Multiple sequence alignment - TraesCS3B01G068800

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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 TraesCS3B01G068800 chr3B 100.000 3405 0 0 1 3405 40868000 40864596 0.000000e+00 6288.0
1 TraesCS3B01G068800 chr3B 83.490 1169 95 44 1953 3071 40908960 40907840 0.000000e+00 1000.0
2 TraesCS3B01G068800 chr3B 83.696 460 39 18 1151 1576 40246822 40246365 5.290000e-108 401.0
3 TraesCS3B01G068800 chr3B 85.347 389 32 15 1582 1945 40909418 40909030 2.480000e-101 379.0
4 TraesCS3B01G068800 chr3B 91.304 161 10 4 3068 3225 420877286 420877127 2.060000e-52 217.0
5 TraesCS3B01G068800 chr3B 97.087 103 3 0 848 950 382479650 382479752 1.260000e-39 174.0
6 TraesCS3B01G068800 chr3B 96.226 106 3 1 845 950 120497912 120497808 4.520000e-39 172.0
7 TraesCS3B01G068800 chr3D 93.166 1595 63 18 1057 2643 23174686 23173130 0.000000e+00 2300.0
8 TraesCS3B01G068800 chr3D 90.138 507 30 12 2710 3210 23173122 23172630 2.860000e-180 641.0
9 TraesCS3B01G068800 chr3D 91.055 436 37 1 1 434 23176918 23176483 3.790000e-164 588.0
10 TraesCS3B01G068800 chr3D 82.115 643 50 22 1963 2561 23195860 23195239 1.100000e-134 490.0
11 TraesCS3B01G068800 chr3D 88.089 403 28 13 2551 2945 23195220 23194830 8.610000e-126 460.0
12 TraesCS3B01G068800 chr3D 83.444 453 47 13 1151 1576 23064744 23064293 2.460000e-106 396.0
13 TraesCS3B01G068800 chr3D 84.358 358 38 16 436 777 23176036 23175681 5.440000e-88 335.0
14 TraesCS3B01G068800 chr3D 85.606 264 22 5 1690 1950 23196176 23195926 2.610000e-66 263.0
15 TraesCS3B01G068800 chr3D 89.873 158 14 2 3070 3225 61184578 61184735 5.760000e-48 202.0
16 TraesCS3B01G068800 chr3D 96.117 103 4 0 848 950 359257840 359257738 5.840000e-38 169.0
17 TraesCS3B01G068800 chr3D 91.667 120 3 4 3259 3378 23172629 23172517 3.520000e-35 159.0
18 TraesCS3B01G068800 chr3D 79.781 183 22 8 2035 2205 474216214 474216035 5.970000e-23 119.0
19 TraesCS3B01G068800 chr3D 90.909 66 2 3 995 1057 23174771 23174707 6.050000e-13 86.1
20 TraesCS3B01G068800 chr3A 91.436 1156 57 16 1942 3071 32252323 32251184 0.000000e+00 1548.0
21 TraesCS3B01G068800 chr3A 90.096 1040 63 14 1942 2963 731226467 731225450 0.000000e+00 1314.0
22 TraesCS3B01G068800 chr3A 93.316 763 46 3 1050 1812 32253144 32252387 0.000000e+00 1122.0
23 TraesCS3B01G068800 chr3A 91.299 770 31 12 1050 1812 731227271 731226531 0.000000e+00 1018.0
24 TraesCS3B01G068800 chr3A 86.427 501 39 12 2575 3071 32385044 32384569 3.890000e-144 521.0
25 TraesCS3B01G068800 chr3A 81.804 643 49 24 1963 2561 32385728 32385110 8.550000e-131 477.0
26 TraesCS3B01G068800 chr3A 84.889 450 43 11 1151 1576 32153003 32152555 6.750000e-117 431.0
27 TraesCS3B01G068800 chr3A 81.982 444 43 23 2447 2860 610783694 610783258 3.250000e-90 342.0
28 TraesCS3B01G068800 chr3A 80.465 430 57 15 436 847 32286643 32286223 1.540000e-78 303.0
29 TraesCS3B01G068800 chr3A 82.143 168 20 6 3221 3388 32251185 32251028 5.930000e-28 135.0
30 TraesCS3B01G068800 chr3A 97.959 49 1 0 1847 1895 731226533 731226485 6.050000e-13 86.1
31 TraesCS3B01G068800 chr3A 93.878 49 3 0 1847 1895 32252389 32252341 1.310000e-09 75.0
32 TraesCS3B01G068800 chr7D 90.847 437 37 1 1120 1556 157758721 157758288 1.760000e-162 582.0
33 TraesCS3B01G068800 chr7D 90.968 155 12 2 3070 3222 457148795 457148949 1.240000e-49 207.0
34 TraesCS3B01G068800 chr1D 83.002 453 49 13 1151 1576 225396657 225397108 5.330000e-103 385.0
35 TraesCS3B01G068800 chr1D 97.087 103 3 0 848 950 198197437 198197335 1.260000e-39 174.0
36 TraesCS3B01G068800 chr1D 96.117 103 4 0 848 950 270901003 270900901 5.840000e-38 169.0
37 TraesCS3B01G068800 chr7A 90.566 159 13 2 3066 3222 130229537 130229695 3.440000e-50 209.0
38 TraesCS3B01G068800 chr5D 90.323 155 13 2 3070 3222 462567379 462567533 5.760000e-48 202.0
39 TraesCS3B01G068800 chr5D 88.095 168 17 3 3061 3225 136115834 136115667 2.680000e-46 196.0
40 TraesCS3B01G068800 chr4D 90.323 155 13 2 3070 3222 428383406 428383560 5.760000e-48 202.0
41 TraesCS3B01G068800 chr4D 96.117 103 4 0 848 950 410130728 410130830 5.840000e-38 169.0
42 TraesCS3B01G068800 chr5B 88.690 168 14 4 3058 3222 455163701 455163866 2.070000e-47 200.0
