Multiple sequence alignment - TraesCS2D01G440700

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 TraesCS2D01G440700 chr2D 100.000 8451 0 0 1 8451 550665433 550673883 0.000000e+00 15607.0
1 TraesCS2D01G440700 chr2D 97.401 6619 132 18 940 7533 549925385 549918782 0.000000e+00 11234.0
2 TraesCS2D01G440700 chr2D 91.436 6224 416 62 1360 7533 549736031 549729875 0.000000e+00 8432.0
3 TraesCS2D01G440700 chr2D 92.926 5485 278 46 1333 6764 551146980 551141553 0.000000e+00 7878.0
4 TraesCS2D01G440700 chr2D 91.532 5397 340 57 2183 7533 550233733 550228408 0.000000e+00 7326.0
5 TraesCS2D01G440700 chr2D 83.515 4034 518 85 2987 6943 551446711 551450674 0.000000e+00 3629.0
6 TraesCS2D01G440700 chr2D 85.037 2172 281 29 1734 3880 551458357 551456205 0.000000e+00 2170.0
7 TraesCS2D01G440700 chr2D 91.059 1521 127 6 1745 3259 574904096 574902579 0.000000e+00 2047.0
8 TraesCS2D01G440700 chr2D 87.478 1725 201 13 1746 3465 551868239 551866525 0.000000e+00 1975.0
9 TraesCS2D01G440700 chr2D 95.972 720 28 1 7733 8451 282947069 282946350 0.000000e+00 1168.0
10 TraesCS2D01G440700 chr2D 95.556 720 30 2 7733 8451 106216452 106215734 0.000000e+00 1151.0
11 TraesCS2D01G440700 chr2D 95.556 720 31 1 7733 8451 405262720 405262001 0.000000e+00 1151.0
12 TraesCS2D01G440700 chr2D 90.419 835 66 7 1 827 264810964 264810136 0.000000e+00 1086.0
13 TraesCS2D01G440700 chr2D 95.956 544 20 2 42 584 549927034 549926492 0.000000e+00 881.0
14 TraesCS2D01G440700 chr2D 84.783 828 99 8 6717 7533 551141555 551140744 0.000000e+00 806.0
15 TraesCS2D01G440700 chr2D 94.199 362 17 2 578 936 549926121 549925761 4.460000e-152 549.0
16 TraesCS2D01G440700 chr2D 93.417 319 17 2 940 1257 549736462 549736147 3.570000e-128 470.0
17 TraesCS2D01G440700 chr2D 94.020 301 15 1 940 1240 550249221 550248924 3.600000e-123 453.0
18 TraesCS2D01G440700 chr2D 91.503 306 26 0 940 1245 551869029 551868724 1.010000e-113 422.0
19 TraesCS2D01G440700 chr2D 88.889 306 34 0 940 1245 551460933 551460628 2.230000e-100 377.0
20 TraesCS2D01G440700 chr2D 85.893 319 44 1 940 1257 551147447 551147129 1.050000e-88 339.0
21 TraesCS2D01G440700 chr2D 85.893 319 44 1 940 1257 551439210 551439528 1.050000e-88 339.0
22 TraesCS2D01G440700 chr2D 96.517 201 7 0 7534 7734 616147232 616147432 4.890000e-87 333.0
23 TraesCS2D01G440700 chr2D 83.871 310 47 3 3606 3915 551866096 551865790 8.300000e-75 292.0
24 TraesCS2D01G440700 chr2D 91.176 68 6 0 1271 1338 551147145 551147078 9.030000e-15 93.5
25 TraesCS2D01G440700 chr2B 91.472 6180 416 60 1404 7533 655994713 655988595 0.000000e+00 8390.0
26 TraesCS2D01G440700 chr2B 91.255 6221 382 69 1392 7533 656356870 656350733 0.000000e+00 8325.0
27 TraesCS2D01G440700 chr2B 94.094 3962 172 29 3553 7505 656232205 656228297 0.000000e+00 5963.0
28 TraesCS2D01G440700 chr2B 96.971 2113 52 6 1368 3475 656234341 656232236 0.000000e+00 3537.0
29 TraesCS2D01G440700 chr2B 84.937 3419 354 82 3614 6962 41157271 41153944 0.000000e+00 3312.0
30 TraesCS2D01G440700 chr2B 90.011 931 73 11 1 920 330441182 330442103 0.000000e+00 1186.0
31 TraesCS2D01G440700 chr2B 90.164 610 20 15 331 936 656236028 656235455 0.000000e+00 758.0
32 TraesCS2D01G440700 chr2B 96.774 341 11 0 940 1280 656235079 656234739 3.420000e-158 569.0
33 TraesCS2D01G440700 chr2B 94.044 319 15 2 940 1257 655995377 655995062 1.650000e-131 481.0
34 TraesCS2D01G440700 chr2B 92.114 317 23 1 940 1256 657075246 657074932 6.020000e-121 446.0
35 TraesCS2D01G440700 chr2B 89.542 306 32 0 940 1245 656965182 656964877 1.030000e-103 388.0
36 TraesCS2D01G440700 chr2B 89.508 305 30 1 940 1244 652285310 652285612 1.330000e-102 385.0
37 TraesCS2D01G440700 chr2B 95.000 220 8 3 1 220 656236278 656236062 8.120000e-90 342.0
38 TraesCS2D01G440700 chr2B 90.323 62 6 0 1277 1338 656357116 656357055 1.960000e-11 82.4
39 TraesCS2D01G440700 chr5D 90.644 5077 368 51 1562 6556 395926071 395931122 0.000000e+00 6645.0
40 TraesCS2D01G440700 chr5D 89.239 5399 462 53 1654 6957 395728222 395733596 0.000000e+00 6641.0
41 TraesCS2D01G440700 chr5D 95.556 720 31 1 7733 8451 259370396 259371115 0.000000e+00 1151.0
42 TraesCS2D01G440700 chr5D 95.556 720 31 1 7733 8451 351738419 351737700 0.000000e+00 1151.0
43 TraesCS2D01G440700 chr5D 85.938 320 42 3 940 1257 395727367 395727685 1.050000e-88 339.0
44 TraesCS2D01G440700 chr5D 96.517 201 7 0 7534 7734 27621808 27622008 4.890000e-87 333.0
45 TraesCS2D01G440700 chr5D 85.358 321 43 3 940 1257 395925649 395925968 6.320000e-86 329.0
