Multiple sequence alignment - TraesCS2D01G251900

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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 TraesCS2D01G251900 chr2D 100.000 5007 0 0 465 5471 301824772 301819766 0.000000e+00 9247.0
1 TraesCS2D01G251900 chr2D 100.000 168 0 0 1 168 301825236 301825069 1.480000e-80 311.0
2 TraesCS2D01G251900 chr2A 93.511 4623 174 43 913 5471 378858147 378853587 0.000000e+00 6759.0
3 TraesCS2D01G251900 chr2B 93.159 2938 114 31 2582 5471 356599998 356597100 0.000000e+00 4231.0
4 TraesCS2D01G251900 chr2B 93.184 1702 86 10 913 2600 356601638 356599953 0.000000e+00 2473.0
5 TraesCS2D01G251900 chr2B 81.522 184 31 2 3152 3335 707729766 707729946 1.230000e-31 148.0
6 TraesCS2D01G251900 chr4A 85.714 329 41 5 3137 3465 464566655 464566977 5.250000e-90 342.0
7 TraesCS2D01G251900 chr7D 80.255 471 55 21 3518 3978 48544262 48543820 2.460000e-83 320.0
8 TraesCS2D01G251900 chr1A 92.958 213 13 2 682 892 37489994 37489782 5.320000e-80 309.0
9 TraesCS2D01G251900 chr1A 97.253 182 5 0 465 646 37490712 37490531 5.320000e-80 309.0
10 TraesCS2D01G251900 chr1A 81.081 185 32 2 3152 3336 333963206 333963387 1.590000e-30 145.0
11 TraesCS2D01G251900 chr1A 89.041 73 4 3 21 93 37490936 37490868 2.710000e-13 87.9
12 TraesCS2D01G251900 chr4D 83.871 310 43 6 3151 3457 63233666 63233361 6.930000e-74 289.0
13 TraesCS2D01G251900 chr1B 84.884 258 31 5 3154 3408 428540155 428539903 2.530000e-63 254.0
14 TraesCS2D01G251900 chr3D 82.292 288 41 5 3159 3440 114029521 114029804 1.970000e-59 241.0
15 TraesCS2D01G251900 chr3D 81.818 264 23 10 3641 3901 294601278 294601519 1.200000e-46 198.0
16 TraesCS2D01G251900 chr4B 82.286 175 26 4 3162 3335 285435285 285435115 4.420000e-31 147.0


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 TraesCS2D01G251900 chr2D 301819766 301825236 5470 True 4779.0 9247 100.0000 1 5471 2 chr2D.!!$R1 5470
1 TraesCS2D01G251900 chr2A 378853587 378858147 4560 True 6759.0 6759 93.5110 913 5471 1 chr2A.!!$R1 4558
2 TraesCS2D01G251900 chr2B 356597100 356601638 4538 True 3352.0 4231 93.1715 913 5471 2 chr2B.!!$R1 4558
3 TraesCS2D01G251900 chr1A 37489782 37490936 1154 True 235.3 309 93.0840 21 892 3 chr1A.!!$R1 871

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
678 727 0.100503 GAATGGGAAACGGGCGAATG 59.899 55.0 0.00 0.00 0.00 2.67 F
889 1441 0.249657 GCTAGATCCAACGGCTCAGG 60.250 60.0 0.00 0.00 0.00 3.86 F
1683 2250 0.034089 GGGAGGCAGCCTAACATTGT 60.034 55.0 16.16 0.00 31.76 2.71 F
1901 2470 0.036952 GCTAGCTCACTGCCAGTCAA 60.037 55.0 7.70 0.00 44.23 3.18 F
2530 3099 0.804989 GAGGCATGTACAACAGTGGC 59.195 55.0 11.65 11.65 34.73 5.01 F
3826 4410 0.040067 GCTAGCGTTTGCAACTGCTT 60.040 50.0 24.70 12.37 46.23 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1551 2116 0.389817 TCATGGAACGTCAAGAGCCG 60.390 55.000 0.0 0.0 0.00 5.52 R
2431 3000 0.472925 TATTCCCATAGAGCCCGCCA 60.473 55.000 0.0 0.0 0.00 5.69 R
3459 4041 0.389037 GTAACGGAGGGAACACGGAC 60.389 60.000 0.0 0.0 37.30 4.79 R
3822 4406 0.100325 CAGTTGCACCGTTTGAAGCA 59.900 50.000 0.0 0.0 34.79 3.91 R
3830 4414 0.100503 GTTTGAAGCAGTTGCACCGT 59.899 50.000 6.9 0.0 45.16 4.83 R
5298 5928 2.017049 CCTTCCCTACAAAATCGCCAG 58.983 52.381 0.0 0.0 0.00 4.85 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
23 24 6.183309 CAAAACCTAATCAGCTACTGGAAC 57.817 41.667 0.00 0.00 31.51 3.62
24 25 4.489306 AACCTAATCAGCTACTGGAACC 57.511 45.455 0.00 0.00 31.51 3.62
25 26 3.725634 ACCTAATCAGCTACTGGAACCT 58.274 45.455 0.00 0.00 31.51 3.50
26 27 4.880164 ACCTAATCAGCTACTGGAACCTA 58.120 43.478 0.00 0.00 31.51 3.08
27 28 4.650131 ACCTAATCAGCTACTGGAACCTAC 59.350 45.833 0.00 0.00 31.51 3.18
28 29 4.649674 CCTAATCAGCTACTGGAACCTACA 59.350 45.833 0.00 0.00 31.51 2.74