43 TraesCS3B01G068800 chr7B 97.087 103 3 0 848 950 440145913 440146015 1.260000e-39 174.0
44 TraesCS3B01G068800 chr6D 96.117 103 4 0 848 950 345490303 345490405 5.840000e-38 169.0
45 TraesCS3B01G068800 chr1B 94.545 110 5 1 841 950 485063713 485063821 5.840000e-38 169.0
46 TraesCS3B01G068800 chr1B 80.769 182 25 8 2032 2205 499896509 499896688 2.130000e-27 134.0
47 TraesCS3B01G068800 chr1A 80.000 180 30 5 2032 2205 474450712 474450533 9.920000e-26 128.0


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 TraesCS3B01G068800 chr3B 40864596 40868000 3404 True 6288.000000 6288 100.00000 1 3405 1 chr3B.!!$R2 3404
1 TraesCS3B01G068800 chr3B 40907840 40909418 1578 True 689.500000 1000 84.41850 1582 3071 2 chr3B.!!$R5 1489
2 TraesCS3B01G068800 chr3D 23172517 23176918 4401 True 684.850000 2300 90.21550 1 3378 6 chr3D.!!$R4 3377
3 TraesCS3B01G068800 chr3D 23194830 23196176 1346 True 404.333333 490 85.27000 1690 2945 3 chr3D.!!$R5 1255
4 TraesCS3B01G068800 chr3A 731225450 731227271 1821 True 806.033333 1314 93.11800 1050 2963 3 chr3A.!!$R6 1913
5 TraesCS3B01G068800 chr3A 32251028 32253144 2116 True 720.000000 1548 90.19325 1050 3388 4 chr3A.!!$R4 2338
6 TraesCS3B01G068800 chr3A 32384569 32385728 1159 True 499.000000 521 84.11550 1963 3071 2 chr3A.!!$R5 1108

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
475 923 0.035439 GAGATTTGGTGGCGAGGGAA 60.035 55.0 0.00 0.0 0.00 3.97 F
868 1332 0.107831 ACACAGCTTCGGTGCCTTAA 59.892 50.0 2.73 0.0 39.87 1.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2040 3519 1.413077 CCAATCCCCTCTTCCGTACTC 59.587 57.143 0.0 0.0 0.0 2.59 R
2675 4271 0.824109 TAGCATTCCCTGTCTGTCCG 59.176 55.000 0.0 0.0 0.0 4.79 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
72 75 9.844790 TGTATTGTTTTTGCTCTATTTCATCTG 57.155 29.630 0.00 0.00 0.00 2.90
95 98 8.479689 TCTGGAAAGTATACGATTGGTTATCAA 58.520 33.333 0.00 0.00 40.01 2.57
108 111 7.009448 CGATTGGTTATCAAAATGACAATGTGG 59.991 37.037 0.00 0.00 39.05 4.17
110 113 5.541868 TGGTTATCAAAATGACAATGTGGGT 59.458 36.000 0.00 0.00 0.00 4.51
121 124 5.814481 TGACAATGTGGGTAGATGAATTCA 58.186 37.500 11.26 11.26 0.00 2.57
137 140 6.172136 TGAATTCAAAGAATCCCAAAAGCA 57.828 33.333 5.45 0.00 0.00 3.91
141 144 2.730550 AAGAATCCCAAAAGCAAGCG 57.269 45.000 0.00 0.00 0.00 4.68
189 192 9.352191 AGTGTAGGTTATGATATAACTTCTCGT 57.648 33.333 10.49 0.00 0.00 4.18
217 220 2.356069 GCTCTACCAAGTAGCAATTGCC 59.644 50.000 26.45 12.52 43.38 4.52
251 254 7.159372 ACCCAATACTTCTGTAACTAGTTGTG 58.841 38.462 18.56 8.00 31.80 3.33
270 273 0.388294 GTATACACAGAGGTCCCGGC 59.612 60.000 0.00 0.00 0.00 6.13
284 287 1.452651 CCGGCCTGTCATCTTGCAT 60.453 57.895 0.00 0.00 0.00 3.96
287 290 1.466856 GGCCTGTCATCTTGCATCAA 58.533 50.000 0.00 0.00 0.00 2.57
289 292 1.404391 GCCTGTCATCTTGCATCAAGG 59.596 52.381 6.71 0.00 41.33 3.61
296 299 0.548031 TCTTGCATCAAGGCCCCTAG 59.452 55.000 0.00 0.00 41.33 3.02
310 313 3.449227 CTAGCGTGTCAGGGCCGA 61.449 66.667 0.00 0.00 0.00 5.54
335 338 2.662857 CATCGCCATCGTCGCCAT 60.663 61.111 0.00 0.00 36.96 4.40
351 354 5.003402 CGTCGCCATCAATAACAAAAATGAC 59.997 40.000 0.00 0.00 0.00 3.06
360 363 7.136119 TCAATAACAAAAATGACGACCAACTC 58.864 34.615 0.00 0.00 0.00 3.01
366 369 1.244816 ATGACGACCAACTCACGAGA 58.755 50.000 0.00 0.00 0.00 4.04
394 397 1.267121 AGAGCGTTGGAGCCTTCTTA 58.733 50.000 0.00 0.00 38.01 2.10
398 401 2.237392 AGCGTTGGAGCCTTCTTAAGAT 59.763 45.455 5.89 0.00 38.01 2.40
445 893 9.961264 AAGAGATAGATATATGACCGTGTTCTA 57.039 33.333 0.00 0.00 0.00 2.10
471 919 6.808008 ATATAAATGAGATTTGGTGGCGAG 57.192 37.500 0.00 0.00 33.82 5.03
473 921 0.107017 ATGAGATTTGGTGGCGAGGG 60.107 55.000 0.00 0.00 0.00 4.30
475 923 0.035439 GAGATTTGGTGGCGAGGGAA 60.035 55.000 0.00 0.00 0.00 3.97
476 924 0.322546 AGATTTGGTGGCGAGGGAAC 60.323 55.000 0.00 0.00 0.00 3.62
477 925 0.608035 GATTTGGTGGCGAGGGAACA 60.608 55.000 0.00 0.00 0.00 3.18
480 928 0.178975 TTGGTGGCGAGGGAACAAAT 60.179 50.000 0.00 0.00 0.00 2.32
481 929 0.693622 TGGTGGCGAGGGAACAAATA 59.306 50.000 0.00 0.00 0.00 1.40
482 930 1.092348 GGTGGCGAGGGAACAAATAC 58.908 55.000 0.00 0.00 0.00 1.89
499 954 8.877864 AACAAATACTGTTCCCAATCTATCAA 57.122 30.769 0.00 0.00 45.50 2.57
503 958 7.865706 ATACTGTTCCCAATCTATCAAACAC 57.134 36.000 0.00 0.00 0.00 3.32
