Multiple sequence alignment - TraesCS6B01G230500

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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 TraesCS6B01G230500 chr6B 100.000 6109 0 0 1534 7642 372580274 372574166 0.000000e+00 11282.0
1 TraesCS6B01G230500 chr6B 94.997 1739 73 5 3475 5201 37063430 37061694 0.000000e+00 2717.0
2 TraesCS6B01G230500 chr6B 100.000 1079 0 0 1 1079 372581807 372580729 0.000000e+00 1993.0
3 TraesCS6B01G230500 chr6B 90.000 50 3 2 5296 5345 363108766 363108813 6.400000e-06 63.9
4 TraesCS6B01G230500 chr4B 94.349 2088 90 12 3131 5200 135222929 135220852 0.000000e+00 3177.0
5 TraesCS6B01G230500 chr4B 95.499 1733 65 6 3475 5197 250756555 250754826 0.000000e+00 2756.0
6 TraesCS6B01G230500 chr4B 95.958 866 31 4 2624 3488 1075803 1074941 0.000000e+00 1402.0
7 TraesCS6B01G230500 chr4B 91.667 156 13 0 2050 2205 106227561 106227406 4.640000e-52 217.0
8 TraesCS6B01G230500 chr4B 90.566 159 13 2 2045 2202 146469373 146469216 7.770000e-50 209.0
9 TraesCS6B01G230500 chr2B 96.435 1739 49 4 3475 5202 518371471 518373207 0.000000e+00 2856.0
10 TraesCS6B01G230500 chr2B 95.688 858 31 5 2623 3479 562156883 562157735 0.000000e+00 1375.0
11 TraesCS6B01G230500 chr2B 91.304 92 7 1 984 1075 497862048 497861958 2.900000e-24 124.0
12 TraesCS6B01G230500 chr5B 95.575 1740 63 5 3475 5201 31420557 31422295 0.000000e+00 2774.0
13 TraesCS6B01G230500 chr5B 95.963 867 31 3 2623 3488 456331277 456330414 0.000000e+00 1404.0
14 TraesCS6B01G230500 chr5B 95.703 861 33 3 2622 3479 614991266 614992125 0.000000e+00 1382.0
15 TraesCS6B01G230500 chr7B 95.178 1742 65 11 3475 5202 174743273 174745009 0.000000e+00 2734.0
16 TraesCS6B01G230500 chr7B 96.203 869 25 7 2624 3488 586573842 586572978 0.000000e+00 1415.0
17 TraesCS6B01G230500 chr1B 94.948 1742 76 3 3475 5204 509555325 509557066 0.000000e+00 2719.0
18 TraesCS6B01G230500 chr1B 94.891 1742 68 7 3475 5204 38856270 38858002 0.000000e+00 2704.0
19 TraesCS6B01G230500 chr1B 95.354 861 39 1 2620 3479 82298733 82299593 0.000000e+00 1367.0
20 TraesCS6B01G230500 chr1B 91.005 189 14 3 5340 5527 486835608 486835794 1.270000e-62 252.0
21 TraesCS6B01G230500 chr3B 94.931 1736 76 5 3475 5201 527146712 527144980 0.000000e+00 2708.0
22 TraesCS6B01G230500 chr3B 95.958 866 24 9 2624 3488 741701504 741700649 0.000000e+00 1395.0
23 TraesCS6B01G230500 chr3B 95.814 860 26 9 2623 3479 82602181 82601329 0.000000e+00 1380.0
24 TraesCS6B01G230500 chr3B 95.804 858 28 4 2623 3479 249988791 249987941 0.000000e+00 1378.0
25 TraesCS6B01G230500 chr6D 96.071 1298 25 8 5526 6811 256727707 256726424 0.000000e+00 2091.0
26 TraesCS6B01G230500 chr6D 96.449 1042 23 5 1594 2624 256729067 256728029 0.000000e+00 1707.0
27 TraesCS6B01G230500 chr6D 95.261 844 20 7 1555 2385 256729900 256729064 0.000000e+00 1319.0
28 TraesCS6B01G230500 chr6D 96.575 730 14 4 6922 7640 256725434 256724705 0.000000e+00 1199.0
29 TraesCS6B01G230500 chr6D 91.330 669 48 9 1 662 256731316 256730651 0.000000e+00 905.0
30 TraesCS6B01G230500 chr6D 97.191 356 8 2 725 1079 256730657 256730303 1.100000e-167 601.0
31 TraesCS6B01G230500 chr6D 98.795 166 2 0 5200 5365 256728029 256727864 5.800000e-76 296.0
32 TraesCS6B01G230500 chr6D 94.444 126 4 1 6788 6913 256725621 256725499 2.810000e-44 191.0
33 TraesCS6B01G230500 chr6A 95.250 1179 37 8 5744 6913 366030420 366031588 0.000000e+00 1849.0
34 TraesCS6B01G230500 chr6A 94.560 1103 25 11 1534 2624 366028934 366030013 0.000000e+00 1672.0
35 TraesCS6B01G230500 chr6A 94.398 714 23 3 6934 7640 366031650 366032353 0.000000e+00 1081.0
36 TraesCS6B01G230500 chr6A 97.722 395 9 0 685 1079 366028136 366028530 0.000000e+00 680.0
37 TraesCS6B01G230500 chr6A 94.366 213 6 2 5526 5738 366030175 366030381 9.570000e-84 322.0
38 TraesCS6B01G230500 chr6A 98.182 165 2 1 5200 5364 366030013 366030176 3.490000e-73 287.0
39 TraesCS6B01G230500 chr6A 93.750 96 2 4 596 690 366027768 366027860 2.880000e-29 141.0
40 TraesCS6B01G230500 chr5A 94.706 170 9 0 5360 5529 290391864 290391695 1.640000e-66 265.0