46 TraesCS2D01G440700 chr5D 89.333 75 5 1 7351 7425 395932108 395932179 3.250000e-14 91.6
47 TraesCS2D01G440700 chr5B 90.527 5067 376 43 1562 6555 475992403 475997438 0.000000e+00 6602.0
48 TraesCS2D01G440700 chr5B 96.040 202 8 0 7533 7734 522509176 522509377 6.320000e-86 329.0
49 TraesCS2D01G440700 chr5B 87.640 267 32 1 936 1202 475991998 475992263 8.240000e-80 309.0
50 TraesCS2D01G440700 chr5B 88.462 78 3 4 7351 7425 475998543 475998617 1.170000e-13 89.8
51 TraesCS2D01G440700 chr5A 90.154 5068 401 41 1562 6556 501829384 501834426 0.000000e+00 6505.0
52 TraesCS2D01G440700 chr5A 97.015 201 5 1 7534 7734 609861480 609861281 3.780000e-88 337.0
53 TraesCS2D01G440700 chr5A 88.571 70 5 1 7356 7425 501840217 501840283 1.960000e-11 82.4
54 TraesCS2D01G440700 chr2A 91.322 4183 283 35 2668 6807 691853057 691848912 0.000000e+00 5640.0
55 TraesCS2D01G440700 chr2A 88.958 480 44 6 135 611 299776729 299777202 1.220000e-162 584.0
56 TraesCS2D01G440700 chr2A 92.157 306 24 0 940 1245 692639343 692639038 4.690000e-117 433.0
57 TraesCS2D01G440700 chr2A 90.136 294 27 2 606 898 299777166 299777458 1.720000e-101 381.0
58 TraesCS2D01G440700 chr2A 89.496 238 22 1 7296 7533 691846912 691846678 1.780000e-76 298.0
59 TraesCS2D01G440700 chr2A 79.500 200 26 8 7029 7225 691847463 691847276 2.480000e-25 128.0
60 TraesCS2D01G440700 chr7B 84.439 1703 249 15 1734 3433 56366534 56368223 0.000000e+00 1663.0
61 TraesCS2D01G440700 chr7B 84.125 1726 251 15 1734 3457 56988983 56987279 0.000000e+00 1648.0
62 TraesCS2D01G440700 chr4D 97.914 719 15 0 7733 8451 41483938 41483220 0.000000e+00 1245.0
63 TraesCS2D01G440700 chr3D 95.967 719 29 0 7733 8451 568472702 568473420 0.000000e+00 1168.0
64 TraesCS2D01G440700 chr1D 95.833 720 29 1 7733 8451 44003260 44003979 0.000000e+00 1162.0
65 TraesCS2D01G440700 chr7D 95.568 722 29 3 7733 8451 98675814 98675093 0.000000e+00 1153.0
66 TraesCS2D01G440700 chr7D 96.517 201 6 1 7534 7734 565217415 565217614 1.760000e-86 331.0
67 TraesCS2D01G440700 chr7D 96.020 201 8 0 7534 7734 46154198 46153998 2.270000e-85 327.0
68 TraesCS2D01G440700 chr7D 96.020 201 6 1 7534 7734 91553863 91554061 8.180000e-85 326.0
69 TraesCS2D01G440700 chrUn 88.810 420 30 10 6358 6771 477873767 477874175 4.550000e-137 499.0
70 TraesCS2D01G440700 chr4A 95.522 201 9 0 7534 7734 507829106 507829306 1.060000e-83 322.0
71 TraesCS2D01G440700 chr6D 95.522 201 8 1 7534 7734 464852281 464852082 3.810000e-83 320.0


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 TraesCS2D01G440700 chr2D 550665433 550673883 8450 False 15607.000000 15607 100.000000 1 8451 1 chr2D.!!$F1 8450
1 TraesCS2D01G440700 chr2D 550228408 550233733 5325 True 7326.000000 7326 91.532000 2183 7533 1 chr2D.!!$R5 5350
2 TraesCS2D01G440700 chr2D 549729875 549736462 6587 True 4451.000000 8432 92.426500 940 7533 2 chr2D.!!$R8 6593
3 TraesCS2D01G440700 chr2D 549918782 549927034 8252 True 4221.333333 11234 95.852000 42 7533 3 chr2D.!!$R9 7491
4 TraesCS2D01G440700 chr2D 551446711 551450674 3963 False 3629.000000 3629 83.515000 2987 6943 1 chr2D.!!$F3 3956
5 TraesCS2D01G440700 chr2D 551140744 551147447 6703 True 2279.125000 7878 88.694500 940 7533 4 chr2D.!!$R10 6593
6 TraesCS2D01G440700 chr2D 574902579 574904096 1517 True 2047.000000 2047 91.059000 1745 3259 1 chr2D.!!$R7 1514
7 TraesCS2D01G440700 chr2D 551456205 551460933 4728 True 1273.500000 2170 86.963000 940 3880 2 chr2D.!!$R11 2940
8 TraesCS2D01G440700 chr2D 282946350 282947069 719 True 1168.000000 1168 95.972000 7733 8451 1 chr2D.!!$R3 718
9 TraesCS2D01G440700 chr2D 106215734 106216452 718 True 1151.000000 1151 95.556000 7733 8451 1 chr2D.!!$R1 718
10 TraesCS2D01G440700 chr2D 405262001 405262720 719 True 1151.000000 1151 95.556000 7733 8451 1 chr2D.!!$R4 718
11 TraesCS2D01G440700 chr2D 264810136 264810964 828 True 1086.000000 1086 90.419000 1 827 1 chr2D.!!$R2 826
12 TraesCS2D01G440700 chr2D 551865790 551869029 3239 True 896.333333 1975 87.617333 940 3915 3 chr2D.!!$R12 2975
13 TraesCS2D01G440700 chr2B 655988595 655995377 6782 True 4435.500000 8390 92.758000 940 7533 2 chr2B.!!$R4 6593
14 TraesCS2D01G440700 chr2B 656350733 656357116 6383 True 4203.700000 8325 90.789000 1277 7533 2 chr2B.!!$R6 6256
15 TraesCS2D01G440700 chr2B 41153944 41157271 3327 True 3312.000000 3312 84.937000 3614 6962 1 chr2B.!!$R1 3348
16 TraesCS2D01G440700 chr2B 656228297 656236278 7981 True 2233.800000 5963 94.600600 1 7505 5 chr2B.!!$R5 7504
17 TraesCS2D01G440700 chr2B 330441182 330442103 921 False 1186.000000 1186 90.011000 1 920 1 chr2B.!!$F1 919
