Multiple sequence alignment - TraesCS7D01G507900

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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 TraesCS7D01G507900 chr7D 100.000 5958 0 0 1 5958 611747101 611753058 0.000000e+00 11003.0
1 TraesCS7D01G507900 chr7A 91.270 5189 269 82 1 5088 701679427 701684532 0.000000e+00 6903.0
2 TraesCS7D01G507900 chr7A 85.698 902 61 24 5029 5891 701684526 701685398 0.000000e+00 889.0
3 TraesCS7D01G507900 chr7A 86.447 273 36 1 2363 2635 701674381 701674652 1.260000e-76 298.0
4 TraesCS7D01G507900 chr7A 78.902 346 39 16 3926 4268 701675232 701675546 2.820000e-48 204.0
5 TraesCS7D01G507900 chr7A 89.103 156 17 0 3072 3227 701674977 701675132 1.690000e-45 195.0
6 TraesCS7D01G507900 chr7B 92.780 4252 217 44 557 4764 701214757 701218962 0.000000e+00 6069.0
7 TraesCS7D01G507900 chr7B 86.486 296 35 5 2343 2635 701208898 701209191 2.680000e-83 320.0
8 TraesCS7D01G507900 chr7B 85.874 269 32 4 3926 4189 701209783 701210050 1.260000e-71 281.0
9 TraesCS7D01G507900 chr7B 88.412 233 8 6 6 235 701214042 701214258 4.580000e-66 263.0
10 TraesCS7D01G507900 chr7B 95.031 161 8 0 3072 3232 701209525 701209685 2.760000e-63 254.0
11 TraesCS7D01G507900 chr7B 97.196 107 3 0 4864 4970 701219034 701219140 1.320000e-41 182.0
12 TraesCS7D01G507900 chr2A 88.806 670 40 19 4572 5224 596254717 596254066 0.000000e+00 789.0
13 TraesCS7D01G507900 chr6D 83.871 93 12 3 5659 5750 405475837 405475927 1.060000e-12 86.1
14 TraesCS7D01G507900 chr4D 85.714 77 8 3 5639 5715 476336666 476336593 1.780000e-10 78.7
15 TraesCS7D01G507900 chr1D 85.333 75 8 3 5641 5715 401017346 401017275 2.300000e-09 75.0
16 TraesCS7D01G507900 chr5A 83.544 79 9 4 5641 5719 227112788 227112862 2.980000e-08 71.3
17 TraesCS7D01G507900 chr2B 92.157 51 3 1 5662 5712 495140871 495140822 2.980000e-08 71.3
18 TraesCS7D01G507900 chr1B 77.600 125 23 5 5642 5766 44469000 44468881 2.980000e-08 71.3
19 TraesCS7D01G507900 chr3D 93.617 47 2 1 5659 5705 555447189 555447144 1.070000e-07 69.4
20 TraesCS7D01G507900 chr3D 86.667 60 7 1 5660 5719 523642449 523642507 1.390000e-06 65.8


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 TraesCS7D01G507900 chr7D 611747101 611753058 5957 False 11003.000000 11003 100.000000 1 5958 1 chr7D.!!$F1 5957
1 TraesCS7D01G507900 chr7A 701674381 701685398 11017 False 1697.800000 6903 86.284000 1 5891 5 chr7A.!!$F1 5890
2 TraesCS7D01G507900 chr7B 701208898 701219140 10242 False 1228.166667 6069 90.963167 6 4970 6 chr7B.!!$F1 4964
3 TraesCS7D01G507900 chr2A 596254066 596254717 651 True 789.000000 789 88.806000 4572 5224 1 chr2A.!!$R1 652

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
66 7025 0.107456 ATGGATAAGCGCAGGAGTGG 59.893 55.0 11.47 0.0 0.00 4.00 F
956 8173 0.250467 ATCCGTGCTCTGTTTGCAGT 60.250 50.0 0.00 0.0 43.05 4.40 F
1378 8600 0.035056 ATCAGAAAGCCCAAGGGACG 60.035 55.0 9.92 0.0 37.50 4.79 F
2737 9965 0.825410 TGGCCATGTTTCATGCATCC 59.175 50.0 0.00 0.0 0.00 3.51 F
3686 10958 0.322816 CAGGGATTGGGGTCACACTG 60.323 60.0 0.00 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1229 8451 0.181114 ACCTGACAGCAGAACAAGCA 59.819 50.0 0.00 0.0 45.17 3.91 R
1763 8988 0.802494 CCACGGGTACAAGAACATGC 59.198 55.0 0.00 0.0 0.00 4.06 R
3313 10584 0.318955 CTTTGGACAAAGGCCAAGCG 60.319 55.0 15.26 0.0 45.39 4.68 R
4602 11877 1.313812 CCCTGAACGCCGAGTAGTCT 61.314 60.0 0.00 0.0 0.00 3.24 R
5413 12776 0.249322 GCCGTCGGCTGCTTATCTTA 60.249 55.0 28.98 0.0 46.69 2.10 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
52 7011 2.529389 GGGCCGGGTAGGATGGAT 60.529 66.667 2.18 0.00 45.00 3.41
54 7013 0.838987 GGGCCGGGTAGGATGGATAA 60.839 60.000 2.18 0.00 45.00 1.75
64 7023 0.394565 GGATGGATAAGCGCAGGAGT 59.605 55.000 11.47 0.00 0.00 3.85
65 7024 1.506493 GATGGATAAGCGCAGGAGTG 58.494 55.000 11.47 0.00 0.00 3.51
66 7025 0.107456 ATGGATAAGCGCAGGAGTGG 59.893 55.000 11.47 0.00 0.00 4.00
111 7070 2.380410 CGCAACTACCCTGACGCAC 61.380 63.158 0.00 0.00 0.00 5.34
493 7695 1.615883 GCTCGATGGCTGATTAGGAGA 59.384 52.381 0.00 0.00 0.00 3.71
523 7730 0.463654 TCGATTCGATGGCTTTGGGG 60.464 55.000 4.29 0.00 0.00 4.96
528 7735 2.983879 CGATGGCTTTGGGGGAGGT 61.984 63.158 0.00 0.00 0.00 3.85
542 7749 2.122099 AGGTTGAAGGACGGGGGT 60.122 61.111 0.00 0.00 0.00 4.95
543 7750 0.906282 GAGGTTGAAGGACGGGGGTA 60.906 60.000 0.00 0.00 0.00 3.69
544 7751 0.908180 AGGTTGAAGGACGGGGGTAG 60.908 60.000 0.00 0.00 0.00 3.18
545 7752 1.196766 GGTTGAAGGACGGGGGTAGT 61.197 60.000 0.00 0.00 0.00 2.73
546 7753 0.689055 GTTGAAGGACGGGGGTAGTT 59.311 55.000 0.00 0.00 0.00 2.24
547 7754 1.901833 GTTGAAGGACGGGGGTAGTTA 59.098 52.381 0.00 0.00 0.00 2.24
548 7755 1.856629 TGAAGGACGGGGGTAGTTAG 58.143 55.000 0.00 0.00 0.00 2.34
