATGCTACCTCGAGATCT 58.854 50.000 15.71 10.83 0.00 2.75
2634 3205 1.339610 GCTACCTCGAGATCTGTGCAT 59.660 52.381 15.71 0.00 0.00 3.96
2664 3235 8.214721 TCTCTTTGAACTTTTTCCTTTCTCTC 57.785 34.615 0.00 0.00 0.00 3.20
2670 3241 6.598064 TGAACTTTTTCCTTTCTCTCTTCGTT 59.402 34.615 0.00 0.00 0.00 3.85
2691 3264 5.740569 CGTTCGAAATTACTTGTCGGAGATA 59.259 40.000 0.00 0.00 40.67 1.98
2705 3278 8.879427 TTGTCGGAGATAGATAGAAATGGATA 57.121 34.615 0.00 0.00 40.67 2.59
2799 3375 5.986135 ACTTGTTATGTCACTTGACTGAGAC 59.014 40.000 10.63 5.26 44.99 3.36
2800 3376 5.791336 TGTTATGTCACTTGACTGAGACT 57.209 39.130 10.63 0.00 44.99 3.24
2802 3378 6.582636 TGTTATGTCACTTGACTGAGACTTT 58.417 36.000 10.63 0.00 44.99 2.66
2803 3379 6.701841 TGTTATGTCACTTGACTGAGACTTTC 59.298 38.462 10.63 0.00 44.99 2.62
2804 3380 5.543507 ATGTCACTTGACTGAGACTTTCT 57.456 39.130 10.63 0.00 44.99 2.52
2805 3381 5.344743 TGTCACTTGACTGAGACTTTCTT 57.655 39.130 10.63 0.00 44.99 2.52
2806 3382 5.734720 TGTCACTTGACTGAGACTTTCTTT 58.265 37.500 10.63 0.00 44.99 2.52
2807 3383 6.173339 TGTCACTTGACTGAGACTTTCTTTT 58.827 36.000 10.63 0.00 44.99 2.27
2809 3385 7.492669 TGTCACTTGACTGAGACTTTCTTTTAG 59.507 37.037 10.63 0.00 44.99 1.85
2841 5239 3.378512 TGAGACCTGATCATAGGCAGTT 58.621 45.455 0.00 0.00 41.75 3.16
2886 5285 5.743422 GCCTGGTTTGGGCTTTGTTTTATAA 60.743 40.000 0.00 0.00 45.57 0.98
2920 5446 7.618512 GGATATATAGGCTAGGTTTGGACTACA 59.381 40.741 0.00 0.00 26.81 2.74
2925 5451 5.641155 AGGCTAGGTTTGGACTACATTTTT 58.359 37.500 0.00 0.00 0.00 1.94
2951 5516 2.516225 GGGCCGGGCTTACACATC 60.516 66.667 28.80 4.21 0.00 3.06
3064 5629 0.033109 GGGCTCTGGCTTGGGTTTAT 60.033 55.000 0.00 0.00 38.73 1.40
3134 6603 1.347062 TTTGGGTCCCTGCAAATTCC 58.653 50.000 10.00 0.00 0.00 3.01
3138 6607 2.362375 TCCCTGCAAATTCCGGCC 60.362 61.111 0.00 0.00 0.00 6.13
3194 6663 4.018609 CTGCTCGCCAGGTATTCG 57.981 61.111 0.00 0.00 37.93 3.34
3195 6664 1.141881 CTGCTCGCCAGGTATTCGT 59.858 57.895 0.00 0.00 37.93 3.85
3196 6665 0.384309 CTGCTCGCCAGGTATTCGTA 59.616 55.000 0.00 0.00 37.93 3.43
3197 6666 1.000163 CTGCTCGCCAGGTATTCGTAT 60.000 52.381 0.00 0.00 37.93 3.06
3198 6667 1.411246 TGCTCGCCAGGTATTCGTATT 59.589 47.619 0.00 0.00 0.00 1.89
3199 6668 2.624364 TGCTCGCCAGGTATTCGTATTA 59.376 45.455 0.00 0.00 0.00 0.98
3200 6669 3.243336 GCTCGCCAGGTATTCGTATTAG 58.757 50.000 0.00 0.00 0.00 1.73
3201 6670 3.057736 GCTCGCCAGGTATTCGTATTAGA 60.058 47.826 0.00 0.00 0.00 2.10
3202 6671 4.558095 GCTCGCCAGGTATTCGTATTAGAA 60.558 45.833 0.00 0.00 34.31 2.10
3203 6672 5.710984 CTCGCCAGGTATTCGTATTAGAAT 58.289 41.667 0.00 0.00 42.77 2.40
3204 6673 6.092955 TCGCCAGGTATTCGTATTAGAATT 57.907 37.500 0.00 0.00 40.83 2.17
3205 6674 6.518493 TCGCCAGGTATTCGTATTAGAATTT 58.482 36.000 0.00 0.00 40.83 1.82
3206 6675 6.987992 TCGCCAGGTATTCGTATTAGAATTTT 59.012 34.615 0.00 0.00 40.83 1.82
3207 6676 7.170320 TCGCCAGGTATTCGTATTAGAATTTTC 59.830 37.037 0.00 0.00 40.83 2.29
3208 6677 7.170998 CGCCAGGTATTCGTATTAGAATTTTCT 59.829 37.037 0.00 0.00 40.83 2.52