530 985 5.649557 TGTGTTTGTTTTCAATCTGTCAGG 58.350 37.500 0.00 0.00 39.70 3.86
534 989 2.622942 TGTTTTCAATCTGTCAGGCACC 59.377 45.455 0.00 0.00 0.00 5.01
540 995 3.264193 TCAATCTGTCAGGCACCATAACT 59.736 43.478 0.00 0.00 0.00 2.24
553 1016 4.083537 GCACCATAACTTTCATGTTCGTGA 60.084 41.667 0.00 0.00 0.00 4.35
554 1017 5.561919 GCACCATAACTTTCATGTTCGTGAA 60.562 40.000 3.68 3.68 36.38 3.18
556 1019 6.915300 CACCATAACTTTCATGTTCGTGAAAA 59.085 34.615 17.17 7.06 44.76 2.29
557 1020 7.433719 CACCATAACTTTCATGTTCGTGAAAAA 59.566 33.333 17.17 9.19 44.76 1.94
558 1021 7.647715 ACCATAACTTTCATGTTCGTGAAAAAG 59.352 33.333 17.17 11.22 44.76 2.27
563 1026 7.949186 ACTTTCATGTTCGTGAAAAAGTTTTC 58.051 30.769 17.17 9.17 44.76 2.29
564 1027 6.879188 TTCATGTTCGTGAAAAAGTTTTCC 57.121 33.333 12.71 0.00 44.48 3.13
575 1038 9.549509 CGTGAAAAAGTTTTCCGATAAATATGA 57.450 29.630 12.71 0.00 44.48 2.15
632 1096 8.954834 AATTTATCCATTTACATATCAGCCCA 57.045 30.769 0.00 0.00 0.00 5.36
656 1120 9.025041 CCAAGAAGTATTTTTAGTTGGGAGATT 57.975 33.333 0.00 0.00 31.21 2.40
661 1125 9.807921 AAGTATTTTTAGTTGGGAGATTGAAGA 57.192 29.630 0.00 0.00 0.00 2.87
673 1137 7.012607 TGGGAGATTGAAGAAAGGAAGAAAAT 58.987 34.615 0.00 0.00 0.00 1.82
674 1138 7.039504 TGGGAGATTGAAGAAAGGAAGAAAATG 60.040 37.037 0.00 0.00 0.00 2.32
679 1143 8.599055 ATTGAAGAAAGGAAGAAAATGAAAGC 57.401 30.769 0.00 0.00 0.00 3.51
682 1146 5.763088 AGAAAGGAAGAAAATGAAAGCGTC 58.237 37.500 0.00 0.00 0.00 5.19
688 1152 6.262273 AGGAAGAAAATGAAAGCGTCTTAACA 59.738 34.615 0.00 0.00 0.00 2.41
750 1214 6.854892 GCACGAGCGTTCTATTAGTTAGAATA 59.145 38.462 0.00 0.00 46.11 1.75
815 1279 7.492352 ACTATAAAGGCATTACCGTCATTTC 57.508 36.000 0.00 0.00 46.52 2.17
817 1281 7.773690 ACTATAAAGGCATTACCGTCATTTCTT 59.226 33.333 0.00 0.00 46.52 2.52
822 1286 4.023193 GGCATTACCGTCATTTCTTATGGG 60.023 45.833 0.00 0.00 0.00 4.00
824 1288 5.049405 GCATTACCGTCATTTCTTATGGGAG 60.049 44.000 0.00 0.00 0.00 4.30
825 1289 3.560636 ACCGTCATTTCTTATGGGAGG 57.439 47.619 0.00 0.00 0.00 4.30
826 1290 2.844348 ACCGTCATTTCTTATGGGAGGT 59.156 45.455 0.00 0.00 0.00 3.85
827 1291 3.118371 ACCGTCATTTCTTATGGGAGGTC 60.118 47.826 0.00 0.00 0.00 3.85
828 1292 3.118408 CCGTCATTTCTTATGGGAGGTCA 60.118 47.826 0.00 0.00 0.00 4.02
830 1294 4.752101 CGTCATTTCTTATGGGAGGTCATC 59.248 45.833 0.00 0.00 0.00 2.92
831 1295 4.752101 GTCATTTCTTATGGGAGGTCATCG 59.248 45.833 0.00 0.00 0.00 3.84
832 1296 4.408921 TCATTTCTTATGGGAGGTCATCGT 59.591 41.667 0.00 0.00 0.00 3.73
833 1297 3.819564 TTCTTATGGGAGGTCATCGTG 57.180 47.619 0.00 0.00 0.00 4.35
834 1298 1.412710 TCTTATGGGAGGTCATCGTGC 59.587 52.381 0.00 0.00 0.00 5.34
835 1299 1.138859 CTTATGGGAGGTCATCGTGCA 59.861 52.381 0.00 0.00 0.00 4.57
836 1300 0.464036 TATGGGAGGTCATCGTGCAC 59.536 55.000 6.82 6.82 0.00 4.57
837 1301 2.125106 GGGAGGTCATCGTGCACC 60.125 66.667 12.15 0.00 0.00 5.01
838 1302 2.509336 GGAGGTCATCGTGCACCG 60.509 66.667 12.15 6.81 37.79 4.94
839 1303 2.509336 GAGGTCATCGTGCACCGG 60.509 66.667 12.15 0.00 37.79 5.28
840 1304 4.760047 AGGTCATCGTGCACCGGC 62.760 66.667 12.15 1.01 37.79 6.13
843 1307 4.758251 TCATCGTGCACCGGCCAG 62.758 66.667 12.15 0.00 40.13 4.85
844 1308 4.758251 CATCGTGCACCGGCCAGA 62.758 66.667 12.15 1.31 40.13 3.86
845 1309 4.760047 ATCGTGCACCGGCCAGAC 62.760 66.667 12.15 0.00 40.13 3.51
856 1320 4.008933 GCCAGACCGGACACAGCT 62.009 66.667 9.46 0.00 36.56 4.24
857 1321 2.743718 CCAGACCGGACACAGCTT 59.256 61.111 9.46 0.00 36.56 3.74
858 1322 1.374758 CCAGACCGGACACAGCTTC 60.375 63.158 9.46 0.00 36.56 3.86
859 1323 1.734477 CAGACCGGACACAGCTTCG 60.734 63.158 9.46 0.00 0.00 3.79
860 1324 2.432628 GACCGGACACAGCTTCGG 60.433 66.667 9.46 0.00 46.95 4.30
862 1326 2.738521 CCGGACACAGCTTCGGTG 60.739 66.667 0.00 1.32 41.95 4.94
863 1327 3.414700 CGGACACAGCTTCGGTGC 61.415 66.667 2.73 0.00 39.87 5.01
864 1328 3.050275 GGACACAGCTTCGGTGCC 61.050 66.667 2.73 2.38 39.87 5.01
865 1329 2.031163 GACACAGCTTCGGTGCCT 59.969 61.111 2.73 0.00 39.87 4.75
866 1330 1.598130 GACACAGCTTCGGTGCCTT 60.598 57.895 2.73 0.00 39.87 4.35
867 1331 0.320421 GACACAGCTTCGGTGCCTTA 60.320 55.000 2.73 0.00 39.87 2.69
868 1332 0.107831 ACACAGCTTCGGTGCCTTAA 59.892 50.000 2.73 0.00 39.87 1.85