29 30 4.473477 AATCAGCTACTGGAACCTACAC 57.527 45.455 0.00 0.00 31.51 2.90
80 111 6.554419 TGACAAGAAAATGAACTGAACACAG 58.446 36.000 0.00 0.00 37.63 3.66
93 124 5.437060 ACTGAACACAGACAAAACTACCAT 58.563 37.500 0.00 0.00 35.80 3.55
102 150 9.912634 CACAGACAAAACTACCATTGATAAAAT 57.087 29.630 0.00 0.00 0.00 1.82
120 168 0.401105 ATCCCCCTCCCTCACATCTG 60.401 60.000 0.00 0.00 0.00 2.90
134 182 1.487976 ACATCTGCGTGGATCCAAGAT 59.512 47.619 29.13 23.21 0.00 2.40
136 184 0.103026 TCTGCGTGGATCCAAGATCG 59.897 55.000 29.13 22.30 0.00 3.69
148 197 5.163913 GGATCCAAGATCGCTGATAAAATCG 60.164 44.000 6.95 0.00 0.00 3.34
152 201 1.464997 GATCGCTGATAAAATCGCCCC 59.535 52.381 0.00 0.00 0.00 5.80
540 589 2.375174 ACAACACAAGCAGAGGGGAATA 59.625 45.455 0.00 0.00 0.00 1.75
556 605 8.202811 AGAGGGGAATAGTACTAAAAATCGAAC 58.797 37.037 6.70 0.00 0.00 3.95
558 607 8.323567 AGGGGAATAGTACTAAAAATCGAACAA 58.676 33.333 6.70 0.00 0.00 2.83
642 691 3.095898 CTCCAAAATCGCCGTCGCC 62.096 63.158 0.00 0.00 35.26 5.54
646 695 4.760047 AAATCGCCGTCGCCTGCT 62.760 61.111 0.00 0.00 35.26 4.24
647 696 4.760047 AATCGCCGTCGCCTGCTT 62.760 61.111 0.00 0.00 35.26 3.91
657 706 4.039092 GCCTGCTTGCCCTGGAGA 62.039 66.667 0.00 0.00 0.00 3.71
658 707 2.271497 CCTGCTTGCCCTGGAGAG 59.729 66.667 0.00 0.00 0.00 3.20
659 708 2.271497 CTGCTTGCCCTGGAGAGG 59.729 66.667 0.00 0.00 39.42 3.69
660 709 2.203983 TGCTTGCCCTGGAGAGGA 60.204 61.111 0.00 0.00 42.93 3.71
661 710 1.845627 CTGCTTGCCCTGGAGAGGAA 61.846 60.000 0.00 0.00 42.93 3.36
663 712 0.750911 GCTTGCCCTGGAGAGGAATG 60.751 60.000 0.00 0.00 42.93 2.67
664 713 0.106819 CTTGCCCTGGAGAGGAATGG 60.107 60.000 0.00 0.00 42.93 3.16
666 715 1.694169 GCCCTGGAGAGGAATGGGA 60.694 63.158 0.00 0.00 42.93 4.37
667 716 1.281925 GCCCTGGAGAGGAATGGGAA 61.282 60.000 0.00 0.00 42.93 3.97
669 718 1.064389 CCCTGGAGAGGAATGGGAAAC 60.064 57.143 0.00 0.00 42.93 2.78
670 719 1.407437 CCTGGAGAGGAATGGGAAACG 60.407 57.143 0.00 0.00 42.93 3.60
672 721 0.107165 GGAGAGGAATGGGAAACGGG 60.107 60.000 0.00 0.00 0.00 5.28
673 722 0.748367 GAGAGGAATGGGAAACGGGC 60.748 60.000 0.00 0.00 0.00 6.13
674 723 2.045340 AGGAATGGGAAACGGGCG 60.045 61.111 0.00 0.00 0.00 6.13
676 725 1.676303 GGAATGGGAAACGGGCGAA 60.676 57.895 0.00 0.00 0.00 4.70
677 726 1.035385 GGAATGGGAAACGGGCGAAT 61.035 55.000 0.00 0.00 0.00 3.34
678 727 0.100503 GAATGGGAAACGGGCGAATG 59.899 55.000 0.00 0.00 0.00 2.67
679 728 0.322997 AATGGGAAACGGGCGAATGA 60.323 50.000 0.00 0.00 0.00 2.57
680 729 0.322997 ATGGGAAACGGGCGAATGAA 60.323 50.000 0.00 0.00 0.00 2.57
737 1287 2.284798 GAATGCGAGGCGAGGACAGA 62.285 60.000 0.00 0.00 0.00 3.41
745 1295 1.134220 AGGCGAGGACAGACAAAACAA 60.134 47.619 0.00 0.00 0.00 2.83
752 1302 1.068588 GACAGACAAAACAAAGGCCCC 59.931 52.381 0.00 0.00 0.00 5.80
869 1421 4.028720 CGTTTGCGCGAATATTAGAGAG 57.971 45.455 14.34 0.00 0.00 3.20
889 1441 0.249657 GCTAGATCCAACGGCTCAGG 60.250 60.000 0.00 0.00 0.00 3.86
892 1444 1.817099 GATCCAACGGCTCAGGCAG 60.817 63.158 0.00 0.00 40.87 4.85
893 1445 2.244117 GATCCAACGGCTCAGGCAGA 62.244 60.000 0.00 0.00 40.87 4.26
894 1446 1.630126 ATCCAACGGCTCAGGCAGAT 61.630 55.000 0.00 0.00 40.87 2.90
895 1447 2.110967 CCAACGGCTCAGGCAGATG 61.111 63.158 0.00 0.00 40.87 2.90
896 1448 1.376424 CAACGGCTCAGGCAGATGT 60.376 57.895 0.00 0.00 40.87 3.06
897 1449 1.376424 AACGGCTCAGGCAGATGTG 60.376 57.895 0.00 0.00 40.87 3.21
898 1450 1.830587 AACGGCTCAGGCAGATGTGA 61.831 55.000 0.00 0.00 40.87 3.58
899 1451 1.078918 CGGCTCAGGCAGATGTGAA 60.079 57.895 0.00 0.00 40.87 3.18
900 1452 0.674581 CGGCTCAGGCAGATGTGAAA 60.675 55.000 0.00 0.00 40.87 2.69
901 1453 1.760192 GGCTCAGGCAGATGTGAAAT 58.240 50.000 0.00 0.00 40.87 2.17
902 1454 2.742856 CGGCTCAGGCAGATGTGAAATA 60.743 50.000 0.00 0.00 40.87 1.40
