Multiple sequence alignment - TraesCS7A01G264700

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 TraesCS7A01G264700 chr7A 100.000 3812 0 0 1 3812 264171286 264175097 0.000000e+00 7040.0
1 TraesCS7A01G264700 chr7A 93.483 1335 67 16 1701 3027 308451625 308452947 0.000000e+00 1965.0
2 TraesCS7A01G264700 chr7A 93.640 456 29 0 3026 3481 308452991 308453446 0.000000e+00 682.0
3 TraesCS7A01G264700 chr7A 95.982 224 6 1 1 221 183823863 183823640 1.010000e-95 361.0
4 TraesCS7A01G264700 chr7A 85.380 342 16 11 3476 3812 308454276 308454588 1.320000e-84 324.0
5 TraesCS7A01G264700 chr5A 97.763 3218 53 5 612 3812 343767123 343763908 0.000000e+00 5526.0
6 TraesCS7A01G264700 chr5A 94.891 274 14 0 219 492 343768225 343767952 2.720000e-116 429.0
7 TraesCS7A01G264700 chr5A 96.413 223 5 1 1 220 307725959 307726181 7.780000e-97 364.0
8 TraesCS7A01G264700 chr5A 97.531 81 0 2 531 609 343767952 343767872 1.850000e-28 137.0
9 TraesCS7A01G264700 chr6A 93.942 1337 59 16 1701 3027 388055801 388057125 0.000000e+00 2001.0
10 TraesCS7A01G264700 chr6A 93.013 458 30 2 3026 3481 388057169 388057626 0.000000e+00 667.0
11 TraesCS7A01G264700 chr6A 85.503 338 14 7 3476 3812 388058458 388058761 1.710000e-83 320.0
12 TraesCS7A01G264700 chr6A 78.977 176 30 6 223 397 585305654 585305485 3.110000e-21 113.0
13 TraesCS7A01G264700 chr1B 93.558 1335 67 15 1701 3027 192693659 192692336 0.000000e+00 1971.0
14 TraesCS7A01G264700 chr1B 87.353 340 11 8 3476 3812 192691020 192690710 1.010000e-95 361.0
15 TraesCS7A01G264700 chr3D 93.189 1336 68 17 1701 3027 256148884 256147563 0.000000e+00 1941.0
16 TraesCS7A01G264700 chr3D 93.860 456 28 0 3026 3481 256147519 256147064 0.000000e+00 688.0
17 TraesCS7A01G264700 chr3D 93.421 456 30 0 3026 3481 250338078 250338533 0.000000e+00 676.0
18 TraesCS7A01G264700 chr3D 95.964 223 6 1 1 220 172541399 172541177 3.620000e-95 359.0
19 TraesCS7A01G264700 chr3D 86.686 338 10 7 3476 3812 256146230 256145927 3.650000e-90 342.0
20 TraesCS7A01G264700 chr2B 92.884 1335 76 15 1701 3027 220358043 220359366 0.000000e+00 1921.0
21 TraesCS7A01G264700 chr2B 91.979 1334 88 14 1701 3027 421425416 421424095 0.000000e+00 1853.0
22 TraesCS7A01G264700 chr2B 90.037 803 53 12 733 1508 576566006 576566808 0.000000e+00 1014.0
23 TraesCS7A01G264700 chr2B 92.544 456 34 0 3026 3481 421424051 421423596 0.000000e+00 654.0
24 TraesCS7A01G264700 chr2B 86.686 338 15 8 3476 3812 220360697 220361005 7.840000e-92 348.0
25 TraesCS7A01G264700 chr2B 94.565 184 9 1 1507 1690 576566872 576567054 2.240000e-72 283.0
26 TraesCS7A01G264700 chr2B 81.443 291 52 2 223 512 326482903 326483192 1.770000e-58 237.0
27 TraesCS7A01G264700 chr2B 87.778 180 17 3 827 1003 667819516 667819339 4.990000e-49 206.0
28 TraesCS7A01G264700 chr2B 85.938 192 21 3 3476 3667 662903269 662903454 2.320000e-47 200.0
29 TraesCS7A01G264700 chr4B 92.814 1336 74 16 1701 3027 414457004 414455682 0.000000e+00 1916.0
30 TraesCS7A01G264700 chr4B 92.657 463 33 1 3026 3488 414455638 414455177 0.000000e+00 665.0
31 TraesCS7A01G264700 chr4B 86.095 338 15 8 3476 3812 414454435 414454129 6.100000e-88 335.0
32 TraesCS7A01G264700 chr4B 82.817 355 18 16 3476 3812 414453826 414453497 1.040000e-70 278.0
33 TraesCS7A01G264700 chr4B 85.165 182 26 1 824 1004 391564710 391564891 6.500000e-43 185.0
34 TraesCS7A01G264700 chr3B 91.582 1176 81 13 1857 3027 277655095 277656257 0.000000e+00 1607.0
35 TraesCS7A01G264700 chr3B 86.095 338 15 10 3476 3812 277656893 277657199 6.100000e-88 335.0
36 TraesCS7A01G264700 chr6B 93.582 779 47 3 733 1508 224207480 224208258 0.000000e+00 1158.0
37 TraesCS7A01G264700 chr6B 87.645 518 48 8 994 1508 431503863 431503359 4.240000e-164 588.0
38 TraesCS7A01G264700 chr6B 90.208 337 24 2 3476 3812 224214715 224215042 7.570000e-117 431.0
39 TraesCS7A01G264700 chr6B 88.462 338 15 7 3476 3812 393759715 393760029 1.660000e-103 387.0
40 TraesCS7A01G264700 chr6B 84.765 361 17 9 3476 3812 393760469 393760815 1.020000e-85 327.0
41 TraesCS7A01G264700 chr6B 93.069 202 14 0 218 419 224206867 224207068 2.880000e-76 296.0