549 7756 1.077663 TGAAGGACGGGGGTAGTTAGT 59.922 52.381 0.00 0.00 0.00 2.24
550 7757 2.311542 TGAAGGACGGGGGTAGTTAGTA 59.688 50.000 0.00 0.00 0.00 1.82
564 7771 7.651027 GGTAGTTAGTAGTTACCCAGATCAA 57.349 40.000 0.00 0.00 32.47 2.57
697 7904 2.540265 AGGCAGACAAGTGAAGTGAG 57.460 50.000 0.00 0.00 0.00 3.51
698 7905 2.042464 AGGCAGACAAGTGAAGTGAGA 58.958 47.619 0.00 0.00 0.00 3.27
699 7906 2.139118 GGCAGACAAGTGAAGTGAGAC 58.861 52.381 0.00 0.00 0.00 3.36
700 7907 2.139118 GCAGACAAGTGAAGTGAGACC 58.861 52.381 0.00 0.00 0.00 3.85
702 7909 3.805108 GCAGACAAGTGAAGTGAGACCAT 60.805 47.826 0.00 0.00 0.00 3.55
703 7910 4.384056 CAGACAAGTGAAGTGAGACCATT 58.616 43.478 0.00 0.00 0.00 3.16
704 7911 5.541845 CAGACAAGTGAAGTGAGACCATTA 58.458 41.667 0.00 0.00 0.00 1.90
705 7912 6.169094 CAGACAAGTGAAGTGAGACCATTAT 58.831 40.000 0.00 0.00 0.00 1.28
706 7913 6.091849 CAGACAAGTGAAGTGAGACCATTATG 59.908 42.308 0.00 0.00 0.00 1.90
707 7914 4.697352 ACAAGTGAAGTGAGACCATTATGC 59.303 41.667 0.00 0.00 0.00 3.14
710 7917 5.911752 AGTGAAGTGAGACCATTATGCTAG 58.088 41.667 0.00 0.00 0.00 3.42
715 7928 8.797438 TGAAGTGAGACCATTATGCTAGTATAG 58.203 37.037 0.63 0.00 43.09 1.31
743 7956 7.798596 ATATTGGTTGAGATGAGTGATTGTC 57.201 36.000 0.00 0.00 0.00 3.18
801 8014 1.287041 GGTTTATATCGACCCGCGGC 61.287 60.000 22.85 6.08 41.33 6.53
802 8019 1.372004 TTTATATCGACCCGCGGCG 60.372 57.895 22.85 19.83 41.33 6.46
822 8039 2.675032 CGTTGCTCTAGATCCACAAGCA 60.675 50.000 0.00 5.78 40.96 3.91
823 8040 3.539604 GTTGCTCTAGATCCACAAGCAT 58.460 45.455 9.61 0.00 42.11 3.79
824 8041 3.189618 TGCTCTAGATCCACAAGCATG 57.810 47.619 0.00 0.00 38.01 4.06
856 8073 5.388944 GTCAAATTGACTGAGATCTTGCAC 58.611 41.667 18.03 0.00 43.73 4.57
877 8094 1.022451 ATGTCGCGGCCGTTTGTTAT 61.022 50.000 28.70 11.20 35.54 1.89
879 8096 0.519792 GTCGCGGCCGTTTGTTATTC 60.520 55.000 28.70 5.16 35.54 1.75
880 8097 0.671163 TCGCGGCCGTTTGTTATTCT 60.671 50.000 28.70 0.00 35.54 2.40
884 8101 3.667430 CGCGGCCGTTTGTTATTCTTTTA 60.667 43.478 28.70 0.00 0.00 1.52
885 8102 3.605056 GCGGCCGTTTGTTATTCTTTTAC 59.395 43.478 28.70 0.00 0.00 2.01
912 8129 3.444805 AGCTCTCCGTCGGTCAGC 61.445 66.667 22.26 22.26 0.00 4.26
939 8156 4.047822 GGTCAGATCACACGAATCTCATC 58.952 47.826 0.00 0.00 0.00 2.92
956 8173 0.250467 ATCCGTGCTCTGTTTGCAGT 60.250 50.000 0.00 0.00 43.05 4.40
975 8192 0.250901 TTGAGTTTCCAGGCTGAGGC 60.251 55.000 17.94 0.00 37.82 4.70
1014 8231 3.496160 CAGATGAGGGGGCTGGGG 61.496 72.222 0.00 0.00 0.00 4.96
1055 8272 2.571212 TGTTCTGTTGTGCCTGGTTAG 58.429 47.619 0.00 0.00 0.00 2.34
1056 8273 1.266989 GTTCTGTTGTGCCTGGTTAGC 59.733 52.381 0.00 0.00 0.00 3.09
1059 8276 1.599797 GTTGTGCCTGGTTAGCGGT 60.600 57.895 0.00 0.00 0.00 5.68
1061 8278 3.431725 GTGCCTGGTTAGCGGTGC 61.432 66.667 0.00 0.00 0.00 5.01
1062 8279 4.715523 TGCCTGGTTAGCGGTGCC 62.716 66.667 0.00 0.00 0.00 5.01
1064 8281 3.026431 GCCTGGTTAGCGGTGCCTA 62.026 63.158 0.00 0.00 0.00 3.93
1187 8404 1.268437 GCAGGTACGGAACTACGCTAG 60.268 57.143 0.00 0.00 37.37 3.42
1229 8451 4.090090 AGTGCTCTGGTAATGTACTCACT 58.910 43.478 0.00 0.00 0.00 3.41
1309 8531 2.153034 TATCATGGGTCACTCCGTCA 57.847 50.000 0.00 0.00 37.00 4.35
1370 8592 1.202698 ACCGCTATGATCAGAAAGCCC 60.203 52.381 17.22 0.00 0.00 5.19
1378 8600 0.035056 ATCAGAAAGCCCAAGGGACG 60.035 55.000 9.92 0.00 37.50 4.79
1557 8779 3.315191 GGAGCTCAAGTTGCAACAGTTTA 59.685 43.478 30.11 8.58 0.00 2.01
1588 8813 7.414540 GCTGTAGACCATTTATCTTGTTCAAGG 60.415 40.741 11.82 0.00 0.00 3.61
1596 8821 1.388547 TCTTGTTCAAGGGTGCACAC 58.611 50.000 20.43 16.76 30.15 3.82
1625 8850 9.176460 CCAAAATAGCCACCATTCAAAATAAAT 57.824 29.630 0.00 0.00 0.00 1.40
1628 8853 9.956640 AAATAGCCACCATTCAAAATAAATTCA 57.043 25.926 0.00 0.00 0.00 2.57
1710 8935 8.075593 AGAATGAAAATCACCAAATTTCAACG 57.924 30.769 4.51 0.00 43.79 4.10
1767 8992 9.764870 CCACTATAGAAATTTATTCATCGCATG 57.235 33.333 6.78 0.00 0.00 4.06
1778 9003 2.627945 TCATCGCATGTTCTTGTACCC 58.372 47.619 0.00 0.00 0.00 3.69
1873 9098 5.461032 TTGGGCAAACAACCTTGTAATAG 57.539 39.130 0.00 0.00 41.31 1.73
1877 9102 5.227152 GGCAAACAACCTTGTAATAGTTGG 58.773 41.667 7.01 0.00 44.05 3.77
1969 9194 5.248640 TGGAGATTCAGCTCGAGAATTTTT 58.751 37.500 18.75 0.00 35.93 1.94
1995 9220 1.238439 AACACCTCCAGCAATTGACG 58.762 50.000 10.34 0.00 0.00 4.35
2004 9229 2.223112 CCAGCAATTGACGTAGATGCAC 60.223 50.000 10.34 0.00 39.42 4.57
2086 9311 4.154918 GTCTTGCATTACTTTGGACCTCTG 59.845 45.833 0.00 0.00 0.00 3.35
2158 9384 6.851222 GCTAGTTAGCTCTAAATTCATGCA 57.149 37.500 3.93 0.00 45.62 3.96
2159 9385 7.251704 GCTAGTTAGCTCTAAATTCATGCAA 57.748 36.000 3.93 0.00 45.62 4.08
2180 9406 6.366644 CAATCATGCTTTTCACTTTACACG 57.633 37.500 0.00 0.00 0.00 4.49
