Multiple sequence alignment - TraesCS5D01G074800

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5D01G074800 chr5D 100.000 4597 0 0 1 4597 74091986 74087390 0.000000e+00 8490.0
1 TraesCS5D01G074800 chr5A 92.443 1191 54 14 744 1904 69104389 69103205 0.000000e+00 1668.0
2 TraesCS5D01G074800 chr5A 95.098 816 26 5 2074 2888 69103025 69102223 0.000000e+00 1273.0
3 TraesCS5D01G074800 chr5A 93.273 550 35 2 2887 3436 69102141 69101594 0.000000e+00 809.0
4 TraesCS5D01G074800 chr5A 87.765 613 34 14 124 731 69105024 69104448 0.000000e+00 678.0
5 TraesCS5D01G074800 chr5A 91.832 453 25 4 3435 3883 69101547 69101103 5.050000e-174 621.0
6 TraesCS5D01G074800 chr5A 88.845 511 22 13 1403 1904 69094994 69094510 3.060000e-166 595.0
7 TraesCS5D01G074800 chr5A 86.319 307 27 3 1905 2211 69094454 69094163 2.060000e-83 320.0
8 TraesCS5D01G074800 chr5A 85.211 142 5 8 3993 4122 69101062 69100925 1.040000e-26 132.0
9 TraesCS5D01G074800 chr5A 94.444 36 2 0 4209 4244 169438807 169438842 6.430000e-04 56.5
10 TraesCS5D01G074800 chr5B 89.573 1170 76 17 3435 4597 78423276 78424406 0.000000e+00 1443.0
11 TraesCS5D01G074800 chr5B 92.075 694 36 4 849 1526 78420422 78421112 0.000000e+00 959.0
12 TraesCS5D01G074800 chr5B 85.816 705 56 26 2668 3349 78422385 78423068 0.000000e+00 708.0
13 TraesCS5D01G074800 chr5B 92.308 455 21 9 168 612 78419672 78420122 6.490000e-178 634.0
14 TraesCS5D01G074800 chr5B 84.249 546 50 16 1905 2445 78421465 78421979 2.470000e-137 499.0
15 TraesCS5D01G074800 chr5B 85.714 434 46 11 4178 4597 78430395 78430826 1.170000e-120 444.0
16 TraesCS5D01G074800 chr5B 88.710 310 23 6 1600 1904 78421109 78421411 7.270000e-98 368.0
17 TraesCS5D01G074800 chr5B 84.987 393 24 25 3823 4183 78428335 78428724 2.610000e-97 366.0
18 TraesCS5D01G074800 chr5B 96.774 155 5 0 2450 2604 78422034 78422188 4.560000e-65 259.0
19 TraesCS5D01G074800 chr5B 93.182 88 2 3 3349 3436 78423146 78423229 4.830000e-25 126.0
20 TraesCS5D01G074800 chr5B 93.939 66 4 0 2605 2670 78422217 78422282 2.930000e-17 100.0
21 TraesCS5D01G074800 chr5B 94.737 38 2 0 4209 4246 707007719 707007756 4.970000e-05 60.2
22 TraesCS5D01G074800 chr5B 92.308 39 3 0 4209 4247 523902092 523902054 6.430000e-04 56.5
23 TraesCS5D01G074800 chr6B 78.599 514 95 13 1109 1618 229729274 229728772 4.440000e-85 326.0
24 TraesCS5D01G074800 chr6B 94.444 36 2 0 4209 4244 530059369 530059334 6.430000e-04 56.5
25 TraesCS5D01G074800 chr6D 78.643 501 92 13 1109 1605 132414188 132413699 7.420000e-83 318.0
26 TraesCS5D01G074800 chr6D 78.058 515 96 15 1109 1618 132313414 132312912 4.470000e-80 309.0
27 TraesCS5D01G074800 chr6A 78.058 515 93 16 1109 1618 171460537 171460038 1.610000e-79 307.0
28 TraesCS5D01G074800 chr6A 92.857 42 3 0 4209 4250 577051603 577051562 1.380000e-05 62.1
29 TraesCS5D01G074800 chr7B 84.774 243 25 10 2605 2846 32340921 32340690 2.770000e-57 233.0
30 TraesCS5D01G074800 chr2D 89.881 168 16 1 2655 2822 460790512 460790678 1.000000e-51 215.0
31 TraesCS5D01G074800 chr2D 90.000 130 6 4 2715 2843 166197114 166197237 1.320000e-35 161.0
32 TraesCS5D01G074800 chrUn 94.872 39 2 0 4209 4247 11850130 11850168 1.380000e-05 62.1
33 TraesCS5D01G074800 chrUn 92.857 42 3 0 4209 4250 351755225 351755184 1.380000e-05 62.1
34 TraesCS5D01G074800 chrUn 94.872 39 2 0 4209 4247 380526130 380526092 1.380000e-05 62.1
35 TraesCS5D01G074800 chr7A 92.857 42 3 0 4209 4250 54863143 54863102 1.380000e-05 62.1


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 TraesCS5D01G074800 chr5D 74087390 74091986 4596 True 8490.000000 8490 100.000 1 4597 1 chr5D.!!$R1 4596
1 TraesCS5D01G074800 chr5A 69100925 69105024 4099 True 863.500000 1668 90.937 124 4122 6 chr5A.!!$R2 3998
2 TraesCS5D01G074800 chr5A 69094163 69094994 831 True 457.500000 595 87.582 1403 2211 2 chr5A.!!$R1 808
3 TraesCS5D01G074800 chr5B 78419672 78430826 11154 False 536.909091 1443 89.757 168 4597 11 chr5B.!!$F2 4429
4 TraesCS5D01G074800 chr6B 229728772 229729274 502 True 326.000000 326 78.599 1109 1618 1 chr6B.!!$R1 509
5 TraesCS5D01G074800 chr6D 132312912 132313414 502 True 309.000000 309 78.058 1109 1618 1 chr6D.!!$R1 509