42 TraesCS7A01G264700 chr6B 97.143 175 5 0 1516 1690 224208450 224208624 2.880000e-76 296.0
43 TraesCS7A01G264700 chr6B 91.080 213 15 4 510 720 224207287 224207497 6.230000e-73 285.0
44 TraesCS7A01G264700 chr6B 94.054 185 9 2 1508 1690 431503294 431503110 2.900000e-71 279.0
45 TraesCS7A01G264700 chr6B 89.385 179 19 0 217 395 431504817 431504639 3.830000e-55 226.0
46 TraesCS7A01G264700 chr5D 94.298 456 26 0 3026 3481 249157992 249157537 0.000000e+00 699.0
47 TraesCS7A01G264700 chr5D 95.982 224 6 1 1 221 411091987 411092210 1.010000e-95 361.0
48 TraesCS7A01G264700 chr5D 95.536 224 7 1 1 221 150976929 150977152 4.680000e-94 355.0
49 TraesCS7A01G264700 chr5B 92.560 457 33 1 3026 3481 139741289 139741745 0.000000e+00 654.0
50 TraesCS7A01G264700 chr5B 89.083 229 22 1 20 245 311853260 311853032 8.060000e-72 281.0
51 TraesCS7A01G264700 chr5B 91.573 178 15 0 3476 3653 250694586 250694763 2.940000e-61 246.0
52 TraesCS7A01G264700 chr5B 97.619 84 2 0 3729 3812 250695280 250695363 1.100000e-30 145.0
53 TraesCS7A01G264700 chr7B 87.234 517 50 7 994 1508 607315927 607316429 3.300000e-160 575.0
54 TraesCS7A01G264700 chr7B 86.680 518 47 9 994 1508 190257125 190257623 4.300000e-154 555.0
55 TraesCS7A01G264700 chr7B 94.595 185 8 1 1508 1690 190257687 190257871 6.230000e-73 285.0
56 TraesCS7A01G264700 chr7B 91.209 182 13 2 824 1004 607315710 607315889 1.060000e-60 244.0
57 TraesCS7A01G264700 chr7B 96.296 54 2 0 824 877 607315655 607315708 5.250000e-14 89.8
58 TraesCS7A01G264700 chr4A 95.964 223 5 2 1 220 594308143 594307922 3.620000e-95 359.0
59 TraesCS7A01G264700 chr4A 81.287 171 27 5 223 389 622192410 622192579 2.390000e-27 134.0
60 TraesCS7A01G264700 chr3A 95.964 223 6 1 1 220 196610736 196610958 3.620000e-95 359.0
61 TraesCS7A01G264700 chr3A 81.250 176 26 6 217 389 352453831 352454002 6.640000e-28 135.0
62 TraesCS7A01G264700 chr2D 95.964 223 6 1 1 220 516507350 516507572 3.620000e-95 359.0
63 TraesCS7A01G264700 chr7D 95.536 224 7 1 1 221 616823967 616823744 4.680000e-94 355.0
64 TraesCS7A01G264700 chr4D 88.827 179 18 2 825 1001 149002618 149002796 6.410000e-53 219.0
65 TraesCS7A01G264700 chr4D 77.365 296 60 7 223 514 149001903 149002195 6.550000e-38 169.0
66 TraesCS7A01G264700 chr4D 76.891 238 47 6 593 829 149002360 149002590 1.110000e-25 128.0
67 TraesCS7A01G264700 chr2A 78.409 176 31 6 223 397 642936687 642936856 1.450000e-19 108.0


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 TraesCS7A01G264700 chr7A 264171286 264175097 3811 False 7040.000000 7040 100.000000 1 3812 1 chr7A.!!$F1 3811
1 TraesCS7A01G264700 chr7A 308451625 308454588 2963 False 990.333333 1965 90.834333 1701 3812 3 chr7A.!!$F2 2111
2 TraesCS7A01G264700 chr5A 343763908 343768225 4317 True 2030.666667 5526 96.728333 219 3812 3 chr5A.!!$R1 3593
3 TraesCS7A01G264700 chr6A 388055801 388058761 2960 False 996.000000 2001 90.819333 1701 3812 3 chr6A.!!$F1 2111
4 TraesCS7A01G264700 chr1B 192690710 192693659 2949 True 1166.000000 1971 90.455500 1701 3812 2 chr1B.!!$R1 2111
5 TraesCS7A01G264700 chr3D 256145927 256148884 2957 True 990.333333 1941 91.245000 1701 3812 3 chr3D.!!$R2 2111
6 TraesCS7A01G264700 chr2B 421423596 421425416 1820 True 1253.500000 1853 92.261500 1701 3481 2 chr2B.!!$R2 1780
7 TraesCS7A01G264700 chr2B 220358043 220361005 2962 False 1134.500000 1921 89.785000 1701 3812 2 chr2B.!!$F3 2111
8 TraesCS7A01G264700 chr2B 576566006 576567054 1048 False 648.500000 1014 92.301000 733 1690 2 chr2B.!!$F4 957
9 TraesCS7A01G264700 chr4B 414453497 414457004 3507 True 798.500000 1916 88.595750 1701 3812 4 chr4B.!!$R1 2111
10 TraesCS7A01G264700 chr3B 277655095 277657199 2104 False 971.000000 1607 88.838500 1857 3812 2 chr3B.!!$F1 1955
11 TraesCS7A01G264700 chr6B 224206867 224208624 1757 False 508.750000 1158 93.718500 218 1690 4 chr6B.!!$F2 1472
12 TraesCS7A01G264700 chr6B 431503110 431504817 1707 True 364.333333 588 90.361333 217 1690 3 chr6B.!!$R1 1473
13 TraesCS7A01G264700 chr6B 393759715 393760815 1100 False 357.000000 387 86.613500 3476 3812 2 chr6B.!!$F3 336