903 1455 2.877168 GGCTCAGGCAGATGTGAAATAG 59.123 50.000 0.00 0.00 40.87 1.73
904 1456 2.290093 GCTCAGGCAGATGTGAAATAGC 59.710 50.000 0.00 0.00 38.54 2.97
905 1457 3.538591 CTCAGGCAGATGTGAAATAGCA 58.461 45.455 0.00 0.00 0.00 3.49
906 1458 3.943381 CTCAGGCAGATGTGAAATAGCAA 59.057 43.478 0.00 0.00 0.00 3.91
907 1459 4.334552 TCAGGCAGATGTGAAATAGCAAA 58.665 39.130 0.00 0.00 0.00 3.68
908 1460 4.951715 TCAGGCAGATGTGAAATAGCAAAT 59.048 37.500 0.00 0.00 0.00 2.32
909 1461 5.066893 TCAGGCAGATGTGAAATAGCAAATC 59.933 40.000 0.00 0.00 33.54 2.17
910 1462 5.067413 CAGGCAGATGTGAAATAGCAAATCT 59.933 40.000 0.00 0.00 42.25 2.40
1021 1573 3.330720 CAGGTTCGCCCTTCCCCT 61.331 66.667 0.00 0.00 42.73 4.79
1181 1746 1.745489 GCGAACTTTGGGGCGAGAT 60.745 57.895 0.00 0.00 0.00 2.75
1200 1765 5.163754 CGAGATGTTGTTTAGGGATGTTTCC 60.164 44.000 0.00 0.00 41.77 3.13
1226 1791 1.075601 TGGAGGGCAGATTTGAGGTT 58.924 50.000 0.00 0.00 0.00 3.50
1227 1792 1.272092 TGGAGGGCAGATTTGAGGTTG 60.272 52.381 0.00 0.00 0.00 3.77
1228 1793 1.004745 GGAGGGCAGATTTGAGGTTGA 59.995 52.381 0.00 0.00 0.00 3.18
1233 1798 1.272147 GCAGATTTGAGGTTGAGGGGT 60.272 52.381 0.00 0.00 0.00 4.95
1289 1854 1.862602 GAATCGTTGCCGGGTTGCTT 61.863 55.000 2.18 0.00 33.95 3.91
1308 1873 3.739519 GCTTCAGCTATCTTGACGTGGAT 60.740 47.826 0.00 0.00 38.21 3.41
1338 1903 3.561503 GTGGAACTGGCGTCAATTTTAC 58.438 45.455 0.00 0.00 0.00 2.01
1346 1911 3.253677 TGGCGTCAATTTTACCGATTTGT 59.746 39.130 0.00 0.00 0.00 2.83
1375 1940 4.072088 GTTGGCGGTTCGTGCGAG 62.072 66.667 0.00 0.00 0.00 5.03
1383 1948 2.434185 TTCGTGCGAGGATGTGGC 60.434 61.111 0.00 0.00 0.00 5.01
1410 1975 1.660167 ATTTTCGGCCGGTTAGTAGC 58.340 50.000 27.83 0.00 0.00 3.58
1561 2126 0.811616 CATACCCTGCGGCTCTTGAC 60.812 60.000 0.00 0.00 0.00 3.18
1568 2133 4.598257 CGGCTCTTGACGTTCCAT 57.402 55.556 0.00 0.00 40.41 3.41
1579 2144 5.943416 TCTTGACGTTCCATGATTGGTTAAT 59.057 36.000 0.00 0.00 44.06 1.40
1599 2166 2.125106 CCGTGCCTGAGCCCTTAC 60.125 66.667 0.00 0.00 38.69 2.34
1626 2193 6.346359 GGCTTACTAGTTTGTCAAAGTACACG 60.346 42.308 0.00 3.36 0.00 4.49
1628 2195 5.014808 ACTAGTTTGTCAAAGTACACGGT 57.985 39.130 8.51 3.60 0.00 4.83
1651 2218 7.467539 CGGTTCATTTGAGGTGTAACAAAGTAA 60.468 37.037 0.00 0.00 39.98 2.24
1655 2222 9.048446 TCATTTGAGGTGTAACAAAGTAACTAC 57.952 33.333 0.00 0.00 39.98 2.73
1678 2245 1.562672 TTCCTGGGAGGCAGCCTAAC 61.563 60.000 16.16 11.12 34.61 2.34
1681 2248 0.257039 CTGGGAGGCAGCCTAACATT 59.743 55.000 16.16 0.00 31.76 2.71
1683 2250 0.034089 GGGAGGCAGCCTAACATTGT 60.034 55.000 16.16 0.00 31.76 2.71
1684 2251 1.616994 GGGAGGCAGCCTAACATTGTT 60.617 52.381 16.16 7.30 31.76 2.83
1730 2297 7.868415 TGTTTTCTTGTTTATAAACCCATTCCG 59.132 33.333 22.47 6.20 38.11 4.30
1767 2336 7.489113 CAGAAATTGCTTATTTGGCTAAACGAT 59.511 33.333 0.00 0.00 36.59 3.73
1804 2373 2.393271 AGCTCACCTACTTGTGCATC 57.607 50.000 0.00 0.00 38.25 3.91
1806 2375 2.304180 AGCTCACCTACTTGTGCATCTT 59.696 45.455 0.00 0.00 38.25 2.40
1814 2383 2.936202 ACTTGTGCATCTTCTGTTGGT 58.064 42.857 0.00 0.00 0.00 3.67
1901 2470 0.036952 GCTAGCTCACTGCCAGTCAA 60.037 55.000 7.70 0.00 44.23 3.18
2084 2653 2.356780 GGGAACATCCGGTCCGTCT 61.357 63.158 11.06 0.00 37.43 4.18
2186 2755 2.164422 TGCTACAGAGAGGAACATGTCG 59.836 50.000 0.00 0.00 0.00 4.35
2202 2771 4.947388 ACATGTCGGCCAATGTAAATAACT 59.053 37.500 12.71 0.00 0.00 2.24
2306 2875 4.813697 CCTAGAGCCTATTTGAAGCTTGTC 59.186 45.833 2.10 0.00 36.87 3.18
2327 2896 2.363359 CTGCCTTTTGGGGATATCTTGC 59.637 50.000 2.05 0.00 40.82 4.01
2333 2902 2.734755 TGGGGATATCTTGCCAACAG 57.265 50.000 2.05 0.00 37.63 3.16
2380 2949 7.598759 TTCCTCTTATACAGGAACAGGATAC 57.401 40.000 7.91 0.00 43.84 2.24
2431 3000 6.014499 GTGGATATGGCAGTACTTATGGTAGT 60.014 42.308 0.00 0.00 34.65 2.73