18 TraesCS2D01G440700 chr5D 395727367 395733596 6229 False 3490.000000 6641 87.588500 940 6957 2 chr5D.!!$F3 6017
19 TraesCS2D01G440700 chr5D 395925649 395932179 6530 False 2355.200000 6645 88.445000 940 7425 3 chr5D.!!$F4 6485
20 TraesCS2D01G440700 chr5D 259370396 259371115 719 False 1151.000000 1151 95.556000 7733 8451 1 chr5D.!!$F2 718
21 TraesCS2D01G440700 chr5D 351737700 351738419 719 True 1151.000000 1151 95.556000 7733 8451 1 chr5D.!!$R1 718
22 TraesCS2D01G440700 chr5B 475991998 475998617 6619 False 2333.600000 6602 88.876333 936 7425 3 chr5B.!!$F2 6489
23 TraesCS2D01G440700 chr5A 501829384 501834426 5042 False 6505.000000 6505 90.154000 1562 6556 1 chr5A.!!$F1 4994
24 TraesCS2D01G440700 chr2A 691846678 691853057 6379 True 2022.000000 5640 86.772667 2668 7533 3 chr2A.!!$R2 4865
25 TraesCS2D01G440700 chr2A 299776729 299777458 729 False 482.500000 584 89.547000 135 898 2 chr2A.!!$F1 763
26 TraesCS2D01G440700 chr7B 56366534 56368223 1689 False 1663.000000 1663 84.439000 1734 3433 1 chr7B.!!$F1 1699
27 TraesCS2D01G440700 chr7B 56987279 56988983 1704 True 1648.000000 1648 84.125000 1734 3457 1 chr7B.!!$R1 1723
28 TraesCS2D01G440700 chr4D 41483220 41483938 718 True 1245.000000 1245 97.914000 7733 8451 1 chr4D.!!$R1 718
29 TraesCS2D01G440700 chr3D 568472702 568473420 718 False 1168.000000 1168 95.967000 7733 8451 1 chr3D.!!$F1 718
30 TraesCS2D01G440700 chr1D 44003260 44003979 719 False 1162.000000 1162 95.833000 7733 8451 1 chr1D.!!$F1 718
31 TraesCS2D01G440700 chr7D 98675093 98675814 721 True 1153.000000 1153 95.568000 7733 8451 1 chr7D.!!$R2 718

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
250 259 0.033796 ATGGACACTTGGAGCATGGG 60.034 55.000 0.00 0.0 0.00 4.00 F
512 525 0.908910 TTGCCCTTCCAGCGAGATTA 59.091 50.000 0.00 0.0 0.00 1.75 F
1344 2220 1.595382 GTGTGCACGAGTTGGCTCT 60.595 57.895 13.13 0.0 39.53 4.09 F
2083 5281 4.995487 ACTTTCTACTGGCCTCGTTTTAAG 59.005 41.667 3.32 7.8 0.00 1.85 F
3415 6622 3.713248 AGCAGTGATGATTGGAGGATACA 59.287 43.478 0.00 0.0 41.41 2.29 F
4112 7735 4.450976 TGTCTGACTAAACATTGTGTGCT 58.549 39.130 9.51 0.0 0.00 4.40 F
5537 9192 0.038159 GTGTGGAGAGACGGGACAAG 60.038 60.000 0.00 0.0 0.00 3.16 F
5965 9628 0.731417 ATGCTGCACGAAATCTCTGC 59.269 50.000 3.57 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1072 1842 0.968405 TTTTTGTGATCCAGCCCTGC 59.032 50.000 0.00 0.0 0.00 4.85 R
1595 4591 3.071580 GCTAGTCATGTGAGTGGCC 57.928 57.895 13.37 0.0 43.50 5.36 R
3188 6395 0.110644 GCTTGCTTCTGTCGAAACCG 60.111 55.000 0.00 0.0 0.00 4.44 R
3490 6704 8.460831 AAAGAACACACACAAAATAACTCAAC 57.539 30.769 0.00 0.0 0.00 3.18 R
5262 8914 3.072211 CTGAGCACATGAATGACACTGT 58.928 45.455 0.00 0.0 0.00 3.55 R
5965 9628 1.945394 GCACTCCAGCATATTGACCAG 59.055 52.381 0.00 0.0 0.00 4.00 R
7262 13153 0.745486 TTGCTCCTGTCATCCATGCG 60.745 55.000 0.00 0.0 0.00 4.73 R
7640 13546 0.748450 CGGGCCTCATGCATCAAATT 59.252 50.000 0.84 0.0 43.89 1.82 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
178 187 4.832019 TCAATATTTTCATGCTACGCACG 58.168 39.130 0.00 0.00 43.04 5.34
185 194 1.738908 TCATGCTACGCACGTACTGTA 59.261 47.619 0.00 0.00 43.04 2.74
250 259 0.033796 ATGGACACTTGGAGCATGGG 60.034 55.000 0.00 0.00 0.00 4.00
510 523 1.078143 GTTGCCCTTCCAGCGAGAT 60.078 57.895 0.00 0.00 0.00 2.75
512 525 0.908910 TTGCCCTTCCAGCGAGATTA 59.091 50.000 0.00 0.00 0.00 1.75
781 1177 8.581578 TCTAATTTCCCTTTTTCGTTAATTGCT 58.418 29.630 0.00 0.00 0.00 3.91
898 1296 6.551601 TGTGGCTAATTAAGTTCCCTGAAAAA 59.448 34.615 0.00 0.00 0.00 1.94
936 1334 2.169561 GGTCTCTCTGGTTCCTTGGATC 59.830 54.545 0.00 0.00 0.00 3.36
937 1335 2.834549 GTCTCTCTGGTTCCTTGGATCA 59.165 50.000 0.00 0.00 0.00 2.92
938 1336 2.834549 TCTCTCTGGTTCCTTGGATCAC 59.165 50.000 0.00 0.00 0.00 3.06
1202 1972 5.301805 ACCACATTTCTGGACTTAAAAGGTG 59.698 40.000 5.23 5.23 41.68 4.00
1256 2029 3.894920 TGTACATGTTCGCACCATTTTG 58.105 40.909 2.30 0.00 0.00 2.44
1284 2057 3.930229 GCGAGTACATGTTCACACCATTA 59.070 43.478 2.30 0.00 0.00 1.90
1301 2074 9.386010 CACACCATTATGGAAATGATTTTCATT 57.614 29.630 19.23 0.00 43.92 2.57
1344 2220 1.595382 GTGTGCACGAGTTGGCTCT 60.595 57.895 13.13 0.00 39.53 4.09
2083 5281 4.995487 ACTTTCTACTGGCCTCGTTTTAAG 59.005 41.667 3.32 7.80 0.00 1.85
3415 6622 3.713248 AGCAGTGATGATTGGAGGATACA 59.287 43.478 0.00 0.00 41.41 2.29
3909 7506 7.004086 TGTCAACTCTCCAATAATTTCCAAGT 58.996 34.615 0.00 0.00 0.00 3.16
4037 7653 7.611467 TGATATCCCTACATAAATTGGACATGC 59.389 37.037 0.00 0.00 0.00 4.06