2242 9470 5.614308 TGTGCTCACCATATCTCTTAATGG 58.386 41.667 0.00 0.00 46.76 3.16
2258 9486 7.989741 TCTCTTAATGGCCAAATTCTAGAGAAG 59.010 37.037 20.74 9.53 36.05 2.85
2308 9536 5.649782 AAAAGCCACACTAGATCAAATGG 57.350 39.130 0.00 0.00 0.00 3.16
2314 9542 6.319658 AGCCACACTAGATCAAATGGTTATTG 59.680 38.462 0.00 0.00 0.00 1.90
2316 9544 6.603201 CCACACTAGATCAAATGGTTATTGGT 59.397 38.462 0.00 0.00 0.00 3.67
2430 9658 5.185635 TCTGGGGCAAACATTTAATTCTCTG 59.814 40.000 0.00 0.00 0.00 3.35
2442 9670 8.997323 ACATTTAATTCTCTGTCAACTCTTCAG 58.003 33.333 0.00 0.00 0.00 3.02
2538 9766 3.462982 TGATGGTATTCGTTGGGATTCG 58.537 45.455 0.00 0.00 0.00 3.34
2737 9965 0.825410 TGGCCATGTTTCATGCATCC 59.175 50.000 0.00 0.00 0.00 3.51
2923 10151 0.998928 TTATGGCTGTGTGGGTCCAT 59.001 50.000 0.00 0.00 41.71 3.41
2929 10157 2.485479 GGCTGTGTGGGTCCATACTATG 60.485 54.545 15.96 8.73 38.58 2.23
3061 10331 5.755375 CACACTTGTCACTTCATAACTCTGT 59.245 40.000 0.00 0.00 0.00 3.41
3367 10638 5.048013 GCAGGGGTAAAGTCAATAATATGGC 60.048 44.000 0.00 0.00 0.00 4.40
3474 10745 1.250328 TGCCTTTTGTCCTGCTGATG 58.750 50.000 0.00 0.00 0.00 3.07
3686 10958 0.322816 CAGGGATTGGGGTCACACTG 60.323 60.000 0.00 0.00 0.00 3.66
3694 10966 0.763035 GGGGTCACACTGTTACCACT 59.237 55.000 13.45 0.00 31.17 4.00
3744 11016 2.291465 CGTGTATCCTAATCGGTTCGGA 59.709 50.000 3.87 3.87 34.12 4.55
3787 11059 7.072263 AGATGCTATGCTTAATGGTTAGACT 57.928 36.000 0.00 0.00 0.00 3.24
3860 11132 4.322804 AGAAGCGTACTTTATTCGACAACG 59.677 41.667 0.00 0.00 35.82 4.10
3877 11149 4.204012 ACAACGGAATGTTCCTTTCAGAA 58.796 39.130 9.90 0.00 45.33 3.02
3878 11150 4.036380 ACAACGGAATGTTCCTTTCAGAAC 59.964 41.667 9.90 0.00 45.33 3.01
3942 11214 7.274686 ACACAAGTATGTTTTGTAAACTTGCAC 59.725 33.333 12.14 0.00 46.94 4.57
4193 11465 4.345854 AGATCGGTAAACTCTTCAGTCCT 58.654 43.478 0.00 0.00 29.93 3.85
4197 11469 3.616802 CGGTAAACTCTTCAGTCCTTCCC 60.617 52.174 0.00 0.00 29.93 3.97
4244 11516 8.415192 TGAATAAATTGCTGAATTTGATCTGC 57.585 30.769 5.28 0.00 41.09 4.26
4280 11554 9.906660 ATTTGATCTCTCATAGTCGAATTAGAC 57.093 33.333 10.42 10.42 41.23 2.59
4315 11589 8.940952 GCAAGTCTATTTGTTCTACTCAAAGAT 58.059 33.333 0.00 0.00 38.02 2.40
4356 11630 7.720442 TCTCATGATACTTCTTCATGTACTGG 58.280 38.462 12.03 0.00 46.78 4.00
4443 11717 1.405872 AATCCGCTCCCGTGTACATA 58.594 50.000 0.00 0.00 0.00 2.29
4473 11747 1.867595 ATGGAGGCAACCAGGAAGGG 61.868 60.000 9.12 0.00 43.49 3.95
4517 11791 2.015736 ACACATCGCTCCAAAGCTAG 57.984 50.000 0.00 0.00 46.91 3.42
4518 11792 1.276421 ACACATCGCTCCAAAGCTAGT 59.724 47.619 0.00 0.00 46.91 2.57
4527 11801 1.142870 TCCAAAGCTAGTGCACCTTGT 59.857 47.619 14.63 0.00 42.74 3.16
4528 11802 2.370519 TCCAAAGCTAGTGCACCTTGTA 59.629 45.455 14.63 0.00 42.74 2.41
4532 11807 5.163754 CCAAAGCTAGTGCACCTTGTAATAC 60.164 44.000 14.63 0.00 42.74 1.89
4602 11877 1.375908 GTTCAGTGATCCGCAGCCA 60.376 57.895 0.00 0.00 0.00 4.75
4758 12033 3.770040 TACTGGTGAGCGCGGCAT 61.770 61.111 8.83 0.00 0.00 4.40
4779 12054 1.369091 GCACCCCGACAGTTGCATAG 61.369 60.000 0.00 0.00 0.00 2.23
4787 12070 1.396301 GACAGTTGCATAGACAGCAGC 59.604 52.381 0.00 0.00 43.75 5.25
4831 12114 0.826715 GCACTGCTCTCCTGTATCCA 59.173 55.000 0.00 0.00 0.00 3.41
4839 12122 2.036475 CTCTCCTGTATCCAATCCACCG 59.964 54.545 0.00 0.00 0.00 4.94
4978 12261 0.602905 AGCTCGTTGTTACCAGCACC 60.603 55.000 0.00 0.00 40.49 5.01
4980 12263 0.865769 CTCGTTGTTACCAGCACCAC 59.134 55.000 0.00 0.00 0.00 4.16
4998 12281 1.129251 CACTACAGAACATTGGCAGCG 59.871 52.381 0.00 0.00 0.00 5.18
5052 12382 0.525311 GGGAGCTTTGCTTCTGCTTC 59.475 55.000 0.00 0.00 39.88 3.86
5159 12515 3.194116 GCATTCATCCATTCCACACACTT 59.806 43.478 0.00 0.00 0.00 3.16
5160 12516 4.676196 GCATTCATCCATTCCACACACTTC 60.676 45.833 0.00 0.00 0.00 3.01
5162 12518 4.371624 TCATCCATTCCACACACTTCTT 57.628 40.909 0.00 0.00 0.00 2.52
5174 12532 2.543012 CACACTTCTTCAGACTGTGCTG 59.457 50.000 1.59 0.00 34.32 4.41
5202 12560 4.038282 TGCTATATAATGAACACGGTCCGT 59.962 41.667 12.23 12.23 42.36 4.69
5203 12561 4.620184 GCTATATAATGAACACGGTCCGTC 59.380 45.833 15.67 4.06 38.32 4.79
5204 12562 2.304751 ATAATGAACACGGTCCGTCC 57.695 50.000 15.67 7.47 38.32 4.79
5224 12582 1.822581 GACGCATGTAAAATTCCGGC 58.177 50.000 0.00 0.00 0.00 6.13
5242 12600 1.609239 CCAGCTAGATGGCCACCAA 59.391 57.895 15.30 0.00 36.95 3.67
5247 12605 0.035152 CTAGATGGCCACCAACTGCA 60.035 55.000 8.16 0.00 37.24 4.41
5248 12606 0.322456 TAGATGGCCACCAACTGCAC 60.322 55.000 8.16 0.00 37.24 4.57
5253 12611 1.360192 GCCACCAACTGCACTGTTC 59.640 57.895 0.00 0.00 0.00 3.18
5332 12695 2.940890 ATACGCCAATCCTGTGCCCG 62.941 60.000 0.00 0.00 0.00 6.13
5476 12839 2.423446 GGTATGGAGCTGCCCTCG 59.577 66.667 1.53 0.00 41.71 4.63
