Multiple sequence alignment - TraesCS7A01G185300

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 TraesCS7A01G185300 chr7A 100.000 2444 0 0 1 2444 139467173 139469616 0.000000e+00 4514.0
1 TraesCS7A01G185300 chr7A 96.220 635 22 2 1 633 556036906 556036272 0.000000e+00 1038.0
2 TraesCS7A01G185300 chr7A 95.893 633 25 1 2 633 527008234 527008866 0.000000e+00 1024.0
3 TraesCS7A01G185300 chr7A 87.500 184 18 4 2045 2225 672533174 672532993 8.860000e-50 207.0
4 TraesCS7A01G185300 chr2A 96.389 637 20 2 1 634 602685210 602685846 0.000000e+00 1046.0
5 TraesCS7A01G185300 chr2A 87.912 91 10 1 1968 2058 82342532 82342621 3.320000e-19 106.0
6 TraesCS7A01G185300 chr5A 96.220 635 22 2 1 633 612225252 612225886 0.000000e+00 1038.0
7 TraesCS7A01G185300 chr5A 96.063 635 23 2 1 633 116702779 116702145 0.000000e+00 1033.0
8 TraesCS7A01G185300 chr5A 95.591 635 26 2 1 633 614866968 614866334 0.000000e+00 1016.0
9 TraesCS7A01G185300 chr5A 87.952 166 15 4 2069 2231 388578085 388577922 8.920000e-45 191.0
10 TraesCS7A01G185300 chr3A 96.075 637 21 4 1 635 437803370 437802736 0.000000e+00 1035.0
11 TraesCS7A01G185300 chr4A 95.925 638 24 2 1 636 374596161 374595524 0.000000e+00 1033.0
12 TraesCS7A01G185300 chr4A 95.899 634 24 2 2 633 284223060 284222427 0.000000e+00 1026.0
13 TraesCS7A01G185300 chr7B 88.018 868 64 25 702 1544 104757307 104758159 0.000000e+00 990.0
14 TraesCS7A01G185300 chr7B 91.337 404 22 6 1544 1940 104758262 104758659 7.690000e-150 540.0
15 TraesCS7A01G185300 chr7B 80.903 288 32 14 1940 2224 684950183 684949916 3.190000e-49 206.0
16 TraesCS7A01G185300 chr7D 86.306 942 44 37 640 1544 139828486 139829379 0.000000e+00 946.0
17 TraesCS7A01G185300 chr7D 94.819 386 15 3 1560 1943 139829487 139829869 4.500000e-167 597.0
18 TraesCS7A01G185300 chr7D 90.086 232 9 7 2222 2444 139829865 139830091 3.070000e-74 289.0
19 TraesCS7A01G185300 chr2D 90.066 151 14 1 2076 2225 627516593 627516443 6.900000e-46 195.0
20 TraesCS7A01G185300 chr2D 79.863 293 30 13 1940 2231 16177916 16177652 1.150000e-43 187.0
21 TraesCS7A01G185300 chr6D 87.059 170 16 5 2057 2222 117361978 117362145 1.150000e-43 187.0
22 TraesCS7A01G185300 chr3B 79.730 296 25 21 1940 2230 5104173 5104438 5.370000e-42 182.0
23 TraesCS7A01G185300 chr3B 79.461 297 25 21 1940 2230 4232665 4232931 6.940000e-41 178.0
24 TraesCS7A01G185300 chr2B 82.927 205 27 8 2025 2226 579393893 579394092 6.940000e-41 178.0
25 TraesCS7A01G185300 chr1D 79.487 117 19 5 1957 2070 486136987 486137101 7.250000e-11 78.7
26 TraesCS7A01G185300 chrUn 80.412 97 15 4 1965 2058 62916273 62916178 1.210000e-08 71.3
27 TraesCS7A01G185300 chr6A 79.787 94 16 3 1955 2046 610509232 610509140 5.640000e-07 65.8


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 TraesCS7A01G185300 chr7A 139467173 139469616 2443 False 4514.000000 4514 100.000000 1 2444 1 chr7A.!!$F1 2443
1 TraesCS7A01G185300 chr7A 556036272 556036906 634 True 1038.000000 1038 96.220000 1 633 1 chr7A.!!$R1 632
2 TraesCS7A01G185300 chr7A 527008234 527008866 632 False 1024.000000 1024 95.893000 2 633 1 chr7A.!!$F2 631
3 TraesCS7A01G185300 chr2A 602685210 602685846 636 False 1046.000000 1046 96.389000 1 634 1 chr2A.!!$F2 633