4038 7654 5.387113 TCCCTACATAAATTGGACATGCT 57.613 39.130 0.00 0.00 0.00 3.79
4039 7655 6.508030 TCCCTACATAAATTGGACATGCTA 57.492 37.500 0.00 0.00 0.00 3.49
4110 7733 5.333645 GCTCTGTCTGACTAAACATTGTGTG 60.334 44.000 9.51 0.00 0.00 3.82
4112 7735 4.450976 TGTCTGACTAAACATTGTGTGCT 58.549 39.130 9.51 0.00 0.00 4.40
4352 7982 4.628766 GCTTGAGAATTCAAAATCCTTGGC 59.371 41.667 8.44 0.00 42.48 4.52
5262 8914 1.992557 AGATGTTTCTTGGGTGCCCTA 59.007 47.619 8.91 0.00 36.94 3.53
5403 9055 4.656112 ACCCTGGTGAGAACTATCCTTATG 59.344 45.833 0.00 0.00 0.00 1.90
5537 9192 0.038159 GTGTGGAGAGACGGGACAAG 60.038 60.000 0.00 0.00 0.00 3.16
5610 9265 6.643388 TGCTGATTCTCTTAGTGCAAATCTA 58.357 36.000 6.59 0.00 0.00 1.98
5821 9476 6.639632 TGATCTTGAACTTTAAGCTTGCTT 57.360 33.333 9.86 12.65 0.00 3.91
5965 9628 0.731417 ATGCTGCACGAAATCTCTGC 59.269 50.000 3.57 0.00 0.00 4.26
5987 9650 1.408683 GGTCAATATGCTGGAGTGCCA 60.409 52.381 0.00 0.00 43.47 4.92
6233 9899 5.551977 TCCTTACTCTTTCTCTGGGGAATTT 59.448 40.000 0.00 0.00 0.00 1.82
6355 10029 1.939934 CACCGAGCAACTTCACAAGAA 59.060 47.619 0.00 0.00 0.00 2.52
6382 10056 2.436469 ATGCACTCGCCGCAATCA 60.436 55.556 0.00 0.00 43.84 2.57
6512 10305 3.371102 TCTTCTGTGTCCTGAAGAACG 57.629 47.619 8.88 0.00 46.42 3.95
6533 10395 4.822896 ACGAAGTTCTGTACAAGAGACTCT 59.177 41.667 0.00 0.00 37.78 3.24
6568 10496 2.101415 TCTGATGGTGATAAGTCTGGCG 59.899 50.000 0.00 0.00 0.00 5.69
6926 12297 3.609409 GCAGTGAGTTCGAAAATGGTTCC 60.609 47.826 0.00 0.00 0.00 3.62
6944 12315 2.695359 TCCGACAGGTAAGCAAATGTC 58.305 47.619 0.00 0.00 38.91 3.06
6948 12319 4.406069 CGACAGGTAAGCAAATGTCAATG 58.594 43.478 5.18 0.00 41.67 2.82
7001 12546 5.307204 AGTACAAATGCCACATTGCAATTT 58.693 33.333 9.83 0.00 45.84 1.82
7262 13153 4.545610 TGAAAATCAAGCGACATTCCAAC 58.454 39.130 0.00 0.00 0.00 3.77
7293 13184 2.863153 GAGCAACGACGCTGCAAT 59.137 55.556 23.72 5.36 44.01 3.56
7493 13399 1.669760 CGCTGCGGTTTCCCTGTAA 60.670 57.895 15.40 0.00 0.00 2.41
7533 13439 6.513393 GCATTGGAGAAAAACCTGTATATCCG 60.513 42.308 0.00 0.00 0.00 4.18
7534 13440 5.943349 TGGAGAAAAACCTGTATATCCGA 57.057 39.130 0.00 0.00 0.00 4.55
7535 13441 5.914033 TGGAGAAAAACCTGTATATCCGAG 58.086 41.667 0.00 0.00 0.00 4.63
7536 13442 5.424252 TGGAGAAAAACCTGTATATCCGAGT 59.576 40.000 0.00 0.00 0.00 4.18
7537 13443 6.608405 TGGAGAAAAACCTGTATATCCGAGTA 59.392 38.462 0.00 0.00 0.00 2.59
7538 13444 7.146648 GGAGAAAAACCTGTATATCCGAGTAG 58.853 42.308 0.00 0.00 0.00 2.57
7539 13445 7.052142 AGAAAAACCTGTATATCCGAGTAGG 57.948 40.000 0.00 0.00 42.97 3.18
7540 13446 5.803237 AAAACCTGTATATCCGAGTAGGG 57.197 43.478 0.00 0.00 41.52 3.53
7541 13447 2.805194 ACCTGTATATCCGAGTAGGGC 58.195 52.381 0.00 0.00 41.52 5.19
7542 13448 1.743958 CCTGTATATCCGAGTAGGGCG 59.256 57.143 0.00 0.00 41.52 6.13
7543 13449 2.434428 CTGTATATCCGAGTAGGGCGT 58.566 52.381 0.00 0.00 41.52 5.68
7544 13450 2.818432 CTGTATATCCGAGTAGGGCGTT 59.182 50.000 0.00 0.00 41.52 4.84
7545 13451 3.225104 TGTATATCCGAGTAGGGCGTTT 58.775 45.455 0.00 0.00 41.52 3.60
7546 13452 3.638160 TGTATATCCGAGTAGGGCGTTTT 59.362 43.478 0.00 0.00 41.52 2.43
7547 13453 2.589798 TATCCGAGTAGGGCGTTTTG 57.410 50.000 0.00 0.00 41.52 2.44
7548 13454 0.107848 ATCCGAGTAGGGCGTTTTGG 60.108 55.000 0.00 0.00 41.52 3.28
7549 13455 1.004200 CCGAGTAGGGCGTTTTGGT 60.004 57.895 0.00 0.00 35.97 3.67
7550 13456 1.296056 CCGAGTAGGGCGTTTTGGTG 61.296 60.000 0.00 0.00 35.97 4.17
7551 13457 1.873863 GAGTAGGGCGTTTTGGTGC 59.126 57.895 0.00 0.00 0.00 5.01
7556 13462 3.989787 GGCGTTTTGGTGCCCAGG 61.990 66.667 0.00 0.00 45.73 4.45
7557 13463 4.662961 GCGTTTTGGTGCCCAGGC 62.663 66.667 0.38 0.38 42.35 4.85
7558 13464 2.912025 CGTTTTGGTGCCCAGGCT 60.912 61.111 10.58 0.00 42.51 4.58
7559 13465 2.919494 CGTTTTGGTGCCCAGGCTC 61.919 63.158 10.58 6.18 42.51 4.70
7560 13466 1.832167 GTTTTGGTGCCCAGGCTCA 60.832 57.895 10.58 5.75 42.51 4.26
7561 13467 1.155859 TTTTGGTGCCCAGGCTCAT 59.844 52.632 10.58 0.00 42.51 2.90
7562 13468 0.899717 TTTTGGTGCCCAGGCTCATC 60.900 55.000 10.58 0.00 42.51 2.92
7563 13469 1.792757 TTTGGTGCCCAGGCTCATCT 61.793 55.000 10.58 0.00 42.51 2.90
7564 13470 2.124403 GGTGCCCAGGCTCATCTG 60.124 66.667 10.58 0.00 42.51 2.90
7565 13471 2.827642 GTGCCCAGGCTCATCTGC 60.828 66.667 10.58 0.00 42.51 4.26
7566 13472 3.332385 TGCCCAGGCTCATCTGCA 61.332 61.111 10.58 0.00 42.51 4.41
7567 13473 2.827642 GCCCAGGCTCATCTGCAC 60.828 66.667 0.08 0.00 38.26 4.57
7568 13474 2.124403 CCCAGGCTCATCTGCACC 60.124 66.667 0.00 0.00 33.64 5.01
7569 13475 2.124403 CCAGGCTCATCTGCACCC 60.124 66.667 0.00 0.00 33.64 4.61
