Multiple sequence alignment - TraesCS1D01G201400

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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 TraesCS1D01G201400 chr1D 100.000 2507 0 0 1 2507 284241858 284244364 0.000000e+00 4630.0
1 TraesCS1D01G201400 chr1A 91.469 1606 81 31 910 2503 355718267 355719828 0.000000e+00 2156.0
2 TraesCS1D01G201400 chr1A 95.131 267 11 2 1 267 355716719 355716983 1.070000e-113 420.0
3 TraesCS1D01G201400 chr1A 88.496 226 11 4 272 484 355717041 355717264 2.470000e-65 259.0
4 TraesCS1D01G201400 chr1A 98.039 102 1 1 781 881 521853037 521852936 2.560000e-40 176.0
5 TraesCS1D01G201400 chr1A 89.231 65 5 2 2441 2503 432012190 432012254 2.070000e-11 80.5
6 TraesCS1D01G201400 chr1B 92.749 855 33 16 931 1766 386162368 386163212 0.000000e+00 1208.0
7 TraesCS1D01G201400 chr1B 94.757 267 13 1 1 267 386161452 386161717 4.990000e-112 414.0
8 TraesCS1D01G201400 chr1B 91.031 223 8 7 272 484 386161775 386161995 8.770000e-75 291.0
9 TraesCS1D01G201400 chr1B 89.231 65 5 2 2441 2503 636127196 636127132 2.070000e-11 80.5
10 TraesCS1D01G201400 chr6B 91.803 244 17 2 1030 1273 562486178 562485938 1.110000e-88 337.0
11 TraesCS1D01G201400 chr4B 90.041 241 20 2 1030 1270 337551100 337551336 2.420000e-80 309.0
12 TraesCS1D01G201400 chr5D 98.020 101 2 0 779 879 450398072 450398172 2.560000e-40 176.0
13 TraesCS1D01G201400 chr5D 96.296 108 2 2 779 885 544792870 544792976 2.560000e-40 176.0
14 TraesCS1D01G201400 chr3A 96.330 109 1 2 781 887 36477679 36477572 2.560000e-40 176.0
15 TraesCS1D01G201400 chr3A 93.913 115 4 3 781 892 743689688 743689574 1.190000e-38 171.0
16 TraesCS1D01G201400 chr3A 89.231 65 5 2 2441 2503 681107206 681107270 2.070000e-11 80.5
17 TraesCS1D01G201400 chr7A 97.087 103 3 0 781 883 542967945 542967843 9.220000e-40 174.0
18 TraesCS1D01G201400 chr7A 96.190 105 4 0 779 883 11753264 11753368 3.320000e-39 172.0
19 TraesCS1D01G201400 chr7A 95.413 109 2 2 781 887 121929755 121929862 1.190000e-38 171.0
20 TraesCS1D01G201400 chr7A 89.231 65 5 2 2441 2503 52078736 52078672 2.070000e-11 80.5
21 TraesCS1D01G201400 chr7A 89.062 64 5 2 2441 2502 620167601 620167538 7.430000e-11 78.7
22 TraesCS1D01G201400 chr7A 87.692 65 6 2 2441 2503 20594063 20593999 9.620000e-10 75.0
23 TraesCS1D01G201400 chr6A 95.327 107 3 2 779 885 60231833 60231729 4.290000e-38 169.0
24 TraesCS1D01G201400 chr6A 89.231 65 5 2 2441 2503 498533255 498533319 2.070000e-11 80.5
25 TraesCS1D01G201400 chr5B 77.778 171 27 11 2175 2340 655583717 655583881 7.380000e-16 95.3
26 TraesCS1D01G201400 chr5B 80.899 89 12 5 2204 2289 149579951 149579865 5.790000e-07 65.8
27 TraesCS1D01G201400 chr2A 80.159 126 16 9 2215 2336 596418154 596418034 4.440000e-13 86.1
28 TraesCS1D01G201400 chr4D 80.000 125 16 9 2215 2335 479685258 479685139 1.600000e-12 84.2
29 TraesCS1D01G201400 chr3B 89.231 65 5 2 2441 2503 820050651 820050587 2.070000e-11 80.5
30 TraesCS1D01G201400 chr3B 90.196 51 4 1 2243 2292 8492224 8492174 5.790000e-07 65.8
31 TraesCS1D01G201400 chr2D 80.374 107 15 6 2189 2292 630698553 630698656 2.670000e-10 76.8


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 TraesCS1D01G201400 chr1D 284241858 284244364 2506 False 4630.000000 4630 100.000000 1 2507 1 chr1D.!!$F1 2506
1 TraesCS1D01G201400 chr1A 355716719 355719828 3109 False 945.000000 2156 91.698667 1 2503 3 chr1A.!!$F2 2502
2 TraesCS1D01G201400 chr1B 386161452 386163212 1760 False 637.666667 1208 92.845667 1 1766 3 chr1B.!!$F1 1765

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
769 1529 0.462789 GCAATTGCCATTCTCCCCAG 59.537 55.0 20.06 0.0 34.31 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2181 3026 0.032813 CTTGGTGATGGCATTCCCCT 60.033 55.0 16.25 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
32 33 4.288887 TCTGTTCTACTCTAGGACTGTGGA 59.711 45.833 0.00 0.00 35.25 4.02