3209 6678 9.485206 GCCAGGTATTCGTATTAGAATTTTCTA 57.515 33.333 0.00 0.00 40.83 2.10
3225 6694 8.936864 AGAATTTTCTAGTTCGTTAGATGTTGG 58.063 33.333 0.00 0.00 35.34 3.77
3226 6695 8.617290 AATTTTCTAGTTCGTTAGATGTTGGT 57.383 30.769 0.00 0.00 30.20 3.67
3227 6696 7.647907 TTTTCTAGTTCGTTAGATGTTGGTC 57.352 36.000 0.00 0.00 30.20 4.02
3228 6697 4.978186 TCTAGTTCGTTAGATGTTGGTCG 58.022 43.478 0.00 0.00 0.00 4.79
3229 6698 2.334838 AGTTCGTTAGATGTTGGTCGC 58.665 47.619 0.00 0.00 0.00 5.19
3230 6699 1.392510 GTTCGTTAGATGTTGGTCGCC 59.607 52.381 0.00 0.00 0.00 5.54
3231 6700 0.604073 TCGTTAGATGTTGGTCGCCA 59.396 50.000 0.00 0.00 0.00 5.69
3232 6701 1.206132 TCGTTAGATGTTGGTCGCCAT 59.794 47.619 0.00 0.00 31.53 4.40
3233 6702 2.006888 CGTTAGATGTTGGTCGCCATT 58.993 47.619 0.00 0.00 31.53 3.16
3234 6703 2.418628 CGTTAGATGTTGGTCGCCATTT 59.581 45.455 0.00 0.00 31.53 2.32
3235 6704 3.727673 CGTTAGATGTTGGTCGCCATTTG 60.728 47.826 0.00 0.00 31.53 2.32
3236 6705 1.909700 AGATGTTGGTCGCCATTTGT 58.090 45.000 0.00 0.00 31.53 2.83
3237 6706 1.541147 AGATGTTGGTCGCCATTTGTG 59.459 47.619 0.00 0.00 31.53 3.33
3238 6707 0.602562 ATGTTGGTCGCCATTTGTGG 59.397 50.000 0.00 0.00 31.53 4.17
3248 6717 2.741759 CCATTTGTGGCTGGGTTTAC 57.258 50.000 0.00 0.00 0.00 2.01
3249 6718 1.275010 CCATTTGTGGCTGGGTTTACC 59.725 52.381 0.00 0.00 40.81 2.85
3261 6730 2.597578 GGTTTACCCCATGACCAGTT 57.402 50.000 0.00 0.00 32.41 3.16
3262 6731 2.884320 GGTTTACCCCATGACCAGTTT 58.116 47.619 0.00 0.00 32.41 2.66
3263 6732 2.560981 GGTTTACCCCATGACCAGTTTG 59.439 50.000 0.00 0.00 32.41 2.93
3264 6733 3.227614 GTTTACCCCATGACCAGTTTGT 58.772 45.455 0.00 0.00 0.00 2.83
3265 6734 3.603965 TTACCCCATGACCAGTTTGTT 57.396 42.857 0.00 0.00 0.00 2.83
3266 6735 4.726035 TTACCCCATGACCAGTTTGTTA 57.274 40.909 0.00 0.00 0.00 2.41
3267 6736 3.825908 ACCCCATGACCAGTTTGTTAT 57.174 42.857 0.00 0.00 0.00 1.89
3268 6737 4.126520 ACCCCATGACCAGTTTGTTATT 57.873 40.909 0.00 0.00 0.00 1.40
3269 6738 4.086457 ACCCCATGACCAGTTTGTTATTC 58.914 43.478 0.00 0.00 0.00 1.75
3270 6739 3.447229 CCCCATGACCAGTTTGTTATTCC 59.553 47.826 0.00 0.00 0.00 3.01
3271 6740 4.344104 CCCATGACCAGTTTGTTATTCCT 58.656 43.478 0.00 0.00 0.00 3.36
3272 6741 4.158394 CCCATGACCAGTTTGTTATTCCTG 59.842 45.833 0.00 0.00 0.00 3.86
3273 6742 4.766891 CCATGACCAGTTTGTTATTCCTGT 59.233 41.667 0.00 0.00 0.00 4.00
3274 6743 5.943416 CCATGACCAGTTTGTTATTCCTGTA 59.057 40.000 0.00 0.00 0.00 2.74
3275 6744 6.432783 CCATGACCAGTTTGTTATTCCTGTAA 59.567 38.462 0.00 0.00 0.00 2.41
3276 6745 7.040062 CCATGACCAGTTTGTTATTCCTGTAAA 60.040 37.037 0.00 0.00 0.00 2.01
3277 6746 7.266922 TGACCAGTTTGTTATTCCTGTAAAC 57.733 36.000 0.00 0.00 0.00 2.01
3278 6747 6.263617 TGACCAGTTTGTTATTCCTGTAAACC 59.736 38.462 0.00 0.00 33.05 3.27
3279 6748 6.130569 ACCAGTTTGTTATTCCTGTAAACCA 58.869 36.000 0.00 0.00 33.05 3.67
3280 6749 6.608002 ACCAGTTTGTTATTCCTGTAAACCAA 59.392 34.615 0.00 0.00 33.05 3.67
3281 6750 7.145323 CCAGTTTGTTATTCCTGTAAACCAAG 58.855 38.462 0.00 0.00 33.05 3.61