41 TraesCS6B01G230500 chr5A 93.714 175 10 1 5356 5530 362179011 362179184 2.120000e-65 261.0
42 TraesCS6B01G230500 chr2D 94.675 169 9 0 5361 5529 560959483 560959651 5.880000e-66 263.0
43 TraesCS6B01G230500 chr2D 93.678 174 11 0 5355 5528 457644178 457644005 2.120000e-65 261.0
44 TraesCS6B01G230500 chr2D 92.265 181 12 2 5356 5534 554128382 554128202 9.840000e-64 255.0
45 TraesCS6B01G230500 chr2D 90.506 158 14 1 2050 2206 58651702 58651859 2.790000e-49 207.0
46 TraesCS6B01G230500 chr2D 92.391 92 6 1 984 1075 423879564 423879474 6.220000e-26 130.0
47 TraesCS6B01G230500 chr4D 94.152 171 10 0 5359 5529 93338210 93338040 2.120000e-65 261.0
48 TraesCS6B01G230500 chr4D 92.308 182 12 2 5347 5528 46028523 46028702 2.740000e-64 257.0
49 TraesCS6B01G230500 chr1D 91.053 190 13 4 5347 5534 331539249 331539436 3.540000e-63 254.0
50 TraesCS6B01G230500 chr3A 91.304 161 14 0 2044 2204 509865247 509865407 3.590000e-53 220.0
51 TraesCS6B01G230500 chr2A 90.968 155 14 0 2049 2203 141506317 141506471 7.770000e-50 209.0
52 TraesCS6B01G230500 chr2A 91.209 91 7 1 985 1075 564496479 564496568 1.040000e-23 122.0
53 TraesCS6B01G230500 chr1A 90.968 155 11 2 2050 2202 155857859 155857706 1.010000e-48 206.0
54 TraesCS6B01G230500 chr1A 83.529 85 12 2 1 83 12108283 12108199 2.290000e-10 78.7
55 TraesCS6B01G230500 chr1A 86.957 69 7 2 5 72 12135651 12135584 8.220000e-10 76.8
56 TraesCS6B01G230500 chr1A 86.957 69 7 2 5 72 12138140 12138073 8.220000e-10 76.8
57 TraesCS6B01G230500 chr5D 76.419 229 39 12 11 229 476826490 476826267 8.110000e-20 110.0
58 TraesCS6B01G230500 chr7A 86.885 61 8 0 3 63 3417636 3417696 1.380000e-07 69.4
59 TraesCS6B01G230500 chr7D 89.091 55 4 2 5308 5361 72952271 72952324 4.950000e-07 67.6
60 TraesCS6B01G230500 chr7D 97.059 34 1 0 5308 5341 256833656 256833689 2.980000e-04 58.4


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 TraesCS6B01G230500 chr6B 372574166 372581807 7641 True 6637.500000 11282 100.000000 1 7642 2 chr6B.!!$R2 7641
1 TraesCS6B01G230500 chr6B 37061694 37063430 1736 True 2717.000000 2717 94.997000 3475 5201 1 chr6B.!!$R1 1726
2 TraesCS6B01G230500 chr4B 135220852 135222929 2077 True 3177.000000 3177 94.349000 3131 5200 1 chr4B.!!$R3 2069
3 TraesCS6B01G230500 chr4B 250754826 250756555 1729 True 2756.000000 2756 95.499000 3475 5197 1 chr4B.!!$R5 1722
4 TraesCS6B01G230500 chr4B 1074941 1075803 862 True 1402.000000 1402 95.958000 2624 3488 1 chr4B.!!$R1 864
5 TraesCS6B01G230500 chr2B 518371471 518373207 1736 False 2856.000000 2856 96.435000 3475 5202 1 chr2B.!!$F1 1727
6 TraesCS6B01G230500 chr2B 562156883 562157735 852 False 1375.000000 1375 95.688000 2623 3479 1 chr2B.!!$F2 856
7 TraesCS6B01G230500 chr5B 31420557 31422295 1738 False 2774.000000 2774 95.575000 3475 5201 1 chr5B.!!$F1 1726
8 TraesCS6B01G230500 chr5B 456330414 456331277 863 True 1404.000000 1404 95.963000 2623 3488 1 chr5B.!!$R1 865
9 TraesCS6B01G230500 chr5B 614991266 614992125 859 False 1382.000000 1382 95.703000 2622 3479 1 chr5B.!!$F2 857
10 TraesCS6B01G230500 chr7B 174743273 174745009 1736 False 2734.000000 2734 95.178000 3475 5202 1 chr7B.!!$F1 1727
11 TraesCS6B01G230500 chr7B 586572978 586573842 864 True 1415.000000 1415 96.203000 2624 3488 1 chr7B.!!$R1 864
12 TraesCS6B01G230500 chr1B 509555325 509557066 1741 False 2719.000000 2719 94.948000 3475 5204 1 chr1B.!!$F4 1729
13 TraesCS6B01G230500 chr1B 38856270 38858002 1732 False 2704.000000 2704 94.891000 3475 5204 1 chr1B.!!$F1 1729
14 TraesCS6B01G230500 chr1B 82298733 82299593 860 False 1367.000000 1367 95.354000 2620 3479 1 chr1B.!!$F2 859
15 TraesCS6B01G230500 chr3B 527144980 527146712 1732 True 2708.000000 2708 94.931000 3475 5201 1 chr3B.!!$R3 1726
16 TraesCS6B01G230500 chr3B 741700649 741701504 855 True 1395.000000 1395 95.958000 2624 3488 1 chr3B.!!$R4 864
17 TraesCS6B01G230500 chr3B 82601329 82602181 852 True 1380.000000 1380 95.814000 2623 3479 1 chr3B.!!$R1 856
