Multiple sequence alignment - TraesCS1A01G258400

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1A01G258400 chr1A 100.000 3417 0 0 1 3417 451283737 451280321 0.000000e+00 6311
1 TraesCS1A01G258400 chr1B 89.075 2563 116 70 827 3311 472633399 472635875 0.000000e+00 3031
2 TraesCS1A01G258400 chr1B 89.062 384 30 5 365 742 472633033 472633410 1.860000e-127 466
3 TraesCS1A01G258400 chr1B 83.578 341 25 11 1390 1730 655059508 655059199 1.200000e-74 291
4 TraesCS1A01G258400 chr1B 94.595 74 0 1 6 79 472631993 472632062 1.000000e-20 111
5 TraesCS1A01G258400 chr1D 90.771 2102 65 48 827 2869 350260415 350258384 0.000000e+00 2687
6 TraesCS1A01G258400 chr1D 86.860 898 46 31 2560 3417 350258676 350257811 0.000000e+00 939
7 TraesCS1A01G258400 chr1D 87.712 765 36 22 11 743 350261141 350260403 0.000000e+00 839
8 TraesCS1A01G258400 chr1D 89.412 170 11 4 1400 1569 38791474 38791636 1.240000e-49 207
9 TraesCS1A01G258400 chr5D 84.242 330 21 15 1401 1730 120775139 120774841 3.340000e-75 292
10 TraesCS1A01G258400 chr5D 89.412 170 11 4 1400 1569 436603556 436603394 1.240000e-49 207
11 TraesCS1A01G258400 chr5D 96.000 100 4 0 732 831 424123540 424123639 2.730000e-36 163
12 TraesCS1A01G258400 chr5D 86.861 137 6 2 1595 1731 369059550 369059426 3.550000e-30 143
13 TraesCS1A01G258400 chr4D 90.000 170 10 4 1400 1569 456276286 456276448 2.670000e-51 213
14 TraesCS1A01G258400 chr3A 79.598 348 25 19 1384 1730 724509876 724510178 1.240000e-49 207
15 TraesCS1A01G258400 chr3A 84.568 162 25 0 1704 1865 609959812 609959973 9.810000e-36 161
16 TraesCS1A01G258400 chr3A 96.875 96 2 1 736 831 256934799 256934705 3.530000e-35 159
17 TraesCS1A01G258400 chr3A 94.286 105 5 1 727 831 264939818 264939921 3.530000e-35 159
18 TraesCS1A01G258400 chr7A 88.235 153 12 3 1417 1569 112979554 112979408 9.740000e-41 178
19 TraesCS1A01G258400 chr5A 92.373 118 9 0 1400 1517 13509338 13509455 5.860000e-38 169
20 TraesCS1A01G258400 chr5A 93.578 109 7 0 723 831 69844912 69844804 2.730000e-36 163
21 TraesCS1A01G258400 chr4A 95.283 106 3 2 727 831 381221447 381221343 2.110000e-37 167
22 TraesCS1A01G258400 chr4A 95.146 103 4 1 730 831 556378553 556378451 9.810000e-36 161
23 TraesCS1A01G258400 chr3B 85.185 162 24 0 1704 1865 621297545 621297706 2.110000e-37 167
24 TraesCS1A01G258400 chr6A 96.970 99 2 1 733 831 183352118 183352215 7.590000e-37 165
25 TraesCS1A01G258400 chr3D 84.568 162 25 0 1704 1865 467318816 467318977 9.810000e-36 161
26 TraesCS1A01G258400 chr3D 91.964 112 6 3 720 831 152846053 152846161 1.640000e-33 154
27 TraesCS1A01G258400 chrUn 88.235 136 4 2 1595 1730 29857903 29858026 5.910000e-33 152
28 TraesCS1A01G258400 chr2D 89.916 119 9 2 713 831 272263195 272263080 2.120000e-32 150
29 TraesCS1A01G258400 chr2D 86.765 136 6 2 1595 1730 103133520 103133643 1.280000e-29 141


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 TraesCS1A01G258400 chr1A 451280321 451283737 3416 True 6311.000000 6311 100.000000 1 3417 1 chr1A.!!$R1 3416
1 TraesCS1A01G258400 chr1B 472631993 472635875 3882 False 1202.666667 3031 90.910667 6 3311 3 chr1B.!!$F1 3305
2 TraesCS1A01G258400 chr1D 350257811 350261141 3330 True 1488.333333 2687 88.447667 11 3417 3 chr1D.!!$R1 3406

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
892 1598 0.036388 GGGAGGAGAATCACGCACAA 60.036 55.0 0.0 0.0 36.25 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2589 3376 0.035881 CAGAAGCACTGGCCAAGAGA 59.964 55.0 7.01 0.0 42.39 3.1 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
81 82 5.142806 AGACCCAATAGGCCATGTTTATT 57.857 39.130 5.01 0.00 40.58 1.40
123 186 9.185680 GAGATAGGTGTACCCATTAAAACAAAT 57.814 33.333 0.00 0.00 36.42 2.32
153 216 1.302832 AAGGAGCCTTTGACCGCTG 60.303 57.895 0.00 0.00 34.84 5.18
212 616 3.495753 AGTAACTTTTAACCGGAACAGCG 59.504 43.478 9.46 0.00 0.00 5.18
320 724 1.814527 CTAGGTGGGAGCACGTACC 59.185 63.158 0.00 0.00 0.00 3.34