2509 3078 1.420430 GAGGTTCCGGGATGTATGGA 58.580 55.000 0.00 0.00 0.00 3.41
2521 3090 3.307059 GGATGTATGGAGGAGGCATGTAC 60.307 52.174 0.00 0.00 0.00 2.90
2530 3099 0.804989 GAGGCATGTACAACAGTGGC 59.195 55.000 11.65 11.65 34.73 5.01
2554 3123 3.054655 TGGGAAGCTCTTATGGTGGTTAC 60.055 47.826 0.00 0.00 30.73 2.50
2557 3126 1.134491 AGCTCTTATGGTGGTTACGGC 60.134 52.381 0.00 0.00 0.00 5.68
2566 3135 3.138128 GGTTACGGCATGGGTGGC 61.138 66.667 0.00 0.00 46.68 5.01
2771 3343 0.907704 ATTGGTCCAGCCGTCCAGTA 60.908 55.000 0.00 0.00 41.21 2.74
2797 3369 4.454728 TTGAAGCATGCCATAACTTTCC 57.545 40.909 15.66 0.00 0.00 3.13
2836 3408 7.356540 TGTCTAATGTGAAATGTTTGGTTACG 58.643 34.615 0.00 0.00 0.00 3.18
2874 3446 5.606348 AAGCAACCCAATCTTTGTTTACA 57.394 34.783 0.00 0.00 0.00 2.41
2943 3515 6.363473 GCTGTTGTCAGTTTCTATGTTGTAC 58.637 40.000 0.00 0.00 43.05 2.90
3446 4028 3.933861 TCCTCCTATTTTCCCTGAAGC 57.066 47.619 0.00 0.00 0.00 3.86
3653 4237 3.241530 AGCGTGGTCCTTGCTCCA 61.242 61.111 2.92 0.00 32.44 3.86
3673 4257 5.603596 TCCATGTCAGTACGTTGTAAGTTT 58.396 37.500 0.00 0.00 0.00 2.66
3729 4313 2.984471 TGTGCGTCGTTCAATTAGTCTC 59.016 45.455 0.00 0.00 0.00 3.36
3809 4393 2.223294 CGTCTAGCTAGCTAACAACGCT 60.223 50.000 27.09 9.16 41.35 5.07
3823 4407 4.422506 CGCTAGCGTTTGCAACTG 57.577 55.556 28.66 0.00 46.23 3.16
3824 4408 1.793613 CGCTAGCGTTTGCAACTGC 60.794 57.895 28.66 12.92 46.23 4.40
3825 4409 1.576421 GCTAGCGTTTGCAACTGCT 59.424 52.632 23.48 23.48 46.23 4.24
3826 4410 0.040067 GCTAGCGTTTGCAACTGCTT 60.040 50.000 24.70 12.37 46.23 3.91
3827 4411 1.955762 CTAGCGTTTGCAACTGCTTC 58.044 50.000 24.70 1.87 46.23 3.86
3828 4412 1.264020 CTAGCGTTTGCAACTGCTTCA 59.736 47.619 24.70 10.92 46.23 3.02
3829 4413 0.455410 AGCGTTTGCAACTGCTTCAA 59.545 45.000 16.69 0.00 46.23 2.69
3830 4414 1.135141 AGCGTTTGCAACTGCTTCAAA 60.135 42.857 16.69 0.00 46.23 2.69
3831 4415 1.006079 GCGTTTGCAACTGCTTCAAAC 60.006 47.619 13.41 4.91 43.45 2.93
3832 4416 2.977054 GTTTGCAACTGCTTCAAACG 57.023 45.000 0.00 0.00 39.76 3.60
3833 4417 1.587946 GTTTGCAACTGCTTCAAACGG 59.412 47.619 0.00 0.00 39.76 4.44
4020 4611 6.183361 ACACAGCCGAATTATAATAGTTCCCT 60.183 38.462 0.00 0.00 0.00 4.20
4024 4615 7.278868 CAGCCGAATTATAATAGTTCCCTCATC 59.721 40.741 0.00 0.00 0.00 2.92
4212 4803 7.674120 AGGTACTGTTATTTTACGTTCTCCTT 58.326 34.615 0.00 0.00 37.18 3.36
4338 4929 1.086696 GATTTGTCTTGCGCCTGCTA 58.913 50.000 4.18 0.00 43.34 3.49
4368 4959 2.375146 ACAAAGTCAAAGAAAGGCCGT 58.625 42.857 0.00 0.00 0.00 5.68
4474 5065 5.205056 ACAATGTTTGGGGAAACTAAGACA 58.795 37.500 0.00 0.00 33.95 3.41
4516 5107 7.388224 TGCCGTTGAACTTATAGAAACATACAA 59.612 33.333 0.00 0.00 0.00 2.41
4530 5121 7.527457 AGAAACATACAATTAGCGAAGGAAAC 58.473 34.615 0.00 0.00 0.00 2.78
4536 5127 9.599322 CATACAATTAGCGAAGGAAACATTATC 57.401 33.333 0.00 0.00 0.00 1.75
4590 5182 3.296709 GAAGAGCGCCCAGTCGGAA 62.297 63.158 2.29 0.00 0.00 4.30
4709 5302 1.896220 TGGAGGATGCAGTGTTGTTC 58.104 50.000 0.00 0.00 0.00 3.18
4790 5389 4.466567 TGAAGCGAAGTGTATTGTGTTG 57.533 40.909 0.00 0.00 0.00 3.33
4793 5392 3.462982 AGCGAAGTGTATTGTGTTGTCA 58.537 40.909 0.00 0.00 0.00 3.58
4794 5393 4.065088 AGCGAAGTGTATTGTGTTGTCAT 58.935 39.130 0.00 0.00 0.00 3.06
4896 5498 3.068307 AGTGTGTCACAGAAGTACAGACC 59.932 47.826 5.74 0.00 37.94 3.85
4939 5541 5.016051 AGCTGACTGAGGTACATGTATTG 57.984 43.478 9.18 1.07 0.00 1.90
4989 5591 6.471233 TGTTGAAACATTGACATGGGTTAA 57.529 33.333 0.00 0.00 34.27 2.01
5035 5637 3.686726 GGTGACATGACCAACATTCTCTC 59.313 47.826 0.00 0.00 37.07 3.20
5100 5703 0.684535 TGGCGACAGTTGAGGATGAA 59.315 50.000 0.00 0.00 35.01 2.57
5104 5707 3.265791 GCGACAGTTGAGGATGAAGATT 58.734 45.455 0.00 0.00 0.00 2.40