5477 12840 2.435693 GGTATGGAGCTGCCCTCGT 61.436 63.158 1.53 0.00 41.71 4.18
5479 12842 3.094062 TATGGAGCTGCCCTCGTGC 62.094 63.158 1.53 0.00 41.71 5.34
5539 12902 3.491581 GTGGTACCACGAGTGAGTG 57.508 57.895 28.55 0.00 41.53 3.51
5540 12903 0.956633 GTGGTACCACGAGTGAGTGA 59.043 55.000 28.55 0.00 44.43 3.41
5547 12913 1.001974 CCACGAGTGAGTGATTTGGGA 59.998 52.381 4.59 0.00 44.43 4.37
5604 12970 2.973420 GAGCATCTAAACCCGACCG 58.027 57.895 0.00 0.00 0.00 4.79
5656 13022 1.812686 CGTCTCAAACCGGTCTGGGA 61.813 60.000 6.33 6.33 44.64 4.37
5705 13071 0.178888 TATGGGACGGATATGGGGCA 60.179 55.000 0.00 0.00 0.00 5.36
5708 13074 2.032681 GACGGATATGGGGCAGCC 59.967 66.667 1.26 1.26 0.00 4.85
5709 13075 2.448542 ACGGATATGGGGCAGCCT 60.449 61.111 12.43 0.00 0.00 4.58
5719 13085 4.008933 GGCAGCCTGGACGTGTCT 62.009 66.667 3.29 0.00 0.00 3.41
5733 13099 1.392510 CGTGTCTGTCATGTCATGCTG 59.607 52.381 8.03 7.64 0.00 4.41
5734 13100 2.691927 GTGTCTGTCATGTCATGCTGA 58.308 47.619 8.03 9.60 0.00 4.26
5759 13125 1.372872 GGTTCCACACGCAAATGCC 60.373 57.895 0.00 0.00 37.91 4.40
5760 13126 1.372872 GTTCCACACGCAAATGCCC 60.373 57.895 0.00 0.00 37.91 5.36
5776 13142 0.250338 GCCCAGAAACTCAACGGTCT 60.250 55.000 0.00 0.00 0.00 3.85
5777 13143 1.001633 GCCCAGAAACTCAACGGTCTA 59.998 52.381 0.00 0.00 0.00 2.59
5779 13145 2.299297 CCCAGAAACTCAACGGTCTAGT 59.701 50.000 0.00 0.00 0.00 2.57
5783 13149 2.005370 AACTCAACGGTCTAGTGGGA 57.995 50.000 0.00 0.00 0.00 4.37
5791 13157 2.225066 ACGGTCTAGTGGGAGTCTTCTT 60.225 50.000 0.00 0.00 0.00 2.52
5793 13159 3.367498 CGGTCTAGTGGGAGTCTTCTTTG 60.367 52.174 0.00 0.00 0.00 2.77
5796 13162 1.140312 AGTGGGAGTCTTCTTTGGCA 58.860 50.000 0.00 0.00 0.00 4.92
5801 13167 0.402121 GAGTCTTCTTTGGCAGGGGT 59.598 55.000 0.00 0.00 0.00 4.95
5802 13168 0.111253 AGTCTTCTTTGGCAGGGGTG 59.889 55.000 0.00 0.00 0.00 4.61
5803 13169 0.178990 GTCTTCTTTGGCAGGGGTGT 60.179 55.000 0.00 0.00 0.00 4.16
5804 13170 0.178992 TCTTCTTTGGCAGGGGTGTG 60.179 55.000 0.00 0.00 0.00 3.82
5805 13171 0.178992 CTTCTTTGGCAGGGGTGTGA 60.179 55.000 0.00 0.00 0.00 3.58
5807 13173 0.467290 TCTTTGGCAGGGGTGTGAAC 60.467 55.000 0.00 0.00 0.00 3.18
5853 13220 3.333219 CTGAGGGCCAGGGCTCAA 61.333 66.667 13.60 0.00 45.68 3.02
5854 13221 2.614969 TGAGGGCCAGGGCTCAAT 60.615 61.111 13.60 0.00 45.68 2.57
5878 13246 1.039233 TAAGTCGGACGACATCCCCC 61.039 60.000 24.48 0.00 46.04 5.40
5893 13261 4.162690 CCCAGCCCTAGCCACGTC 62.163 72.222 0.00 0.00 41.25 4.34
5894 13262 4.162690 CCAGCCCTAGCCACGTCC 62.163 72.222 0.00 0.00 41.25 4.79
5895 13263 4.514577 CAGCCCTAGCCACGTCCG 62.515 72.222 0.00 0.00 41.25 4.79
5908 13276 3.658422 GTCCGCCCCCTCCCTTTT 61.658 66.667 0.00 0.00 0.00 2.27
5909 13277 2.861974 TCCGCCCCCTCCCTTTTT 60.862 61.111 0.00 0.00 0.00 1.94
5910 13278 2.679996 CCGCCCCCTCCCTTTTTG 60.680 66.667 0.00 0.00 0.00 2.44
5911 13279 3.381983 CGCCCCCTCCCTTTTTGC 61.382 66.667 0.00 0.00 0.00 3.68
5912 13280 3.381983 GCCCCCTCCCTTTTTGCG 61.382 66.667 0.00 0.00 0.00 4.85
5913 13281 3.381983 CCCCCTCCCTTTTTGCGC 61.382 66.667 0.00 0.00 0.00 6.09
5914 13282 3.381983 CCCCTCCCTTTTTGCGCC 61.382 66.667 4.18 0.00 0.00 6.53
5915 13283 3.747976 CCCTCCCTTTTTGCGCCG 61.748 66.667 4.18 0.00 0.00 6.46
5916 13284 4.419939 CCTCCCTTTTTGCGCCGC 62.420 66.667 4.18 0.00 0.00 6.53
5917 13285 4.419939 CTCCCTTTTTGCGCCGCC 62.420 66.667 6.63 0.00 0.00 6.13
5919 13287 4.722855 CCCTTTTTGCGCCGCCAG 62.723 66.667 6.63 0.00 0.00 4.85
5930 13298 4.528039 CCGCCAGCCCAATCCCAT 62.528 66.667 0.00 0.00 0.00 4.00
5931 13299 2.908940 CGCCAGCCCAATCCCATC 60.909 66.667 0.00 0.00 0.00 3.51
5932 13300 2.522680 GCCAGCCCAATCCCATCC 60.523 66.667 0.00 0.00 0.00 3.51
5933 13301 3.018019 CCAGCCCAATCCCATCCA 58.982 61.111 0.00 0.00 0.00 3.41
5934 13302 1.545211 CCAGCCCAATCCCATCCAT 59.455 57.895 0.00 0.00 0.00 3.41
5935 13303 0.541296 CCAGCCCAATCCCATCCATC 60.541 60.000 0.00 0.00 0.00 3.51
5936 13304 0.541296 CAGCCCAATCCCATCCATCC 60.541 60.000 0.00 0.00 0.00 3.51
5937 13305 1.000590 AGCCCAATCCCATCCATCCA 61.001 55.000 0.00 0.00 0.00 3.41
5938 13306 0.829182 GCCCAATCCCATCCATCCAC 60.829 60.000 0.00 0.00 0.00 4.02
5939 13307 0.855598 CCCAATCCCATCCATCCACT 59.144 55.000 0.00 0.00 0.00 4.00
5940 13308 1.218704 CCCAATCCCATCCATCCACTT 59.781 52.381 0.00 0.00 0.00 3.16
5941 13309 2.590821 CCAATCCCATCCATCCACTTC 58.409 52.381 0.00 0.00 0.00 3.01
5942 13310 2.176364 CCAATCCCATCCATCCACTTCT 59.824 50.000 0.00 0.00 0.00 2.85
5943 13311 3.373438 CCAATCCCATCCATCCACTTCTT 60.373 47.826 0.00 0.00 0.00 2.52
5944 13312 3.589951 ATCCCATCCATCCACTTCTTG 57.410 47.619 0.00 0.00 0.00 3.02
5945 13313 1.064463 TCCCATCCATCCACTTCTTGC 60.064 52.381 0.00 0.00 0.00 4.01
5946 13314 1.396653 CCATCCATCCACTTCTTGCC 58.603 55.000 0.00 0.00 0.00 4.52
