Multiple sequence alignment - TraesCS7A01G377900

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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 TraesCS7A01G377900 chr7A 100.000 5778 0 0 1 5778 553363921 553369698 0.000000e+00 10671
1 TraesCS7A01G377900 chr7D 95.413 4949 180 26 749 5665 485025248 485030181 0.000000e+00 7838
2 TraesCS7A01G377900 chr7D 90.391 281 16 7 3 274 485024607 485024885 5.500000e-95 359
3 TraesCS7A01G377900 chr7D 86.853 251 15 9 295 533 485025008 485025252 1.230000e-66 265
4 TraesCS7A01G377900 chr7B 89.865 3473 339 11 775 4240 512694818 512698284 0.000000e+00 4451
5 TraesCS7A01G377900 chr7B 88.494 3268 356 17 978 4240 512707592 512710844 0.000000e+00 3934
6 TraesCS7A01G377900 chr7B 87.328 3275 378 23 989 4240 663120325 663117065 0.000000e+00 3714
7 TraesCS7A01G377900 chr7B 92.319 1315 77 9 4330 5634 512698425 512699725 0.000000e+00 1847
8 TraesCS7A01G377900 chr7B 92.003 1288 75 14 4331 5601 512710953 512712229 0.000000e+00 1783
9 TraesCS7A01G377900 chr7B 83.647 691 90 10 4342 5016 663116698 663116015 3.800000e-176 628
10 TraesCS7A01G377900 chr7B 80.382 576 64 13 53 602 512706469 512707021 5.430000e-105 392
11 TraesCS7A01G377900 chr7B 85.312 320 25 14 291 602 512694008 512694313 1.560000e-80 311
12 TraesCS7A01G377900 chr7B 77.583 571 67 36 417 956 512692981 512693521 7.330000e-74 289
13 TraesCS7A01G377900 chr7B 93.750 80 4 1 5587 5665 512712243 512712322 1.020000e-22 119
14 TraesCS7A01G377900 chr6D 83.350 985 154 6 3255 4237 1413807 1412831 0.000000e+00 902
15 TraesCS7A01G377900 chr6D 76.612 1163 248 20 3086 4238 157441343 157440195 2.290000e-173 619
16 TraesCS7A01G377900 chr6D 79.238 525 101 8 3635 4155 157666496 157667016 5.500000e-95 359
17 TraesCS7A01G377900 chr6D 82.317 164 27 2 4366 4528 157593785 157593947 2.170000e-29 141
18 TraesCS7A01G377900 chr6B 81.312 1113 192 12 3130 4237 5731924 5733025 0.000000e+00 889
19 TraesCS7A01G377900 chr6B 74.466 983 216 27 3209 4177 715638109 715637148 5.430000e-105 392
20 TraesCS7A01G377900 chr5B 80.615 325 59 4 3635 3957 516085608 516085930 1.240000e-61 248


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 TraesCS7A01G377900 chr7A 553363921 553369698 5777 False 10671.000000 10671 100.000000 1 5778 1 chr7A.!!$F1 5777
1 TraesCS7A01G377900 chr7D 485024607 485030181 5574 False 2820.666667 7838 90.885667 3 5665 3 chr7D.!!$F1 5662
2 TraesCS7A01G377900 chr7B 663116015 663120325 4310 True 2171.000000 3714 85.487500 989 5016 2 chr7B.!!$R1 4027
3 TraesCS7A01G377900 chr7B 512692981 512699725 6744 False 1724.500000 4451 86.269750 291 5634 4 chr7B.!!$F1 5343
4 TraesCS7A01G377900 chr7B 512706469 512712322 5853 False 1557.000000 3934 88.657250 53 5665 4 chr7B.!!$F2 5612
5 TraesCS7A01G377900 chr6D 1412831 1413807 976 True 902.000000 902 83.350000 3255 4237 1 chr6D.!!$R1 982
6 TraesCS7A01G377900 chr6D 157440195 157441343 1148 True 619.000000 619 76.612000 3086 4238 1 chr6D.!!$R2 1152
7 TraesCS7A01G377900 chr6D 157666496 157667016 520 False 359.000000 359 79.238000 3635 4155 1 chr6D.!!$F2 520
8 TraesCS7A01G377900 chr6B 5731924 5733025 1101 False 889.000000 889 81.312000 3130 4237 1 chr6B.!!$F1 1107
9 TraesCS7A01G377900 chr6B 715637148 715638109 961 True 392.000000 392 74.466000 3209 4177 1 chr6B.!!$R1 968


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
499 1271 0.322546 CTCCCTTAACCTGGCACACC 60.323 60.0 0.00 0.0 0.00 4.16 F
1135 2368 0.036294 GCTCCCCGTGCTAGTTTCTT 60.036 55.0 0.00 0.0 0.00 2.52 F
1744 2977 0.036732 TCTAGGCCACAACCAGCTTG 59.963 55.0 5.01 0.0 35.77 4.01 F
2361 3614 0.469144 TGGGAAACAACCTTCCAGGC 60.469 55.0 4.84 0.0 45.86 4.85 F
2876 4129 1.578897 TCGATCCCTCCCACATTCAA 58.421 50.0 0.00 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1759 2992 0.674895 ACAAGGTTGCTGATCTCCGC 60.675 55.000 0.00 0.0 0.00 5.54 R
2568 3821 0.394938 TGCTTAGGCTGGACACGAAA 59.605 50.000 0.00 0.0 39.59 3.46 R
2572 3825 1.135286 GCAATTGCTTAGGCTGGACAC 60.135 52.381 23.21 0.0 39.59 3.67 R
4197 5455 0.179062 AGCCGATTGTGCCTCTCATC 60.179 55.000 0.00 0.0 0.00 2.92 R
4841 6392 0.905357 TTGGAACTAGCTGGAGCCTC 59.095 55.000 3.17 0.0 43.38 4.70 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