324 728 1.614241 GGTGGGAGCACGTACCAGAT 61.614 60.000 0.00 0.00 34.39 2.90
325 729 0.179108 GTGGGAGCACGTACCAGATC 60.179 60.000 7.67 0.00 34.39 2.75
326 730 1.327690 TGGGAGCACGTACCAGATCC 61.328 60.000 7.73 7.73 0.00 3.36
327 731 1.327690 GGGAGCACGTACCAGATCCA 61.328 60.000 15.75 0.00 0.00 3.41
328 732 0.103208 GGAGCACGTACCAGATCCAG 59.897 60.000 10.64 0.00 0.00 3.86
410 1102 3.998672 GTCCGTCCGTCCAGGCAA 61.999 66.667 0.00 0.00 40.77 4.52
487 1186 3.532039 ATTCCCCCTCCCCACCACA 62.532 63.158 0.00 0.00 0.00 4.17
521 1220 2.356673 GTTCGGCTCGGTTCGGTT 60.357 61.111 0.00 0.00 0.00 4.44
647 1351 5.118510 CAGTCCAGTGTTTTTGTTTTGTCAC 59.881 40.000 0.00 0.00 0.00 3.67
654 1358 2.663826 TTTGTTTTGTCACCCTGTGC 57.336 45.000 0.00 0.00 32.98 4.57
655 1359 1.550327 TTGTTTTGTCACCCTGTGCA 58.450 45.000 0.00 0.00 32.98 4.57
658 1362 1.408702 GTTTTGTCACCCTGTGCATGT 59.591 47.619 0.00 0.00 32.98 3.21
659 1363 1.031235 TTTGTCACCCTGTGCATGTG 58.969 50.000 0.00 0.00 32.98 3.21
660 1364 0.106769 TTGTCACCCTGTGCATGTGT 60.107 50.000 0.00 0.00 32.98 3.72
673 1379 4.094739 TGTGCATGTGTTGTGTAGATATGC 59.905 41.667 0.00 0.00 42.59 3.14
746 1452 9.822185 TTTTCCTCTTTATTATTACGTACTCCC 57.178 33.333 0.00 0.00 0.00 4.30
747 1453 8.773033 TTCCTCTTTATTATTACGTACTCCCT 57.227 34.615 0.00 0.00 0.00 4.20
748 1454 8.401490 TCCTCTTTATTATTACGTACTCCCTC 57.599 38.462 0.00 0.00 0.00 4.30
749 1455 7.449704 TCCTCTTTATTATTACGTACTCCCTCC 59.550 40.741 0.00 0.00 0.00 4.30
750 1456 7.206981 TCTTTATTATTACGTACTCCCTCCG 57.793 40.000 0.00 0.00 0.00 4.63
751 1457 6.772716 TCTTTATTATTACGTACTCCCTCCGT 59.227 38.462 0.00 0.00 38.53 4.69
752 1458 6.959639 TTATTATTACGTACTCCCTCCGTT 57.040 37.500 0.00 0.00 36.12 4.44
753 1459 4.900635 TTATTACGTACTCCCTCCGTTC 57.099 45.455 0.00 0.00 36.12 3.95
754 1460 2.496899 TTACGTACTCCCTCCGTTCT 57.503 50.000 0.00 0.00 36.12 3.01
755 1461 3.627395 TTACGTACTCCCTCCGTTCTA 57.373 47.619 0.00 0.00 36.12 2.10
756 1462 2.496899 ACGTACTCCCTCCGTTCTAA 57.503 50.000 0.00 0.00 0.00 2.10
757 1463 2.795329 ACGTACTCCCTCCGTTCTAAA 58.205 47.619 0.00 0.00 0.00 1.85
758 1464 3.359950 ACGTACTCCCTCCGTTCTAAAT 58.640 45.455 0.00 0.00 0.00 1.40
759 1465 3.766051 ACGTACTCCCTCCGTTCTAAATT 59.234 43.478 0.00 0.00 0.00 1.82
760 1466 4.949856 ACGTACTCCCTCCGTTCTAAATTA 59.050 41.667 0.00 0.00 0.00 1.40
761 1467 5.163612 ACGTACTCCCTCCGTTCTAAATTAC 60.164 44.000 0.00 0.00 0.00 1.89
762 1468 5.067023 CGTACTCCCTCCGTTCTAAATTACT 59.933 44.000 0.00 0.00 0.00 2.24
763 1469 5.595257 ACTCCCTCCGTTCTAAATTACTC 57.405 43.478 0.00 0.00 0.00 2.59
764 1470 4.097589 ACTCCCTCCGTTCTAAATTACTCG 59.902 45.833 0.00 0.00 0.00 4.18
765 1471 4.019174 TCCCTCCGTTCTAAATTACTCGT 58.981 43.478 0.00 0.00 0.00 4.18
766 1472 4.096984 TCCCTCCGTTCTAAATTACTCGTC 59.903 45.833 0.00 0.00 0.00 4.20
767 1473 4.033684 CCTCCGTTCTAAATTACTCGTCG 58.966 47.826 0.00 0.00 0.00 5.12
768 1474 3.429085 TCCGTTCTAAATTACTCGTCGC 58.571 45.455 0.00 0.00 0.00 5.19
769 1475 3.119884 TCCGTTCTAAATTACTCGTCGCA 60.120 43.478 0.00 0.00 0.00 5.10
770 1476 3.239941 CCGTTCTAAATTACTCGTCGCAG 59.760 47.826 0.00 0.00 0.00 5.18
771 1477 4.093514 CGTTCTAAATTACTCGTCGCAGA 58.906 43.478 0.00 0.00 0.00 4.26
772 1478 4.556135 CGTTCTAAATTACTCGTCGCAGAA 59.444 41.667 0.00 0.00 39.69 3.02
773 1479 5.060077 CGTTCTAAATTACTCGTCGCAGAAA 59.940 40.000 0.00 0.00 39.69 2.52
774 1480 6.237490 CGTTCTAAATTACTCGTCGCAGAAAT 60.237 38.462 0.00 0.00 39.69 2.17
775 1481 6.569228 TCTAAATTACTCGTCGCAGAAATG 57.431 37.500 0.00 0.00 39.69 2.32
776 1482 4.600012 AAATTACTCGTCGCAGAAATGG 57.400 40.909 0.00 0.00 39.69 3.16
777 1483 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
778 1484 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
779 1485 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
780 1486 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
781 1487 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