48 49 6.823689 GGACTGTGGAATGTAAATACTGATGT 59.176 38.462 0.00 0.00 0.00 3.06
163 164 3.549794 AGCTAGAATGCCAAGGCTAAAG 58.450 45.455 12.96 4.25 42.51 1.85
177 178 7.633553 GCCAAGGCTAAAGATGGAAAATTATGT 60.634 37.037 6.35 0.00 38.26 2.29
210 211 1.686355 GATTGGTGGTGTTGTGGACA 58.314 50.000 0.00 0.00 35.42 4.02
217 218 0.467290 GGTGTTGTGGACATGGTGGT 60.467 55.000 0.00 0.00 41.10 4.16
231 232 1.160137 GGTGGTGTTAGCTGCTTCAG 58.840 55.000 7.79 0.00 34.12 3.02
267 268 0.595095 CTGAAGCAAAGGGTCTGTGC 59.405 55.000 2.04 2.04 44.43 4.57
270 271 2.647297 GCAAAGGGTCTGTGCTGC 59.353 61.111 3.03 0.00 41.18 5.25
291 345 5.722263 TGCAGGTATGAAAATTGTGAATGG 58.278 37.500 0.00 0.00 0.00 3.16
313 367 4.705991 GGATATTTCTCGGACCCCTACTAG 59.294 50.000 0.00 0.00 0.00 2.57
318 372 1.212441 CTCGGACCCCTACTAGTCTGT 59.788 57.143 0.00 0.00 39.82 3.41
407 475 8.497745 AGAATATCTGAAGAAATCAAGCCCTTA 58.502 33.333 0.00 0.00 37.67 2.69
408 476 9.125026 GAATATCTGAAGAAATCAAGCCCTTAA 57.875 33.333 0.00 0.00 37.67 1.85
421 489 5.838521 TCAAGCCCTTAAAAGAACCAAGATT 59.161 36.000 0.00 0.00 0.00 2.40
484 552 5.287674 AGCTCATCATCTAGCTTTGCTAA 57.712 39.130 0.00 0.00 46.82 3.09
485 553 5.055812 AGCTCATCATCTAGCTTTGCTAAC 58.944 41.667 0.00 0.00 46.82 2.34
496 603 7.268586 TCTAGCTTTGCTAACTAGAAATCAGG 58.731 38.462 13.43 0.00 40.82 3.86
501 608 6.614694 TTGCTAACTAGAAATCAGGGTGTA 57.385 37.500 0.00 0.00 0.00 2.90
505 612 7.552687 TGCTAACTAGAAATCAGGGTGTAAATG 59.447 37.037 0.00 0.00 0.00 2.32
506 613 7.769044 GCTAACTAGAAATCAGGGTGTAAATGA 59.231 37.037 0.00 0.00 0.00 2.57
517 624 3.340034 GGTGTAAATGATGTCCGGTTCA 58.660 45.455 0.00 4.02 0.00 3.18
523 630 4.819105 AATGATGTCCGGTTCAGACTTA 57.181 40.909 0.00 0.00 35.21 2.24
596 1342 7.691158 CCTTAAAAGGGTAATGTTAACTAGCG 58.309 38.462 7.22 0.00 42.66 4.26
598 1344 8.845413 TTAAAAGGGTAATGTTAACTAGCGAA 57.155 30.769 7.22 0.00 0.00 4.70
599 1345 6.732531 AAAGGGTAATGTTAACTAGCGAAC 57.267 37.500 7.22 0.00 0.00 3.95
600 1346 4.427312 AGGGTAATGTTAACTAGCGAACG 58.573 43.478 7.22 0.00 0.00 3.95
601 1347 4.082026 AGGGTAATGTTAACTAGCGAACGT 60.082 41.667 7.22 0.00 0.00 3.99
602 1348 4.266265 GGGTAATGTTAACTAGCGAACGTC 59.734 45.833 7.22 0.00 0.00 4.34
603 1349 4.028187 GGTAATGTTAACTAGCGAACGTCG 60.028 45.833 7.22 0.00 43.89 5.12
604 1350 2.686558 TGTTAACTAGCGAACGTCGT 57.313 45.000 7.22 0.00 42.81 4.34
611 1357 3.888934 ACTAGCGAACGTCGTTAAGAAA 58.111 40.909 11.26 0.11 42.81 2.52
641 1393 3.742290 GATCGCAGCCATTTGATCG 57.258 52.632 0.00 0.00 0.00 3.69
695 1455 3.210227 TCACACCGTGAAATTGTCATGT 58.790 40.909 5.28 0.00 39.78 3.21
703 1463 5.408299 CCGTGAAATTGTCATGTTAGTCTCA 59.592 40.000 0.00 0.00 41.10 3.27
725 1485 4.993705 AGAAATTGTCACCCTCCTACAA 57.006 40.909 0.00 0.00 37.51 2.41
728 1488 5.546499 AGAAATTGTCACCCTCCTACAACTA 59.454 40.000 0.00 0.00 36.06 2.24
729 1489 5.836024 AATTGTCACCCTCCTACAACTAA 57.164 39.130 0.00 0.00 36.06 2.24
730 1490 5.836024 ATTGTCACCCTCCTACAACTAAA 57.164 39.130 0.00 0.00 36.06 1.85
731 1491 5.633655 TTGTCACCCTCCTACAACTAAAA 57.366 39.130 0.00 0.00 0.00 1.52
732 1492 5.836024 TGTCACCCTCCTACAACTAAAAT 57.164 39.130 0.00 0.00 0.00 1.82
733 1493 6.195600 TGTCACCCTCCTACAACTAAAATT 57.804 37.500 0.00 0.00 0.00 1.82
734 1494 6.001460 TGTCACCCTCCTACAACTAAAATTG 58.999 40.000 0.00 0.00 35.59 2.32
735 1495 5.007682 TCACCCTCCTACAACTAAAATTGC 58.992 41.667 0.00 0.00 32.47 3.56
736 1496 4.157840 CACCCTCCTACAACTAAAATTGCC 59.842 45.833 0.00 0.00 32.47 4.52
737 1497 3.377172 CCCTCCTACAACTAAAATTGCCG 59.623 47.826 0.00 0.00 32.47 5.69
738 1498 3.181500 CCTCCTACAACTAAAATTGCCGC 60.181 47.826 0.00 0.00 32.47 6.53
739 1499 3.413327 TCCTACAACTAAAATTGCCGCA 58.587 40.909 0.00 0.00 32.47 5.69
740 1500 3.821600 TCCTACAACTAAAATTGCCGCAA 59.178 39.130 8.55 8.55 32.47 4.85
741 1501 4.278669 TCCTACAACTAAAATTGCCGCAAA 59.721 37.500 10.42 0.00 32.47 3.68