18 TraesCS6B01G230500 chr3B 249987941 249988791 850 True 1378.000000 1378 95.804000 2623 3479 1 chr3B.!!$R2 856
19 TraesCS6B01G230500 chr6D 256724705 256731316 6611 True 1038.625000 2091 95.764500 1 7640 8 chr6D.!!$R1 7639
20 TraesCS6B01G230500 chr6A 366027768 366032353 4585 False 861.714286 1849 95.461143 596 7640 7 chr6A.!!$F1 7044

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
714 999 0.391661 TCGCAGAAGGCAGTGAATCC 60.392 55.000 0.0 0.0 45.17 3.01 F
1575 1860 0.321210 TCGATGCATTTGGTGACGGT 60.321 50.000 0.0 0.0 0.00 4.83 F
1717 2797 0.381089 GTCATCTGCTTGCTGCCATC 59.619 55.000 0.0 0.0 42.00 3.51 F
3589 4704 0.967887 CCACTTCTCCTCCTCGCTCA 60.968 60.000 0.0 0.0 0.00 4.26 F
3714 4829 1.154205 CCGAATGCCTCCGCTACTTG 61.154 60.000 0.0 0.0 35.36 3.16 F
3904 5019 1.219393 CCCCTCTCGTTTGCTCTCC 59.781 63.158 0.0 0.0 0.00 3.71 F
4574 5689 1.258445 GGAGCGGAAGGAGAGGTCAA 61.258 60.000 0.0 0.0 34.43 3.18 F
5377 6507 1.569548 TCATCTACTCCCTCCGTTCCT 59.430 52.381 0.0 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1717 2797 1.068264 TCAAGTGCACACTAGCTCGAG 60.068 52.381 21.04 8.45 41.58 4.04 R
2816 3916 4.865925 CCACACATTATTGCCAATTGAGTG 59.134 41.667 7.12 10.76 0.00 3.51 R
3714 4829 2.125512 ATCTCGTTGGCGCAGACC 60.126 61.111 10.83 0.00 38.14 3.85 R
4522 5637 2.356125 GCATAATCACCTCCACCACAGT 60.356 50.000 0.00 0.00 0.00 3.55 R
5406 6536 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02 R
5511 6641 4.836255 AGGCTATACTCCCTCCTTTACT 57.164 45.455 0.00 0.00 0.00 2.24 R
5515 6645 4.836255 AGTTAGGCTATACTCCCTCCTT 57.164 45.455 0.00 0.00 32.65 3.36 R
7136 9193 3.367292 CCATTTGTCTGTAATGGTGTGGC 60.367 47.826 6.47 0.00 44.51 5.01 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
151 156 7.861176 TTCCATTTAAAAATTGTAGCGTGAC 57.139 32.000 0.00 0.00 0.00 3.67
193 199 6.635239 ACGTGTTTTCAAAAATATCCGTGAAG 59.365 34.615 0.00 0.00 31.98 3.02
212 218 7.254252 CCGTGAAGTTTTCAAAAATGTGCATAA 60.254 33.333 0.00 0.00 42.15 1.90
361 368 6.704512 ATTTAAAAATGTCCAACGTGCATC 57.295 33.333 0.00 0.00 0.00 3.91
363 370 2.995466 AAATGTCCAACGTGCATCAG 57.005 45.000 0.00 0.00 0.00 2.90
394 401 7.992608 TGTTCCATGTGTGCTCTAATAATGTAT 59.007 33.333 0.00 0.00 0.00 2.29
395 402 7.967890 TCCATGTGTGCTCTAATAATGTATG 57.032 36.000 0.00 0.00 0.00 2.39
423 430 9.681692 TCTGTATTGAGAAAAATTTGACATGTG 57.318 29.630 1.15 0.00 0.00 3.21
451 458 7.607991 TGAAAACAAAGAAAATGGTAAAAGCCA 59.392 29.630 0.00 0.00 43.48 4.75
677 684 1.962306 GCAAGTGGTCGCCCGTTAA 60.962 57.895 0.00 0.00 0.00 2.01
678 685 1.864176 CAAGTGGTCGCCCGTTAAC 59.136 57.895 0.00 0.00 0.00 2.01
679 686 0.601841 CAAGTGGTCGCCCGTTAACT 60.602 55.000 3.71 0.00 0.00 2.24
680 687 0.968405 AAGTGGTCGCCCGTTAACTA 59.032 50.000 3.71 0.00 0.00 2.24
702 987 1.204941 GGCCTTAGAGTTCTCGCAGAA 59.795 52.381 0.00 0.00 34.09 3.02
703 988 2.535331 GCCTTAGAGTTCTCGCAGAAG 58.465 52.381 0.00 3.03 34.42 2.85
714 999 0.391661 TCGCAGAAGGCAGTGAATCC 60.392 55.000 0.00 0.00 45.17 3.01
754 1039 0.968393 GCCCAGGTCGAAGTCTCTCT 60.968 60.000 0.00 0.00 0.00 3.10
859 1144 4.641645 CCACCAAGCGCCTCCACA 62.642 66.667 2.29 0.00 0.00 4.17
903 1188 2.616842 TGCTCCTTGTTCGACCTTTTTC 59.383 45.455 0.00 0.00 0.00 2.29
1044 1329 1.556911 ACCATCGAGCTCAAGAATGGT 59.443 47.619 23.91 23.91 36.24 3.55
1575 1860 0.321210 TCGATGCATTTGGTGACGGT 60.321 50.000 0.00 0.00 0.00 4.83
1646 2725 0.761187 TCTGTGCAAAGCCTCTGTCT 59.239 50.000 0.00 0.00 0.00 3.41
1717 2797 0.381089 GTCATCTGCTTGCTGCCATC 59.619 55.000 0.00 0.00 42.00 3.51
1754 2834 3.071167 ACTTGAGCCTTCCTTTTAGTCGT 59.929 43.478 0.00 0.00 0.00 4.34
1828 2908 9.935241 ATCTCTTAATGTTGCATCTATTCGTAT 57.065 29.630 0.00 0.00 0.00 3.06
1990 3079 5.672503 AGAAGATGTTGATGACCAGATGAG 58.327 41.667 0.00 0.00 0.00 2.90
2061 3151 3.450096 ACCTAAAATGTACTCCCTCCGTC 59.550 47.826 0.00 0.00 0.00 4.79
2070 3160 2.262637 ACTCCCTCCGTCCACAAATAA 58.737 47.619 0.00 0.00 0.00 1.40
2125 3215 6.092670 ACATATTGACTGAAATGAGTGAACGG 59.907 38.462 0.00 0.00 0.00 4.44
2816 3916 1.120530 TCTCCCCGCCAATAAGACTC 58.879 55.000 0.00 0.00 0.00 3.36