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
976 1122 0.388649 CTCGTACCTGAAGCAAGCGT 60.389 55.000 0.0 0.0 0.00 5.07 F
1014 1160 0.613260 GGTCTATGCACCCTGTGTCA 59.387 55.000 0.0 0.0 35.75 3.58 F
1209 1355 1.295792 GTCAAGTTGCCGACAGTTGA 58.704 50.000 0.0 0.0 31.56 3.18 F
1514 1663 1.674441 CCTGCTCACATGGTATGCTTG 59.326 52.381 0.0 0.0 0.00 4.01 F
2756 3168 2.106477 AGCAGCAGAAGCCTCTAAAC 57.894 50.000 0.0 0.0 43.56 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2395 2618 0.473694 TTTGCCCCAGAGTCTCCAGA 60.474 55.000 0.00 0.00 0.00 3.86 R
2756 3168 0.530744 TAGGCCACGTTAGAGTGCTG 59.469 55.000 5.01 0.00 40.59 4.41 R
3148 3655 6.543430 AATGGCATGCTAAGGTAATGAAAA 57.457 33.333 18.92 0.00 0.00 2.29 R
3453 4099 2.752354 CCGTGGAATTTGTAGCCAATCA 59.248 45.455 0.00 0.00 32.68 2.57 R
4365 5030 0.100325 CACTCTACAGAGCAGCTCGG 59.900 60.000 19.85 19.85 45.79 4.63 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
101 102 9.862585 GAAACACAAATATTTTGTCAAATGTCC 57.137 29.630 13.04 0.00 34.29 4.02
102 103 8.954950 AACACAAATATTTTGTCAAATGTCCA 57.045 26.923 13.04 0.00 34.29 4.02
103 104 8.954950 ACACAAATATTTTGTCAAATGTCCAA 57.045 26.923 0.00 0.00 34.29 3.53
104 105 9.388506 ACACAAATATTTTGTCAAATGTCCAAA 57.611 25.926 0.00 0.00 34.29 3.28
105 106 9.649024 CACAAATATTTTGTCAAATGTCCAAAC 57.351 29.630 0.00 0.00 34.29 2.93
106 107 9.388506 ACAAATATTTTGTCAAATGTCCAAACA 57.611 25.926 0.00 0.00 40.38 2.83
109 110 5.731599 TTTTGTCAAATGTCCAAACATGC 57.268 34.783 0.00 0.00 45.48 4.06
110 111 3.383620 TGTCAAATGTCCAAACATGCC 57.616 42.857 0.00 0.00 45.48 4.40
111 112 2.036992 TGTCAAATGTCCAAACATGCCC 59.963 45.455 0.00 0.00 45.48 5.36
112 113 1.622811 TCAAATGTCCAAACATGCCCC 59.377 47.619 0.00 0.00 45.48 5.80
113 114 1.347050 CAAATGTCCAAACATGCCCCA 59.653 47.619 0.00 0.00 45.48 4.96
114 115 1.269012 AATGTCCAAACATGCCCCAG 58.731 50.000 0.00 0.00 45.48 4.45
115 116 1.259840 ATGTCCAAACATGCCCCAGC 61.260 55.000 0.00 0.00 44.51 4.85
116 117 2.676121 TCCAAACATGCCCCAGCG 60.676 61.111 0.00 0.00 44.31 5.18
117 118 3.762247 CCAAACATGCCCCAGCGG 61.762 66.667 0.00 0.00 44.31 5.52
148 149 3.777925 CGTGGCAGCACTACGCAC 61.778 66.667 2.93 0.00 46.55 5.34
149 150 3.777925 GTGGCAGCACTACGCACG 61.778 66.667 0.00 0.00 46.13 5.34
157 158 2.660552 ACTACGCACGCACACACC 60.661 61.111 0.00 0.00 0.00 4.16
160 161 3.851845 TACGCACGCACACACCTCC 62.852 63.158 0.00 0.00 0.00 4.30
190 191 2.225267 CCCAGGACCCAAACCAAATAGT 60.225 50.000 0.00 0.00 0.00 2.12
198 199 4.156477 CCCAAACCAAATAGTCCCAGAAA 58.844 43.478 0.00 0.00 0.00 2.52
229 230 4.748798 CCAGCCTCCCTCCACCCT 62.749 72.222 0.00 0.00 0.00 4.34
250 253 2.438795 ACGCCCTCTCTCGTCTCC 60.439 66.667 0.00 0.00 33.09 3.71
292 295 0.539051 CCTCTCCACCCACTGTCATC 59.461 60.000 0.00 0.00 0.00 2.92
293 296 1.269958 CTCTCCACCCACTGTCATCA 58.730 55.000 0.00 0.00 0.00 3.07
294 297 1.836166 CTCTCCACCCACTGTCATCAT 59.164 52.381 0.00 0.00 0.00 2.45
335 338 4.988716 TCCACCTCCCTGACGCGT 62.989 66.667 13.85 13.85 0.00 6.01
336 339 4.436998 CCACCTCCCTGACGCGTC 62.437 72.222 31.66 31.66 0.00 5.19
437 448 9.838339 ATTATCTTCCGTTTCTATCAGTTGAAT 57.162 29.630 0.00 0.00 0.00 2.57
615 626 7.872881 TGTAGCACGATTCTTATTCCTAGTAG 58.127 38.462 0.00 0.00 0.00 2.57
616 627 6.963083 AGCACGATTCTTATTCCTAGTAGT 57.037 37.500 0.00 0.00 0.00 2.73
617 628 8.997323 GTAGCACGATTCTTATTCCTAGTAGTA 58.003 37.037 0.00 0.00 0.00 1.82
618 629 8.638629 AGCACGATTCTTATTCCTAGTAGTAT 57.361 34.615 0.00 0.00 0.00 2.12
619 630 9.080097 AGCACGATTCTTATTCCTAGTAGTATT 57.920 33.333 0.00 0.00 0.00 1.89
620 631 9.694137 GCACGATTCTTATTCCTAGTAGTATTT 57.306 33.333 0.00 0.00 0.00 1.40
623 634 9.141400 CGATTCTTATTCCTAGTAGTATTTGGC 57.859 37.037 0.00 0.00 0.00 4.52
624 635 9.998106 GATTCTTATTCCTAGTAGTATTTGGCA 57.002 33.333 0.00 0.00 0.00 4.92
626 637 9.609346 TTCTTATTCCTAGTAGTATTTGGCAAC 57.391 33.333 0.00 0.00 0.00 4.17
710 721 0.893270 TTGCGTGCAATGGGTTAGCT 60.893 50.000 2.58 0.00 0.00 3.32
719 730 4.127907 GCAATGGGTTAGCTCTAGTTACC 58.872 47.826 0.00 0.00 0.00 2.85