751 1511 0.579156 TTGCCGCAAAAATTGTTCGC 59.421 45.000 2.50 0.00 0.00 4.70
752 1512 0.528466 TGCCGCAAAAATTGTTCGCA 60.528 45.000 0.00 0.00 0.00 5.10
767 1527 1.037030 TCGCAATTGCCATTCTCCCC 61.037 55.000 24.24 0.00 37.91 4.81
768 1528 1.321805 CGCAATTGCCATTCTCCCCA 61.322 55.000 24.24 0.00 37.91 4.96
769 1529 0.462789 GCAATTGCCATTCTCCCCAG 59.537 55.000 20.06 0.00 34.31 4.45
770 1530 1.856629 CAATTGCCATTCTCCCCAGT 58.143 50.000 0.00 0.00 0.00 4.00
771 1531 1.479323 CAATTGCCATTCTCCCCAGTG 59.521 52.381 0.00 0.00 0.00 3.66
773 1533 1.002069 TTGCCATTCTCCCCAGTGAT 58.998 50.000 0.00 0.00 0.00 3.06
775 1535 1.105759 GCCATTCTCCCCAGTGATGC 61.106 60.000 0.00 0.00 0.00 3.91
776 1536 0.816825 CCATTCTCCCCAGTGATGCG 60.817 60.000 0.00 0.00 0.00 4.73
778 1538 1.913951 ATTCTCCCCAGTGATGCGCA 61.914 55.000 14.96 14.96 0.00 6.09
779 1539 2.513204 CTCCCCAGTGATGCGCAG 60.513 66.667 18.32 0.41 0.00 5.18
780 1540 3.002583 TCCCCAGTGATGCGCAGA 61.003 61.111 18.32 1.03 0.00 4.26
784 1544 1.236616 CCCAGTGATGCGCAGAAACA 61.237 55.000 18.32 10.66 0.00 2.83
785 1545 0.592637 CCAGTGATGCGCAGAAACAA 59.407 50.000 18.32 0.00 0.00 2.83
786 1546 1.001487 CCAGTGATGCGCAGAAACAAA 60.001 47.619 18.32 0.00 0.00 2.83
787 1547 2.543445 CCAGTGATGCGCAGAAACAAAA 60.543 45.455 18.32 0.00 0.00 2.44
788 1548 3.311106 CAGTGATGCGCAGAAACAAAAT 58.689 40.909 18.32 0.00 0.00 1.82
789 1549 4.475028 CAGTGATGCGCAGAAACAAAATA 58.525 39.130 18.32 0.00 0.00 1.40
790 1550 5.097529 CAGTGATGCGCAGAAACAAAATAT 58.902 37.500 18.32 0.00 0.00 1.28
791 1551 5.228635 CAGTGATGCGCAGAAACAAAATATC 59.771 40.000 18.32 4.07 0.00 1.63
792 1552 5.124457 AGTGATGCGCAGAAACAAAATATCT 59.876 36.000 18.32 3.28 0.00 1.98
793 1553 6.316140 AGTGATGCGCAGAAACAAAATATCTA 59.684 34.615 18.32 0.00 0.00 1.98
794 1554 6.412072 GTGATGCGCAGAAACAAAATATCTAC 59.588 38.462 18.32 1.72 0.00 2.59
795 1555 5.871465 TGCGCAGAAACAAAATATCTACA 57.129 34.783 5.66 0.00 0.00 2.74
796 1556 5.627172 TGCGCAGAAACAAAATATCTACAC 58.373 37.500 5.66 0.00 0.00 2.90
797 1557 4.723862 GCGCAGAAACAAAATATCTACACG 59.276 41.667 0.30 0.00 0.00 4.49
798 1558 5.445407 GCGCAGAAACAAAATATCTACACGA 60.445 40.000 0.30 0.00 0.00 4.35
799 1559 6.530567 CGCAGAAACAAAATATCTACACGAA 58.469 36.000 0.00 0.00 0.00 3.85
800 1560 7.180079 CGCAGAAACAAAATATCTACACGAAT 58.820 34.615 0.00 0.00 0.00 3.34
801 1561 7.370836 CGCAGAAACAAAATATCTACACGAATC 59.629 37.037 0.00 0.00 0.00 2.52
802 1562 8.391106 GCAGAAACAAAATATCTACACGAATCT 58.609 33.333 0.00 0.00 0.00 2.40
803 1563 9.907576 CAGAAACAAAATATCTACACGAATCTC 57.092 33.333 0.00 0.00 0.00 2.75
804 1564 9.653287 AGAAACAAAATATCTACACGAATCTCA 57.347 29.630 0.00 0.00 0.00 3.27
807 1567 8.771920 ACAAAATATCTACACGAATCTCAACA 57.228 30.769 0.00 0.00 0.00 3.33
808 1568 9.383519 ACAAAATATCTACACGAATCTCAACAT 57.616 29.630 0.00 0.00 0.00 2.71
815 1575 7.996385 TCTACACGAATCTCAACATAAGATCA 58.004 34.615 0.00 0.00 32.29 2.92
816 1576 8.466798 TCTACACGAATCTCAACATAAGATCAA 58.533 33.333 0.00 0.00 32.29 2.57
817 1577 9.254133 CTACACGAATCTCAACATAAGATCAAT 57.746 33.333 0.00 0.00 32.29 2.57
818 1578 7.913423 ACACGAATCTCAACATAAGATCAATG 58.087 34.615 0.00 0.75 32.29 2.82
819 1579 7.765819 ACACGAATCTCAACATAAGATCAATGA 59.234 33.333 13.33 0.00 32.29 2.57
820 1580 8.060679 CACGAATCTCAACATAAGATCAATGAC 58.939 37.037 13.33 0.00 32.29 3.06
821 1581 7.765819 ACGAATCTCAACATAAGATCAATGACA 59.234 33.333 13.33 0.00 32.29 3.58
822 1582 8.771766 CGAATCTCAACATAAGATCAATGACAT 58.228 33.333 13.33 0.00 32.29 3.06
825 1585 9.722184 ATCTCAACATAAGATCAATGACATAGG 57.278 33.333 13.33 0.00 0.00 2.57
826 1586 8.927411 TCTCAACATAAGATCAATGACATAGGA 58.073 33.333 13.33 0.00 0.00 2.94
827 1587 8.893219 TCAACATAAGATCAATGACATAGGAC 57.107 34.615 13.33 0.00 0.00 3.85
828 1588 8.708378 TCAACATAAGATCAATGACATAGGACT 58.292 33.333 13.33 0.00 0.00 3.85
829 1589 9.334947 CAACATAAGATCAATGACATAGGACTT 57.665 33.333 13.33 0.00 0.00 3.01