2880 3980 8.414003 TGACTGAACTAATGGATAGTGTGATAC 58.586 37.037 0.00 0.00 44.22 2.24
2961 4062 2.093106 CGTTAGCTACAGTGACCTCCT 58.907 52.381 0.00 0.00 0.00 3.69
2981 4082 4.105217 TCCTCCTAATGATGCCATGTCATT 59.895 41.667 12.92 12.92 45.48 2.57
3017 4119 5.469760 GCCAAACTGCCACTTGATAAAAATT 59.530 36.000 0.00 0.00 0.00 1.82
3084 4186 9.493206 TTCGTCAAACAGTAAAACTAAAATGTC 57.507 29.630 0.00 0.00 0.00 3.06
3190 4292 9.933723 TTAATAAGAGGTCCAACAGTAGTTAAC 57.066 33.333 0.00 0.00 35.85 2.01
3589 4704 0.967887 CCACTTCTCCTCCTCGCTCA 60.968 60.000 0.00 0.00 0.00 4.26
3714 4829 1.154205 CCGAATGCCTCCGCTACTTG 61.154 60.000 0.00 0.00 35.36 3.16
3904 5019 1.219393 CCCCTCTCGTTTGCTCTCC 59.781 63.158 0.00 0.00 0.00 3.71
4104 5219 4.673298 TGCCACATCGCGTCCGTT 62.673 61.111 5.77 0.00 35.54 4.44
4194 5309 2.872001 CGCGTCACACTCTCGCTC 60.872 66.667 0.00 0.00 46.31 5.03
4199 5314 2.505777 CACACTCTCGCTCGCTGG 60.506 66.667 0.00 0.00 0.00 4.85
4331 5446 2.815945 CCGCATCTCTGCCCTCCAT 61.816 63.158 0.00 0.00 46.07 3.41
4474 5589 2.636893 CAATGGAGTATGAGGAGGAGGG 59.363 54.545 0.00 0.00 0.00 4.30
4522 5637 2.283604 TAGGGTGGCGTCAGCTGA 60.284 61.111 19.76 13.74 44.37 4.26
4574 5689 1.258445 GGAGCGGAAGGAGAGGTCAA 61.258 60.000 0.00 0.00 34.43 3.18
4863 5985 1.871676 GGGAGGAAAGTTTGTGACGTC 59.128 52.381 9.11 9.11 0.00 4.34
5323 6453 4.570772 TCGTTTGAGAGCATGGTTAATAGC 59.429 41.667 0.00 0.00 0.00 2.97
5365 6495 9.719355 CTCTGTATAGTAGTCATGTCATCTACT 57.281 37.037 15.09 15.09 44.07 2.57
5366 6496 9.713713 TCTGTATAGTAGTCATGTCATCTACTC 57.286 37.037 14.44 5.31 41.93 2.59
5367 6497 8.850007 TGTATAGTAGTCATGTCATCTACTCC 57.150 38.462 14.44 7.64 41.93 3.85
5368 6498 7.883833 TGTATAGTAGTCATGTCATCTACTCCC 59.116 40.741 14.44 7.40 41.93 4.30
5369 6499 5.396057 AGTAGTCATGTCATCTACTCCCT 57.604 43.478 7.93 1.82 39.77 4.20
5370 6500 5.381757 AGTAGTCATGTCATCTACTCCCTC 58.618 45.833 7.93 0.00 39.77 4.30
5371 6501 3.571590 AGTCATGTCATCTACTCCCTCC 58.428 50.000 0.00 0.00 0.00 4.30
5372 6502 2.294791 GTCATGTCATCTACTCCCTCCG 59.705 54.545 0.00 0.00 0.00 4.63
5376 6506 1.682323 GTCATCTACTCCCTCCGTTCC 59.318 57.143 0.00 0.00 0.00 3.62
5377 6507 1.569548 TCATCTACTCCCTCCGTTCCT 59.430 52.381 0.00 0.00 0.00 3.36
5379 6509 3.203710 TCATCTACTCCCTCCGTTCCTAA 59.796 47.826 0.00 0.00 0.00 2.69
5381 6511 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
5382 6512 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
5383 6513 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
5384 6514 6.379579 TCTACTCCCTCCGTTCCTAAATATT 58.620 40.000 0.00 0.00 0.00 1.28
5385 6515 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
5386 6516 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
5387 6517 5.043737 TCCCTCCGTTCCTAAATATTTGG 57.956 43.478 11.05 7.76 0.00 3.28
5388 6518 3.568430 CCCTCCGTTCCTAAATATTTGGC 59.432 47.826 11.05 0.00 0.00 4.52
5389 6519 4.461198 CCTCCGTTCCTAAATATTTGGCT 58.539 43.478 11.05 0.00 0.00 4.75
5390 6520 4.887655 CCTCCGTTCCTAAATATTTGGCTT 59.112 41.667 11.05 0.00 0.00 4.35
5393 6523 7.234661 TCCGTTCCTAAATATTTGGCTTTTT 57.765 32.000 11.05 0.00 0.00 1.94
5394 6524 8.350852 TCCGTTCCTAAATATTTGGCTTTTTA 57.649 30.769 11.05 0.00 0.00 1.52
5395 6525 8.973182 TCCGTTCCTAAATATTTGGCTTTTTAT 58.027 29.630 11.05 0.00 0.00 1.40
5397 6527 9.796120 CGTTCCTAAATATTTGGCTTTTTATCA 57.204 29.630 11.05 0.00 0.00 2.15
5410 6540 8.321650 TGGCTTTTTATCAATTTCAAATGGAC 57.678 30.769 0.00 0.00 0.00 4.02
5411 6541 8.156165 TGGCTTTTTATCAATTTCAAATGGACT 58.844 29.630 0.00 0.00 0.00 3.85
5412 6542 9.651913 GGCTTTTTATCAATTTCAAATGGACTA 57.348 29.630 0.00 0.00 0.00 2.59
5427 6557 3.900971 TGGACTACCACATACGGATGTA 58.099 45.455 14.23 0.00 44.82 2.29
5429 6559 5.633117 TGGACTACCACATACGGATGTATA 58.367 41.667 14.23 8.27 44.82 1.47
5431 6561 7.404481 TGGACTACCACATACGGATGTATATA 58.596 38.462 14.23 5.36 44.82 0.86
5432 6562 7.555195 TGGACTACCACATACGGATGTATATAG 59.445 40.741 14.23 16.35 44.82 1.31
5438 6568 9.642343 ACCACATACGGATGTATATAGACATAT 57.358 33.333 14.23 5.08 44.82 1.78