782 1488 3.181475 ACTCGTCGCAGAAATGGATGTAT 60.181 43.478 0.00 0.00 39.69 2.29
783 1489 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
784 1490 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
785 1491 4.277423 TCGTCGCAGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 39.69 1.98
786 1492 4.618912 CGTCGCAGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 39.69 2.43
787 1493 5.562890 CGTCGCAGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 39.69 2.43
788 1494 6.216569 GTCGCAGAAATGGATGTATCTAGAA 58.783 40.000 0.00 0.00 39.69 2.10
789 1495 6.144724 GTCGCAGAAATGGATGTATCTAGAAC 59.855 42.308 0.00 0.00 39.69 3.01
790 1496 6.040955 TCGCAGAAATGGATGTATCTAGAACT 59.959 38.462 0.00 0.00 0.00 3.01
791 1497 7.230712 TCGCAGAAATGGATGTATCTAGAACTA 59.769 37.037 0.00 0.00 0.00 2.24
792 1498 7.867909 CGCAGAAATGGATGTATCTAGAACTAA 59.132 37.037 0.00 0.00 0.00 2.24
793 1499 9.547753 GCAGAAATGGATGTATCTAGAACTAAA 57.452 33.333 0.00 0.00 0.00 1.85
819 1525 6.537453 ACATCTAGATACATCCATACCTGC 57.463 41.667 4.54 0.00 0.00 4.85
820 1526 5.126222 ACATCTAGATACATCCATACCTGCG 59.874 44.000 4.54 0.00 0.00 5.18
821 1527 4.918588 TCTAGATACATCCATACCTGCGA 58.081 43.478 0.00 0.00 0.00 5.10
822 1528 3.944055 AGATACATCCATACCTGCGAC 57.056 47.619 0.00 0.00 0.00 5.19
823 1529 3.230976 AGATACATCCATACCTGCGACA 58.769 45.455 0.00 0.00 0.00 4.35
824 1530 3.641436 AGATACATCCATACCTGCGACAA 59.359 43.478 0.00 0.00 0.00 3.18
825 1531 2.315925 ACATCCATACCTGCGACAAG 57.684 50.000 0.00 0.00 0.00 3.16
826 1532 1.555075 ACATCCATACCTGCGACAAGT 59.445 47.619 0.00 0.00 0.00 3.16
827 1533 2.027192 ACATCCATACCTGCGACAAGTT 60.027 45.455 0.00 0.00 0.00 2.66
828 1534 3.196901 ACATCCATACCTGCGACAAGTTA 59.803 43.478 0.00 0.00 0.00 2.24
829 1535 4.141711 ACATCCATACCTGCGACAAGTTAT 60.142 41.667 0.00 0.00 0.00 1.89
834 1540 5.234329 CCATACCTGCGACAAGTTATTAGTG 59.766 44.000 0.00 0.00 0.00 2.74
835 1541 4.530710 ACCTGCGACAAGTTATTAGTGA 57.469 40.909 0.00 0.00 0.00 3.41
864 1570 9.707957 ATTTATGTAGGATATGTAGGAGGAGAG 57.292 37.037 0.00 0.00 0.00 3.20
887 1593 0.912486 AAAGGGGGAGGAGAATCACG 59.088 55.000 0.00 0.00 36.25 4.35
890 1596 1.153349 GGGGAGGAGAATCACGCAC 60.153 63.158 0.00 0.00 36.25 5.34
891 1597 1.596934 GGGAGGAGAATCACGCACA 59.403 57.895 0.00 0.00 36.25 4.57
892 1598 0.036388 GGGAGGAGAATCACGCACAA 60.036 55.000 0.00 0.00 36.25 3.33
893 1599 1.407437 GGGAGGAGAATCACGCACAAT 60.407 52.381 0.00 0.00 36.25 2.71
894 1600 2.359900 GGAGGAGAATCACGCACAATT 58.640 47.619 0.00 0.00 36.25 2.32
895 1601 3.531538 GGAGGAGAATCACGCACAATTA 58.468 45.455 0.00 0.00 36.25 1.40
896 1602 3.938963 GGAGGAGAATCACGCACAATTAA 59.061 43.478 0.00 0.00 36.25 1.40
900 1606 6.555315 AGGAGAATCACGCACAATTAAAATC 58.445 36.000 0.00 0.00 36.25 2.17
937 1644 1.854126 CCAACAAGCGAGCAAACAAAG 59.146 47.619 0.00 0.00 0.00 2.77
947 1654 2.535574 GAGCAAACAAAGAAAGCAACCG 59.464 45.455 0.00 0.00 0.00 4.44
948 1655 2.165437 AGCAAACAAAGAAAGCAACCGA 59.835 40.909 0.00 0.00 0.00 4.69
954 1661 4.003648 ACAAAGAAAGCAACCGAGGATAG 58.996 43.478 0.00 0.00 0.00 2.08
1048 1767 2.959707 ACTCCCGAACTCATCAGATACC 59.040 50.000 0.00 0.00 0.00 2.73
1065 1784 0.396417 ACCCTCCTCCTCACTCATCG 60.396 60.000 0.00 0.00 0.00 3.84
1074 1793 0.955178 CTCACTCATCGTCGGCCTAT 59.045 55.000 0.00 0.00 0.00 2.57
1095 1814 1.539496 CGTCCGTCCTAGAGAGAGAGG 60.539 61.905 0.00 0.00 0.00 3.69
1111 1832 2.182858 GAGGGAGAGGGAAGGGGTGA 62.183 65.000 0.00 0.00 0.00 4.02
1174 1903 4.156477 AGAGAGAAAAGAGGGGGATATCG 58.844 47.826 0.00 0.00 0.00 2.92
1227 1956 1.887198 GACCCAAACGAGTGAGAGAGA 59.113 52.381 0.00 0.00 0.00 3.10
1228 1957 1.889829 ACCCAAACGAGTGAGAGAGAG 59.110 52.381 0.00 0.00 0.00 3.20
1229 1958 1.403514 CCCAAACGAGTGAGAGAGAGC 60.404 57.143 0.00 0.00 0.00 4.09
1230 1959 1.612156 CAAACGAGTGAGAGAGAGCG 58.388 55.000 0.00 0.00 0.00 5.03
1231 1960 0.109504 AAACGAGTGAGAGAGAGCGC 60.110 55.000 0.00 0.00 0.00 5.92