869 1333 1.234821 CACAGCTTCGGTGCCTTAAA 58.765 50.000 0.00 0.00 34.04 1.52
870 1334 1.197721 CACAGCTTCGGTGCCTTAAAG 59.802 52.381 0.00 0.00 34.04 1.85
871 1335 0.804989 CAGCTTCGGTGCCTTAAAGG 59.195 55.000 0.00 0.00 38.80 3.11
887 1351 2.075837 AGGCACCTACCTTTGGGTC 58.924 57.895 0.00 0.00 45.98 4.46
888 1352 0.770557 AGGCACCTACCTTTGGGTCA 60.771 55.000 0.00 0.00 45.98 4.02
889 1353 0.608308 GGCACCTACCTTTGGGTCAC 60.608 60.000 0.00 0.00 45.98 3.67
890 1354 0.400594 GCACCTACCTTTGGGTCACT 59.599 55.000 0.00 0.00 45.98 3.41
891 1355 1.882352 GCACCTACCTTTGGGTCACTG 60.882 57.143 0.00 0.00 45.98 3.66
892 1356 1.697432 CACCTACCTTTGGGTCACTGA 59.303 52.381 0.00 0.00 45.98 3.41
893 1357 1.697982 ACCTACCTTTGGGTCACTGAC 59.302 52.381 0.00 0.00 45.98 3.51
894 1358 1.697432 CCTACCTTTGGGTCACTGACA 59.303 52.381 11.34 0.00 45.98 3.58
895 1359 2.305927 CCTACCTTTGGGTCACTGACAT 59.694 50.000 11.34 0.00 45.98 3.06
896 1360 2.276732 ACCTTTGGGTCACTGACATG 57.723 50.000 11.34 0.00 43.38 3.21
897 1361 1.494721 ACCTTTGGGTCACTGACATGT 59.505 47.619 11.34 0.00 43.38 3.21
898 1362 1.881973 CCTTTGGGTCACTGACATGTG 59.118 52.381 1.15 0.00 39.15 3.21
899 1363 1.881973 CTTTGGGTCACTGACATGTGG 59.118 52.381 1.15 0.00 38.40 4.17
900 1364 0.110295 TTGGGTCACTGACATGTGGG 59.890 55.000 1.15 0.00 38.40 4.61
901 1365 1.675641 GGGTCACTGACATGTGGGC 60.676 63.158 1.15 0.00 38.40 5.36
902 1366 1.675641 GGTCACTGACATGTGGGCC 60.676 63.158 1.15 0.00 38.40 5.80
903 1367 1.073025 GTCACTGACATGTGGGCCA 59.927 57.895 1.15 0.00 38.40 5.36
904 1368 0.957395 GTCACTGACATGTGGGCCAG 60.957 60.000 6.40 6.93 38.40 4.85
905 1369 2.034687 ACTGACATGTGGGCCAGC 59.965 61.111 6.40 2.28 0.00 4.85
906 1370 2.753043 CTGACATGTGGGCCAGCC 60.753 66.667 6.40 0.00 0.00 4.85
907 1371 3.572447 CTGACATGTGGGCCAGCCA 62.572 63.158 6.40 1.84 37.98 4.75
908 1372 3.064324 GACATGTGGGCCAGCCAC 61.064 66.667 6.40 4.05 37.98 5.01
909 1373 4.684134 ACATGTGGGCCAGCCACC 62.684 66.667 6.40 0.00 37.38 4.61
910 1374 4.371417 CATGTGGGCCAGCCACCT 62.371 66.667 6.40 0.00 37.38 4.00
911 1375 4.371417 ATGTGGGCCAGCCACCTG 62.371 66.667 6.40 0.00 37.38 4.00
913 1377 4.603535 GTGGGCCAGCCACCTGTT 62.604 66.667 6.40 0.00 37.38 3.16
914 1378 4.284550 TGGGCCAGCCACCTGTTC 62.285 66.667 11.50 0.00 37.38 3.18
922 1386 4.263572 CCACCTGTTCGGCCCACA 62.264 66.667 0.00 0.00 35.61 4.17
923 1387 2.034066 CACCTGTTCGGCCCACAT 59.966 61.111 0.00 0.00 35.61 3.21
924 1388 2.034066 ACCTGTTCGGCCCACATG 59.966 61.111 0.00 0.00 35.61 3.21
925 1389 2.034066 CCTGTTCGGCCCACATGT 59.966 61.111 0.00 0.00 0.00 3.21
926 1390 2.040544 CCTGTTCGGCCCACATGTC 61.041 63.158 0.00 0.00 0.00 3.06
927 1391 1.302431 CTGTTCGGCCCACATGTCA 60.302 57.895 0.00 0.00 0.00 3.58
928 1392 0.677731 CTGTTCGGCCCACATGTCAT 60.678 55.000 0.00 0.00 0.00 3.06
929 1393 0.615850 TGTTCGGCCCACATGTCATA 59.384 50.000 0.00 0.00 0.00 2.15
930 1394 1.299541 GTTCGGCCCACATGTCATAG 58.700 55.000 0.00 0.00 0.00 2.23
931 1395 1.134521 GTTCGGCCCACATGTCATAGA 60.135 52.381 0.00 0.00 0.00 1.98
932 1396 0.464036 TCGGCCCACATGTCATAGAC 59.536 55.000 0.00 0.00 0.00 2.59
933 1397 0.177836 CGGCCCACATGTCATAGACA 59.822 55.000 0.00 1.95 46.90 3.41
946 1410 5.914033 TGTCATAGACATAAAGGTAGGTGC 58.086 41.667 0.00 0.00 37.67 5.01
947 1411 5.163343 TGTCATAGACATAAAGGTAGGTGCC 60.163 44.000 0.00 0.00 37.67 5.01
948 1412 5.070580 GTCATAGACATAAAGGTAGGTGCCT 59.929 44.000 0.00 0.00 34.81 4.75
949 1413 6.408206 GTCATAGACATAAAGGTAGGTGCCTT 60.408 42.308 0.00 0.00 40.22 4.35
950 1414 8.165185 GTCATAGACATAAAGGTAGGTGCCTTC 61.165 44.444 0.00 0.00 38.91 3.46
971 1435 1.823610 GTCCGGCCAGACCCTATATAC 59.176 57.143 8.00 0.00 33.26 1.47
988 1452 7.785028 CCCTATATACAGGCTATCCTTGTATCA 59.215 40.741 9.54 2.63 41.93 2.15
992 1456 3.257393 CAGGCTATCCTTGTATCATCGC 58.743 50.000 0.00 0.00 41.93 4.58
1001 1479 2.820059 TGTATCATCGCTAAGCCCAG 57.180 50.000 0.00 0.00 0.00 4.45
1073 2385 4.592997 TGTCTCCTGTTCATCTCCTCTA 57.407 45.455 0.00 0.00 0.00 2.43
1093 2405 6.657117 CCTCTAATCCTCGTCAAGATCAGATA 59.343 42.308 0.00 0.00 0.00 1.98
1174 2486 3.204827 CATGAAGCGCCCTTCCGG 61.205 66.667 2.29 0.00 45.53 5.14
1197 2509 4.530857 CGGCTGGTCGTGATCCCC 62.531 72.222 0.00 0.00 0.00 4.81
1687 3009 4.618460 CGAGCACAGGTGAGTATAGTGTTT 60.618 45.833 3.10 0.00 32.99 2.83
