Multiple sequence alignment - TraesCS3D01G112300

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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 TraesCS3D01G112300 chr3D 100.000 4275 0 0 1 4275 66403380 66407654 0.000000e+00 7895.0
1 TraesCS3D01G112300 chr3D 89.407 236 25 0 630 865 470732437 470732202 8.990000e-77 298.0
2 TraesCS3D01G112300 chr3D 79.487 117 18 2 3672 3787 535754698 535754809 1.270000e-10 78.7
3 TraesCS3D01G112300 chr3A 94.086 1116 55 4 978 2083 77483243 77484357 0.000000e+00 1685.0
4 TraesCS3D01G112300 chr3A 95.624 937 30 4 2382 3310 77487956 77488889 0.000000e+00 1493.0
5 TraesCS3D01G112300 chr3A 84.348 690 61 25 3614 4275 77528253 77528923 2.170000e-177 632.0
6 TraesCS3D01G112300 chr3A 93.197 294 18 2 2065 2358 77487671 77487962 8.490000e-117 431.0
7 TraesCS3D01G112300 chr3A 97.778 225 5 0 3392 3616 77488884 77489108 5.180000e-104 388.0
8 TraesCS3D01G112300 chr3A 97.959 98 2 0 883 980 77481499 77481596 2.040000e-38 171.0
9 TraesCS3D01G112300 chr3B 97.672 816 18 1 921 1736 110227630 110228444 0.000000e+00 1400.0
10 TraesCS3D01G112300 chr3B 89.449 853 76 7 1 848 18787883 18787040 0.000000e+00 1064.0
11 TraesCS3D01G112300 chr3B 96.479 568 20 0 2743 3310 110229555 110230122 0.000000e+00 939.0
12 TraesCS3D01G112300 chr3B 86.581 857 79 20 3408 4253 110230546 110231377 0.000000e+00 913.0
13 TraesCS3D01G112300 chr3B 84.943 963 76 28 1808 2747 110228441 110229357 0.000000e+00 911.0
14 TraesCS3D01G112300 chr3B 96.552 87 2 1 3309 3394 738379779 738379693 4.460000e-30 143.0
15 TraesCS3D01G112300 chr4D 95.632 870 32 4 1 865 281304736 281303868 0.000000e+00 1391.0
16 TraesCS3D01G112300 chr4D 84.314 102 16 0 4048 4149 334056733 334056834 2.720000e-17 100.0
17 TraesCS3D01G112300 chr5B 87.273 330 23 8 538 865 675891198 675890886 4.060000e-95 359.0
18 TraesCS3D01G112300 chr1A 90.000 200 19 1 667 866 256959877 256959679 1.530000e-64 257.0
19 TraesCS3D01G112300 chr1B 83.682 239 38 1 628 865 681056081 681056319 1.550000e-54 224.0
20 TraesCS3D01G112300 chr1B 87.425 167 16 3 3743 3908 648708010 648707848 2.030000e-43 187.0
21 TraesCS3D01G112300 chr6D 76.145 415 75 16 3843 4237 101787411 101787821 3.370000e-46 196.0
22 TraesCS3D01G112300 chr2D 83.832 167 22 2 3989 4151 58849508 58849343 2.060000e-33 154.0
23 TraesCS3D01G112300 chr2D 77.016 248 31 13 3982 4225 149673155 149672930 7.510000e-23 119.0
24 TraesCS3D01G112300 chr2D 80.702 114 22 0 4140 4253 83838563 83838450 5.890000e-14 89.8
25 TraesCS3D01G112300 chr2D 85.714 84 8 4 3707 3788 129911149 129911230 7.620000e-13 86.1
26 TraesCS3D01G112300 chr7A 98.824 85 1 0 3309 3393 168872333 168872249 7.400000e-33 152.0
27 TraesCS3D01G112300 chr7A 91.379 58 5 0 4161 4218 639839778 639839721 3.540000e-11 80.5
28 TraesCS3D01G112300 chr5A 87.218 133 15 1 4017 4149 693294838 693294708 2.660000e-32 150.0
29 TraesCS3D01G112300 chr5A 93.333 90 6 0 3309 3398 688702539 688702450 2.680000e-27 134.0
30 TraesCS3D01G112300 chr7D 97.647 85 1 1 3309 3393 167359604 167359521 1.240000e-30 145.0
31 TraesCS3D01G112300 chr7D 78.814 236 28 9 4018 4253 43879218 43879005 5.760000e-29 139.0
32 TraesCS3D01G112300 chr7D 83.471 121 20 0 4017 4137 522812178 522812298 3.490000e-21 113.0
33 TraesCS3D01G112300 chr6B 92.857 98 6 1 3309 3405 71040770 71040867 1.600000e-29 141.0
34 TraesCS3D01G112300 chr6B 82.456 114 20 0 4140 4253 498540593 498540480 2.720000e-17 100.0
35 TraesCS3D01G112300 chr2B 77.206 272 37 10 3986 4253 91486236 91485986 7.460000e-28 135.0
36 TraesCS3D01G112300 chr2B 84.672 137 20 1 4017 4153 91609223 91609088 7.460000e-28 135.0
37 TraesCS3D01G112300 chr2B 84.298 121 13 2 3672 3791 91609604 91609489 3.490000e-21 113.0
38 TraesCS3D01G112300 chr5D 92.135 89 5 1 3305 3393 548634071 548633985 1.610000e-24 124.0
39 TraesCS3D01G112300 chr2A 92.941 85 6 0 3309 3393 678967074 678967158 1.610000e-24 124.0
40 TraesCS3D01G112300 chr7B 91.111 90 6 2 3309 3397 588875323 588875235 2.090000e-23 121.0
41 TraesCS3D01G112300 chr7B 91.011 89 6 1 3306 3394 748334503 748334417 7.510000e-23 119.0