835 1595 8.489676 AGATCAATGACATAGGACTTAGATGT 57.510 34.615 0.00 0.00 36.52 3.06
836 1596 8.366401 AGATCAATGACATAGGACTTAGATGTG 58.634 37.037 0.00 0.00 33.99 3.21
837 1597 6.283694 TCAATGACATAGGACTTAGATGTGC 58.716 40.000 0.00 0.00 33.99 4.57
838 1598 5.876651 ATGACATAGGACTTAGATGTGCA 57.123 39.130 0.00 0.00 33.99 4.57
839 1599 5.675684 TGACATAGGACTTAGATGTGCAA 57.324 39.130 0.00 0.00 33.99 4.08
840 1600 6.239217 TGACATAGGACTTAGATGTGCAAT 57.761 37.500 0.00 0.00 33.99 3.56
841 1601 7.360113 TGACATAGGACTTAGATGTGCAATA 57.640 36.000 0.00 0.00 33.99 1.90
842 1602 7.210174 TGACATAGGACTTAGATGTGCAATAC 58.790 38.462 0.00 0.00 33.99 1.89
843 1603 7.069950 TGACATAGGACTTAGATGTGCAATACT 59.930 37.037 0.00 0.00 33.99 2.12
844 1604 7.796054 ACATAGGACTTAGATGTGCAATACTT 58.204 34.615 0.00 0.00 32.62 2.24
845 1605 8.924303 ACATAGGACTTAGATGTGCAATACTTA 58.076 33.333 0.00 0.00 32.62 2.24
846 1606 9.935241 CATAGGACTTAGATGTGCAATACTTAT 57.065 33.333 0.00 0.00 0.00 1.73
849 1609 8.091449 AGGACTTAGATGTGCAATACTTATAGC 58.909 37.037 0.00 0.00 0.00 2.97
850 1610 7.872993 GGACTTAGATGTGCAATACTTATAGCA 59.127 37.037 0.00 0.00 34.10 3.49
860 1620 8.992835 TGCAATACTTATAGCACATCTAGATG 57.007 34.615 27.63 27.63 44.15 2.90
926 1747 4.671569 CCATAGCCGAGCCCGAGC 62.672 72.222 0.00 0.00 38.22 5.03
965 1786 3.435186 GGCAGGCAAAGCGAGACC 61.435 66.667 0.00 0.00 0.00 3.85
1108 1929 2.820973 CTAGCAGCAGGAGGAGGC 59.179 66.667 0.00 0.00 0.00 4.70
1401 2222 2.531206 GAGGAGTACATGCACTTCGTC 58.469 52.381 0.00 2.08 0.00 4.20
1512 2333 1.660575 CGACGACAACTGAACCGCT 60.661 57.895 0.00 0.00 0.00 5.52
1562 2383 3.394940 TCAGTAGCCTAGCTAGCTCCTTA 59.605 47.826 23.26 1.96 42.11 2.69
1598 2426 2.132762 TGAAGCTTTCGTTCGAGTTCC 58.867 47.619 0.00 0.00 0.00 3.62
1599 2427 2.223971 TGAAGCTTTCGTTCGAGTTCCT 60.224 45.455 0.00 0.00 0.00 3.36
1603 2431 0.391597 TTTCGTTCGAGTTCCTGCCT 59.608 50.000 0.00 0.00 0.00 4.75
1604 2432 0.319555 TTCGTTCGAGTTCCTGCCTG 60.320 55.000 0.00 0.00 0.00 4.85
1605 2433 1.738099 CGTTCGAGTTCCTGCCTGG 60.738 63.158 0.00 0.00 37.10 4.45
1606 2434 1.671742 GTTCGAGTTCCTGCCTGGA 59.328 57.895 0.00 0.00 44.51 3.86
1607 2435 0.250513 GTTCGAGTTCCTGCCTGGAT 59.749 55.000 0.00 0.00 45.68 3.41
1608 2436 0.250234 TTCGAGTTCCTGCCTGGATG 59.750 55.000 0.00 0.00 45.68 3.51
1648 2485 1.861982 TACTCCTAGCCTGGGACAAC 58.138 55.000 0.00 0.00 38.70 3.32
1654 2491 0.984230 TAGCCTGGGACAACAAGGAG 59.016 55.000 0.00 0.00 38.70 3.69
1656 2493 0.690762 GCCTGGGACAACAAGGAGTA 59.309 55.000 0.00 0.00 38.70 2.59
1657 2494 1.610886 GCCTGGGACAACAAGGAGTAC 60.611 57.143 0.00 0.00 38.70 2.73
1684 2525 6.539649 TTTCCTAGTCGTTTGAGTTCATTG 57.460 37.500 0.00 0.00 0.00 2.82
1685 2526 5.209818 TCCTAGTCGTTTGAGTTCATTGT 57.790 39.130 0.00 0.00 0.00 2.71
1686 2527 5.227908 TCCTAGTCGTTTGAGTTCATTGTC 58.772 41.667 0.00 0.00 0.00 3.18
1688 2529 3.454375 AGTCGTTTGAGTTCATTGTCGT 58.546 40.909 0.00 0.00 0.00 4.34
1689 2530 3.245284 AGTCGTTTGAGTTCATTGTCGTG 59.755 43.478 0.00 0.00 0.00 4.35
1691 2532 2.286833 CGTTTGAGTTCATTGTCGTGGT 59.713 45.455 0.00 0.00 0.00 4.16
1692 2533 3.617669 GTTTGAGTTCATTGTCGTGGTG 58.382 45.455 0.00 0.00 0.00 4.17
1693 2534 2.900716 TGAGTTCATTGTCGTGGTGA 57.099 45.000 0.00 0.00 0.00 4.02
1698 2539 1.889545 TCATTGTCGTGGTGATGCAA 58.110 45.000 0.00 0.00 0.00 4.08
1701 2542 2.772568 TTGTCGTGGTGATGCAAAAG 57.227 45.000 0.00 0.00 0.00 2.27
1702 2543 1.960417 TGTCGTGGTGATGCAAAAGA 58.040 45.000 0.00 0.00 0.00 2.52
1703 2544 1.872952 TGTCGTGGTGATGCAAAAGAG 59.127 47.619 0.00 0.00 0.00 2.85
1705 2546 0.453282 CGTGGTGATGCAAAAGAGCG 60.453 55.000 0.00 0.00 37.31 5.03
1709 2554 1.400242 GGTGATGCAAAAGAGCGTGTC 60.400 52.381 0.00 0.00 37.31 3.67
1729 2574 4.338964 TGTCCATTTGATGATTCGATTGGG 59.661 41.667 0.00 0.00 37.37 4.12
1797 2642 0.672401 TGTTCGATCGGCTTTGGGAC 60.672 55.000 16.41 2.67 0.00 4.46