3282 6751 6.640907 CAGTTTGTTATTCCTGTAAACCAAGC 59.359 38.462 0.00 0.00 33.05 4.01
3283 6752 6.549736 AGTTTGTTATTCCTGTAAACCAAGCT 59.450 34.615 0.00 0.00 33.05 3.74
3284 6753 5.957842 TGTTATTCCTGTAAACCAAGCTG 57.042 39.130 0.00 0.00 0.00 4.24
3285 6754 4.217550 TGTTATTCCTGTAAACCAAGCTGC 59.782 41.667 0.00 0.00 0.00 5.25
3286 6755 2.656947 TTCCTGTAAACCAAGCTGCT 57.343 45.000 0.00 0.00 0.00 4.24
3287 6756 3.780804 TTCCTGTAAACCAAGCTGCTA 57.219 42.857 0.90 0.00 0.00 3.49
3288 6757 3.053831 TCCTGTAAACCAAGCTGCTAC 57.946 47.619 0.90 0.00 0.00 3.58
3289 6758 2.637872 TCCTGTAAACCAAGCTGCTACT 59.362 45.455 0.90 0.00 0.00 2.57
3290 6759 3.072476 TCCTGTAAACCAAGCTGCTACTT 59.928 43.478 0.90 0.00 0.00 2.24
3291 6760 3.437049 CCTGTAAACCAAGCTGCTACTTC 59.563 47.826 0.90 0.00 0.00 3.01
3292 6761 3.064207 TGTAAACCAAGCTGCTACTTCG 58.936 45.455 0.90 0.00 0.00 3.79
3293 6762 0.875059 AAACCAAGCTGCTACTTCGC 59.125 50.000 0.90 0.00 0.00 4.70
3294 6763 0.250295 AACCAAGCTGCTACTTCGCA 60.250 50.000 0.90 0.00 38.40 5.10
3295 6764 0.250295 ACCAAGCTGCTACTTCGCAA 60.250 50.000 0.90 0.00 39.80 4.85
3296 6765 1.089920 CCAAGCTGCTACTTCGCAAT 58.910 50.000 0.90 0.00 39.80 3.56
3297 6766 2.279741 CCAAGCTGCTACTTCGCAATA 58.720 47.619 0.90 0.00 39.80 1.90
3298 6767 2.677836 CCAAGCTGCTACTTCGCAATAA 59.322 45.455 0.90 0.00 39.80 1.40
3299 6768 3.126858 CCAAGCTGCTACTTCGCAATAAA 59.873 43.478 0.90 0.00 39.80 1.40
3300 6769 4.337763 CAAGCTGCTACTTCGCAATAAAG 58.662 43.478 0.90 0.00 39.80 1.85
3301 6770 3.600388 AGCTGCTACTTCGCAATAAAGT 58.400 40.909 0.00 0.00 39.80 2.66
3302 6771 4.003648 AGCTGCTACTTCGCAATAAAGTT 58.996 39.130 0.00 0.00 39.80 2.66
3303 6772 4.455877 AGCTGCTACTTCGCAATAAAGTTT 59.544 37.500 0.00 0.00 39.80 2.66
3304 6773 5.048713 AGCTGCTACTTCGCAATAAAGTTTT 60.049 36.000 0.00 0.00 39.80 2.43
3305 6774 5.059710 GCTGCTACTTCGCAATAAAGTTTTG 59.940 40.000 0.00 0.00 39.80 2.44
3306 6775 5.457140 TGCTACTTCGCAATAAAGTTTTGG 58.543 37.500 0.00 0.00 38.00 3.28
3307 6776 5.009210 TGCTACTTCGCAATAAAGTTTTGGT 59.991 36.000 0.00 0.00 38.00 3.67
3308 6777 5.918576 GCTACTTCGCAATAAAGTTTTGGTT 59.081 36.000 0.00 0.00 38.00 3.67
3309 6778 6.419710 GCTACTTCGCAATAAAGTTTTGGTTT 59.580 34.615 0.00 0.00 38.00 3.27
3310 6779 7.592164 GCTACTTCGCAATAAAGTTTTGGTTTA 59.408 33.333 0.00 0.00 38.00 2.01
3311 6780 7.688478 ACTTCGCAATAAAGTTTTGGTTTAC 57.312 32.000 0.00 0.00 33.19 2.01
3312 6781 6.698329 ACTTCGCAATAAAGTTTTGGTTTACC 59.302 34.615 0.00 0.00 33.19 2.85
3313 6782 6.145338 TCGCAATAAAGTTTTGGTTTACCA 57.855 33.333 0.00 0.00 45.94 3.25
3422 6891 1.072489 TGCATCTTTGGTTGACGGGTA 59.928 47.619 0.00 0.00 0.00 3.69
3425 6894 3.142951 CATCTTTGGTTGACGGGTAACA 58.857 45.455 0.00 0.00 39.74 2.41
3444 6913 4.652421 ACAAACACACTGATGCATTCAA 57.348 36.364 0.00 0.00 32.78 2.69
3447 6916 4.859304 AACACACTGATGCATTCAACAT 57.141 36.364 0.00 0.00 32.78 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 5.354513 GGAGCTAGGAAAGACCAAATACAAC 59.645 44.000 0.00 0.00 42.04 3.32