42 TraesCS3D01G112300 chr4A 82.836 134 21 2 4017 4150 139616626 139616495 7.510000e-23 119.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3D01G112300 chr3D 66403380 66407654 4274 False 7895.00 7895 100.00000 1 4275 1 chr3D.!!$F1 4274
1 TraesCS3D01G112300 chr3A 77481499 77489108 7609 False 833.60 1685 95.72880 883 3616 5 chr3A.!!$F2 2733
2 TraesCS3D01G112300 chr3A 77528253 77528923 670 False 632.00 632 84.34800 3614 4275 1 chr3A.!!$F1 661
3 TraesCS3D01G112300 chr3B 18787040 18787883 843 True 1064.00 1064 89.44900 1 848 1 chr3B.!!$R1 847
4 TraesCS3D01G112300 chr3B 110227630 110231377 3747 False 1040.75 1400 91.41875 921 4253 4 chr3B.!!$F1 3332
5 TraesCS3D01G112300 chr4D 281303868 281304736 868 True 1391.00 1391 95.63200 1 865 1 chr4D.!!$R1 864

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
410 412 0.395311 TCATTCTAGAGGCCGACGGT 60.395 55.000 16.73 0.0 0.00 4.83 F
505 511 0.468226 TGCAACGACTCCTTGGAAGT 59.532 50.000 0.00 0.0 0.00 3.01 F
823 832 1.000506 GTGGCCTCTCGACTGTAACAA 59.999 52.381 3.32 0.0 0.00 2.83 F
2020 3688 0.169672 CAAAGAGGCCTTGACATGCG 59.830 55.000 6.77 0.0 31.91 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1453 3111 1.043816 AATCGAGCGACATGGATCCT 58.956 50.0 14.23 0.0 0.00 3.24 R
1893 3561 1.525941 GTACGGCAAACTTTGGGCTA 58.474 50.0 3.69 0.0 0.00 3.93 R
2790 8023 1.291132 GCTGGTCTGCGGTTCTATTC 58.709 55.0 0.00 0.0 0.00 1.75 R
3358 8591 0.035439 ACAATACTTGTCGCTGGGGG 60.035 55.0 0.00 0.0 40.56 5.40 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
47 48 1.772156 GGCTAGATGGCCCCTTCCT 60.772 63.158 0.00 0.00 45.92 3.36
128 129 2.706555 TCGGATGATGTGCGAGATAC 57.293 50.000 0.00 0.00 46.12 2.24
233 234 4.332819 GGTGGATTTCCTCGACAGTTATTG 59.667 45.833 0.00 0.00 34.50 1.90
387 388 2.094494 CACTGTCGCTCTTACTGTGGAT 60.094 50.000 0.00 0.00 40.85 3.41
397 398 5.738909 CTCTTACTGTGGATGGTTCATTCT 58.261 41.667 0.00 0.00 0.00 2.40
410 412 0.395311 TCATTCTAGAGGCCGACGGT 60.395 55.000 16.73 0.00 0.00 4.83
505 511 0.468226 TGCAACGACTCCTTGGAAGT 59.532 50.000 0.00 0.00 0.00 3.01
561 567 3.214328 GCCATTCATCATACGACCCTTT 58.786 45.455 0.00 0.00 0.00 3.11
600 609 2.495669 GACTCTTCAGAAGCACTAGCCT 59.504 50.000 5.15 0.00 43.56 4.58
615 624 5.368145 CACTAGCCTGCCTATCAAACAATA 58.632 41.667 0.00 0.00 0.00 1.90
723 732 2.716217 GTTGCCAGAATAGAGTTGCCT 58.284 47.619 0.00 0.00 0.00 4.75
777 786 3.473625 ACTACTGCTGTGTGGTTAAACC 58.526 45.455 6.48 0.00 39.22 3.27
797 806 2.553466 CCCGGTTCCACCTTGTATTGAA 60.553 50.000 0.00 0.00 35.66 2.69
823 832 1.000506 GTGGCCTCTCGACTGTAACAA 59.999 52.381 3.32 0.00 0.00 2.83
824 833 1.689813 TGGCCTCTCGACTGTAACAAA 59.310 47.619 3.32 0.00 0.00 2.83
855 864 7.546250 TTGCAATAAAAACTCCCTTTATCCA 57.454 32.000 0.00 0.00 30.41 3.41
857 866 6.951198 TGCAATAAAAACTCCCTTTATCCAGA 59.049 34.615 0.00 0.00 30.41 3.86
917 926 1.985895 CTACCCTCACTTCCCTTGGTT 59.014 52.381 0.00 0.00 0.00 3.67
922 931 3.245264 CCCTCACTTCCCTTGGTTAACAT 60.245 47.826 8.10 0.00 0.00 2.71
987 2645 2.292267 AGGCATGCCGTTATTCTTCAG 58.708 47.619 30.50 0.00 41.95 3.02
1037 2695 2.573609 ATCGGTAGGTGCGAAGTGCC 62.574 60.000 0.00 0.00 45.60 5.01
1123 2781 2.244651 GCACCACGATATCACCGCC 61.245 63.158 3.12 0.00 0.00 6.13
1473 3131 1.414181 AGGATCCATGTCGCTCGATTT 59.586 47.619 15.82 0.00 0.00 2.17
1486 3144 2.735762 GCTCGATTTCGGCACTAGACTT 60.736 50.000 0.00 0.00 40.29 3.01
1707 3365 9.986157 ATGATATGGAATTGTAATTCTAGGCAT 57.014 29.630 14.85 12.06 43.33 4.40
1737 3395 6.377146 TGTTGGCTTTTACCTATGAATTCTCC 59.623 38.462 7.05 0.00 0.00 3.71
1750 3408 7.884877 CCTATGAATTCTCCAGGTTTGCATATA 59.115 37.037 7.05 0.00 0.00 0.86
1758 3416 7.118723 TCTCCAGGTTTGCATATACTTTGATT 58.881 34.615 0.00 0.00 0.00 2.57
1791 3449 7.706281 TTCGAATTCAGAGATGAAGCTATTC 57.294 36.000 6.22 0.00 35.87 1.75
1794 3462 6.087952 CGAATTCAGAGATGAAGCTATTCGAG 59.912 42.308 13.09 0.00 38.11 4.04
1818 3486 7.111466 AGGTCACTTAGTCGTTCTAGAGTAAT 58.889 38.462 0.00 0.00 36.00 1.89
1869 3537 6.727824 ATCTGAATCTTTTGTCCGTGTTAG 57.272 37.500 0.00 0.00 0.00 2.34