5466 6596 9.944376 TTAGAGTGTAGATTCACTTATTTTGCT 57.056 29.630 0.98 0.00 46.81 3.91
5467 6597 8.485976 AGAGTGTAGATTCACTTATTTTGCTC 57.514 34.615 0.98 0.00 46.81 4.26
5471 6601 9.151471 GTGTAGATTCACTTATTTTGCTCTGTA 57.849 33.333 0.00 0.00 35.68 2.74
5472 6602 9.890629 TGTAGATTCACTTATTTTGCTCTGTAT 57.109 29.630 0.00 0.00 0.00 2.29
5474 6604 8.798859 AGATTCACTTATTTTGCTCTGTATGT 57.201 30.769 0.00 0.00 0.00 2.29
5475 6605 9.890629 AGATTCACTTATTTTGCTCTGTATGTA 57.109 29.630 0.00 0.00 0.00 2.29
5477 6607 9.672673 ATTCACTTATTTTGCTCTGTATGTAGT 57.327 29.630 0.00 0.00 0.00 2.73
5478 6608 8.703604 TCACTTATTTTGCTCTGTATGTAGTC 57.296 34.615 0.00 0.00 0.00 2.59
5480 6610 8.383619 CACTTATTTTGCTCTGTATGTAGTCAC 58.616 37.037 0.00 0.00 0.00 3.67
5482 6612 9.155975 CTTATTTTGCTCTGTATGTAGTCACTT 57.844 33.333 0.00 0.00 0.00 3.16
5485 6615 9.672673 ATTTTGCTCTGTATGTAGTCACTTATT 57.327 29.630 0.00 0.00 0.00 1.40
5486 6616 8.479313 TTTGCTCTGTATGTAGTCACTTATTG 57.521 34.615 0.00 0.00 0.00 1.90
5487 6617 7.404671 TGCTCTGTATGTAGTCACTTATTGA 57.595 36.000 0.00 0.00 0.00 2.57
5488 6618 7.836842 TGCTCTGTATGTAGTCACTTATTGAA 58.163 34.615 0.00 0.00 35.39 2.69
5489 6619 8.311109 TGCTCTGTATGTAGTCACTTATTGAAA 58.689 33.333 0.00 0.00 35.39 2.69
5490 6620 9.319143 GCTCTGTATGTAGTCACTTATTGAAAT 57.681 33.333 0.00 0.00 35.39 2.17
5524 6654 9.907229 AAGACAAATATTTAGTAAAGGAGGGAG 57.093 33.333 0.00 0.00 0.00 4.30
5554 6684 6.206829 GCCTAACTAAAAGCCAACCCATATAG 59.793 42.308 0.00 0.00 0.00 1.31
5555 6685 6.715264 CCTAACTAAAAGCCAACCCATATAGG 59.285 42.308 0.00 0.00 37.03 2.57
5556 6686 5.987019 ACTAAAAGCCAACCCATATAGGA 57.013 39.130 0.00 0.00 41.22 2.94
5557 6687 5.941788 ACTAAAAGCCAACCCATATAGGAG 58.058 41.667 0.00 0.00 41.22 3.69
5558 6688 4.881157 AAAAGCCAACCCATATAGGAGT 57.119 40.909 0.00 0.00 41.22 3.85
5559 6689 5.987019 AAAAGCCAACCCATATAGGAGTA 57.013 39.130 0.00 0.00 41.22 2.59
5560 6690 4.976540 AAGCCAACCCATATAGGAGTAC 57.023 45.455 0.00 0.00 41.22 2.73
5673 6803 7.787725 ACTAATTTATAGCCCGTTTCTCTTG 57.212 36.000 0.00 0.00 0.00 3.02
5833 6996 9.362539 CTTTTTGAATAATAACATCTGCAGCTT 57.637 29.630 9.47 2.57 0.00 3.74
5845 7008 5.070180 ACATCTGCAGCTTAGATAGTCATGT 59.930 40.000 9.47 6.15 33.30 3.21
6158 7330 7.551974 GTGCTAGTCTTGCATTCATATCCATAT 59.448 37.037 12.14 0.00 42.69 1.78
6190 7362 6.402222 ACAATTAATCTGTCAGTCAGTCCTC 58.598 40.000 0.00 0.00 43.97 3.71
6344 7516 3.323115 TCTGAAGACTGTCAAGCTCACAT 59.677 43.478 10.88 0.00 0.00 3.21
6515 7687 7.724305 TTGGTATTAGTGTCTTTCTGTGTTC 57.276 36.000 0.00 0.00 0.00 3.18
6786 7961 7.611467 AGCTGTTCTTGATGTGGAATTATGTTA 59.389 33.333 0.00 0.00 0.00 2.41
6795 8791 8.249638 TGATGTGGAATTATGTTATGTTGTTGG 58.750 33.333 0.00 0.00 0.00 3.77
6813 8809 4.096231 TGTTGGTGTTTGACTGATGTTCTG 59.904 41.667 0.00 0.00 0.00 3.02
6913 8909 7.882755 TCCCATTTCTAGGAAATTTATCTGGT 58.117 34.615 3.15 0.00 0.00 4.00
6914 8910 9.009675 TCCCATTTCTAGGAAATTTATCTGGTA 57.990 33.333 3.15 0.00 0.00 3.25
6915 8911 9.813826 CCCATTTCTAGGAAATTTATCTGGTAT 57.186 33.333 3.15 0.00 0.00 2.73
6920 8916 9.847224 TTCTAGGAAATTTATCTGGTATGTTCC 57.153 33.333 0.00 0.00 34.71 3.62
6921 8917 8.148351 TCTAGGAAATTTATCTGGTATGTTCCG 58.852 37.037 0.00 0.00 38.63 4.30
6923 8919 6.766467 AGGAAATTTATCTGGTATGTTCCGAC 59.234 38.462 0.00 0.00 38.63 4.79
6924 8920 6.540914 GGAAATTTATCTGGTATGTTCCGACA 59.459 38.462 0.00 0.00 40.71 4.35
6925 8921 7.066525 GGAAATTTATCTGGTATGTTCCGACAA 59.933 37.037 0.00 0.00 39.66 3.18
6926 8922 7.931578 AATTTATCTGGTATGTTCCGACAAA 57.068 32.000 0.00 0.00 39.66 2.83
6927 8923 6.978343 TTTATCTGGTATGTTCCGACAAAG 57.022 37.500 0.00 0.00 39.66 2.77
6928 8924 4.553330 ATCTGGTATGTTCCGACAAAGT 57.447 40.909 0.00 0.00 39.66 2.66
6929 8925 5.670792 ATCTGGTATGTTCCGACAAAGTA 57.329 39.130 0.00 0.00 39.66 2.24
6931 8927 5.416083 TCTGGTATGTTCCGACAAAGTATG 58.584 41.667 0.00 0.00 39.66 2.39
6983 9040 6.403636 GGTTGTGACTATTGCTATTGGACAAG 60.404 42.308 8.62 0.00 0.00 3.16