17 18 4.069232 CGGCTTGCCTCCACTCGA 62.069 66.667 10.12 0.00 0.00 4.04
129 133 2.819608 CTCCTTCCATTTTTCGGCAGAA 59.180 45.455 0.00 0.00 33.98 3.02
162 166 4.493547 CTCCTCAATGTTGACTGAGAGAC 58.506 47.826 10.05 0.00 41.38 3.36
165 169 5.012458 TCCTCAATGTTGACTGAGAGACAAT 59.988 40.000 0.68 0.00 41.38 2.71
209 213 6.538021 GCATCACTAGTTCAGATTCTTCACAT 59.462 38.462 0.00 0.00 0.00 3.21
217 227 7.759465 AGTTCAGATTCTTCACATGCAAATAG 58.241 34.615 0.00 0.00 0.00 1.73
218 228 6.127810 TCAGATTCTTCACATGCAAATAGC 57.872 37.500 0.00 0.00 45.96 2.97
247 257 1.032657 TAGCAGACACCTCTCGCCTC 61.033 60.000 0.00 0.00 0.00 4.70
278 289 1.525077 TGTCCCCAGCAACGACAAC 60.525 57.895 0.00 0.00 33.72 3.32
283 294 0.588252 CCCAGCAACGACAACAAGAG 59.412 55.000 0.00 0.00 0.00 2.85
285 296 1.528586 CCAGCAACGACAACAAGAGAG 59.471 52.381 0.00 0.00 0.00 3.20
288 299 2.158957 AGCAACGACAACAAGAGAGGAA 60.159 45.455 0.00 0.00 0.00 3.36
289 300 2.808543 GCAACGACAACAAGAGAGGAAT 59.191 45.455 0.00 0.00 0.00 3.01
290 301 3.120511 GCAACGACAACAAGAGAGGAATC 60.121 47.826 0.00 0.00 0.00 2.52
292 303 4.608948 ACGACAACAAGAGAGGAATCTT 57.391 40.909 0.00 0.00 40.17 2.40
387 1156 2.730672 GCGACAGTGACACGGATGC 61.731 63.158 12.91 11.17 0.00 3.91
496 1268 3.079578 GTTTACTCCCTTAACCTGGCAC 58.920 50.000 0.00 0.00 0.00 5.01
497 1269 2.032965 TACTCCCTTAACCTGGCACA 57.967 50.000 0.00 0.00 0.00 4.57
498 1270 0.400594 ACTCCCTTAACCTGGCACAC 59.599 55.000 0.00 0.00 0.00 3.82
499 1271 0.322546 CTCCCTTAACCTGGCACACC 60.323 60.000 0.00 0.00 0.00 4.16
500 1272 1.063070 TCCCTTAACCTGGCACACCA 61.063 55.000 0.00 0.00 46.51 4.17
512 1284 2.898612 TGGCACACCATGATGTTTCATT 59.101 40.909 0.00 0.00 42.67 2.57
534 1314 5.511234 TTAGCTCCGTTAACTCCATAGTC 57.489 43.478 3.71 0.00 33.75 2.59
536 1316 3.633065 AGCTCCGTTAACTCCATAGTCTC 59.367 47.826 3.71 0.00 33.75 3.36
546 1326 3.052566 ACTCCATAGTCTCCATCCACTCA 60.053 47.826 0.00 0.00 0.00 3.41
547 1327 3.570540 TCCATAGTCTCCATCCACTCAG 58.429 50.000 0.00 0.00 0.00 3.35
551 1331 2.733956 AGTCTCCATCCACTCAGACTC 58.266 52.381 0.00 0.00 41.47 3.36
553 1333 1.359130 TCTCCATCCACTCAGACTCCA 59.641 52.381 0.00 0.00 0.00 3.86
559 1339 2.113807 TCCACTCAGACTCCATCCATG 58.886 52.381 0.00 0.00 0.00 3.66
560 1340 1.836166 CCACTCAGACTCCATCCATGT 59.164 52.381 0.00 0.00 0.00 3.21
561 1341 3.033909 CCACTCAGACTCCATCCATGTA 58.966 50.000 0.00 0.00 0.00 2.29
562 1342 3.181471 CCACTCAGACTCCATCCATGTAC 60.181 52.174 0.00 0.00 0.00 2.90
563 1343 3.448660 CACTCAGACTCCATCCATGTACA 59.551 47.826 0.00 0.00 0.00 2.90
594 1374 5.191722 TCTCAAGGTAAACAATCTAGGCCAT 59.808 40.000 5.01 0.00 0.00 4.40
637 1438 0.605589 ACCTTGCGAGTCTGAAGAGG 59.394 55.000 0.00 0.00 0.00 3.69
644 1445 0.735632 GAGTCTGAAGAGGCTGCACG 60.736 60.000 0.50 0.00 32.84 5.34
662 1495 3.546815 GCACGCAGCATAAGATTTGGTAG 60.547 47.826 0.00 0.00 44.79 3.18
664 1497 3.871594 ACGCAGCATAAGATTTGGTAGTC 59.128 43.478 0.00 0.00 0.00 2.59
690 1523 9.226606 CAACTTGGGATACAACTAATCAGTTAA 57.773 33.333 0.00 0.00 43.30 2.01
727 1603 8.058915 GTCATCGAGAACATGCTTAGTTAATTC 58.941 37.037 0.00 0.00 0.00 2.17
730 1606 8.186178 TCGAGAACATGCTTAGTTAATTCTTC 57.814 34.615 0.00 0.00 0.00 2.87
731 1607 8.035394 TCGAGAACATGCTTAGTTAATTCTTCT 58.965 33.333 0.00 0.00 0.00 2.85
732 1608 8.324567 CGAGAACATGCTTAGTTAATTCTTCTC 58.675 37.037 0.00 0.00 0.00 2.87
733 1609 9.377312 GAGAACATGCTTAGTTAATTCTTCTCT 57.623 33.333 0.00 0.00 31.30 3.10
734 1610 9.732130 AGAACATGCTTAGTTAATTCTTCTCTT 57.268 29.630 0.00 0.00 0.00 2.85
735 1611 9.980780 GAACATGCTTAGTTAATTCTTCTCTTC 57.019 33.333 0.00 0.00 0.00 2.87
736 1612 9.732130 AACATGCTTAGTTAATTCTTCTCTTCT 57.268 29.630 0.00 0.00 0.00 2.85
737 1613 9.160496 ACATGCTTAGTTAATTCTTCTCTTCTG 57.840 33.333 0.00 0.00 0.00 3.02
738 1614 8.610896 CATGCTTAGTTAATTCTTCTCTTCTGG 58.389 37.037 0.00 0.00 0.00 3.86
740 1616 6.595716 GCTTAGTTAATTCTTCTCTTCTGGCA 59.404 38.462 0.00 0.00 0.00 4.92
742 1618 9.823647 CTTAGTTAATTCTTCTCTTCTGGCATA 57.176 33.333 0.00 0.00 0.00 3.14
743 1619 9.601217 TTAGTTAATTCTTCTCTTCTGGCATAC 57.399 33.333 0.00 0.00 0.00 2.39
745 1621 8.103305 AGTTAATTCTTCTCTTCTGGCATACAA 58.897 33.333 0.00 0.00 0.00 2.41
746 1622 8.897752 GTTAATTCTTCTCTTCTGGCATACAAT 58.102 33.333 0.00 0.00 0.00 2.71