5947 13315 1.341285 CCATCCATCCACTTCTTGCCA 60.341 52.381 0.00 0.00 0.00 4.92
5948 13316 2.662866 CATCCATCCACTTCTTGCCAT 58.337 47.619 0.00 0.00 0.00 4.40
5949 13317 2.425143 TCCATCCACTTCTTGCCATC 57.575 50.000 0.00 0.00 0.00 3.51
5950 13318 1.019673 CCATCCACTTCTTGCCATCG 58.980 55.000 0.00 0.00 0.00 3.84
5951 13319 1.679944 CCATCCACTTCTTGCCATCGT 60.680 52.381 0.00 0.00 0.00 3.73
5952 13320 1.667724 CATCCACTTCTTGCCATCGTC 59.332 52.381 0.00 0.00 0.00 4.20
5953 13321 0.036388 TCCACTTCTTGCCATCGTCC 60.036 55.000 0.00 0.00 0.00 4.79
5954 13322 0.321564 CCACTTCTTGCCATCGTCCA 60.322 55.000 0.00 0.00 0.00 4.02
5955 13323 0.798776 CACTTCTTGCCATCGTCCAC 59.201 55.000 0.00 0.00 0.00 4.02
5956 13324 0.396435 ACTTCTTGCCATCGTCCACA 59.604 50.000 0.00 0.00 0.00 4.17
5957 13325 0.798776 CTTCTTGCCATCGTCCACAC 59.201 55.000 0.00 0.00 0.00 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 7002 1.895798 CTCCTGCGCTTATCCATCCTA 59.104 52.381 9.73 0.00 0.00 2.94
52 7011 4.096003 GGCCCACTCCTGCGCTTA 62.096 66.667 9.73 0.00 0.00 3.09
65 7024 4.530857 CAGATGACGTCCGGGCCC 62.531 72.222 13.57 13.57 0.00 5.80
66 7025 4.530857 CCAGATGACGTCCGGGCC 62.531 72.222 14.12 0.00 0.00 5.80
221 7206 1.288335 GGTTGTAGAGGAGGAGGAGGA 59.712 57.143 0.00 0.00 0.00 3.71
271 7256 4.200283 GAGAGGGACGCGCTGGAG 62.200 72.222 5.73 0.00 0.00 3.86
439 7434 0.167470 CGGAGACACGAAGCTTACGA 59.833 55.000 20.18 0.00 35.47 3.43
471 7673 0.032678 CCTAATCAGCCATCGAGCGT 59.967 55.000 0.00 0.00 38.01 5.07
493 7695 2.586792 GAATCGAGTGGGCCTGCT 59.413 61.111 4.53 2.45 0.00 4.24
523 7730 2.669240 CCCCGTCCTTCAACCTCC 59.331 66.667 0.00 0.00 0.00 4.30
528 7735 2.181975 CTAACTACCCCCGTCCTTCAA 58.818 52.381 0.00 0.00 0.00 2.69
542 7749 6.183360 GCGTTGATCTGGGTAACTACTAACTA 60.183 42.308 0.00 0.00 0.00 2.24
543 7750 5.393896 GCGTTGATCTGGGTAACTACTAACT 60.394 44.000 0.00 0.00 0.00 2.24
544 7751 4.802563 GCGTTGATCTGGGTAACTACTAAC 59.197 45.833 0.00 0.00 0.00 2.34
545 7752 4.708421 AGCGTTGATCTGGGTAACTACTAA 59.292 41.667 0.00 0.00 0.00 2.24
546 7753 4.097437 CAGCGTTGATCTGGGTAACTACTA 59.903 45.833 0.00 0.00 0.00 1.82
547 7754 3.097614 AGCGTTGATCTGGGTAACTACT 58.902 45.455 0.00 0.00 0.00 2.57
548 7755 3.187700 CAGCGTTGATCTGGGTAACTAC 58.812 50.000 0.00 0.00 0.00 2.73
549 7756 2.167693 CCAGCGTTGATCTGGGTAACTA 59.832 50.000 0.00 0.00 45.62 2.24
550 7757 1.066143 CCAGCGTTGATCTGGGTAACT 60.066 52.381 0.00 0.00 45.62 2.24
571 7778 2.182842 GCGGATCGGCTGCTGATTT 61.183 57.895 23.77 4.77 45.70 2.17
594 7801 0.441533 GCGCCATCGATCAATGCTAG 59.558 55.000 0.00 0.00 38.10 3.42
715 7928 9.941664 CAATCACTCATCTCAACCAATATAAAC 57.058 33.333 0.00 0.00 0.00 2.01
724 7937 4.573900 ACTGACAATCACTCATCTCAACC 58.426 43.478 0.00 0.00 0.00 3.77
727 7940 5.105595 CCACTACTGACAATCACTCATCTCA 60.106 44.000 0.00 0.00 0.00 3.27
732 7945 4.955811 AACCACTACTGACAATCACTCA 57.044 40.909 0.00 0.00 0.00 3.41
743 7956 2.549754 CTCACTTGCCAAACCACTACTG 59.450 50.000 0.00 0.00 0.00 2.74
801 8014 1.929836 GCTTGTGGATCTAGAGCAACG 59.070 52.381 10.84 0.00 33.68 4.10
802 8019 2.977914 TGCTTGTGGATCTAGAGCAAC 58.022 47.619 8.66 8.66 40.09 4.17
822 8039 2.093890 TCAATTTGACATCGCAGCCAT 58.906 42.857 0.00 0.00 0.00 4.40
823 8040 1.199789 GTCAATTTGACATCGCAGCCA 59.800 47.619 21.75 0.00 46.22 4.75
824 8041 1.900237 GTCAATTTGACATCGCAGCC 58.100 50.000 21.75 0.00 46.22 4.85
856 8073 4.499023 CAAACGGCCGCGACATCG 62.499 66.667 28.58 8.28 43.27 3.84
877 8094 6.305272 AGAGCTGAGATGGATGTAAAAGAA 57.695 37.500 0.00 0.00 0.00 2.52
879 8096 5.055812 GGAGAGCTGAGATGGATGTAAAAG 58.944 45.833 0.00 0.00 0.00 2.27
880 8097 4.442052 CGGAGAGCTGAGATGGATGTAAAA 60.442 45.833 0.00 0.00 0.00 1.52
884 8101 1.039068 CGGAGAGCTGAGATGGATGT 58.961 55.000 0.00 0.00 0.00 3.06
885 8102 1.000385 GACGGAGAGCTGAGATGGATG 60.000 57.143 0.00 0.00 0.00 3.51
912 8129 2.385013 TCGTGTGATCTGACCAATGG 57.615 50.000 0.00 0.00 0.00 3.16
956 8173 0.250901 GCCTCAGCCTGGAAACTCAA 60.251 55.000 0.00 0.00 0.00 3.02
1014 8231 1.126479 TGTAACGATAACGCCGCAAAC 59.874 47.619 0.00 0.00 43.96 2.93
1055 8272 4.874977 GGCGAGAGTAGGCACCGC 62.875 72.222 0.00 0.00 44.45 5.68
1056 8273 4.554363 CGGCGAGAGTAGGCACCG 62.554 72.222 0.00 0.00 0.00 4.94
1059 8276 4.129737 GTGCGGCGAGAGTAGGCA 62.130 66.667 12.98 0.00 0.00 4.75
1061 8278 3.506096 TCGTGCGGCGAGAGTAGG 61.506 66.667 12.98 0.00 45.68 3.18
1187 8404 5.563867 GCACTAGTGATGAGCTGGTATCTAC 60.564 48.000 27.08 0.00 0.00 2.59
1194 8411 1.755959 AGAGCACTAGTGATGAGCTGG 59.244 52.381 27.08 0.00 35.36 4.85
1195 8412 2.481622 CCAGAGCACTAGTGATGAGCTG 60.482 54.545 27.08 21.26 35.36 4.24
1196 8413 1.755959 CCAGAGCACTAGTGATGAGCT 59.244 52.381 27.08 15.54 38.43 4.09
1197 8414 1.480137 ACCAGAGCACTAGTGATGAGC 59.520 52.381 27.08 10.58 0.00 4.26