731 742 3.664107 TCTAGTTACCAGTGCAAGCAAG 58.336 45.455 0.00 0.00 0.00 4.01
732 743 2.638480 AGTTACCAGTGCAAGCAAGA 57.362 45.000 0.00 0.00 0.00 3.02
734 745 2.816087 AGTTACCAGTGCAAGCAAGATG 59.184 45.455 0.00 0.00 0.00 2.90
735 746 2.554032 GTTACCAGTGCAAGCAAGATGT 59.446 45.455 0.00 0.00 0.00 3.06
736 747 1.242076 ACCAGTGCAAGCAAGATGTC 58.758 50.000 0.00 0.00 0.00 3.06
738 749 1.068748 CCAGTGCAAGCAAGATGTCAC 60.069 52.381 0.00 0.00 0.00 3.67
739 750 1.878088 CAGTGCAAGCAAGATGTCACT 59.122 47.619 0.00 0.00 36.37 3.41
742 753 2.417933 GTGCAAGCAAGATGTCACTAGG 59.582 50.000 0.00 0.00 0.00 3.02
762 819 9.868277 CACTAGGGTAATTAATTTGATTTTGCA 57.132 29.630 5.91 0.00 0.00 4.08
787 850 7.741027 AACTGTATCTGCTCATATGGAAATG 57.259 36.000 2.13 0.00 0.00 2.32
841 904 6.357367 TCTCTTAGATGCCTTTTTGTATCCC 58.643 40.000 0.00 0.00 0.00 3.85
855 985 2.363711 TATCCCGCGTCTGGCATGTC 62.364 60.000 4.92 0.00 43.84 3.06
932 1075 7.489757 GCTGTTAGATCGACTGTCTAAGAAAAT 59.510 37.037 7.13 0.00 38.47 1.82
941 1084 7.230913 TCGACTGTCTAAGAAAATATAGAGGGG 59.769 40.741 6.21 0.00 0.00 4.79
950 1093 7.757242 AGAAAATATAGAGGGGTCTTTCTGT 57.243 36.000 0.00 0.00 32.07 3.41
960 1103 1.403514 GGTCTTTCTGTCCTCTGCTCG 60.404 57.143 0.00 0.00 0.00 5.03
973 1119 1.067565 TCTGCTCGTACCTGAAGCAAG 60.068 52.381 7.89 4.13 34.96 4.01
976 1122 0.388649 CTCGTACCTGAAGCAAGCGT 60.389 55.000 0.00 0.00 0.00 5.07
991 1137 2.759973 CGTGGAGGGGCTGCTCTA 60.760 66.667 0.00 0.00 0.00 2.43
1014 1160 0.613260 GGTCTATGCACCCTGTGTCA 59.387 55.000 0.00 0.00 35.75 3.58
1029 1175 4.136796 CTGTGTCAATCTCCTTTCAACCA 58.863 43.478 0.00 0.00 0.00 3.67
1107 1253 3.826157 CCTGTATTCAGTTTCTTGGCCAA 59.174 43.478 19.25 19.25 39.82 4.52
1209 1355 1.295792 GTCAAGTTGCCGACAGTTGA 58.704 50.000 0.00 0.00 31.56 3.18
1269 1415 3.795688 TTCTGCTTCCAGGTCTGAAAT 57.204 42.857 0.00 0.00 39.61 2.17
1392 1539 9.015367 TGGACCGATTATTTTCTGTGAATTTTA 57.985 29.630 0.00 0.00 0.00 1.52
1423 1570 4.101585 TCCCATGGTGCTTATCTTGAGTAG 59.898 45.833 11.73 0.00 0.00 2.57
1424 1571 4.141620 CCCATGGTGCTTATCTTGAGTAGT 60.142 45.833 11.73 0.00 0.00 2.73
1425 1572 5.070446 CCCATGGTGCTTATCTTGAGTAGTA 59.930 44.000 11.73 0.00 0.00 1.82
1514 1663 1.674441 CCTGCTCACATGGTATGCTTG 59.326 52.381 0.00 0.00 0.00 4.01
1535 1684 4.967437 TGTTGTTCTTGCAATTTTTGTGC 58.033 34.783 0.00 0.00 42.55 4.57
1813 1976 8.634475 GCTCTCTGCGGAAAAATAAAAATAAT 57.366 30.769 0.00 0.00 0.00 1.28
1995 2213 8.691661 ACACTTTGAGTTTAGGTTAACATCAT 57.308 30.769 8.10 0.00 0.00 2.45
1996 2214 9.131791 ACACTTTGAGTTTAGGTTAACATCATT 57.868 29.630 8.10 0.00 0.00 2.57
1999 2217 9.965824 CTTTGAGTTTAGGTTAACATCATTTGT 57.034 29.630 8.10 0.00 41.53 2.83
2000 2218 9.959749 TTTGAGTTTAGGTTAACATCATTTGTC 57.040 29.630 8.10 0.00 37.68 3.18
2002 2220 9.126151 TGAGTTTAGGTTAACATCATTTGTCAA 57.874 29.630 8.10 0.00 37.68 3.18
2053 2271 4.119862 TGGTCTAAATCGTCAGCTTATGC 58.880 43.478 0.00 0.00 40.05 3.14
2086 2304 4.588899 AGCATCTGCCACTGTTAATGTTA 58.411 39.130 0.00 0.00 43.38 2.41
2097 2315 5.790003 CACTGTTAATGTTACTCATGTTGCG 59.210 40.000 0.00 0.00 36.81 4.85
2290 2509 7.801716 TGCTCGGAGCTATTTTAACAAATAT 57.198 32.000 28.42 0.00 42.97 1.28
2291 2510 8.220755 TGCTCGGAGCTATTTTAACAAATATT 57.779 30.769 28.42 0.00 42.97 1.28
2292 2511 8.682710 TGCTCGGAGCTATTTTAACAAATATTT 58.317 29.630 28.42 0.00 42.97 1.40
2385 2608 9.821662 CTTTGCTATTTGGTTGTACTACTAAAC 57.178 33.333 18.11 8.96 32.41 2.01
2550 2823 6.571150 GCATTATTGTCAGCCCATATTTCCTC 60.571 42.308 0.00 0.00 0.00 3.71
2588 2861 6.638468 CACTGGAAACAAGTAAGATTTTCAGC 59.362 38.462 4.50 0.00 41.00 4.26
2756 3168 2.106477 AGCAGCAGAAGCCTCTAAAC 57.894 50.000 0.00 0.00 43.56 2.01
2851 3263 5.832539 AATTCCCCCATAGTCTATCACAG 57.167 43.478 0.00 0.00 0.00 3.66
2853 3265 4.280789 TCCCCCATAGTCTATCACAGTT 57.719 45.455 0.00 0.00 0.00 3.16
3000 3504 6.389091 TCATGAAAAGGAATGTGGATTTTCG 58.611 36.000 0.00 0.00 42.05 3.46
3046 3552 8.491045 AACTTCCATCCTTTTGAATTTCCTAA 57.509 30.769 0.00 0.00 0.00 2.69
3139 3646 8.322906 TGAATCAAAGAGTTATTGAACACGAT 57.677 30.769 0.00 0.00 39.98 3.73
3148 3655 9.396022 AGAGTTATTGAACACGATGGATTAATT 57.604 29.630 0.00 0.00 38.10 1.40
