Multiple sequence alignment - TraesCS5B01G030700

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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 TraesCS5B01G030700 chr5B 100.000 5753 0 0 1 5753 34010717 34004965 0.000000e+00 10624.0
1 TraesCS5B01G030700 chr5B 88.538 506 43 5 130 626 34254349 34253850 2.970000e-167 599.0
2 TraesCS5B01G030700 chr5B 86.188 543 52 12 18 550 34591748 34591219 3.010000e-157 566.0
3 TraesCS5B01G030700 chr5B 81.463 588 46 16 2 577 34492653 34492117 1.920000e-114 424.0
4 TraesCS5B01G030700 chr5B 82.609 391 48 9 4 382 34725481 34725099 1.550000e-85 327.0
5 TraesCS5B01G030700 chr5B 88.489 139 14 1 1 137 34562077 34561939 3.570000e-37 167.0
6 TraesCS5B01G030700 chr5B 84.426 122 13 3 4998 5114 34005382 34005262 1.310000e-21 115.0
7 TraesCS5B01G030700 chr5B 84.426 122 13 3 5336 5456 34005720 34005604 1.310000e-21 115.0
8 TraesCS5B01G030700 chr5B 100.000 50 0 0 5065 5114 34005610 34005561 6.140000e-15 93.5
9 TraesCS5B01G030700 chr5B 100.000 50 0 0 5108 5157 34005653 34005604 6.140000e-15 93.5
10 TraesCS5B01G030700 chr5B 100.000 31 0 0 5257 5287 34005364 34005334 2.240000e-04 58.4
11 TraesCS5B01G030700 chr5B 100.000 31 0 0 5354 5384 34005461 34005431 2.240000e-04 58.4
12 TraesCS5B01G030700 chr5B 100.000 30 0 0 5016 5045 34005461 34005432 8.050000e-04 56.5
13 TraesCS5B01G030700 chr5B 100.000 30 0 0 5257 5286 34005702 34005673 8.050000e-04 56.5
14 TraesCS5B01G030700 chr5A 93.228 4297 221 33 876 5114 28674903 28670619 0.000000e+00 6259.0
15 TraesCS5B01G030700 chr5A 86.989 661 37 25 5108 5748 28670668 28670037 0.000000e+00 699.0
16 TraesCS5B01G030700 chr5A 87.782 532 43 9 110 626 28710741 28710217 2.290000e-168 603.0
17 TraesCS5B01G030700 chr5A 82.473 639 56 17 2 626 28897577 28896981 5.140000e-140 508.0
18 TraesCS5B01G030700 chr5D 91.121 2230 133 23 859 3041 40712464 40710253 0.000000e+00 2961.0
19 TraesCS5B01G030700 chr5D 90.851 1410 80 17 3039 4414 40710021 40708627 0.000000e+00 1844.0
20 TraesCS5B01G030700 chr5D 95.448 703 25 2 4413 5114 40708545 40707849 0.000000e+00 1114.0
21 TraesCS5B01G030700 chr5D 87.215 657 49 12 5108 5750 40707898 40707263 0.000000e+00 715.0
22 TraesCS5B01G030700 chr5D 87.623 509 45 6 130 626 40749246 40748744 5.000000e-160 575.0
23 TraesCS5B01G030700 chr5D 88.421 475 38 5 164 626 40721835 40721366 1.810000e-154 556.0
24 TraesCS5B01G030700 chr5D 87.247 494 49 8 2 487 40722345 40721858 8.430000e-153 551.0
25 TraesCS5B01G030700 chr5D 79.878 492 79 9 147 626 40785257 40784774 5.520000e-90 342.0
26 TraesCS5B01G030700 chr5D 82.331 266 30 13 5336 5592 40707966 40707709 1.260000e-51 215.0
27 TraesCS5B01G030700 chr5D 85.047 214 28 4 623 836 40712765 40712556 1.260000e-51 215.0


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 TraesCS5B01G030700 chr5B 34004965 34010717 5752 True 10624.000000 10624 100.000000 1 5753 1 chr5B.!!$R1 5752
1 TraesCS5B01G030700 chr5B 34591219 34591748 529 True 566.000000 566 86.188000 18 550 1 chr5B.!!$R5 532
2 TraesCS5B01G030700 chr5B 34492117 34492653 536 True 424.000000 424 81.463000 2 577 1 chr5B.!!$R3 575
3 TraesCS5B01G030700 chr5A 28670037 28674903 4866 True 3479.000000 6259 90.108500 876 5748 2 chr5A.!!$R3 4872
4 TraesCS5B01G030700 chr5A 28710217 28710741 524 True 603.000000 603 87.782000 110 626 1 chr5A.!!$R1 516
5 TraesCS5B01G030700 chr5A 28896981 28897577 596 True 508.000000 508 82.473000 2 626 1 chr5A.!!$R2 624
6 TraesCS5B01G030700 chr5D 40707263 40712765 5502 True 1177.333333 2961 88.668833 623 5750 6 chr5D.!!$R3 5127
7 TraesCS5B01G030700 chr5D 40748744 40749246 502 True 575.000000 575 87.623000 130 626 1 chr5D.!!$R1 496
8 TraesCS5B01G030700 chr5D 40721366 40722345 979 True 553.500000 556 87.834000 2 626 2 chr5D.!!$R4 624

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
919 1354 0.033781 TAAACAGACGTTGACCGGGG 59.966 55.0 6.32 0.00 42.24 5.73 F
1234 1688 0.178981 ATCAGCATCCCCAATTCCCG 60.179 55.0 0.00 0.00 0.00 5.14 F
2595 3085 0.039618 ACTGGGGTAATGCCACCTTG 59.960 55.0 0.00 0.00 40.99 3.61 F
3254 3979 0.251354 TGAGATTCAGCTGTGGAGGC 59.749 55.0 14.67 1.15 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2179 2649 0.668535 AAAAGGCAGAACCGCAGAAC 59.331 50.0 0.00 0.0 46.52 3.01 R