5105 5708 3.308323 GCGACAGTTGAGGATGAAGATTC 59.692 47.826 0.00 0.00 0.00 2.52
5109 5712 5.486526 ACAGTTGAGGATGAAGATTCTGAC 58.513 41.667 0.00 0.00 0.00 3.51
5117 5745 4.509600 GGATGAAGATTCTGACGATTGTCC 59.490 45.833 10.69 0.00 44.86 4.02
5163 5793 2.046892 CGTCTGAAGCACCCCTGG 60.047 66.667 0.00 0.00 0.00 4.45
5176 5806 1.065418 ACCCCTGGTCGATCAATCAAC 60.065 52.381 0.00 0.00 0.00 3.18
5177 5807 1.668419 CCCTGGTCGATCAATCAACC 58.332 55.000 0.00 0.00 34.44 3.77
5200 5830 5.801947 CCAGAATAAATCCTGAAACGCAAAG 59.198 40.000 0.00 0.00 32.37 2.77
5418 6059 2.122189 CCCCCATCTCTCCCTCCC 60.122 72.222 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.123979 GGTTCCAGTAGCTGATTAGGTTTTG 59.876 44.000 0.00 0.00 35.90 2.44
3 4 4.104831 AGGTTCCAGTAGCTGATTAGGTT 58.895 43.478 0.00 0.00 35.90 3.50
4 5 3.725634 AGGTTCCAGTAGCTGATTAGGT 58.274 45.455 0.00 0.00 38.41 3.08
5 6 4.649674 TGTAGGTTCCAGTAGCTGATTAGG 59.350 45.833 0.00 0.00 32.44 2.69
6 7 5.452077 GGTGTAGGTTCCAGTAGCTGATTAG 60.452 48.000 0.00 0.00 32.44 1.73
7 8 4.404715 GGTGTAGGTTCCAGTAGCTGATTA 59.595 45.833 0.00 0.00 32.44 1.75
8 9 3.197983 GGTGTAGGTTCCAGTAGCTGATT 59.802 47.826 0.00 0.00 32.44 2.57
9 10 2.766828 GGTGTAGGTTCCAGTAGCTGAT 59.233 50.000 0.00 0.00 32.44 2.90
10 11 2.176889 GGTGTAGGTTCCAGTAGCTGA 58.823 52.381 0.00 0.00 32.44 4.26
11 12 2.180276 AGGTGTAGGTTCCAGTAGCTG 58.820 52.381 0.00 0.00 0.00 4.24
12 13 2.625282 AGGTGTAGGTTCCAGTAGCT 57.375 50.000 0.00 0.00 0.00 3.32
13 14 3.363627 AGTAGGTGTAGGTTCCAGTAGC 58.636 50.000 0.00 0.00 0.00 3.58
14 15 5.262804 AGAAGTAGGTGTAGGTTCCAGTAG 58.737 45.833 0.00 0.00 0.00 2.57
15 16 5.266709 AGAAGTAGGTGTAGGTTCCAGTA 57.733 43.478 0.00 0.00 0.00 2.74
16 17 4.129317 AGAAGTAGGTGTAGGTTCCAGT 57.871 45.455 0.00 0.00 0.00 4.00
17 18 5.125739 CAGTAGAAGTAGGTGTAGGTTCCAG 59.874 48.000 0.00 0.00 0.00 3.86
18 19 5.014858 CAGTAGAAGTAGGTGTAGGTTCCA 58.985 45.833 0.00 0.00 0.00 3.53
19 20 5.259632 TCAGTAGAAGTAGGTGTAGGTTCC 58.740 45.833 0.00 0.00 0.00 3.62
20 21 6.830873 TTCAGTAGAAGTAGGTGTAGGTTC 57.169 41.667 0.00 0.00 0.00 3.62
22 23 9.796180 CTATATTCAGTAGAAGTAGGTGTAGGT 57.204 37.037 0.00 0.00 37.14 3.08
23 24 8.732531 GCTATATTCAGTAGAAGTAGGTGTAGG 58.267 40.741 0.00 0.00 37.14 3.18
24 25 9.286170 TGCTATATTCAGTAGAAGTAGGTGTAG 57.714 37.037 0.00 0.00 37.14 2.74
25 26 9.636789 TTGCTATATTCAGTAGAAGTAGGTGTA 57.363 33.333 0.00 0.00 37.14 2.90
26 27 8.534954 TTGCTATATTCAGTAGAAGTAGGTGT 57.465 34.615 0.00 0.00 37.14 4.16
27 28 9.817809 TTTTGCTATATTCAGTAGAAGTAGGTG 57.182 33.333 0.00 0.00 37.14 4.00
80 111 7.979537 GGGGATTTTATCAATGGTAGTTTTGTC 59.020 37.037 0.00 0.00 0.00 3.18
93 124 3.204382 GTGAGGGAGGGGGATTTTATCAA 59.796 47.826 0.00 0.00 0.00 2.57
102 150 1.003442 CAGATGTGAGGGAGGGGGA 59.997 63.158 0.00 0.00 0.00 4.81
120 168 1.227380 AGCGATCTTGGATCCACGC 60.227 57.895 29.99 29.99 45.03 5.34
134 182 0.468226 AGGGGCGATTTTATCAGCGA 59.532 50.000 0.00 0.00 32.34 4.93
136 184 1.239347 GGAGGGGCGATTTTATCAGC 58.761 55.000 0.00 0.00 0.00 4.26
610 659 2.433444 TTGGAGAGGGAGAAGGGAAA 57.567 50.000 0.00 0.00 0.00 3.13
642 691 1.845627 TTCCTCTCCAGGGCAAGCAG 61.846 60.000 0.00 0.00 40.80 4.24
646 695 1.574526 CCCATTCCTCTCCAGGGCAA 61.575 60.000 0.00 0.00 40.80 4.52
647 696 2.002977 CCCATTCCTCTCCAGGGCA 61.003 63.158 0.00 0.00 40.80 5.36
649 698 1.064389 GTTTCCCATTCCTCTCCAGGG 60.064 57.143 0.00 0.00 40.80 4.45
650 699 1.407437 CGTTTCCCATTCCTCTCCAGG 60.407 57.143 0.00 0.00 42.01 4.45
651 700 1.407437 CCGTTTCCCATTCCTCTCCAG 60.407 57.143 0.00 0.00 0.00 3.86
652 701 0.618458 CCGTTTCCCATTCCTCTCCA 59.382 55.000 0.00 0.00 0.00 3.86
653 702 0.107165 CCCGTTTCCCATTCCTCTCC 60.107 60.000 0.00 0.00 0.00 3.71
654 703 0.748367 GCCCGTTTCCCATTCCTCTC 60.748 60.000 0.00 0.00 0.00 3.20
655 704 1.303282 GCCCGTTTCCCATTCCTCT 59.697 57.895 0.00 0.00 0.00 3.69