3171 3678 6.543430 TTTTCATTACCTTAGCATGCCATT 57.457 33.333 15.66 0.00 0.00 3.16
3223 3730 9.959721 ATTTTACTTGTAGATCACTGTGGTATT 57.040 29.630 8.11 0.00 0.00 1.89
3385 3983 6.270231 ACCTACTCCACTGTTCATATTATCCC 59.730 42.308 0.00 0.00 0.00 3.85
3395 3993 6.613699 TGTTCATATTATCCCAGGCAATCTT 58.386 36.000 0.00 0.00 0.00 2.40
3400 3998 5.659849 ATTATCCCAGGCAATCTTCTCTT 57.340 39.130 0.00 0.00 0.00 2.85
3453 4099 9.261035 TCTCCTCTTCAGTATAATCTCAAAGTT 57.739 33.333 0.00 0.00 0.00 2.66
3460 4107 8.213518 TCAGTATAATCTCAAAGTTGATTGGC 57.786 34.615 0.00 0.00 36.46 4.52
3599 4246 1.007118 TGCCACCTCTACTCCTGATGA 59.993 52.381 0.00 0.00 0.00 2.92
3614 4261 3.498777 CCTGATGATGATGACATGTGAGC 59.501 47.826 1.15 0.00 36.82 4.26
3648 4295 6.486993 AGTCTAATCAGGACACCTTGTTTTTC 59.513 38.462 0.00 0.00 36.29 2.29
3649 4296 6.486993 GTCTAATCAGGACACCTTGTTTTTCT 59.513 38.462 0.00 0.00 34.23 2.52
3942 4593 2.865598 CGCTCCATCGCCATCCTCT 61.866 63.158 0.00 0.00 0.00 3.69
3949 4600 1.756408 ATCGCCATCCTCTGCCTCTG 61.756 60.000 0.00 0.00 0.00 3.35
4017 4672 1.133823 TGTTCTTTCTCCCTGCTGCAA 60.134 47.619 3.02 0.00 0.00 4.08
4048 4703 1.226974 CGCTGTGTATACGCTGCCT 60.227 57.895 30.58 0.00 44.82 4.75
4127 4792 6.991485 ACAAGATGTTTGAATTTTAGCGTG 57.009 33.333 0.00 0.00 0.00 5.34
4155 4820 3.690139 TCTAAAACGTTGTCAACAAGCCA 59.310 39.130 15.79 0.00 36.39 4.75
4171 4836 6.220726 ACAAGCCAACAAGAAAACTTATGT 57.779 33.333 0.00 0.00 0.00 2.29
4198 4863 9.221933 GTCTTATCTTATACTCTCTTCATCCGA 57.778 37.037 0.00 0.00 0.00 4.55
4208 4873 6.702329 ACTCTCTTCATCCGAAAATACTTGT 58.298 36.000 0.00 0.00 0.00 3.16
4209 4874 7.162082 ACTCTCTTCATCCGAAAATACTTGTT 58.838 34.615 0.00 0.00 0.00 2.83
4210 4875 7.661847 ACTCTCTTCATCCGAAAATACTTGTTT 59.338 33.333 0.00 0.00 0.00 2.83
4211 4876 8.029642 TCTCTTCATCCGAAAATACTTGTTTC 57.970 34.615 0.00 0.00 0.00 2.78
4212 4877 7.878127 TCTCTTCATCCGAAAATACTTGTTTCT 59.122 33.333 0.00 0.00 33.63 2.52
4213 4878 8.391075 TCTTCATCCGAAAATACTTGTTTCTT 57.609 30.769 0.00 0.00 33.63 2.52
4214 4879 8.504005 TCTTCATCCGAAAATACTTGTTTCTTC 58.496 33.333 0.00 0.00 33.63 2.87
4216 4881 6.647481 TCATCCGAAAATACTTGTTTCTTCGA 59.353 34.615 3.76 0.00 33.63 3.71
4217 4882 7.333423 TCATCCGAAAATACTTGTTTCTTCGAT 59.667 33.333 3.76 0.00 33.63 3.59
4219 4884 8.537049 TCCGAAAATACTTGTTTCTTCGATAA 57.463 30.769 3.76 0.00 33.63 1.75
4220 4885 8.653338 TCCGAAAATACTTGTTTCTTCGATAAG 58.347 33.333 3.76 0.00 33.63 1.73
4221 4886 8.440833 CCGAAAATACTTGTTTCTTCGATAAGT 58.559 33.333 3.76 0.00 33.63 2.24
4228 4893 7.960793 ACTTGTTTCTTCGATAAGTATTTCCG 58.039 34.615 0.00 0.00 34.13 4.30
4229 4894 6.897259 TGTTTCTTCGATAAGTATTTCCGG 57.103 37.500 0.00 0.00 34.13 5.14
4230 4895 6.632909 TGTTTCTTCGATAAGTATTTCCGGA 58.367 36.000 0.00 0.00 34.13 5.14
4231 4896 7.270047 TGTTTCTTCGATAAGTATTTCCGGAT 58.730 34.615 4.15 0.00 34.13 4.18
4232 4897 7.223971 TGTTTCTTCGATAAGTATTTCCGGATG 59.776 37.037 4.15 0.00 34.13 3.51
4233 4898 5.779922 TCTTCGATAAGTATTTCCGGATGG 58.220 41.667 4.15 0.00 34.13 3.51
4234 4899 5.537295 TCTTCGATAAGTATTTCCGGATGGA 59.463 40.000 4.15 0.00 36.90 3.41
4235 4900 6.294564 TCTTCGATAAGTATTTCCGGATGGAG 60.295 42.308 4.15 0.00 38.58 3.86
4236 4901 9.137100 TCTTCGATAAGTATTTCCGGATGGAGG 62.137 44.444 4.15 0.00 38.58 4.30
4244 4909 2.489528 TCCGGATGGAGGGAGTATTT 57.510 50.000 0.00 0.00 40.17 1.40
4245 4910 2.771688 TCCGGATGGAGGGAGTATTTT 58.228 47.619 0.00 0.00 40.17 1.82
4246 4911 2.438021 TCCGGATGGAGGGAGTATTTTG 59.562 50.000 0.00 0.00 40.17 2.44
4247 4912 2.487265 CCGGATGGAGGGAGTATTTTGG 60.487 54.545 0.00 0.00 37.49 3.28
4248 4913 2.438021 CGGATGGAGGGAGTATTTTGGA 59.562 50.000 0.00 0.00 0.00 3.53
4249 4914 3.118038 CGGATGGAGGGAGTATTTTGGAA 60.118 47.826 0.00 0.00 0.00 3.53
4250 4915 4.207955 GGATGGAGGGAGTATTTTGGAAC 58.792 47.826 0.00 0.00 0.00 3.62
4251 4916 3.343941 TGGAGGGAGTATTTTGGAACG 57.656 47.619 0.00 0.00 0.00 3.95
4252 4917 2.907696 TGGAGGGAGTATTTTGGAACGA 59.092 45.455 0.00 0.00 0.00 3.85
4253 4918 3.268330 GGAGGGAGTATTTTGGAACGAC 58.732 50.000 0.00 0.00 0.00 4.34
4254 4919 2.928116 GAGGGAGTATTTTGGAACGACG 59.072 50.000 0.00 0.00 0.00 5.12