7570 13476 2.513204 CAGGCTCATCTGCACCCG 60.513 66.667 0.00 0.00 34.04 5.28
7571 13477 3.790437 AGGCTCATCTGCACCCGG 61.790 66.667 0.00 0.00 34.04 5.73
7572 13478 4.101448 GGCTCATCTGCACCCGGT 62.101 66.667 0.00 0.00 34.04 5.28
7573 13479 2.045926 GCTCATCTGCACCCGGTT 60.046 61.111 0.00 0.00 0.00 4.44
7574 13480 1.220749 GCTCATCTGCACCCGGTTA 59.779 57.895 0.00 0.00 0.00 2.85
7575 13481 0.811616 GCTCATCTGCACCCGGTTAG 60.812 60.000 0.00 0.00 0.00 2.34
7576 13482 0.824109 CTCATCTGCACCCGGTTAGA 59.176 55.000 0.00 4.22 0.00 2.10
7577 13483 1.207089 CTCATCTGCACCCGGTTAGAA 59.793 52.381 0.00 0.00 0.00 2.10
7578 13484 1.626321 TCATCTGCACCCGGTTAGAAA 59.374 47.619 0.00 0.00 0.00 2.52
7579 13485 2.039216 TCATCTGCACCCGGTTAGAAAA 59.961 45.455 0.00 0.00 0.00 2.29
7580 13486 2.642154 TCTGCACCCGGTTAGAAAAA 57.358 45.000 0.00 0.00 0.00 1.94
7638 13544 8.877864 ATTCCAAATAGAATTTGTGTGGTAGA 57.122 30.769 10.54 0.00 32.46 2.59
7639 13545 7.681939 TCCAAATAGAATTTGTGTGGTAGAC 57.318 36.000 10.54 0.00 0.00 2.59
7640 13546 7.227873 TCCAAATAGAATTTGTGTGGTAGACA 58.772 34.615 10.54 0.00 0.00 3.41
7641 13547 7.721842 TCCAAATAGAATTTGTGTGGTAGACAA 59.278 33.333 10.54 0.00 35.91 3.18
7642 13548 8.522830 CCAAATAGAATTTGTGTGGTAGACAAT 58.477 33.333 10.54 0.00 35.91 2.71
7643 13549 9.912634 CAAATAGAATTTGTGTGGTAGACAATT 57.087 29.630 4.55 0.00 35.91 2.32
7645 13551 9.912634 AATAGAATTTGTGTGGTAGACAATTTG 57.087 29.630 0.00 0.00 35.91 2.32
7646 13552 7.581213 AGAATTTGTGTGGTAGACAATTTGA 57.419 32.000 2.79 0.00 35.91 2.69
7647 13553 8.181904 AGAATTTGTGTGGTAGACAATTTGAT 57.818 30.769 2.79 0.00 35.91 2.57
7648 13554 8.084073 AGAATTTGTGTGGTAGACAATTTGATG 58.916 33.333 2.79 0.00 35.91 3.07
7649 13555 4.764679 TGTGTGGTAGACAATTTGATGC 57.235 40.909 2.79 0.00 35.91 3.91
7650 13556 4.140536 TGTGTGGTAGACAATTTGATGCA 58.859 39.130 2.79 0.00 35.91 3.96
7651 13557 4.766373 TGTGTGGTAGACAATTTGATGCAT 59.234 37.500 0.00 0.00 35.91 3.96
7652 13558 5.097529 GTGTGGTAGACAATTTGATGCATG 58.902 41.667 2.46 0.00 35.91 4.06
7653 13559 5.008980 TGTGGTAGACAATTTGATGCATGA 58.991 37.500 2.46 0.00 0.00 3.07
7654 13560 5.124297 TGTGGTAGACAATTTGATGCATGAG 59.876 40.000 2.46 0.00 0.00 2.90
7655 13561 4.641541 TGGTAGACAATTTGATGCATGAGG 59.358 41.667 2.46 0.00 0.00 3.86
7656 13562 3.795623 AGACAATTTGATGCATGAGGC 57.204 42.857 2.46 0.00 45.13 4.70
7657 13563 2.429610 AGACAATTTGATGCATGAGGCC 59.570 45.455 2.46 0.00 43.89 5.19
7658 13564 1.483415 ACAATTTGATGCATGAGGCCC 59.517 47.619 2.46 0.00 43.89 5.80
7659 13565 0.748450 AATTTGATGCATGAGGCCCG 59.252 50.000 2.46 0.00 43.89 6.13
7660 13566 1.741327 ATTTGATGCATGAGGCCCGC 61.741 55.000 2.46 0.00 43.89 6.13
7661 13567 2.842188 TTTGATGCATGAGGCCCGCT 62.842 55.000 2.46 0.00 43.89 5.52
7662 13568 2.517875 GATGCATGAGGCCCGCTT 60.518 61.111 2.46 0.00 43.89 4.68
7663 13569 2.517875 ATGCATGAGGCCCGCTTC 60.518 61.111 0.00 0.00 43.89 3.86
7664 13570 3.348554 ATGCATGAGGCCCGCTTCA 62.349 57.895 0.00 3.82 43.89 3.02
7665 13571 2.751436 GCATGAGGCCCGCTTCAA 60.751 61.111 5.55 0.00 35.71 2.69
7666 13572 2.342650 GCATGAGGCCCGCTTCAAA 61.343 57.895 5.55 0.00 35.71 2.69
7667 13573 1.669999 GCATGAGGCCCGCTTCAAAT 61.670 55.000 5.55 0.00 35.71 2.32
7668 13574 0.819582 CATGAGGCCCGCTTCAAATT 59.180 50.000 5.55 0.00 35.71 1.82
7669 13575 1.205417 CATGAGGCCCGCTTCAAATTT 59.795 47.619 5.55 0.00 35.71 1.82
7670 13576 0.887933 TGAGGCCCGCTTCAAATTTC 59.112 50.000 0.00 0.00 0.00 2.17
7671 13577 0.887933 GAGGCCCGCTTCAAATTTCA 59.112 50.000 0.00 0.00 0.00 2.69
7672 13578 1.272212 GAGGCCCGCTTCAAATTTCAA 59.728 47.619 0.00 0.00 0.00 2.69
7673 13579 1.273327 AGGCCCGCTTCAAATTTCAAG 59.727 47.619 0.00 0.00 0.00 3.02
7674 13580 1.000843 GGCCCGCTTCAAATTTCAAGT 59.999 47.619 3.65 0.00 0.00 3.16
7675 13581 2.328473 GCCCGCTTCAAATTTCAAGTC 58.672 47.619 3.65 0.00 0.00 3.01
7676 13582 2.288152 GCCCGCTTCAAATTTCAAGTCA 60.288 45.455 3.65 0.00 0.00 3.41
7677 13583 3.614870 GCCCGCTTCAAATTTCAAGTCAT 60.615 43.478 3.65 0.00 0.00 3.06
7678 13584 4.559153 CCCGCTTCAAATTTCAAGTCATT 58.441 39.130 3.65 0.00 0.00 2.57
7679 13585 4.990426 CCCGCTTCAAATTTCAAGTCATTT 59.010 37.500 3.65 0.00 0.00 2.32
7680 13586 5.107375 CCCGCTTCAAATTTCAAGTCATTTG 60.107 40.000 3.65 0.00 40.39 2.32
7681 13587 5.107375 CCGCTTCAAATTTCAAGTCATTTGG 60.107 40.000 3.65 0.00 39.76 3.28
7682 13588 5.691305 CGCTTCAAATTTCAAGTCATTTGGA 59.309 36.000 3.65 0.00 39.76 3.53
7694 13600 4.220533 GTCATTTGGACATATGAGCAGC 57.779 45.455 10.38 0.00 46.19 5.25
7695 13601 3.881688 GTCATTTGGACATATGAGCAGCT 59.118 43.478 10.38 0.00 46.19 4.24