14 TraesCS7A01G264700 chr7B 190257125 190257871 746 False 420.000000 555 90.637500 994 1690 2 chr7B.!!$F1 696
15 TraesCS7A01G264700 chr7B 607315655 607316429 774 False 302.933333 575 91.579667 824 1508 3 chr7B.!!$F2 684

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
441 492 0.028902 GTGTTCCGAACAGGTGCAAC 59.971 55.0 14.35 0.0 43.1 4.17 F
677 1602 0.471617 CTTCCCGCTCATCCCTGAAT 59.528 55.0 0.00 0.0 0.0 2.57 F
681 1606 0.533755 CCGCTCATCCCTGAATGGAC 60.534 60.0 0.00 0.0 37.2 4.02 F
778 1703 1.089920 GATTTGAGGCTGCGTCATGT 58.910 50.0 23.64 15.7 0.0 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2022 3268 0.543277 TCGATGGCATGCTCCTTCTT 59.457 50.00 18.92 0.0 0.0 2.52 R
2500 3748 5.012664 TGACCTAGAAAAACTCCAGCACATA 59.987 40.00 0.00 0.0 0.0 2.29 R
2704 3956 5.401531 TTCCTAATACGCAACACTCTCTT 57.598 39.13 0.00 0.0 0.0 2.85 R
2824 4078 2.878406 CCAATTGTCCATCCATCCGTAC 59.122 50.00 4.43 0.0 0.0 3.67 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
25 26 5.650283 TCCTTGAAATCCAAAATAGTGGGT 58.350 37.500 0.00 0.00 39.34 4.51
26 27 6.081356 TCCTTGAAATCCAAAATAGTGGGTT 58.919 36.000 0.00 0.00 44.21 4.11
27 28 6.210584 TCCTTGAAATCCAAAATAGTGGGTTC 59.789 38.462 0.00 0.00 41.34 3.62
28 29 6.014669 CCTTGAAATCCAAAATAGTGGGTTCA 60.015 38.462 6.99 6.99 41.34 3.18
29 30 7.310609 CCTTGAAATCCAAAATAGTGGGTTCAT 60.311 37.037 10.22 0.00 41.34 2.57
30 31 7.552050 TGAAATCCAAAATAGTGGGTTCATT 57.448 32.000 6.99 0.00 41.34 2.57
31 32 7.385267 TGAAATCCAAAATAGTGGGTTCATTG 58.615 34.615 6.99 0.00 41.34 2.82
32 33 7.234371 TGAAATCCAAAATAGTGGGTTCATTGA 59.766 33.333 6.99 0.00 41.34 2.57
33 34 7.738437 AATCCAAAATAGTGGGTTCATTGAT 57.262 32.000 0.00 0.00 37.44 2.57
34 35 8.837099 AATCCAAAATAGTGGGTTCATTGATA 57.163 30.769 0.00 0.00 37.44 2.15
35 36 9.438163 AATCCAAAATAGTGGGTTCATTGATAT 57.562 29.630 0.00 0.00 37.44 1.63
37 38 8.281531 TCCAAAATAGTGGGTTCATTGATATCT 58.718 33.333 3.98 0.00 39.34 1.98
38 39 9.573166 CCAAAATAGTGGGTTCATTGATATCTA 57.427 33.333 3.98 0.00 34.77 1.98
45 46 9.533831 AGTGGGTTCATTGATATCTAAAGTTTT 57.466 29.630 3.98 0.00 0.00 2.43
63 64 7.898014 AAGTTTTAACTTCTTCAATCCCACT 57.102 32.000 2.10 0.00 45.65 4.00
64 65 7.898014 AGTTTTAACTTCTTCAATCCCACTT 57.102 32.000 0.00 0.00 35.21 3.16
65 66 8.306313 AGTTTTAACTTCTTCAATCCCACTTT 57.694 30.769 0.00 0.00 35.21 2.66
66 67 8.758829 AGTTTTAACTTCTTCAATCCCACTTTT 58.241 29.630 0.00 0.00 35.21 2.27
69 70 6.650427 AACTTCTTCAATCCCACTTTTACC 57.350 37.500 0.00 0.00 0.00 2.85
70 71 5.701224 ACTTCTTCAATCCCACTTTTACCA 58.299 37.500 0.00 0.00 0.00 3.25
71 72 6.133356 ACTTCTTCAATCCCACTTTTACCAA 58.867 36.000 0.00 0.00 0.00 3.67
72 73 6.609616 ACTTCTTCAATCCCACTTTTACCAAA 59.390 34.615 0.00 0.00 0.00 3.28
73 74 7.290014 ACTTCTTCAATCCCACTTTTACCAAAT 59.710 33.333 0.00 0.00 0.00 2.32
74 75 7.610580 TCTTCAATCCCACTTTTACCAAATT 57.389 32.000 0.00 0.00 0.00 1.82
75 76 8.028652 TCTTCAATCCCACTTTTACCAAATTT 57.971 30.769 0.00 0.00 0.00 1.82
76 77 8.147704 TCTTCAATCCCACTTTTACCAAATTTC 58.852 33.333 0.00 0.00 0.00 2.17
77 78 6.451393 TCAATCCCACTTTTACCAAATTTCG 58.549 36.000 0.00 0.00 0.00 3.46
78 79 4.245845 TCCCACTTTTACCAAATTTCGC 57.754 40.909 0.00 0.00 0.00 4.70
79 80 3.637229 TCCCACTTTTACCAAATTTCGCA 59.363 39.130 0.00 0.00 0.00 5.10
80 81 4.282195 TCCCACTTTTACCAAATTTCGCAT 59.718 37.500 0.00 0.00 0.00 4.73
81 82 4.625311 CCCACTTTTACCAAATTTCGCATC 59.375 41.667 0.00 0.00 0.00 3.91
82 83 5.226396 CCACTTTTACCAAATTTCGCATCA 58.774 37.500 0.00 0.00 0.00 3.07
83 84 5.694006 CCACTTTTACCAAATTTCGCATCAA 59.306 36.000 0.00 0.00 0.00 2.57
84 85 6.128849 CCACTTTTACCAAATTTCGCATCAAG 60.129 38.462 0.00 0.00 0.00 3.02
85 86 6.640499 CACTTTTACCAAATTTCGCATCAAGA 59.360 34.615 0.00 0.00 0.00 3.02
86 87 7.329226 CACTTTTACCAAATTTCGCATCAAGAT 59.671 33.333 0.00 0.00 0.00 2.40
87 88 7.542130 ACTTTTACCAAATTTCGCATCAAGATC 59.458 33.333 0.00 0.00 0.00 2.75
88 89 6.757897 TTACCAAATTTCGCATCAAGATCT 57.242 33.333 0.00 0.00 0.00 2.75
89 90 7.857734 TTACCAAATTTCGCATCAAGATCTA 57.142 32.000 0.00 0.00 0.00 1.98
90 91 6.757897 ACCAAATTTCGCATCAAGATCTAA 57.242 33.333 0.00 0.00 0.00 2.10