4266 4931 1.659098 GGAACGACGAACCATCACATC 59.341 52.381 0.00 0.00 0.00 3.06
4313 4978 0.179045 CGTTGGATCCAGGTCATCCC 60.179 60.000 15.53 0.00 39.43 3.85
4337 5002 0.537653 GTCTTCTGCCACCTAGGACC 59.462 60.000 17.98 3.38 41.22 4.46
4365 5030 1.401539 GCTTCGTCTTGCATTCAACCC 60.402 52.381 0.00 0.00 0.00 4.11
4366 5031 1.200020 CTTCGTCTTGCATTCAACCCC 59.800 52.381 0.00 0.00 0.00 4.95
4375 5040 1.078143 ATTCAACCCCGAGCTGCTC 60.078 57.895 19.53 19.53 0.00 4.26
4378 5043 2.925170 AACCCCGAGCTGCTCTGT 60.925 61.111 25.59 16.97 0.00 3.41
4381 5046 1.754621 CCCCGAGCTGCTCTGTAGA 60.755 63.158 25.59 0.00 0.00 2.59
4390 5055 3.260380 AGCTGCTCTGTAGAGTGACATTT 59.740 43.478 10.36 0.00 43.85 2.32
4394 5059 5.473931 TGCTCTGTAGAGTGACATTTCTTC 58.526 41.667 10.36 0.00 43.85 2.87
4401 5066 4.660168 AGAGTGACATTTCTTCCAAGCAT 58.340 39.130 0.00 0.00 0.00 3.79
4455 5120 3.932545 TGTTTATTCGGCTGCATTTGT 57.067 38.095 0.50 0.00 0.00 2.83
4470 5135 7.065283 GCTGCATTTGTTATGTTCTTTTTGTC 58.935 34.615 0.00 0.00 0.00 3.18
4480 5145 4.026744 TGTTCTTTTTGTCCCCATGAACA 58.973 39.130 0.00 0.00 39.57 3.18
4487 5152 1.146774 TGTCCCCATGAACACACCAAT 59.853 47.619 0.00 0.00 0.00 3.16
4491 5156 2.555006 CCCCATGAACACACCAATCTGA 60.555 50.000 0.00 0.00 0.00 3.27
4498 5163 5.620206 TGAACACACCAATCTGACTATTGT 58.380 37.500 0.00 0.00 35.48 2.71
4501 5166 4.021456 ACACACCAATCTGACTATTGTCGA 60.021 41.667 2.86 4.03 45.70 4.20
4506 5171 4.564372 CCAATCTGACTATTGTCGAGTGTG 59.436 45.833 18.91 11.85 45.70 3.82
4524 5189 6.349445 CGAGTGTGTCTTCTTAGGATACAGTT 60.349 42.308 0.00 0.00 38.14 3.16
4526 5191 8.418597 AGTGTGTCTTCTTAGGATACAGTTAA 57.581 34.615 0.00 0.00 35.84 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 9.862585 GGACATTTGACAAAATATTTGTGTTTC 57.137 29.630 12.75 0.30 34.14 2.78
76 77 9.388506 TGGACATTTGACAAAATATTTGTGTTT 57.611 25.926 12.75 0.00 34.14 2.83
77 78 8.954950 TGGACATTTGACAAAATATTTGTGTT 57.045 26.923 12.75 0.00 34.14 3.32
78 79 8.954950 TTGGACATTTGACAAAATATTTGTGT 57.045 26.923 12.75 8.32 34.14 3.72
79 80 9.649024 GTTTGGACATTTGACAAAATATTTGTG 57.351 29.630 12.75 5.34 36.05 3.33
80 81 9.388506 TGTTTGGACATTTGACAAAATATTTGT 57.611 25.926 4.41 8.11 36.05 2.83
83 84 8.505625 GCATGTTTGGACATTTGACAAAATATT 58.494 29.630 4.41 0.00 43.92 1.28
84 85 7.119553 GGCATGTTTGGACATTTGACAAAATAT 59.880 33.333 4.41 0.00 43.92 1.28
85 86 6.426328 GGCATGTTTGGACATTTGACAAAATA 59.574 34.615 4.41 0.00 43.92 1.40
86 87 5.239087 GGCATGTTTGGACATTTGACAAAAT 59.761 36.000 4.41 0.00 43.92 1.82
87 88 4.574013 GGCATGTTTGGACATTTGACAAAA 59.426 37.500 4.41 0.00 43.92 2.44
88 89 4.125703 GGCATGTTTGGACATTTGACAAA 58.874 39.130 2.48 2.48 43.92 2.83
89 90 3.494048 GGGCATGTTTGGACATTTGACAA 60.494 43.478 0.00 0.00 43.92 3.18
90 91 2.036992 GGGCATGTTTGGACATTTGACA 59.963 45.455 0.00 0.00 43.92 3.58
91 92 2.612721 GGGGCATGTTTGGACATTTGAC 60.613 50.000 0.00 0.00 43.92 3.18
92 93 1.622811 GGGGCATGTTTGGACATTTGA 59.377 47.619 0.00 0.00 43.92 2.69
93 94 1.347050 TGGGGCATGTTTGGACATTTG 59.653 47.619 0.00 0.00 43.92 2.32
94 95 1.624813 CTGGGGCATGTTTGGACATTT 59.375 47.619 0.00 0.00 43.92 2.32
95 96 1.269012 CTGGGGCATGTTTGGACATT 58.731 50.000 0.00 0.00 43.92 2.71
97 98 1.907807 GCTGGGGCATGTTTGGACA 60.908 57.895 0.00 0.00 40.71 4.02
98 99 2.973082 GCTGGGGCATGTTTGGAC 59.027 61.111 0.00 0.00 38.54 4.02
99 100 2.676121 CGCTGGGGCATGTTTGGA 60.676 61.111 0.00 0.00 38.60 3.53
100 101 3.762247 CCGCTGGGGCATGTTTGG 61.762 66.667 0.00 0.00 38.60 3.28
109 110 2.489751 GAAAATTCGCCGCTGGGG 59.510 61.111 6.36 6.36 36.96 4.96
110 111 2.489751 GGAAAATTCGCCGCTGGG 59.510 61.111 0.00 0.00 0.00 4.45
111 112 2.100216 CGGAAAATTCGCCGCTGG 59.900 61.111 6.07 0.00 41.17 4.85
118 119 1.795962 GCCACGTGCGGAAAATTCG 60.796 57.895 10.91 0.00 0.00 3.34
119 120 1.284408 TGCCACGTGCGGAAAATTC 59.716 52.632 10.91 0.00 45.60 2.17
120 121 3.437867 TGCCACGTGCGGAAAATT 58.562 50.000 10.91 0.00 45.60 1.82
132 133 3.777925 CGTGCGTAGTGCTGCCAC 61.778 66.667 0.00 0.00 46.63 5.01
146 147 1.568612 GACATGGAGGTGTGTGCGTG 61.569 60.000 0.00 0.00 31.16 5.34
147 148 1.301716 GACATGGAGGTGTGTGCGT 60.302 57.895 0.00 0.00 31.16 5.24