1874 3215 2.783135 TCAACCATGGAAGAACTGCTC 58.217 47.619 21.47 0.00 0.00 4.26
1950 3378 2.364324 AGCATGATGTTTGATGGCCATC 59.636 45.455 34.71 34.71 38.29 3.51
1972 3400 5.944135 TCCAGCAAGAATTCATGATCCATA 58.056 37.500 14.62 0.00 0.00 2.74
1973 3401 5.766670 TCCAGCAAGAATTCATGATCCATAC 59.233 40.000 14.62 0.00 0.00 2.39
1974 3402 5.768662 CCAGCAAGAATTCATGATCCATACT 59.231 40.000 14.62 0.00 0.00 2.12
1975 3403 6.294010 CCAGCAAGAATTCATGATCCATACTG 60.294 42.308 14.62 9.35 0.00 2.74
1976 3404 6.485648 CAGCAAGAATTCATGATCCATACTGA 59.514 38.462 14.62 0.00 0.00 3.41
1977 3405 7.175119 CAGCAAGAATTCATGATCCATACTGAT 59.825 37.037 14.62 0.00 0.00 2.90
2018 3497 1.005748 GCCTTGTTCTTTGGCCAGC 60.006 57.895 5.11 0.00 40.71 4.85
2040 3519 1.909302 TGTTCCTCTTAGGCCTGAAGG 59.091 52.381 17.99 18.66 34.61 3.46
2141 3620 4.184629 CGCAGAAGTACTTTATCAGGCTT 58.815 43.478 10.02 0.00 0.00 4.35
2142 3621 4.033358 CGCAGAAGTACTTTATCAGGCTTG 59.967 45.833 10.02 0.00 0.00 4.01
2231 3719 0.107017 CCTCGCCATCCCAGTGATTT 60.107 55.000 0.00 0.00 0.00 2.17
2312 3803 4.025401 CACCAAGAACACGGCGCC 62.025 66.667 19.07 19.07 0.00 6.53
2455 3963 3.557185 CGCTGTATTAGAAGATGCAAGCA 59.443 43.478 0.00 0.00 0.00 3.91
2538 4073 8.010733 TGAAGTAATTGATCATGGGGATTTTC 57.989 34.615 0.00 0.00 36.00 2.29
2563 4158 2.665165 ACATAGCAGAGAGAGGAGGTG 58.335 52.381 0.00 0.00 0.00 4.00
2643 4239 0.332632 TCAGGGGAAAAGGATGCAGG 59.667 55.000 0.00 0.00 0.00 4.85
2672 4268 7.484140 TGTCTAGAACTTGATGCTGTAGTATG 58.516 38.462 0.00 0.00 0.00 2.39
2675 4271 8.191446 TCTAGAACTTGATGCTGTAGTATGTTC 58.809 37.037 0.00 0.00 33.64 3.18
2676 4272 5.807520 AGAACTTGATGCTGTAGTATGTTCG 59.192 40.000 0.00 0.00 37.11 3.95
2691 4287 1.001974 TGTTCGGACAGACAGGGAATG 59.998 52.381 0.00 0.00 0.00 2.67
2708 4304 3.452474 GAATGCTAGTGCTCAGTACTGG 58.548 50.000 22.48 13.97 40.48 4.00
2767 4365 1.280421 GGATCCTGCTTTCTGGTCAGT 59.720 52.381 3.84 0.00 33.50 3.41
2927 4560 4.887071 ACCAAAATGAGTTTGCAGTGAGTA 59.113 37.500 0.00 0.00 44.57 2.59
2985 4618 7.913674 ACTTTTTCCTTGATTACAGCTCTAG 57.086 36.000 0.00 0.00 0.00 2.43
3027 4660 2.954989 TGACCTTTGCATTGCTTGTGTA 59.045 40.909 10.49 0.00 0.00 2.90
3035 4668 6.761731 TTGCATTGCTTGTGTACAATTAAC 57.238 33.333 10.49 0.00 34.32 2.01
3078 4712 5.735733 TCCTTCTCTTGTATACTCCCTCT 57.264 43.478 4.17 0.00 0.00 3.69
3216 4851 9.780186 AAAAGGTCTTATATTAAGGAATCGAGG 57.220 33.333 0.00 0.00 0.00 4.63
3217 4852 7.483580 AGGTCTTATATTAAGGAATCGAGGG 57.516 40.000 0.00 0.00 0.00 4.30
3218 4853 7.246763 AGGTCTTATATTAAGGAATCGAGGGA 58.753 38.462 0.00 0.00 0.00 4.20
3219 4854 7.397761 AGGTCTTATATTAAGGAATCGAGGGAG 59.602 40.741 0.00 0.00 0.00 4.30
3220 4855 7.178805 GGTCTTATATTAAGGAATCGAGGGAGT 59.821 40.741 0.00 0.00 0.00 3.85
3221 4856 9.240734 GTCTTATATTAAGGAATCGAGGGAGTA 57.759 37.037 0.00 0.00 0.00 2.59
3227 4862 4.028993 AGGAATCGAGGGAGTAGATCTC 57.971 50.000 0.00 0.00 42.07 2.75
3257 4892 6.884836 ACTAATGATGATGATGATGATGGTGG 59.115 38.462 0.00 0.00 0.00 4.61
3269 4904 0.039618 GATGGTGGTGGTGGTGGATT 59.960 55.000 0.00 0.00 0.00 3.01
3304 4939 9.525826 AATGGAATTAGAAATGAGTCAGACTTT 57.474 29.630 4.05 0.00 32.46 2.66
3305 4940 8.924511 TGGAATTAGAAATGAGTCAGACTTTT 57.075 30.769 4.05 2.03 0.00 2.27
3306 4941 9.003658 TGGAATTAGAAATGAGTCAGACTTTTC 57.996 33.333 15.76 15.76 34.13 2.29
3307 4942 9.225436 GGAATTAGAAATGAGTCAGACTTTTCT 57.775 33.333 24.30 24.30 41.30 2.52
3313 4948 3.676291 GAGTCAGACTTTTCTGCCTCT 57.324 47.619 4.05 1.08 46.89 3.69
3314 4949 3.584834 GAGTCAGACTTTTCTGCCTCTC 58.415 50.000 4.05 5.83 46.89 3.20
3315 4950 3.006323 GAGTCAGACTTTTCTGCCTCTCA 59.994 47.826 4.05 0.00 46.89 3.27
3316 4951 4.322650 GAGTCAGACTTTTCTGCCTCTCAT 60.323 45.833 4.05 0.00 46.89 2.90
3362 4997 5.964887 TCAACTTTTGCAAAATCTTTCCG 57.035 34.783 24.06 13.26 0.00 4.30
3378 5013 0.035439 TCCGTCTCTCCATTTTGGCC 60.035 55.000 0.00 0.00 37.47 5.36
3381 5016 1.467920 GTCTCTCCATTTTGGCCCTG 58.532 55.000 0.00 0.00 37.47 4.45
3388 5023 2.158325 TCCATTTTGGCCCTGTTCTTCT 60.158 45.455 0.00 0.00 37.47 2.85
3389 5024 2.634453 CCATTTTGGCCCTGTTCTTCTT 59.366 45.455 0.00 0.00 0.00 2.52
3390 5025 3.555586 CCATTTTGGCCCTGTTCTTCTTG 60.556 47.826 0.00 0.00 0.00 3.02