7047 9104 1.667236 TACTGCGCAATGGAAGGATG 58.333 50.000 13.05 0.00 0.00 3.51
7077 9134 0.392863 TTGTGACATGGATCAGGGCG 60.393 55.000 0.00 0.00 0.00 6.13
7147 9204 6.404184 CGAACAAATGAATAGCCACACCATTA 60.404 38.462 0.00 0.00 0.00 1.90
7148 9205 6.207691 ACAAATGAATAGCCACACCATTAC 57.792 37.500 0.00 0.00 0.00 1.89
7149 9206 5.714333 ACAAATGAATAGCCACACCATTACA 59.286 36.000 0.00 0.00 0.00 2.41
7150 9207 6.127647 ACAAATGAATAGCCACACCATTACAG 60.128 38.462 0.00 0.00 0.00 2.74
7396 9460 1.453928 GGGGACAGCATAGCCAACC 60.454 63.158 0.00 0.00 0.00 3.77
7467 9531 2.929301 ACATTAGTTTGGGGGAGGAGA 58.071 47.619 0.00 0.00 0.00 3.71
7481 9545 2.661718 GAGGAGAAGTGCTAGCCTAGT 58.338 52.381 13.29 0.00 0.00 2.57
7490 9554 2.110578 TGCTAGCCTAGTCAATCAGCA 58.889 47.619 13.29 0.00 35.33 4.41
7640 9706 2.543777 ATGGGGTATCGAATGGAACG 57.456 50.000 0.00 0.00 0.00 3.95
7641 9707 1.487300 TGGGGTATCGAATGGAACGA 58.513 50.000 0.00 0.00 43.65 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
147 152 9.554724 ACACGTGAATATTTCATAAAATGTCAC 57.445 29.630 25.01 8.78 41.73 3.67
187 193 5.447478 TGCACATTTTTGAAAACTTCACG 57.553 34.783 0.00 0.00 39.87 4.35
342 349 3.317711 TCTGATGCACGTTGGACATTTTT 59.682 39.130 0.00 0.00 0.00 1.94
415 422 7.953158 TTTTCTTTGTTTTCAACACATGTCA 57.047 28.000 0.00 0.00 41.97 3.58
423 430 9.272901 GCTTTTACCATTTTCTTTGTTTTCAAC 57.727 29.630 0.00 0.00 39.73 3.18
514 521 7.227049 TCACTCTGGTTTTCTTTGTTTTCTT 57.773 32.000 0.00 0.00 0.00 2.52
516 523 7.883229 TTTCACTCTGGTTTTCTTTGTTTTC 57.117 32.000 0.00 0.00 0.00 2.29
555 562 9.460019 TTTTTCCTTGATTTCATGGTTTTCTTT 57.540 25.926 11.10 0.00 40.77 2.52
599 606 2.353323 GAGGCTCGACCGGTTTATTTT 58.647 47.619 9.42 0.00 46.52 1.82
602 609 1.033746 TCGAGGCTCGACCGGTTTAT 61.034 55.000 33.80 0.00 44.82 1.40
675 682 3.624861 CGAGAACTCTAAGGCCGTAGTTA 59.375 47.826 22.87 6.30 32.51 2.24
677 684 2.015587 CGAGAACTCTAAGGCCGTAGT 58.984 52.381 22.87 6.94 0.00 2.73
678 685 1.268640 GCGAGAACTCTAAGGCCGTAG 60.269 57.143 18.69 18.69 0.00 3.51
679 686 0.737219 GCGAGAACTCTAAGGCCGTA 59.263 55.000 0.00 0.00 0.00 4.02
680 687 1.248785 TGCGAGAACTCTAAGGCCGT 61.249 55.000 0.00 0.00 0.00 5.68
682 689 0.818296 TCTGCGAGAACTCTAAGGCC 59.182 55.000 0.00 0.00 0.00 5.19
683 690 2.535331 CTTCTGCGAGAACTCTAAGGC 58.465 52.381 0.00 0.00 29.89 4.35
702 987 3.243434 CGTAGTTATCGGATTCACTGCCT 60.243 47.826 11.05 0.00 0.00 4.75
703 988 3.050619 CGTAGTTATCGGATTCACTGCC 58.949 50.000 11.05 3.60 0.00 4.85
714 999 3.378339 CTTAACTGGGCCGTAGTTATCG 58.622 50.000 23.76 16.81 39.56 2.92
859 1144 2.674177 CGGTTACCTGACGAGCTTCATT 60.674 50.000 0.00 0.00 0.00 2.57
903 1188 4.816925 GGGAAATCGAAACTGAATCCTAGG 59.183 45.833 0.82 0.82 31.84 3.02
1585 1870 2.009774 GTCATAGCAAACAGGCGACAT 58.990 47.619 0.00 0.00 39.27 3.06
1646 2725 2.374839 TGTCCATGGTTCCAATGACAGA 59.625 45.455 12.58 3.03 31.60 3.41
1717 2797 1.068264 TCAAGTGCACACTAGCTCGAG 60.068 52.381 21.04 8.45 41.58 4.04
1754 2834 4.760530 AAATACAGACAGCTGCAGGATA 57.239 40.909 17.12 0.41 46.26 2.59
1990 3079 4.334481 CCATTTCAACATCCGGTAACCTAC 59.666 45.833 0.00 0.00 0.00 3.18
2070 3160 9.801873 CCGTATTGAAATATCCAAAACATCTTT 57.198 29.630 0.00 0.00 0.00 2.52
2094 3184 6.980978 ACTCATTTCAGTCAATATGTAGTCCG 59.019 38.462 0.00 0.00 0.00 4.79
2816 3916 4.865925 CCACACATTATTGCCAATTGAGTG 59.134 41.667 7.12 10.76 0.00 3.51
2911 4011 7.893302 TGAGGTGTTACATAATCTTCCCATTTT 59.107 33.333 0.00 0.00 0.00 1.82
3084 4186 9.745018 ATCAGTGGAATTTATAGAATATGGTGG 57.255 33.333 0.00 0.00 0.00 4.61
3135 4237 9.672673 TGACAAGATTTAATTTTTGGGTCAAAA 57.327 25.926 2.14 2.14 40.85 2.44
3714 4829 2.125512 ATCTCGTTGGCGCAGACC 60.126 61.111 10.83 0.00 38.14 3.85
3856 4971 0.107945 AAGGCAAGAGGAGATCACGC 60.108 55.000 0.00 0.00 0.00 5.34
3904 5019 0.935196 GCCACGGCGAAATACCTAAG 59.065 55.000 16.62 0.00 0.00 2.18
4474 5589 3.316573 CTCCACACCTTCTCCGCCC 62.317 68.421 0.00 0.00 0.00 6.13
4522 5637 2.356125 GCATAATCACCTCCACCACAGT 60.356 50.000 0.00 0.00 0.00 3.55
5155 6285 3.071892 TGGTGAATAGTCTCCACGGTTTT 59.928 43.478 9.77 0.00 41.46 2.43