1198 8415 4.991153 TTACCAGAGCACTAGTGATGAG 57.009 45.455 27.08 13.99 0.00 2.90
1229 8451 0.181114 ACCTGACAGCAGAACAAGCA 59.819 50.000 0.00 0.00 45.17 3.91
1309 8531 2.771763 CTTGACTCGGCGCAGGTTCT 62.772 60.000 10.83 0.00 0.00 3.01
1370 8592 6.918892 TGTATAATTTGTCATCGTCCCTTG 57.081 37.500 0.00 0.00 0.00 3.61
1557 8779 3.961408 AGATAAATGGTCTACAGCGGAGT 59.039 43.478 0.00 0.00 0.00 3.85
1588 8813 2.417243 GGCTATTTTGGATGTGTGCACC 60.417 50.000 15.69 6.37 0.00 5.01
1596 8821 5.341872 TTGAATGGTGGCTATTTTGGATG 57.658 39.130 0.00 0.00 0.00 3.51
1628 8853 7.121168 CAGTAAAGTACATCATGAAACCATGGT 59.879 37.037 13.00 13.00 41.25 3.55
1710 8935 6.184789 TGTCCAAATAGAAGAACCCAATACC 58.815 40.000 0.00 0.00 0.00 2.73
1763 8988 0.802494 CCACGGGTACAAGAACATGC 59.198 55.000 0.00 0.00 0.00 4.06
1767 8992 1.069668 ACAGTCCACGGGTACAAGAAC 59.930 52.381 0.00 0.00 0.00 3.01
1778 9003 1.226603 GCTACGCCTACAGTCCACG 60.227 63.158 0.00 0.00 0.00 4.94
1802 9027 7.875971 ACAAACATAACTCTTCTTCATGAACC 58.124 34.615 3.38 0.00 0.00 3.62
1863 9088 3.947196 TGCATCAGCCAACTATTACAAGG 59.053 43.478 0.00 0.00 41.13 3.61
1873 9098 6.973229 AATTAGAATTTTGCATCAGCCAAC 57.027 33.333 0.00 0.00 41.13 3.77
1877 9102 7.740519 AACGTAATTAGAATTTTGCATCAGC 57.259 32.000 0.00 0.00 42.57 4.26
1969 9194 2.136298 TGCTGGAGGTGTTTGAAACA 57.864 45.000 6.66 6.66 39.52 2.83
1995 9220 4.498009 GCCAAATGTGTATGGTGCATCTAC 60.498 45.833 0.00 0.00 39.00 2.59
2004 9229 4.828939 ACCTATGATGCCAAATGTGTATGG 59.171 41.667 0.00 0.00 39.80 2.74
2086 9311 2.615912 CCCTAGCTACAGAAAATGCTGC 59.384 50.000 0.00 0.00 39.51 5.25
2157 9383 5.914635 ACGTGTAAAGTGAAAAGCATGATTG 59.085 36.000 0.00 0.00 0.00 2.67
2158 9384 6.072112 ACGTGTAAAGTGAAAAGCATGATT 57.928 33.333 0.00 0.00 0.00 2.57
2159 9385 5.689383 ACGTGTAAAGTGAAAAGCATGAT 57.311 34.783 0.00 0.00 0.00 2.45
2242 9470 5.239525 ACACAACACTTCTCTAGAATTTGGC 59.760 40.000 0.00 0.00 33.01 4.52
2258 9486 2.309528 TCCTGACAGTGACACAACAC 57.690 50.000 8.59 0.00 40.60 3.32
2314 9542 1.750778 CACCTATTGGTTGGCATCACC 59.249 52.381 1.23 1.23 46.05 4.02
2316 9544 2.575735 TCTCACCTATTGGTTGGCATCA 59.424 45.455 0.00 0.00 46.05 3.07
2390 9618 4.792068 CCCCAGATCACCTAGCAAAATAA 58.208 43.478 0.00 0.00 0.00 1.40
2430 9658 8.801715 TTTTCAAATAATGCTGAAGAGTTGAC 57.198 30.769 0.00 0.00 33.30 3.18
2442 9670 4.096382 TCTCCTCCGCTTTTCAAATAATGC 59.904 41.667 0.00 0.00 0.00 3.56
2538 9766 1.069500 CGTTCAACAAATCGACCCCAC 60.069 52.381 0.00 0.00 0.00 4.61
2769 9997 4.030216 ACAGTGTTTCCTGTTCCCAATTT 58.970 39.130 0.00 0.00 42.99 1.82
2834 10062 8.671384 TCGAAACATATATTCCCAAAAGGTAG 57.329 34.615 0.00 0.00 36.75 3.18
2857 10085 0.806868 ATTGTGTGCCAGCTGAATCG 59.193 50.000 17.39 0.00 0.00 3.34
3017 10287 1.887198 GACTCGGTCCTTTCAGAGACA 59.113 52.381 0.00 0.00 34.58 3.41
3313 10584 0.318955 CTTTGGACAAAGGCCAAGCG 60.319 55.000 15.26 0.00 45.39 4.68
3444 10715 5.006386 AGGACAAAAGGCAAATGACTCTAG 58.994 41.667 0.00 0.00 29.30 2.43
3474 10745 7.138736 TGAGCTACAGTAAAAGTTTCAAATGC 58.861 34.615 0.00 0.00 0.00 3.56
3655 10927 2.033049 CCAATCCCTGTACTACGACTCG 59.967 54.545 0.00 0.00 0.00 4.18
3686 10958 7.973944 ACATCAGAGTTTTGAAAAAGTGGTAAC 59.026 33.333 0.66 0.00 32.00 2.50
3744 11016 8.289939 AGCATCTCATATCAAAGTTGTCAAAT 57.710 30.769 0.00 0.00 0.00 2.32
3787 11059 3.132111 TGCTGTCAGTGTAGAACTTGTGA 59.868 43.478 0.93 0.00 36.83 3.58
3860 11132 9.043444 CGGTATACGTTCTGAAAGGAACATTCC 62.043 44.444 8.16 2.14 43.92 3.01
3898 11170 5.728637 TGTGTCAGAATAGCATATCCGAT 57.271 39.130 0.00 0.00 0.00 4.18
3942 11214 8.992073 GGGGTGTATTTTACTATAAATACCACG 58.008 37.037 13.61 0.00 44.61 4.94
4193 11465 4.087892 GAGGCTGCGCTCAGGGAA 62.088 66.667 9.73 0.00 40.65 3.97
4197 11469 4.527583 GGAGGAGGCTGCGCTCAG 62.528 72.222 9.73 0.00 43.16 3.35
4276 11550 7.543172 ACAAATAGACTTGCGTAATTTCGTCTA 59.457 33.333 12.94 12.94 38.07 2.59
4280 11554 7.234384 AGAACAAATAGACTTGCGTAATTTCG 58.766 34.615 0.00 0.00 0.00 3.46
4322 11596 9.948964 TGAAGAAGTATCATGAGAAATCAAAGA 57.051 29.630 0.09 0.00 0.00 2.52
4356 11630 7.544622 TGATATTAGATATCCGGTACTGCAAC 58.455 38.462 0.00 0.00 40.70 4.17
4443 11717 4.096003 CCTCCATCGCCCACCGTT 62.096 66.667 0.00 0.00 38.35 4.44
4449 11723 4.424711 TGGTTGCCTCCATCGCCC 62.425 66.667 0.00 0.00 31.96 6.13
4473 11747 1.439644 CTCTTACCTCCAGGCGAGC 59.560 63.158 0.00 0.00 37.27 5.03
4517 11791 6.037098 CAGAGTCTAGTATTACAAGGTGCAC 58.963 44.000 8.80 8.80 0.00 4.57
4518 11792 5.394224 GCAGAGTCTAGTATTACAAGGTGCA 60.394 44.000 0.00 0.00 0.00 4.57
4527 11801 4.070716 GCGGTAGGCAGAGTCTAGTATTA 58.929 47.826 0.00 0.00 42.87 0.98
4528 11802 2.885894 GCGGTAGGCAGAGTCTAGTATT 59.114 50.000 0.00 0.00 42.87 1.89
4602 11877 1.313812 CCCTGAACGCCGAGTAGTCT 61.314 60.000 0.00 0.00 0.00 3.24