656 705 2.112815 CGCCCGTTTCCCATTCCTC 61.113 63.158 0.00 0.00 0.00 3.71
657 706 2.045340 CGCCCGTTTCCCATTCCT 60.045 61.111 0.00 0.00 0.00 3.36
658 707 1.035385 ATTCGCCCGTTTCCCATTCC 61.035 55.000 0.00 0.00 0.00 3.01
659 708 0.100503 CATTCGCCCGTTTCCCATTC 59.899 55.000 0.00 0.00 0.00 2.67
660 709 0.322997 TCATTCGCCCGTTTCCCATT 60.323 50.000 0.00 0.00 0.00 3.16
661 710 0.322997 TTCATTCGCCCGTTTCCCAT 60.323 50.000 0.00 0.00 0.00 4.00
663 712 0.100503 CATTCATTCGCCCGTTTCCC 59.899 55.000 0.00 0.00 0.00 3.97
664 713 0.525455 GCATTCATTCGCCCGTTTCC 60.525 55.000 0.00 0.00 0.00 3.13
666 715 1.136565 CGCATTCATTCGCCCGTTT 59.863 52.632 0.00 0.00 0.00 3.60
667 716 1.705337 CTCGCATTCATTCGCCCGTT 61.705 55.000 0.00 0.00 0.00 4.44
669 718 1.825285 CTCTCGCATTCATTCGCCCG 61.825 60.000 0.00 0.00 0.00 6.13
670 719 1.502163 CCTCTCGCATTCATTCGCCC 61.502 60.000 0.00 0.00 0.00 6.13
672 721 0.530650 TCCCTCTCGCATTCATTCGC 60.531 55.000 0.00 0.00 0.00 4.70
673 722 1.939974 TTCCCTCTCGCATTCATTCG 58.060 50.000 0.00 0.00 0.00 3.34
674 723 3.691609 AGTTTTCCCTCTCGCATTCATTC 59.308 43.478 0.00 0.00 0.00 2.67
676 725 3.274288 GAGTTTTCCCTCTCGCATTCAT 58.726 45.455 0.00 0.00 0.00 2.57
677 726 2.699954 GAGTTTTCCCTCTCGCATTCA 58.300 47.619 0.00 0.00 0.00 2.57
678 727 1.661112 CGAGTTTTCCCTCTCGCATTC 59.339 52.381 1.88 0.00 44.82 2.67
679 728 1.726853 CGAGTTTTCCCTCTCGCATT 58.273 50.000 1.88 0.00 44.82 3.56
680 729 3.442996 CGAGTTTTCCCTCTCGCAT 57.557 52.632 1.88 0.00 44.82 4.73
724 1274 1.149148 GTTTTGTCTGTCCTCGCCTC 58.851 55.000 0.00 0.00 0.00 4.70
737 1287 1.829456 GCTGGGGCCTTTGTTTTGT 59.171 52.632 0.84 0.00 0.00 2.83
752 1302 5.458041 TTTTCTCTCAGATTTTTGGGCTG 57.542 39.130 0.00 0.00 0.00 4.85
784 1336 3.871850 TTGTTAGTTGGGGGCGGGC 62.872 63.158 0.00 0.00 0.00 6.13
789 1341 0.249996 ACGTCGTTGTTAGTTGGGGG 60.250 55.000 0.00 0.00 0.00 5.40
819 1371 4.430423 CTCGTTTGTCTGGCGCGC 62.430 66.667 25.94 25.94 0.00 6.86
825 1377 1.935065 GCTCGCGACTCGTTTGTCTG 61.935 60.000 3.71 0.00 39.67 3.51
861 1413 3.829601 CCGTTGGATCTAGCCTCTCTAAT 59.170 47.826 0.00 0.00 0.00 1.73
865 1417 0.032815 GCCGTTGGATCTAGCCTCTC 59.967 60.000 0.00 0.00 0.00 3.20
869 1421 0.249657 CTGAGCCGTTGGATCTAGCC 60.250 60.000 2.50 0.00 39.11 3.93
889 1441 6.127810 TCAGATTTGCTATTTCACATCTGC 57.872 37.500 12.50 0.00 44.65 4.26
898 1450 9.846248 GCCGATTTTATATCAGATTTGCTATTT 57.154 29.630 0.00 0.00 0.00 1.40
899 1451 9.236006 AGCCGATTTTATATCAGATTTGCTATT 57.764 29.630 0.00 0.00 0.00 1.73
900 1452 8.671921 CAGCCGATTTTATATCAGATTTGCTAT 58.328 33.333 0.00 0.00 0.00 2.97
901 1453 7.361201 GCAGCCGATTTTATATCAGATTTGCTA 60.361 37.037 0.00 0.00 0.00 3.49
902 1454 6.569226 GCAGCCGATTTTATATCAGATTTGCT 60.569 38.462 0.00 0.00 0.00 3.91
903 1455 5.570589 GCAGCCGATTTTATATCAGATTTGC 59.429 40.000 0.00 0.00 0.00 3.68
904 1456 5.791974 CGCAGCCGATTTTATATCAGATTTG 59.208 40.000 0.00 0.00 36.29 2.32
905 1457 5.106555 CCGCAGCCGATTTTATATCAGATTT 60.107 40.000 0.00 0.00 36.29 2.17
906 1458 4.393062 CCGCAGCCGATTTTATATCAGATT 59.607 41.667 0.00 0.00 36.29 2.40
907 1459 3.935203 CCGCAGCCGATTTTATATCAGAT 59.065 43.478 0.00 0.00 36.29 2.90
908 1460 3.325870 CCGCAGCCGATTTTATATCAGA 58.674 45.455 0.00 0.00 36.29 3.27
909 1461 2.416547 CCCGCAGCCGATTTTATATCAG 59.583 50.000 0.00 0.00 36.29 2.90
910 1462 2.422597 CCCGCAGCCGATTTTATATCA 58.577 47.619 0.00 0.00 36.29 2.15
911 1463 1.130561 GCCCGCAGCCGATTTTATATC 59.869 52.381 0.00 0.00 36.29 1.63
1012 1564 2.696504 GGAGGGGAAGGGGAAGGG 60.697 72.222 0.00 0.00 0.00 3.95
1021 1573 2.869689 TCTATCTAGGGTTGGAGGGGAA 59.130 50.000 0.00 0.00 0.00 3.97
1200 1765 2.826777 AATCTGCCCTCCAACTGCGG 62.827 60.000 0.00 0.00 0.00 5.69
1204 1769 1.005215 CCTCAAATCTGCCCTCCAACT 59.995 52.381 0.00 0.00 0.00 3.16