4 TraesCS7A01G185300 chr5A 612225252 612225886 634 False 1038.000000 1038 96.220000 1 633 1 chr5A.!!$F1 632
5 TraesCS7A01G185300 chr5A 116702145 116702779 634 True 1033.000000 1033 96.063000 1 633 1 chr5A.!!$R1 632
6 TraesCS7A01G185300 chr5A 614866334 614866968 634 True 1016.000000 1016 95.591000 1 633 1 chr5A.!!$R3 632
7 TraesCS7A01G185300 chr3A 437802736 437803370 634 True 1035.000000 1035 96.075000 1 635 1 chr3A.!!$R1 634
8 TraesCS7A01G185300 chr4A 374595524 374596161 637 True 1033.000000 1033 95.925000 1 636 1 chr4A.!!$R2 635
9 TraesCS7A01G185300 chr4A 284222427 284223060 633 True 1026.000000 1026 95.899000 2 633 1 chr4A.!!$R1 631
10 TraesCS7A01G185300 chr7B 104757307 104758659 1352 False 765.000000 990 89.677500 702 1940 2 chr7B.!!$F1 1238
11 TraesCS7A01G185300 chr7D 139828486 139830091 1605 False 610.666667 946 90.403667 640 2444 3 chr7D.!!$F1 1804

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
617 623 0.685458 GTCCGTGCCCTTACCCTAGA 60.685 60.0 0.0 0.0 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1476 1529 0.036732 AATCAGCCGATGTGTGTGGT 59.963 50.0 0.0 0.0 30.13 4.16 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
153 157 5.898120 AGAGGCTAGATCTTAGCTATTGGA 58.102 41.667 17.89 0.00 40.25 3.53
458 463 1.968493 TGCGGAGTGACTTTAGGTCTT 59.032 47.619 0.00 0.00 44.74 3.01
516 521 2.103263 AGCTTCTTGGTCGAGTGTCTTT 59.897 45.455 0.00 0.00 0.00 2.52
583 588 3.788116 TCTAGGGATGTCCTTGGGTAA 57.212 47.619 0.00 0.00 45.47 2.85
593 599 2.879103 CCTTGGGTAAGGCTCTTTGA 57.121 50.000 0.00 0.00 46.47 2.69
608 614 1.990160 TTTGAACAGGTCCGTGCCCT 61.990 55.000 0.00 0.00 0.00 5.19
617 623 0.685458 GTCCGTGCCCTTACCCTAGA 60.685 60.000 0.00 0.00 0.00 2.43
636 642 5.481824 CCTAGATACATAGCTTCATCACCCA 59.518 44.000 0.00 0.00 0.00 4.51
637 643 5.894298 AGATACATAGCTTCATCACCCAA 57.106 39.130 0.00 0.00 0.00 4.12
638 644 5.615289 AGATACATAGCTTCATCACCCAAC 58.385 41.667 0.00 0.00 0.00 3.77
649 655 1.525175 TCACCCAACACCCCTTAACT 58.475 50.000 0.00 0.00 0.00 2.24
650 656 1.854280 TCACCCAACACCCCTTAACTT 59.146 47.619 0.00 0.00 0.00 2.66
675 681 8.833231 TTTTTCCTTTTGTTCATGTGTGTAAA 57.167 26.923 0.00 0.00 0.00 2.01
678 684 7.820044 TCCTTTTGTTCATGTGTGTAAAAAC 57.180 32.000 0.00 0.00 0.00 2.43
679 685 7.378966 TCCTTTTGTTCATGTGTGTAAAAACA 58.621 30.769 0.00 0.00 0.00 2.83
681 687 7.330700 CCTTTTGTTCATGTGTGTAAAAACAGT 59.669 33.333 0.00 0.00 0.00 3.55
682 688 9.347934 CTTTTGTTCATGTGTGTAAAAACAGTA 57.652 29.630 0.00 0.00 0.00 2.74
683 689 8.676454 TTTGTTCATGTGTGTAAAAACAGTAC 57.324 30.769 0.00 0.00 0.00 2.73
684 690 6.479436 TGTTCATGTGTGTAAAAACAGTACG 58.521 36.000 0.00 0.00 0.00 3.67
685 691 5.660629 TCATGTGTGTAAAAACAGTACGG 57.339 39.130 0.00 0.00 0.00 4.02
686 692 3.948196 TGTGTGTAAAAACAGTACGGC 57.052 42.857 0.00 0.00 0.00 5.68
697 703 1.079543 AGTACGGCTGCTTGCAGAG 60.080 57.895 24.67 18.56 45.15 3.35
764 776 9.367160 CTTAAGAGAGAGATCTCCTTTTCCTAT 57.633 37.037 19.30 0.00 43.88 2.57
811 827 1.935873 CGACCCTGTCTTGTATGCATG 59.064 52.381 10.16 0.00 0.00 4.06
812 828 1.672881 GACCCTGTCTTGTATGCATGC 59.327 52.381 11.82 11.82 0.00 4.06
813 829 1.004628 ACCCTGTCTTGTATGCATGCA 59.995 47.619 25.04 25.04 0.00 3.96
814 830 2.304092 CCCTGTCTTGTATGCATGCAT 58.696 47.619 33.92 33.92 40.19 3.96