148 149 0.246360 TAGACATGGAGGTGTGTGCG 59.754 55.000 0.00 0.00 31.16 5.34
149 150 2.009042 GCTAGACATGGAGGTGTGTGC 61.009 57.143 0.00 0.00 31.16 4.57
157 158 0.755686 GTCCTGGGCTAGACATGGAG 59.244 60.000 8.83 0.00 33.08 3.86
160 161 0.982852 TGGGTCCTGGGCTAGACATG 60.983 60.000 0.00 0.00 34.58 3.21
190 191 2.158885 TGACGTGTCAACATTTCTGGGA 60.159 45.455 0.00 0.00 36.53 4.37
229 230 1.748122 GACGAGAGAGGGCGTGGTA 60.748 63.158 0.00 0.00 41.34 3.25
250 253 1.416813 GATTGCGAGACAGCGTGAGG 61.417 60.000 0.00 0.00 40.67 3.86
437 448 3.265221 TCACGGAACTAGGTCTTAGAGGA 59.735 47.826 7.92 1.67 33.39 3.71
605 616 5.823045 GCTGTTGCCAAATACTACTAGGAAT 59.177 40.000 0.00 0.00 0.00 3.01
615 626 3.375299 CCTACTGAGCTGTTGCCAAATAC 59.625 47.826 0.00 0.00 40.80 1.89
616 627 3.009033 ACCTACTGAGCTGTTGCCAAATA 59.991 43.478 0.00 0.00 40.80 1.40
617 628 2.224867 ACCTACTGAGCTGTTGCCAAAT 60.225 45.455 0.00 0.00 40.80 2.32
618 629 1.142870 ACCTACTGAGCTGTTGCCAAA 59.857 47.619 0.00 0.00 40.80 3.28
619 630 0.764890 ACCTACTGAGCTGTTGCCAA 59.235 50.000 0.00 0.00 40.80 4.52
620 631 1.639722 TACCTACTGAGCTGTTGCCA 58.360 50.000 0.00 0.00 40.80 4.92
621 632 2.028020 AGTTACCTACTGAGCTGTTGCC 60.028 50.000 0.00 0.00 36.24 4.52
622 633 3.320673 AGTTACCTACTGAGCTGTTGC 57.679 47.619 0.00 0.00 35.19 4.17
623 634 6.026947 AGTAAGTTACCTACTGAGCTGTTG 57.973 41.667 9.46 0.00 37.12 3.33
624 635 6.667558 AAGTAAGTTACCTACTGAGCTGTT 57.332 37.500 9.46 0.00 37.12 3.16
625 636 6.456501 CAAAGTAAGTTACCTACTGAGCTGT 58.543 40.000 9.46 0.00 37.12 4.40
626 637 5.869888 CCAAAGTAAGTTACCTACTGAGCTG 59.130 44.000 9.46 0.00 37.12 4.24
627 638 5.543020 ACCAAAGTAAGTTACCTACTGAGCT 59.457 40.000 9.46 0.00 37.12 4.09
628 639 5.638234 CACCAAAGTAAGTTACCTACTGAGC 59.362 44.000 9.46 0.00 37.12 4.26
631 642 8.529476 ACTATCACCAAAGTAAGTTACCTACTG 58.471 37.037 9.46 2.56 37.12 2.74
635 646 8.203681 AGAACTATCACCAAAGTAAGTTACCT 57.796 34.615 9.46 0.00 0.00 3.08
685 696 1.337074 ACCCATTGCACGCAAATTCAG 60.337 47.619 8.76 0.00 39.55 3.02
710 721 3.323691 TCTTGCTTGCACTGGTAACTAGA 59.676 43.478 0.00 0.00 37.61 2.43
719 730 1.878088 AGTGACATCTTGCTTGCACTG 59.122 47.619 0.00 0.00 33.37 3.66
736 747 9.868277 TGCAAAATCAAATTAATTACCCTAGTG 57.132 29.630 0.01 0.00 0.00 2.74
762 819 7.255381 GCATTTCCATATGAGCAGATACAGTTT 60.255 37.037 3.65 0.00 0.00 2.66
841 904 1.291184 TGAAAGACATGCCAGACGCG 61.291 55.000 3.53 3.53 42.08 6.01
855 985 7.501559 AGTGTGGATGATAATTCCTGATGAAAG 59.498 37.037 0.00 0.00 36.33 2.62
932 1075 4.805744 GAGGACAGAAAGACCCCTCTATA 58.194 47.826 0.00 0.00 40.07 1.31
941 1084 1.271102 ACGAGCAGAGGACAGAAAGAC 59.729 52.381 0.00 0.00 0.00 3.01
950 1093 1.464734 CTTCAGGTACGAGCAGAGGA 58.535 55.000 0.00 0.00 0.00 3.71
960 1103 0.320421 TCCACGCTTGCTTCAGGTAC 60.320 55.000 0.00 0.00 0.00 3.34
976 1122 1.722034 CTATTAGAGCAGCCCCTCCA 58.278 55.000 0.00 0.00 32.17 3.86
984 1130 4.322349 GGGTGCATAGACCTATTAGAGCAG 60.322 50.000 0.00 0.00 36.14 4.24
991 1137 3.115390 ACACAGGGTGCATAGACCTATT 58.885 45.455 0.00 0.00 36.98 1.73
1014 1160 4.219288 GCAGTGAATGGTTGAAAGGAGATT 59.781 41.667 0.00 0.00 0.00 2.40
1029 1175 0.957395 CCGCTGGAGTTGCAGTGAAT 60.957 55.000 14.63 0.00 0.00 2.57
1107 1253 9.811995 GGTTAAAATTAAAGGAAACACAAGAGT 57.188 29.630 0.00 0.00 0.00 3.24
1209 1355 3.369157 GGCACGGTATCCACTACTTCTTT 60.369 47.826 0.00 0.00 0.00 2.52
1269 1415 2.092429 GCATAATCCTGTTCCCCAGTCA 60.092 50.000 0.00 0.00 39.74 3.41
1423 1570 7.851822 TCGTCTGCAATTTTCAAGAAATTAC 57.148 32.000 0.00 0.00 0.00 1.89
1424 1571 9.474920 AAATCGTCTGCAATTTTCAAGAAATTA 57.525 25.926 0.00 0.00 0.00 1.40
1425 1572 7.951530 AATCGTCTGCAATTTTCAAGAAATT 57.048 28.000 0.00 0.00 0.00 1.82
1514 1663 4.967437 TGCACAAAAATTGCAAGAACAAC 58.033 34.783 4.94 0.00 46.90 3.32
1535 1684 5.163478 CCCTCCCTAATCAGAAAAGCAATTG 60.163 44.000 0.00 0.00 0.00 2.32
1546 1695 0.761802 GCACCTCCCTCCCTAATCAG 59.238 60.000 0.00 0.00 0.00 2.90
1593 1742 1.978617 GCAAAGGGCTGCAGGCTTA 60.979 57.895 35.64 0.00 42.17 3.09
1659 1813 9.023962 AGAAATGCTTTATGTAACCTGAAATCA 57.976 29.630 0.00 0.00 0.00 2.57