748 1624 8.443953 AATTCTTCTCTTCTGGCATACAATAC 57.556 34.615 0.00 0.00 0.00 1.89
749 1625 6.544928 TCTTCTCTTCTGGCATACAATACA 57.455 37.500 0.00 0.00 0.00 2.29
750 1626 7.129457 TCTTCTCTTCTGGCATACAATACAT 57.871 36.000 0.00 0.00 0.00 2.29
751 1627 8.250143 TCTTCTCTTCTGGCATACAATACATA 57.750 34.615 0.00 0.00 0.00 2.29
752 1628 8.363390 TCTTCTCTTCTGGCATACAATACATAG 58.637 37.037 0.00 0.00 0.00 2.23
753 1629 6.459066 TCTCTTCTGGCATACAATACATAGC 58.541 40.000 0.00 0.00 0.00 2.97
754 1630 6.268617 TCTCTTCTGGCATACAATACATAGCT 59.731 38.462 0.00 0.00 0.00 3.32
758 1634 8.417273 TTCTGGCATACAATACATAGCTAGTA 57.583 34.615 0.00 2.75 33.18 1.82
826 1956 3.508762 GCAGATTCTCAATTGCACAAGG 58.491 45.455 0.00 0.00 36.59 3.61
934 2067 2.633481 ACTTGAGTACTCTGTTGACCCC 59.367 50.000 23.01 0.00 0.00 4.95
1000 2224 5.412640 CATGAATTATTGAGCAACTTGCCA 58.587 37.500 10.25 5.59 46.52 4.92
1087 2319 0.672342 AAGTGAGCAAAAGCAGCCAG 59.328 50.000 0.00 0.00 0.00 4.85
1088 2320 1.372623 GTGAGCAAAAGCAGCCAGC 60.373 57.895 0.00 0.00 46.19 4.85
1135 2368 0.036294 GCTCCCCGTGCTAGTTTCTT 60.036 55.000 0.00 0.00 0.00 2.52
1172 2405 2.920384 TAGCACGGGGTCAGCACA 60.920 61.111 0.00 0.00 0.00 4.57
1224 2457 1.291588 CAGCGACCACTCTGCTCTT 59.708 57.895 0.00 0.00 36.69 2.85
1227 2460 0.735632 GCGACCACTCTGCTCTTCTG 60.736 60.000 0.00 0.00 0.00 3.02
1237 2470 2.301296 TCTGCTCTTCTGTCCTTCAAGG 59.699 50.000 0.00 0.00 36.46 3.61
1271 2504 2.362120 CCCCTTGCAAGCTCTGGG 60.362 66.667 21.43 20.65 37.68 4.45
1453 2686 3.846430 GCCTAGCCGGTAACCGCT 61.846 66.667 1.90 0.00 46.86 5.52
1456 2689 1.514087 CTAGCCGGTAACCGCTTGA 59.486 57.895 1.90 0.00 46.86 3.02
1657 2890 0.179134 CCTGGGTTTACTCGAGCTCG 60.179 60.000 30.03 30.03 41.45 5.03
1738 2971 0.824759 ACTCGATCTAGGCCACAACC 59.175 55.000 5.01 0.00 0.00 3.77
1744 2977 0.036732 TCTAGGCCACAACCAGCTTG 59.963 55.000 5.01 0.00 35.77 4.01
1745 2978 0.962356 CTAGGCCACAACCAGCTTGG 60.962 60.000 5.01 0.00 45.02 3.61
1782 3015 2.485814 GGAGATCAGCAACCTTGTGAAC 59.514 50.000 0.00 0.00 0.00 3.18
1790 3023 2.486548 GCAACCTTGTGAACCTGGAGTA 60.487 50.000 0.00 0.00 0.00 2.59
1855 3088 4.076394 TGGCATAGGTAACCTTGTCAAAC 58.924 43.478 0.00 0.00 34.61 2.93
1885 3118 7.917505 ACACACTTTCTCTGAATTCAAATCAAC 59.082 33.333 9.88 0.00 0.00 3.18
1959 3192 1.203174 AGCCTGGCCACAAATAACCTT 60.203 47.619 16.57 0.00 0.00 3.50
2015 3248 8.112016 TCATATCTCTCGGTACTCAATTTAGG 57.888 38.462 0.00 0.00 0.00 2.69
2090 3323 2.822561 TCTCTGCCATATCTCTTAGCCG 59.177 50.000 0.00 0.00 0.00 5.52
2122 3355 1.551430 CTGGCCAAATTCCAGCATCAA 59.449 47.619 7.01 0.00 43.88 2.57
2180 3413 7.987458 TCTGTCATTCAATAATCTTACAGGTCC 59.013 37.037 0.00 0.00 32.87 4.46
2361 3614 0.469144 TGGGAAACAACCTTCCAGGC 60.469 55.000 4.84 0.00 45.86 4.85
2397 3650 6.039717 TCCTTGCAGCTTATAATCAATTCCAC 59.960 38.462 0.00 0.00 0.00 4.02
2401 3654 5.221048 GCAGCTTATAATCAATTCCACGGTT 60.221 40.000 0.00 0.00 0.00 4.44
2568 3821 2.224159 ACAAGATGCCGACTGGGGT 61.224 57.895 0.00 0.00 35.78 4.95
2572 3825 2.046314 ATGCCGACTGGGGTTTCG 60.046 61.111 0.00 0.00 35.78 3.46
2741 3994 2.989840 CTGAAGTAGTGGCGAACTTGAG 59.010 50.000 3.99 1.99 40.56 3.02
2875 4128 1.694150 GATCGATCCCTCCCACATTCA 59.306 52.381 14.76 0.00 0.00 2.57
2876 4129 1.578897 TCGATCCCTCCCACATTCAA 58.421 50.000 0.00 0.00 0.00 2.69
2951 4204 3.323403 AGCATACCTTCTAGTCTCATGGC 59.677 47.826 0.00 0.00 0.00 4.40
2993 4246 2.168313 ACCTTTCAAACAACAGCCTTGG 59.832 45.455 0.00 0.00 0.00 3.61
3042 4295 8.958119 TCCTTATAAACACATTGTCCATCTAC 57.042 34.615 0.00 0.00 0.00 2.59
3049 4302 5.423015 ACACATTGTCCATCTACATGAGAC 58.577 41.667 0.00 0.00 36.87 3.36
3265 4518 5.693961 TGAAAGCCCTATTGATGCTTGATA 58.306 37.500 0.00 0.00 44.11 2.15
3348 4601 8.571461 TTGCTAGTTTGAATCTCTCATTCAAT 57.429 30.769 9.89 0.94 44.45 2.57
4197 5455 4.770795 AGAAATCAACTAGTTGGGGATCG 58.229 43.478 30.35 8.00 40.78 3.69
4452 5988 2.775890 ACTGTTGCTGGAGATGTTCAG 58.224 47.619 0.00 0.00 0.00 3.02
4471 6007 2.035066 CAGTGGAAAAAGGCCAACAGAG 59.965 50.000 5.01 0.00 37.12 3.35
4597 6133 2.366266 TGGCAAAGAAAGCAGCTCAAAT 59.634 40.909 0.00 0.00 0.00 2.32
4606 6142 6.000219 AGAAAGCAGCTCAAATTCTAACAGA 59.000 36.000 5.42 0.00 0.00 3.41
4675 6211 3.376546 GGATTTCATGCTCACAAGAGACC 59.623 47.826 0.00 0.00 44.98 3.85