815 831 2.292569 CCCTGTCTTGTATGCATGCATC 59.707 50.000 35.35 25.09 37.82 3.91
816 832 3.211865 CCTGTCTTGTATGCATGCATCT 58.788 45.455 35.35 17.79 37.82 2.90
817 833 3.630769 CCTGTCTTGTATGCATGCATCTT 59.369 43.478 35.35 17.00 37.82 2.40
818 834 4.818005 CCTGTCTTGTATGCATGCATCTTA 59.182 41.667 35.35 19.91 37.82 2.10
819 835 5.297527 CCTGTCTTGTATGCATGCATCTTAA 59.702 40.000 35.35 24.76 37.82 1.85
820 836 6.016527 CCTGTCTTGTATGCATGCATCTTAAT 60.017 38.462 35.35 15.42 37.82 1.40
849 868 1.261238 CCCCGTCTTCTCTTCTGGCT 61.261 60.000 0.00 0.00 0.00 4.75
917 943 1.452108 CCTTCTTCCCCATCGCACC 60.452 63.158 0.00 0.00 0.00 5.01
942 972 2.034607 CTAGCCGCCCACTCTACTC 58.965 63.158 0.00 0.00 0.00 2.59
955 985 1.678627 CTCTACTCCCGATCACACAGG 59.321 57.143 0.00 0.00 0.00 4.00
956 986 1.005569 TCTACTCCCGATCACACAGGT 59.994 52.381 0.00 0.00 0.00 4.00
1083 1117 4.087892 CAGACCCTGCTCCCCACG 62.088 72.222 0.00 0.00 0.00 4.94
1084 1118 4.316823 AGACCCTGCTCCCCACGA 62.317 66.667 0.00 0.00 0.00 4.35
1220 1273 1.895966 CTAGCTCAGCCAGAGTGCA 59.104 57.895 0.00 0.00 46.47 4.57
1255 1308 2.348411 ATGGGAGGTTTATGGAAGCG 57.652 50.000 0.00 0.00 40.64 4.68
1258 1311 0.733150 GGAGGTTTATGGAAGCGTGC 59.267 55.000 0.00 0.00 40.64 5.34
1266 1319 4.875544 TTATGGAAGCGTGCTAATGAAC 57.124 40.909 0.00 0.00 0.00 3.18
1267 1320 2.177394 TGGAAGCGTGCTAATGAACA 57.823 45.000 0.00 0.00 0.00 3.18
1268 1321 2.710377 TGGAAGCGTGCTAATGAACAT 58.290 42.857 0.00 0.00 0.00 2.71
1269 1322 3.867857 TGGAAGCGTGCTAATGAACATA 58.132 40.909 0.00 0.00 0.00 2.29
1271 1324 4.511454 TGGAAGCGTGCTAATGAACATATC 59.489 41.667 0.00 0.00 0.00 1.63
1272 1325 4.376413 GGAAGCGTGCTAATGAACATATCG 60.376 45.833 0.00 0.00 0.00 2.92
1273 1326 3.977427 AGCGTGCTAATGAACATATCGA 58.023 40.909 0.00 0.00 0.00 3.59
1274 1327 4.560128 AGCGTGCTAATGAACATATCGAT 58.440 39.130 2.16 2.16 0.00 3.59
1275 1328 4.623167 AGCGTGCTAATGAACATATCGATC 59.377 41.667 0.00 0.00 0.00 3.69
1320 1373 3.067106 GACGAAAATGCTCAAGGAGACA 58.933 45.455 0.00 0.00 0.00 3.41
1449 1502 2.272447 CCTCCTCCGCTAGCTAGCC 61.272 68.421 34.27 19.57 46.34 3.93
1469 1522 2.608998 CCAGCTACATGGCTACTCATCG 60.609 54.545 0.00 0.00 41.00 3.84
1472 1525 2.918549 GCTACATGGCTACTCATCGTCG 60.919 54.545 0.00 0.00 0.00 5.12
1476 1529 1.170442 TGGCTACTCATCGTCGTCAA 58.830 50.000 0.00 0.00 0.00 3.18
1478 1531 1.546834 GCTACTCATCGTCGTCAACC 58.453 55.000 0.00 0.00 0.00 3.77
1479 1532 1.135489 GCTACTCATCGTCGTCAACCA 60.135 52.381 0.00 0.00 0.00 3.67
1482 1535 1.060713 CTCATCGTCGTCAACCACAC 58.939 55.000 0.00 0.00 0.00 3.82
1483 1536 0.386113 TCATCGTCGTCAACCACACA 59.614 50.000 0.00 0.00 0.00 3.72
1484 1537 0.506932 CATCGTCGTCAACCACACAC 59.493 55.000 0.00 0.00 0.00 3.82
1485 1538 0.103390 ATCGTCGTCAACCACACACA 59.897 50.000 0.00 0.00 0.00 3.72
1486 1539 0.103390 TCGTCGTCAACCACACACAT 59.897 50.000 0.00 0.00 0.00 3.21
1487 1540 0.506932 CGTCGTCAACCACACACATC 59.493 55.000 0.00 0.00 0.00 3.06
1488 1541 0.506932 GTCGTCAACCACACACATCG 59.493 55.000 0.00 0.00 0.00 3.84
1518 1580 6.154203 TGTCCTAAGCTAGTTCATCATCTG 57.846 41.667 0.00 0.00 0.00 2.90
1525 1587 4.038522 AGCTAGTTCATCATCTGCGTACAT 59.961 41.667 0.00 0.00 0.00 2.29
1553 1718 0.179065 TGCCTAGCTACTGCATGCTG 60.179 55.000 21.60 21.60 42.74 4.41