1723 1878 3.314635 CCTGCACTCCATTAGAAATCTGC 59.685 47.826 0.00 0.00 0.00 4.26
1813 1976 9.739276 AGAATTCTAAATGAGTGACCATGTTAA 57.261 29.630 6.06 0.00 0.00 2.01
1815 1978 8.105829 AGAGAATTCTAAATGAGTGACCATGTT 58.894 33.333 8.25 0.00 0.00 2.71
1995 2213 9.871238 GTTAGTATCCTCAACTAGATTGACAAA 57.129 33.333 0.00 0.00 42.62 2.83
1996 2214 9.256228 AGTTAGTATCCTCAACTAGATTGACAA 57.744 33.333 0.00 0.00 42.62 3.18
2039 2257 3.315470 TCTTAGACGCATAAGCTGACGAT 59.685 43.478 5.14 0.00 39.10 3.73
2053 2271 3.738282 GTGGCAGATGCTTATCTTAGACG 59.262 47.826 4.59 0.00 41.70 4.18
2086 2304 2.254546 TCAGAAACCGCAACATGAGT 57.745 45.000 0.00 0.00 0.00 3.41
2097 2315 6.554334 TGTTACTACAAAGCATCAGAAACC 57.446 37.500 0.00 0.00 0.00 3.27
2311 2530 5.473066 AAAGCCAATGTGTTGCTAGAATT 57.527 34.783 0.00 0.00 33.90 2.17
2385 2608 5.890985 CCCAGAGTCTCCAGACCATATATAG 59.109 48.000 2.96 0.00 45.85 1.31
2395 2618 0.473694 TTTGCCCCAGAGTCTCCAGA 60.474 55.000 0.00 0.00 0.00 3.86
2453 2726 1.808945 CAGCGAGCTCCTTCATTTTGT 59.191 47.619 8.47 0.00 0.00 2.83
2550 2823 2.047844 CAGTGCCGTCCAGGTGAG 60.048 66.667 0.00 0.00 43.70 3.51
2756 3168 0.530744 TAGGCCACGTTAGAGTGCTG 59.469 55.000 5.01 0.00 40.59 4.41
3046 3552 8.267183 AGTTCAACATTCCCTTCAAGAAAAATT 58.733 29.630 0.00 0.00 0.00 1.82
3107 3614 7.022979 TCAATAACTCTTTGATTCATTGTGCG 58.977 34.615 0.00 0.00 0.00 5.34
3109 3616 9.681692 TGTTCAATAACTCTTTGATTCATTGTG 57.318 29.630 0.00 0.00 36.51 3.33
3120 3627 7.687941 AATCCATCGTGTTCAATAACTCTTT 57.312 32.000 0.00 0.00 36.51 2.52
3148 3655 6.543430 AATGGCATGCTAAGGTAATGAAAA 57.457 33.333 18.92 0.00 0.00 2.29
3247 3754 7.345192 CGCTTACTAATATAGCAACAAAGTGG 58.655 38.462 0.00 0.00 34.62 4.00
3342 3862 7.444487 GGAGTAGGTGGTATATTCAATTTGGTC 59.556 40.741 0.00 0.00 0.00 4.02
3350 3948 5.525484 ACAGTGGAGTAGGTGGTATATTCA 58.475 41.667 0.00 0.00 0.00 2.57
3442 4088 6.899393 TTGTAGCCAATCAACTTTGAGATT 57.101 33.333 0.00 0.00 41.08 2.40
3453 4099 2.752354 CCGTGGAATTTGTAGCCAATCA 59.248 45.455 0.00 0.00 32.68 2.57
3460 4107 3.634568 TGTTTGCCGTGGAATTTGTAG 57.365 42.857 0.00 0.00 0.00 2.74
3599 4246 2.562635 GAGCAGCTCACATGTCATCAT 58.437 47.619 18.17 0.00 34.21 2.45
3614 4261 4.109050 GTCCTGATTAGACTTTCGAGCAG 58.891 47.826 0.00 0.00 0.00 4.24
3648 4295 0.814410 ATCTGCGCTGCCAATGAGAG 60.814 55.000 9.73 0.00 0.00 3.20
3649 4296 0.393402 AATCTGCGCTGCCAATGAGA 60.393 50.000 9.73 0.00 0.00 3.27
3686 4333 4.415596 AGCATGGGTTAACAAGATGGAAA 58.584 39.130 8.10 0.00 0.00 3.13
3900 4551 5.354234 GTCATTCCAGACATTTCCGTAACAT 59.646 40.000 0.00 0.00 38.40 2.71
3908 4559 2.352960 GGAGCGTCATTCCAGACATTTC 59.647 50.000 0.00 0.00 38.43 2.17
3972 4627 2.279851 GGCACCCCGCAAACAAAC 60.280 61.111 0.00 0.00 45.17 2.93
4017 4672 3.041940 CAGCGACGGCGAAAAGGT 61.042 61.111 18.90 4.10 46.35 3.50
4048 4703 2.101582 ACAAGCAACAATAAACGGGCAA 59.898 40.909 0.00 0.00 0.00 4.52
4127 4792 7.461026 GCTTGTTGACAACGTTTTAGAACTTTC 60.461 37.037 13.46 0.00 33.51 2.62
4171 4836 9.004717 CGGATGAAGAGAGTATAAGATAAGACA 57.995 37.037 0.00 0.00 0.00 3.41
4188 4853 7.979444 AGAAACAAGTATTTTCGGATGAAGA 57.021 32.000 0.00 0.00 37.91 2.87
4192 4857 6.827641 TCGAAGAAACAAGTATTTTCGGATG 58.172 36.000 4.85 0.00 37.91 3.51
4208 4873 6.704493 CCATCCGGAAATACTTATCGAAGAAA 59.296 38.462 9.01 0.00 43.58 2.52
4209 4874 6.041182 TCCATCCGGAAATACTTATCGAAGAA 59.959 38.462 9.01 0.00 38.37 2.52
4210 4875 5.537295 TCCATCCGGAAATACTTATCGAAGA 59.463 40.000 9.01 0.00 38.83 2.87
4211 4876 5.779922 TCCATCCGGAAATACTTATCGAAG 58.220 41.667 9.01 0.00 38.83 3.79
4212 4877 5.279306 CCTCCATCCGGAAATACTTATCGAA 60.279 44.000 9.01 0.00 42.21 3.71
4213 4878 4.219944 CCTCCATCCGGAAATACTTATCGA 59.780 45.833 9.01 0.00 42.21 3.59
4214 4879 4.495422 CCTCCATCCGGAAATACTTATCG 58.505 47.826 9.01 0.00 42.21 2.92
4216 4881 4.499472 TCCCTCCATCCGGAAATACTTAT 58.501 43.478 9.01 0.00 42.21 1.73
4217 4882 3.901844 CTCCCTCCATCCGGAAATACTTA 59.098 47.826 9.01 0.00 42.21 2.24
4219 4884 2.330216 CTCCCTCCATCCGGAAATACT 58.670 52.381 9.01 0.00 42.21 2.12
4220 4885 2.047830 ACTCCCTCCATCCGGAAATAC 58.952 52.381 9.01 0.00 42.21 1.89