4748 6284 5.815233 AAGAGACAGATTTGACAAGGAGA 57.185 39.130 0.00 0.00 0.00 3.71
4907 6462 9.632807 GTGTTTTGTGGAATATTTGCTGTATTA 57.367 29.630 0.00 0.00 0.00 0.98
5031 6588 7.022055 TGTTGTAATAATCAGCCGGTTATTG 57.978 36.000 14.78 4.97 33.75 1.90
5043 6600 2.800544 CCGGTTATTGAGATTAGCGTGG 59.199 50.000 0.00 0.00 34.92 4.94
5104 6662 6.722590 TCACCATGGACCTATATAACACGTAT 59.277 38.462 21.47 0.00 0.00 3.06
5124 6682 1.741770 CGTCCCTGCCTAACAGCAC 60.742 63.158 0.00 0.00 45.78 4.40
5144 6703 2.629656 CGCTTCCAGCCCCACTTTG 61.630 63.158 0.00 0.00 38.18 2.77
5182 6741 4.891168 TGCCTTATGTATTCTCCACGACTA 59.109 41.667 0.00 0.00 0.00 2.59
5228 6796 4.141846 CCAGAACAATGCTTAGCTAGGAGA 60.142 45.833 7.11 0.00 0.00 3.71
5279 6847 4.521943 CTTCACGCAATGCTTAGCTTATC 58.478 43.478 5.60 0.00 0.00 1.75
5280 6848 3.797039 TCACGCAATGCTTAGCTTATCT 58.203 40.909 5.60 0.00 0.00 1.98
5281 6849 4.191544 TCACGCAATGCTTAGCTTATCTT 58.808 39.130 5.60 0.00 0.00 2.40
5282 6850 5.356426 TCACGCAATGCTTAGCTTATCTTA 58.644 37.500 5.60 0.00 0.00 2.10
5283 6851 5.991606 TCACGCAATGCTTAGCTTATCTTAT 59.008 36.000 5.60 0.00 0.00 1.73
5304 6872 7.755373 TCTTATTCGCTTACATCCTCGATTATG 59.245 37.037 5.77 5.77 0.00 1.90
5630 7227 2.030363 CGTGCTTGTCATGGGCTAAAAA 60.030 45.455 0.00 0.00 0.00 1.94
5642 7239 7.167468 GTCATGGGCTAAAAATAAACGCTATTG 59.833 37.037 0.00 0.00 0.00 1.90
5644 7241 5.652891 TGGGCTAAAAATAAACGCTATTGGA 59.347 36.000 0.00 0.00 0.00 3.53
5665 7263 4.020662 GGATTATCTTTTGGCCCAACACAA 60.021 41.667 0.00 0.00 0.00 3.33
5666 7264 5.338300 GGATTATCTTTTGGCCCAACACAAT 60.338 40.000 0.00 0.00 0.00 2.71
5667 7265 6.127196 GGATTATCTTTTGGCCCAACACAATA 60.127 38.462 0.00 0.00 0.00 1.90
5668 7266 4.806640 ATCTTTTGGCCCAACACAATAG 57.193 40.909 0.00 0.00 0.00 1.73
5669 7267 2.298729 TCTTTTGGCCCAACACAATAGC 59.701 45.455 0.00 0.00 0.00 2.97
5670 7268 2.008242 TTTGGCCCAACACAATAGCT 57.992 45.000 0.00 0.00 0.00 3.32
5671 7269 2.008242 TTGGCCCAACACAATAGCTT 57.992 45.000 0.00 0.00 0.00 3.74
5672 7270 1.544724 TGGCCCAACACAATAGCTTC 58.455 50.000 0.00 0.00 0.00 3.86
5673 7271 0.451783 GGCCCAACACAATAGCTTCG 59.548 55.000 0.00 0.00 0.00 3.79
5674 7272 0.451783 GCCCAACACAATAGCTTCGG 59.548 55.000 0.00 0.00 0.00 4.30
5675 7273 0.451783 CCCAACACAATAGCTTCGGC 59.548 55.000 0.00 0.00 42.17 5.54
5686 7284 3.834732 GCTTCGGCTAGAGAAACCA 57.165 52.632 0.00 0.00 38.08 3.67
5687 7285 2.317530 GCTTCGGCTAGAGAAACCAT 57.682 50.000 0.00 0.00 38.08 3.55
5688 7286 1.936547 GCTTCGGCTAGAGAAACCATG 59.063 52.381 0.00 0.00 38.08 3.66
5689 7287 2.418746 GCTTCGGCTAGAGAAACCATGA 60.419 50.000 0.00 0.00 38.08 3.07
5690 7288 3.742640 GCTTCGGCTAGAGAAACCATGAT 60.743 47.826 0.00 0.00 38.08 2.45
5691 7289 4.446371 CTTCGGCTAGAGAAACCATGATT 58.554 43.478 0.00 0.00 0.00 2.57
5692 7290 4.487714 TCGGCTAGAGAAACCATGATTT 57.512 40.909 0.00 0.00 0.00 2.17
5693 7291 5.607939 TCGGCTAGAGAAACCATGATTTA 57.392 39.130 0.00 0.00 0.00 1.40
5694 7292 5.357257 TCGGCTAGAGAAACCATGATTTAC 58.643 41.667 0.00 0.00 0.00 2.01
5695 7293 5.128827 TCGGCTAGAGAAACCATGATTTACT 59.871 40.000 0.00 0.00 0.00 2.24
5696 7294 6.322969 TCGGCTAGAGAAACCATGATTTACTA 59.677 38.462 0.00 0.00 0.00 1.82
5697 7295 6.984474 CGGCTAGAGAAACCATGATTTACTAA 59.016 38.462 0.00 0.00 0.00 2.24
5698 7296 7.657761 CGGCTAGAGAAACCATGATTTACTAAT 59.342 37.037 0.00 0.00 0.00 1.73
5699 7297 9.998106 GGCTAGAGAAACCATGATTTACTAATA 57.002 33.333 0.00 0.00 0.00 0.98
5702 7300 8.366671 AGAGAAACCATGATTTACTAATACGC 57.633 34.615 0.00 0.00 0.00 4.42
5703 7301 7.985184 AGAGAAACCATGATTTACTAATACGCA 59.015 33.333 0.00 0.00 0.00 5.24
5704 7302 7.916552 AGAAACCATGATTTACTAATACGCAC 58.083 34.615 0.00 0.00 0.00 5.34
5705 7303 5.900339 ACCATGATTTACTAATACGCACG 57.100 39.130 0.00 0.00 0.00 5.34
5706 7304 4.210537 ACCATGATTTACTAATACGCACGC 59.789 41.667 0.00 0.00 0.00 5.34
5707 7305 4.210328 CCATGATTTACTAATACGCACGCA 59.790 41.667 0.00 0.00 0.00 5.24
5708 7306 5.107104 CCATGATTTACTAATACGCACGCAT 60.107 40.000 0.00 0.00 0.00 4.73
5709 7307 5.570262 TGATTTACTAATACGCACGCATC 57.430 39.130 0.00 0.00 0.00 3.91
5710 7308 4.446385 TGATTTACTAATACGCACGCATCC 59.554 41.667 0.00 0.00 0.00 3.51
5711 7309 2.427232 TACTAATACGCACGCATCCC 57.573 50.000 0.00 0.00 0.00 3.85
5712 7310 0.750850 ACTAATACGCACGCATCCCT 59.249 50.000 0.00 0.00 0.00 4.20