1572 1737 4.142780 GGCCGGCTGGTCTAATTC 57.857 61.111 28.56 0.41 36.72 2.17
1589 1754 3.737559 ATTCACTTTGGTAGGGCATCA 57.262 42.857 0.00 0.00 0.00 3.07
1606 1775 3.560882 GCATCAATCATTAGCTAGGGCCT 60.561 47.826 12.58 12.58 39.73 5.19
1607 1776 4.660168 CATCAATCATTAGCTAGGGCCTT 58.340 43.478 13.45 0.00 39.73 4.35
1613 1782 1.204146 TTAGCTAGGGCCTTCACCTG 58.796 55.000 13.45 0.00 39.12 4.00
1682 1851 0.249911 GTTTCCATCCCTCCGATCCG 60.250 60.000 0.00 0.00 0.00 4.18
1784 1953 3.962421 CCGACCGCTAGCTACCCG 61.962 72.222 13.93 10.45 0.00 5.28
1819 1991 8.105829 TGGTACTGCTAATATACTACTCCTACC 58.894 40.741 0.00 0.00 0.00 3.18
1862 2034 8.340443 TGATTGTATGTACTATGTACTGTCGTC 58.660 37.037 8.94 2.74 0.00 4.20
1883 2055 2.033407 CGCTTCGGCTGAATGACTATTG 60.033 50.000 8.78 0.00 39.13 1.90
1943 2117 4.118410 CCATGAGATCTGCTGTTGTACTC 58.882 47.826 0.00 0.00 0.00 2.59
1944 2118 3.876274 TGAGATCTGCTGTTGTACTCC 57.124 47.619 0.00 0.00 0.00 3.85
1945 2119 2.497675 TGAGATCTGCTGTTGTACTCCC 59.502 50.000 0.00 0.00 0.00 4.30
1947 2121 2.763448 AGATCTGCTGTTGTACTCCCTC 59.237 50.000 0.00 0.00 0.00 4.30
1948 2122 1.267121 TCTGCTGTTGTACTCCCTCC 58.733 55.000 0.00 0.00 0.00 4.30
1949 2123 0.976641 CTGCTGTTGTACTCCCTCCA 59.023 55.000 0.00 0.00 0.00 3.86
1950 2124 0.976641 TGCTGTTGTACTCCCTCCAG 59.023 55.000 0.00 0.00 0.00 3.86
1951 2125 0.391793 GCTGTTGTACTCCCTCCAGC 60.392 60.000 0.00 0.00 38.58 4.85
1952 2126 0.250513 CTGTTGTACTCCCTCCAGCC 59.749 60.000 0.00 0.00 0.00 4.85
1953 2127 1.198759 TGTTGTACTCCCTCCAGCCC 61.199 60.000 0.00 0.00 0.00 5.19
1954 2128 0.910088 GTTGTACTCCCTCCAGCCCT 60.910 60.000 0.00 0.00 0.00 5.19
1955 2129 0.178873 TTGTACTCCCTCCAGCCCTT 60.179 55.000 0.00 0.00 0.00 3.95
1956 2130 0.178873 TGTACTCCCTCCAGCCCTTT 60.179 55.000 0.00 0.00 0.00 3.11
1957 2131 0.992695 GTACTCCCTCCAGCCCTTTT 59.007 55.000 0.00 0.00 0.00 2.27
1958 2132 1.354705 GTACTCCCTCCAGCCCTTTTT 59.645 52.381 0.00 0.00 0.00 1.94
1959 2133 1.755200 ACTCCCTCCAGCCCTTTTTA 58.245 50.000 0.00 0.00 0.00 1.52
1960 2134 1.354705 ACTCCCTCCAGCCCTTTTTAC 59.645 52.381 0.00 0.00 0.00 2.01
1961 2135 1.636003 CTCCCTCCAGCCCTTTTTACT 59.364 52.381 0.00 0.00 0.00 2.24
1962 2136 2.041755 CTCCCTCCAGCCCTTTTTACTT 59.958 50.000 0.00 0.00 0.00 2.24
1963 2137 2.041216 TCCCTCCAGCCCTTTTTACTTC 59.959 50.000 0.00 0.00 0.00 3.01
1964 2138 2.084546 CCTCCAGCCCTTTTTACTTCG 58.915 52.381 0.00 0.00 0.00 3.79
1965 2139 2.552373 CCTCCAGCCCTTTTTACTTCGT 60.552 50.000 0.00 0.00 0.00 3.85
1966 2140 2.484264 CTCCAGCCCTTTTTACTTCGTG 59.516 50.000 0.00 0.00 0.00 4.35
1967 2141 2.158726 TCCAGCCCTTTTTACTTCGTGT 60.159 45.455 0.00 0.00 0.00 4.49
1968 2142 3.071312 TCCAGCCCTTTTTACTTCGTGTA 59.929 43.478 0.00 0.00 0.00 2.90
1969 2143 4.007659 CCAGCCCTTTTTACTTCGTGTAT 58.992 43.478 0.00 0.00 0.00 2.29
1970 2144 4.457949 CCAGCCCTTTTTACTTCGTGTATT 59.542 41.667 0.00 0.00 0.00 1.89
1971 2145 5.644636 CCAGCCCTTTTTACTTCGTGTATTA 59.355 40.000 0.00 0.00 0.00 0.98
1972 2146 6.183360 CCAGCCCTTTTTACTTCGTGTATTAG 60.183 42.308 0.00 0.00 0.00 1.73
1973 2147 6.592607 CAGCCCTTTTTACTTCGTGTATTAGA 59.407 38.462 0.00 0.00 0.00 2.10
1974 2148 7.280205 CAGCCCTTTTTACTTCGTGTATTAGAT 59.720 37.037 0.00 0.00 0.00 1.98
1975 2149 7.827729 AGCCCTTTTTACTTCGTGTATTAGATT 59.172 33.333 0.00 0.00 0.00 2.40