1870 3538 4.994852 TCTGAATCTTTTGTCCGTGTTAGG 59.005 41.667 0.00 0.00 0.00 2.69
1871 3539 4.710324 TGAATCTTTTGTCCGTGTTAGGT 58.290 39.130 0.00 0.00 0.00 3.08
1893 3561 8.730093 AGGTATTTTAGGGTATGTTTGGTTTT 57.270 30.769 0.00 0.00 0.00 2.43
1976 3644 5.765510 TGCCCATGAATTAGTCAAAGGTAT 58.234 37.500 0.00 0.00 40.50 2.73
1998 3666 7.335924 GGTATGCAAGGAAAATGACTTAGTGTA 59.664 37.037 0.00 0.00 0.00 2.90
2010 3678 3.676093 ACTTAGTGTAAGCAAAGAGGCC 58.324 45.455 0.00 0.00 39.39 5.19
2020 3688 0.169672 CAAAGAGGCCTTGACATGCG 59.830 55.000 6.77 0.00 31.91 4.73
2150 7151 6.528537 TGAATGGTTAGTTGGATGGATTTG 57.471 37.500 0.00 0.00 0.00 2.32
2169 7170 6.708054 GGATTTGGTATATCACTTCTGACAGG 59.292 42.308 1.81 0.00 0.00 4.00
2309 7332 5.169992 TGGTGAATGAGTCATTGACAGAT 57.830 39.130 28.93 4.54 39.15 2.90
2358 7381 8.454106 GTCTATAGCAACATCTGTCATTTTGTT 58.546 33.333 0.00 0.00 32.76 2.83
2361 7384 4.341806 AGCAACATCTGTCATTTTGTTCCA 59.658 37.500 0.00 0.00 30.23 3.53
2371 7394 9.739276 TCTGTCATTTTGTTCCATATAGAAAGT 57.261 29.630 0.00 0.00 0.00 2.66
2372 7395 9.778993 CTGTCATTTTGTTCCATATAGAAAGTG 57.221 33.333 0.00 0.00 0.00 3.16
2381 7404 9.162764 TGTTCCATATAGAAAGTGAAGCTTAAC 57.837 33.333 5.74 5.74 36.17 2.01
2398 7421 9.813080 GAAGCTTAACTTTATGTGTGTTAGAAG 57.187 33.333 0.00 0.00 39.29 2.85
2485 7516 9.944376 AAAGAGATAAACAGTAATCTGCTTGTA 57.056 29.630 3.55 0.00 44.77 2.41
2502 7533 8.367156 TCTGCTTGTAAATAAATTGCTTTTCCT 58.633 29.630 0.00 0.00 0.00 3.36
2570 7601 3.236816 GACATTGTTCATCCAAAGCACG 58.763 45.455 0.00 0.00 0.00 5.34
3038 8271 3.312421 CAGTAGGGTATTTGCATCGGTTG 59.688 47.826 0.00 0.00 0.00 3.77
3241 8474 5.474876 ACCATCATTCTCTGAACTTCCAAAC 59.525 40.000 0.00 0.00 37.44 2.93
3275 8508 2.263741 CCCACCAGCAAGCACTGAC 61.264 63.158 3.24 0.00 40.25 3.51
3277 8510 1.595109 CACCAGCAAGCACTGACGA 60.595 57.895 3.24 0.00 40.25 4.20
3288 8521 1.599542 GCACTGACGAGCTGAAAACTT 59.400 47.619 0.00 0.00 0.00 2.66
3310 8543 6.207417 ACTTGGGCAGCAATATTGATATGTAC 59.793 38.462 19.73 10.71 0.00 2.90
3311 8544 5.879763 TGGGCAGCAATATTGATATGTACT 58.120 37.500 19.73 1.81 0.00 2.73
3312 8545 5.939883 TGGGCAGCAATATTGATATGTACTC 59.060 40.000 19.73 1.78 0.00 2.59
3313 8546 5.355350 GGGCAGCAATATTGATATGTACTCC 59.645 44.000 19.73 9.62 0.00 3.85
3314 8547 5.355350 GGCAGCAATATTGATATGTACTCCC 59.645 44.000 19.73 0.68 0.00 4.30
3315 8548 6.176183 GCAGCAATATTGATATGTACTCCCT 58.824 40.000 19.73 0.00 0.00 4.20
3316 8549 6.314896 GCAGCAATATTGATATGTACTCCCTC 59.685 42.308 19.73 0.00 0.00 4.30
3317 8550 7.619050 CAGCAATATTGATATGTACTCCCTCT 58.381 38.462 19.73 0.00 0.00 3.69
3318 8551 7.548427 CAGCAATATTGATATGTACTCCCTCTG 59.452 40.741 19.73 7.45 0.00 3.35
3319 8552 7.236432 AGCAATATTGATATGTACTCCCTCTGT 59.764 37.037 19.73 0.00 0.00 3.41
3320 8553 8.531982 GCAATATTGATATGTACTCCCTCTGTA 58.468 37.037 19.73 0.00 0.00 2.74
3321 8554 9.862371 CAATATTGATATGTACTCCCTCTGTAC 57.138 37.037 10.04 0.00 40.27 2.90
3322 8555 6.919775 ATTGATATGTACTCCCTCTGTACC 57.080 41.667 0.00 0.00 39.42 3.34
3323 8556 5.397553 TGATATGTACTCCCTCTGTACCA 57.602 43.478 0.00 0.00 39.42 3.25
3324 8557 5.773091 TGATATGTACTCCCTCTGTACCAA 58.227 41.667 0.00 0.00 39.42 3.67
3325 8558 6.199376 TGATATGTACTCCCTCTGTACCAAA 58.801 40.000 0.00 0.00 39.42 3.28
3326 8559 6.670464 TGATATGTACTCCCTCTGTACCAAAA 59.330 38.462 0.00 0.00 39.42 2.44
3327 8560 7.347222 TGATATGTACTCCCTCTGTACCAAAAT 59.653 37.037 0.00 0.00 39.42 1.82
3328 8561 8.792830 ATATGTACTCCCTCTGTACCAAAATA 57.207 34.615 0.00 0.00 39.42 1.40
3329 8562 6.290294 TGTACTCCCTCTGTACCAAAATAC 57.710 41.667 0.00 0.00 39.42 1.89
3330 8563 6.021030 TGTACTCCCTCTGTACCAAAATACT 58.979 40.000 0.00 0.00 39.42 2.12
3331 8564 6.499350 TGTACTCCCTCTGTACCAAAATACTT 59.501 38.462 0.00 0.00 39.42 2.24
3332 8565 5.805728 ACTCCCTCTGTACCAAAATACTTG 58.194 41.667 0.00 0.00 0.00 3.16
3333 8566 5.309806 ACTCCCTCTGTACCAAAATACTTGT 59.690 40.000 0.00 0.00 0.00 3.16
3334 8567 5.801380 TCCCTCTGTACCAAAATACTTGTC 58.199 41.667 0.00 0.00 0.00 3.18
3335 8568 4.630069 CCCTCTGTACCAAAATACTTGTCG 59.370 45.833 0.00 0.00 0.00 4.35