5713 7311 1.958579 ACTAATACGCACGCATCCCTA 59.041 47.619 0.00 0.00 0.00 3.53
5714 7312 2.363038 ACTAATACGCACGCATCCCTAA 59.637 45.455 0.00 0.00 0.00 2.69
5715 7313 2.319136 AATACGCACGCATCCCTAAA 57.681 45.000 0.00 0.00 0.00 1.85
5716 7314 2.319136 ATACGCACGCATCCCTAAAA 57.681 45.000 0.00 0.00 0.00 1.52
5717 7315 2.096220 TACGCACGCATCCCTAAAAA 57.904 45.000 0.00 0.00 0.00 1.94
5742 7340 7.544511 AATACTAATACGTACGCAAATCTCG 57.455 36.000 16.72 0.00 0.00 4.04
5743 7341 5.160699 ACTAATACGTACGCAAATCTCGA 57.839 39.130 16.72 0.00 0.00 4.04
5744 7342 5.572211 ACTAATACGTACGCAAATCTCGAA 58.428 37.500 16.72 0.00 0.00 3.71
5745 7343 6.029607 ACTAATACGTACGCAAATCTCGAAA 58.970 36.000 16.72 0.00 0.00 3.46
5746 7344 5.766702 AATACGTACGCAAATCTCGAAAA 57.233 34.783 16.72 0.00 0.00 2.29
5747 7345 5.766702 ATACGTACGCAAATCTCGAAAAA 57.233 34.783 16.72 0.00 0.00 1.94
5748 7346 4.657075 ACGTACGCAAATCTCGAAAAAT 57.343 36.364 16.72 0.00 0.00 1.82
5749 7347 5.766702 ACGTACGCAAATCTCGAAAAATA 57.233 34.783 16.72 0.00 0.00 1.40
5750 7348 5.544621 ACGTACGCAAATCTCGAAAAATAC 58.455 37.500 16.72 0.00 0.00 1.89
5751 7349 5.346822 ACGTACGCAAATCTCGAAAAATACT 59.653 36.000 16.72 0.00 0.00 2.12
5752 7350 6.527722 ACGTACGCAAATCTCGAAAAATACTA 59.472 34.615 16.72 0.00 0.00 1.82
5753 7351 7.062138 ACGTACGCAAATCTCGAAAAATACTAA 59.938 33.333 16.72 0.00 0.00 2.24
5754 7352 8.054236 CGTACGCAAATCTCGAAAAATACTAAT 58.946 33.333 0.52 0.00 0.00 1.73
5757 7355 9.095065 ACGCAAATCTCGAAAAATACTAATACT 57.905 29.630 0.00 0.00 0.00 2.12
5758 7356 9.916397 CGCAAATCTCGAAAAATACTAATACTT 57.084 29.630 0.00 0.00 0.00 2.24
5763 7361 8.261628 TCTCGAAAAATACTAATACTTACGCG 57.738 34.615 3.53 3.53 0.00 6.01
5764 7362 7.376866 TCTCGAAAAATACTAATACTTACGCGG 59.623 37.037 12.47 0.00 0.00 6.46
5765 7363 7.192913 TCGAAAAATACTAATACTTACGCGGA 58.807 34.615 12.47 0.00 0.00 5.54
5766 7364 7.862372 TCGAAAAATACTAATACTTACGCGGAT 59.138 33.333 12.47 0.00 0.00 4.18
5767 7365 9.117145 CGAAAAATACTAATACTTACGCGGATA 57.883 33.333 12.47 0.00 0.00 2.59
5772 7370 9.727627 AATACTAATACTTACGCGGATATTAGC 57.272 33.333 22.92 0.00 39.58 3.09
5773 7371 7.149569 ACTAATACTTACGCGGATATTAGCA 57.850 36.000 22.92 0.00 39.58 3.49
5774 7372 7.249147 ACTAATACTTACGCGGATATTAGCAG 58.751 38.462 22.92 10.05 39.58 4.24
5775 7373 5.892160 ATACTTACGCGGATATTAGCAGA 57.108 39.130 12.47 0.00 0.00 4.26
5776 7374 4.785511 ACTTACGCGGATATTAGCAGAT 57.214 40.909 12.47 0.00 0.00 2.90
5777 7375 5.135508 ACTTACGCGGATATTAGCAGATT 57.864 39.130 12.47 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.069232 TCGAGTGGAGGCAAGCCG 62.069 66.667 5.28 0.00 41.95 5.52
17 18 3.393800 CTCAAGTGTTGAATGAGGTCGT 58.606 45.455 0.00 0.00 39.58 4.34
162 166 4.728608 GCGTTTATTTTCTCTGCCGTATTG 59.271 41.667 0.00 0.00 0.00 1.90
165 169 3.327626 TGCGTTTATTTTCTCTGCCGTA 58.672 40.909 0.00 0.00 0.00 4.02
217 227 4.003648 AGGTGTCTGCTAAAACATACTGC 58.996 43.478 0.00 0.00 0.00 4.40
218 228 5.482908 AGAGGTGTCTGCTAAAACATACTG 58.517 41.667 0.00 0.00 0.00 2.74
247 257 2.428890 CTGGGGACACTACTTAGCTCAG 59.571 54.545 0.00 0.00 35.60 3.35
278 289 4.441913 GCTCCTCTGAAGATTCCTCTCTTG 60.442 50.000 0.00 0.00 35.63 3.02
283 294 2.499289 TGTGCTCCTCTGAAGATTCCTC 59.501 50.000 0.00 0.00 0.00 3.71
285 296 3.340814 TTGTGCTCCTCTGAAGATTCC 57.659 47.619 0.00 0.00 0.00 3.01
288 299 3.582208 AGACTTTGTGCTCCTCTGAAGAT 59.418 43.478 0.00 0.00 0.00 2.40
289 300 2.968574 AGACTTTGTGCTCCTCTGAAGA 59.031 45.455 0.00 0.00 0.00 2.87
290 301 3.399440 AGACTTTGTGCTCCTCTGAAG 57.601 47.619 0.00 0.00 0.00 3.02
292 303 4.955811 TTTAGACTTTGTGCTCCTCTGA 57.044 40.909 0.00 0.00 0.00 3.27
387 1156 3.346315 TGTGATTATCCTGGTGCTGTTG 58.654 45.455 0.00 0.00 0.00 3.33
461 1233 6.104146 GGGAGTAAACTCTCTTTGTCTCTT 57.896 41.667 9.84 0.00 40.32 2.85
496 1268 5.585390 GGAGCTAAATGAAACATCATGGTG 58.415 41.667 3.86 3.86 0.00 4.17
497 1269 4.336433 CGGAGCTAAATGAAACATCATGGT 59.664 41.667 0.00 0.00 0.00 3.55
498 1270 4.336433 ACGGAGCTAAATGAAACATCATGG 59.664 41.667 0.00 0.00 0.00 3.66
499 1271 5.490139 ACGGAGCTAAATGAAACATCATG 57.510 39.130 0.00 0.00 0.00 3.07
500 1272 7.336931 AGTTAACGGAGCTAAATGAAACATCAT 59.663 33.333 0.00 0.00 0.00 2.45
512 1284 5.198965 AGACTATGGAGTTAACGGAGCTAA 58.801 41.667 0.00 0.00 35.45 3.09