1976 2150 8.456471 GCCCTTTTTACTTCGTGTATTAGATTT 58.544 33.333 0.00 0.00 0.00 2.17
1977 2151 9.769093 CCCTTTTTACTTCGTGTATTAGATTTG 57.231 33.333 0.00 0.00 0.00 2.32
1982 2156 9.917129 TTTACTTCGTGTATTAGATTTGTCTCA 57.083 29.630 0.00 0.00 0.00 3.27
1983 2157 9.917129 TTACTTCGTGTATTAGATTTGTCTCAA 57.083 29.630 0.00 0.00 0.00 3.02
1984 2158 8.467402 ACTTCGTGTATTAGATTTGTCTCAAG 57.533 34.615 0.00 0.00 0.00 3.02
1985 2159 8.088981 ACTTCGTGTATTAGATTTGTCTCAAGT 58.911 33.333 0.00 0.00 0.00 3.16
1986 2160 8.462143 TTCGTGTATTAGATTTGTCTCAAGTC 57.538 34.615 0.00 0.00 0.00 3.01
1987 2161 7.599171 TCGTGTATTAGATTTGTCTCAAGTCA 58.401 34.615 7.50 0.00 0.00 3.41
1988 2162 8.085909 TCGTGTATTAGATTTGTCTCAAGTCAA 58.914 33.333 7.50 0.00 0.00 3.18
1989 2163 8.708742 CGTGTATTAGATTTGTCTCAAGTCAAA 58.291 33.333 5.19 5.19 37.44 2.69
2000 2174 9.921637 TTTGTCTCAAGTCAAATTTTACAAACT 57.078 25.926 5.36 0.00 31.47 2.66
2001 2175 9.921637 TTGTCTCAAGTCAAATTTTACAAACTT 57.078 25.926 5.36 0.89 0.00 2.66
2002 2176 9.921637 TGTCTCAAGTCAAATTTTACAAACTTT 57.078 25.926 5.36 0.00 0.00 2.66
2129 2303 8.874744 TGTGATAATATTGATTTGGCATTGTG 57.125 30.769 0.00 0.00 0.00 3.33
2130 2304 8.693625 TGTGATAATATTGATTTGGCATTGTGA 58.306 29.630 0.00 0.00 0.00 3.58
2131 2305 9.531942 GTGATAATATTGATTTGGCATTGTGAA 57.468 29.630 0.00 0.00 0.00 3.18
2135 2309 8.795842 AATATTGATTTGGCATTGTGAATGTT 57.204 26.923 0.00 0.00 41.01 2.71
2136 2310 5.926214 TTGATTTGGCATTGTGAATGTTG 57.074 34.783 0.00 0.00 41.01 3.33
2137 2311 5.211174 TGATTTGGCATTGTGAATGTTGA 57.789 34.783 0.00 0.00 41.01 3.18
2138 2312 5.795972 TGATTTGGCATTGTGAATGTTGAT 58.204 33.333 0.00 0.00 41.01 2.57
2139 2313 6.932947 TGATTTGGCATTGTGAATGTTGATA 58.067 32.000 0.00 0.00 41.01 2.15
2140 2314 6.812656 TGATTTGGCATTGTGAATGTTGATAC 59.187 34.615 0.00 0.00 41.01 2.24
2141 2315 5.981088 TTGGCATTGTGAATGTTGATACT 57.019 34.783 0.00 0.00 41.01 2.12
2142 2316 5.981088 TGGCATTGTGAATGTTGATACTT 57.019 34.783 0.00 0.00 41.01 2.24
2143 2317 6.343716 TGGCATTGTGAATGTTGATACTTT 57.656 33.333 0.00 0.00 41.01 2.66
2144 2318 6.757237 TGGCATTGTGAATGTTGATACTTTT 58.243 32.000 0.00 0.00 41.01 2.27
2145 2319 7.215789 TGGCATTGTGAATGTTGATACTTTTT 58.784 30.769 0.00 0.00 41.01 1.94
2146 2320 7.384660 TGGCATTGTGAATGTTGATACTTTTTC 59.615 33.333 0.00 0.00 41.01 2.29
2147 2321 7.148590 GGCATTGTGAATGTTGATACTTTTTCC 60.149 37.037 0.00 0.00 41.01 3.13
2148 2322 7.599998 GCATTGTGAATGTTGATACTTTTTCCT 59.400 33.333 0.00 0.00 41.01 3.36
2149 2323 8.918658 CATTGTGAATGTTGATACTTTTTCCTG 58.081 33.333 0.00 0.00 34.18 3.86
2150 2324 7.581213 TGTGAATGTTGATACTTTTTCCTGT 57.419 32.000 0.00 0.00 0.00 4.00
2151 2325 8.684386 TGTGAATGTTGATACTTTTTCCTGTA 57.316 30.769 0.00 0.00 0.00 2.74
2152 2326 9.126151 TGTGAATGTTGATACTTTTTCCTGTAA 57.874 29.630 0.00 0.00 0.00 2.41
2153 2327 9.959749 GTGAATGTTGATACTTTTTCCTGTAAA 57.040 29.630 0.00 0.00 0.00 2.01
2158 2332 9.757227 TGTTGATACTTTTTCCTGTAAATTTGG 57.243 29.630 0.00 0.00 0.00 3.28
2159 2333 9.758651 GTTGATACTTTTTCCTGTAAATTTGGT 57.241 29.630 0.00 0.00 0.00 3.67
2160 2334 9.974980 TTGATACTTTTTCCTGTAAATTTGGTC 57.025 29.630 0.00 0.00 0.00 4.02
2161 2335 9.137459 TGATACTTTTTCCTGTAAATTTGGTCA 57.863 29.630 0.00 0.00 0.00 4.02
2162 2336 9.974980 GATACTTTTTCCTGTAAATTTGGTCAA 57.025 29.630 0.00 0.00 0.00 3.18