5365 6495 4.687769 GCCAAATATTTAGGAACGGAGGGA 60.688 45.833 16.30 0.00 0.00 4.20
5366 6496 3.568430 GCCAAATATTTAGGAACGGAGGG 59.432 47.826 16.30 5.53 0.00 4.30
5367 6497 4.461198 AGCCAAATATTTAGGAACGGAGG 58.539 43.478 16.30 6.11 0.00 4.30
5368 6498 6.451064 AAAGCCAAATATTTAGGAACGGAG 57.549 37.500 16.30 0.00 0.00 4.63
5369 6499 6.844097 AAAAGCCAAATATTTAGGAACGGA 57.156 33.333 16.30 0.00 0.00 4.69
5370 6500 9.244799 GATAAAAAGCCAAATATTTAGGAACGG 57.755 33.333 16.30 7.84 0.00 4.44
5371 6501 9.796120 TGATAAAAAGCCAAATATTTAGGAACG 57.204 29.630 16.30 0.00 0.00 3.95
5383 6513 9.347240 TCCATTTGAAATTGATAAAAAGCCAAA 57.653 25.926 0.00 0.00 0.00 3.28
5384 6514 8.782144 GTCCATTTGAAATTGATAAAAAGCCAA 58.218 29.630 0.00 0.00 0.00 4.52
5385 6515 8.156165 AGTCCATTTGAAATTGATAAAAAGCCA 58.844 29.630 0.00 0.00 0.00 4.75
5386 6516 8.552083 AGTCCATTTGAAATTGATAAAAAGCC 57.448 30.769 0.00 0.00 0.00 4.35
5390 6520 9.921637 GTGGTAGTCCATTTGAAATTGATAAAA 57.078 29.630 0.00 0.00 46.20 1.52
5393 6523 8.821686 ATGTGGTAGTCCATTTGAAATTGATA 57.178 30.769 0.00 0.00 46.20 2.15
5394 6524 7.722949 ATGTGGTAGTCCATTTGAAATTGAT 57.277 32.000 0.00 0.00 46.20 2.57
5395 6525 7.148323 CGTATGTGGTAGTCCATTTGAAATTGA 60.148 37.037 0.00 0.00 46.20 2.57
5397 6527 6.094881 CCGTATGTGGTAGTCCATTTGAAATT 59.905 38.462 0.00 0.00 46.20 1.82
5400 6530 4.223255 TCCGTATGTGGTAGTCCATTTGAA 59.777 41.667 0.00 0.00 46.20 2.69
5401 6531 3.770388 TCCGTATGTGGTAGTCCATTTGA 59.230 43.478 0.00 0.00 46.20 2.69
5402 6532 4.131649 TCCGTATGTGGTAGTCCATTTG 57.868 45.455 0.00 0.00 46.20 2.32
5403 6533 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
5405 6535 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
5406 6536 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
5407 6537 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
5410 6540 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
5412 6542 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
5445 6575 8.034058 ACAGAGCAAAATAAGTGAATCTACAC 57.966 34.615 0.00 0.00 40.60 2.90
5446 6576 9.890629 ATACAGAGCAAAATAAGTGAATCTACA 57.109 29.630 0.00 0.00 0.00 2.74
5448 6578 9.890629 ACATACAGAGCAAAATAAGTGAATCTA 57.109 29.630 0.00 0.00 0.00 1.98
5449 6579 8.798859 ACATACAGAGCAAAATAAGTGAATCT 57.201 30.769 0.00 0.00 0.00 2.40
5451 6581 9.672673 ACTACATACAGAGCAAAATAAGTGAAT 57.327 29.630 0.00 0.00 0.00 2.57
5452 6582 9.151471 GACTACATACAGAGCAAAATAAGTGAA 57.849 33.333 0.00 0.00 0.00 3.18
5454 6584 8.383619 GTGACTACATACAGAGCAAAATAAGTG 58.616 37.037 0.00 0.00 0.00 3.16
5455 6585 8.314751 AGTGACTACATACAGAGCAAAATAAGT 58.685 33.333 0.00 0.00 0.00 2.24
5456 6586 8.709386 AGTGACTACATACAGAGCAAAATAAG 57.291 34.615 0.00 0.00 0.00 1.73
5459 6589 9.672673 AATAAGTGACTACATACAGAGCAAAAT 57.327 29.630 0.00 0.00 0.00 1.82
5460 6590 8.935844 CAATAAGTGACTACATACAGAGCAAAA 58.064 33.333 0.00 0.00 0.00 2.44
5461 6591 8.311109 TCAATAAGTGACTACATACAGAGCAAA 58.689 33.333 0.00 0.00 0.00 3.68
5462 6592 7.836842 TCAATAAGTGACTACATACAGAGCAA 58.163 34.615 0.00 0.00 0.00 3.91
5498 6628 9.907229 CTCCCTCCTTTACTAAATATTTGTCTT 57.093 33.333 11.05 0.00 0.00 3.01
5499 6629 9.059023 ACTCCCTCCTTTACTAAATATTTGTCT 57.941 33.333 11.05 0.00 0.00 3.41
5505 6635 9.269494 GGCTATACTCCCTCCTTTACTAAATAT 57.731 37.037 0.00 0.00 0.00 1.28
5506 6636 8.462676 AGGCTATACTCCCTCCTTTACTAAATA 58.537 37.037 0.00 0.00 0.00 1.40
5508 6638 6.690569 AGGCTATACTCCCTCCTTTACTAAA 58.309 40.000 0.00 0.00 0.00 1.85
5511 6641 4.836255 AGGCTATACTCCCTCCTTTACT 57.164 45.455 0.00 0.00 0.00 2.24
5512 6642 6.076653 AGTTAGGCTATACTCCCTCCTTTAC 58.923 44.000 0.00 0.00 32.65 2.01
5513 6643 6.290870 AGTTAGGCTATACTCCCTCCTTTA 57.709 41.667 0.00 0.00 32.65 1.85
5514 6644 5.159139 AGTTAGGCTATACTCCCTCCTTT 57.841 43.478 0.00 0.00 32.65 3.11
5515 6645 4.836255 AGTTAGGCTATACTCCCTCCTT 57.164 45.455 0.00 0.00 32.65 3.36
5516 6646 5.944809 TTAGTTAGGCTATACTCCCTCCT 57.055 43.478 11.07 0.00 32.65 3.69
5517 6647 6.518706 GCTTTTAGTTAGGCTATACTCCCTCC 60.519 46.154 11.07 0.00 32.65 4.30