1232 1961 1.928706 AACGAGTGAGAGAGAGCGCC 61.929 60.000 2.29 0.00 0.00 6.53
1273 2009 2.101082 GAGATCCACCTCGAAGTAACCC 59.899 54.545 0.00 0.00 0.00 4.11
1330 2085 3.898509 CTCCTCCCAGCGCGAGAG 61.899 72.222 12.10 13.47 0.00 3.20
1388 2156 1.812922 CGAATTGCTCTGCTCCGCT 60.813 57.895 0.00 0.00 0.00 5.52
1390 2158 1.435408 GAATTGCTCTGCTCCGCTCC 61.435 60.000 0.00 0.00 0.00 4.70
1538 2306 3.781307 CCGCCTTCGACATCCCCA 61.781 66.667 0.00 0.00 38.10 4.96
1735 2503 2.633657 CTGCACAAGCGCTTCGTT 59.366 55.556 22.21 4.44 46.23 3.85
1738 2506 1.207593 GCACAAGCGCTTCGTTGAT 59.792 52.632 22.21 0.00 0.00 2.57
2257 3028 4.891727 ATGATGGCGCCGTCGTCC 62.892 66.667 36.51 19.45 40.09 4.79
2335 3106 2.432628 CTGACGCTGTTCCCGACC 60.433 66.667 0.00 0.00 0.00 4.79
2464 3247 0.107508 ACTTCCCACAGATCGGCATG 60.108 55.000 0.00 0.00 0.00 4.06
2485 3272 1.672881 GAATCCCAGCAAGATTCACCG 59.327 52.381 14.82 0.00 45.86 4.94
2502 3289 3.756434 TCACCGCATCGTCATATCATAGA 59.244 43.478 0.00 0.00 0.00 1.98
2546 3333 4.489771 CTCCGCCACCCACCCATC 62.490 72.222 0.00 0.00 0.00 3.51
2549 3336 4.127744 CGCCACCCACCCATCCAT 62.128 66.667 0.00 0.00 0.00 3.41
2550 3337 2.123726 GCCACCCACCCATCCATC 60.124 66.667 0.00 0.00 0.00 3.51
2551 3338 2.603008 CCACCCACCCATCCATCC 59.397 66.667 0.00 0.00 0.00 3.51
2552 3339 2.315794 CCACCCACCCATCCATCCA 61.316 63.158 0.00 0.00 0.00 3.41
2578 3365 9.917887 ATCCAATCCATCCATATTTTCTATCTC 57.082 33.333 0.00 0.00 0.00 2.75
2588 3375 9.739276 TCCATATTTTCTATCTCTCTCTCTCTC 57.261 37.037 0.00 0.00 0.00 3.20
2589 3376 9.745018 CCATATTTTCTATCTCTCTCTCTCTCT 57.255 37.037 0.00 0.00 0.00 3.10
2593 3380 7.921041 TTTCTATCTCTCTCTCTCTCTCTCT 57.079 40.000 0.00 0.00 0.00 3.10
2594 3381 7.921041 TTCTATCTCTCTCTCTCTCTCTCTT 57.079 40.000 0.00 0.00 0.00 2.85
2595 3382 7.295322 TCTATCTCTCTCTCTCTCTCTCTTG 57.705 44.000 0.00 0.00 0.00 3.02
2644 3431 3.016031 TGCGGATATTTGTCATTGCTGT 58.984 40.909 0.00 0.00 0.00 4.40
2750 3538 4.830046 TGAAAATTTGGTGCCTGCTAGTAA 59.170 37.500 0.00 0.00 0.00 2.24
2751 3539 5.048083 TGAAAATTTGGTGCCTGCTAGTAAG 60.048 40.000 0.00 0.00 0.00 2.34
2752 3540 3.721087 ATTTGGTGCCTGCTAGTAAGT 57.279 42.857 0.00 0.00 0.00 2.24
2753 3541 4.837093 ATTTGGTGCCTGCTAGTAAGTA 57.163 40.909 0.00 0.00 0.00 2.24
2769 3557 7.905493 GCTAGTAAGTACTTTCATTCATGTTGC 59.095 37.037 14.49 0.41 37.73 4.17
2793 3581 6.147864 TGGTTGTCTGAGGAAAGAAAATTG 57.852 37.500 0.00 0.00 0.00 2.32
2819 3607 4.336581 CGAATTGCGCGGAGGATA 57.663 55.556 8.83 0.00 0.00 2.59
2820 3608 1.853319 CGAATTGCGCGGAGGATAC 59.147 57.895 8.83 0.00 0.00 2.24
2821 3609 0.874175 CGAATTGCGCGGAGGATACA 60.874 55.000 8.83 0.00 41.41 2.29
2822 3610 0.861837 GAATTGCGCGGAGGATACAG 59.138 55.000 8.83 0.00 41.41 2.74
2823 3611 0.532862 AATTGCGCGGAGGATACAGG 60.533 55.000 8.83 0.00 41.41 4.00
2824 3612 2.996168 ATTGCGCGGAGGATACAGGC 62.996 60.000 8.83 0.00 41.41 4.85
2825 3613 3.917760 GCGCGGAGGATACAGGCT 61.918 66.667 8.83 0.00 41.41 4.58
2872 3690 2.029844 GGCGACTGACACTTGAGCC 61.030 63.158 0.00 0.00 36.08 4.70
2881 3699 1.811266 CACTTGAGCCGTGATCCCG 60.811 63.158 0.00 0.00 34.35 5.14
2883 3701 4.812476 TTGAGCCGTGATCCCGCG 62.812 66.667 0.00 0.00 45.12 6.46
2931 3749 1.863454 GCAGATTGCATAGGTGAGTCG 59.137 52.381 0.00 0.00 44.26 4.18
2932 3750 2.481969 GCAGATTGCATAGGTGAGTCGA 60.482 50.000 0.00 0.00 44.26 4.20
2933 3751 3.119291 CAGATTGCATAGGTGAGTCGAC 58.881 50.000 7.70 7.70 0.00 4.20
2934 3752 3.027412 AGATTGCATAGGTGAGTCGACT 58.973 45.455 20.18 20.18 0.00 4.18
2935 3753 2.941453 TTGCATAGGTGAGTCGACTC 57.059 50.000 33.76 33.76 43.15 3.36
3004 3822 1.005215 CCCTGAGCTTGGAGGTGAATT 59.995 52.381 8.11 0.00 0.00 2.17
3005 3823 2.556114 CCCTGAGCTTGGAGGTGAATTT 60.556 50.000 8.11 0.00 0.00 1.82
3006 3824 3.308402 CCCTGAGCTTGGAGGTGAATTTA 60.308 47.826 8.11 0.00 0.00 1.40
3052 3880 3.863041 ACAATTTAGCTCCTCGTCCTTC 58.137 45.455 0.00 0.00 0.00 3.46
3061 3889 1.153745 CTCGTCCTTCGGGCTTCAG 60.154 63.158 0.00 0.00 40.32 3.02