1815 2660 0.959372 ACGCGGTCTACAGCACTAGT 60.959 55.000 12.47 0.00 36.87 2.57
1835 2680 4.298626 AGTAGGAATGCAGGTGAGGATTA 58.701 43.478 0.00 0.00 29.17 1.75
1839 2684 3.378427 GGAATGCAGGTGAGGATTACAAC 59.622 47.826 0.00 0.00 31.17 3.32
1940 2785 9.956720 ATTAGATTTTTAGAGAAAATGCATCGG 57.043 29.630 0.00 0.00 34.54 4.18
1941 2786 6.268566 AGATTTTTAGAGAAAATGCATCGGC 58.731 36.000 0.00 0.00 34.54 5.54
1942 2787 4.370364 TTTTAGAGAAAATGCATCGGCC 57.630 40.909 0.00 0.00 32.24 6.13
1943 2788 1.581934 TAGAGAAAATGCATCGGCCG 58.418 50.000 22.12 22.12 40.13 6.13
1944 2789 0.107703 AGAGAAAATGCATCGGCCGA 60.108 50.000 33.12 33.12 40.13 5.54
1945 2790 0.305922 GAGAAAATGCATCGGCCGAG 59.694 55.000 33.87 24.41 40.13 4.63
1946 2791 1.298638 GAAAATGCATCGGCCGAGC 60.299 57.895 33.87 31.83 40.13 5.03
1947 2792 2.668261 GAAAATGCATCGGCCGAGCC 62.668 60.000 33.87 25.10 46.75 4.70
1981 2826 2.090693 GCCTAGCTCGGCTTTGAAC 58.909 57.895 21.53 0.00 46.63 3.18
1985 2830 2.930682 CCTAGCTCGGCTTTGAACTAAC 59.069 50.000 3.71 0.00 40.44 2.34
2006 2851 2.361104 GCAATCAACCGGCCAGGA 60.361 61.111 18.74 3.02 45.00 3.86
2022 2867 3.624777 CCAGGATTTCAAGCATACACCT 58.375 45.455 0.00 0.00 0.00 4.00
2024 2869 4.818546 CCAGGATTTCAAGCATACACCTAG 59.181 45.833 0.00 0.00 0.00 3.02
2038 2883 1.137872 CACCTAGAGGCAGCGAGAAAT 59.862 52.381 0.00 0.00 39.32 2.17
2098 2943 2.417933 AGCAATGAAGCATGAAGTCGTC 59.582 45.455 0.00 0.00 36.85 4.20
2140 2985 0.951558 AACAAAGCGCCGAGAACAAT 59.048 45.000 2.29 0.00 0.00 2.71
2148 2993 1.076332 GCCGAGAACAATAACACGCT 58.924 50.000 0.00 0.00 0.00 5.07
2181 3026 1.847798 AAAGGCAGACCCGCACCATA 61.848 55.000 0.00 0.00 39.21 2.74
2188 3033 3.250847 CCCGCACCATAGGGGAAT 58.749 61.111 0.00 0.00 44.10 3.01
2241 3086 2.234414 GGCACATCCAACAACATCCATT 59.766 45.455 0.00 0.00 34.01 3.16
2243 3088 4.317488 GCACATCCAACAACATCCATTTT 58.683 39.130 0.00 0.00 0.00 1.82
2331 3176 1.135315 CAAGAACAATGGTGGATGCCG 60.135 52.381 0.00 0.00 0.00 5.69
2362 3207 3.933879 CACATACAGTGGGTCAGCA 57.066 52.632 0.00 0.00 44.69 4.41
2373 3218 2.829384 GGTCAGCACACCCCCAAGA 61.829 63.158 0.00 0.00 0.00 3.02
2379 3224 3.637273 ACACCCCCAAGACGAGCC 61.637 66.667 0.00 0.00 0.00 4.70
2384 3229 3.691342 CCCAAGACGAGCCACCGA 61.691 66.667 0.00 0.00 0.00 4.69
2398 3243 0.108615 CACCGACGCTTCTCCTCAAT 60.109 55.000 0.00 0.00 0.00 2.57
2410 3255 3.242867 TCTCCTCAATCAGAACACCACT 58.757 45.455 0.00 0.00 0.00 4.00
2416 3261 1.356124 ATCAGAACACCACTGCTCCT 58.644 50.000 0.00 0.00 35.61 3.69
2420 3265 0.946221 GAACACCACTGCTCCTCACG 60.946 60.000 0.00 0.00 0.00 4.35
2449 3294 1.451067 CAGAGGAGGAAAAGCAGCAG 58.549 55.000 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.559958 GAAAACATCAGTATTTACATTCCACAG 57.440 33.333 0.00 0.00 0.00 3.66
48 49 3.684305 CGTGTCATGCCATCAGTAGAAAA 59.316 43.478 0.00 0.00 0.00 2.29
124 125 3.421844 AGCTAGTCATTCCCAACAAACC 58.578 45.455 0.00 0.00 0.00 3.27
177 178 2.827322 CACCAATCCAGGAAAAGCATCA 59.173 45.455 0.00 0.00 0.00 3.07
188 189 0.961019 CCACAACACCACCAATCCAG 59.039 55.000 0.00 0.00 0.00 3.86
210 211 1.073763 TGAAGCAGCTAACACCACCAT 59.926 47.619 0.00 0.00 0.00 3.55
217 218 3.054875 ACATGGATCTGAAGCAGCTAACA 60.055 43.478 0.00 0.00 0.00 2.41
231 232 3.170791 TCAGCTTCTTCGACATGGATC 57.829 47.619 0.00 0.00 0.00 3.36
267 268 5.808540 CCATTCACAATTTTCATACCTGCAG 59.191 40.000 6.78 6.78 0.00 4.41
291 345 5.323581 ACTAGTAGGGGTCCGAGAAATATC 58.676 45.833 1.45 0.00 0.00 1.63
313 367 5.529800 ACAACAACATTACCCAACTACAGAC 59.470 40.000 0.00 0.00 0.00 3.51
318 372 5.446860 TCCAACAACAACATTACCCAACTA 58.553 37.500 0.00 0.00 0.00 2.24
484 552 7.633789 ACATCATTTACACCCTGATTTCTAGT 58.366 34.615 0.00 0.00 0.00 2.57
485 553 7.227512 GGACATCATTTACACCCTGATTTCTAG 59.772 40.741 0.00 0.00 30.49 2.43
496 603 3.340034 TGAACCGGACATCATTTACACC 58.660 45.455 9.46 0.00 0.00 4.16
501 608 3.703001 AGTCTGAACCGGACATCATTT 57.297 42.857 9.46 0.00 41.77 2.32