1213 1778 1.272147 ACCCCTCAACCTCAAATCTGC 60.272 52.381 0.00 0.00 0.00 4.26
1214 1779 2.716217 GACCCCTCAACCTCAAATCTG 58.284 52.381 0.00 0.00 0.00 2.90
1226 1791 0.541063 TACAGAAGCACGACCCCTCA 60.541 55.000 0.00 0.00 0.00 3.86
1227 1792 0.108756 GTACAGAAGCACGACCCCTC 60.109 60.000 0.00 0.00 0.00 4.30
1228 1793 1.874345 CGTACAGAAGCACGACCCCT 61.874 60.000 0.00 0.00 40.56 4.79
1233 1798 2.390938 CAAGTTCGTACAGAAGCACGA 58.609 47.619 0.00 0.00 44.80 4.35
1289 1854 3.023832 TCATCCACGTCAAGATAGCTGA 58.976 45.455 0.00 0.00 0.00 4.26
1308 1873 1.752198 CCAGTTCCACCGTCCTTCA 59.248 57.895 0.00 0.00 0.00 3.02
1338 1903 2.422127 ACGCCAATTCCTAACAAATCGG 59.578 45.455 0.00 0.00 0.00 4.18
1346 1911 1.309499 CCGCCAACGCCAATTCCTAA 61.309 55.000 0.00 0.00 38.22 2.69
1375 1940 3.428045 CGAAAATTCTCAAGGCCACATCC 60.428 47.826 5.01 0.00 0.00 3.51
1383 1948 0.451783 CCGGCCGAAAATTCTCAAGG 59.548 55.000 30.73 0.00 0.00 3.61
1410 1975 3.522731 CTCCCGGGACAGCTCGAG 61.523 72.222 22.63 8.45 41.67 4.04
1423 1988 1.105759 GGCACATCAAGGCATCTCCC 61.106 60.000 0.00 0.00 34.51 4.30
1526 2091 3.270877 GGTATGCAAAACTCTGGTCGAT 58.729 45.455 0.00 0.00 0.00 3.59
1551 2116 0.389817 TCATGGAACGTCAAGAGCCG 60.390 55.000 0.00 0.00 0.00 5.52
1566 2131 3.489059 GGCACGGACATTAACCAATCATG 60.489 47.826 0.00 0.00 0.00 3.07
1568 2133 2.088423 GGCACGGACATTAACCAATCA 58.912 47.619 0.00 0.00 0.00 2.57
1596 2163 7.277396 ACTTTGACAAACTAGTAAGCCTGTAA 58.723 34.615 0.00 0.00 0.00 2.41
1599 2166 6.704493 TGTACTTTGACAAACTAGTAAGCCTG 59.296 38.462 0.00 0.00 0.00 4.85
1626 2193 6.144078 ACTTTGTTACACCTCAAATGAACC 57.856 37.500 0.00 0.00 33.93 3.62
1628 2195 8.514330 AGTTACTTTGTTACACCTCAAATGAA 57.486 30.769 0.00 0.00 33.93 2.57
1681 2248 9.685276 AACAAGAGGTATATGATCAAATGAACA 57.315 29.630 0.00 0.00 0.00 3.18
1743 2310 7.755582 ATCGTTTAGCCAAATAAGCAATTTC 57.244 32.000 0.00 0.00 35.54 2.17
1752 2321 6.770785 AGCCAAGAATATCGTTTAGCCAAATA 59.229 34.615 0.00 0.00 0.00 1.40
1767 2336 6.051717 GTGAGCTATCTTTCAGCCAAGAATA 58.948 40.000 0.00 0.00 39.99 1.75
1804 2373 3.318839 TCAATGAAAGGCACCAACAGAAG 59.681 43.478 0.00 0.00 0.00 2.85
1806 2375 2.942804 TCAATGAAAGGCACCAACAGA 58.057 42.857 0.00 0.00 0.00 3.41
1814 2383 7.415989 GCAGAAATAGAAGATCAATGAAAGGCA 60.416 37.037 0.00 0.00 0.00 4.75
1853 2422 5.431765 ACTACAATACTGAAGAATGGCCAG 58.568 41.667 13.05 0.00 0.00 4.85
1901 2470 6.207417 CCCATAATCGGATAATGAAAAGCACT 59.793 38.462 0.00 0.00 0.00 4.40
2084 2653 2.875296 CCAGATGGTGGTTTGAAAGGA 58.125 47.619 0.00 0.00 42.17 3.36
2186 2755 5.049405 CGAGATGGAGTTATTTACATTGGCC 60.049 44.000 0.00 0.00 0.00 5.36
2202 2771 2.355946 GCATAGGCCTCGAGATGGA 58.644 57.895 9.68 0.00 0.00 3.41
2306 2875 2.363359 GCAAGATATCCCCAAAAGGCAG 59.637 50.000 0.00 0.00 0.00 4.85
2333 2902 3.476552 TGAACATTCTCAGGACAACCAC 58.523 45.455 0.00 0.00 38.94 4.16
2380 2949 5.962433 ACCGAACTATACATATTGGATCCG 58.038 41.667 7.39 0.00 0.00 4.18
2431 3000 0.472925 TATTCCCATAGAGCCCGCCA 60.473 55.000 0.00 0.00 0.00 5.69
2509 3078 1.003580 CCACTGTTGTACATGCCTCCT 59.996 52.381 0.00 0.00 0.00 3.69
2521 3090 0.896940 AGCTTCCCATGCCACTGTTG 60.897 55.000 0.00 0.00 0.00 3.33
2530 3099 2.092212 ACCACCATAAGAGCTTCCCATG 60.092 50.000 0.00 0.00 0.00 3.66
2611 3180 2.598288 AAGGACCCATACCACCCATA 57.402 50.000 0.00 0.00 0.00 2.74
2771 3343 3.765511 AGTTATGGCATGCTTCAATGTGT 59.234 39.130 18.92 0.00 0.00 3.72
2797 3369 9.986833 TTCACATTAGACATTAATGAACATTCG 57.013 29.630 22.16 7.07 38.08 3.34
2874 3446 4.137543 GTGGACAACTGGATGAAGAAACT 58.862 43.478 0.00 0.00 0.00 2.66
2982 3554 9.679661 ATTACCATGATGACACACTAAATGTAA 57.320 29.630 0.00 0.00 40.64 2.41
3177 3759 9.153721 CACAGTAATTAAAACCGTGGTAATCTA 57.846 33.333 0.00 0.00 0.00 1.98
3459 4041 0.389037 GTAACGGAGGGAACACGGAC 60.389 60.000 0.00 0.00 37.30 4.79