3153 3878 0.467384 AGATCAGGACAATGGAGCCG 59.533 55.0 0.00 0.0 0.00 5.52 R
4188 4967 0.616679 ACTTTGCCTACCGCCTAGGA 60.617 55.0 14.75 0.0 44.88 2.94 R
5113 5980 0.323629 TCAGGTCGGGGCTTTACAAG 59.676 55.0 0.00 0.0 0.00 3.16 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
232 585 7.696992 AGTGGTTTTCTTGTGTCTTTTTAGA 57.303 32.000 0.00 0.00 0.00 2.10
288 641 3.768757 TCAAATCATGGGGAAATGTGTCC 59.231 43.478 0.00 0.00 36.90 4.02
343 696 7.313646 ACATGTGCATACTCCGTATTAGATAC 58.686 38.462 0.00 0.00 0.00 2.24
384 737 3.119388 CCGATGACCATGAAAATGCTTGT 60.119 43.478 0.00 0.00 0.00 3.16
400 753 4.309933 TGCTTGTGACTGTACTTCTCATG 58.690 43.478 0.00 2.35 0.00 3.07
401 754 4.202253 TGCTTGTGACTGTACTTCTCATGT 60.202 41.667 0.00 0.00 0.00 3.21
402 755 4.752101 GCTTGTGACTGTACTTCTCATGTT 59.248 41.667 0.00 0.00 0.00 2.71
403 756 5.237344 GCTTGTGACTGTACTTCTCATGTTT 59.763 40.000 0.00 0.00 0.00 2.83
404 757 6.238484 GCTTGTGACTGTACTTCTCATGTTTT 60.238 38.462 0.00 0.00 0.00 2.43
405 758 7.624360 TTGTGACTGTACTTCTCATGTTTTT 57.376 32.000 0.00 0.00 0.00 1.94
436 789 4.371786 TGATGGTTTGATACGCTCATCTC 58.628 43.478 0.00 0.00 34.03 2.75
442 795 3.066369 TGATACGCTCATCTCGAACAC 57.934 47.619 0.00 0.00 0.00 3.32
452 805 4.703897 TCATCTCGAACACTCTTGGTTTT 58.296 39.130 0.00 0.00 0.00 2.43
564 930 8.414003 TGTATGATATTTATCAGCGGGAGATAC 58.586 37.037 6.44 2.88 45.01 2.24
565 931 6.850752 TGATATTTATCAGCGGGAGATACA 57.149 37.500 0.00 0.00 37.76 2.29
583 949 7.656137 GGAGATACACAATACACGATATTGGTT 59.344 37.037 20.55 12.93 38.77 3.67
598 964 7.769044 ACGATATTGGTTTGTGCTATAGACTTT 59.231 33.333 3.21 0.00 0.00 2.66
634 1000 2.973419 TTTTATTCACACCGCCGAAC 57.027 45.000 0.00 0.00 0.00 3.95
636 1002 0.035036 TTATTCACACCGCCGAACCA 59.965 50.000 0.00 0.00 0.00 3.67
653 1019 2.282958 ACCGCGGTGGAGAGAAGA 60.283 61.111 33.75 0.00 42.00 2.87
657 1023 1.309950 CGCGGTGGAGAGAAGATAGA 58.690 55.000 0.00 0.00 0.00 1.98
682 1048 3.485463 ACAATTCACTTTCCTCGTCCA 57.515 42.857 0.00 0.00 0.00 4.02
688 1054 4.188247 TCACTTTCCTCGTCCATACTTG 57.812 45.455 0.00 0.00 0.00 3.16
706 1072 2.291843 GTGGCATCACATCGTCGAG 58.708 57.895 0.00 0.00 43.13 4.04
713 1079 4.796231 ACATCGTCGAGCCACCGC 62.796 66.667 0.00 0.00 0.00 5.68
727 1093 2.202932 CCGCGATGGGAGAAGTGG 60.203 66.667 8.23 0.00 0.00 4.00
729 1095 2.190578 GCGATGGGAGAAGTGGGG 59.809 66.667 0.00 0.00 0.00 4.96
730 1096 2.367202 GCGATGGGAGAAGTGGGGA 61.367 63.158 0.00 0.00 0.00 4.81
734 1100 2.554344 CGATGGGAGAAGTGGGGAAAAA 60.554 50.000 0.00 0.00 0.00 1.94
758 1124 8.779354 AAAAAGAGATACATTACTCCACACTC 57.221 34.615 0.00 0.00 34.13 3.51
759 1125 7.726033 AAAGAGATACATTACTCCACACTCT 57.274 36.000 0.00 0.00 34.13 3.24
785 1151 1.757682 TGGACGTTGCCAACTTTCTT 58.242 45.000 5.96 0.00 34.31 2.52
787 1153 1.001706 GGACGTTGCCAACTTTCTTCC 60.002 52.381 5.96 0.40 0.00 3.46
790 1156 2.159296 ACGTTGCCAACTTTCTTCCAAC 60.159 45.455 5.96 0.00 0.00 3.77
791 1157 2.159310 CGTTGCCAACTTTCTTCCAACA 60.159 45.455 5.96 0.00 33.96 3.33
792 1158 3.447742 GTTGCCAACTTTCTTCCAACAG 58.552 45.455 0.00 0.00 34.36 3.16
834 1233 4.393371 GGTTGCAGAAGATTACTCCAGTTC 59.607 45.833 0.00 0.00 0.00 3.01
855 1254 6.473455 AGTTCATCGCTGAAAAACTTTTGAAG 59.527 34.615 2.77 0.00 42.85 3.02
868 1267 5.066968 ACTTTTGAAGACGAAAAGGCAAA 57.933 34.783 10.06 0.00 42.36 3.68
869 1268 5.660460 ACTTTTGAAGACGAAAAGGCAAAT 58.340 33.333 10.06 0.00 42.36 2.32
870 1269 6.801575 ACTTTTGAAGACGAAAAGGCAAATA 58.198 32.000 10.06 0.00 42.36 1.40
872 1271 5.371115 TTGAAGACGAAAAGGCAAATAGG 57.629 39.130 0.00 0.00 0.00 2.57
873 1272 4.394729 TGAAGACGAAAAGGCAAATAGGT 58.605 39.130 0.00 0.00 0.00 3.08
885 1320 3.859411 CAAATAGGTTTGCCCGCTTTA 57.141 42.857 0.00 0.00 38.39 1.85
917 1352 0.780002 CGTAAACAGACGTTGACCGG 59.220 55.000 0.00 0.00 42.24 5.28
919 1354 0.033781 TAAACAGACGTTGACCGGGG 59.966 55.000 6.32 0.00 42.24 5.73
921 1356 1.974973 AACAGACGTTGACCGGGGTT 61.975 55.000 6.32 0.00 42.24 4.11
925 1360 3.047877 CGTTGACCGGGGTTGCTC 61.048 66.667 6.32 0.00 0.00 4.26
1229 1683 1.145738 GGTACCATCAGCATCCCCAAT 59.854 52.381 7.15 0.00 0.00 3.16
1231 1685 2.077687 ACCATCAGCATCCCCAATTC 57.922 50.000 0.00 0.00 0.00 2.17
1234 1688 0.178981 ATCAGCATCCCCAATTCCCG 60.179 55.000 0.00 0.00 0.00 5.14