505 612 3.512680 CACTAAGTCTGAACCGGACATC 58.487 50.000 9.46 3.81 41.77 3.06
506 613 2.353803 GCACTAAGTCTGAACCGGACAT 60.354 50.000 9.46 0.00 41.77 3.06
517 624 3.118592 GCATAGGTTCAGGCACTAAGTCT 60.119 47.826 0.00 0.00 36.02 3.24
523 630 1.450312 GCGCATAGGTTCAGGCACT 60.450 57.895 0.30 0.00 43.88 4.40
578 1324 4.082026 ACGTTCGCTAGTTAACATTACCCT 60.082 41.667 8.61 0.00 0.00 4.34
581 1327 4.554973 ACGACGTTCGCTAGTTAACATTAC 59.445 41.667 8.61 0.00 45.12 1.89
593 1339 3.004024 TCTTTCTTAACGACGTTCGCT 57.996 42.857 17.94 0.00 45.12 4.93
594 1340 3.181178 AGTTCTTTCTTAACGACGTTCGC 59.819 43.478 17.94 0.00 45.12 4.70
595 1341 4.143659 GGAGTTCTTTCTTAACGACGTTCG 60.144 45.833 17.94 9.89 46.93 3.95
596 1342 4.149571 GGGAGTTCTTTCTTAACGACGTTC 59.850 45.833 17.94 0.00 32.00 3.95
598 1344 3.068590 TGGGAGTTCTTTCTTAACGACGT 59.931 43.478 0.00 0.00 32.00 4.34
599 1345 3.645884 TGGGAGTTCTTTCTTAACGACG 58.354 45.455 0.00 0.00 32.00 5.12
600 1346 3.432592 GCTGGGAGTTCTTTCTTAACGAC 59.567 47.826 0.00 0.00 32.00 4.34
601 1347 3.660865 GCTGGGAGTTCTTTCTTAACGA 58.339 45.455 0.00 0.00 32.00 3.85
602 1348 2.412089 CGCTGGGAGTTCTTTCTTAACG 59.588 50.000 0.00 0.00 32.00 3.18
603 1349 3.660865 TCGCTGGGAGTTCTTTCTTAAC 58.339 45.455 0.00 0.00 0.00 2.01
604 1350 4.504858 GATCGCTGGGAGTTCTTTCTTAA 58.495 43.478 0.00 0.00 0.00 1.85
611 1357 2.290122 CTGCGATCGCTGGGAGTTCT 62.290 60.000 37.01 0.00 42.51 3.01
666 1425 1.867166 TTCACGGTGTGAACGCATTA 58.133 45.000 8.17 0.00 45.88 1.90
678 1437 5.305585 AGACTAACATGACAATTTCACGGT 58.694 37.500 0.00 0.00 36.92 4.83
679 1438 5.408299 TGAGACTAACATGACAATTTCACGG 59.592 40.000 0.00 0.00 36.92 4.94
687 1447 8.450578 ACAATTTCTTGAGACTAACATGACAA 57.549 30.769 0.00 0.00 36.20 3.18
695 1455 6.187727 AGGGTGACAATTTCTTGAGACTAA 57.812 37.500 0.00 0.00 36.20 2.24
703 1463 4.993705 TGTAGGAGGGTGACAATTTCTT 57.006 40.909 0.00 0.00 0.00 2.52
725 1485 6.370433 AACAATTTTTGCGGCAATTTTAGT 57.630 29.167 17.19 10.09 0.00 2.24
728 1488 4.278058 CGAACAATTTTTGCGGCAATTTT 58.722 34.783 17.19 7.75 0.00 1.82
729 1489 3.847829 GCGAACAATTTTTGCGGCAATTT 60.848 39.130 17.19 8.10 0.00 1.82
730 1490 2.349343 GCGAACAATTTTTGCGGCAATT 60.349 40.909 17.19 6.46 0.00 2.32
731 1491 1.194322 GCGAACAATTTTTGCGGCAAT 59.806 42.857 17.19 0.00 0.00 3.56
732 1492 0.579156 GCGAACAATTTTTGCGGCAA 59.421 45.000 12.11 12.11 0.00 4.52
733 1493 0.528466 TGCGAACAATTTTTGCGGCA 60.528 45.000 0.00 0.00 33.14 5.69
734 1494 0.579156 TTGCGAACAATTTTTGCGGC 59.421 45.000 0.00 0.00 0.00 6.53
751 1511 1.479323 CACTGGGGAGAATGGCAATTG 59.521 52.381 0.00 0.00 0.00 2.32
752 1512 1.358787 TCACTGGGGAGAATGGCAATT 59.641 47.619 0.00 0.00 0.00 2.32
761 1521 3.002583 TGCGCATCACTGGGGAGA 61.003 61.111 5.66 0.00 35.92 3.71
767 1527 2.404265 TTTGTTTCTGCGCATCACTG 57.596 45.000 12.24 0.00 0.00 3.66
768 1528 3.648339 ATTTTGTTTCTGCGCATCACT 57.352 38.095 12.24 0.00 0.00 3.41
769 1529 5.335127 AGATATTTTGTTTCTGCGCATCAC 58.665 37.500 12.24 8.78 0.00 3.06
770 1530 5.565592 AGATATTTTGTTTCTGCGCATCA 57.434 34.783 12.24 5.54 0.00 3.07
771 1531 6.412072 GTGTAGATATTTTGTTTCTGCGCATC 59.588 38.462 12.24 0.00 34.19 3.91
773 1533 5.627172 GTGTAGATATTTTGTTTCTGCGCA 58.373 37.500 10.98 10.98 34.19 6.09
775 1535 6.089920 TCGTGTAGATATTTTGTTTCTGCG 57.910 37.500 0.00 0.00 0.00 5.18
776 1536 8.391106 AGATTCGTGTAGATATTTTGTTTCTGC 58.609 33.333 0.00 0.00 0.00 4.26
778 1538 9.653287 TGAGATTCGTGTAGATATTTTGTTTCT 57.347 29.630 0.00 0.00 0.00 2.52
789 1549 8.633561 TGATCTTATGTTGAGATTCGTGTAGAT 58.366 33.333 0.00 0.00 34.13 1.98
790 1550 7.996385 TGATCTTATGTTGAGATTCGTGTAGA 58.004 34.615 0.00 0.00 34.13 2.59
791 1551 8.634475 TTGATCTTATGTTGAGATTCGTGTAG 57.366 34.615 0.00 0.00 34.13 2.74
792 1552 9.034544 CATTGATCTTATGTTGAGATTCGTGTA 57.965 33.333 0.00 0.00 34.13 2.90
793 1553 7.765819 TCATTGATCTTATGTTGAGATTCGTGT 59.234 33.333 0.00 0.00 34.13 4.49