3520 4102 2.607526 CCATCATGCACAGCGAAAAACA 60.608 45.455 0.00 0.00 0.00 2.83
3616 4198 2.356553 GCAACACGGCTACACGGA 60.357 61.111 0.00 0.00 38.39 4.69
3653 4237 7.572759 CAATCAAACTTACAACGTACTGACAT 58.427 34.615 0.00 0.00 0.00 3.06
3673 4257 2.842496 ACTCATCAAGGAGGAGCAATCA 59.158 45.455 7.72 0.00 43.19 2.57
3729 4313 3.021269 TGCACAAACTAGTACGACCAG 57.979 47.619 0.00 0.00 0.00 4.00
3820 4404 0.100503 GTTGCACCGTTTGAAGCAGT 59.899 50.000 0.00 0.00 38.35 4.40
3821 4405 0.381801 AGTTGCACCGTTTGAAGCAG 59.618 50.000 0.00 0.00 38.35 4.24
3822 4406 0.100325 CAGTTGCACCGTTTGAAGCA 59.900 50.000 0.00 0.00 34.79 3.91
3823 4407 1.208642 GCAGTTGCACCGTTTGAAGC 61.209 55.000 0.00 0.00 41.59 3.86
3824 4408 0.381801 AGCAGTTGCACCGTTTGAAG 59.618 50.000 6.90 0.00 45.16 3.02
3825 4409 0.814457 AAGCAGTTGCACCGTTTGAA 59.186 45.000 6.90 0.00 45.16 2.69
3826 4410 0.380378 GAAGCAGTTGCACCGTTTGA 59.620 50.000 6.90 0.00 45.16 2.69
3827 4411 0.100325 TGAAGCAGTTGCACCGTTTG 59.900 50.000 6.90 0.00 45.16 2.93
3828 4412 0.814457 TTGAAGCAGTTGCACCGTTT 59.186 45.000 6.90 0.00 45.16 3.60
3829 4413 0.814457 TTTGAAGCAGTTGCACCGTT 59.186 45.000 6.90 0.00 45.16 4.44
3830 4414 0.100503 GTTTGAAGCAGTTGCACCGT 59.899 50.000 6.90 0.00 45.16 4.83
3831 4415 0.929824 CGTTTGAAGCAGTTGCACCG 60.930 55.000 6.90 0.00 45.16 4.94
3832 4416 0.594796 CCGTTTGAAGCAGTTGCACC 60.595 55.000 6.90 0.00 45.16 5.01
3833 4417 1.208642 GCCGTTTGAAGCAGTTGCAC 61.209 55.000 6.90 1.05 45.16 4.57
4020 4611 4.876679 TGTGTTAAACCGTCAAAGTGATGA 59.123 37.500 0.00 0.00 35.46 2.92
4024 4615 3.728718 GCATGTGTTAAACCGTCAAAGTG 59.271 43.478 0.00 0.00 0.00 3.16
4212 4803 3.255642 GCTATTCAAACCCAAGACAAGCA 59.744 43.478 0.00 0.00 0.00 3.91
4338 4929 3.134081 TCTTTGACTTTGTTCGGACTCCT 59.866 43.478 0.00 0.00 0.00 3.69
4368 4959 4.704833 GCCTCAGCGCCCTGAACA 62.705 66.667 2.29 0.00 46.84 3.18
4474 5065 1.266178 GGCACATAAAAGGGCAAGGT 58.734 50.000 0.00 0.00 0.00 3.50
4516 5107 7.148086 TGCTTTGATAATGTTTCCTTCGCTAAT 60.148 33.333 0.00 0.00 0.00 1.73
4530 5121 4.444388 GCTGACATGCATGCTTTGATAATG 59.556 41.667 26.53 14.18 0.00 1.90
4536 5127 2.073117 TTGCTGACATGCATGCTTTG 57.927 45.000 26.53 18.08 42.96 2.77
4590 5182 5.779922 TCGCTAACTACAACAGACAATTCT 58.220 37.500 0.00 0.00 0.00 2.40
4753 5352 8.567948 ACTTCGCTTCATTCTTTTCAAGATAAA 58.432 29.630 0.00 0.00 37.38 1.40
4778 5377 8.268850 AGAAATAGGATGACAACACAATACAC 57.731 34.615 0.00 0.00 0.00 2.90
4939 5541 3.796717 GGCTGCTTTGACTTTTTGTACAC 59.203 43.478 0.00 0.00 0.00 2.90
4947 5549 4.141233 ACATTTTGGCTGCTTTGACTTT 57.859 36.364 0.00 0.00 0.00 2.66
5016 5618 5.083533 AGAGAGAGAATGTTGGTCATGTC 57.916 43.478 0.00 0.00 36.81 3.06
5017 5619 6.805016 ATAGAGAGAGAATGTTGGTCATGT 57.195 37.500 0.00 0.00 36.81 3.21
5100 5703 2.187958 TGGGGACAATCGTCAGAATCT 58.812 47.619 0.00 0.00 44.54 2.40
5117 5745 2.109304 TGGGGGTACTTTCTTTCTTGGG 59.891 50.000 0.00 0.00 0.00 4.12
5163 5793 7.227512 AGGATTTATTCTGGTTGATTGATCGAC 59.772 37.037 3.23 3.23 39.88 4.20
5176 5806 4.963276 TGCGTTTCAGGATTTATTCTGG 57.037 40.909 0.00 0.00 0.00 3.86
5177 5807 6.306356 CACTTTGCGTTTCAGGATTTATTCTG 59.694 38.462 0.00 0.00 0.00 3.02
5298 5928 2.017049 CCTTCCCTACAAAATCGCCAG 58.983 52.381 0.00 0.00 0.00 4.85
5413 6054 2.503895 AATTGAGCAGTTGAGGGAGG 57.496 50.000 0.00 0.00 0.00 4.30
5414 6055 5.435291 AGAATAATTGAGCAGTTGAGGGAG 58.565 41.667 0.00 0.00 0.00 4.30
5415 6056 5.431765 GAGAATAATTGAGCAGTTGAGGGA 58.568 41.667 0.00 0.00 0.00 4.20
5416 6057 4.578105 GGAGAATAATTGAGCAGTTGAGGG 59.422 45.833 0.00 0.00 0.00 4.30
5417 6058 4.272018 CGGAGAATAATTGAGCAGTTGAGG 59.728 45.833 0.00 0.00 0.00 3.86
5418 6059 4.872691 ACGGAGAATAATTGAGCAGTTGAG 59.127 41.667 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.