91 92 7.156876 ACCAAATTTCGCATCAAGATCTAAA 57.843 32.000 0.00 0.00 0.00 1.85
92 93 7.601856 ACCAAATTTCGCATCAAGATCTAAAA 58.398 30.769 0.00 0.00 0.00 1.52
93 94 8.087750 ACCAAATTTCGCATCAAGATCTAAAAA 58.912 29.630 0.00 0.00 0.00 1.94
94 95 8.375465 CCAAATTTCGCATCAAGATCTAAAAAC 58.625 33.333 0.00 0.00 0.00 2.43
95 96 9.132521 CAAATTTCGCATCAAGATCTAAAAACT 57.867 29.630 0.00 0.00 0.00 2.66
96 97 8.902040 AATTTCGCATCAAGATCTAAAAACTC 57.098 30.769 0.00 0.00 0.00 3.01
97 98 6.422776 TTCGCATCAAGATCTAAAAACTCC 57.577 37.500 0.00 0.00 0.00 3.85
98 99 5.487433 TCGCATCAAGATCTAAAAACTCCA 58.513 37.500 0.00 0.00 0.00 3.86
99 100 5.937540 TCGCATCAAGATCTAAAAACTCCAA 59.062 36.000 0.00 0.00 0.00 3.53
100 101 6.429692 TCGCATCAAGATCTAAAAACTCCAAA 59.570 34.615 0.00 0.00 0.00 3.28
101 102 7.121168 TCGCATCAAGATCTAAAAACTCCAAAT 59.879 33.333 0.00 0.00 0.00 2.32
102 103 7.756722 CGCATCAAGATCTAAAAACTCCAAATT 59.243 33.333 0.00 0.00 0.00 1.82
103 104 9.428097 GCATCAAGATCTAAAAACTCCAAATTT 57.572 29.630 0.00 0.00 0.00 1.82
120 121 4.783764 AATTTTTGGAACGCCTTCTAGG 57.216 40.909 0.00 0.00 38.80 3.02
121 122 2.943036 TTTTGGAACGCCTTCTAGGT 57.057 45.000 0.00 0.00 37.80 3.08
122 123 4.354893 TTTTTGGAACGCCTTCTAGGTA 57.645 40.909 0.00 0.00 37.80 3.08
123 124 4.354893 TTTTGGAACGCCTTCTAGGTAA 57.645 40.909 0.00 0.00 37.80 2.85
124 125 4.354893 TTTGGAACGCCTTCTAGGTAAA 57.645 40.909 0.00 0.00 37.80 2.01
125 126 3.604875 TGGAACGCCTTCTAGGTAAAG 57.395 47.619 0.00 0.00 37.80 1.85
126 127 2.235402 TGGAACGCCTTCTAGGTAAAGG 59.765 50.000 4.64 4.64 45.12 3.11
127 128 2.235650 GGAACGCCTTCTAGGTAAAGGT 59.764 50.000 9.73 0.00 44.34 3.50
129 130 2.311124 CGCCTTCTAGGTAAAGGTGG 57.689 55.000 12.39 2.40 46.18 4.61
130 131 1.742750 CGCCTTCTAGGTAAAGGTGGC 60.743 57.143 12.39 0.00 46.18 5.01
131 132 1.560146 GCCTTCTAGGTAAAGGTGGCT 59.440 52.381 9.73 0.00 44.34 4.75
132 133 2.420269 GCCTTCTAGGTAAAGGTGGCTC 60.420 54.545 9.73 0.00 44.34 4.70
133 134 2.838202 CCTTCTAGGTAAAGGTGGCTCA 59.162 50.000 1.32 0.00 38.79 4.26
134 135 3.456277 CCTTCTAGGTAAAGGTGGCTCAT 59.544 47.826 1.32 0.00 38.79 2.90
135 136 4.443598 CCTTCTAGGTAAAGGTGGCTCATC 60.444 50.000 1.32 0.00 38.79 2.92
136 137 3.719871 TCTAGGTAAAGGTGGCTCATCA 58.280 45.455 0.00 0.00 0.00 3.07
137 138 3.706594 TCTAGGTAAAGGTGGCTCATCAG 59.293 47.826 0.00 0.00 0.00 2.90
138 139 2.269940 AGGTAAAGGTGGCTCATCAGT 58.730 47.619 0.00 0.00 0.00 3.41
139 140 2.237392 AGGTAAAGGTGGCTCATCAGTC 59.763 50.000 0.00 0.00 0.00 3.51
140 141 2.633488 GTAAAGGTGGCTCATCAGTCC 58.367 52.381 0.00 0.00 0.00 3.85
141 142 0.329596 AAAGGTGGCTCATCAGTCCC 59.670 55.000 0.00 0.00 0.00 4.46
142 143 1.566298 AAGGTGGCTCATCAGTCCCC 61.566 60.000 0.00 0.00 0.00 4.81
143 144 1.997874 GGTGGCTCATCAGTCCCCT 60.998 63.158 0.00 0.00 0.00 4.79
144 145 1.524482 GTGGCTCATCAGTCCCCTC 59.476 63.158 0.00 0.00 0.00 4.30
145 146 1.080907 TGGCTCATCAGTCCCCTCA 59.919 57.895 0.00 0.00 0.00 3.86
146 147 0.326904 TGGCTCATCAGTCCCCTCAT 60.327 55.000 0.00 0.00 0.00 2.90
147 148 0.842635 GGCTCATCAGTCCCCTCATT 59.157 55.000 0.00 0.00 0.00 2.57
148 149 2.050144 GGCTCATCAGTCCCCTCATTA 58.950 52.381 0.00 0.00 0.00 1.90
149 150 2.641815 GGCTCATCAGTCCCCTCATTAT 59.358 50.000 0.00 0.00 0.00 1.28
150 151 3.307339 GGCTCATCAGTCCCCTCATTATC 60.307 52.174 0.00 0.00 0.00 1.75
151 152 3.326006 GCTCATCAGTCCCCTCATTATCA 59.674 47.826 0.00 0.00 0.00 2.15
152 153 4.202398 GCTCATCAGTCCCCTCATTATCAA 60.202 45.833 0.00 0.00 0.00 2.57
153 154 5.549347 CTCATCAGTCCCCTCATTATCAAG 58.451 45.833 0.00 0.00 0.00 3.02
154 155 5.218959 TCATCAGTCCCCTCATTATCAAGA 58.781 41.667 0.00 0.00 0.00 3.02
155 156 5.848369 TCATCAGTCCCCTCATTATCAAGAT 59.152 40.000 0.00 0.00 0.00 2.40
156 157 6.331042 TCATCAGTCCCCTCATTATCAAGATT 59.669 38.462 0.00 0.00 0.00 2.40
157 158 6.179906 TCAGTCCCCTCATTATCAAGATTC 57.820 41.667 0.00 0.00 0.00 2.52
158 159 5.667172 TCAGTCCCCTCATTATCAAGATTCA 59.333 40.000 0.00 0.00 0.00 2.57
159 160 6.331042 TCAGTCCCCTCATTATCAAGATTCAT 59.669 38.462 0.00 0.00 0.00 2.57
160 161 7.513781 TCAGTCCCCTCATTATCAAGATTCATA 59.486 37.037 0.00 0.00 0.00 2.15