3336 8569 5.235516 CCTCTGTACCAAAATACTTGTCGT 58.764 41.667 0.00 0.00 0.00 4.34
3337 8570 5.699458 CCTCTGTACCAAAATACTTGTCGTT 59.301 40.000 0.00 0.00 0.00 3.85
3338 8571 6.347402 CCTCTGTACCAAAATACTTGTCGTTG 60.347 42.308 0.00 0.00 0.00 4.10
3339 8572 5.467399 TCTGTACCAAAATACTTGTCGTTGG 59.533 40.000 0.00 0.00 43.60 3.77
3340 8573 4.515944 TGTACCAAAATACTTGTCGTTGGG 59.484 41.667 5.78 3.06 42.52 4.12
3341 8574 2.888414 ACCAAAATACTTGTCGTTGGGG 59.112 45.455 5.78 0.00 42.52 4.96
3342 8575 3.150767 CCAAAATACTTGTCGTTGGGGA 58.849 45.455 0.00 0.00 36.00 4.81
3343 8576 3.570550 CCAAAATACTTGTCGTTGGGGAA 59.429 43.478 0.00 0.00 36.00 3.97
3344 8577 4.038162 CCAAAATACTTGTCGTTGGGGAAA 59.962 41.667 0.00 0.00 36.00 3.13
3345 8578 5.452077 CCAAAATACTTGTCGTTGGGGAAAA 60.452 40.000 0.00 0.00 36.00 2.29
3346 8579 4.841443 AATACTTGTCGTTGGGGAAAAC 57.159 40.909 0.00 0.00 0.00 2.43
3347 8580 1.395635 ACTTGTCGTTGGGGAAAACC 58.604 50.000 0.00 0.00 39.11 3.27
3348 8581 1.341187 ACTTGTCGTTGGGGAAAACCA 60.341 47.619 0.00 0.00 42.91 3.67
3349 8582 1.336755 CTTGTCGTTGGGGAAAACCAG 59.663 52.381 0.00 0.00 42.47 4.00
3350 8583 0.256464 TGTCGTTGGGGAAAACCAGT 59.744 50.000 0.00 0.00 42.47 4.00
3351 8584 1.489649 TGTCGTTGGGGAAAACCAGTA 59.510 47.619 0.00 0.00 42.47 2.74
3352 8585 1.875514 GTCGTTGGGGAAAACCAGTAC 59.124 52.381 0.00 0.00 42.47 2.73
3353 8586 1.489649 TCGTTGGGGAAAACCAGTACA 59.510 47.619 0.00 0.00 42.47 2.90
3354 8587 2.092538 TCGTTGGGGAAAACCAGTACAA 60.093 45.455 0.00 0.00 42.47 2.41
3355 8588 2.292292 CGTTGGGGAAAACCAGTACAAG 59.708 50.000 0.00 0.00 42.47 3.16
3356 8589 3.293337 GTTGGGGAAAACCAGTACAAGT 58.707 45.455 0.00 0.00 42.47 3.16
3357 8590 3.673543 TGGGGAAAACCAGTACAAGTT 57.326 42.857 0.00 0.00 42.91 2.66
3358 8591 3.558033 TGGGGAAAACCAGTACAAGTTC 58.442 45.455 0.00 0.00 42.91 3.01
3359 8592 2.889045 GGGGAAAACCAGTACAAGTTCC 59.111 50.000 0.00 0.73 42.91 3.62
3360 8593 2.889045 GGGAAAACCAGTACAAGTTCCC 59.111 50.000 13.69 13.69 45.45 3.97
3361 8594 2.889045 GGAAAACCAGTACAAGTTCCCC 59.111 50.000 0.00 0.07 0.00 4.81
3362 8595 2.670019 AAACCAGTACAAGTTCCCCC 57.330 50.000 0.00 0.00 0.00 5.40
3363 8596 1.525175 AACCAGTACAAGTTCCCCCA 58.475 50.000 0.00 0.00 0.00 4.96
3364 8597 1.064825 ACCAGTACAAGTTCCCCCAG 58.935 55.000 0.00 0.00 0.00 4.45
3365 8598 0.322546 CCAGTACAAGTTCCCCCAGC 60.323 60.000 0.00 0.00 0.00 4.85
3366 8599 0.673644 CAGTACAAGTTCCCCCAGCG 60.674 60.000 0.00 0.00 0.00 5.18
3367 8600 0.834687 AGTACAAGTTCCCCCAGCGA 60.835 55.000 0.00 0.00 0.00 4.93
3368 8601 0.672711 GTACAAGTTCCCCCAGCGAC 60.673 60.000 0.00 0.00 0.00 5.19
3369 8602 1.122632 TACAAGTTCCCCCAGCGACA 61.123 55.000 0.00 0.00 0.00 4.35
3370 8603 1.228124 CAAGTTCCCCCAGCGACAA 60.228 57.895 0.00 0.00 0.00 3.18
3371 8604 1.073199 AAGTTCCCCCAGCGACAAG 59.927 57.895 0.00 0.00 0.00 3.16
3372 8605 1.705997 AAGTTCCCCCAGCGACAAGT 61.706 55.000 0.00 0.00 0.00 3.16
3373 8606 0.834687 AGTTCCCCCAGCGACAAGTA 60.835 55.000 0.00 0.00 0.00 2.24
3374 8607 0.252197 GTTCCCCCAGCGACAAGTAT 59.748 55.000 0.00 0.00 0.00 2.12
3375 8608 0.988832 TTCCCCCAGCGACAAGTATT 59.011 50.000 0.00 0.00 0.00 1.89
3389 8622 4.819105 CAAGTATTGTGGTACAGAGGGA 57.181 45.455 0.00 0.00 42.34 4.20
3390 8623 4.759782 CAAGTATTGTGGTACAGAGGGAG 58.240 47.826 0.00 0.00 42.34 4.30
3391 8624 4.062490 AGTATTGTGGTACAGAGGGAGT 57.938 45.455 0.00 0.00 41.80 3.85
3392 8625 5.202746 AGTATTGTGGTACAGAGGGAGTA 57.797 43.478 0.00 0.00 41.80 2.59
3393 8626 5.778542 AGTATTGTGGTACAGAGGGAGTAT 58.221 41.667 0.00 0.00 41.80 2.12
3394 8627 5.598830 AGTATTGTGGTACAGAGGGAGTATG 59.401 44.000 0.00 0.00 41.80 2.39
3395 8628 3.468071 TGTGGTACAGAGGGAGTATGT 57.532 47.619 0.00 0.00 41.80 2.29
3396 8629 4.596354 TGTGGTACAGAGGGAGTATGTA 57.404 45.455 0.00 0.00 41.80 2.29
3437 9083 3.279434 CCCATTTACTGGTACAAGAGGC 58.721 50.000 3.64 0.00 44.30 4.70
3454 9100 7.856415 ACAAGAGGCTATCAGAAGTCTAAAAT 58.144 34.615 0.00 0.00 29.59 1.82
3537 9183 6.879458 AGTAGTATCCTGGAACATTTTGTGAC 59.121 38.462 0.00 0.00 38.20 3.67
3647 9293 4.091800 CCATCCATTTTCAACGTGAAATGC 59.908 41.667 19.10 0.00 44.75 3.56