534 1314 1.857965 TGGAGTCTGAGTGGATGGAG 58.142 55.000 0.00 0.00 0.00 3.86
536 1316 1.415659 GGATGGAGTCTGAGTGGATGG 59.584 57.143 0.00 0.00 0.00 3.51
546 1326 4.610333 TGTACTGTACATGGATGGAGTCT 58.390 43.478 16.26 0.00 32.89 3.24
547 1327 4.402793 ACTGTACTGTACATGGATGGAGTC 59.597 45.833 19.99 0.00 38.15 3.36
551 1331 4.402474 TGAGACTGTACTGTACATGGATGG 59.598 45.833 19.99 10.41 38.15 3.51
553 1333 5.127845 CCTTGAGACTGTACTGTACATGGAT 59.872 44.000 19.99 7.75 38.15 3.41
559 1339 6.742109 TGTTTACCTTGAGACTGTACTGTAC 58.258 40.000 10.98 10.98 0.00 2.90
560 1340 6.964807 TGTTTACCTTGAGACTGTACTGTA 57.035 37.500 5.27 0.00 0.00 2.74
561 1341 5.864418 TGTTTACCTTGAGACTGTACTGT 57.136 39.130 4.92 4.92 0.00 3.55
562 1342 7.155328 AGATTGTTTACCTTGAGACTGTACTG 58.845 38.462 0.00 0.00 0.00 2.74
563 1343 7.304497 AGATTGTTTACCTTGAGACTGTACT 57.696 36.000 0.00 0.00 0.00 2.73
594 1374 1.207089 CGATCTCCAGTGGGCTTGTTA 59.793 52.381 9.92 0.00 0.00 2.41
624 1424 0.735632 GTGCAGCCTCTTCAGACTCG 60.736 60.000 0.00 0.00 0.00 4.18
644 1445 5.355350 AGTTGACTACCAAATCTTATGCTGC 59.645 40.000 0.00 0.00 36.36 5.25
662 1495 6.879458 ACTGATTAGTTGTATCCCAAGTTGAC 59.121 38.462 3.87 0.00 37.82 3.18
664 1497 7.687941 AACTGATTAGTTGTATCCCAAGTTG 57.312 36.000 1.44 0.00 45.17 3.16
690 1523 7.413438 GCATGTTCTCGATGACTTGACTTTAAT 60.413 37.037 14.43 0.00 0.00 1.40
699 1575 5.078411 ACTAAGCATGTTCTCGATGACTT 57.922 39.130 0.00 0.00 0.00 3.01
702 1578 7.981789 AGAATTAACTAAGCATGTTCTCGATGA 59.018 33.333 0.00 0.00 0.00 2.92
727 1603 7.117523 GCTATGTATTGTATGCCAGAAGAGAAG 59.882 40.741 0.00 0.00 0.00 2.85
730 1606 6.462500 AGCTATGTATTGTATGCCAGAAGAG 58.538 40.000 0.00 0.00 0.00 2.85
731 1607 6.425210 AGCTATGTATTGTATGCCAGAAGA 57.575 37.500 0.00 0.00 0.00 2.87
732 1608 7.382110 ACTAGCTATGTATTGTATGCCAGAAG 58.618 38.462 0.00 0.00 0.00 2.85
733 1609 7.303182 ACTAGCTATGTATTGTATGCCAGAA 57.697 36.000 0.00 0.00 0.00 3.02
734 1610 6.918067 ACTAGCTATGTATTGTATGCCAGA 57.082 37.500 0.00 0.00 0.00 3.86
735 1611 7.831753 AGTACTAGCTATGTATTGTATGCCAG 58.168 38.462 0.00 0.00 0.00 4.85
736 1612 7.776618 AGTACTAGCTATGTATTGTATGCCA 57.223 36.000 0.00 0.00 0.00 4.92
774 1705 0.253044 GGAGTGCTGCCATTCCACTA 59.747 55.000 0.00 0.00 44.75 2.74
775 1706 1.001641 GGAGTGCTGCCATTCCACT 60.002 57.895 0.00 0.00 44.75 4.00
934 2067 5.806502 TCTGTTTTCAAGTTGCTGACAAATG 59.193 36.000 0.00 0.00 37.58 2.32
973 2144 5.511234 AGTTGCTCAATAATTCATGGCTC 57.489 39.130 0.00 0.00 0.00 4.70
1032 2260 0.040958 GACACAAGTGCGCTTTCCTG 60.041 55.000 10.47 8.50 31.49 3.86
1087 2319 4.575236 GCCTACTATGTTTCTACCAAAGGC 59.425 45.833 0.00 0.00 39.03 4.35
1088 2320 4.809426 CGCCTACTATGTTTCTACCAAAGG 59.191 45.833 0.00 0.00 0.00 3.11
1089 2321 4.270325 GCGCCTACTATGTTTCTACCAAAG 59.730 45.833 0.00 0.00 0.00 2.77
1090 2322 4.186159 GCGCCTACTATGTTTCTACCAAA 58.814 43.478 0.00 0.00 0.00 3.28
1123 2356 2.413453 CGAGGAGCAAAGAAACTAGCAC 59.587 50.000 0.00 0.00 0.00 4.40
1172 2405 1.964373 GTTCCGGCGTGTGGAATGT 60.964 57.895 6.01 0.00 46.55 2.71
1195 2428 1.130561 GTGGTCGCTGGAATTACTTGC 59.869 52.381 0.00 0.00 0.00 4.01
1224 2457 1.293498 GAGCGCCTTGAAGGACAGA 59.707 57.895 16.93 0.00 37.67 3.41
1227 2460 1.936547 CTTATGAGCGCCTTGAAGGAC 59.063 52.381 16.93 5.96 37.67 3.85
1237 2470 1.591863 GGTCGTCCCTTATGAGCGC 60.592 63.158 0.00 0.00 32.27 5.92
1271 2504 4.360405 ACCGGTTGCCCCATGACC 62.360 66.667 0.00 0.00 0.00 4.02
1575 2808 3.433598 GCCTGTTGTATCCAAGGCTGATA 60.434 47.826 5.30 0.00 38.34 2.15
1657 2890 4.388499 TTGGAGCTCGTTCCGGCC 62.388 66.667 7.83 0.00 40.27 6.13
1744 2977 2.190578 CGCAGGGATGGTTCCTCC 59.809 66.667 0.00 0.00 42.20 4.30
1759 2992 0.674895 ACAAGGTTGCTGATCTCCGC 60.675 55.000 0.00 0.00 0.00 5.54
1782 3015 4.220693 TGAAATGTCCACATACTCCAGG 57.779 45.455 0.00 0.00 35.10 4.45
1790 3023 6.996509 AGCTTATTGTTTGAAATGTCCACAT 58.003 32.000 0.00 0.00 38.41 3.21
1855 3088 7.953158 TTGAATTCAGAGAAAGTGTGTCTAG 57.047 36.000 8.41 0.00 0.00 2.43
1866 3099 7.040892 CCAGACAGTTGATTTGAATTCAGAGAA 60.041 37.037 8.41 0.68 0.00 2.87
1885 3118 5.551233 TGAACTTGGAATAGAACCAGACAG 58.449 41.667 0.00 0.00 38.70 3.51
2015 3248 1.909700 TCCTGTCAGGCCATTGTTTC 58.090 50.000 14.64 0.00 34.61 2.78
2054 3287 2.233431 GCAGAGAGTGATGTGAGGTTCT 59.767 50.000 0.00 0.00 0.00 3.01