1247 1702 1.550130 ATTCCCGGTCTCCGCTTCAA 61.550 55.000 0.00 0.00 46.86 2.69
1284 1739 6.274579 CGAAACCCTAAAATACCTCTCTCTC 58.725 44.000 0.00 0.00 0.00 3.20
1473 1928 1.604308 CTGGGCCACATTGTGAGCA 60.604 57.895 18.33 4.67 35.23 4.26
1527 1990 4.530875 CTTCAGATAAAATGGGAGCAGGT 58.469 43.478 0.00 0.00 0.00 4.00
1560 2023 0.453782 GTGCGTGCGATTTGGTTACC 60.454 55.000 0.00 0.00 0.00 2.85
1561 2024 0.604243 TGCGTGCGATTTGGTTACCT 60.604 50.000 2.07 0.00 0.00 3.08
1565 2028 3.634283 CGTGCGATTTGGTTACCTTTTT 58.366 40.909 2.07 0.00 0.00 1.94
1575 2038 7.644986 TTTGGTTACCTTTTTATGCGAATTG 57.355 32.000 2.07 0.00 0.00 2.32
1593 2056 6.203723 GCGAATTGGTGATAGAATTAGAGCTT 59.796 38.462 0.00 0.00 0.00 3.74
1607 2070 3.331478 AGAGCTTGGTTGACATCTCAG 57.669 47.619 0.00 0.00 33.83 3.35
1610 2073 1.808945 GCTTGGTTGACATCTCAGTGG 59.191 52.381 0.00 0.00 0.00 4.00
1716 2180 5.861727 TGTAGTTTTCCTACTCTGGGTTTC 58.138 41.667 0.00 0.00 45.36 2.78
1721 2185 7.395617 AGTTTTCCTACTCTGGGTTTCTATTC 58.604 38.462 0.00 0.00 0.00 1.75
1730 2194 1.810151 GGGTTTCTATTCGCTTGTGCA 59.190 47.619 0.00 0.00 39.64 4.57
1772 2236 0.537143 TGCAAACCGGCAGAGTTGAT 60.537 50.000 0.00 0.00 39.25 2.57
1809 2278 3.648067 TGAGTGTGGAACCTTTGATCTCT 59.352 43.478 0.00 0.00 34.36 3.10
1830 2299 4.040339 TCTCTGGACTAAGTTTGTCATGCA 59.960 41.667 17.34 7.11 36.26 3.96
1831 2300 4.910195 TCTGGACTAAGTTTGTCATGCAT 58.090 39.130 17.34 0.00 36.26 3.96
1863 2333 7.921786 TTACTTTTATGTCTCCAACCAGATG 57.078 36.000 0.00 0.00 0.00 2.90
1907 2377 7.010183 TCGATTCTTAAAACTTTGATAGAGCCG 59.990 37.037 0.00 0.00 0.00 5.52
1928 2398 7.723324 AGCCGTACTTGTAATCATGTTATACT 58.277 34.615 0.00 0.00 34.54 2.12
1934 2404 8.213518 ACTTGTAATCATGTTATACTGCAAGG 57.786 34.615 0.00 0.00 39.30 3.61
1942 2412 6.377996 TCATGTTATACTGCAAGGCTTTTCAT 59.622 34.615 0.00 0.00 39.30 2.57
1983 2453 8.474025 TGAACTTCCATGTAATGTTTGTCTTTT 58.526 29.630 0.00 0.00 44.81 2.27
2117 2587 3.532641 AAATTAGCTGGGGATGGATCC 57.467 47.619 4.20 4.20 46.41 3.36
2147 2617 1.332195 GCTGCAAGGTTTCTCCCTTT 58.668 50.000 0.00 0.00 42.24 3.11
2200 2670 1.519408 TCTGCGGTTCTGCCTTTTAC 58.481 50.000 1.01 0.00 34.25 2.01
2201 2671 1.202710 TCTGCGGTTCTGCCTTTTACA 60.203 47.619 1.01 0.00 34.25 2.41
2204 2674 1.335496 GCGGTTCTGCCTTTTACAACA 59.665 47.619 0.00 0.00 34.25 3.33
2213 2683 9.476202 GTTCTGCCTTTTACAACATTTTTAGAT 57.524 29.630 0.00 0.00 0.00 1.98
2233 2703 8.871629 TTAGATAGAGAAGAGAGACTGTTGTT 57.128 34.615 0.00 0.00 0.00 2.83
2234 2704 7.156876 AGATAGAGAAGAGAGACTGTTGTTG 57.843 40.000 0.00 0.00 0.00 3.33
2242 2712 4.757149 AGAGAGACTGTTGTTGTTTATGCC 59.243 41.667 0.00 0.00 0.00 4.40
2368 2838 3.620488 TCTTGCTGTTCTGAAGGTTTGT 58.380 40.909 0.00 0.00 0.00 2.83
2391 2861 6.547880 TGTAATTGTACTTCTTTTGGCTGGAA 59.452 34.615 0.00 0.00 0.00 3.53
2403 2893 0.453390 GGCTGGAATAGTGCAGTTGC 59.547 55.000 13.32 0.00 44.66 4.17
2429 2919 7.722949 ATGATATGAAGTTGGTTCCATGTTT 57.277 32.000 0.00 0.00 33.75 2.83
2467 2957 1.608055 TGGTTCTGCAGGTTGATGTG 58.392 50.000 15.13 0.00 0.00 3.21
2512 3002 3.357079 CTTGGCACGTCACAGGGC 61.357 66.667 0.00 0.00 40.45 5.19
2515 3005 3.357079 GGCACGTCACAGGGCTTG 61.357 66.667 0.00 0.00 41.08 4.01
2570 3060 4.079958 ACCCTTTAGGATATGAACACACCC 60.080 45.833 0.00 0.00 39.89 4.61
2595 3085 0.039618 ACTGGGGTAATGCCACCTTG 59.960 55.000 0.00 0.00 40.99 3.61
2628 3118 9.362151 TCCATTTTTCTTGTTAGATACCAACTT 57.638 29.630 0.00 0.00 0.00 2.66
2709 3200 6.677781 TTTTAAAGCTCCCTTGATATGTCG 57.322 37.500 0.00 0.00 0.00 4.35
2890 3381 2.863132 TGCCAGTAAATTACACGGGT 57.137 45.000 5.89 0.00 34.18 5.28
2929 3420 9.502091 TGTATGGAACTATGGATAATAACTTGC 57.498 33.333 0.00 0.00 0.00 4.01
2934 3425 7.173390 GGAACTATGGATAATAACTTGCTGGTC 59.827 40.741 0.00 0.00 0.00 4.02
2998 3489 2.626743 GCATGGCTGAATCTATTTGGCT 59.373 45.455 0.00 0.00 0.00 4.75
3027 3518 4.122776 CGTAATCCTTCTTGGTGGATGAG 58.877 47.826 0.00 0.00 41.76 2.90
3066 3791 5.046663 ACCCAAAATGCACCCTAACTAAATG 60.047 40.000 0.00 0.00 0.00 2.32
3081 3806 9.968870 CCTAACTAAATGTCTCCTGTATAACTC 57.031 37.037 0.00 0.00 0.00 3.01
3254 3979 0.251354 TGAGATTCAGCTGTGGAGGC 59.749 55.000 14.67 1.15 0.00 4.70
3321 4052 6.815089 TGCTAAAAGGATTTGTGATGTGTTT 58.185 32.000 0.00 0.00 39.02 2.83
3340 4079 1.109920 TCGACTGCAGGGAGATAGGC 61.110 60.000 19.93 0.00 0.00 3.93