3653 9299 0.592637 TCAACGTGAAATGCAGGCAG 59.407 50.000 0.00 0.00 35.84 4.85
3667 9313 2.415090 GCAGGCAGTAAATGTGAAGCAG 60.415 50.000 0.00 0.00 0.00 4.24
3686 9332 1.849039 AGCTTAGGGCATCTCCAATGT 59.151 47.619 0.00 0.00 44.79 2.71
3712 9358 1.202359 CCAAAACCAAACCAGACACCG 60.202 52.381 0.00 0.00 0.00 4.94
3728 9374 1.292223 CCGTATCCATCCGCGGATT 59.708 57.895 37.36 25.39 43.58 3.01
3775 9421 2.830370 GGAGCCGGCCATCCAAAG 60.830 66.667 25.72 0.00 35.54 2.77
3801 9447 1.065418 CCCTAAATGTCCGCTCAGGTT 60.065 52.381 0.00 0.00 41.99 3.50
3915 9564 6.993786 TCACAAAATAATATCAGTTCGGCA 57.006 33.333 0.00 0.00 0.00 5.69
3918 9567 7.120579 TCACAAAATAATATCAGTTCGGCAGTT 59.879 33.333 0.00 0.00 0.00 3.16
3922 9571 4.380841 AATATCAGTTCGGCAGTTCGTA 57.619 40.909 0.00 0.00 0.00 3.43
3927 9576 2.478894 CAGTTCGGCAGTTCGTACAAAT 59.521 45.455 0.00 0.00 33.82 2.32
3944 9597 8.332464 TCGTACAAATAATTAGATTTTCTGCCG 58.668 33.333 0.00 0.00 0.00 5.69
3952 9605 3.048337 AGATTTTCTGCCGTACCGAAA 57.952 42.857 0.00 0.00 0.00 3.46
3953 9606 3.606687 AGATTTTCTGCCGTACCGAAAT 58.393 40.909 0.00 0.00 0.00 2.17
3961 9614 1.663695 CCGTACCGAAATGGCAATCT 58.336 50.000 0.00 0.00 43.94 2.40
4004 9657 2.592308 GCCTCCAGCCGATCCTTT 59.408 61.111 0.00 0.00 34.35 3.11
4010 9663 2.040544 CAGCCGATCCTTTTGCCGT 61.041 57.895 0.00 0.00 0.00 5.68
4039 9696 2.202690 CGGACGGCTTGCACGATA 60.203 61.111 1.86 0.00 34.93 2.92
4159 9816 5.877012 GGTATTCTTCTCTTCAAGCATGACA 59.123 40.000 0.00 0.00 34.61 3.58
4170 9843 6.713903 TCTTCAAGCATGACATTCTTCTCTTT 59.286 34.615 0.00 0.00 34.61 2.52
4186 9859 8.738645 TCTTCTCTTTAAGTTTGAGCTTCTTT 57.261 30.769 0.00 0.00 0.00 2.52
4189 9862 8.506168 TCTCTTTAAGTTTGAGCTTCTTTTCA 57.494 30.769 0.00 0.00 0.00 2.69
4218 9891 4.082787 CGCCATCAACATGTTAAACCTCTT 60.083 41.667 11.53 0.00 0.00 2.85
4261 9941 2.267324 GAGCGCTTGCCTCCTTCT 59.733 61.111 13.26 0.00 40.41 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 3.055094 CCATCTAGCCCGCATATTTACCT 60.055 47.826 0.00 0.00 0.00 3.08
128 129 4.151070 GCGCCATGTCAACATTATAATCG 58.849 43.478 0.00 0.00 33.61 3.34
233 234 1.334869 CCGCCAGCTTGATGGATTTAC 59.665 52.381 9.28 0.00 43.57 2.01
387 388 1.480954 GTCGGCCTCTAGAATGAACCA 59.519 52.381 0.00 0.00 0.00 3.67
505 511 5.278610 CCTTGCATGATCACTTGAAGTTCAA 60.279 40.000 17.16 17.16 34.79 2.69
545 551 2.104967 ACGGAAAGGGTCGTATGATGA 58.895 47.619 0.00 0.00 37.88 2.92
561 567 1.008194 CCGACTGAACGACAACGGA 60.008 57.895 18.19 0.00 44.61 4.69
600 609 6.348950 CGAACCAAAGTATTGTTTGATAGGCA 60.349 38.462 0.00 0.00 39.40 4.75
615 624 2.543777 TAAGCTGAGCGAACCAAAGT 57.456 45.000 0.00 0.00 0.00 2.66
701 710 2.076863 GCAACTCTATTCTGGCAACGT 58.923 47.619 0.00 0.00 42.51 3.99
723 732 3.396260 GCTATAGTTGGCCAACCGATA 57.604 47.619 38.80 32.07 42.06 2.92
797 806 1.066573 CAGTCGAGAGGCCACAAATCT 60.067 52.381 5.01 0.00 35.23 2.40
865 874 6.470235 GGTTATGTTCTTTGCGATGAAATCAG 59.530 38.462 3.93 0.00 45.97 2.90
866 875 6.150976 AGGTTATGTTCTTTGCGATGAAATCA 59.849 34.615 3.93 0.54 45.97 2.57
867 876 6.555315 AGGTTATGTTCTTTGCGATGAAATC 58.445 36.000 3.93 0.00 40.89 2.17
868 877 6.375455 AGAGGTTATGTTCTTTGCGATGAAAT 59.625 34.615 3.93 4.03 0.00 2.17
869 878 5.705441 AGAGGTTATGTTCTTTGCGATGAAA 59.295 36.000 3.93 0.00 0.00 2.69
870 879 5.122239 CAGAGGTTATGTTCTTTGCGATGAA 59.878 40.000 0.00 0.00 0.00 2.57
871 880 4.631377 CAGAGGTTATGTTCTTTGCGATGA 59.369 41.667 0.00 0.00 0.00 2.92
872 881 4.393062 ACAGAGGTTATGTTCTTTGCGATG 59.607 41.667 0.00 0.00 0.00 3.84
873 882 4.579869 ACAGAGGTTATGTTCTTTGCGAT 58.420 39.130 0.00 0.00 0.00 4.58
874 883 3.994392 GACAGAGGTTATGTTCTTTGCGA 59.006 43.478 0.00 0.00 0.00 5.10
875 884 3.125316 GGACAGAGGTTATGTTCTTTGCG 59.875 47.826 0.00 0.00 0.00 4.85
876 885 4.327680 AGGACAGAGGTTATGTTCTTTGC 58.672 43.478 0.00 0.00 32.31 3.68
877 886 5.875359 GGTAGGACAGAGGTTATGTTCTTTG 59.125 44.000 0.00 0.00 37.65 2.77
878 887 5.045797 GGGTAGGACAGAGGTTATGTTCTTT 60.046 44.000 0.00 0.00 37.65 2.52
879 888 4.470304 GGGTAGGACAGAGGTTATGTTCTT 59.530 45.833 0.00 0.00 37.65 2.52