794 1554 8.060679 GTCATTGATCTTATGTTGAGATTCGTG 58.939 37.037 0.00 0.00 34.13 4.35
795 1555 7.765819 TGTCATTGATCTTATGTTGAGATTCGT 59.234 33.333 0.00 0.00 34.13 3.85
796 1556 8.134905 TGTCATTGATCTTATGTTGAGATTCG 57.865 34.615 0.00 0.00 34.13 3.34
799 1559 9.722184 CCTATGTCATTGATCTTATGTTGAGAT 57.278 33.333 0.00 0.00 36.60 2.75
800 1560 8.927411 TCCTATGTCATTGATCTTATGTTGAGA 58.073 33.333 0.00 0.00 0.00 3.27
801 1561 8.986847 GTCCTATGTCATTGATCTTATGTTGAG 58.013 37.037 0.00 0.00 0.00 3.02
802 1562 8.708378 AGTCCTATGTCATTGATCTTATGTTGA 58.292 33.333 0.00 0.00 0.00 3.18
803 1563 8.899427 AGTCCTATGTCATTGATCTTATGTTG 57.101 34.615 0.00 0.00 0.00 3.33
809 1569 8.932610 ACATCTAAGTCCTATGTCATTGATCTT 58.067 33.333 0.00 0.82 0.00 2.40
810 1570 8.366401 CACATCTAAGTCCTATGTCATTGATCT 58.634 37.037 0.00 0.00 31.60 2.75
811 1571 7.117523 GCACATCTAAGTCCTATGTCATTGATC 59.882 40.741 0.00 0.00 31.60 2.92
812 1572 6.933521 GCACATCTAAGTCCTATGTCATTGAT 59.066 38.462 0.00 0.00 31.60 2.57
813 1573 6.127083 TGCACATCTAAGTCCTATGTCATTGA 60.127 38.462 0.00 0.00 31.60 2.57
814 1574 6.051074 TGCACATCTAAGTCCTATGTCATTG 58.949 40.000 0.00 0.00 31.60 2.82
815 1575 6.239217 TGCACATCTAAGTCCTATGTCATT 57.761 37.500 0.00 0.00 31.60 2.57
816 1576 5.876651 TGCACATCTAAGTCCTATGTCAT 57.123 39.130 0.00 0.00 31.60 3.06
817 1577 5.675684 TTGCACATCTAAGTCCTATGTCA 57.324 39.130 0.00 0.00 31.60 3.58
818 1578 7.437748 AGTATTGCACATCTAAGTCCTATGTC 58.562 38.462 0.00 0.00 31.60 3.06
819 1579 7.366847 AGTATTGCACATCTAAGTCCTATGT 57.633 36.000 0.00 0.00 34.22 2.29
820 1580 9.935241 ATAAGTATTGCACATCTAAGTCCTATG 57.065 33.333 0.00 0.00 0.00 2.23
823 1583 8.091449 GCTATAAGTATTGCACATCTAAGTCCT 58.909 37.037 0.00 0.00 35.12 3.85
824 1584 7.872993 TGCTATAAGTATTGCACATCTAAGTCC 59.127 37.037 3.73 0.00 38.99 3.85
825 1585 8.818141 TGCTATAAGTATTGCACATCTAAGTC 57.182 34.615 3.73 0.00 38.99 3.01
835 1595 8.992835 CATCTAGATGTGCTATAAGTATTGCA 57.007 34.615 22.42 3.73 40.96 4.08
879 1639 9.667989 GTGTAACACGGAGTTTACAAATATTTT 57.332 29.630 0.00 0.00 41.61 1.82
880 1640 8.291740 GGTGTAACACGGAGTTTACAAATATTT 58.708 33.333 0.00 0.00 41.61 1.40
881 1641 7.094677 GGGTGTAACACGGAGTTTACAAATATT 60.095 37.037 0.80 0.00 41.61 1.28
882 1642 6.372381 GGGTGTAACACGGAGTTTACAAATAT 59.628 38.462 0.80 0.00 41.61 1.28
883 1643 5.700373 GGGTGTAACACGGAGTTTACAAATA 59.300 40.000 0.80 0.00 41.61 1.40
884 1644 4.516321 GGGTGTAACACGGAGTTTACAAAT 59.484 41.667 0.80 0.00 41.61 2.32
885 1645 3.876320 GGGTGTAACACGGAGTTTACAAA 59.124 43.478 0.80 0.00 41.61 2.83
886 1646 3.465871 GGGTGTAACACGGAGTTTACAA 58.534 45.455 0.80 0.00 41.61 2.41
887 1647 2.224257 GGGGTGTAACACGGAGTTTACA 60.224 50.000 0.80 0.00 45.55 2.41
888 1648 2.416747 GGGGTGTAACACGGAGTTTAC 58.583 52.381 0.80 2.31 45.55 2.01
889 1649 1.347378 GGGGGTGTAACACGGAGTTTA 59.653 52.381 0.80 0.00 45.55 2.01
890 1650 0.109153 GGGGGTGTAACACGGAGTTT 59.891 55.000 0.80 0.00 45.55 2.66
921 1741 1.528292 CCTTATCCTCCCTCGCTCGG 61.528 65.000 0.00 0.00 0.00 4.63
922 1742 0.824182 ACCTTATCCTCCCTCGCTCG 60.824 60.000 0.00 0.00 0.00 5.03
926 1747 3.573695 TCCTTTACCTTATCCTCCCTCG 58.426 50.000 0.00 0.00 0.00 4.63
965 1786 1.871345 CGCTGACTGCTACGCTCTG 60.871 63.158 2.66 0.00 40.11 3.35
986 1807 2.934887 CTGCCATCTCTCTCTCTCTCA 58.065 52.381 0.00 0.00 0.00 3.27
987 1808 1.610522 GCTGCCATCTCTCTCTCTCTC 59.389 57.143 0.00 0.00 0.00 3.20
988 1809 1.063792 TGCTGCCATCTCTCTCTCTCT 60.064 52.381 0.00 0.00 0.00 3.10
989 1810 1.338973 CTGCTGCCATCTCTCTCTCTC 59.661 57.143 0.00 0.00 0.00 3.20
1512 2333 1.330655 GCAGGATTCGTCCAGGAGGA 61.331 60.000 7.83 7.83 43.21 3.71
1562 2383 4.668636 AGCTTCAGTGAACTAGTAGGACT 58.331 43.478 0.08 0.00 0.00 3.85
1648 2485 5.065731 ACGACTAGGAAATACGTACTCCTTG 59.934 44.000 25.47 24.48 40.20 3.61
1654 2491 6.317857 ACTCAAACGACTAGGAAATACGTAC 58.682 40.000 0.00 0.00 36.20 3.67