4758 12033 1.836999 ATGCAACTGTCGGGGTGCTA 61.837 55.000 13.17 3.35 0.00 3.49
4764 12039 1.645034 CTGTCTATGCAACTGTCGGG 58.355 55.000 0.00 0.00 0.00 5.14
4787 12070 2.463592 CATCGGGATGGATGCATCG 58.536 57.895 20.15 11.03 37.59 3.84
4839 12122 1.461127 CCAGCTGCTTAGAAACACGAC 59.539 52.381 8.66 0.00 0.00 4.34
4978 12261 1.129251 CGCTGCCAATGTTCTGTAGTG 59.871 52.381 0.00 0.00 0.00 2.74
4980 12263 0.729116 CCGCTGCCAATGTTCTGTAG 59.271 55.000 0.00 0.00 0.00 2.74
4998 12281 1.376037 CCTCTGAAACTCCCGTGCC 60.376 63.158 0.00 0.00 0.00 5.01
5004 12287 2.269241 CGGGGCCTCTGAAACTCC 59.731 66.667 0.00 0.00 0.00 3.85
5026 12309 3.435186 GCAAAGCTCCCGTGCCTC 61.435 66.667 0.00 0.00 31.94 4.70
5027 12310 3.497884 AAGCAAAGCTCCCGTGCCT 62.498 57.895 7.73 0.00 38.25 4.75
5028 12311 2.982744 GAAGCAAAGCTCCCGTGCC 61.983 63.158 7.73 0.00 38.25 5.01
5029 12312 1.968540 AGAAGCAAAGCTCCCGTGC 60.969 57.895 0.00 0.00 38.25 5.34
5030 12313 1.871772 CAGAAGCAAAGCTCCCGTG 59.128 57.895 0.00 0.00 38.25 4.94
5031 12314 1.968540 GCAGAAGCAAAGCTCCCGT 60.969 57.895 0.00 0.00 38.25 5.28
5035 12365 1.401278 GCAGAAGCAGAAGCAAAGCTC 60.401 52.381 0.00 0.00 45.49 4.09
5052 12382 4.047059 CCAGCGGCCACAAAGCAG 62.047 66.667 2.24 0.00 0.00 4.24
5116 12470 1.271597 CCAGGCTTCTACCATATGCCC 60.272 57.143 0.00 0.00 44.19 5.36
5159 12515 2.297315 CAGTACCAGCACAGTCTGAAGA 59.703 50.000 6.91 0.00 36.19 2.87
5160 12516 2.681706 CAGTACCAGCACAGTCTGAAG 58.318 52.381 6.91 0.00 36.19 3.02
5162 12518 0.318441 GCAGTACCAGCACAGTCTGA 59.682 55.000 6.91 0.00 36.19 3.27
5174 12532 6.453092 ACCGTGTTCATTATATAGCAGTACC 58.547 40.000 0.00 0.00 0.00 3.34
5183 12541 3.986277 GGACGGACCGTGTTCATTATAT 58.014 45.455 27.26 0.00 41.37 0.86
5202 12560 1.661617 CGGAATTTTACATGCGTCGGA 59.338 47.619 0.00 0.00 0.00 4.55
5203 12561 1.267832 CCGGAATTTTACATGCGTCGG 60.268 52.381 0.00 0.00 0.00 4.79
5204 12562 1.854434 GCCGGAATTTTACATGCGTCG 60.854 52.381 5.05 0.00 0.00 5.12
5205 12563 1.533129 GGCCGGAATTTTACATGCGTC 60.533 52.381 5.05 0.00 0.00 5.19
5224 12582 0.749454 GTTGGTGGCCATCTAGCTGG 60.749 60.000 18.94 8.32 39.45 4.85
5242 12600 2.533266 ATCGACTTGAACAGTGCAGT 57.467 45.000 0.00 0.00 35.01 4.40
5247 12605 4.519350 TGAGTGTCTATCGACTTGAACAGT 59.481 41.667 0.00 0.00 40.86 3.55
5248 12606 5.048153 TGAGTGTCTATCGACTTGAACAG 57.952 43.478 0.00 0.00 40.86 3.16
5253 12611 4.955925 ACTCTGAGTGTCTATCGACTTG 57.044 45.455 10.00 0.00 40.86 3.16
5300 12658 6.650807 AGGATTGGCGTATCAGTGTATAATTG 59.349 38.462 0.00 0.00 0.00 2.32
5301 12659 6.650807 CAGGATTGGCGTATCAGTGTATAATT 59.349 38.462 0.00 0.00 0.00 1.40
5303 12661 5.069914 ACAGGATTGGCGTATCAGTGTATAA 59.930 40.000 0.00 0.00 0.00 0.98
5304 12662 4.587262 ACAGGATTGGCGTATCAGTGTATA 59.413 41.667 0.00 0.00 0.00 1.47
5307 12665 1.555075 ACAGGATTGGCGTATCAGTGT 59.445 47.619 0.00 2.59 0.00 3.55
5308 12666 1.935873 CACAGGATTGGCGTATCAGTG 59.064 52.381 8.63 8.63 0.00 3.66
5310 12668 0.940126 GCACAGGATTGGCGTATCAG 59.060 55.000 2.46 0.00 0.00 2.90
5404 12767 2.072298 CTGCTTATCTTATCGCCCAGC 58.928 52.381 0.00 0.00 0.00 4.85
5405 12768 2.072298 GCTGCTTATCTTATCGCCCAG 58.928 52.381 0.00 0.00 0.00 4.45
5406 12769 1.270839 GGCTGCTTATCTTATCGCCCA 60.271 52.381 0.00 0.00 0.00 5.36
5407 12770 1.443802 GGCTGCTTATCTTATCGCCC 58.556 55.000 0.00 0.00 0.00 6.13
5408 12771 1.071605 CGGCTGCTTATCTTATCGCC 58.928 55.000 0.00 0.00 0.00 5.54
5409 12772 1.721926 GTCGGCTGCTTATCTTATCGC 59.278 52.381 0.00 0.00 0.00 4.58
5410 12773 1.979469 CGTCGGCTGCTTATCTTATCG 59.021 52.381 0.00 0.00 0.00 2.92
5411 12774 2.329379 CCGTCGGCTGCTTATCTTATC 58.671 52.381 0.00 0.00 0.00 1.75
5412 12775 1.605712 GCCGTCGGCTGCTTATCTTAT 60.606 52.381 28.98 0.00 46.69 1.73
5413 12776 0.249322 GCCGTCGGCTGCTTATCTTA 60.249 55.000 28.98 0.00 46.69 2.10
5414 12777 1.521681 GCCGTCGGCTGCTTATCTT 60.522 57.895 28.98 0.00 46.69 2.40
5415 12778 2.107141 GCCGTCGGCTGCTTATCT 59.893 61.111 28.98 0.00 46.69 1.98
5536 12899 5.181245 CGTTACACTGAAATCCCAAATCACT 59.819 40.000 0.00 0.00 0.00 3.41
5537 12900 5.048991 ACGTTACACTGAAATCCCAAATCAC 60.049 40.000 0.00 0.00 0.00 3.06
5539 12902 5.622770 ACGTTACACTGAAATCCCAAATC 57.377 39.130 0.00 0.00 0.00 2.17
5540 12903 5.768164 AGAACGTTACACTGAAATCCCAAAT 59.232 36.000 0.00 0.00 0.00 2.32
5547 12913 5.057149 AGCTGAAGAACGTTACACTGAAAT 58.943 37.500 0.00 0.00 0.00 2.17
5617 12983 2.518933 CGGGTGGGTCAGGGTTTT 59.481 61.111 0.00 0.00 0.00 2.43
5618 12984 4.280019 GCGGGTGGGTCAGGGTTT 62.280 66.667 0.00 0.00 0.00 3.27
5636 13002 2.027625 CCAGACCGGTTTGAGACGC 61.028 63.158 25.81 1.75 0.00 5.19
5650 13016 1.911766 GGGTGTCGGTCTTCCCAGA 60.912 63.158 0.00 0.00 39.68 3.86
5656 13022 3.517901 TGAATATGAAGGGTGTCGGTCTT 59.482 43.478 0.00 0.00 0.00 3.01