880 889 4.031611 GGGTAGGACAGAGGTTATGTTCT 58.968 47.826 0.00 0.00 39.82 3.01
881 890 4.031611 AGGGTAGGACAGAGGTTATGTTC 58.968 47.826 0.00 0.00 0.00 3.18
917 926 4.161565 AGGTGAGCTGACCGAAATATGTTA 59.838 41.667 17.19 0.00 41.35 2.41
1037 2695 0.461870 TCGATGGTGCCCGAAGATTG 60.462 55.000 0.00 0.00 0.00 2.67
1123 2781 4.838152 CCTCATGACACCGGCGGG 62.838 72.222 31.78 21.03 40.11 6.13
1453 3111 1.043816 AATCGAGCGACATGGATCCT 58.956 50.000 14.23 0.00 0.00 3.24
1473 3131 7.166691 AGAAATTAACTAAGTCTAGTGCCGA 57.833 36.000 0.00 0.00 38.43 5.54
1707 3365 8.644374 ATTCATAGGTAAAAGCCAACAGTAAA 57.356 30.769 0.00 0.00 0.00 2.01
1737 3395 8.458052 TGTGTAATCAAAGTATATGCAAACCTG 58.542 33.333 0.00 0.00 0.00 4.00
1758 3416 9.816354 TTCATCTCTGAATTCGAATATTGTGTA 57.184 29.630 11.83 0.00 36.46 2.90
1767 3425 6.419116 CGAATAGCTTCATCTCTGAATTCGAA 59.581 38.462 13.09 0.00 44.79 3.71
1773 3431 4.646945 ACCTCGAATAGCTTCATCTCTGAA 59.353 41.667 0.00 0.00 39.07 3.02
1791 3449 3.931468 TCTAGAACGACTAAGTGACCTCG 59.069 47.826 0.00 0.00 0.00 4.63
1794 3462 6.734104 TTACTCTAGAACGACTAAGTGACC 57.266 41.667 0.00 0.00 0.00 4.02
1818 3486 3.822167 TGCATTGCTCATCAGAACTTGAA 59.178 39.130 10.49 0.00 39.77 2.69
1861 3529 6.585416 ACATACCCTAAAATACCTAACACGG 58.415 40.000 0.00 0.00 0.00 4.94
1870 3538 9.577110 GCTAAAACCAAACATACCCTAAAATAC 57.423 33.333 0.00 0.00 0.00 1.89
1871 3539 8.751242 GGCTAAAACCAAACATACCCTAAAATA 58.249 33.333 0.00 0.00 0.00 1.40
1893 3561 1.525941 GTACGGCAAACTTTGGGCTA 58.474 50.000 3.69 0.00 0.00 3.93
1976 3644 6.293955 GCTTACACTAAGTCATTTTCCTTGCA 60.294 38.462 0.00 0.00 38.07 4.08
1998 3666 1.891150 CATGTCAAGGCCTCTTTGCTT 59.109 47.619 5.23 0.00 0.00 3.91
2010 3678 3.493877 TGCCAAATTTTTCGCATGTCAAG 59.506 39.130 0.00 0.00 29.42 3.02
2020 3688 3.415457 TGGATGGGTGCCAAATTTTTC 57.585 42.857 0.00 0.00 36.95 2.29
2066 3735 5.536497 ATCTACCCTCCCAACTTTTTGAT 57.464 39.130 0.00 0.00 34.24 2.57
2150 7151 3.643792 AGCCCTGTCAGAAGTGATATACC 59.356 47.826 0.00 0.00 34.36 2.73
2169 7170 4.280929 ACAACCAATCCTGTCTTTAAAGCC 59.719 41.667 10.51 0.00 0.00 4.35
2309 7332 8.143193 AGACAAAATAAGAAACATCACATGCAA 58.857 29.630 0.00 0.00 0.00 4.08
2358 7381 9.959721 AAAGTTAAGCTTCACTTTCTATATGGA 57.040 29.630 25.94 0.00 38.59 3.41
2371 7394 8.896320 TCTAACACACATAAAGTTAAGCTTCA 57.104 30.769 0.00 0.00 36.17 3.02
2372 7395 9.813080 CTTCTAACACACATAAAGTTAAGCTTC 57.187 33.333 0.00 0.00 36.17 3.86
2381 7404 7.201644 CCATACTGCCTTCTAACACACATAAAG 60.202 40.741 0.00 0.00 0.00 1.85
2385 7408 4.517285 CCATACTGCCTTCTAACACACAT 58.483 43.478 0.00 0.00 0.00 3.21
2389 7412 1.933853 CGCCATACTGCCTTCTAACAC 59.066 52.381 0.00 0.00 0.00 3.32
2398 7421 2.114670 ACATGCACGCCATACTGCC 61.115 57.895 0.00 0.00 31.47 4.85
2448 7471 7.509546 ACTGTTTATCTCTTTCTTCAGGTCAA 58.490 34.615 0.00 0.00 0.00 3.18
2485 7516 8.145122 TGAAACGGTAGGAAAAGCAATTTATTT 58.855 29.630 0.00 0.00 0.00 1.40
2502 7533 3.788333 CCGGAAGATACTGAAACGGTA 57.212 47.619 0.00 0.00 35.47 4.02
2753 7986 4.201685 GCATGTGCTCATTGCTTCAAATTC 60.202 41.667 0.00 0.00 43.37 2.17
2790 8023 1.291132 GCTGGTCTGCGGTTCTATTC 58.709 55.000 0.00 0.00 0.00 1.75
2820 8053 4.054780 TCTGCAAAACGAAGACTACAGT 57.945 40.909 0.00 0.00 0.00 3.55
2971 8204 4.275689 GGGCAAAGGGAAAACAAAGAAATG 59.724 41.667 0.00 0.00 0.00 2.32
3169 8402 1.298859 GGGTCAGAATGTGTGCGGTC 61.299 60.000 0.00 0.00 37.40 4.79
3241 8474 4.599041 TGGTGGGAATATTTTCTGGTCTG 58.401 43.478 0.00 0.00 32.16 3.51
3275 8508 0.239347 CTGCCCAAGTTTTCAGCTCG 59.761 55.000 0.00 0.00 0.00 5.03
3277 8510 2.044452 GCTGCCCAAGTTTTCAGCT 58.956 52.632 11.46 0.00 46.00 4.24
3288 8521 5.879763 AGTACATATCAATATTGCTGCCCA 58.120 37.500 10.76 0.00 0.00 5.36
3310 8543 5.805728 ACAAGTATTTTGGTACAGAGGGAG 58.194 41.667 0.00 0.00 42.39 4.30
3311 8544 5.568023 CGACAAGTATTTTGGTACAGAGGGA 60.568 44.000 0.00 0.00 42.39 4.20
3312 8545 4.630069 CGACAAGTATTTTGGTACAGAGGG 59.370 45.833 0.00 0.00 42.39 4.30
3313 8546 5.235516 ACGACAAGTATTTTGGTACAGAGG 58.764 41.667 0.00 0.00 42.39 3.69
3314 8547 6.347402 CCAACGACAAGTATTTTGGTACAGAG 60.347 42.308 0.00 0.00 42.39 3.35