37 38 6.384886 AGATGCCTAATTTGTCCCAATCATTT 59.615 34.615 0.00 0.00 0.00 2.32
49 50 8.707938 TGATATCGTGATAGATGCCTAATTTG 57.292 34.615 0.00 0.00 32.39 2.32
53 54 6.813649 GCTTTGATATCGTGATAGATGCCTAA 59.186 38.462 0.00 0.00 32.39 2.69
191 194 1.452110 CGTCCATGTTGAAGATGCCA 58.548 50.000 0.00 0.00 0.00 4.92
242 245 4.409247 ACGAGGAATTGTATTAGAGGCCTT 59.591 41.667 6.77 0.00 0.00 4.35
256 259 4.750098 CGGTATGCAGATAAACGAGGAATT 59.250 41.667 0.00 0.00 0.00 2.17
282 285 1.523524 GGGGATTTCGGGCGTCTAA 59.476 57.895 0.00 0.00 0.00 2.10
307 310 1.133915 TGTTCCATCGATTTAGGGGCC 60.134 52.381 0.00 0.00 0.00 5.80
323 326 5.940470 AGACATCCAGACAACCTTATTGTTC 59.060 40.000 0.00 0.00 31.96 3.18
403 406 0.250038 CGGTAGATGCACATGGGAGG 60.250 60.000 0.00 0.00 0.00 4.30
409 412 0.105593 CCAGCTCGGTAGATGCACAT 59.894 55.000 0.00 0.00 37.82 3.21
447 452 0.693049 GAAGAGGGGTGAAGCTTGGA 59.307 55.000 2.10 0.00 0.00 3.53
450 455 1.501654 GGGGAAGAGGGGTGAAGCTT 61.502 60.000 0.00 0.00 0.00 3.74
451 456 1.925972 GGGGAAGAGGGGTGAAGCT 60.926 63.158 0.00 0.00 0.00 3.74
464 469 3.399046 CCATGGACTCGTGGGGAA 58.601 61.111 5.56 0.00 44.40 3.97
507 516 4.075854 TCGGCCTACGCATGCACA 62.076 61.111 19.57 3.00 43.86 4.57
530 539 1.758440 AACAGGCTCGCTTCAGGACA 61.758 55.000 0.00 0.00 0.00 4.02
553 562 1.451936 GGCCTACATAGCCCACAGG 59.548 63.158 0.00 0.00 45.16 4.00
589 600 2.203640 AGAGGTGCCGTCAGGTCA 60.204 61.111 0.00 0.00 40.50 4.02
605 616 1.951130 CTACATAGCCCGCGCACAG 60.951 63.158 8.75 0.00 37.52 3.66
636 649 2.396601 CGCAATGACAACAAGCACAAT 58.603 42.857 0.00 0.00 33.04 2.71
760 773 0.389948 AACCGAGAACACCATCGCTC 60.390 55.000 0.00 0.00 37.61 5.03
833 858 5.132648 TGTTCATATAAGAGCACCTCCCAAT 59.867 40.000 0.00 0.00 0.00 3.16
841 866 6.283694 TCCTCACATGTTCATATAAGAGCAC 58.716 40.000 0.00 0.00 31.47 4.40
851 876 3.588842 TCCCTTCTTCCTCACATGTTCAT 59.411 43.478 0.00 0.00 0.00 2.57
852 877 2.978978 TCCCTTCTTCCTCACATGTTCA 59.021 45.455 0.00 0.00 0.00 3.18
853 878 3.261897 TCTCCCTTCTTCCTCACATGTTC 59.738 47.826 0.00 0.00 0.00 3.18
854 879 3.251484 TCTCCCTTCTTCCTCACATGTT 58.749 45.455 0.00 0.00 0.00 2.71
855 880 2.836981 CTCTCCCTTCTTCCTCACATGT 59.163 50.000 0.00 0.00 0.00 3.21
901 951 1.192146 TTTCCACCTGTCTCCCTCCG 61.192 60.000 0.00 0.00 0.00 4.63
934 986 2.443260 TTAGGCCGAGCAGCGAAACA 62.443 55.000 0.00 0.00 44.57 2.83
1025 1126 2.106923 TACCAGGCAGGACTCCACCT 62.107 60.000 1.67 4.19 41.22 4.00
1041 1142 1.653533 CTCGTCGATCGGCGTTACC 60.654 63.158 37.19 6.92 44.32 2.85
1096 1197 2.360350 CCTGTTGGCCAGCACGAT 60.360 61.111 19.51 0.00 40.06 3.73
1188 1292 2.596851 GGACTCCTTGAGCCTGGCA 61.597 63.158 22.65 0.00 32.04 4.92
1257 1361 4.477975 GTCCGTCCGGCAGAGTCG 62.478 72.222 0.00 0.00 34.68 4.18
1428 1532 4.785453 GCAGCAAGGAGGACCCGG 62.785 72.222 0.00 0.00 40.87 5.73
1429 1533 3.259633 AAGCAGCAAGGAGGACCCG 62.260 63.158 0.00 0.00 40.87 5.28
1430 1534 1.377856 GAAGCAGCAAGGAGGACCC 60.378 63.158 0.00 0.00 36.73 4.46
1431 1535 0.034670 ATGAAGCAGCAAGGAGGACC 60.035 55.000 0.00 0.00 0.00 4.46