3388 4140 1.663695 AATTTGCGTCCCTCCATACG 58.336 50.000 0.00 0.00 41.92 3.06
3412 4164 7.013942 ACGTAGAAATACATCACAGGCATACTA 59.986 37.037 0.00 0.00 0.00 1.82
3415 4167 7.212976 AGAAATACATCACAGGCATACTACAG 58.787 38.462 0.00 0.00 0.00 2.74
3425 4177 2.483889 GGCATACTACAGCAACCTCCTC 60.484 54.545 0.00 0.00 0.00 3.71
3440 4192 6.682861 GCAACCTCCTCTTGCTTTTAAAAGAA 60.683 38.462 28.11 17.69 40.79 2.52
3506 4258 8.746530 AGATCAAATTTTCAGTGTGCATATCTT 58.253 29.630 0.00 0.00 0.00 2.40
3516 4268 2.749076 TGTGCATATCTTGTGGTTCAGC 59.251 45.455 0.00 0.00 0.00 4.26
3559 4311 1.410083 GCACCAGCCCATTAATCCTCA 60.410 52.381 0.00 0.00 33.58 3.86
3563 4315 4.222588 CACCAGCCCATTAATCCTCAAAAA 59.777 41.667 0.00 0.00 0.00 1.94
3564 4316 5.032170 ACCAGCCCATTAATCCTCAAAAAT 58.968 37.500 0.00 0.00 0.00 1.82
3584 4337 2.785562 TGTTGGGGTGTAACTATGTGC 58.214 47.619 0.00 0.00 36.74 4.57
3591 4344 4.874396 GGGGTGTAACTATGTGCTTCTTAC 59.126 45.833 0.00 0.00 36.74 2.34
3609 4362 8.471609 GCTTCTTACTCTACTGTTCCTCTTATT 58.528 37.037 0.00 0.00 0.00 1.40
3622 4375 7.741785 TGTTCCTCTTATTACTTCTGTTCCAA 58.258 34.615 0.00 0.00 0.00 3.53
3686 4439 5.126061 ACAATTCATTGACCACATAAGCTCC 59.874 40.000 6.53 0.00 40.14 4.70
3876 4632 6.721208 TGCTGAAGATATTTTGTTTTCCCTCT 59.279 34.615 0.00 0.00 0.00 3.69
3898 4660 6.582636 TCTTGTTGTCTGTCTTGACTATTGT 58.417 36.000 2.35 0.00 37.79 2.71
3906 4668 1.009829 CTTGACTATTGTGGCGCCTC 58.990 55.000 29.70 25.38 0.00 4.70
3932 4694 2.874014 TCCTTTTGTCACATGGCATGA 58.126 42.857 32.74 10.84 0.00 3.07
3939 4701 6.587206 TTTGTCACATGGCATGATTTAGAA 57.413 33.333 32.74 15.64 0.00 2.10
3973 4735 6.768029 TTTTGCACAATGAAATCAAGTAGC 57.232 33.333 0.00 0.00 0.00 3.58
3993 4760 9.612620 AAGTAGCGAATAATATTTGCAATAAGC 57.387 29.630 22.92 9.17 45.96 3.09
4099 4866 1.322442 AAGCCCTGTTTTCTCTGTGC 58.678 50.000 0.00 0.00 0.00 4.57
4254 5033 2.746279 TTTTCTGCCTTGGTTCTCCA 57.254 45.000 0.00 0.00 42.66 3.86
4303 5083 0.445436 CTCAAGCACATTCGCTGTCC 59.555 55.000 0.00 0.00 42.89 4.02
4393 5173 4.213482 ACAGCAACTTCGTCAAACCTATTC 59.787 41.667 0.00 0.00 0.00 1.75
4446 5309 2.619646 TCGCCAGCTTGATATGTACGTA 59.380 45.455 0.00 0.00 0.00 3.57
4467 5330 5.755375 CGTAACCTAGATTGACATGATGCTT 59.245 40.000 0.00 0.00 0.00 3.91
4468 5331 6.292542 CGTAACCTAGATTGACATGATGCTTG 60.293 42.308 0.00 0.00 0.00 4.01
4563 5426 2.238144 CCAATGGACCATCTCTCAGTGT 59.762 50.000 7.63 0.00 0.00 3.55
4690 5553 0.689412 TGCCATCCCTATCGACACCA 60.689 55.000 0.00 0.00 0.00 4.17
5045 5912 1.133513 ACAAACCTGGGCATTGACTGA 60.134 47.619 13.72 0.00 0.00 3.41
5099 5966 1.743394 CCCCGACCTGAAAATGCTAAC 59.257 52.381 0.00 0.00 0.00 2.34
5122 5989 3.288484 GCCCAGGCCTTGTAAAGC 58.712 61.111 0.00 0.00 44.44 3.51
5123 5990 2.351244 GCCCAGGCCTTGTAAAGCC 61.351 63.158 0.00 0.00 44.44 4.35
5124 5991 1.682344 CCCAGGCCTTGTAAAGCCC 60.682 63.158 0.00 0.00 43.01 5.19
5125 5992 1.682344 CCAGGCCTTGTAAAGCCCC 60.682 63.158 0.00 0.00 43.94 5.80
5126 5993 2.046285 CAGGCCTTGTAAAGCCCCG 61.046 63.158 0.00 0.00 43.94 5.73
5127 5994 2.228480 AGGCCTTGTAAAGCCCCGA 61.228 57.895 0.00 0.00 43.94 5.14
5128 5995 2.044555 GGCCTTGTAAAGCCCCGAC 61.045 63.158 0.00 0.00 44.44 4.79
5129 5996 2.044555 GCCTTGTAAAGCCCCGACC 61.045 63.158 0.00 0.00 44.44 4.79
5130 5997 1.683441 CCTTGTAAAGCCCCGACCT 59.317 57.895 0.00 0.00 44.44 3.85
5131 5998 0.676782 CCTTGTAAAGCCCCGACCTG 60.677 60.000 0.00 0.00 44.44 4.00
5132 5999 0.323629 CTTGTAAAGCCCCGACCTGA 59.676 55.000 0.00 0.00 36.98 3.86
5133 6000 0.766131 TTGTAAAGCCCCGACCTGAA 59.234 50.000 0.00 0.00 0.00 3.02
5134 6001 0.766131 TGTAAAGCCCCGACCTGAAA 59.234 50.000 0.00 0.00 0.00 2.69
5135 6002 1.143277 TGTAAAGCCCCGACCTGAAAA 59.857 47.619 0.00 0.00 0.00 2.29
5136 6003 2.224917 TGTAAAGCCCCGACCTGAAAAT 60.225 45.455 0.00 0.00 0.00 1.82
5137 6004 1.256812 AAAGCCCCGACCTGAAAATG 58.743 50.000 0.00 0.00 0.00 2.32
5138 6005 1.250840 AAGCCCCGACCTGAAAATGC 61.251 55.000 0.00 0.00 0.00 3.56
5139 6006 1.678970 GCCCCGACCTGAAAATGCT 60.679 57.895 0.00 0.00 0.00 3.79
5140 6007 0.393808 GCCCCGACCTGAAAATGCTA 60.394 55.000 0.00 0.00 0.00 3.49
5141 6008 1.953311 GCCCCGACCTGAAAATGCTAA 60.953 52.381 0.00 0.00 0.00 3.09
5142 6009 1.743394 CCCCGACCTGAAAATGCTAAC 59.257 52.381 0.00 0.00 0.00 2.34