3315 8548 5.467399 CCAACGACAAGTATTTTGGTACAGA 59.533 40.000 0.00 0.00 42.39 3.41
3316 8549 5.334569 CCCAACGACAAGTATTTTGGTACAG 60.335 44.000 0.00 0.00 42.39 2.74
3317 8550 4.515944 CCCAACGACAAGTATTTTGGTACA 59.484 41.667 0.00 0.00 35.85 2.90
3318 8551 4.083164 CCCCAACGACAAGTATTTTGGTAC 60.083 45.833 0.00 0.00 35.85 3.34
3319 8552 4.073549 CCCCAACGACAAGTATTTTGGTA 58.926 43.478 0.00 0.00 35.85 3.25
3320 8553 2.888414 CCCCAACGACAAGTATTTTGGT 59.112 45.455 0.00 0.00 35.85 3.67
3321 8554 3.150767 TCCCCAACGACAAGTATTTTGG 58.849 45.455 0.00 0.00 37.13 3.28
3322 8555 4.839668 TTCCCCAACGACAAGTATTTTG 57.160 40.909 0.00 0.00 0.00 2.44
3323 8556 5.452216 GGTTTTCCCCAACGACAAGTATTTT 60.452 40.000 0.00 0.00 0.00 1.82
3324 8557 4.038282 GGTTTTCCCCAACGACAAGTATTT 59.962 41.667 0.00 0.00 0.00 1.40
3325 8558 3.570975 GGTTTTCCCCAACGACAAGTATT 59.429 43.478 0.00 0.00 0.00 1.89
3326 8559 3.151554 GGTTTTCCCCAACGACAAGTAT 58.848 45.455 0.00 0.00 0.00 2.12
3327 8560 2.092538 TGGTTTTCCCCAACGACAAGTA 60.093 45.455 0.00 0.00 39.73 2.24
3328 8561 1.341187 TGGTTTTCCCCAACGACAAGT 60.341 47.619 0.00 0.00 39.73 3.16
3329 8562 1.336755 CTGGTTTTCCCCAACGACAAG 59.663 52.381 0.00 0.00 39.73 3.16
3330 8563 1.341187 ACTGGTTTTCCCCAACGACAA 60.341 47.619 0.00 0.00 39.73 3.18
3331 8564 0.256464 ACTGGTTTTCCCCAACGACA 59.744 50.000 0.00 0.00 39.73 4.35
3332 8565 1.875514 GTACTGGTTTTCCCCAACGAC 59.124 52.381 0.00 0.00 39.73 4.34
3333 8566 1.489649 TGTACTGGTTTTCCCCAACGA 59.510 47.619 0.00 0.00 39.73 3.85
3334 8567 1.970092 TGTACTGGTTTTCCCCAACG 58.030 50.000 0.00 0.00 39.73 4.10
3335 8568 3.293337 ACTTGTACTGGTTTTCCCCAAC 58.707 45.455 0.00 0.00 39.73 3.77
3336 8569 3.673543 ACTTGTACTGGTTTTCCCCAA 57.326 42.857 0.00 0.00 39.73 4.12
3337 8570 3.558033 GAACTTGTACTGGTTTTCCCCA 58.442 45.455 0.00 0.00 39.73 4.96
3338 8571 2.889045 GGAACTTGTACTGGTTTTCCCC 59.111 50.000 0.00 0.00 39.73 4.81
3339 8572 2.889045 GGGAACTTGTACTGGTTTTCCC 59.111 50.000 12.54 12.54 44.11 3.97
3340 8573 2.889045 GGGGAACTTGTACTGGTTTTCC 59.111 50.000 0.00 5.64 41.14 3.13
3341 8574 2.889045 GGGGGAACTTGTACTGGTTTTC 59.111 50.000 0.00 0.00 0.00 2.29
3342 8575 2.245287 TGGGGGAACTTGTACTGGTTTT 59.755 45.455 0.00 0.00 0.00 2.43
3343 8576 1.854280 TGGGGGAACTTGTACTGGTTT 59.146 47.619 0.00 0.00 0.00 3.27
3344 8577 1.423921 CTGGGGGAACTTGTACTGGTT 59.576 52.381 0.00 0.00 0.00 3.67
3345 8578 1.064825 CTGGGGGAACTTGTACTGGT 58.935 55.000 0.00 0.00 0.00 4.00
3346 8579 0.322546 GCTGGGGGAACTTGTACTGG 60.323 60.000 0.00 0.00 0.00 4.00
3347 8580 0.673644 CGCTGGGGGAACTTGTACTG 60.674 60.000 0.00 0.00 0.00 2.74
3348 8581 0.834687 TCGCTGGGGGAACTTGTACT 60.835 55.000 0.00 0.00 0.00 2.73
3349 8582 0.672711 GTCGCTGGGGGAACTTGTAC 60.673 60.000 0.00 0.00 0.00 2.90
3350 8583 1.122632 TGTCGCTGGGGGAACTTGTA 61.123 55.000 0.00 0.00 0.00 2.41
3351 8584 1.990160 TTGTCGCTGGGGGAACTTGT 61.990 55.000 0.00 0.00 0.00 3.16
3352 8585 1.228124 TTGTCGCTGGGGGAACTTG 60.228 57.895 0.00 0.00 0.00 3.16
3353 8586 1.073199 CTTGTCGCTGGGGGAACTT 59.927 57.895 0.00 0.00 0.00 2.66
3354 8587 0.834687 TACTTGTCGCTGGGGGAACT 60.835 55.000 0.00 0.00 0.00 3.01
3355 8588 0.252197 ATACTTGTCGCTGGGGGAAC 59.748 55.000 0.00 0.00 0.00 3.62
3356 8589 0.988832 AATACTTGTCGCTGGGGGAA 59.011 50.000 0.00 0.00 0.00 3.97
3357 8590 0.251916 CAATACTTGTCGCTGGGGGA 59.748 55.000 0.00 0.00 0.00 4.81
3358 8591 0.035439 ACAATACTTGTCGCTGGGGG 60.035 55.000 0.00 0.00 40.56 5.40
3359 8592 1.086696 CACAATACTTGTCGCTGGGG 58.913 55.000 0.00 0.00 43.23 4.96
3360 8593 1.086696 CCACAATACTTGTCGCTGGG 58.913 55.000 0.00 0.00 43.23 4.45
3361 8594 1.808411 ACCACAATACTTGTCGCTGG 58.192 50.000 0.00 0.00 43.23 4.85
3362 8595 3.322369 TGTACCACAATACTTGTCGCTG 58.678 45.455 0.00 0.00 43.23 5.18
3363 8596 3.257375 TCTGTACCACAATACTTGTCGCT 59.743 43.478 0.00 0.00 43.23 4.93
3364 8597 3.581755 TCTGTACCACAATACTTGTCGC 58.418 45.455 0.00 0.00 43.23 5.19
3365 8598 4.174009 CCTCTGTACCACAATACTTGTCG 58.826 47.826 0.00 0.00 43.23 4.35
3366 8599 4.222145 TCCCTCTGTACCACAATACTTGTC 59.778 45.833 0.00 0.00 43.23 3.18