161 162 8.327271 CAGTCCCCTCATTATCAAGATTCATAT 58.673 37.037 0.00 0.00 0.00 1.78
162 163 8.898728 AGTCCCCTCATTATCAAGATTCATATT 58.101 33.333 0.00 0.00 0.00 1.28
163 164 8.954350 GTCCCCTCATTATCAAGATTCATATTG 58.046 37.037 0.00 0.00 0.00 1.90
164 165 7.613022 TCCCCTCATTATCAAGATTCATATTGC 59.387 37.037 0.00 0.00 0.00 3.56
165 166 7.147949 CCCCTCATTATCAAGATTCATATTGCC 60.148 40.741 0.00 0.00 0.00 4.52
166 167 7.395206 CCCTCATTATCAAGATTCATATTGCCA 59.605 37.037 0.00 0.00 0.00 4.92
167 168 8.799367 CCTCATTATCAAGATTCATATTGCCAA 58.201 33.333 0.00 0.00 0.00 4.52
169 170 9.970395 TCATTATCAAGATTCATATTGCCAAAC 57.030 29.630 0.00 0.00 0.00 2.93
170 171 9.752961 CATTATCAAGATTCATATTGCCAAACA 57.247 29.630 0.00 0.00 0.00 2.83
173 174 8.712285 ATCAAGATTCATATTGCCAAACAAAG 57.288 30.769 0.00 0.00 42.86 2.77
174 175 7.894708 TCAAGATTCATATTGCCAAACAAAGA 58.105 30.769 0.00 0.00 42.86 2.52
175 176 8.533657 TCAAGATTCATATTGCCAAACAAAGAT 58.466 29.630 0.00 0.00 42.86 2.40
176 177 9.158233 CAAGATTCATATTGCCAAACAAAGATT 57.842 29.630 0.00 0.00 42.86 2.40
177 178 9.729281 AAGATTCATATTGCCAAACAAAGATTT 57.271 25.926 0.00 0.00 42.86 2.17
186 187 8.415950 TTGCCAAACAAAGATTTAATAGGAGA 57.584 30.769 0.00 0.00 34.56 3.71
187 188 7.826690 TGCCAAACAAAGATTTAATAGGAGAC 58.173 34.615 0.00 0.00 0.00 3.36
188 189 7.450014 TGCCAAACAAAGATTTAATAGGAGACA 59.550 33.333 0.00 0.00 0.00 3.41
189 190 7.755373 GCCAAACAAAGATTTAATAGGAGACAC 59.245 37.037 0.00 0.00 0.00 3.67
190 191 8.792633 CCAAACAAAGATTTAATAGGAGACACA 58.207 33.333 0.00 0.00 0.00 3.72
193 194 9.739276 AACAAAGATTTAATAGGAGACACATCA 57.261 29.630 0.00 0.00 0.00 3.07
194 195 9.739276 ACAAAGATTTAATAGGAGACACATCAA 57.261 29.630 0.00 0.00 0.00 2.57
207 208 9.606631 AGGAGACACATCAATAACTTTTAGATC 57.393 33.333 0.00 0.00 0.00 2.75
208 209 9.606631 GGAGACACATCAATAACTTTTAGATCT 57.393 33.333 0.00 0.00 0.00 2.75
377 378 2.289547 GCTTTGTTCTCACGTTTGGCTA 59.710 45.455 0.00 0.00 0.00 3.93
409 432 4.883585 CCCATTTGCTTCTATAGTTCTGCA 59.116 41.667 0.00 4.01 0.00 4.41
433 484 0.253610 ACTTGTGGGTGTTCCGAACA 59.746 50.000 9.99 9.99 39.52 3.18
441 492 0.028902 GTGTTCCGAACAGGTGCAAC 59.971 55.000 14.35 0.00 43.10 4.17
447 502 1.238439 CGAACAGGTGCAACTCCAAT 58.762 50.000 0.00 0.00 36.74 3.16
448 503 1.608590 CGAACAGGTGCAACTCCAATT 59.391 47.619 0.00 0.00 36.74 2.32
471 526 3.947841 GTTGCAAGCGCGTGGTCA 61.948 61.111 24.46 12.16 42.97 4.02
493 548 3.977134 ATGTGAGCAGTCATCTGTCTT 57.023 42.857 0.00 0.00 43.05 3.01
677 1602 0.471617 CTTCCCGCTCATCCCTGAAT 59.528 55.000 0.00 0.00 0.00 2.57
681 1606 0.533755 CCGCTCATCCCTGAATGGAC 60.534 60.000 0.00 0.00 37.20 4.02
723 1648 4.814294 GAAGGGCGACGGCGTCAT 62.814 66.667 35.62 7.37 45.70 3.06
778 1703 1.089920 GATTTGAGGCTGCGTCATGT 58.910 50.000 23.64 15.70 0.00 3.21
917 1874 1.137872 AGATGTGAATCGAGGGAGTGC 59.862 52.381 0.00 0.00 0.00 4.40
1172 2200 3.126858 TGTTGATCTTATTTGGCGCTGAC 59.873 43.478 7.64 0.00 0.00 3.51
1261 2289 1.210478 GGAGCAGAGGAAAGTATGCCA 59.790 52.381 0.00 0.00 39.51 4.92
1267 2295 4.133078 CAGAGGAAAGTATGCCATCTTCC 58.867 47.826 5.42 5.42 0.00 3.46
1278 2306 1.977129 GCCATCTTCCTCTAGGCAGAT 59.023 52.381 5.45 5.45 46.67 2.90
1282 2311 3.893753 TCTTCCTCTAGGCAGATAGCT 57.106 47.619 0.00 0.00 44.79 3.32
1810 3053 2.293399 GTCCAGTTGTTTTCCGCAGAAT 59.707 45.455 0.00 0.00 0.00 2.40
1978 3223 5.835113 ATATAAATTGTGACCTTGCGCTT 57.165 34.783 9.73 0.00 0.00 4.68
2022 3268 4.141711 GGTGAGAGGTGGATAACAATAGCA 60.142 45.833 0.00 0.00 0.00 3.49
2500 3748 7.610580 TCCCCTTTATTTTGTCACATCTTTT 57.389 32.000 0.00 0.00 0.00 2.27
2824 4078 3.502920 ACGTTCTGATGAGAAAGTAGCG 58.497 45.455 11.41 6.09 45.60 4.26
2835 4089 2.957006 AGAAAGTAGCGTACGGATGGAT 59.043 45.455 18.39 0.00 0.00 3.41
2836 4090 2.795175 AAGTAGCGTACGGATGGATG 57.205 50.000 18.39 0.00 0.00 3.51
2837 4091 0.959553 AGTAGCGTACGGATGGATGG 59.040 55.000 18.39 0.00 0.00 3.51
2838 4092 0.956633 GTAGCGTACGGATGGATGGA 59.043 55.000 18.39 0.00 0.00 3.41
2839 4093 0.956633 TAGCGTACGGATGGATGGAC 59.043 55.000 18.39 0.00 0.00 4.02
2840 4094 1.040893 AGCGTACGGATGGATGGACA 61.041 55.000 18.39 0.00 0.00 4.02