5143 6010 1.743394 CCCGACCTGAAAATGCTAACC 59.257 52.381 0.00 0.00 0.00 2.85
5144 6011 1.743394 CCGACCTGAAAATGCTAACCC 59.257 52.381 0.00 0.00 0.00 4.11
5145 6012 1.743394 CGACCTGAAAATGCTAACCCC 59.257 52.381 0.00 0.00 0.00 4.95
5146 6013 1.743394 GACCTGAAAATGCTAACCCCG 59.257 52.381 0.00 0.00 0.00 5.73
5147 6014 1.102978 CCTGAAAATGCTAACCCCGG 58.897 55.000 0.00 0.00 0.00 5.73
5148 6015 1.102978 CTGAAAATGCTAACCCCGGG 58.897 55.000 15.80 15.80 0.00 5.73
5149 6016 0.968393 TGAAAATGCTAACCCCGGGC 60.968 55.000 17.73 3.23 0.00 6.13
5150 6017 1.672854 GAAAATGCTAACCCCGGGCC 61.673 60.000 17.73 0.00 0.00 5.80
5151 6018 3.672338 AAATGCTAACCCCGGGCCC 62.672 63.158 17.73 13.57 0.00 5.80
5165 6032 4.135293 GCCCAGGCCAGGAAAATT 57.865 55.556 17.38 0.00 34.56 1.82
5277 6156 1.036707 TGTTTGCTACAAACCTGGGC 58.963 50.000 17.81 0.00 32.64 5.36
5278 6157 1.036707 GTTTGCTACAAACCTGGGCA 58.963 50.000 11.26 0.00 34.91 5.36
5279 6158 1.618343 GTTTGCTACAAACCTGGGCAT 59.382 47.619 11.26 0.00 36.05 4.40
5280 6159 2.008242 TTGCTACAAACCTGGGCATT 57.992 45.000 0.00 0.00 36.05 3.56
5281 6160 1.255882 TGCTACAAACCTGGGCATTG 58.744 50.000 0.00 3.18 32.86 2.82
5282 6161 1.202989 TGCTACAAACCTGGGCATTGA 60.203 47.619 13.72 1.02 32.86 2.57
5283 6162 1.202348 GCTACAAACCTGGGCATTGAC 59.798 52.381 13.72 0.00 0.00 3.18
5284 6163 2.795329 CTACAAACCTGGGCATTGACT 58.205 47.619 13.72 0.00 0.00 3.41
5285 6164 1.331214 ACAAACCTGGGCATTGACTG 58.669 50.000 13.72 0.00 0.00 3.51
5286 6165 0.604578 CAAACCTGGGCATTGACTGG 59.395 55.000 0.00 0.00 0.00 4.00
5386 6275 3.136123 CTGGGCATTGACTGGGCG 61.136 66.667 0.00 0.00 0.00 6.13
5409 6298 0.825840 CTTTGTTTCGGGAAGGGCCA 60.826 55.000 6.18 0.00 38.95 5.36
5422 6311 2.033602 GGCCAGGCCGTGTAAAGT 59.966 61.111 17.05 0.00 39.62 2.66
5426 6315 1.290955 CAGGCCGTGTAAAGTCCGA 59.709 57.895 0.00 0.00 0.00 4.55
5433 6322 2.325761 CGTGTAAAGTCCGACCTGAAG 58.674 52.381 0.00 0.00 0.00 3.02
5622 6515 2.107953 GCCCAGATGTCGAGGCTC 59.892 66.667 3.87 3.87 42.34 4.70
5678 6571 5.163174 TGCCTAGGTTTAGTTTGTTACTGGT 60.163 40.000 11.31 0.00 37.73 4.00
5711 6604 4.766404 AGAGCCCAAGTTGTTTATTTCG 57.234 40.909 1.45 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
285 638 1.327303 TTGAACCCACATTGCAGGAC 58.673 50.000 0.00 0.00 0.00 3.85
288 641 7.276218 CACTTTATTATTGAACCCACATTGCAG 59.724 37.037 0.00 0.00 0.00 4.41
343 696 8.450964 GTCATCGGTGATTAATATAAATGGTGG 58.549 37.037 0.00 0.00 36.60 4.61
402 755 9.190858 CGTATCAAACCATCAAATCTTGAAAAA 57.809 29.630 0.00 0.00 43.95 1.94
403 756 7.328249 GCGTATCAAACCATCAAATCTTGAAAA 59.672 33.333 0.00 0.00 43.95 2.29
404 757 6.806249 GCGTATCAAACCATCAAATCTTGAAA 59.194 34.615 0.00 0.00 43.95 2.69
405 758 6.150976 AGCGTATCAAACCATCAAATCTTGAA 59.849 34.615 0.00 0.00 43.95 2.69
406 759 5.647658 AGCGTATCAAACCATCAAATCTTGA 59.352 36.000 0.00 0.00 45.01 3.02
427 780 1.916651 CAAGAGTGTTCGAGATGAGCG 59.083 52.381 0.00 0.00 0.00 5.03
436 789 2.286184 CGGACAAAACCAAGAGTGTTCG 60.286 50.000 0.00 0.00 36.71 3.95
442 795 1.675552 ACACCGGACAAAACCAAGAG 58.324 50.000 9.46 0.00 0.00 2.85
452 805 2.426024 GAGCTCTTGTATACACCGGACA 59.574 50.000 9.46 0.00 0.00 4.02
564 930 5.511377 GCACAAACCAATATCGTGTATTGTG 59.489 40.000 16.40 10.11 41.43 3.33
565 931 5.414454 AGCACAAACCAATATCGTGTATTGT 59.586 36.000 16.40 4.87 34.13 2.71
583 949 7.386851 AGTTAGCAGAAAAGTCTATAGCACAA 58.613 34.615 0.00 0.00 30.85 3.33
619 985 1.964373 GTGGTTCGGCGGTGTGAAT 60.964 57.895 7.21 0.00 0.00 2.57
636 1002 0.395311 TATCTTCTCTCCACCGCGGT 60.395 55.000 28.70 28.70 35.57 5.68
663 1029 5.178797 AGTATGGACGAGGAAAGTGAATTG 58.821 41.667 0.00 0.00 0.00 2.32
667 1033 3.576982 ACAAGTATGGACGAGGAAAGTGA 59.423 43.478 0.00 0.00 0.00 3.41
670 1036 3.262420 CCACAAGTATGGACGAGGAAAG 58.738 50.000 0.00 0.00 43.02 2.62
671 1037 2.614481 GCCACAAGTATGGACGAGGAAA 60.614 50.000 0.00 0.00 43.02 3.13
675 1041 2.205074 GATGCCACAAGTATGGACGAG 58.795 52.381 0.00 0.00 43.02 4.18
688 1054 1.756375 GCTCGACGATGTGATGCCAC 61.756 60.000 0.00 0.00 43.46 5.01
706 1072 4.467084 TTCTCCCATCGCGGTGGC 62.467 66.667 33.22 0.00 37.96 5.01
713 1079 0.618458 TTTCCCCACTTCTCCCATCG 59.382 55.000 0.00 0.00 0.00 3.84
734 1100 8.140112 AGAGTGTGGAGTAATGTATCTCTTTT 57.860 34.615 0.00 0.00 0.00 2.27