1433 1537 1.340405 GGAATGAAGCAGCAAGGAGGA 60.340 52.381 0.00 0.00 0.00 3.71
1437 1541 3.194968 AGAAATGGAATGAAGCAGCAAGG 59.805 43.478 0.00 0.00 0.00 3.61
1442 1546 2.421073 TGCGAGAAATGGAATGAAGCAG 59.579 45.455 0.00 0.00 0.00 4.24
1445 1549 6.956299 ATTTTTGCGAGAAATGGAATGAAG 57.044 33.333 0.00 0.00 0.00 3.02
1447 1551 7.869937 TGTTAATTTTTGCGAGAAATGGAATGA 59.130 29.630 0.00 0.00 0.00 2.57
1449 1553 8.776376 ATGTTAATTTTTGCGAGAAATGGAAT 57.224 26.923 0.00 0.00 0.00 3.01
1450 1554 8.600449 AATGTTAATTTTTGCGAGAAATGGAA 57.400 26.923 0.00 0.00 0.00 3.53
1453 1557 7.679634 CACGAATGTTAATTTTTGCGAGAAATG 59.320 33.333 0.00 0.00 0.00 2.32
1455 1559 6.345408 GCACGAATGTTAATTTTTGCGAGAAA 60.345 34.615 0.00 0.00 29.38 2.52
1456 1560 5.116377 GCACGAATGTTAATTTTTGCGAGAA 59.884 36.000 0.00 0.00 29.38 2.87
1457 1561 4.615121 GCACGAATGTTAATTTTTGCGAGA 59.385 37.500 0.00 0.00 29.38 4.04
1460 1564 3.479548 CCGCACGAATGTTAATTTTTGCG 60.480 43.478 15.26 15.26 46.49 4.85
1463 1567 4.612943 ACACCGCACGAATGTTAATTTTT 58.387 34.783 0.00 0.00 0.00 1.94
1464 1568 4.231718 ACACCGCACGAATGTTAATTTT 57.768 36.364 0.00 0.00 0.00 1.82
1465 1569 3.907894 ACACCGCACGAATGTTAATTT 57.092 38.095 0.00 0.00 0.00 1.82
1466 1570 3.181528 CGTACACCGCACGAATGTTAATT 60.182 43.478 5.45 0.00 41.91 1.40
1467 1571 2.346244 CGTACACCGCACGAATGTTAAT 59.654 45.455 5.45 0.00 41.91 1.40
1468 1572 1.720316 CGTACACCGCACGAATGTTAA 59.280 47.619 5.45 0.00 41.91 2.01
1469 1573 1.335780 ACGTACACCGCACGAATGTTA 60.336 47.619 1.43 0.00 41.91 2.41
1470 1574 0.598158 ACGTACACCGCACGAATGTT 60.598 50.000 1.43 0.00 41.91 2.71
1473 1577 1.339711 GTTACGTACACCGCACGAAT 58.660 50.000 0.00 0.00 41.91 3.34
1475 1579 1.440188 CGTTACGTACACCGCACGA 60.440 57.895 9.08 0.00 44.86 4.35
1476 1580 0.451957 TACGTTACGTACACCGCACG 60.452 55.000 13.90 12.33 46.46 5.34
1477 1581 3.376347 TACGTTACGTACACCGCAC 57.624 52.632 13.90 0.00 41.54 5.34
1514 1858 4.969196 AGGTCACCTGCACGCACG 62.969 66.667 0.00 0.00 29.57 5.34
1515 1859 2.591715 AAGGTCACCTGCACGCAC 60.592 61.111 0.00 0.00 32.13 5.34
1516 1860 2.280797 GAAGGTCACCTGCACGCA 60.281 61.111 0.00 0.00 32.13 5.24
1517 1861 3.050275 GGAAGGTCACCTGCACGC 61.050 66.667 3.46 0.00 32.13 5.34
1518 1862 1.374758 GAGGAAGGTCACCTGCACG 60.375 63.158 3.46 0.00 37.93 5.34
1519 1863 0.321122 CTGAGGAAGGTCACCTGCAC 60.321 60.000 3.46 0.00 37.93 4.57
1520 1864 1.483595 CCTGAGGAAGGTCACCTGCA 61.484 60.000 3.46 0.00 41.74 4.41
1521 1865 1.298014 CCTGAGGAAGGTCACCTGC 59.702 63.158 0.00 0.00 41.74 4.85
1704 2168 1.153549 GGTCTCAGCGTGGATCACC 60.154 63.158 0.00 0.00 0.00 4.02
1714 2178 0.745845 AACATGCGGATGGTCTCAGC 60.746 55.000 21.55 0.00 44.36 4.26
1763 2227 1.728426 CCTGTTGACGACGACGACC 60.728 63.158 15.32 5.93 42.66 4.79
2025 2567 2.629763 GTGGCGAACACGTTGACC 59.370 61.111 0.00 0.00 40.85 4.02
2358 2911 2.169789 CAAGGAGATGAGCACGCGG 61.170 63.158 12.47 0.00 0.00 6.46
2415 2968 3.056952 GCAAGAAGTTGGCATACATCG 57.943 47.619 0.00 0.00 33.87 3.84