3115 3948 1.742761 TGCTCTTACATTCTGCTGCC 58.257 50.000 0.00 0.00 0.00 4.85
3119 3952 0.376152 CTTACATTCTGCTGCCGCTG 59.624 55.000 0.70 0.54 36.97 5.18
3120 3953 1.647545 TTACATTCTGCTGCCGCTGC 61.648 55.000 14.83 14.83 36.97 5.25
3121 3954 2.526450 TACATTCTGCTGCCGCTGCT 62.526 55.000 21.13 4.52 38.71 4.24
3122 3955 3.132139 ATTCTGCTGCCGCTGCTG 61.132 61.111 21.13 20.02 38.71 4.41
3145 3978 4.691685 GCTAGGATCATGATTCAGAGCAAG 59.308 45.833 25.39 11.61 31.49 4.01
3166 3999 5.453567 AGCCAAATTGGAGTTTCTTGTAC 57.546 39.130 17.47 0.00 40.96 2.90
3167 4000 4.280929 AGCCAAATTGGAGTTTCTTGTACC 59.719 41.667 17.47 0.00 40.96 3.34
3206 4047 7.500629 AATCTTCCCTGCTCCATTTTAAAAT 57.499 32.000 7.64 7.64 0.00 1.82
3210 4051 7.893302 TCTTCCCTGCTCCATTTTAAAATCTTA 59.107 33.333 10.53 0.00 0.00 2.10
3211 4052 7.404671 TCCCTGCTCCATTTTAAAATCTTAC 57.595 36.000 10.53 2.69 0.00 2.34
3277 4127 0.179225 GAATTGTGCGCGTACAGTGG 60.179 55.000 28.10 0.00 0.00 4.00
3311 4161 5.891551 GGGGGTATGTTCAAATCAACAGTAT 59.108 40.000 0.00 0.00 39.63 2.12
3312 4162 6.039382 GGGGGTATGTTCAAATCAACAGTATC 59.961 42.308 0.00 0.00 39.63 2.24
3313 4163 6.828785 GGGGTATGTTCAAATCAACAGTATCT 59.171 38.462 0.00 0.00 39.63 1.98
3314 4164 7.012421 GGGGTATGTTCAAATCAACAGTATCTC 59.988 40.741 0.00 0.00 39.63 2.75
3332 4185 3.207669 CCTGCTCTCCCAATGCGC 61.208 66.667 0.00 0.00 0.00 6.09
3369 4222 1.001293 TCACTAGCAGGTGTGAAGCAG 59.999 52.381 8.52 0.00 39.82 4.24
3381 4234 0.899717 TGAAGCAGGCATTCCCAACC 60.900 55.000 0.00 0.00 35.39 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.312443 AGAAAAGGGAAGTGGTAATACTGGT 59.688 40.000 0.00 0.00 0.00 4.00
1 2 5.648092 CAGAAAAGGGAAGTGGTAATACTGG 59.352 44.000 0.00 0.00 0.00 4.00
2 3 6.149474 CACAGAAAAGGGAAGTGGTAATACTG 59.851 42.308 0.00 0.00 0.00 2.74
3 4 6.238648 CACAGAAAAGGGAAGTGGTAATACT 58.761 40.000 0.00 0.00 0.00 2.12
4 5 5.106277 GCACAGAAAAGGGAAGTGGTAATAC 60.106 44.000 0.00 0.00 0.00 1.89
41 42 2.422127 GTCTACTCTCGCAGCTTCTTCT 59.578 50.000 0.00 0.00 0.00 2.85
42 43 2.478879 GGTCTACTCTCGCAGCTTCTTC 60.479 54.545 0.00 0.00 0.00 2.87
43 44 1.474879 GGTCTACTCTCGCAGCTTCTT 59.525 52.381 0.00 0.00 0.00 2.52
44 45 1.099689 GGTCTACTCTCGCAGCTTCT 58.900 55.000 0.00 0.00 0.00 2.85
81 82 5.163405 ACCTATCTCGCTTTCAATCAAGCTA 60.163 40.000 4.06 0.00 46.09 3.32
123 186 0.322816 GGCTCCTTGCATTCTCACCA 60.323 55.000 0.00 0.00 45.15 4.17
153 216 5.063180 TCACTGGATTTGATTGTGAATGC 57.937 39.130 0.00 0.00 35.15 3.56
212 616 3.071874 TGGTTGGGTGAATCTCATGTC 57.928 47.619 0.00 0.00 0.00 3.06
320 724 2.146061 GGAGGGAGGGCTGGATCTG 61.146 68.421 0.00 0.00 0.00 2.90
324 728 4.741239 GTGGGAGGGAGGGCTGGA 62.741 72.222 0.00 0.00 0.00 3.86
343 753 0.105593 ACTGGATCTATGCACGCAGG 59.894 55.000 0.00 0.00 0.00 4.85
344 754 1.495878 GACTGGATCTATGCACGCAG 58.504 55.000 0.00 0.00 0.00 5.18
350 760 1.000283 CTGGACCGACTGGATCTATGC 60.000 57.143 0.00 0.00 39.21 3.14
351 761 2.294791 GTCTGGACCGACTGGATCTATG 59.705 54.545 8.62 0.00 39.21 2.23
426 1121 1.081376 GGTCGAGGTGGATATCGCG 60.081 63.158 0.00 0.00 38.79 5.87
451 1150 2.492449 ATCTCGTGTGGCTCGTGTGG 62.492 60.000 0.00 0.00 0.00 4.17
647 1351 1.536766 CTACACAACACATGCACAGGG 59.463 52.381 0.00 0.00 0.00 4.45
654 1358 3.303329 GGCGCATATCTACACAACACATG 60.303 47.826 10.83 0.00 0.00 3.21
655 1359 2.872245 GGCGCATATCTACACAACACAT 59.128 45.455 10.83 0.00 0.00 3.21
658 1362 1.474320 GGGGCGCATATCTACACAACA 60.474 52.381 10.83 0.00 0.00 3.33
659 1363 1.226746 GGGGCGCATATCTACACAAC 58.773 55.000 10.83 0.00 0.00 3.32
660 1364 0.249699 CGGGGCGCATATCTACACAA 60.250 55.000 10.83 0.00 0.00 3.33
735 1441 2.496899 AGAACGGAGGGAGTACGTAA 57.503 50.000 0.00 0.00 40.31 3.18
737 1443 2.496899 TTAGAACGGAGGGAGTACGT 57.503 50.000 0.00 0.00 43.43 3.57
738 1444 4.382345 AATTTAGAACGGAGGGAGTACG 57.618 45.455 0.00 0.00 0.00 3.67
739 1445 6.462552 AGTAATTTAGAACGGAGGGAGTAC 57.537 41.667 0.00 0.00 0.00 2.73