1656 2493 5.382618 ACTCAAACGACTAGGAAATACGT 57.617 39.130 0.00 0.00 38.81 3.57
1657 2494 5.860182 TGAACTCAAACGACTAGGAAATACG 59.140 40.000 0.00 0.00 0.00 3.06
1684 2525 1.400242 GCTCTTTTGCATCACCACGAC 60.400 52.381 0.00 0.00 0.00 4.34
1685 2526 0.874390 GCTCTTTTGCATCACCACGA 59.126 50.000 0.00 0.00 0.00 4.35
1686 2527 0.453282 CGCTCTTTTGCATCACCACG 60.453 55.000 0.00 0.00 0.00 4.94
1688 2529 0.592637 CACGCTCTTTTGCATCACCA 59.407 50.000 0.00 0.00 0.00 4.17
1689 2530 0.593128 ACACGCTCTTTTGCATCACC 59.407 50.000 0.00 0.00 0.00 4.02
1691 2532 0.874390 GGACACGCTCTTTTGCATCA 59.126 50.000 0.00 0.00 0.00 3.07
1692 2533 0.874390 TGGACACGCTCTTTTGCATC 59.126 50.000 0.00 0.00 0.00 3.91
1693 2534 1.538047 ATGGACACGCTCTTTTGCAT 58.462 45.000 0.00 0.00 0.00 3.96
1698 2539 3.411446 TCATCAAATGGACACGCTCTTT 58.589 40.909 0.00 0.00 0.00 2.52
1701 2542 3.544834 CGAATCATCAAATGGACACGCTC 60.545 47.826 0.00 0.00 0.00 5.03
1702 2543 2.352651 CGAATCATCAAATGGACACGCT 59.647 45.455 0.00 0.00 0.00 5.07
1703 2544 2.351418 TCGAATCATCAAATGGACACGC 59.649 45.455 0.00 0.00 0.00 5.34
1705 2546 5.276270 CCAATCGAATCATCAAATGGACAC 58.724 41.667 0.00 0.00 0.00 3.67
1709 2554 3.068448 TGCCCAATCGAATCATCAAATGG 59.932 43.478 0.00 0.00 0.00 3.16
1729 2574 1.825622 GGAGGGCTACCAGCAATGC 60.826 63.158 0.00 0.00 44.75 3.56
1757 2602 1.258445 ACTAGTCCTGGACAAGGCCG 61.258 60.000 27.48 11.41 46.92 6.13
1797 2642 1.003759 CTACTAGTGCTGTAGACCGCG 60.004 57.143 5.39 0.00 39.61 6.46
1815 2660 4.037222 TGTAATCCTCACCTGCATTCCTA 58.963 43.478 0.00 0.00 0.00 2.94
1835 2680 0.886490 CCAGCGCCAAGAGAAGTTGT 60.886 55.000 2.29 0.00 0.00 3.32
1839 2684 2.105466 GCTCCAGCGCCAAGAGAAG 61.105 63.158 19.70 3.66 0.00 2.85
1888 2733 3.019964 TGGCACAACAGCTTGTAGG 57.980 52.632 0.00 0.00 38.66 3.18
1940 2785 3.055580 CCCTATCTCAGGCTCGGC 58.944 66.667 0.00 0.00 43.98 5.54
1941 2786 3.055580 GCCCTATCTCAGGCTCGG 58.944 66.667 0.00 0.00 46.14 4.63
1981 2826 2.595386 GCCGGTTGATTGCTTTGTTAG 58.405 47.619 1.90 0.00 0.00 2.34
1985 2830 0.388907 CTGGCCGGTTGATTGCTTTG 60.389 55.000 2.29 0.00 0.00 2.77
2006 2851 4.080356 TGCCTCTAGGTGTATGCTTGAAAT 60.080 41.667 0.00 0.00 37.57 2.17
2022 2867 4.630069 GTGTTTTATTTCTCGCTGCCTCTA 59.370 41.667 0.00 0.00 0.00 2.43
2024 2869 3.188460 TGTGTTTTATTTCTCGCTGCCTC 59.812 43.478 0.00 0.00 0.00 4.70
2038 2883 7.908827 TTGTATATTTCCGCTCTGTGTTTTA 57.091 32.000 0.00 0.00 0.00 1.52
2140 2985 0.037326 CCTCTTGAGCCAGCGTGTTA 60.037 55.000 0.00 0.00 0.00 2.41
2148 2993 0.326264 GCCTTTCTCCTCTTGAGCCA 59.674 55.000 0.00 0.00 41.18 4.75
2181 3026 0.032813 CTTGGTGATGGCATTCCCCT 60.033 55.000 16.25 0.00 0.00 4.79
2188 3033 1.905894 TGTAGTAGCTTGGTGATGGCA 59.094 47.619 0.00 0.00 0.00 4.92
2241 3086 0.536460 GGTTGTGGCCTCCTTCGAAA 60.536 55.000 3.32 0.00 0.00 3.46
2243 3088 1.841556 AGGTTGTGGCCTCCTTCGA 60.842 57.895 3.32 0.00 32.39 3.71
2292 3137 2.262637 TGGGGAACTTTACCATCTCGT 58.737 47.619 0.00 0.00 30.46 4.18
2362 3207 3.637273 GGCTCGTCTTGGGGGTGT 61.637 66.667 0.00 0.00 0.00 4.16
2368 3213 2.432628 GTCGGTGGCTCGTCTTGG 60.433 66.667 1.40 0.00 0.00 3.61
2369 3214 2.805353 CGTCGGTGGCTCGTCTTG 60.805 66.667 1.40 0.00 0.00 3.02
2373 3218 4.719369 GAAGCGTCGGTGGCTCGT 62.719 66.667 0.00 0.00 40.53 4.18
2379 3224 0.108615 ATTGAGGAGAAGCGTCGGTG 60.109 55.000 0.00 0.00 34.17 4.94
2384 3229 2.300152 TGTTCTGATTGAGGAGAAGCGT 59.700 45.455 0.00 0.00 0.00 5.07
2398 3243 0.681733 GAGGAGCAGTGGTGTTCTGA 59.318 55.000 0.00 0.00 34.45 3.27
2410 3255 2.506957 TTGCTGGACGTGAGGAGCA 61.507 57.895 0.00 0.00 39.27 4.26
2416 3261 1.367471 CTCTGGTTGCTGGACGTGA 59.633 57.895 0.00 0.00 0.00 4.35
2420 3265 1.194781 TCCTCCTCTGGTTGCTGGAC 61.195 60.000 0.00 0.00 0.00 4.02
2449 3294 1.990060 TGGTGCCCTCTGTCCTAGC 60.990 63.158 0.00 0.00 0.00 3.42


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

AutoCloner maintained by Alex Coulton.