7696 13602 4.024218 GTCATTTGGACATATGAGCAGCTC 60.024 45.833 16.21 16.21 46.19 4.09
7697 13603 3.920231 TTTGGACATATGAGCAGCTCT 57.080 42.857 23.15 11.20 0.00 4.09
7698 13604 3.465742 TTGGACATATGAGCAGCTCTC 57.534 47.619 23.15 11.57 42.23 3.20
7705 13611 3.711937 TGAGCAGCTCTCAGCAAAA 57.288 47.368 23.15 0.00 46.34 2.44
7706 13612 1.971481 TGAGCAGCTCTCAGCAAAAA 58.029 45.000 23.15 0.00 46.34 1.94
7726 13632 2.990066 AAACAAATCGGGCCAAAACA 57.010 40.000 4.39 0.00 0.00 2.83
7727 13633 2.524569 AACAAATCGGGCCAAAACAG 57.475 45.000 4.39 0.00 0.00 3.16
7728 13634 1.408969 ACAAATCGGGCCAAAACAGT 58.591 45.000 4.39 0.00 0.00 3.55
7729 13635 2.588620 ACAAATCGGGCCAAAACAGTA 58.411 42.857 4.39 0.00 0.00 2.74
7730 13636 2.295070 ACAAATCGGGCCAAAACAGTAC 59.705 45.455 4.39 0.00 0.00 2.73
7731 13637 2.279935 AATCGGGCCAAAACAGTACA 57.720 45.000 4.39 0.00 0.00 2.90
7742 13648 4.523813 CAAAACAGTACATGTCGTGGAAC 58.476 43.478 0.00 0.00 43.00 3.62
7798 13704 0.318441 GTGAGGCCAGCGCATCTATA 59.682 55.000 11.47 0.00 46.01 1.31
7845 13751 0.395311 TGAGAGACGTAGGGCGGATT 60.395 55.000 0.00 0.00 46.52 3.01
7881 13787 0.036294 GTTTAGACAGCTTCGGGCCT 60.036 55.000 0.84 0.00 43.05 5.19
8176 14082 1.545841 CTTTCCTTTTAAGCCGGCCT 58.454 50.000 26.15 14.38 0.00 5.19
8221 14128 0.179234 GCCTTGGGCCTAGTCTTCTC 59.821 60.000 13.93 0.00 44.06 2.87
8337 14245 2.357517 CGGTGAAGCGCCAAGTCT 60.358 61.111 2.29 0.00 32.88 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
174 183 1.290203 ATGCTGCATACAGTACGTGC 58.710 50.000 14.52 0.00 46.30 5.34
178 187 6.867662 AGGATTTTATGCTGCATACAGTAC 57.132 37.500 21.19 12.83 46.30 2.73
185 194 8.696043 TGAGTATAAAGGATTTTATGCTGCAT 57.304 30.769 20.18 20.18 45.94 3.96
538 551 3.118186 CCCGTTATTCATGTACTTGGGGA 60.118 47.826 11.00 0.00 32.67 4.81
898 1296 2.915604 AGACCCATGACACTTGGATTCT 59.084 45.455 0.00 0.00 36.26 2.40
904 1302 2.354503 CCAGAGAGACCCATGACACTTG 60.355 54.545 0.00 0.00 0.00 3.16
936 1334 2.386661 AACTAGTGAGCGGGAATGTG 57.613 50.000 0.00 0.00 0.00 3.21
937 1335 3.418684 AAAACTAGTGAGCGGGAATGT 57.581 42.857 0.00 0.00 0.00 2.71
938 1336 6.281405 AGTATAAAACTAGTGAGCGGGAATG 58.719 40.000 0.00 0.00 36.36 2.67
1072 1842 0.968405 TTTTTGTGATCCAGCCCTGC 59.032 50.000 0.00 0.00 0.00 4.85
1202 1972 1.276421 TGGCTCTAGTTCAACAGGCTC 59.724 52.381 2.20 0.00 32.73 4.70
1256 2029 4.436523 GTGTGAACATGTACTCGCAAAAAC 59.563 41.667 13.85 0.86 34.07 2.43
1301 2074 9.349713 ACATTTCTGTCCACTTTAAATAGTTGA 57.650 29.630 0.00 0.00 0.00 3.18
1434 4416 7.229306 TGAAGATAAAATGCACCTCATATGGAC 59.771 37.037 2.13 0.00 34.33 4.02
1595 4591 3.071580 GCTAGTCATGTGAGTGGCC 57.928 57.895 13.37 0.00 43.50 5.36
1904 5101 7.039853 TCCATCAAGCATCATCAAAAACTTACA 60.040 33.333 0.00 0.00 0.00 2.41
2083 5281 4.686091 GCAAATTTCTTTGTTAGGTCTGCC 59.314 41.667 0.00 0.00 43.07 4.85
3188 6395 0.110644 GCTTGCTTCTGTCGAAACCG 60.111 55.000 0.00 0.00 0.00 4.44
3490 6704 8.460831 AAAGAACACACACAAAATAACTCAAC 57.539 30.769 0.00 0.00 0.00 3.18
4110 7733 3.553508 CCATACCTATGGCAATGCAAAGC 60.554 47.826 7.79 5.26 45.92 3.51
4352 7982 5.519722 AGTTTGTTCTAATTGCAGAAACCG 58.480 37.500 0.00 0.00 36.34 4.44
5262 8914 3.072211 CTGAGCACATGAATGACACTGT 58.928 45.455 0.00 0.00 0.00 3.55
5537 9192 2.433970 AGTAGATGCAAGAGGCTCCTTC 59.566 50.000 11.71 4.12 45.15 3.46
5610 9265 4.450757 GTCAAATTTTTATTTGCTGGGCGT 59.549 37.500 5.88 0.00 40.36 5.68
5965 9628 1.945394 GCACTCCAGCATATTGACCAG 59.055 52.381 0.00 0.00 0.00 4.00
5987 9650 3.947834 GTCAATGTAAGCCTTGCTGGTAT 59.052 43.478 0.00 0.00 39.62 2.73
6233 9899 5.958380 AGAAGGTTATGTGTGACCTCATAGA 59.042 40.000 0.00 0.00 43.04 1.98
6512 10305 6.079424 ACAGAGTCTCTTGTACAGAACTTC 57.921 41.667 0.00 0.00 0.00 3.01
6533 10395 3.896888 ACCATCAGATTTTTCAGGCAACA 59.103 39.130 0.00 0.00 41.41 3.33
6856 12215 4.042398 TCGTTTATCAATCGCTGCTAGAC 58.958 43.478 0.00 0.00 0.00 2.59
6926 12297 4.406069 CATTGACATTTGCTTACCTGTCG 58.594 43.478 0.00 0.00 40.65 4.35
6944 12315 4.942761 ATTTATAGTTGGCCCTGCATTG 57.057 40.909 0.00 0.00 0.00 2.82
6948 12319 5.598416 AAGAAATTTATAGTTGGCCCTGC 57.402 39.130 0.00 0.00 0.00 4.85
7001 12546 7.507277 AGAAAGATGTCACTCTACATGCCTATA 59.493 37.037 0.00 0.00 40.17 1.31
7236 13127 5.183713 TGGAATGTCGCTTGATTTTCAATCT 59.816 36.000 0.00 0.00 35.59 2.40
7262 13153 0.745486 TTGCTCCTGTCATCCATGCG 60.745 55.000 0.00 0.00 0.00 4.73
7293 13184 2.275380 TGCGTCTCTACAGCAGCCA 61.275 57.895 0.00 0.00 35.81 4.75
7493 13399 3.823873 TCCAATGCAGGTAAATGTTTCGT 59.176 39.130 0.00 0.00 0.00 3.85
7533 13439 1.583495 GGCACCAAAACGCCCTACTC 61.583 60.000 0.00 0.00 42.82 2.59