740 1446 5.297776 CGAGTAATTTAGAACGGAGGGAGTA 59.702 44.000 0.00 0.00 0.00 2.59
741 1447 4.097589 CGAGTAATTTAGAACGGAGGGAGT 59.902 45.833 0.00 0.00 0.00 3.85
742 1448 4.097589 ACGAGTAATTTAGAACGGAGGGAG 59.902 45.833 0.00 0.00 0.00 4.30
743 1449 4.019174 ACGAGTAATTTAGAACGGAGGGA 58.981 43.478 0.00 0.00 0.00 4.20
744 1450 4.357996 GACGAGTAATTTAGAACGGAGGG 58.642 47.826 0.00 0.00 0.00 4.30
745 1451 4.033684 CGACGAGTAATTTAGAACGGAGG 58.966 47.826 0.00 0.00 0.00 4.30
746 1452 3.481388 GCGACGAGTAATTTAGAACGGAG 59.519 47.826 0.00 0.00 0.00 4.63
747 1453 3.119884 TGCGACGAGTAATTTAGAACGGA 60.120 43.478 0.00 0.00 0.00 4.69
748 1454 3.173599 TGCGACGAGTAATTTAGAACGG 58.826 45.455 0.00 0.00 0.00 4.44
749 1455 4.093514 TCTGCGACGAGTAATTTAGAACG 58.906 43.478 0.00 0.00 0.00 3.95
750 1456 6.385537 TTTCTGCGACGAGTAATTTAGAAC 57.614 37.500 0.00 0.00 0.00 3.01
751 1457 6.035650 CCATTTCTGCGACGAGTAATTTAGAA 59.964 38.462 0.00 0.00 0.00 2.10
752 1458 5.518847 CCATTTCTGCGACGAGTAATTTAGA 59.481 40.000 0.00 0.00 0.00 2.10
753 1459 5.518847 TCCATTTCTGCGACGAGTAATTTAG 59.481 40.000 0.00 0.00 0.00 1.85
754 1460 5.412640 TCCATTTCTGCGACGAGTAATTTA 58.587 37.500 0.00 0.00 0.00 1.40
755 1461 4.250464 TCCATTTCTGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
756 1462 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
757 1463 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
758 1464 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
759 1465 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
760 1466 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
761 1467 1.645034 ACATCCATTTCTGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
762 1468 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
763 1469 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
764 1470 5.773575 TCTAGATACATCCATTTCTGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
765 1471 6.040955 AGTTCTAGATACATCCATTTCTGCGA 59.959 38.462 0.00 0.00 0.00 5.10
766 1472 6.219473 AGTTCTAGATACATCCATTTCTGCG 58.781 40.000 0.00 0.00 0.00 5.18
767 1473 9.547753 TTTAGTTCTAGATACATCCATTTCTGC 57.452 33.333 0.00 0.00 0.00 4.26
793 1499 8.700051 GCAGGTATGGATGTATCTAGATGTATT 58.300 37.037 15.79 0.00 0.00 1.89
794 1500 7.013750 CGCAGGTATGGATGTATCTAGATGTAT 59.986 40.741 15.79 9.11 0.00 2.29
795 1501 6.318900 CGCAGGTATGGATGTATCTAGATGTA 59.681 42.308 15.79 4.44 0.00 2.29
796 1502 5.126222 CGCAGGTATGGATGTATCTAGATGT 59.874 44.000 15.79 1.25 0.00 3.06
797 1503 5.358160 TCGCAGGTATGGATGTATCTAGATG 59.642 44.000 15.79 0.00 0.00 2.90
798 1504 5.358442 GTCGCAGGTATGGATGTATCTAGAT 59.642 44.000 10.73 10.73 0.00 1.98
799 1505 4.700692 GTCGCAGGTATGGATGTATCTAGA 59.299 45.833 0.00 0.00 0.00 2.43
800 1506 4.459337 TGTCGCAGGTATGGATGTATCTAG 59.541 45.833 0.00 0.00 0.00 2.43
801 1507 4.403734 TGTCGCAGGTATGGATGTATCTA 58.596 43.478 0.00 0.00 0.00 1.98
802 1508 3.230976 TGTCGCAGGTATGGATGTATCT 58.769 45.455 0.00 0.00 0.00 1.98
803 1509 3.660501 TGTCGCAGGTATGGATGTATC 57.339 47.619 0.00 0.00 0.00 2.24
804 1510 3.388024 ACTTGTCGCAGGTATGGATGTAT 59.612 43.478 0.00 0.00 0.00 2.29
805 1511 2.764010 ACTTGTCGCAGGTATGGATGTA 59.236 45.455 0.00 0.00 0.00 2.29
806 1512 1.555075 ACTTGTCGCAGGTATGGATGT 59.445 47.619 0.00 0.00 0.00 3.06
807 1513 2.315925 ACTTGTCGCAGGTATGGATG 57.684 50.000 0.00 0.00 0.00 3.51
808 1514 4.689612 ATAACTTGTCGCAGGTATGGAT 57.310 40.909 0.00 0.00 0.00 3.41
809 1515 4.481368 AATAACTTGTCGCAGGTATGGA 57.519 40.909 0.00 0.00 26.39 3.41
810 1516 5.234329 CACTAATAACTTGTCGCAGGTATGG 59.766 44.000 0.00 0.00 26.39 2.74
811 1517 6.040247 TCACTAATAACTTGTCGCAGGTATG 58.960 40.000 0.00 0.00 26.39 2.39
812 1518 6.127423 ACTCACTAATAACTTGTCGCAGGTAT 60.127 38.462 0.00 0.00 0.00 2.73
813 1519 5.184479 ACTCACTAATAACTTGTCGCAGGTA 59.816 40.000 0.00 0.00 0.00 3.08
814 1520 4.021368 ACTCACTAATAACTTGTCGCAGGT 60.021 41.667 0.00 0.00 0.00 4.00
815 1521 4.495422 ACTCACTAATAACTTGTCGCAGG 58.505 43.478 0.00 0.00 0.00 4.85