5518 6648 6.457355 GCTTTTAGTTAGGCTATACTCCCTC 58.543 44.000 11.07 0.00 32.65 4.30
5519 6649 5.307456 GGCTTTTAGTTAGGCTATACTCCCT 59.693 44.000 11.07 0.00 35.48 4.20
5520 6650 5.071384 TGGCTTTTAGTTAGGCTATACTCCC 59.929 44.000 11.07 7.48 38.84 4.30
5521 6651 6.170846 TGGCTTTTAGTTAGGCTATACTCC 57.829 41.667 11.07 7.92 38.84 3.85
5522 6652 6.482641 GGTTGGCTTTTAGTTAGGCTATACTC 59.517 42.308 11.07 0.77 38.84 2.59
5523 6653 6.354938 GGTTGGCTTTTAGTTAGGCTATACT 58.645 40.000 12.02 12.02 38.84 2.12
5524 6654 5.530171 GGGTTGGCTTTTAGTTAGGCTATAC 59.470 44.000 0.00 0.00 38.84 1.47
5648 6778 7.827729 ACAAGAGAAACGGGCTATAAATTAGTT 59.172 33.333 0.00 0.00 0.00 2.24
5673 6803 5.860941 TTATGATGAGTTGGAGGAGAGAC 57.139 43.478 0.00 0.00 0.00 3.36
5888 7051 5.541953 ATGAAGTGAGATCCGATGAATGA 57.458 39.130 0.00 0.00 0.00 2.57
6344 7516 5.321927 GGTAACAGGATTCTTCCCTTTCAA 58.678 41.667 0.00 0.00 43.76 2.69
6515 7687 7.645340 GCCAGTGATAGTGCATAAACAAAATAG 59.355 37.037 0.00 0.00 0.00 1.73
6786 7961 4.402155 ACATCAGTCAAACACCAACAACAT 59.598 37.500 0.00 0.00 0.00 2.71
6795 8791 5.065218 ACACTTCAGAACATCAGTCAAACAC 59.935 40.000 0.00 0.00 0.00 3.32
6813 8809 5.435557 CGCAATATAAAGCTAGCACACTTC 58.564 41.667 18.83 0.00 0.00 3.01
6867 8863 7.572814 TGGGATTCATGACACAGTAATAATCA 58.427 34.615 0.00 0.00 0.00 2.57
6869 8865 9.425248 AAATGGGATTCATGACACAGTAATAAT 57.575 29.630 0.00 0.00 35.99 1.28
6870 8866 8.821686 AAATGGGATTCATGACACAGTAATAA 57.178 30.769 0.00 0.00 35.99 1.40
6871 8867 8.274322 AGAAATGGGATTCATGACACAGTAATA 58.726 33.333 0.00 0.00 35.99 0.98
6887 8883 8.514504 ACCAGATAAATTTCCTAGAAATGGGAT 58.485 33.333 3.46 0.00 0.00 3.85
6914 8910 9.477484 GATATTACTCATACTTTGTCGGAACAT 57.523 33.333 0.00 0.00 34.73 2.71
6915 8911 7.924412 GGATATTACTCATACTTTGTCGGAACA 59.076 37.037 0.00 0.00 0.00 3.18
6916 8912 7.114529 CGGATATTACTCATACTTTGTCGGAAC 59.885 40.741 0.00 0.00 0.00 3.62
6919 8915 6.581542 GTCGGATATTACTCATACTTTGTCGG 59.418 42.308 0.00 0.00 0.00 4.79
6920 8916 7.136772 TGTCGGATATTACTCATACTTTGTCG 58.863 38.462 0.00 0.00 0.00 4.35
6921 8917 8.867112 TTGTCGGATATTACTCATACTTTGTC 57.133 34.615 0.00 0.00 0.00 3.18
6923 8919 9.314321 ACTTTGTCGGATATTACTCATACTTTG 57.686 33.333 0.00 0.00 0.00 2.77
6924 8920 9.886132 AACTTTGTCGGATATTACTCATACTTT 57.114 29.630 0.00 0.00 0.00 2.66
6925 8921 9.314321 CAACTTTGTCGGATATTACTCATACTT 57.686 33.333 0.00 0.00 0.00 2.24
6926 8922 8.692710 TCAACTTTGTCGGATATTACTCATACT 58.307 33.333 0.00 0.00 0.00 2.12
6927 8923 8.867112 TCAACTTTGTCGGATATTACTCATAC 57.133 34.615 0.00 0.00 0.00 2.39
6928 8924 9.309516 GTTCAACTTTGTCGGATATTACTCATA 57.690 33.333 0.00 0.00 0.00 2.15
6929 8925 7.822334 TGTTCAACTTTGTCGGATATTACTCAT 59.178 33.333 0.00 0.00 0.00 2.90
6931 8927 7.591006 TGTTCAACTTTGTCGGATATTACTC 57.409 36.000 0.00 0.00 0.00 2.59
6983 9040 8.323140 GCTTGTTGTTGATGATGCATTTAATAC 58.677 33.333 0.00 0.00 0.00 1.89
7047 9104 3.953612 TCCATGTCACAATATTTGCCCTC 59.046 43.478 0.00 0.00 0.00 4.30
7136 9193 3.367292 CCATTTGTCTGTAATGGTGTGGC 60.367 47.826 6.47 0.00 44.51 5.01
7147 9204 7.907389 TCTATAGTTTCTGTCCATTTGTCTGT 58.093 34.615 0.00 0.00 0.00 3.41
7148 9205 8.824781 CATCTATAGTTTCTGTCCATTTGTCTG 58.175 37.037 0.00 0.00 0.00 3.51
7149 9206 8.543774 ACATCTATAGTTTCTGTCCATTTGTCT 58.456 33.333 0.00 0.00 0.00 3.41
7150 9207 8.723942 ACATCTATAGTTTCTGTCCATTTGTC 57.276 34.615 0.00 0.00 0.00 3.18
7186 9250 3.920446 TGTCTACACTGCGCAATCTTTA 58.080 40.909 13.05 0.00 0.00 1.85
7297 9361 5.186409 AGCAAGTTTACGACCAAGTCCTATA 59.814 40.000 0.00 0.00 0.00 1.31
7396 9460 3.707793 GCTGTAGTCCTACGGAATCAAG 58.292 50.000 15.78 0.60 43.37 3.02
7467 9531 3.431486 GCTGATTGACTAGGCTAGCACTT 60.431 47.826 21.26 9.99 0.00 3.16
7481 9545 5.164620 TCATTTCCTGTAGTGCTGATTGA 57.835 39.130 0.00 0.00 0.00 2.57
7490 9554 7.773690 ACAGTAGTTGTTTTCATTTCCTGTAGT 59.226 33.333 0.00 0.00 36.31 2.73
7525 9589 5.455056 TCTAAGAACGTCTCTTCTGCTTT 57.545 39.130 13.76 0.00 43.66 3.51


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

AutoCloner maintained by Alex Coulton.