2164 2338 8.716646 ACTTTTTCCTGTAAATTTGGTCAAAG 57.283 30.769 0.00 8.82 33.32 2.77
2165 2339 8.318412 ACTTTTTCCTGTAAATTTGGTCAAAGT 58.682 29.630 0.00 9.34 33.58 2.66
2166 2340 9.810545 CTTTTTCCTGTAAATTTGGTCAAAGTA 57.189 29.630 0.00 0.00 33.32 2.24
2167 2341 9.810545 TTTTTCCTGTAAATTTGGTCAAAGTAG 57.189 29.630 0.00 0.00 33.32 2.57
2168 2342 8.754991 TTTCCTGTAAATTTGGTCAAAGTAGA 57.245 30.769 0.00 0.00 33.32 2.59
2169 2343 7.979444 TCCTGTAAATTTGGTCAAAGTAGAG 57.021 36.000 0.00 5.21 33.32 2.43
2170 2344 7.741785 TCCTGTAAATTTGGTCAAAGTAGAGA 58.258 34.615 0.00 0.00 33.32 3.10
2171 2345 8.383175 TCCTGTAAATTTGGTCAAAGTAGAGAT 58.617 33.333 0.00 0.00 33.32 2.75
2172 2346 9.667107 CCTGTAAATTTGGTCAAAGTAGAGATA 57.333 33.333 0.00 0.00 33.32 1.98
2182 2356 7.235430 GTCAAAGTAGAGATATTTTGACCGG 57.765 40.000 18.27 0.00 46.80 5.28
2183 2357 7.039882 GTCAAAGTAGAGATATTTTGACCGGA 58.960 38.462 9.46 0.00 46.80 5.14
2184 2358 7.222999 GTCAAAGTAGAGATATTTTGACCGGAG 59.777 40.741 9.46 0.00 46.80 4.63
2185 2359 7.123697 TCAAAGTAGAGATATTTTGACCGGAGA 59.876 37.037 9.46 0.00 35.34 3.71
2186 2360 6.394025 AGTAGAGATATTTTGACCGGAGAC 57.606 41.667 9.46 0.00 0.00 3.36
2187 2361 5.892119 AGTAGAGATATTTTGACCGGAGACA 59.108 40.000 9.46 2.00 0.00 3.41
2188 2362 5.677319 AGAGATATTTTGACCGGAGACAA 57.323 39.130 9.46 8.98 0.00 3.18
2189 2363 6.240549 AGAGATATTTTGACCGGAGACAAT 57.759 37.500 9.46 3.60 0.00 2.71
2190 2364 7.361457 AGAGATATTTTGACCGGAGACAATA 57.639 36.000 9.46 5.92 0.00 1.90
2191 2365 7.210873 AGAGATATTTTGACCGGAGACAATAC 58.789 38.462 9.46 1.58 0.00 1.89
2192 2366 5.983720 AGATATTTTGACCGGAGACAATACG 59.016 40.000 9.46 0.00 0.00 3.06
2193 2367 3.389925 TTTTGACCGGAGACAATACGT 57.610 42.857 9.46 0.00 0.00 3.57
2194 2368 4.517952 TTTTGACCGGAGACAATACGTA 57.482 40.909 9.46 0.00 0.00 3.57
2195 2369 4.724074 TTTGACCGGAGACAATACGTAT 57.276 40.909 9.46 1.14 0.00 3.06
2196 2370 5.833406 TTTGACCGGAGACAATACGTATA 57.167 39.130 9.46 0.00 0.00 1.47
2197 2371 6.395426 TTTGACCGGAGACAATACGTATAT 57.605 37.500 9.46 0.00 0.00 0.86
2198 2372 5.366829 TGACCGGAGACAATACGTATATG 57.633 43.478 9.46 11.49 0.00 1.78
2199 2373 4.164294 GACCGGAGACAATACGTATATGC 58.836 47.826 9.46 1.11 0.00 3.14
2200 2374 3.570975 ACCGGAGACAATACGTATATGCA 59.429 43.478 9.46 0.00 0.00 3.96
2201 2375 4.166523 CCGGAGACAATACGTATATGCAG 58.833 47.826 8.83 0.00 0.00 4.41
2202 2376 4.082949 CCGGAGACAATACGTATATGCAGA 60.083 45.833 8.83 0.00 0.00 4.26
2203 2377 4.852104 CGGAGACAATACGTATATGCAGAC 59.148 45.833 8.83 0.00 0.00 3.51
2204 2378 5.562113 CGGAGACAATACGTATATGCAGACA 60.562 44.000 8.83 0.00 0.00 3.41
2205 2379 6.213677 GGAGACAATACGTATATGCAGACAA 58.786 40.000 8.83 0.00 0.00 3.18
2206 2380 6.700081 GGAGACAATACGTATATGCAGACAAA 59.300 38.462 8.83 0.00 0.00 2.83
2207 2381 7.223971 GGAGACAATACGTATATGCAGACAAAA 59.776 37.037 8.83 0.00 0.00 2.44
2208 2382 8.487313 AGACAATACGTATATGCAGACAAAAA 57.513 30.769 8.83 0.00 0.00 1.94
2209 2383 8.604035 AGACAATACGTATATGCAGACAAAAAG 58.396 33.333 8.83 0.00 0.00 2.27
2210 2384 7.693952 ACAATACGTATATGCAGACAAAAAGG 58.306 34.615 8.83 0.00 0.00 3.11
2211 2385 7.551262 ACAATACGTATATGCAGACAAAAAGGA 59.449 33.333 8.83 0.00 0.00 3.36
2212 2386 5.796350 ACGTATATGCAGACAAAAAGGAC 57.204 39.130 0.00 0.00 0.00 3.85