2438 2994 2.299013 TGTCACAGCTTAGGACGTTCAT 59.701 45.455 0.00 0.00 34.32 2.57
2459 3015 6.127925 CCACACATTAAGCGGATGCATATATT 60.128 38.462 0.00 0.00 46.23 1.28
2472 3034 8.609176 TCTACGAAATTAATCCACACATTAAGC 58.391 33.333 0.00 0.00 32.87 3.09
2500 3062 5.163814 GCTGAAATTGCCCGATAGATCATAC 60.164 44.000 0.00 0.00 39.76 2.39
2609 3178 2.884012 ACAGATCTCGAGGTAGCATCTG 59.116 50.000 27.07 27.07 44.10 2.90
2646 3217 6.606234 ACGAAGAGAGAAAGGAAAAAGTTC 57.394 37.500 0.00 0.00 0.00 3.01
2655 3226 5.847670 AATTTCGAACGAAGAGAGAAAGG 57.152 39.130 9.46 0.00 34.82 3.11
2664 3235 4.383649 TCCGACAAGTAATTTCGAACGAAG 59.616 41.667 9.46 0.23 35.38 3.79
2670 3241 6.688637 TCTATCTCCGACAAGTAATTTCGA 57.311 37.500 8.39 0.00 34.62 3.71
2728 3301 8.420374 TGTCGGAGAAATGATTGTATTTAGAC 57.580 34.615 0.00 0.00 39.69 2.59
2733 3306 8.964476 ATACTTGTCGGAGAAATGATTGTATT 57.036 30.769 0.00 0.00 39.69 1.89
2769 3343 6.456501 GTCAAGTGACATAACAAGTACTCCT 58.543 40.000 6.57 0.00 44.18 3.69
2813 3389 4.648762 CCTATGATCAGGTCTCAGTCAAGT 59.351 45.833 0.09 0.00 0.00 3.16
2814 3390 4.501229 GCCTATGATCAGGTCTCAGTCAAG 60.501 50.000 0.09 0.00 38.05 3.02
2817 3393 2.961741 TGCCTATGATCAGGTCTCAGTC 59.038 50.000 0.09 0.00 38.05 3.51
2819 3395 2.964464 ACTGCCTATGATCAGGTCTCAG 59.036 50.000 0.09 7.30 38.05 3.35
2841 5239 1.452801 GAGGACAAACCCGGGTCAA 59.547 57.895 30.40 0.00 40.05 3.18
2886 5285 5.209659 CCTAGCCTATATATCCTTTCGGGT 58.790 45.833 0.00 0.00 36.25 5.28
2903 5302 5.977489 AAAAATGTAGTCCAAACCTAGCC 57.023 39.130 0.00 0.00 0.00 3.93
2904 5303 7.878036 TGTTAAAAATGTAGTCCAAACCTAGC 58.122 34.615 0.00 0.00 0.00 3.42
2910 5436 9.331282 CCCAAAATGTTAAAAATGTAGTCCAAA 57.669 29.630 0.00 0.00 0.00 3.28
2920 5446 3.680490 CCCGGCCCAAAATGTTAAAAAT 58.320 40.909 0.00 0.00 0.00 1.82
2925 5451 0.543174 AAGCCCGGCCCAAAATGTTA 60.543 50.000 5.55 0.00 0.00 2.41
2951 5516 7.603024 AGTCCAAACTCTATTTTCCGTTCTAAG 59.397 37.037 0.00 0.00 0.00 2.18
3002 5567 1.376466 GTTCTTCAGCCTGAGCCCA 59.624 57.895 0.00 0.00 41.25 5.36
3080 5645 2.684881 CCTAAGTTTTCGAGCCATGCAT 59.315 45.455 0.00 0.00 0.00 3.96
3084 5649 4.003648 CACTTCCTAAGTTTTCGAGCCAT 58.996 43.478 0.00 0.00 40.46 4.40
3174 6643 3.406595 AATACCTGGCGAGCAGGGC 62.407 63.158 11.60 0.00 43.89 5.19
3175 6644 1.227674 GAATACCTGGCGAGCAGGG 60.228 63.158 11.60 10.04 43.89 4.45
3176 6645 1.592669 CGAATACCTGGCGAGCAGG 60.593 63.158 5.99 5.99 45.06 4.85
3177 6646 0.384309 TACGAATACCTGGCGAGCAG 59.616 55.000 0.00 0.00 0.00 4.24
3178 6647 1.037493 ATACGAATACCTGGCGAGCA 58.963 50.000 0.00 0.00 0.00 4.26
3179 6648 2.150397 AATACGAATACCTGGCGAGC 57.850 50.000 0.00 0.00 0.00 5.03
3180 6649 4.761235 TCTAATACGAATACCTGGCGAG 57.239 45.455 0.00 0.00 0.00 5.03
3181 6650 5.717078 ATTCTAATACGAATACCTGGCGA 57.283 39.130 0.00 0.00 32.12 5.54
3182 6651 6.780706 AAATTCTAATACGAATACCTGGCG 57.219 37.500 0.00 0.00 33.47 5.69
3183 6652 8.379457 AGAAAATTCTAATACGAATACCTGGC 57.621 34.615 0.00 0.00 35.34 4.85
3199 6668 8.936864 CCAACATCTAACGAACTAGAAAATTCT 58.063 33.333 0.00 0.77 41.24 2.40