4221 4886 2.489528 ACTCCCTCCATCCGGAAATA 57.510 50.000 9.01 0.00 42.21 1.40
4222 4887 2.489528 TACTCCCTCCATCCGGAAAT 57.510 50.000 9.01 0.00 42.21 2.17
4224 4889 2.489528 AATACTCCCTCCATCCGGAA 57.510 50.000 9.01 0.00 42.21 4.30
4225 4890 2.438021 CAAAATACTCCCTCCATCCGGA 59.562 50.000 6.61 6.61 39.79 5.14
4226 4891 2.487265 CCAAAATACTCCCTCCATCCGG 60.487 54.545 0.00 0.00 0.00 5.14
4227 4892 2.438021 TCCAAAATACTCCCTCCATCCG 59.562 50.000 0.00 0.00 0.00 4.18
4228 4893 4.207955 GTTCCAAAATACTCCCTCCATCC 58.792 47.826 0.00 0.00 0.00 3.51
4229 4894 3.877508 CGTTCCAAAATACTCCCTCCATC 59.122 47.826 0.00 0.00 0.00 3.51
4230 4895 3.521937 TCGTTCCAAAATACTCCCTCCAT 59.478 43.478 0.00 0.00 0.00 3.41
4231 4896 2.907696 TCGTTCCAAAATACTCCCTCCA 59.092 45.455 0.00 0.00 0.00 3.86
4232 4897 3.268330 GTCGTTCCAAAATACTCCCTCC 58.732 50.000 0.00 0.00 0.00 4.30
4233 4898 2.928116 CGTCGTTCCAAAATACTCCCTC 59.072 50.000 0.00 0.00 0.00 4.30
4234 4899 2.564062 TCGTCGTTCCAAAATACTCCCT 59.436 45.455 0.00 0.00 0.00 4.20
4235 4900 2.963432 TCGTCGTTCCAAAATACTCCC 58.037 47.619 0.00 0.00 0.00 4.30
4236 4901 3.124128 GGTTCGTCGTTCCAAAATACTCC 59.876 47.826 0.00 0.00 0.00 3.85
4237 4902 3.742369 TGGTTCGTCGTTCCAAAATACTC 59.258 43.478 8.24 0.00 0.00 2.59
4238 4903 3.731089 TGGTTCGTCGTTCCAAAATACT 58.269 40.909 8.24 0.00 0.00 2.12
4239 4904 4.152759 TGATGGTTCGTCGTTCCAAAATAC 59.847 41.667 13.06 5.99 34.80 1.89
4240 4905 4.152759 GTGATGGTTCGTCGTTCCAAAATA 59.847 41.667 13.06 1.52 34.80 1.40
4241 4906 3.058501 GTGATGGTTCGTCGTTCCAAAAT 60.059 43.478 13.06 0.73 34.80 1.82
4242 4907 2.288458 GTGATGGTTCGTCGTTCCAAAA 59.712 45.455 13.06 4.61 34.80 2.44
4243 4908 1.868498 GTGATGGTTCGTCGTTCCAAA 59.132 47.619 13.06 4.88 34.80 3.28
4244 4909 1.202545 TGTGATGGTTCGTCGTTCCAA 60.203 47.619 13.06 0.00 34.80 3.53
4245 4910 0.389757 TGTGATGGTTCGTCGTTCCA 59.610 50.000 11.88 11.88 35.64 3.53
4246 4911 1.659098 GATGTGATGGTTCGTCGTTCC 59.341 52.381 0.00 0.00 0.00 3.62
4247 4912 1.320555 CGATGTGATGGTTCGTCGTTC 59.679 52.381 0.00 0.00 38.00 3.95
4248 4913 1.346365 CGATGTGATGGTTCGTCGTT 58.654 50.000 0.00 0.00 38.00 3.85
4249 4914 0.242825 ACGATGTGATGGTTCGTCGT 59.757 50.000 6.60 6.60 46.63 4.34
4250 4915 3.030209 ACGATGTGATGGTTCGTCG 57.970 52.632 0.00 0.00 41.93 5.12
4253 4918 1.061131 GCAAGACGATGTGATGGTTCG 59.939 52.381 0.00 0.00 38.76 3.95
4254 4919 2.349886 GAGCAAGACGATGTGATGGTTC 59.650 50.000 0.00 0.00 0.00 3.62
4313 4978 2.613977 CCTAGGTGGCAGAAGACAACAG 60.614 54.545 0.00 0.00 45.59 3.16
4365 5030 0.100325 CACTCTACAGAGCAGCTCGG 59.900 60.000 19.85 19.85 45.79 4.63
4366 5031 1.090728 TCACTCTACAGAGCAGCTCG 58.909 55.000 16.99 13.76 45.79 5.03
4375 5040 5.121454 GCTTGGAAGAAATGTCACTCTACAG 59.879 44.000 0.00 0.00 31.70 2.74
4378 5043 5.227569 TGCTTGGAAGAAATGTCACTCTA 57.772 39.130 0.00 0.00 0.00 2.43
4381 5046 5.796424 AAATGCTTGGAAGAAATGTCACT 57.204 34.783 0.00 0.00 0.00 3.41
4427 5092 4.447054 TGCAGCCGAATAAACAAAATGTTG 59.553 37.500 0.00 0.00 40.14 3.33
4428 5093 4.626042 TGCAGCCGAATAAACAAAATGTT 58.374 34.783 0.00 0.00 43.41 2.71
4429 5094 4.250116 TGCAGCCGAATAAACAAAATGT 57.750 36.364 0.00 0.00 0.00 2.71
4445 5110 6.947258 ACAAAAAGAACATAACAAATGCAGC 58.053 32.000 0.00 0.00 0.00 5.25
4470 5135 1.820519 CAGATTGGTGTGTTCATGGGG 59.179 52.381 0.00 0.00 0.00 4.96
4480 5145 4.220821 ACTCGACAATAGTCAGATTGGTGT 59.779 41.667 1.59 0.00 45.23 4.16
4487 5152 4.072839 AGACACACTCGACAATAGTCAGA 58.927 43.478 0.00 0.00 45.23 3.27
4491 5156 5.455056 AAGAAGACACACTCGACAATAGT 57.545 39.130 0.00 0.00 0.00 2.12
4498 5163 5.250982 TGTATCCTAAGAAGACACACTCGA 58.749 41.667 0.00 0.00 0.00 4.04
4501 5166 6.919775 AACTGTATCCTAAGAAGACACACT 57.080 37.500 0.00 0.00 0.00 3.55
4549 5214 8.685838 AAGTGCTTACCATAGTTTGAAGTTTA 57.314 30.769 0.00 0.00 0.00 2.01
4552 5217 7.582667 AAAAGTGCTTACCATAGTTTGAAGT 57.417 32.000 0.00 0.00 0.00 3.01
4553 5218 8.784043 ACTAAAAGTGCTTACCATAGTTTGAAG 58.216 33.333 0.00 0.00 0.00 3.02
4554 5219 8.685838 ACTAAAAGTGCTTACCATAGTTTGAA 57.314 30.769 0.00 0.00 0.00 2.69
4556 5221 9.216117 ACTACTAAAAGTGCTTACCATAGTTTG 57.784 33.333 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.