2213 2387 4.634443 ACGTATATGCAGACAAAAAGGACC 59.366 41.667 0.00 0.00 0.00 4.46
2214 2388 4.260212 CGTATATGCAGACAAAAAGGACCG 60.260 45.833 0.00 0.00 0.00 4.79
2215 2389 1.247567 ATGCAGACAAAAAGGACCGG 58.752 50.000 0.00 0.00 0.00 5.28
2216 2390 0.181587 TGCAGACAAAAAGGACCGGA 59.818 50.000 9.46 0.00 0.00 5.14
2217 2391 0.875059 GCAGACAAAAAGGACCGGAG 59.125 55.000 9.46 0.00 0.00 4.63
2240 2414 9.091220 GGAGGGAGTACTGATTATGTTATTAGT 57.909 37.037 0.00 0.00 0.00 2.24
2272 2446 2.076100 TCATGGTTCATGTGCTCGTTC 58.924 47.619 7.63 0.00 41.98 3.95
2278 2452 3.181510 GGTTCATGTGCTCGTTCATTACC 60.182 47.826 0.00 0.00 0.00 2.85
2291 2465 4.992319 CGTTCATTACCCAAGACAGTAACA 59.008 41.667 0.00 0.00 31.61 2.41
2297 2471 1.270094 CCCAAGACAGTAACAGACGCA 60.270 52.381 0.00 0.00 0.00 5.24
2298 2472 2.061773 CCAAGACAGTAACAGACGCAG 58.938 52.381 0.00 0.00 0.00 5.18
2365 2545 6.570672 AGTACTGTTGATACTTCAAGTCGA 57.429 37.500 0.00 0.00 42.41 4.20
2366 2546 6.613233 AGTACTGTTGATACTTCAAGTCGAG 58.387 40.000 0.00 0.00 42.41 4.04
2367 2547 5.455056 ACTGTTGATACTTCAAGTCGAGT 57.545 39.130 0.00 0.00 42.41 4.18
2368 2548 5.462405 ACTGTTGATACTTCAAGTCGAGTC 58.538 41.667 0.00 0.00 42.41 3.36
2369 2549 4.473199 TGTTGATACTTCAAGTCGAGTCG 58.527 43.478 6.09 6.09 42.41 4.18
2411 2591 4.807039 TACCGGCCGCTCTTTCGC 62.807 66.667 22.85 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 2.433239 AGTTAGAACCACGACAGTTGGT 59.567 45.455 0.00 0.00 34.69 3.67
153 157 6.524101 ACATCTTGGTGTGTTTACAACTTT 57.476 33.333 0.00 0.00 44.96 2.66
458 463 1.367471 CAACCACTCGACTGCCAGA 59.633 57.895 0.00 0.00 0.00 3.86
516 521 1.392589 GTATCCCACTCGACGGGTTA 58.607 55.000 13.67 8.09 44.81 2.85
583 588 0.035458 CGGACCTGTTCAAAGAGCCT 59.965 55.000 0.00 0.00 0.00 4.58
593 599 1.373812 GTAAGGGCACGGACCTGTT 59.626 57.895 0.00 0.00 42.44 3.16
608 614 7.178628 GGTGATGAAGCTATGTATCTAGGGTAA 59.821 40.741 0.00 0.00 0.00 2.85
617 623 5.126067 GTGTTGGGTGATGAAGCTATGTAT 58.874 41.667 0.00 0.00 0.00 2.29
650 656 8.833231 TTTACACACATGAACAAAAGGAAAAA 57.167 26.923 0.00 0.00 0.00 1.94
667 673 3.868835 CAGCCGTACTGTTTTTACACAC 58.131 45.455 0.00 0.00 41.86 3.82
679 685 1.079543 CTCTGCAAGCAGCCGTACT 60.080 57.895 16.89 0.00 44.83 2.73
690 696 1.741706 GCTTAATCAGCTGCTCTGCAA 59.258 47.619 9.47 0.00 46.27 4.08
703 714 3.001330 CGGTCGTTTCATCCAGCTTAATC 59.999 47.826 0.00 0.00 0.00 1.75
764 776 1.999648 AGGCCAAGACAAATGCAGAA 58.000 45.000 5.01 0.00 0.00 3.02
811 827 4.686972 GGGGAGAGCAAAAATTAAGATGC 58.313 43.478 0.00 0.00 39.06 3.91
812 828 4.399303 ACGGGGAGAGCAAAAATTAAGATG 59.601 41.667 0.00 0.00 0.00 2.90
813 829 4.600062 ACGGGGAGAGCAAAAATTAAGAT 58.400 39.130 0.00 0.00 0.00 2.40
814 830 4.007659 GACGGGGAGAGCAAAAATTAAGA 58.992 43.478 0.00 0.00 0.00 2.10
815 831 4.010349 AGACGGGGAGAGCAAAAATTAAG 58.990 43.478 0.00 0.00 0.00 1.85
816 832 4.028993 AGACGGGGAGAGCAAAAATTAA 57.971 40.909 0.00 0.00 0.00 1.40
817 833 3.713826 AGACGGGGAGAGCAAAAATTA 57.286 42.857 0.00 0.00 0.00 1.40
818 834 2.586648 AGACGGGGAGAGCAAAAATT 57.413 45.000 0.00 0.00 0.00 1.82
819 835 2.040412 AGAAGACGGGGAGAGCAAAAAT 59.960 45.455 0.00 0.00 0.00 1.82
820 836 1.420138 AGAAGACGGGGAGAGCAAAAA 59.580 47.619 0.00 0.00 0.00 1.94