3200 6669 8.718734 ACCAACATCTAACGAACTAGAAAATTC 58.281 33.333 0.00 0.00 31.76 2.17
3201 6670 8.617290 ACCAACATCTAACGAACTAGAAAATT 57.383 30.769 0.00 0.00 31.76 1.82
3202 6671 7.063074 CGACCAACATCTAACGAACTAGAAAAT 59.937 37.037 0.00 0.00 31.76 1.82
3203 6672 6.364165 CGACCAACATCTAACGAACTAGAAAA 59.636 38.462 0.00 0.00 31.76 2.29
3204 6673 5.860182 CGACCAACATCTAACGAACTAGAAA 59.140 40.000 0.00 0.00 31.76 2.52
3205 6674 5.396484 CGACCAACATCTAACGAACTAGAA 58.604 41.667 0.00 0.00 31.76 2.10
3206 6675 4.673580 GCGACCAACATCTAACGAACTAGA 60.674 45.833 0.00 0.00 32.53 2.43
3207 6676 3.546670 GCGACCAACATCTAACGAACTAG 59.453 47.826 0.00 0.00 0.00 2.57
3208 6677 3.504863 GCGACCAACATCTAACGAACTA 58.495 45.455 0.00 0.00 0.00 2.24
3209 6678 2.334838 GCGACCAACATCTAACGAACT 58.665 47.619 0.00 0.00 0.00 3.01
3210 6679 1.392510 GGCGACCAACATCTAACGAAC 59.607 52.381 0.00 0.00 0.00 3.95
3211 6680 1.001068 TGGCGACCAACATCTAACGAA 59.999 47.619 0.00 0.00 0.00 3.85
3212 6681 0.604073 TGGCGACCAACATCTAACGA 59.396 50.000 0.00 0.00 0.00 3.85
3213 6682 1.651987 ATGGCGACCAACATCTAACG 58.348 50.000 2.68 0.00 36.95 3.18
3214 6683 3.190535 ACAAATGGCGACCAACATCTAAC 59.809 43.478 2.68 0.00 36.95 2.34
3215 6684 3.190327 CACAAATGGCGACCAACATCTAA 59.810 43.478 2.68 0.00 36.95 2.10
3216 6685 2.746904 CACAAATGGCGACCAACATCTA 59.253 45.455 2.68 0.00 36.95 1.98
3217 6686 1.541147 CACAAATGGCGACCAACATCT 59.459 47.619 2.68 0.00 36.95 2.90
3218 6687 1.402720 CCACAAATGGCGACCAACATC 60.403 52.381 2.68 0.00 39.82 3.06
3219 6688 0.602562 CCACAAATGGCGACCAACAT 59.397 50.000 2.68 0.00 39.82 2.71
3220 6689 2.037053 CCACAAATGGCGACCAACA 58.963 52.632 2.68 0.00 39.82 3.33
3221 6690 4.963815 CCACAAATGGCGACCAAC 57.036 55.556 2.68 0.00 39.82 3.77
3230 6699 2.741759 GGTAAACCCAGCCACAAATG 57.258 50.000 0.00 0.00 0.00 2.32
3242 6711 2.560981 CAAACTGGTCATGGGGTAAACC 59.439 50.000 0.00 0.00 39.11 3.27
3243 6712 3.227614 ACAAACTGGTCATGGGGTAAAC 58.772 45.455 0.00 0.00 0.00 2.01
3244 6713 3.603965 ACAAACTGGTCATGGGGTAAA 57.396 42.857 0.00 0.00 0.00 2.01
3245 6714 3.603965 AACAAACTGGTCATGGGGTAA 57.396 42.857 0.00 0.00 0.00 2.85
3246 6715 4.938575 ATAACAAACTGGTCATGGGGTA 57.061 40.909 0.00 0.00 0.00 3.69
3247 6716 3.825908 ATAACAAACTGGTCATGGGGT 57.174 42.857 0.00 0.00 0.00 4.95
3248 6717 3.447229 GGAATAACAAACTGGTCATGGGG 59.553 47.826 0.00 0.00 0.00 4.96
3249 6718 4.158394 CAGGAATAACAAACTGGTCATGGG 59.842 45.833 0.00 0.00 0.00 4.00
3250 6719 4.766891 ACAGGAATAACAAACTGGTCATGG 59.233 41.667 0.00 0.00 35.34 3.66
3251 6720 5.964958 ACAGGAATAACAAACTGGTCATG 57.035 39.130 0.00 0.00 35.34 3.07
3252 6721 7.039993 GGTTTACAGGAATAACAAACTGGTCAT 60.040 37.037 0.00 0.00 35.34 3.06
3253 6722 6.263617 GGTTTACAGGAATAACAAACTGGTCA 59.736 38.462 0.00 0.00 35.34 4.02
3254 6723 6.263617 TGGTTTACAGGAATAACAAACTGGTC 59.736 38.462 0.00 0.00 35.34 4.02
3255 6724 6.130569 TGGTTTACAGGAATAACAAACTGGT 58.869 36.000 0.00 0.00 35.34 4.00
3256 6725 6.642707 TGGTTTACAGGAATAACAAACTGG 57.357 37.500 0.00 0.00 35.34 4.00