738 1104 6.868622 ACAAGAGTGTGGAGTAATGTATCTC 58.131 40.000 0.00 0.00 36.31 2.75
751 1117 1.813513 GTCCATGGACAAGAGTGTGG 58.186 55.000 35.21 0.00 44.02 4.17
754 1120 1.800586 CAACGTCCATGGACAAGAGTG 59.199 52.381 37.42 24.75 44.77 3.51
758 1124 0.888736 TGGCAACGTCCATGGACAAG 60.889 55.000 37.42 27.63 44.77 3.16
759 1125 0.466372 TTGGCAACGTCCATGGACAA 60.466 50.000 37.42 23.40 44.77 3.18
771 1137 3.119137 ACTGTTGGAAGAAAGTTGGCAAC 60.119 43.478 22.48 22.48 0.00 4.17
775 1141 5.823045 ACTTCTACTGTTGGAAGAAAGTTGG 59.177 40.000 21.42 2.97 40.74 3.77
785 1151 6.263842 TCTTCGACTAAACTTCTACTGTTGGA 59.736 38.462 0.00 0.00 0.00 3.53
787 1153 6.583050 CCTCTTCGACTAAACTTCTACTGTTG 59.417 42.308 0.00 0.00 0.00 3.33
790 1156 6.256912 ACCTCTTCGACTAAACTTCTACTG 57.743 41.667 0.00 0.00 0.00 2.74
791 1157 6.679843 CAACCTCTTCGACTAAACTTCTACT 58.320 40.000 0.00 0.00 0.00 2.57
792 1158 5.345472 GCAACCTCTTCGACTAAACTTCTAC 59.655 44.000 0.00 0.00 0.00 2.59
834 1233 5.108630 CGTCTTCAAAAGTTTTTCAGCGATG 60.109 40.000 0.00 0.00 0.00 3.84
868 1267 1.065998 TCGTAAAGCGGGCAAACCTAT 60.066 47.619 0.00 0.00 41.72 2.57
869 1268 0.321021 TCGTAAAGCGGGCAAACCTA 59.679 50.000 0.00 0.00 41.72 3.08
870 1269 1.071814 TCGTAAAGCGGGCAAACCT 59.928 52.632 0.00 0.00 41.72 3.50
872 1271 1.208358 GGTCGTAAAGCGGGCAAAC 59.792 57.895 0.00 0.00 41.72 2.93
873 1272 1.071814 AGGTCGTAAAGCGGGCAAA 59.928 52.632 0.00 0.00 41.72 3.68
885 1320 0.320160 GTTTACGCCTTCCAGGTCGT 60.320 55.000 14.01 14.01 45.24 4.34
890 1325 1.068474 CGTCTGTTTACGCCTTCCAG 58.932 55.000 0.00 0.00 35.87 3.86
891 1326 0.390124 ACGTCTGTTTACGCCTTCCA 59.610 50.000 0.00 0.00 46.71 3.53
917 1352 4.410400 CCGGGAGTGGAGCAACCC 62.410 72.222 0.00 0.00 38.00 4.11
966 1401 4.338539 AGGCGCTCGTTCGTTCGT 62.339 61.111 7.64 0.00 0.00 3.85
1219 1673 1.828224 GACCGGGAATTGGGGATGC 60.828 63.158 6.32 0.00 0.00 3.91
1234 1688 1.016653 GCTCTGTTGAAGCGGAGACC 61.017 60.000 7.14 0.00 42.84 3.85
1247 1702 0.517316 GGTTTCGCGAAATGCTCTGT 59.483 50.000 34.19 0.00 43.27 3.41
1284 1739 2.619177 CCTCCTACATACGGTGACAGAG 59.381 54.545 0.00 0.00 0.00 3.35
1436 1891 2.432628 GAGTCCCACACGAAGCCG 60.433 66.667 0.00 0.00 42.50 5.52
1527 1990 2.515057 GCACAACGTCCCACACCA 60.515 61.111 0.00 0.00 0.00 4.17
1560 2023 9.520204 AATTCTATCACCAATTCGCATAAAAAG 57.480 29.630 0.00 0.00 0.00 2.27
1565 2028 7.331934 GCTCTAATTCTATCACCAATTCGCATA 59.668 37.037 0.00 0.00 0.00 3.14
1575 2038 6.258947 GTCAACCAAGCTCTAATTCTATCACC 59.741 42.308 0.00 0.00 0.00 4.02
1593 2056 4.081476 CAGATACCACTGAGATGTCAACCA 60.081 45.833 0.00 0.00 39.94 3.67
1610 2073 2.667473 ACTTGTGCGGTACCAGATAC 57.333 50.000 13.54 5.37 0.00 2.24
1716 2180 2.380102 GCATCTGCACAAGCGAATAG 57.620 50.000 0.00 0.00 46.23 1.73
1761 2225 2.999355 GAGTGAGTGAATCAACTCTGCC 59.001 50.000 6.37 0.62 45.69 4.85
1809 2278 4.350368 TGCATGACAAACTTAGTCCAGA 57.650 40.909 0.00 0.00 35.15 3.86
1904 2374 7.568861 GCAGTATAACATGATTACAAGTACGGC 60.569 40.741 0.00 3.57 0.00 5.68
1928 2398 7.441017 ACAAATAGTTAATGAAAAGCCTTGCA 58.559 30.769 0.00 0.00 0.00 4.08
1957 2427 7.581213 AAGACAAACATTACATGGAAGTTCA 57.419 32.000 5.01 0.00 33.60 3.18
1965 2435 8.905702 GTTCTAGCAAAAGACAAACATTACATG 58.094 33.333 0.00 0.00 0.00 3.21
1983 2453 1.005037 CCCGCAGTGTGTTCTAGCA 60.005 57.895 2.46 0.00 0.00 3.49
2117 2587 1.144565 CCTTGCAGCGATGAGACTCG 61.145 60.000 4.02 0.00 41.54 4.18
2174 2644 4.553828 AGGCAGAACCGCAGAACTACTG 62.554 54.545 0.00 0.00 46.52 2.74
2179 2649 0.668535 AAAAGGCAGAACCGCAGAAC 59.331 50.000 0.00 0.00 46.52 3.01
2213 2683 6.716934 AACAACAACAGTCTCTCTTCTCTA 57.283 37.500 0.00 0.00 0.00 2.43
2265 2735 6.264518 TGAATCCTCCAAGAACACCTAAAAAC 59.735 38.462 0.00 0.00 0.00 2.43
2296 2766 5.956563 CCTCCCTTCCTTTGAGTAACTAGTA 59.043 44.000 0.00 0.00 0.00 1.82
2368 2838 7.775053 ATTCCAGCCAAAAGAAGTACAATTA 57.225 32.000 0.00 0.00 0.00 1.40
2403 2893 7.104043 ACATGGAACCAACTTCATATCATTG 57.896 36.000 0.00 0.00 0.00 2.82
2405 2895 7.396907 TGAAACATGGAACCAACTTCATATCAT 59.603 33.333 0.00 0.00 0.00 2.45
2415 2905 4.918810 AAGAGTGAAACATGGAACCAAC 57.081 40.909 0.00 0.00 41.43 3.77
2429 2919 5.296151 ACCAATCTGACTTCAAAGAGTGA 57.704 39.130 2.00 0.00 40.12 3.41
2467 2957 2.173569 AGGCCTCAACTTATCACCATCC 59.826 50.000 0.00 0.00 0.00 3.51