3391 5026 1.039856 TTTGGCCCTGTTCTTCTTGC 58.960 50.000 0.00 0.00 0.00 4.01
3392 5027 0.827507 TTGGCCCTGTTCTTCTTGCC 60.828 55.000 0.00 0.00 39.33 4.52
3393 5028 1.979155 GGCCCTGTTCTTCTTGCCC 60.979 63.158 0.00 0.00 32.74 5.36
3394 5029 1.075659 GCCCTGTTCTTCTTGCCCT 59.924 57.895 0.00 0.00 0.00 5.19
3395 5030 0.962855 GCCCTGTTCTTCTTGCCCTC 60.963 60.000 0.00 0.00 0.00 4.30
3396 5031 0.401738 CCCTGTTCTTCTTGCCCTCA 59.598 55.000 0.00 0.00 0.00 3.86
3397 5032 1.005215 CCCTGTTCTTCTTGCCCTCAT 59.995 52.381 0.00 0.00 0.00 2.90
3398 5033 2.556114 CCCTGTTCTTCTTGCCCTCATT 60.556 50.000 0.00 0.00 0.00 2.57
3399 5034 2.490903 CCTGTTCTTCTTGCCCTCATTG 59.509 50.000 0.00 0.00 0.00 2.82
3400 5035 3.415212 CTGTTCTTCTTGCCCTCATTGA 58.585 45.455 0.00 0.00 0.00 2.57
3401 5036 3.415212 TGTTCTTCTTGCCCTCATTGAG 58.585 45.455 6.70 6.70 0.00 3.02
3402 5037 3.072915 TGTTCTTCTTGCCCTCATTGAGA 59.927 43.478 15.36 0.00 0.00 3.27
3403 5038 4.074970 GTTCTTCTTGCCCTCATTGAGAA 58.925 43.478 15.36 0.99 0.00 2.87
3404 5039 4.371624 TCTTCTTGCCCTCATTGAGAAA 57.628 40.909 15.36 5.87 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 53 7.523293 TCCAGATGAAATAGAGCAAAAACAA 57.477 32.000 0.00 0.00 0.00 2.83
82 85 7.009448 CCACATTGTCATTTTGATAACCAATCG 59.991 37.037 0.00 0.00 37.42 3.34
84 87 7.104939 CCCACATTGTCATTTTGATAACCAAT 58.895 34.615 0.00 0.00 30.39 3.16
95 98 7.396907 TGAATTCATCTACCCACATTGTCATTT 59.603 33.333 3.38 0.00 0.00 2.32
101 104 7.395190 TCTTTGAATTCATCTACCCACATTG 57.605 36.000 9.40 0.00 0.00 2.82
104 107 6.603201 GGATTCTTTGAATTCATCTACCCACA 59.397 38.462 9.40 0.00 0.00 4.17
108 111 7.645058 TTGGGATTCTTTGAATTCATCTACC 57.355 36.000 9.40 8.35 0.00 3.18
110 113 8.253113 GCTTTTGGGATTCTTTGAATTCATCTA 58.747 33.333 9.40 0.00 0.00 1.98
121 124 2.627699 TCGCTTGCTTTTGGGATTCTTT 59.372 40.909 0.00 0.00 0.00 2.52
179 182 5.353678 GGTAGAGCTAGTTCACGAGAAGTTA 59.646 44.000 9.43 0.00 38.36 2.24
189 192 4.341487 TGCTACTTGGTAGAGCTAGTTCA 58.659 43.478 9.43 0.00 38.29 3.18
217 220 4.755123 ACAGAAGTATTGGGTTGTTCTTCG 59.245 41.667 0.00 0.00 37.12 3.79
251 254 0.388294 GCCGGGACCTCTGTGTATAC 59.612 60.000 2.18 0.00 0.00 1.47
270 273 1.404391 GCCTTGATGCAAGATGACAGG 59.596 52.381 8.64 0.00 43.42 4.00
284 287 2.606519 ACACGCTAGGGGCCTTGA 60.607 61.111 11.95 0.00 37.74 3.02
287 290 3.077556 CTGACACGCTAGGGGCCT 61.078 66.667 11.95 0.00 37.74 5.19
317 320 4.889856 TGGCGACGATGGCGATGG 62.890 66.667 0.00 0.00 41.64 3.51
321 324 0.943835 TATTGATGGCGACGATGGCG 60.944 55.000 0.00 0.00 44.79 5.69
335 338 7.033530 AGTTGGTCGTCATTTTTGTTATTGA 57.966 32.000 0.00 0.00 0.00 2.57
351 354 1.129326 GTTGTCTCGTGAGTTGGTCG 58.871 55.000 0.00 0.00 0.00 4.79
360 363 4.017380 ACGCTCTATTAGTTGTCTCGTG 57.983 45.455 0.00 0.00 0.00 4.35
366 369 3.522553 GCTCCAACGCTCTATTAGTTGT 58.477 45.455 6.77 0.00 42.45 3.32
394 397 2.653726 TCACAAGTGTGTTGCCATCTT 58.346 42.857 11.06 0.00 45.76 2.40
398 401 2.049888 TGATCACAAGTGTGTTGCCA 57.950 45.000 11.06 3.34 45.76 4.92
417 420 9.915629 GAACACGGTCATATATCTATCTCTTTT 57.084 33.333 0.00 0.00 0.00 2.27
445 893 8.006298 TCGCCACCAAATCTCATTTATATTTT 57.994 30.769 0.00 0.00 0.00 1.82
456 904 0.035439 TTCCCTCGCCACCAAATCTC 60.035 55.000 0.00 0.00 0.00 2.75
475 923 8.739972 GTTTGATAGATTGGGAACAGTATTTGT 58.260 33.333 0.00 0.00 44.54 2.83
476 924 8.739039 TGTTTGATAGATTGGGAACAGTATTTG 58.261 33.333 0.00 0.00 44.54 2.32
477 925 8.739972 GTGTTTGATAGATTGGGAACAGTATTT 58.260 33.333 0.00 0.00 44.54 1.40
480 928 6.177610 GGTGTTTGATAGATTGGGAACAGTA 58.822 40.000 0.00 0.00 44.54 2.74
481 929 5.010282 GGTGTTTGATAGATTGGGAACAGT 58.990 41.667 0.00 0.00 44.54 3.55
482 930 5.009631 TGGTGTTTGATAGATTGGGAACAG 58.990 41.667 0.00 0.00 44.54 3.16
503 958 6.534436 TGACAGATTGAAAACAAACACAATGG 59.466 34.615 0.00 0.00 33.92 3.16
510 965 4.504097 GTGCCTGACAGATTGAAAACAAAC 59.496 41.667 3.32 0.00 0.00 2.93
515 970 2.942804 TGGTGCCTGACAGATTGAAAA 58.057 42.857 3.32 0.00 0.00 2.29
530 985 4.083537 TCACGAACATGAAAGTTATGGTGC 60.084 41.667 0.00 0.00 32.20 5.01
534 989 8.560576 ACTTTTTCACGAACATGAAAGTTATG 57.439 30.769 0.00 0.00 46.44 1.90
540 995 6.034044 CGGAAAACTTTTTCACGAACATGAAA 59.966 34.615 14.74 0.00 46.34 2.69
626 1090 6.389906 CCAACTAAAAATACTTCTTGGGCTG 58.610 40.000 0.00 0.00 0.00 4.85