816 1522 7.757097 AATACTCACTAATAACTTGTCGCAG 57.243 36.000 0.00 0.00 0.00 5.18
817 1523 9.811995 ATAAATACTCACTAATAACTTGTCGCA 57.188 29.630 0.00 0.00 0.00 5.10
844 1550 4.325501 CCCCTCTCCTCCTACATATCCTAC 60.326 54.167 0.00 0.00 0.00 3.18
864 1570 0.627768 ATTCTCCTCCCCCTTTCCCC 60.628 60.000 0.00 0.00 0.00 4.81
887 1593 5.569059 CCTTCACACTCGATTTTAATTGTGC 59.431 40.000 0.00 0.00 35.40 4.57
890 1596 5.698832 TGCCTTCACACTCGATTTTAATTG 58.301 37.500 0.00 0.00 0.00 2.32
891 1597 5.106157 CCTGCCTTCACACTCGATTTTAATT 60.106 40.000 0.00 0.00 0.00 1.40
892 1598 4.396166 CCTGCCTTCACACTCGATTTTAAT 59.604 41.667 0.00 0.00 0.00 1.40
893 1599 3.751175 CCTGCCTTCACACTCGATTTTAA 59.249 43.478 0.00 0.00 0.00 1.52
894 1600 3.007506 TCCTGCCTTCACACTCGATTTTA 59.992 43.478 0.00 0.00 0.00 1.52
895 1601 2.154462 CCTGCCTTCACACTCGATTTT 58.846 47.619 0.00 0.00 0.00 1.82
896 1602 1.347707 TCCTGCCTTCACACTCGATTT 59.652 47.619 0.00 0.00 0.00 2.17
900 1606 1.374758 GGTCCTGCCTTCACACTCG 60.375 63.158 0.00 0.00 0.00 4.18
937 1644 1.666189 GTGCTATCCTCGGTTGCTTTC 59.334 52.381 0.00 0.00 0.00 2.62
947 1654 9.508567 CTTTAAAGCTATTTTTGTGCTATCCTC 57.491 33.333 1.47 0.00 35.85 3.71
1048 1767 1.028905 GACGATGAGTGAGGAGGAGG 58.971 60.000 0.00 0.00 0.00 4.30
1074 1793 1.409790 CTCTCTCTCTAGGACGGACGA 59.590 57.143 0.00 0.00 0.00 4.20
1095 1814 1.073098 TTTTCACCCCTTCCCTCTCC 58.927 55.000 0.00 0.00 0.00 3.71
1111 1832 4.402155 TCAACAATCTGCTCACACCTTTTT 59.598 37.500 0.00 0.00 0.00 1.94
1148 1877 2.115427 CCCCCTCTTTTCTCTCTCTCC 58.885 57.143 0.00 0.00 0.00 3.71
1149 1878 3.108847 TCCCCCTCTTTTCTCTCTCTC 57.891 52.381 0.00 0.00 0.00 3.20
1150 1879 3.793842 ATCCCCCTCTTTTCTCTCTCT 57.206 47.619 0.00 0.00 0.00 3.10
1151 1880 4.219725 CGATATCCCCCTCTTTTCTCTCTC 59.780 50.000 0.00 0.00 0.00 3.20
1227 1956 0.320421 TTCTAAGCTTTCGTGGCGCT 60.320 50.000 7.64 0.00 35.09 5.92
1228 1957 0.095417 CTTCTAAGCTTTCGTGGCGC 59.905 55.000 3.20 0.00 34.52 6.53
1229 1958 1.710013 TCTTCTAAGCTTTCGTGGCG 58.290 50.000 3.20 0.00 34.52 5.69
1230 1959 3.326747 TCTTCTTCTAAGCTTTCGTGGC 58.673 45.455 3.20 0.00 0.00 5.01
1231 1960 4.810790 TCTCTTCTTCTAAGCTTTCGTGG 58.189 43.478 3.20 0.00 0.00 4.94
1232 1961 5.704888 TCTCTCTTCTTCTAAGCTTTCGTG 58.295 41.667 3.20 0.00 0.00 4.35
1403 2171 4.292178 CTCCCTCATCCTCGCGGC 62.292 72.222 6.13 0.00 0.00 6.53
1404 2172 3.610669 CCTCCCTCATCCTCGCGG 61.611 72.222 6.13 0.00 0.00 6.46
1405 2173 2.519541 TCCTCCCTCATCCTCGCG 60.520 66.667 0.00 0.00 0.00 5.87
1406 2174 2.206536 CCTCCTCCCTCATCCTCGC 61.207 68.421 0.00 0.00 0.00 5.03
1407 2175 0.539438 CTCCTCCTCCCTCATCCTCG 60.539 65.000 0.00 0.00 0.00 4.63
1471 2239 4.862092 AGCGGCATGAGCTCGTCG 62.862 66.667 5.16 8.44 41.83 5.12
1933 2704 2.925170 AAGAGGTGCTCGGTGGCT 60.925 61.111 0.00 0.00 35.36 4.75
2257 3028 3.423162 CTCCAGCTCCTCGGCGAAG 62.423 68.421 12.13 7.74 37.29 3.79
2464 3247 2.027385 GGTGAATCTTGCTGGGATTCC 58.973 52.381 17.41 0.00 44.78 3.01
2485 3272 3.868077 GGCCTTCTATGATATGACGATGC 59.132 47.826 0.00 0.00 0.00 3.91
2541 3328 1.430075 TGGATTGGATGGATGGATGGG 59.570 52.381 0.00 0.00 0.00 4.00
2542 3329 2.984435 TGGATTGGATGGATGGATGG 57.016 50.000 0.00 0.00 0.00 3.51
2543 3330 3.245479 TGGATGGATTGGATGGATGGATG 60.245 47.826 0.00 0.00 0.00 3.51
2544 3331 2.998186 TGGATGGATTGGATGGATGGAT 59.002 45.455 0.00 0.00 0.00 3.41
2545 3332 2.430963 TGGATGGATTGGATGGATGGA 58.569 47.619 0.00 0.00 0.00 3.41
2546 3333 2.984435 TGGATGGATTGGATGGATGG 57.016 50.000 0.00 0.00 0.00 3.51
2547 3334 7.399191 AGAAAATATGGATGGATTGGATGGATG 59.601 37.037 0.00 0.00 0.00 3.51
2548 3335 7.484744 AGAAAATATGGATGGATTGGATGGAT 58.515 34.615 0.00 0.00 0.00 3.41
2549 3336 6.866621 AGAAAATATGGATGGATTGGATGGA 58.133 36.000 0.00 0.00 0.00 3.41
2550 3337 8.834004 ATAGAAAATATGGATGGATTGGATGG 57.166 34.615 0.00 0.00 0.00 3.51
2551 3338 9.696572 AGATAGAAAATATGGATGGATTGGATG 57.303 33.333 0.00 0.00 0.00 3.51