7534 13440 1.602605 GGCACCAAAACGCCCTACT 60.603 57.895 0.00 0.00 42.82 2.57
7535 13441 2.959372 GGCACCAAAACGCCCTAC 59.041 61.111 0.00 0.00 42.82 3.18
7548 13454 2.827642 GCAGATGAGCCTGGGCAC 60.828 66.667 14.39 8.23 44.88 5.01
7549 13455 3.332385 TGCAGATGAGCCTGGGCA 61.332 61.111 14.39 0.00 44.88 5.36
7550 13456 2.827642 GTGCAGATGAGCCTGGGC 60.828 66.667 3.00 3.00 42.33 5.36
7551 13457 2.124403 GGTGCAGATGAGCCTGGG 60.124 66.667 0.00 0.00 34.82 4.45
7552 13458 2.124403 GGGTGCAGATGAGCCTGG 60.124 66.667 0.00 0.00 34.82 4.45
7553 13459 2.513204 CGGGTGCAGATGAGCCTG 60.513 66.667 0.00 0.00 37.23 4.85
7554 13460 3.790437 CCGGGTGCAGATGAGCCT 61.790 66.667 0.00 0.00 0.00 4.58
7555 13461 2.252072 TAACCGGGTGCAGATGAGCC 62.252 60.000 0.00 0.00 0.00 4.70
7556 13462 0.811616 CTAACCGGGTGCAGATGAGC 60.812 60.000 0.00 0.00 0.00 4.26
7557 13463 0.824109 TCTAACCGGGTGCAGATGAG 59.176 55.000 0.00 0.00 0.00 2.90
7558 13464 1.271856 TTCTAACCGGGTGCAGATGA 58.728 50.000 0.00 0.00 0.00 2.92
7559 13465 2.107950 TTTCTAACCGGGTGCAGATG 57.892 50.000 0.00 0.00 0.00 2.90
7560 13466 2.871096 TTTTCTAACCGGGTGCAGAT 57.129 45.000 0.00 0.00 0.00 2.90
7561 13467 2.642154 TTTTTCTAACCGGGTGCAGA 57.358 45.000 0.00 3.87 0.00 4.26
7609 13515 9.625747 ACCACACAAATTCTATTTGGAATTTTT 57.374 25.926 14.55 4.11 46.99 1.94
7612 13518 9.308000 TCTACCACACAAATTCTATTTGGAATT 57.692 29.630 14.55 0.00 44.66 2.17
7613 13519 8.739972 GTCTACCACACAAATTCTATTTGGAAT 58.260 33.333 14.55 0.00 37.51 3.01
7614 13520 7.721842 TGTCTACCACACAAATTCTATTTGGAA 59.278 33.333 14.55 0.00 33.92 3.53
7615 13521 7.227873 TGTCTACCACACAAATTCTATTTGGA 58.772 34.615 14.55 0.85 33.92 3.53
7616 13522 7.447374 TGTCTACCACACAAATTCTATTTGG 57.553 36.000 14.55 7.65 33.92 3.28
7617 13523 9.912634 AATTGTCTACCACACAAATTCTATTTG 57.087 29.630 9.86 9.86 37.30 2.32
7619 13525 9.912634 CAAATTGTCTACCACACAAATTCTATT 57.087 29.630 0.00 0.00 37.30 1.73
7620 13526 9.295825 TCAAATTGTCTACCACACAAATTCTAT 57.704 29.630 0.00 0.00 37.30 1.98
7621 13527 8.684386 TCAAATTGTCTACCACACAAATTCTA 57.316 30.769 0.00 0.00 37.30 2.10
7622 13528 7.581213 TCAAATTGTCTACCACACAAATTCT 57.419 32.000 0.00 0.00 37.30 2.40
7623 13529 7.148755 GCATCAAATTGTCTACCACACAAATTC 60.149 37.037 0.00 0.00 37.30 2.17
7624 13530 6.646240 GCATCAAATTGTCTACCACACAAATT 59.354 34.615 0.00 0.00 37.30 1.82
7625 13531 6.158598 GCATCAAATTGTCTACCACACAAAT 58.841 36.000 0.00 0.00 37.30 2.32
7626 13532 5.068329 TGCATCAAATTGTCTACCACACAAA 59.932 36.000 0.00 0.00 37.30 2.83
7627 13533 4.582240 TGCATCAAATTGTCTACCACACAA 59.418 37.500 0.00 0.00 38.12 3.33
7628 13534 4.140536 TGCATCAAATTGTCTACCACACA 58.859 39.130 0.00 0.00 33.41 3.72
7629 13535 4.764679 TGCATCAAATTGTCTACCACAC 57.235 40.909 0.00 0.00 33.41 3.82
7630 13536 5.008980 TCATGCATCAAATTGTCTACCACA 58.991 37.500 0.00 0.00 0.00 4.17
7631 13537 5.449588 CCTCATGCATCAAATTGTCTACCAC 60.450 44.000 0.00 0.00 0.00 4.16
7632 13538 4.641541 CCTCATGCATCAAATTGTCTACCA 59.358 41.667 0.00 0.00 0.00 3.25
7633 13539 4.498682 GCCTCATGCATCAAATTGTCTACC 60.499 45.833 0.00 0.00 40.77 3.18
7634 13540 4.498682 GGCCTCATGCATCAAATTGTCTAC 60.499 45.833 0.00 0.00 43.89 2.59
7635 13541 3.633525 GGCCTCATGCATCAAATTGTCTA 59.366 43.478 0.00 0.00 43.89 2.59
7636 13542 2.429610 GGCCTCATGCATCAAATTGTCT 59.570 45.455 0.00 0.00 43.89 3.41
7637 13543 2.482490 GGGCCTCATGCATCAAATTGTC 60.482 50.000 0.84 0.00 43.89 3.18
7638 13544 1.483415 GGGCCTCATGCATCAAATTGT 59.517 47.619 0.84 0.00 43.89 2.71
7639 13545 1.537348 CGGGCCTCATGCATCAAATTG 60.537 52.381 0.84 0.00 43.89 2.32
7640 13546 0.748450 CGGGCCTCATGCATCAAATT 59.252 50.000 0.84 0.00 43.89 1.82
7641 13547 1.741327 GCGGGCCTCATGCATCAAAT 61.741 55.000 0.84 0.00 43.89 2.32
7642 13548 2.417257 GCGGGCCTCATGCATCAAA 61.417 57.895 0.84 0.00 43.89 2.69
7643 13549 2.829914 GCGGGCCTCATGCATCAA 60.830 61.111 0.84 0.00 43.89 2.57
7644 13550 3.348554 AAGCGGGCCTCATGCATCA 62.349 57.895 0.84 0.00 43.89 3.07
7645 13551 2.517875 AAGCGGGCCTCATGCATC 60.518 61.111 0.84 0.00 43.89 3.91
7646 13552 2.517875 GAAGCGGGCCTCATGCAT 60.518 61.111 0.84 0.00 43.89 3.96
7647 13553 3.565961 TTGAAGCGGGCCTCATGCA 62.566 57.895 0.84 0.00 43.89 3.96
7648 13554 1.669999 ATTTGAAGCGGGCCTCATGC 61.670 55.000 0.84 1.73 40.16 4.06
7649 13555 0.819582 AATTTGAAGCGGGCCTCATG 59.180 50.000 0.84 0.00 0.00 3.07
7650 13556 1.478105 GAAATTTGAAGCGGGCCTCAT 59.522 47.619 0.84 0.00 0.00 2.90
7651 13557 0.887933 GAAATTTGAAGCGGGCCTCA 59.112 50.000 0.84 0.00 0.00 3.86
7652 13558 0.887933 TGAAATTTGAAGCGGGCCTC 59.112 50.000 0.84 0.00 0.00 4.70