628 1092 5.479027 TCCCAACTAAAAATACTTCTTGGGC 59.521 40.000 7.56 0.00 44.17 5.36
632 1096 9.807921 TCAATCTCCCAACTAAAAATACTTCTT 57.192 29.630 0.00 0.00 0.00 2.52
656 1120 6.183360 ACGCTTTCATTTTCTTCCTTTCTTCA 60.183 34.615 0.00 0.00 0.00 3.02
661 1125 5.774498 AGACGCTTTCATTTTCTTCCTTT 57.226 34.783 0.00 0.00 0.00 3.11
788 1252 9.569122 AAATGACGGTAATGCCTTTATAGTATT 57.431 29.630 0.00 0.00 34.25 1.89
789 1253 9.216117 GAAATGACGGTAATGCCTTTATAGTAT 57.784 33.333 0.00 0.00 34.25 2.12
792 1256 7.730364 AGAAATGACGGTAATGCCTTTATAG 57.270 36.000 0.00 0.00 34.25 1.31
798 1262 4.821805 CCATAAGAAATGACGGTAATGCCT 59.178 41.667 0.00 0.00 34.25 4.75
802 1266 5.132144 ACCTCCCATAAGAAATGACGGTAAT 59.868 40.000 0.00 0.00 0.00 1.89
815 1279 1.138859 TGCACGATGACCTCCCATAAG 59.861 52.381 0.00 0.00 0.00 1.73
817 1281 0.464036 GTGCACGATGACCTCCCATA 59.536 55.000 0.00 0.00 0.00 2.74
839 1303 3.537206 AAGCTGTGTCCGGTCTGGC 62.537 63.158 0.00 2.20 37.80 4.85
840 1304 1.374758 GAAGCTGTGTCCGGTCTGG 60.375 63.158 0.00 0.00 40.09 3.86
841 1305 1.734477 CGAAGCTGTGTCCGGTCTG 60.734 63.158 0.00 0.00 0.00 3.51
842 1306 2.651361 CGAAGCTGTGTCCGGTCT 59.349 61.111 0.00 0.00 0.00 3.85
843 1307 2.432628 CCGAAGCTGTGTCCGGTC 60.433 66.667 0.00 0.00 37.40 4.79
845 1309 2.738521 CACCGAAGCTGTGTCCGG 60.739 66.667 0.00 0.00 46.65 5.14
846 1310 3.414700 GCACCGAAGCTGTGTCCG 61.415 66.667 4.76 0.00 36.11 4.79
847 1311 3.050275 GGCACCGAAGCTGTGTCC 61.050 66.667 4.76 3.30 36.11 4.02
848 1312 0.320421 TAAGGCACCGAAGCTGTGTC 60.320 55.000 0.00 0.00 38.60 3.67
849 1313 0.107831 TTAAGGCACCGAAGCTGTGT 59.892 50.000 4.76 0.00 36.11 3.72
850 1314 1.197721 CTTTAAGGCACCGAAGCTGTG 59.802 52.381 0.00 0.00 36.79 3.66
851 1315 1.523758 CTTTAAGGCACCGAAGCTGT 58.476 50.000 0.00 0.00 34.17 4.40
852 1316 0.804989 CCTTTAAGGCACCGAAGCTG 59.195 55.000 0.00 0.00 34.17 4.24
853 1317 3.249687 CCTTTAAGGCACCGAAGCT 57.750 52.632 0.00 0.00 34.17 3.74
878 1342 1.881973 CACATGTCAGTGACCCAAAGG 59.118 52.381 20.43 6.15 42.05 3.11
879 1343 1.881973 CCACATGTCAGTGACCCAAAG 59.118 52.381 20.43 8.14 42.05 2.77
880 1344 1.478471 CCCACATGTCAGTGACCCAAA 60.478 52.381 20.43 1.95 42.05 3.28
881 1345 0.110295 CCCACATGTCAGTGACCCAA 59.890 55.000 20.43 2.34 42.05 4.12
882 1346 1.760527 CCCACATGTCAGTGACCCA 59.239 57.895 20.43 3.20 42.05 4.51
883 1347 1.675641 GCCCACATGTCAGTGACCC 60.676 63.158 20.43 0.00 42.05 4.46
884 1348 1.675641 GGCCCACATGTCAGTGACC 60.676 63.158 20.43 2.99 42.05 4.02
885 1349 0.957395 CTGGCCCACATGTCAGTGAC 60.957 60.000 16.68 16.68 42.05 3.67
886 1350 1.376086 CTGGCCCACATGTCAGTGA 59.624 57.895 0.00 0.00 42.05 3.41
887 1351 2.338015 GCTGGCCCACATGTCAGTG 61.338 63.158 12.37 0.00 39.21 3.66
888 1352 2.034687 GCTGGCCCACATGTCAGT 59.965 61.111 12.37 0.00 0.00 3.41
889 1353 2.753043 GGCTGGCCCACATGTCAG 60.753 66.667 0.00 7.70 0.00 3.51
890 1354 3.578286 TGGCTGGCCCACATGTCA 61.578 61.111 9.28 0.00 39.18 3.58
897 1361 4.284550 GAACAGGTGGCTGGCCCA 62.285 66.667 9.28 0.00 42.79 5.36
905 1369 3.567579 ATGTGGGCCGAACAGGTGG 62.568 63.158 14.47 0.00 43.70 4.61
906 1370 2.034066 ATGTGGGCCGAACAGGTG 59.966 61.111 14.47 0.00 43.70 4.00
907 1371 2.034066 CATGTGGGCCGAACAGGT 59.966 61.111 14.47 0.00 43.70 4.00
908 1372 2.034066 ACATGTGGGCCGAACAGG 59.966 61.111 17.38 17.38 44.97 4.00
909 1373 0.677731 ATGACATGTGGGCCGAACAG 60.678 55.000 1.15 9.52 0.00 3.16
910 1374 0.615850 TATGACATGTGGGCCGAACA 59.384 50.000 1.15 11.89 0.00 3.18
911 1375 1.134521 TCTATGACATGTGGGCCGAAC 60.135 52.381 1.15 0.00 0.00 3.95
912 1376 1.134521 GTCTATGACATGTGGGCCGAA 60.135 52.381 1.15 0.00 32.09 4.30
913 1377 0.464036 GTCTATGACATGTGGGCCGA 59.536 55.000 1.15 0.00 32.09 5.54
914 1378 0.177836 TGTCTATGACATGTGGGCCG 59.822 55.000 1.15 0.00 37.67 6.13
922 1386 8.573566 AGGCACCTACCTTTATGTCTATGACAT 61.574 40.741 15.99 15.99 45.64 3.06
923 1387 5.163343 GGCACCTACCTTTATGTCTATGACA 60.163 44.000 2.77 2.77 46.90 3.58
924 1388 5.070580 AGGCACCTACCTTTATGTCTATGAC 59.929 44.000 0.00 0.00 36.28 3.06
925 1389 5.216622 AGGCACCTACCTTTATGTCTATGA 58.783 41.667 0.00 0.00 36.28 2.15
926 1390 5.552870 AGGCACCTACCTTTATGTCTATG 57.447 43.478 0.00 0.00 36.28 2.23
937 1401 2.348888 CGGACGAAGGCACCTACCT 61.349 63.158 0.00 0.00 43.91 3.08