2090 3323 5.405935 AATTTGGCCAGTTAGATGGTTTC 57.594 39.130 5.11 0.00 42.75 2.78
2122 3355 3.330701 TCAAGCAAGTTGAGGTTCCCTAT 59.669 43.478 7.16 0.00 40.45 2.57
2180 3413 1.221635 TCCAATGGAGTGGGGTATGG 58.778 55.000 0.00 0.00 39.34 2.74
2187 3420 3.081804 GTGTAGGTTTCCAATGGAGTGG 58.918 50.000 0.86 0.00 40.33 4.00
2397 3650 3.197983 ACAAAGAGGGAGGAATAGAACCG 59.802 47.826 0.00 0.00 0.00 4.44
2401 3654 3.181329 TGCACAAAGAGGGAGGAATAGA 58.819 45.455 0.00 0.00 0.00 1.98
2568 3821 0.394938 TGCTTAGGCTGGACACGAAA 59.605 50.000 0.00 0.00 39.59 3.46
2572 3825 1.135286 GCAATTGCTTAGGCTGGACAC 60.135 52.381 23.21 0.00 39.59 3.67
2662 3915 8.927721 GTTAAGAAACTCTAGATTTGTGGAGAC 58.072 37.037 0.00 0.00 32.54 3.36
2741 3994 1.277495 AAAAAGTGCGCGCAGATTGC 61.277 50.000 37.44 22.76 40.69 3.56
2750 4003 5.579511 TGGTTACTATCTAGAAAAAGTGCGC 59.420 40.000 0.00 0.00 0.00 6.09
2779 4032 4.961585 AGAGAGGTTGGAATAGTACCCTT 58.038 43.478 0.00 0.00 32.20 3.95
2875 4128 6.482308 AGTTCGCTTAGTTGTGTAAGATTGTT 59.518 34.615 0.00 0.00 32.52 2.83
2876 4129 5.989777 AGTTCGCTTAGTTGTGTAAGATTGT 59.010 36.000 0.00 0.00 32.52 2.71
2951 4204 7.687941 AGGTCTAGTTTTTGTAATGGACATG 57.312 36.000 0.00 0.00 38.07 3.21
3042 4295 9.994432 GTTAATAGATTGTTTTGGAGTCTCATG 57.006 33.333 1.47 0.00 0.00 3.07
3049 4302 5.067283 CCCCGGTTAATAGATTGTTTTGGAG 59.933 44.000 0.00 0.00 0.00 3.86
3265 4518 7.530242 GCTCCCTGAGAGATTATTATGGGAAAT 60.530 40.741 0.00 0.00 46.50 2.17
3348 4601 1.345415 GGAACCTCACCGTCCAAGTTA 59.655 52.381 0.00 0.00 0.00 2.24
3535 4790 8.712363 CAGTGCAAATACTAATGCGATAAGTAT 58.288 33.333 0.00 0.00 45.47 2.12
4197 5455 0.179062 AGCCGATTGTGCCTCTCATC 60.179 55.000 0.00 0.00 0.00 2.92
4394 5930 5.184479 AGACATCACCATGGATTGAAACTTG 59.816 40.000 21.47 10.10 33.82 3.16
4452 5988 2.294512 CTCTCTGTTGGCCTTTTTCCAC 59.705 50.000 3.32 0.00 32.45 4.02
4471 6007 3.467374 AAGGATTCTCCGAATCTGCTC 57.533 47.619 14.20 1.09 42.75 4.26
4606 6142 6.322969 TGCAAGCAATTCTCAGATCCATATTT 59.677 34.615 0.00 0.00 0.00 1.40
4748 6284 2.434884 CTCGCCTTCCGCACACAT 60.435 61.111 0.00 0.00 37.30 3.21
4841 6392 0.905357 TTGGAACTAGCTGGAGCCTC 59.095 55.000 3.17 0.00 43.38 4.70
5005 6560 5.560966 AACCGGCTGATTATTACAACAAG 57.439 39.130 0.00 0.00 0.00 3.16
5031 6588 3.368531 GGTATGATCCCCACGCTAATCTC 60.369 52.174 0.00 0.00 0.00 2.75
5043 6600 3.842869 GATCAGCCGGTATGATCCC 57.157 57.895 28.02 14.11 44.79 3.85
5104 6662 2.662596 CTGTTAGGCAGGGACGCA 59.337 61.111 0.00 0.00 41.42 5.24
5228 6796 2.098934 TGTGAAAGCGTGCAATCTTGTT 59.901 40.909 2.87 0.00 0.00 2.83
5279 6847 7.755373 TCATAATCGAGGATGTAAGCGAATAAG 59.245 37.037 8.68 0.00 36.28 1.73
5280 6848 7.541091 GTCATAATCGAGGATGTAAGCGAATAA 59.459 37.037 8.68 0.00 36.28 1.40
5281 6849 7.027760 GTCATAATCGAGGATGTAAGCGAATA 58.972 38.462 8.68 0.00 36.28 1.75
5282 6850 5.864474 GTCATAATCGAGGATGTAAGCGAAT 59.136 40.000 8.68 0.00 36.28 3.34
5283 6851 5.220381 GTCATAATCGAGGATGTAAGCGAA 58.780 41.667 8.68 0.00 36.28 4.70
5330 6898 1.546548 GCAAGCTCCAAGGGAAGAAGT 60.547 52.381 0.00 0.00 0.00 3.01
5443 7011 2.669569 TGCTTGGCTTGTCCTCGC 60.670 61.111 0.00 0.00 35.26 5.03
5482 7050 2.892640 CCGTCAGATTCCTCCGCA 59.107 61.111 0.00 0.00 0.00 5.69
5594 7191 1.414181 AGCACGAGCCTGCTATACATT 59.586 47.619 0.00 0.00 46.03 2.71
5630 7227 8.082242 GCCAAAAGATAATCCAATAGCGTTTAT 58.918 33.333 0.00 0.00 0.00 1.40
5642 7239 3.513515 TGTGTTGGGCCAAAAGATAATCC 59.486 43.478 22.82 5.61 0.00 3.01
5644 7241 5.760484 ATTGTGTTGGGCCAAAAGATAAT 57.240 34.783 22.82 14.21 0.00 1.28
5668 7266 1.936547 CATGGTTTCTCTAGCCGAAGC 59.063 52.381 0.00 0.00 40.32 3.86
5669 7267 3.526931 TCATGGTTTCTCTAGCCGAAG 57.473 47.619 0.00 0.00 0.00 3.79
5670 7268 4.487714 AATCATGGTTTCTCTAGCCGAA 57.512 40.909 0.00 0.00 0.00 4.30
5671 7269 4.487714 AAATCATGGTTTCTCTAGCCGA 57.512 40.909 0.00 0.00 0.00 5.54
5672 7270 5.360591 AGTAAATCATGGTTTCTCTAGCCG 58.639 41.667 7.35 0.00 0.00 5.52
5673 7271 8.910351 ATTAGTAAATCATGGTTTCTCTAGCC 57.090 34.615 7.35 0.00 0.00 3.93
5676 7274 9.472361 GCGTATTAGTAAATCATGGTTTCTCTA 57.528 33.333 7.35 9.29 0.00 2.43
5677 7275 7.985184 TGCGTATTAGTAAATCATGGTTTCTCT 59.015 33.333 7.35 10.23 0.00 3.10
5678 7276 8.062448 GTGCGTATTAGTAAATCATGGTTTCTC 58.938 37.037 7.35 2.98 0.00 2.87