3367 8600 4.164981 TCCCTCTGTACCACAATACTTGT 58.835 43.478 0.00 0.00 46.75 3.16
3368 8601 4.223032 ACTCCCTCTGTACCACAATACTTG 59.777 45.833 0.00 0.00 0.00 3.16
3369 8602 4.426704 ACTCCCTCTGTACCACAATACTT 58.573 43.478 0.00 0.00 0.00 2.24
3370 8603 4.062490 ACTCCCTCTGTACCACAATACT 57.938 45.455 0.00 0.00 0.00 2.12
3371 8604 5.363005 ACATACTCCCTCTGTACCACAATAC 59.637 44.000 0.00 0.00 0.00 1.89
3372 8605 5.525484 ACATACTCCCTCTGTACCACAATA 58.475 41.667 0.00 0.00 0.00 1.90
3373 8606 4.362677 ACATACTCCCTCTGTACCACAAT 58.637 43.478 0.00 0.00 0.00 2.71
3374 8607 3.786553 ACATACTCCCTCTGTACCACAA 58.213 45.455 0.00 0.00 0.00 3.33
3375 8608 3.468071 ACATACTCCCTCTGTACCACA 57.532 47.619 0.00 0.00 0.00 4.17
3376 8609 6.127140 ACAATTACATACTCCCTCTGTACCAC 60.127 42.308 0.00 0.00 0.00 4.16
3377 8610 5.962031 ACAATTACATACTCCCTCTGTACCA 59.038 40.000 0.00 0.00 0.00 3.25
3378 8611 6.481434 ACAATTACATACTCCCTCTGTACC 57.519 41.667 0.00 0.00 0.00 3.34
3379 8612 7.146648 GCTACAATTACATACTCCCTCTGTAC 58.853 42.308 0.00 0.00 0.00 2.90
3380 8613 6.837048 TGCTACAATTACATACTCCCTCTGTA 59.163 38.462 0.00 0.00 0.00 2.74
3381 8614 5.661312 TGCTACAATTACATACTCCCTCTGT 59.339 40.000 0.00 0.00 0.00 3.41
3382 8615 6.161855 TGCTACAATTACATACTCCCTCTG 57.838 41.667 0.00 0.00 0.00 3.35
3383 8616 6.808321 TTGCTACAATTACATACTCCCTCT 57.192 37.500 0.00 0.00 0.00 3.69
3384 8617 8.451908 AAATTGCTACAATTACATACTCCCTC 57.548 34.615 6.01 0.00 0.00 4.30
3385 8618 8.823220 AAAATTGCTACAATTACATACTCCCT 57.177 30.769 6.01 0.00 0.00 4.20
3392 8625 8.038351 GGGGTGTAAAAATTGCTACAATTACAT 58.962 33.333 6.01 0.00 36.16 2.29
3393 8626 7.015292 TGGGGTGTAAAAATTGCTACAATTACA 59.985 33.333 6.01 4.88 32.56 2.41
3394 8627 7.379750 TGGGGTGTAAAAATTGCTACAATTAC 58.620 34.615 6.01 2.56 30.11 1.89
3395 8628 7.540474 TGGGGTGTAAAAATTGCTACAATTA 57.460 32.000 6.01 0.00 30.11 1.40
3396 8629 6.426646 TGGGGTGTAAAAATTGCTACAATT 57.573 33.333 0.00 0.00 30.11 2.32
3537 9183 5.545588 TGACTCTGAACTCAAAAGAGGATG 58.454 41.667 4.14 0.00 41.47 3.51
3637 9283 1.890876 TTACTGCCTGCATTTCACGT 58.109 45.000 0.00 0.00 0.00 4.49
3647 9293 2.415090 GCTGCTTCACATTTACTGCCTG 60.415 50.000 0.00 0.00 0.00 4.85
3653 9299 3.181496 GCCCTAAGCTGCTTCACATTTAC 60.181 47.826 19.62 0.00 38.99 2.01
3667 9313 2.355010 ACATTGGAGATGCCCTAAGC 57.645 50.000 0.00 0.00 44.14 3.09
3686 9332 1.834263 CTGGTTTGGTTTTGGGGTCAA 59.166 47.619 0.00 0.00 0.00 3.18
3728 9374 1.773856 TTTGCGGATCAGTCCCACCA 61.774 55.000 0.00 0.00 41.83 4.17
3743 9389 0.308993 GCTCCCGCATCACTATTTGC 59.691 55.000 0.00 0.00 35.78 3.68
3746 9392 1.069765 CGGCTCCCGCATCACTATT 59.930 57.895 0.00 0.00 41.17 1.73
3775 9421 1.092348 GCGGACATTTAGGGGACAAC 58.908 55.000 0.00 0.00 0.00 3.32
3888 9537 8.128582 GCCGAACTGATATTATTTTGTGATCAA 58.871 33.333 0.00 0.00 0.00 2.57
3889 9538 7.281999 TGCCGAACTGATATTATTTTGTGATCA 59.718 33.333 0.00 0.00 0.00 2.92
3912 9561 9.783256 AAAATCTAATTATTTGTACGAACTGCC 57.217 29.630 0.00 0.00 0.00 4.85
3918 9567 8.332464 CGGCAGAAAATCTAATTATTTGTACGA 58.668 33.333 0.00 0.00 0.00 3.43
3922 9571 8.403236 GGTACGGCAGAAAATCTAATTATTTGT 58.597 33.333 0.00 0.00 0.00 2.83
3944 9597 2.032178 GCTCAGATTGCCATTTCGGTAC 59.968 50.000 0.00 0.00 36.97 3.34
3968 9621 2.551270 GCGACAAAGTGAGCGTGG 59.449 61.111 0.00 0.00 0.00 4.94
4010 9663 1.950909 AGCCGTCCGTTTCAATTGAAA 59.049 42.857 26.01 26.01 41.29 2.69
4022 9679 1.151777 ATTATCGTGCAAGCCGTCCG 61.152 55.000 0.00 0.00 0.00 4.79
4026 9683 1.003545 CAAGGATTATCGTGCAAGCCG 60.004 52.381 0.00 0.00 36.55 5.52
4039 9696 2.715749 TGGATGACGATGCAAGGATT 57.284 45.000 0.00 0.00 0.00 3.01
4159 9816 8.916628 AGAAGCTCAAACTTAAAGAGAAGAAT 57.083 30.769 0.00 0.00 0.00 2.40
4170 9843 5.277345 GCGACTGAAAAGAAGCTCAAACTTA 60.277 40.000 0.00 0.00 0.00 2.24
4186 9859 2.032634 GTTGATGGCGGCGACTGAA 61.033 57.895 16.45 0.09 0.00 3.02
4189 9862 2.108514 CATGTTGATGGCGGCGACT 61.109 57.895 16.45 0.00 0.00 4.18
4237 9910 1.703438 GAGGCAAGCGCTCAGACATG 61.703 60.000 12.06 5.02 38.60 3.21


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

AutoCloner maintained by Alex Coulton.