938 1402 2.183555 CGGACGAAGGCACCTACC 59.816 66.667 0.00 0.00 0.00 3.18
939 1403 2.183555 CCGGACGAAGGCACCTAC 59.816 66.667 0.00 0.00 0.00 3.18
946 1410 4.452733 GGTCTGGCCGGACGAAGG 62.453 72.222 33.29 0.00 37.12 3.46
947 1411 4.452733 GGGTCTGGCCGGACGAAG 62.453 72.222 33.29 8.93 38.44 3.79
948 1412 2.866523 ATAGGGTCTGGCCGGACGAA 62.867 60.000 33.29 22.78 38.44 3.85
949 1413 1.998444 TATAGGGTCTGGCCGGACGA 61.998 60.000 33.29 23.02 38.44 4.20
950 1414 0.898789 ATATAGGGTCTGGCCGGACG 60.899 60.000 33.29 6.72 38.44 4.79
951 1415 1.823610 GTATATAGGGTCTGGCCGGAC 59.176 57.143 33.19 33.19 38.44 4.79
952 1416 1.430075 TGTATATAGGGTCTGGCCGGA 59.570 52.381 11.27 11.27 38.44 5.14
971 1435 3.056250 AGCGATGATACAAGGATAGCCTG 60.056 47.826 0.00 0.00 46.28 4.85
988 1452 3.643792 AGATAAACTCTGGGCTTAGCGAT 59.356 43.478 0.00 0.00 31.12 4.58
990 1454 3.460857 AGATAAACTCTGGGCTTAGCG 57.539 47.619 0.00 0.00 31.12 4.26
992 1456 9.084533 AGATAAGTAGATAAACTCTGGGCTTAG 57.915 37.037 0.00 0.00 35.28 2.18
1073 2385 7.504403 ACAAATATCTGATCTTGACGAGGATT 58.496 34.615 15.46 0.00 0.00 3.01
1093 2405 3.099905 TGACGAGGAGAGATGGACAAAT 58.900 45.455 0.00 0.00 0.00 2.32
1174 2486 2.227089 ATCACGACCAGCCGAGGAAC 62.227 60.000 0.00 0.00 0.00 3.62
1687 3009 5.535753 TCACAAGACAGTGAGATCAGAAA 57.464 39.130 0.00 0.00 43.18 2.52
1950 3378 5.768662 AGTATGGATCATGAATTCTTGCTGG 59.231 40.000 14.84 0.00 0.00 4.85
1972 3400 2.304180 AGCTTCAGCAACCAGTATCAGT 59.696 45.455 0.75 0.00 45.16 3.41
1973 3401 2.676839 CAGCTTCAGCAACCAGTATCAG 59.323 50.000 0.75 0.00 45.16 2.90
1974 3402 2.302733 TCAGCTTCAGCAACCAGTATCA 59.697 45.455 0.75 0.00 45.16 2.15
1975 3403 2.977914 TCAGCTTCAGCAACCAGTATC 58.022 47.619 0.75 0.00 45.16 2.24
1976 3404 3.054875 TGATCAGCTTCAGCAACCAGTAT 60.055 43.478 0.75 0.00 45.16 2.12
1977 3405 2.302733 TGATCAGCTTCAGCAACCAGTA 59.697 45.455 0.75 0.00 45.16 2.74
2018 3497 3.604582 CTTCAGGCCTAAGAGGAACAAG 58.395 50.000 3.98 0.00 37.67 3.16
2040 3519 1.413077 CCAATCCCCTCTTCCGTACTC 59.587 57.143 0.00 0.00 0.00 2.59
2141 3620 3.970410 CTTGCCACCCCTGAGCCA 61.970 66.667 0.00 0.00 0.00 4.75
2142 3621 4.748144 CCTTGCCACCCCTGAGCC 62.748 72.222 0.00 0.00 0.00 4.70
2219 3707 6.017211 TGGTTGATCATAAATCACTGGGAT 57.983 37.500 0.00 0.00 38.05 3.85
2231 3719 1.473257 GCGCTGGACTGGTTGATCATA 60.473 52.381 0.00 0.00 0.00 2.15
2277 3767 4.441695 TCGGCTGGCAGCGAGAAG 62.442 66.667 31.22 19.37 43.62 2.85
2526 4061 4.038402 GCTATGTTCTGGAAAATCCCCATG 59.962 45.833 0.00 0.00 35.03 3.66
2538 4073 3.295093 TCCTCTCTCTGCTATGTTCTGG 58.705 50.000 0.00 0.00 0.00 3.86
2563 4158 1.580845 GCATCACCACTCACCAGCAC 61.581 60.000 0.00 0.00 0.00 4.40
2643 4239 4.125703 CAGCATCAAGTTCTAGACATCCC 58.874 47.826 0.00 0.00 0.00 3.85
2672 4268 1.726853 CATTCCCTGTCTGTCCGAAC 58.273 55.000 0.00 0.00 0.00 3.95
2675 4271 0.824109 TAGCATTCCCTGTCTGTCCG 59.176 55.000 0.00 0.00 0.00 4.79
2676 4272 1.834263 ACTAGCATTCCCTGTCTGTCC 59.166 52.381 0.00 0.00 0.00 4.02
2691 4287 1.819288 TGACCAGTACTGAGCACTAGC 59.181 52.381 24.68 4.71 42.56 3.42
2708 4304 3.558505 GTCACTTGACAATGTGCATGAC 58.441 45.455 4.43 0.00 44.18 3.06
2767 4365 8.739039 CATGAGTAAGGTTTCCAATAACATGAA 58.261 33.333 0.00 0.00 34.26 2.57
2927 4560 2.762327 CAAGGCAGGTAAATGCTGGATT 59.238 45.455 0.00 0.00 45.75 3.01
3238 4873 3.756963 CCACCACCATCATCATCATCATC 59.243 47.826 0.00 0.00 0.00 2.92
3239 4874 3.139584 ACCACCACCATCATCATCATCAT 59.860 43.478 0.00 0.00 0.00 2.45
3254 4889 2.641197 GTGAATCCACCACCACCAC 58.359 57.895 0.00 0.00 37.33 4.16
3269 4904 6.436847 TCATTTCTAATTCCATTGCTTGGTGA 59.563 34.615 6.22 0.00 46.52 4.02
3304 4939 1.830279 CCAAAGCATGAGAGGCAGAA 58.170 50.000 0.00 0.00 0.00 3.02
3305 4940 0.679002 GCCAAAGCATGAGAGGCAGA 60.679 55.000 12.24 0.00 44.59 4.26
3306 4941 1.807886 GCCAAAGCATGAGAGGCAG 59.192 57.895 12.24 0.00 44.59 4.85
3307 4942 4.007457 GCCAAAGCATGAGAGGCA 57.993 55.556 12.24 0.00 44.59 4.75
3308 4943 4.007457 TGCCAAAGCATGAGAGGC 57.993 55.556 0.00 4.32 46.52 4.70
3362 4997 1.272147 ACAGGGCCAAAATGGAGAGAC 60.272 52.381 6.18 0.00 40.96 3.36
3378 5013 2.490903 CAATGAGGGCAAGAAGAACAGG 59.509 50.000 0.00 0.00 0.00 4.00
3381 5016 3.679389 TCTCAATGAGGGCAAGAAGAAC 58.321 45.455 10.71 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.