5679 7277 7.254319 CGTGCGTATTAGTAAATCATGGTTTCT 60.254 37.037 7.35 7.78 0.00 2.52
5680 7278 6.844279 CGTGCGTATTAGTAAATCATGGTTTC 59.156 38.462 7.35 0.17 0.00 2.78
5681 7279 6.711579 CGTGCGTATTAGTAAATCATGGTTT 58.288 36.000 9.31 9.31 0.00 3.27
5682 7280 5.277154 GCGTGCGTATTAGTAAATCATGGTT 60.277 40.000 0.00 0.00 0.00 3.67
5683 7281 4.210537 GCGTGCGTATTAGTAAATCATGGT 59.789 41.667 0.00 0.00 0.00 3.55
5684 7282 4.210328 TGCGTGCGTATTAGTAAATCATGG 59.790 41.667 0.00 0.00 0.00 3.66
5685 7283 5.323360 TGCGTGCGTATTAGTAAATCATG 57.677 39.130 0.00 0.00 0.00 3.07
5686 7284 5.120208 GGATGCGTGCGTATTAGTAAATCAT 59.880 40.000 0.00 0.00 0.00 2.45
5687 7285 4.446385 GGATGCGTGCGTATTAGTAAATCA 59.554 41.667 0.00 0.00 0.00 2.57
5688 7286 4.143179 GGGATGCGTGCGTATTAGTAAATC 60.143 45.833 0.00 0.00 0.00 2.17
5689 7287 3.744426 GGGATGCGTGCGTATTAGTAAAT 59.256 43.478 0.00 0.00 0.00 1.40
5690 7288 3.125316 GGGATGCGTGCGTATTAGTAAA 58.875 45.455 0.00 0.00 0.00 2.01
5691 7289 2.363038 AGGGATGCGTGCGTATTAGTAA 59.637 45.455 0.00 0.00 0.00 2.24
5692 7290 1.958579 AGGGATGCGTGCGTATTAGTA 59.041 47.619 0.00 0.00 0.00 1.82
5693 7291 0.750850 AGGGATGCGTGCGTATTAGT 59.249 50.000 0.00 0.00 0.00 2.24
5694 7292 2.717580 TAGGGATGCGTGCGTATTAG 57.282 50.000 0.00 0.00 0.00 1.73
5695 7293 3.455990 TTTAGGGATGCGTGCGTATTA 57.544 42.857 0.47 0.00 0.00 0.98
5696 7294 2.319136 TTTAGGGATGCGTGCGTATT 57.681 45.000 0.47 0.00 0.00 1.89
5697 7295 2.319136 TTTTAGGGATGCGTGCGTAT 57.681 45.000 0.47 0.00 0.00 3.06
5698 7296 2.096220 TTTTTAGGGATGCGTGCGTA 57.904 45.000 0.00 0.00 0.00 4.42
5699 7297 2.935505 TTTTTAGGGATGCGTGCGT 58.064 47.368 0.00 0.00 0.00 5.24
5716 7314 8.474577 CGAGATTTGCGTACGTATTAGTATTTT 58.525 33.333 17.90 0.00 0.00 1.82
5717 7315 7.857389 TCGAGATTTGCGTACGTATTAGTATTT 59.143 33.333 17.90 0.00 0.00 1.40
5718 7316 7.355017 TCGAGATTTGCGTACGTATTAGTATT 58.645 34.615 17.90 0.00 0.00 1.89
5719 7317 6.891624 TCGAGATTTGCGTACGTATTAGTAT 58.108 36.000 17.90 1.59 0.00 2.12
5720 7318 6.285790 TCGAGATTTGCGTACGTATTAGTA 57.714 37.500 17.90 0.00 0.00 1.82
5721 7319 5.160699 TCGAGATTTGCGTACGTATTAGT 57.839 39.130 17.90 0.00 0.00 2.24
5722 7320 6.486657 TTTCGAGATTTGCGTACGTATTAG 57.513 37.500 17.90 1.77 0.00 1.73
5723 7321 6.867799 TTTTCGAGATTTGCGTACGTATTA 57.132 33.333 17.90 4.13 0.00 0.98
5724 7322 5.766702 TTTTCGAGATTTGCGTACGTATT 57.233 34.783 17.90 2.94 0.00 1.89
5725 7323 5.766702 TTTTTCGAGATTTGCGTACGTAT 57.233 34.783 17.90 8.17 0.00 3.06
5726 7324 5.766702 ATTTTTCGAGATTTGCGTACGTA 57.233 34.783 17.90 10.06 0.00 3.57
5727 7325 4.657075 ATTTTTCGAGATTTGCGTACGT 57.343 36.364 17.90 0.00 0.00 3.57
5728 7326 5.782255 AGTATTTTTCGAGATTTGCGTACG 58.218 37.500 11.84 11.84 0.00 3.67
5731 7329 9.095065 AGTATTAGTATTTTTCGAGATTTGCGT 57.905 29.630 0.00 0.00 0.00 5.24
5732 7330 9.916397 AAGTATTAGTATTTTTCGAGATTTGCG 57.084 29.630 0.00 0.00 0.00 4.85
5737 7335 8.899776 CGCGTAAGTATTAGTATTTTTCGAGAT 58.100 33.333 0.00 0.00 41.68 2.75
5738 7336 7.376866 CCGCGTAAGTATTAGTATTTTTCGAGA 59.623 37.037 4.92 0.00 41.68 4.04
5739 7337 7.376866 TCCGCGTAAGTATTAGTATTTTTCGAG 59.623 37.037 4.92 0.00 41.68 4.04
5740 7338 7.192913 TCCGCGTAAGTATTAGTATTTTTCGA 58.807 34.615 4.92 0.00 41.68 3.71
5741 7339 7.380438 TCCGCGTAAGTATTAGTATTTTTCG 57.620 36.000 4.92 0.00 41.68 3.46
5746 7344 9.727627 GCTAATATCCGCGTAAGTATTAGTATT 57.272 33.333 23.05 6.89 38.48 1.89
5747 7345 8.896744 TGCTAATATCCGCGTAAGTATTAGTAT 58.103 33.333 23.05 0.00 38.48 2.12
5748 7346 8.267620 TGCTAATATCCGCGTAAGTATTAGTA 57.732 34.615 23.05 19.74 38.48 1.82
5749 7347 7.120285 TCTGCTAATATCCGCGTAAGTATTAGT 59.880 37.037 23.05 0.00 38.48 2.24
5750 7348 7.470079 TCTGCTAATATCCGCGTAAGTATTAG 58.530 38.462 20.67 20.67 38.90 1.73
5751 7349 7.381766 TCTGCTAATATCCGCGTAAGTATTA 57.618 36.000 4.92 7.34 41.68 0.98
5752 7350 6.263516 TCTGCTAATATCCGCGTAAGTATT 57.736 37.500 4.92 6.57 41.68 1.89
5753 7351 5.892160 TCTGCTAATATCCGCGTAAGTAT 57.108 39.130 4.92 0.00 41.68 2.12
5754 7352 5.892160 ATCTGCTAATATCCGCGTAAGTA 57.108 39.130 4.92 0.00 41.68 2.24
5755 7353 4.785511 ATCTGCTAATATCCGCGTAAGT 57.214 40.909 4.92 0.00 41.68 2.24



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

AutoCloner maintained by Alex Coulton.