5691 13057 2.032681 GGCTGCCCCATATCCGTC 59.967 66.667 7.66 0.00 0.00 4.79
5693 13059 2.033141 CAGGCTGCCCCATATCCG 59.967 66.667 16.57 0.00 35.39 4.18
5694 13060 2.156098 TCCAGGCTGCCCCATATCC 61.156 63.158 16.57 0.00 35.39 2.59
5705 13071 1.188219 ATGACAGACACGTCCAGGCT 61.188 55.000 0.00 0.00 34.88 4.58
5708 13074 1.000274 TGACATGACAGACACGTCCAG 60.000 52.381 0.00 0.00 40.42 3.86
5709 13075 1.036707 TGACATGACAGACACGTCCA 58.963 50.000 0.00 0.00 40.42 4.02
5728 13094 1.296715 GGAACCCGACTGTCAGCAT 59.703 57.895 8.73 0.00 0.00 3.79
5733 13099 1.663702 CGTGTGGAACCCGACTGTC 60.664 63.158 0.00 0.00 34.36 3.51
5734 13100 2.420043 CGTGTGGAACCCGACTGT 59.580 61.111 0.00 0.00 34.36 3.55
5759 13125 3.318017 CACTAGACCGTTGAGTTTCTGG 58.682 50.000 0.00 0.00 0.00 3.86
5760 13126 3.318017 CCACTAGACCGTTGAGTTTCTG 58.682 50.000 0.00 0.00 0.00 3.02
5776 13142 2.303022 CTGCCAAAGAAGACTCCCACTA 59.697 50.000 0.00 0.00 0.00 2.74
5777 13143 1.072965 CTGCCAAAGAAGACTCCCACT 59.927 52.381 0.00 0.00 0.00 4.00
5779 13145 0.401738 CCTGCCAAAGAAGACTCCCA 59.598 55.000 0.00 0.00 0.00 4.37
5783 13149 0.111253 CACCCCTGCCAAAGAAGACT 59.889 55.000 0.00 0.00 0.00 3.24
5791 13157 2.203280 CGTTCACACCCCTGCCAA 60.203 61.111 0.00 0.00 0.00 4.52
5818 13185 4.570663 GTGGCGAGCCGTAGCGAT 62.571 66.667 9.78 0.00 46.67 4.58
5849 13216 6.880822 TGTCGTCCGACTTAAATAATTGAG 57.119 37.500 19.30 0.00 44.80 3.02
5850 13217 6.477688 GGATGTCGTCCGACTTAAATAATTGA 59.522 38.462 19.30 0.00 44.80 2.57
5851 13218 6.646636 GGATGTCGTCCGACTTAAATAATTG 58.353 40.000 19.30 0.00 44.80 2.32
5852 13219 6.839820 GGATGTCGTCCGACTTAAATAATT 57.160 37.500 19.30 0.00 44.80 1.40
5878 13246 4.514577 CGGACGTGGCTAGGGCTG 62.515 72.222 0.00 0.00 38.73 4.85
5891 13259 3.219788 AAAAAGGGAGGGGGCGGAC 62.220 63.158 0.00 0.00 0.00 4.79
5892 13260 2.861974 AAAAAGGGAGGGGGCGGA 60.862 61.111 0.00 0.00 0.00 5.54
5893 13261 2.679996 CAAAAAGGGAGGGGGCGG 60.680 66.667 0.00 0.00 0.00 6.13
5894 13262 3.381983 GCAAAAAGGGAGGGGGCG 61.382 66.667 0.00 0.00 0.00 6.13
5895 13263 3.381983 CGCAAAAAGGGAGGGGGC 61.382 66.667 0.00 0.00 0.00 5.80
5896 13264 3.381983 GCGCAAAAAGGGAGGGGG 61.382 66.667 0.30 0.00 0.00 5.40
5897 13265 3.381983 GGCGCAAAAAGGGAGGGG 61.382 66.667 10.83 0.00 0.00 4.79
5898 13266 3.747976 CGGCGCAAAAAGGGAGGG 61.748 66.667 10.83 0.00 0.00 4.30
5899 13267 4.419939 GCGGCGCAAAAAGGGAGG 62.420 66.667 29.21 0.00 0.00 4.30
5900 13268 4.419939 GGCGGCGCAAAAAGGGAG 62.420 66.667 34.36 0.00 0.00 4.30
5902 13270 4.722855 CTGGCGGCGCAAAAAGGG 62.723 66.667 34.36 6.07 0.00 3.95
5913 13281 4.528039 ATGGGATTGGGCTGGCGG 62.528 66.667 0.00 0.00 0.00 6.13
5914 13282 2.908940 GATGGGATTGGGCTGGCG 60.909 66.667 0.00 0.00 0.00 5.69
5915 13283 2.522680 GGATGGGATTGGGCTGGC 60.523 66.667 0.00 0.00 0.00 4.85
5916 13284 0.541296 GATGGATGGGATTGGGCTGG 60.541 60.000 0.00 0.00 0.00 4.85
5917 13285 0.541296 GGATGGATGGGATTGGGCTG 60.541 60.000 0.00 0.00 0.00 4.85
5918 13286 1.000590 TGGATGGATGGGATTGGGCT 61.001 55.000 0.00 0.00 0.00 5.19
5919 13287 0.829182 GTGGATGGATGGGATTGGGC 60.829 60.000 0.00 0.00 0.00 5.36
5920 13288 0.855598 AGTGGATGGATGGGATTGGG 59.144 55.000 0.00 0.00 0.00 4.12
5921 13289 2.176364 AGAAGTGGATGGATGGGATTGG 59.824 50.000 0.00 0.00 0.00 3.16
5922 13290 3.589951 AGAAGTGGATGGATGGGATTG 57.410 47.619 0.00 0.00 0.00 2.67
5923 13291 3.907221 CAAGAAGTGGATGGATGGGATT 58.093 45.455 0.00 0.00 0.00 3.01
5924 13292 2.423947 GCAAGAAGTGGATGGATGGGAT 60.424 50.000 0.00 0.00 0.00 3.85
5925 13293 1.064463 GCAAGAAGTGGATGGATGGGA 60.064 52.381 0.00 0.00 0.00 4.37
5926 13294 1.396653 GCAAGAAGTGGATGGATGGG 58.603 55.000 0.00 0.00 0.00 4.00
5927 13295 1.341285 TGGCAAGAAGTGGATGGATGG 60.341 52.381 0.00 0.00 0.00 3.51
5928 13296 2.133281 TGGCAAGAAGTGGATGGATG 57.867 50.000 0.00 0.00 0.00 3.51
5929 13297 2.747467 CGATGGCAAGAAGTGGATGGAT 60.747 50.000 0.00 0.00 0.00 3.41
5930 13298 1.407299 CGATGGCAAGAAGTGGATGGA 60.407 52.381 0.00 0.00 0.00 3.41
5931 13299 1.019673 CGATGGCAAGAAGTGGATGG 58.980 55.000 0.00 0.00 0.00 3.51
5932 13300 1.667724 GACGATGGCAAGAAGTGGATG 59.332 52.381 0.00 0.00 0.00 3.51
5933 13301 1.407437 GGACGATGGCAAGAAGTGGAT 60.407 52.381 0.00 0.00 0.00 3.41
5934 13302 0.036388 GGACGATGGCAAGAAGTGGA 60.036 55.000 0.00 0.00 0.00 4.02
5935 13303 0.321564 TGGACGATGGCAAGAAGTGG 60.322 55.000 0.00 0.00 0.00 4.00
5936 13304 0.798776 GTGGACGATGGCAAGAAGTG 59.201 55.000 0.00 0.00 0.00 3.16
5937 13305 0.396435 TGTGGACGATGGCAAGAAGT 59.604 50.000 0.00 0.00 0.00 3.01
5938 13306 0.798776 GTGTGGACGATGGCAAGAAG 59.201 55.000 0.00 0.00 0.00 2.85
5939 13307 2.927004 GTGTGGACGATGGCAAGAA 58.073 52.632 0.00 0.00 0.00 2.52
5940 13308 4.693532 GTGTGGACGATGGCAAGA 57.306 55.556 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.