2552 3339 9.917887 GAGATAGAAAATATGGATGGATTGGAT 57.082 33.333 0.00 0.00 0.00 3.41
2578 3365 2.301346 GGCCAAGAGAGAGAGAGAGAG 58.699 57.143 0.00 0.00 0.00 3.20
2588 3375 0.324285 AGAAGCACTGGCCAAGAGAG 59.676 55.000 7.01 0.00 42.56 3.20
2589 3376 0.035881 CAGAAGCACTGGCCAAGAGA 59.964 55.000 7.01 0.00 42.39 3.10
2590 3377 2.552802 CAGAAGCACTGGCCAAGAG 58.447 57.895 7.01 0.00 42.39 2.85
2591 3378 4.806936 CAGAAGCACTGGCCAAGA 57.193 55.556 7.01 0.00 42.39 3.02
2644 3431 2.326428 AGAACAAGGAGAGAACGGGAA 58.674 47.619 0.00 0.00 0.00 3.97
2737 3525 4.817517 TGAAAGTACTTACTAGCAGGCAC 58.182 43.478 8.92 0.00 34.99 5.01
2750 3538 5.072741 ACCAGCAACATGAATGAAAGTACT 58.927 37.500 0.00 0.00 0.00 2.73
2751 3539 5.376854 ACCAGCAACATGAATGAAAGTAC 57.623 39.130 0.00 0.00 0.00 2.73
2752 3540 5.301551 ACAACCAGCAACATGAATGAAAGTA 59.698 36.000 0.00 0.00 0.00 2.24
2753 3541 4.099881 ACAACCAGCAACATGAATGAAAGT 59.900 37.500 0.00 0.00 0.00 2.66
2769 3557 6.039717 TCAATTTTCTTTCCTCAGACAACCAG 59.960 38.462 0.00 0.00 0.00 4.00
2823 3611 4.106925 CAGACTGGCCCCTGGAGC 62.107 72.222 0.00 0.00 0.00 4.70
2824 3612 4.106925 GCAGACTGGCCCCTGGAG 62.107 72.222 15.75 2.62 0.00 3.86
2825 3613 4.664267 AGCAGACTGGCCCCTGGA 62.664 66.667 15.75 0.00 0.00 3.86
2872 3690 1.289109 ACTTGTTTCGCGGGATCACG 61.289 55.000 14.47 14.47 0.00 4.35
2881 3699 2.932498 TGATTGCATCACTTGTTTCGC 58.068 42.857 0.00 0.00 33.59 4.70
2931 3749 6.110033 TGCCTATATCATCTCTACTCGAGTC 58.890 44.000 23.89 1.88 40.75 3.36
2932 3750 6.056090 TGCCTATATCATCTCTACTCGAGT 57.944 41.667 23.66 23.66 40.75 4.18
2933 3751 5.527214 CCTGCCTATATCATCTCTACTCGAG 59.473 48.000 11.84 11.84 41.30 4.04
2934 3752 5.189934 TCCTGCCTATATCATCTCTACTCGA 59.810 44.000 0.00 0.00 0.00 4.04
2935 3753 5.432645 TCCTGCCTATATCATCTCTACTCG 58.567 45.833 0.00 0.00 0.00 4.18
3004 3822 4.978083 TGCCGGTACAAACAAACTTTAA 57.022 36.364 1.90 0.00 0.00 1.52
3005 3823 4.579340 TCATGCCGGTACAAACAAACTTTA 59.421 37.500 1.90 0.00 0.00 1.85
3006 3824 3.381908 TCATGCCGGTACAAACAAACTTT 59.618 39.130 1.90 0.00 0.00 2.66
3052 3880 0.462759 GTTCATCCTCCTGAAGCCCG 60.463 60.000 0.00 0.00 35.88 6.13
3061 3889 3.266510 TGCTACACATGTTCATCCTCC 57.733 47.619 0.00 0.00 0.00 4.30
3119 3952 4.247258 CTCTGAATCATGATCCTAGCAGC 58.753 47.826 9.06 0.00 0.00 5.25
3120 3953 4.247258 GCTCTGAATCATGATCCTAGCAG 58.753 47.826 19.41 15.95 0.00 4.24
3121 3954 3.644738 TGCTCTGAATCATGATCCTAGCA 59.355 43.478 21.55 21.55 33.67 3.49
3122 3955 4.268797 TGCTCTGAATCATGATCCTAGC 57.731 45.455 9.06 15.13 0.00 3.42
3123 3956 4.691685 GCTTGCTCTGAATCATGATCCTAG 59.308 45.833 9.06 7.92 0.00 3.02
3124 3957 4.504514 GGCTTGCTCTGAATCATGATCCTA 60.505 45.833 9.06 0.00 0.00 2.94
3145 3978 4.038642 TGGTACAAGAAACTCCAATTTGGC 59.961 41.667 10.76 0.00 33.46 4.52
3166 3999 6.663523 AGGGAAGATTTACAAATGGTTACTGG 59.336 38.462 0.00 0.00 0.00 4.00
3167 4000 7.538575 CAGGGAAGATTTACAAATGGTTACTG 58.461 38.462 0.00 0.00 0.00 2.74
3206 4047 4.157246 TCAGGCTACAGGAAACAGTAAGA 58.843 43.478 0.00 0.00 31.41 2.10
3210 4051 2.564947 CTCTCAGGCTACAGGAAACAGT 59.435 50.000 0.00 0.00 0.00 3.55
3211 4052 2.828520 TCTCTCAGGCTACAGGAAACAG 59.171 50.000 0.00 0.00 0.00 3.16
3253 4103 1.533299 TGTACGCGCACAATTCAACAT 59.467 42.857 10.31 0.00 0.00 2.71
3277 4127 4.020543 TGAACATACCCCCAATTAAGCAC 58.979 43.478 0.00 0.00 0.00 4.40
3311 4161 1.630126 GCATTGGGAGAGCAGGGAGA 61.630 60.000 0.00 0.00 0.00 3.71
3312 4162 1.153005 GCATTGGGAGAGCAGGGAG 60.153 63.158 0.00 0.00 0.00 4.30
3313 4163 3.001514 GCATTGGGAGAGCAGGGA 58.998 61.111 0.00 0.00 0.00 4.20
3314 4164 2.515523 CGCATTGGGAGAGCAGGG 60.516 66.667 0.00 0.00 0.00 4.45
3332 4185 1.057285 GTGAATAGTGTGACGCGTTCG 59.943 52.381 15.53 0.00 42.43 3.95
3369 4222 2.676471 AGCGTGGTTGGGAATGCC 60.676 61.111 0.00 0.00 0.00 4.40
3381 4234 1.002366 GGCAAGATACTGTCAGCGTG 58.998 55.000 0.00 0.00 32.77 5.34


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

AutoCloner maintained by Alex Coulton.