2841 4095 0.179094 GCGTACGGATGGATGGACAA 60.179 55.000 18.39 0.00 0.00 3.18
2842 4096 1.540363 GCGTACGGATGGATGGACAAT 60.540 52.381 18.39 0.00 0.00 2.71
2915 4177 7.040132 TGCAGGTTCAACATGTTTCATTATGTA 60.040 33.333 8.77 1.12 36.56 2.29
2975 4237 0.690192 TTCATTGAGGCGAGGGTGAA 59.310 50.000 0.00 0.00 0.00 3.18
3023 4285 1.064758 TCCGGATGCCTTGCTATGTTT 60.065 47.619 0.00 0.00 0.00 2.83
3100 4409 5.067805 GGTGAGCTTATCCCATTTACTTTGG 59.932 44.000 0.00 0.00 0.00 3.28
3134 4443 4.401925 CCAAGATTCATATCCCCTTCACC 58.598 47.826 0.00 0.00 0.00 4.02
3263 4572 0.625849 TGAGGAAATTCCCCTGCTCC 59.374 55.000 8.66 0.00 37.19 4.70
3276 4585 3.445805 CCCCTGCTCCGCTTAATTAAAAA 59.554 43.478 0.00 0.00 0.00 1.94
3539 6406 8.630054 TTACATTCTAAAAACTGTAGGCACAT 57.370 30.769 0.00 0.00 33.14 3.21
3668 6578 2.509870 GTACTACTGCCACGACGTAAC 58.490 52.381 0.00 0.00 0.00 2.50
3795 6734 6.764379 TCAGTACTGACATGGTCATTTTACA 58.236 36.000 21.74 0.00 41.94 2.41
3796 6735 6.873605 TCAGTACTGACATGGTCATTTTACAG 59.126 38.462 21.74 0.00 41.94 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.730507 ACCCACTATTTTGGATTTCAAGGAAT 59.269 34.615 0.00 0.00 39.24 3.01
1 2 6.081356 ACCCACTATTTTGGATTTCAAGGAA 58.919 36.000 0.00 0.00 39.24 3.36
2 3 5.650283 ACCCACTATTTTGGATTTCAAGGA 58.350 37.500 0.00 0.00 39.24 3.36
4 5 6.991938 TGAACCCACTATTTTGGATTTCAAG 58.008 36.000 4.54 0.00 39.24 3.02
5 6 6.985653 TGAACCCACTATTTTGGATTTCAA 57.014 33.333 4.54 0.00 39.24 2.69
6 7 7.234371 TCAATGAACCCACTATTTTGGATTTCA 59.766 33.333 7.98 7.98 40.21 2.69
7 8 7.610865 TCAATGAACCCACTATTTTGGATTTC 58.389 34.615 0.00 0.00 39.24 2.17
8 9 7.552050 TCAATGAACCCACTATTTTGGATTT 57.448 32.000 0.00 0.00 39.24 2.17
9 10 7.738437 ATCAATGAACCCACTATTTTGGATT 57.262 32.000 0.00 0.00 39.24 3.01
10 11 9.082313 GATATCAATGAACCCACTATTTTGGAT 57.918 33.333 0.00 0.00 39.24 3.41
11 12 8.281531 AGATATCAATGAACCCACTATTTTGGA 58.718 33.333 5.32 0.00 39.24 3.53
19 20 9.533831 AAAACTTTAGATATCAATGAACCCACT 57.466 29.630 5.32 0.00 0.00 4.00
44 45 7.780745 TGGTAAAAGTGGGATTGAAGAAGTTAA 59.219 33.333 0.00 0.00 0.00 2.01
45 46 7.291566 TGGTAAAAGTGGGATTGAAGAAGTTA 58.708 34.615 0.00 0.00 0.00 2.24
47 48 5.701224 TGGTAAAAGTGGGATTGAAGAAGT 58.299 37.500 0.00 0.00 0.00 3.01
48 49 6.648879 TTGGTAAAAGTGGGATTGAAGAAG 57.351 37.500 0.00 0.00 0.00 2.85
49 50 7.610580 ATTTGGTAAAAGTGGGATTGAAGAA 57.389 32.000 0.00 0.00 0.00 2.52
50 51 7.610580 AATTTGGTAAAAGTGGGATTGAAGA 57.389 32.000 0.00 0.00 0.00 2.87
51 52 7.116233 CGAAATTTGGTAAAAGTGGGATTGAAG 59.884 37.037 0.00 0.00 0.00 3.02
52 53 6.926272 CGAAATTTGGTAAAAGTGGGATTGAA 59.074 34.615 0.00 0.00 0.00 2.69
53 54 6.451393 CGAAATTTGGTAAAAGTGGGATTGA 58.549 36.000 0.00 0.00 0.00 2.57
54 55 5.120053 GCGAAATTTGGTAAAAGTGGGATTG 59.880 40.000 0.00 0.00 0.00 2.67
55 56 5.221541 TGCGAAATTTGGTAAAAGTGGGATT 60.222 36.000 0.00 0.00 0.00 3.01
56 57 4.282195 TGCGAAATTTGGTAAAAGTGGGAT 59.718 37.500 0.00 0.00 0.00 3.85
57 58 3.637229 TGCGAAATTTGGTAAAAGTGGGA 59.363 39.130 0.00 0.00 0.00 4.37
58 59 3.983741 TGCGAAATTTGGTAAAAGTGGG 58.016 40.909 0.00 0.00 0.00 4.61
59 60 5.226396 TGATGCGAAATTTGGTAAAAGTGG 58.774 37.500 0.00 0.00 0.00 4.00
60 61 6.640499 TCTTGATGCGAAATTTGGTAAAAGTG 59.360 34.615 0.00 0.00 0.00 3.16
61 62 6.744112 TCTTGATGCGAAATTTGGTAAAAGT 58.256 32.000 0.00 0.00 0.00 2.66
62 63 7.756722 AGATCTTGATGCGAAATTTGGTAAAAG 59.243 33.333 0.00 3.42 0.00 2.27
63 64 7.601856 AGATCTTGATGCGAAATTTGGTAAAA 58.398 30.769 0.00 0.00 0.00 1.52
64 65 7.156876 AGATCTTGATGCGAAATTTGGTAAA 57.843 32.000 0.00 0.00 0.00 2.01
65 66 6.757897 AGATCTTGATGCGAAATTTGGTAA 57.242 33.333 0.00 0.00 0.00 2.85
66 67 7.857734 TTAGATCTTGATGCGAAATTTGGTA 57.142 32.000 0.00 0.00 0.00 3.25
67 68 6.757897 TTAGATCTTGATGCGAAATTTGGT 57.242 33.333 0.00 0.00 0.00 3.67
68 69 8.375465 GTTTTTAGATCTTGATGCGAAATTTGG 58.625 33.333 0.00 0.00 0.00 3.28
69 70 9.132521 AGTTTTTAGATCTTGATGCGAAATTTG 57.867 29.630 0.00 0.00 0.00 2.32
70 71 9.346725 GAGTTTTTAGATCTTGATGCGAAATTT 57.653 29.630 0.00 0.00 0.00 1.82
71 72 7.970614 GGAGTTTTTAGATCTTGATGCGAAATT 59.029 33.333 0.00 0.00 0.00 1.82