2512 3002 2.684843 GCTCTGCCCAACTCGCAAG 61.685 63.158 0.00 0.00 35.40 4.01
2515 3005 3.123620 CAGCTCTGCCCAACTCGC 61.124 66.667 0.00 0.00 0.00 5.03
2539 3029 7.129660 TGTTCATATCCTAAAGGGTTCCCAATA 59.870 37.037 10.73 2.10 36.25 1.90
2570 3060 3.433173 GGTGGCATTACCCCAGTAGTTAG 60.433 52.174 0.00 0.00 37.83 2.34
2628 3118 9.396022 GAATGATGAACCTCTGGTAATTTAAGA 57.604 33.333 0.00 0.00 33.12 2.10
2637 3127 3.588842 TCTTGGAATGATGAACCTCTGGT 59.411 43.478 0.00 0.00 37.65 4.00
2745 3236 4.543689 CCAGTCCACTAACCACCTATAGA 58.456 47.826 0.00 0.00 0.00 1.98
2929 3420 6.234177 ACTCTAAAGAACAATCCTTGACCAG 58.766 40.000 0.00 0.00 0.00 4.00
2934 3425 9.273016 TGTCTAAACTCTAAAGAACAATCCTTG 57.727 33.333 0.00 0.00 0.00 3.61
2983 3474 4.346129 GCGTTTGAGCCAAATAGATTCAG 58.654 43.478 4.07 0.00 35.74 3.02
2998 3489 2.739913 CCAAGAAGGATTACGCGTTTGA 59.260 45.455 20.78 4.29 41.22 2.69
3027 3518 6.316140 GCATTTTGGGTTTTAATTCCTGGATC 59.684 38.462 0.00 0.00 0.00 3.36
3066 3791 7.575414 TCATTGAGAGAGTTATACAGGAGAC 57.425 40.000 0.00 0.00 0.00 3.36
3081 3806 6.883217 TCTCTTTCCCAAAATCTCATTGAGAG 59.117 38.462 20.35 7.88 42.26 3.20
3097 3822 2.261729 ACCTCCTGACTTCTCTTTCCC 58.738 52.381 0.00 0.00 0.00 3.97
3123 3848 3.197983 ACTGACTAGCCAAGGGTATCAAC 59.802 47.826 0.00 0.00 0.00 3.18
3153 3878 0.467384 AGATCAGGACAATGGAGCCG 59.533 55.000 0.00 0.00 0.00 5.52
3157 3882 5.762179 ACAGTTAAGATCAGGACAATGGA 57.238 39.130 0.00 0.00 0.00 3.41
3209 3934 8.828688 ACCTTAACTACACTATTGTCAACTTC 57.171 34.615 0.00 0.00 37.15 3.01
3224 3949 6.091441 CACAGCTGAATCTCAACCTTAACTAC 59.909 42.308 23.35 0.00 0.00 2.73
3254 3979 2.757868 AGACCTTAGCAGACTAGCAGTG 59.242 50.000 0.00 0.00 36.85 3.66
3321 4052 1.109920 GCCTATCTCCCTGCAGTCGA 61.110 60.000 13.81 6.77 0.00 4.20
3340 4079 0.607489 CTTGACAGCCCCAGAAGGTG 60.607 60.000 0.00 0.00 38.67 4.00
3388 4140 8.141909 TGTAGTATGCCTGTGATGTATTTCTAC 58.858 37.037 0.00 0.00 0.00 2.59
3412 4164 4.809070 GCAAGAGGAGGTTGCTGT 57.191 55.556 0.58 0.00 45.67 4.40
3440 4192 4.396166 GTGCTTCTATGGCTTTGTATGTGT 59.604 41.667 0.00 0.00 0.00 3.72
3506 4258 3.120321 AGTTTATCACGCTGAACCACA 57.880 42.857 0.00 0.00 0.00 4.17
3559 4311 6.740122 GCACATAGTTACACCCCAACATTTTT 60.740 38.462 0.00 0.00 0.00 1.94
3563 4315 3.010138 AGCACATAGTTACACCCCAACAT 59.990 43.478 0.00 0.00 0.00 2.71
3564 4316 2.373836 AGCACATAGTTACACCCCAACA 59.626 45.455 0.00 0.00 0.00 3.33
3591 4344 8.962679 ACAGAAGTAATAAGAGGAACAGTAGAG 58.037 37.037 0.00 0.00 0.00 2.43
3628 4381 8.488651 AAGAACGAGACTAAAGAACTGAAAAA 57.511 30.769 0.00 0.00 0.00 1.94
3629 4382 7.762615 TGAAGAACGAGACTAAAGAACTGAAAA 59.237 33.333 0.00 0.00 0.00 2.29
3635 4388 7.284351 CACAATGAAGAACGAGACTAAAGAAC 58.716 38.462 0.00 0.00 0.00 3.01
3652 4405 4.989797 GGTCAATGAATTGTGCACAATGAA 59.010 37.500 38.30 29.82 45.06 2.57
3686 4439 5.885230 TTCAATGCATGTTAGAGGTCAAG 57.115 39.130 0.00 0.00 0.00 3.02
3743 4499 1.267121 GCCTCCTGAGTTACCTGTCA 58.733 55.000 0.00 0.00 0.00 3.58
3876 4632 5.527214 CCACAATAGTCAAGACAGACAACAA 59.473 40.000 2.72 0.00 40.98 2.83
3906 4668 2.607771 CCATGTGACAAAAGGAAAGCCG 60.608 50.000 0.00 0.00 39.96 5.52
3993 4760 7.171167 CAGAAGATACTCAAGGATTAGCACATG 59.829 40.741 0.00 0.00 0.00 3.21
4188 4967 0.616679 ACTTTGCCTACCGCCTAGGA 60.617 55.000 14.75 0.00 44.88 2.94
4254 5033 8.598041 TGTAGAAGAAGAAAAATCTAGCTTCCT 58.402 33.333 0.00 0.00 37.94 3.36
4393 5173 2.358939 AGTTTCTAGCCGGTACAACG 57.641 50.000 1.90 0.00 0.00 4.10
4446 5309 4.337555 GCAAGCATCATGTCAATCTAGGTT 59.662 41.667 0.00 0.00 0.00 3.50
4563 5426 0.958876 CTGCTGCACTGAATCCTGCA 60.959 55.000 0.00 3.19 41.13 4.41
5045 5912 1.510480 GCCTGAAACGCAGCTTGACT 61.510 55.000 0.00 0.00 43.50 3.41
5112 5979 0.676782 CAGGTCGGGGCTTTACAAGG 60.677 60.000 0.00 0.00 0.00 3.61
5113 5980 0.323629 TCAGGTCGGGGCTTTACAAG 59.676 55.000 0.00 0.00 0.00 3.16
5114 5981 0.766131 TTCAGGTCGGGGCTTTACAA 59.234 50.000 0.00 0.00 0.00 2.41
5115 5982 0.766131 TTTCAGGTCGGGGCTTTACA 59.234 50.000 0.00 0.00 0.00 2.41
5116 5983 1.900245 TTTTCAGGTCGGGGCTTTAC 58.100 50.000 0.00 0.00 0.00 2.01
5117 5984 2.442413 CATTTTCAGGTCGGGGCTTTA 58.558 47.619 0.00 0.00 0.00 1.85
5118 5985 1.256812 CATTTTCAGGTCGGGGCTTT 58.743 50.000 0.00 0.00 0.00 3.51
5119 5986 1.250840 GCATTTTCAGGTCGGGGCTT 61.251 55.000 0.00 0.00 0.00 4.35