3257 6726 6.640907 GCTTGGTTTACAGGAATAACAAACTG 59.359 38.462 0.00 0.00 37.01 3.16
3258 6727 6.549736 AGCTTGGTTTACAGGAATAACAAACT 59.450 34.615 0.00 0.00 31.39 2.66
3259 6728 6.640907 CAGCTTGGTTTACAGGAATAACAAAC 59.359 38.462 0.00 0.00 0.00 2.93
3260 6729 6.737346 GCAGCTTGGTTTACAGGAATAACAAA 60.737 38.462 0.00 0.00 0.00 2.83
3261 6730 5.278758 GCAGCTTGGTTTACAGGAATAACAA 60.279 40.000 0.00 0.00 0.00 2.83
3262 6731 4.217550 GCAGCTTGGTTTACAGGAATAACA 59.782 41.667 0.00 0.00 0.00 2.41
3263 6732 4.459337 AGCAGCTTGGTTTACAGGAATAAC 59.541 41.667 0.00 0.00 0.00 1.89
3264 6733 4.662278 AGCAGCTTGGTTTACAGGAATAA 58.338 39.130 0.00 0.00 0.00 1.40
3265 6734 4.301072 AGCAGCTTGGTTTACAGGAATA 57.699 40.909 0.00 0.00 0.00 1.75
3266 6735 3.160679 AGCAGCTTGGTTTACAGGAAT 57.839 42.857 0.00 0.00 0.00 3.01
3267 6736 2.656947 AGCAGCTTGGTTTACAGGAA 57.343 45.000 0.00 0.00 0.00 3.36
3268 6737 2.637872 AGTAGCAGCTTGGTTTACAGGA 59.362 45.455 0.00 0.00 0.00 3.86
3269 6738 3.059352 AGTAGCAGCTTGGTTTACAGG 57.941 47.619 0.00 0.00 0.00 4.00
3270 6739 3.123621 CGAAGTAGCAGCTTGGTTTACAG 59.876 47.826 0.00 0.00 0.00 2.74
3271 6740 3.064207 CGAAGTAGCAGCTTGGTTTACA 58.936 45.455 0.00 0.00 0.00 2.41
3272 6741 2.159693 GCGAAGTAGCAGCTTGGTTTAC 60.160 50.000 0.00 0.00 37.05 2.01
3273 6742 2.073816 GCGAAGTAGCAGCTTGGTTTA 58.926 47.619 0.00 0.00 37.05 2.01
3274 6743 0.875059 GCGAAGTAGCAGCTTGGTTT 59.125 50.000 0.00 0.00 37.05 3.27
3275 6744 0.250295 TGCGAAGTAGCAGCTTGGTT 60.250 50.000 0.00 0.00 42.92 3.67
3276 6745 1.371183 TGCGAAGTAGCAGCTTGGT 59.629 52.632 0.00 0.00 42.92 3.67
3277 6746 4.284123 TGCGAAGTAGCAGCTTGG 57.716 55.556 0.00 0.00 42.92 3.61
3283 6752 5.009210 ACCAAAACTTTATTGCGAAGTAGCA 59.991 36.000 0.00 0.00 46.54 3.49
3284 6753 5.458015 ACCAAAACTTTATTGCGAAGTAGC 58.542 37.500 0.00 0.00 36.38 3.58
3285 6754 7.924103 AAACCAAAACTTTATTGCGAAGTAG 57.076 32.000 0.00 0.00 36.38 2.57
3286 6755 7.861872 GGTAAACCAAAACTTTATTGCGAAGTA 59.138 33.333 0.00 0.00 34.65 2.24
3287 6756 6.698329 GGTAAACCAAAACTTTATTGCGAAGT 59.302 34.615 0.00 0.00 36.05 3.01
3288 6757 6.697892 TGGTAAACCAAAACTTTATTGCGAAG 59.302 34.615 0.00 0.00 44.35 3.79
3289 6758 6.570692 TGGTAAACCAAAACTTTATTGCGAA 58.429 32.000 0.00 0.00 44.35 4.70
3290 6759 6.145338 TGGTAAACCAAAACTTTATTGCGA 57.855 33.333 0.00 0.00 44.35 5.10
3363 6832 6.867519 TGAAACACTAATACTCCATCAGGA 57.132 37.500 0.00 0.00 43.21 3.86
3364 6833 7.227512 GGAATGAAACACTAATACTCCATCAGG 59.772 40.741 0.00 0.00 0.00 3.86
3365 6834 7.770433 TGGAATGAAACACTAATACTCCATCAG 59.230 37.037 0.00 0.00 0.00 2.90
3366 6835 7.629157 TGGAATGAAACACTAATACTCCATCA 58.371 34.615 0.00 0.00 0.00 3.07
3367 6836 8.506168 TTGGAATGAAACACTAATACTCCATC 57.494 34.615 0.00 0.00 30.86 3.51
3422 6891 4.652421 TGAATGCATCAGTGTGTTTGTT 57.348 36.364 0.00 0.00 33.04 2.83
3425 6894 4.652421 TGTTGAATGCATCAGTGTGTTT 57.348 36.364 0.00 0.00 39.77 2.83


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

AutoCloner maintained by Alex Coulton.