72 73 7.121168 TGGAGTTTTTAGATCTTGATGCGAAAT 59.879 33.333 0.00 0.00 0.00 2.17
73 74 6.429692 TGGAGTTTTTAGATCTTGATGCGAAA 59.570 34.615 0.00 0.00 0.00 3.46
74 75 5.937540 TGGAGTTTTTAGATCTTGATGCGAA 59.062 36.000 0.00 0.00 0.00 4.70
75 76 5.487433 TGGAGTTTTTAGATCTTGATGCGA 58.513 37.500 0.00 0.00 0.00 5.10
76 77 5.801350 TGGAGTTTTTAGATCTTGATGCG 57.199 39.130 0.00 0.00 0.00 4.73
77 78 8.992835 AATTTGGAGTTTTTAGATCTTGATGC 57.007 30.769 0.00 0.00 0.00 3.91
97 98 4.923281 CCTAGAAGGCGTTCCAAAAATTTG 59.077 41.667 15.23 0.00 37.90 2.32
98 99 4.587262 ACCTAGAAGGCGTTCCAAAAATTT 59.413 37.500 15.23 0.00 39.63 1.82
99 100 4.149598 ACCTAGAAGGCGTTCCAAAAATT 58.850 39.130 15.23 0.00 39.63 1.82
100 101 3.763057 ACCTAGAAGGCGTTCCAAAAAT 58.237 40.909 15.23 0.00 39.63 1.82
101 102 3.217681 ACCTAGAAGGCGTTCCAAAAA 57.782 42.857 15.23 0.00 39.63 1.94
102 103 2.943036 ACCTAGAAGGCGTTCCAAAA 57.057 45.000 15.23 0.00 39.63 2.44
103 104 4.320870 CTTTACCTAGAAGGCGTTCCAAA 58.679 43.478 15.23 7.60 39.63 3.28
104 105 3.307199 CCTTTACCTAGAAGGCGTTCCAA 60.307 47.826 15.23 3.82 39.63 3.53
105 106 2.235402 CCTTTACCTAGAAGGCGTTCCA 59.765 50.000 15.23 1.08 39.63 3.53
106 107 2.235650 ACCTTTACCTAGAAGGCGTTCC 59.764 50.000 15.23 0.00 46.10 3.62
107 108 3.259902 CACCTTTACCTAGAAGGCGTTC 58.740 50.000 11.17 11.17 46.10 3.95
108 109 2.027469 CCACCTTTACCTAGAAGGCGTT 60.027 50.000 8.30 0.00 46.10 4.84
109 110 1.553704 CCACCTTTACCTAGAAGGCGT 59.446 52.381 8.30 0.00 46.10 5.68
110 111 1.742750 GCCACCTTTACCTAGAAGGCG 60.743 57.143 8.30 0.24 46.10 5.52
111 112 1.560146 AGCCACCTTTACCTAGAAGGC 59.440 52.381 8.30 0.00 46.10 4.35
113 114 4.162320 TGATGAGCCACCTTTACCTAGAAG 59.838 45.833 0.00 0.00 0.00 2.85
114 115 4.101114 TGATGAGCCACCTTTACCTAGAA 58.899 43.478 0.00 0.00 0.00 2.10
115 116 3.706594 CTGATGAGCCACCTTTACCTAGA 59.293 47.826 0.00 0.00 0.00 2.43
116 117 3.452627 ACTGATGAGCCACCTTTACCTAG 59.547 47.826 0.00 0.00 0.00 3.02
117 118 3.450904 ACTGATGAGCCACCTTTACCTA 58.549 45.455 0.00 0.00 0.00 3.08
118 119 2.237392 GACTGATGAGCCACCTTTACCT 59.763 50.000 0.00 0.00 0.00 3.08
119 120 2.633488 GACTGATGAGCCACCTTTACC 58.367 52.381 0.00 0.00 0.00 2.85
120 121 2.633488 GGACTGATGAGCCACCTTTAC 58.367 52.381 0.00 0.00 0.00 2.01
121 122 1.559682 GGGACTGATGAGCCACCTTTA 59.440 52.381 0.00 0.00 0.00 1.85
122 123 0.329596 GGGACTGATGAGCCACCTTT 59.670 55.000 0.00 0.00 0.00 3.11
123 124 1.566298 GGGGACTGATGAGCCACCTT 61.566 60.000 0.00 0.00 0.00 3.50
124 125 1.997874 GGGGACTGATGAGCCACCT 60.998 63.158 0.00 0.00 0.00 4.00
125 126 1.977293 GAGGGGACTGATGAGCCACC 61.977 65.000 0.00 0.00 44.43 4.61
126 127 1.267574 TGAGGGGACTGATGAGCCAC 61.268 60.000 0.00 0.00 44.43 5.01
127 128 0.326904 ATGAGGGGACTGATGAGCCA 60.327 55.000 0.00 0.00 44.43 4.75
128 129 0.842635 AATGAGGGGACTGATGAGCC 59.157 55.000 0.00 0.00 44.43 4.70
129 130 3.326006 TGATAATGAGGGGACTGATGAGC 59.674 47.826 0.00 0.00 44.43 4.26
130 131 5.306419 TCTTGATAATGAGGGGACTGATGAG 59.694 44.000 0.00 0.00 44.43 2.90
131 132 5.218959 TCTTGATAATGAGGGGACTGATGA 58.781 41.667 0.00 0.00 44.43 2.92
132 133 5.557576 TCTTGATAATGAGGGGACTGATG 57.442 43.478 0.00 0.00 44.43 3.07
133 134 6.331042 TGAATCTTGATAATGAGGGGACTGAT 59.669 38.462 0.00 0.00 44.43 2.90
134 135 5.667172 TGAATCTTGATAATGAGGGGACTGA 59.333 40.000 0.00 0.00 44.43 3.41
135 136 5.933617 TGAATCTTGATAATGAGGGGACTG 58.066 41.667 0.00 0.00 44.43 3.51
137 138 8.954350 CAATATGAATCTTGATAATGAGGGGAC 58.046 37.037 0.00 0.00 0.00 4.46
138 139 7.613022 GCAATATGAATCTTGATAATGAGGGGA 59.387 37.037 0.00 0.00 0.00 4.81
139 140 7.147949 GGCAATATGAATCTTGATAATGAGGGG 60.148 40.741 0.00 0.00 0.00 4.79
140 141 7.395206 TGGCAATATGAATCTTGATAATGAGGG 59.605 37.037 0.00 0.00 0.00 4.30
141 142 8.344446 TGGCAATATGAATCTTGATAATGAGG 57.656 34.615 0.00 0.00 0.00 3.86
143 144 9.970395 GTTTGGCAATATGAATCTTGATAATGA 57.030 29.630 0.00 0.00 0.00 2.57
144 145 9.752961 TGTTTGGCAATATGAATCTTGATAATG 57.247 29.630 0.00 0.00 0.00 1.90
147 148 9.806203 CTTTGTTTGGCAATATGAATCTTGATA 57.194 29.630 0.00 0.00 36.89 2.15
148 149 8.533657 TCTTTGTTTGGCAATATGAATCTTGAT 58.466 29.630 0.00 0.00 36.89 2.57