5120 5987 1.678970 GCATTTTCAGGTCGGGGCT 60.679 57.895 0.00 0.00 0.00 5.19
5121 5988 0.393808 TAGCATTTTCAGGTCGGGGC 60.394 55.000 0.00 0.00 0.00 5.80
5122 5989 1.743394 GTTAGCATTTTCAGGTCGGGG 59.257 52.381 0.00 0.00 0.00 5.73
5123 5990 1.743394 GGTTAGCATTTTCAGGTCGGG 59.257 52.381 0.00 0.00 0.00 5.14
5124 5991 1.743394 GGGTTAGCATTTTCAGGTCGG 59.257 52.381 0.00 0.00 0.00 4.79
5125 5992 1.743394 GGGGTTAGCATTTTCAGGTCG 59.257 52.381 0.00 0.00 0.00 4.79
5126 5993 1.743394 CGGGGTTAGCATTTTCAGGTC 59.257 52.381 0.00 0.00 0.00 3.85
5127 5994 1.615919 CCGGGGTTAGCATTTTCAGGT 60.616 52.381 0.00 0.00 0.00 4.00
5128 5995 1.102978 CCGGGGTTAGCATTTTCAGG 58.897 55.000 0.00 0.00 0.00 3.86
5129 5996 1.102978 CCCGGGGTTAGCATTTTCAG 58.897 55.000 14.71 0.00 0.00 3.02
5130 5997 0.968393 GCCCGGGGTTAGCATTTTCA 60.968 55.000 25.28 0.00 0.00 2.69
5131 5998 1.672854 GGCCCGGGGTTAGCATTTTC 61.673 60.000 25.28 0.00 0.00 2.29
5132 5999 1.684391 GGCCCGGGGTTAGCATTTT 60.684 57.895 25.28 0.00 0.00 1.82
5133 6000 2.043349 GGCCCGGGGTTAGCATTT 60.043 61.111 25.28 0.00 0.00 2.32
5134 6001 4.137615 GGGCCCGGGGTTAGCATT 62.138 66.667 25.28 0.00 0.00 3.56
5148 6015 1.194121 ACAATTTTCCTGGCCTGGGC 61.194 55.000 26.94 14.23 41.06 5.36
5149 6016 1.002315 CAACAATTTTCCTGGCCTGGG 59.998 52.381 26.94 17.69 0.00 4.45
5150 6017 1.693606 ACAACAATTTTCCTGGCCTGG 59.306 47.619 22.36 22.36 0.00 4.45
5151 6018 3.473923 AACAACAATTTTCCTGGCCTG 57.526 42.857 3.32 2.54 0.00 4.85
5152 6019 4.502105 AAAACAACAATTTTCCTGGCCT 57.498 36.364 3.32 0.00 0.00 5.19
5153 6020 4.260579 CGAAAAACAACAATTTTCCTGGCC 60.261 41.667 0.00 0.00 41.52 5.36
5154 6021 4.331443 ACGAAAAACAACAATTTTCCTGGC 59.669 37.500 0.00 0.00 41.52 4.85
5258 6137 1.036707 GCCCAGGTTTGTAGCAAACA 58.963 50.000 21.33 0.00 35.88 2.83
5260 6139 2.008242 ATGCCCAGGTTTGTAGCAAA 57.992 45.000 0.00 0.00 35.92 3.68
5261 6140 1.617850 CAATGCCCAGGTTTGTAGCAA 59.382 47.619 0.00 0.00 35.92 3.91
5262 6141 1.202989 TCAATGCCCAGGTTTGTAGCA 60.203 47.619 0.00 0.00 36.49 3.49
5263 6142 1.202348 GTCAATGCCCAGGTTTGTAGC 59.798 52.381 0.00 0.00 0.00 3.58
5264 6143 2.489329 CAGTCAATGCCCAGGTTTGTAG 59.511 50.000 0.00 0.00 0.00 2.74
5265 6144 2.513753 CAGTCAATGCCCAGGTTTGTA 58.486 47.619 0.00 0.00 0.00 2.41
5266 6145 1.331214 CAGTCAATGCCCAGGTTTGT 58.669 50.000 0.00 0.00 0.00 2.83
5267 6146 0.604578 CCAGTCAATGCCCAGGTTTG 59.395 55.000 0.00 0.00 0.00 2.93
5268 6147 1.187567 GCCAGTCAATGCCCAGGTTT 61.188 55.000 0.00 0.00 0.00 3.27
5269 6148 1.607467 GCCAGTCAATGCCCAGGTT 60.607 57.895 0.00 0.00 0.00 3.50
5270 6149 2.036256 GCCAGTCAATGCCCAGGT 59.964 61.111 0.00 0.00 0.00 4.00
5271 6150 0.901580 AAAGCCAGTCAATGCCCAGG 60.902 55.000 0.00 0.00 0.00 4.45
5272 6151 0.971386 AAAAGCCAGTCAATGCCCAG 59.029 50.000 0.00 0.00 0.00 4.45
5273 6152 0.680618 CAAAAGCCAGTCAATGCCCA 59.319 50.000 0.00 0.00 0.00 5.36
5274 6153 0.037046 CCAAAAGCCAGTCAATGCCC 60.037 55.000 0.00 0.00 0.00 5.36
5275 6154 0.037046 CCCAAAAGCCAGTCAATGCC 60.037 55.000 0.00 0.00 0.00 4.40
5276 6155 0.671472 GCCCAAAAGCCAGTCAATGC 60.671 55.000 0.00 0.00 0.00 3.56
5277 6156 0.388907 CGCCCAAAAGCCAGTCAATG 60.389 55.000 0.00 0.00 0.00 2.82
5278 6157 0.539438 TCGCCCAAAAGCCAGTCAAT 60.539 50.000 0.00 0.00 0.00 2.57
5279 6158 0.753479 TTCGCCCAAAAGCCAGTCAA 60.753 50.000 0.00 0.00 0.00 3.18
5280 6159 0.753479 TTTCGCCCAAAAGCCAGTCA 60.753 50.000 0.00 0.00 0.00 3.41
5281 6160 0.387565 TTTTCGCCCAAAAGCCAGTC 59.612 50.000 0.00 0.00 30.07 3.51
5282 6161 0.389025 CTTTTCGCCCAAAAGCCAGT 59.611 50.000 3.28 0.00 43.56 4.00
5283 6162 3.199764 CTTTTCGCCCAAAAGCCAG 57.800 52.632 3.28 0.00 43.56 4.85
5386 6275 1.269723 CCCTTCCCGAAACAAAGCTTC 59.730 52.381 0.00 0.00 0.00 3.86
5409 6298 1.291272 GTCGGACTTTACACGGCCT 59.709 57.895 0.00 0.00 0.00 5.19
5422 6311 2.154798 CTTGGCGTCTTCAGGTCGGA 62.155 60.000 0.00 0.00 0.00 4.55
5426 6315 2.032681 GGCTTGGCGTCTTCAGGT 59.967 61.111 0.00 0.00 0.00 4.00
5609 6499 1.036707 GCCTAAGAGCCTCGACATCT 58.963 55.000 0.00 0.00 0.00 2.90
5658 6551 7.128234 AGACACCAGTAACAAACTAAACCTA 57.872 36.000 0.00 0.00 35.76 3.08
5678 6571 3.118038 ACTTGGGCTCTTGTAACAAGACA 60.118 43.478 9.41 0.00 40.60 3.41


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

AutoCloner maintained by Alex Coulton.