7653 13559 1.273327 CTTGAAATTTGAAGCGGGCCT 59.727 47.619 0.84 0.00 0.00 5.19
7654 13560 1.000843 ACTTGAAATTTGAAGCGGGCC 59.999 47.619 16.14 0.00 0.00 5.80
7655 13561 2.288152 TGACTTGAAATTTGAAGCGGGC 60.288 45.455 16.14 5.53 0.00 6.13
7656 13562 3.641437 TGACTTGAAATTTGAAGCGGG 57.359 42.857 16.14 0.00 0.00 6.13
7657 13563 5.107375 CCAAATGACTTGAAATTTGAAGCGG 60.107 40.000 16.14 5.14 43.41 5.52
7658 13564 5.691305 TCCAAATGACTTGAAATTTGAAGCG 59.309 36.000 16.14 0.00 43.41 4.68
7659 13565 6.479660 TGTCCAAATGACTTGAAATTTGAAGC 59.520 34.615 16.14 10.14 43.41 3.86
7660 13566 8.597662 ATGTCCAAATGACTTGAAATTTGAAG 57.402 30.769 14.85 14.85 43.41 3.02
7662 13568 9.642327 CATATGTCCAAATGACTTGAAATTTGA 57.358 29.630 9.16 0.00 43.41 2.69
7663 13569 9.642327 TCATATGTCCAAATGACTTGAAATTTG 57.358 29.630 1.90 0.00 44.75 2.32
7664 13570 9.865321 CTCATATGTCCAAATGACTTGAAATTT 57.135 29.630 1.90 0.00 44.75 1.82
7665 13571 7.977853 GCTCATATGTCCAAATGACTTGAAATT 59.022 33.333 1.90 0.00 44.75 1.82
7666 13572 7.123098 TGCTCATATGTCCAAATGACTTGAAAT 59.877 33.333 1.90 0.00 44.75 2.17
7667 13573 6.433716 TGCTCATATGTCCAAATGACTTGAAA 59.566 34.615 1.90 0.00 44.75 2.69
7668 13574 5.945191 TGCTCATATGTCCAAATGACTTGAA 59.055 36.000 1.90 0.00 44.75 2.69
7669 13575 5.499313 TGCTCATATGTCCAAATGACTTGA 58.501 37.500 1.90 0.00 44.75 3.02
7670 13576 5.732528 GCTGCTCATATGTCCAAATGACTTG 60.733 44.000 1.90 0.00 44.75 3.16
7671 13577 4.337555 GCTGCTCATATGTCCAAATGACTT 59.662 41.667 1.90 0.00 44.75 3.01
7672 13578 3.881688 GCTGCTCATATGTCCAAATGACT 59.118 43.478 1.90 0.00 44.75 3.41
7673 13579 3.881688 AGCTGCTCATATGTCCAAATGAC 59.118 43.478 1.90 0.00 44.72 3.06
7674 13580 4.132336 GAGCTGCTCATATGTCCAAATGA 58.868 43.478 24.02 0.00 0.00 2.57
7675 13581 4.135306 AGAGCTGCTCATATGTCCAAATG 58.865 43.478 29.49 0.00 32.06 2.32
7676 13582 4.387598 GAGAGCTGCTCATATGTCCAAAT 58.612 43.478 29.49 5.90 43.38 2.32
7677 13583 3.801698 GAGAGCTGCTCATATGTCCAAA 58.198 45.455 29.49 0.00 43.38 3.28
7678 13584 3.465742 GAGAGCTGCTCATATGTCCAA 57.534 47.619 29.49 0.00 43.38 3.53
7705 13611 3.610911 TGTTTTGGCCCGATTTGTTTTT 58.389 36.364 0.00 0.00 0.00 1.94
7706 13612 3.202097 CTGTTTTGGCCCGATTTGTTTT 58.798 40.909 0.00 0.00 0.00 2.43
7707 13613 2.169561 ACTGTTTTGGCCCGATTTGTTT 59.830 40.909 0.00 0.00 0.00 2.83
7708 13614 1.760029 ACTGTTTTGGCCCGATTTGTT 59.240 42.857 0.00 0.00 0.00 2.83
7709 13615 1.408969 ACTGTTTTGGCCCGATTTGT 58.591 45.000 0.00 0.00 0.00 2.83
7710 13616 2.294791 TGTACTGTTTTGGCCCGATTTG 59.705 45.455 0.00 0.00 0.00 2.32
7711 13617 2.588620 TGTACTGTTTTGGCCCGATTT 58.411 42.857 0.00 0.00 0.00 2.17
7712 13618 2.279935 TGTACTGTTTTGGCCCGATT 57.720 45.000 0.00 0.00 0.00 3.34
7713 13619 2.091541 CATGTACTGTTTTGGCCCGAT 58.908 47.619 0.00 0.00 0.00 4.18
7714 13620 1.202830 ACATGTACTGTTTTGGCCCGA 60.203 47.619 0.00 0.00 32.90 5.14
7715 13621 1.199097 GACATGTACTGTTTTGGCCCG 59.801 52.381 0.00 0.00 38.54 6.13
7716 13622 1.199097 CGACATGTACTGTTTTGGCCC 59.801 52.381 0.00 0.00 38.54 5.80
7717 13623 1.877443 ACGACATGTACTGTTTTGGCC 59.123 47.619 0.00 0.00 38.54 5.36
7718 13624 2.350388 CCACGACATGTACTGTTTTGGC 60.350 50.000 0.00 0.00 38.54 4.52
7719 13625 3.135225 TCCACGACATGTACTGTTTTGG 58.865 45.455 0.00 13.94 38.54 3.28
7720 13626 4.272504 AGTTCCACGACATGTACTGTTTTG 59.727 41.667 0.00 0.00 38.54 2.44
7721 13627 4.448210 AGTTCCACGACATGTACTGTTTT 58.552 39.130 0.00 0.00 38.54 2.43
7722 13628 4.067972 AGTTCCACGACATGTACTGTTT 57.932 40.909 0.00 0.00 38.54 2.83
7723 13629 3.746045 AGTTCCACGACATGTACTGTT 57.254 42.857 0.00 0.00 38.54 3.16
7724 13630 4.038282 TGTTAGTTCCACGACATGTACTGT 59.962 41.667 0.00 0.00 42.15 3.55
7725 13631 4.384846 GTGTTAGTTCCACGACATGTACTG 59.615 45.833 0.00 0.00 0.00 2.74
7726 13632 4.553323 GTGTTAGTTCCACGACATGTACT 58.447 43.478 0.00 0.00 0.00 2.73
7727 13633 4.898328 GTGTTAGTTCCACGACATGTAC 57.102 45.455 0.00 0.00 0.00 2.90
7742 13648 5.125097 ACACCTAGGACATCTAACGTGTTAG 59.875 44.000 17.98 12.51 42.86 2.34
7798 13704 3.995636 TCAACCCCTCTCAAGCTACTAT 58.004 45.455 0.00 0.00 0.00 2.12
7845 13751 2.335316 AACCCTTGTCTTGTGCGTTA 57.665 45.000 0.00 0.00 0.00 3.18
7881 13787 1.487300 TACCGGATGATGTTTCCCGA 58.513 50.000 9.46 0.00 44.29 5.14
8176 14082 0.107831 GGCCGGCTCATGTTATGGTA 59.892 55.000 28.56 0.00 0.00 3.25
8221 14128 4.760047 CCCAACGGCGGGTCAGAG 62.760 72.222 13.24 0.00 41.83 3.35
8337 14245 2.727392 CGGAAGTATGACCCGGCCA 61.727 63.158 2.24 0.00 39.59 5.36


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

AutoCloner maintained by Alex Coulton.