149 150 7.894708 TCTTTGTTTGGCAATATGAATCTTGA 58.105 30.769 0.00 0.00 36.89 3.02
150 151 8.712285 ATCTTTGTTTGGCAATATGAATCTTG 57.288 30.769 0.00 0.00 36.89 3.02
151 152 9.729281 AAATCTTTGTTTGGCAATATGAATCTT 57.271 25.926 0.00 0.00 36.89 2.40
160 161 9.034800 TCTCCTATTAAATCTTTGTTTGGCAAT 57.965 29.630 0.00 0.00 36.89 3.56
161 162 8.303876 GTCTCCTATTAAATCTTTGTTTGGCAA 58.696 33.333 0.00 0.00 34.87 4.52
162 163 7.450014 TGTCTCCTATTAAATCTTTGTTTGGCA 59.550 33.333 0.00 0.00 0.00 4.92
163 164 7.755373 GTGTCTCCTATTAAATCTTTGTTTGGC 59.245 37.037 0.00 0.00 0.00 4.52
164 165 8.792633 TGTGTCTCCTATTAAATCTTTGTTTGG 58.207 33.333 0.00 0.00 0.00 3.28
167 168 9.739276 TGATGTGTCTCCTATTAAATCTTTGTT 57.261 29.630 0.00 0.00 0.00 2.83
168 169 9.739276 TTGATGTGTCTCCTATTAAATCTTTGT 57.261 29.630 0.00 0.00 0.00 2.83
181 182 9.606631 GATCTAAAAGTTATTGATGTGTCTCCT 57.393 33.333 0.00 0.00 0.00 3.69
182 183 9.606631 AGATCTAAAAGTTATTGATGTGTCTCC 57.393 33.333 0.00 0.00 0.00 3.71
215 216 9.734984 GGCTAGCATCCTTATAGGTTTAAATAA 57.265 33.333 18.24 0.00 36.53 1.40
377 378 1.070601 GAAGCAAATGGGCCACAAGTT 59.929 47.619 9.28 0.00 0.00 2.66
409 432 2.105134 TCGGAACACCCACAAGTAACAT 59.895 45.455 0.00 0.00 34.14 2.71
433 484 5.179452 ACATACTAATTGGAGTTGCACCT 57.821 39.130 0.00 0.00 0.00 4.00
441 492 4.591202 CGCTTGCAACATACTAATTGGAG 58.409 43.478 0.00 0.00 0.00 3.86
447 502 1.127766 CACGCGCTTGCAACATACTAA 59.872 47.619 5.73 0.00 39.07 2.24
448 503 0.718904 CACGCGCTTGCAACATACTA 59.281 50.000 5.73 0.00 39.07 1.82
471 526 5.611128 AAGACAGATGACTGCTCACATAT 57.389 39.130 0.00 0.00 46.95 1.78
493 548 2.049156 CTCGCGTCAGCCACAGAA 60.049 61.111 5.77 0.00 41.18 3.02
514 569 2.046507 GGTGCAGTGCCTCCTGAG 60.047 66.667 13.72 0.00 34.23 3.35
515 570 3.640407 GGGTGCAGTGCCTCCTGA 61.640 66.667 20.61 0.00 34.23 3.86
516 571 3.278072 ATGGGTGCAGTGCCTCCTG 62.278 63.158 20.61 0.00 35.49 3.86
518 573 2.439156 GATGGGTGCAGTGCCTCC 60.439 66.667 13.72 14.72 0.00 4.30
519 574 2.821366 CGATGGGTGCAGTGCCTC 60.821 66.667 13.72 4.49 0.00 4.70
527 692 2.746277 GGTGGTGACGATGGGTGC 60.746 66.667 0.00 0.00 0.00 5.01
609 788 0.178935 GAGAGGATGGAGGAGGAGGG 60.179 65.000 0.00 0.00 0.00 4.30
722 1647 2.185350 CTTCGCCTGCAGGTCGAT 59.815 61.111 35.90 0.00 41.02 3.59
723 1648 4.069232 CCTTCGCCTGCAGGTCGA 62.069 66.667 33.74 33.74 40.20 4.20
778 1703 2.041922 ACTCAGCAGGGGCCGATA 60.042 61.111 0.00 0.00 42.56 2.92
795 1720 1.527034 GCAGTCCAGCAATCTTGTCA 58.473 50.000 0.00 0.00 0.00 3.58
917 1874 2.833794 TCCCGTGTGAACTTCTTCTTG 58.166 47.619 0.00 0.00 0.00 3.02
1172 2200 3.067645 AGGAAGGAATCTAGGGGGAAG 57.932 52.381 0.00 0.00 0.00 3.46
1267 2295 1.539388 CGTCCAGCTATCTGCCTAGAG 59.461 57.143 0.00 0.00 44.23 2.43
1978 3223 1.531365 CTGCAGCTCCACCCCAAAA 60.531 57.895 0.00 0.00 0.00 2.44
2022 3268 0.543277 TCGATGGCATGCTCCTTCTT 59.457 50.000 18.92 0.00 0.00 2.52
2297 3543 6.840705 ACCAAAACAATATGCCCTATCTTCAT 59.159 34.615 0.00 0.00 0.00 2.57
2500 3748 5.012664 TGACCTAGAAAAACTCCAGCACATA 59.987 40.000 0.00 0.00 0.00 2.29
2704 3956 5.401531 TTCCTAATACGCAACACTCTCTT 57.598 39.130 0.00 0.00 0.00 2.85
2824 4078 2.878406 CCAATTGTCCATCCATCCGTAC 59.122 50.000 4.43 0.00 0.00 3.67
2835 4089 2.885135 AGCTCATGTCCAATTGTCCA 57.115 45.000 4.43 0.64 0.00 4.02
2836 4090 3.817647 GGATAGCTCATGTCCAATTGTCC 59.182 47.826 4.43 0.00 39.00 4.02
2837 4091 4.454678 TGGATAGCTCATGTCCAATTGTC 58.545 43.478 4.43 0.00 45.43 3.18
2838 4092 4.508551 TGGATAGCTCATGTCCAATTGT 57.491 40.909 4.43 0.00 45.43 2.71
2915 4177 8.815912 ACTCAACCCTAAATATGAAGCAAAAAT 58.184 29.630 0.00 0.00 0.00 1.82
2937 4199 7.833682 TCAATGAAAGAAATATAGCCCAACTCA 59.166 33.333 0.00 0.00 0.00 3.41
2975 4237 1.885049 ATGCACCTCACCTACTGGAT 58.115 50.000 0.00 0.00 37.04 3.41
3100 4409 3.614092 TGAATCTTGGCTCTGGATTGAC 58.386 45.455 0.00 0.00 30.98 3.18
3112 4421 4.401925 GGTGAAGGGGATATGAATCTTGG 58.598 47.826 0.00 0.00 32.29 3.61
3134 4443 7.745022 ATAAATGCTCACAAATGAAATGACG 57.255 32.000 0.00 0.00 33.30 4.35


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

AutoCloner maintained by Alex Coulton.