864 883 2.638363 GGGGGCTTTTATAGAGACGGAT 59.362 50.000 0.00 0.00 0.00 4.18
865 884 2.044758 GGGGGCTTTTATAGAGACGGA 58.955 52.381 0.00 0.00 0.00 4.69
868 887 3.492829 CGACTGGGGGCTTTTATAGAGAC 60.493 52.174 0.00 0.00 0.00 3.36
869 888 2.698797 CGACTGGGGGCTTTTATAGAGA 59.301 50.000 0.00 0.00 0.00 3.10
871 890 2.433239 GACGACTGGGGGCTTTTATAGA 59.567 50.000 0.00 0.00 0.00 1.98
942 972 0.608130 TGAGAACCTGTGTGATCGGG 59.392 55.000 0.00 0.00 39.57 5.14
955 985 1.997669 AGCGAAGGTCGATTGAGAAC 58.002 50.000 1.05 0.00 43.74 3.01
980 1014 5.423015 ACATCGTCTTCACAGAATAATGCT 58.577 37.500 0.00 0.00 0.00 3.79
1220 1273 6.016555 ACCTCCCATAAACACATTAAGCTTT 58.983 36.000 3.20 0.00 0.00 3.51
1255 1308 6.528072 TCATCGATCGATATGTTCATTAGCAC 59.472 38.462 28.94 0.00 32.93 4.40
1258 1311 8.054819 GCATTCATCGATCGATATGTTCATTAG 58.945 37.037 28.94 13.38 32.93 1.73
1266 1319 4.033587 TGCATGCATTCATCGATCGATATG 59.966 41.667 28.94 27.27 32.93 1.78
1267 1320 4.186159 TGCATGCATTCATCGATCGATAT 58.814 39.130 28.94 17.71 32.93 1.63
1268 1321 3.587923 TGCATGCATTCATCGATCGATA 58.412 40.909 28.94 16.17 32.93 2.92
1269 1322 2.415512 CTGCATGCATTCATCGATCGAT 59.584 45.455 24.60 24.60 34.81 3.59
1271 1324 1.136057 CCTGCATGCATTCATCGATCG 60.136 52.381 22.97 9.36 0.00 3.69
1272 1325 1.401148 GCCTGCATGCATTCATCGATC 60.401 52.381 22.97 0.22 0.00 3.69
1273 1326 0.596577 GCCTGCATGCATTCATCGAT 59.403 50.000 22.97 0.00 0.00 3.59
1274 1327 1.778027 CGCCTGCATGCATTCATCGA 61.778 55.000 22.97 0.00 0.00 3.59
1275 1328 1.370051 CGCCTGCATGCATTCATCG 60.370 57.895 22.97 15.47 0.00 3.84
1320 1373 1.489649 AGGCTCTTGATGTAGCTGCAT 59.510 47.619 17.87 17.87 38.80 3.96
1449 1502 2.035193 ACGATGAGTAGCCATGTAGCTG 59.965 50.000 6.71 0.00 44.67 4.24
1454 1507 1.065701 GACGACGATGAGTAGCCATGT 59.934 52.381 0.00 0.00 0.00 3.21
1455 1508 1.065551 TGACGACGATGAGTAGCCATG 59.934 52.381 0.00 0.00 0.00 3.66
1459 1512 1.135489 TGGTTGACGACGATGAGTAGC 60.135 52.381 0.00 0.00 0.00 3.58
1462 1515 0.671796 TGTGGTTGACGACGATGAGT 59.328 50.000 0.00 0.00 0.00 3.41
1469 1522 0.506932 CGATGTGTGTGGTTGACGAC 59.493 55.000 0.00 0.00 0.00 4.34
1472 1525 0.884704 AGCCGATGTGTGTGGTTGAC 60.885 55.000 0.00 0.00 0.00 3.18
1476 1529 0.036732 AATCAGCCGATGTGTGTGGT 59.963 50.000 0.00 0.00 30.13 4.16
1478 1531 1.129251 GACAATCAGCCGATGTGTGTG 59.871 52.381 3.47 0.00 30.46 3.82
1479 1532 1.442769 GACAATCAGCCGATGTGTGT 58.557 50.000 3.47 0.00 32.17 3.72
1482 1535 2.602257 TAGGACAATCAGCCGATGTG 57.398 50.000 0.00 0.00 30.13 3.21
1483 1536 2.743183 GCTTAGGACAATCAGCCGATGT 60.743 50.000 0.00 0.00 30.13 3.06
1484 1537 1.869767 GCTTAGGACAATCAGCCGATG 59.130 52.381 0.00 0.00 30.13 3.84
1485 1538 1.765314 AGCTTAGGACAATCAGCCGAT 59.235 47.619 0.00 0.00 32.25 4.18
1486 1539 1.195115 AGCTTAGGACAATCAGCCGA 58.805 50.000 0.00 0.00 32.25 5.54
1487 1540 2.101582 ACTAGCTTAGGACAATCAGCCG 59.898 50.000 0.00 0.00 32.25 5.52
1488 1541 3.828875 ACTAGCTTAGGACAATCAGCC 57.171 47.619 0.00 0.00 32.25 4.85
1518 1580 1.273887 GCATGCACGAGATGTACGC 59.726 57.895 14.21 0.00 0.00 4.42
1525 1587 0.385751 GTAGCTAGGCATGCACGAGA 59.614 55.000 21.36 0.00 0.00 4.04
1553 1718 0.533085 GAATTAGACCAGCCGGCCTC 60.533 60.000 26.15 15.70 34.57 4.70
1572 1737 3.355378 TGATTGATGCCCTACCAAAGTG 58.645 45.455 0.00 0.00 0.00 3.16
1589 1754 3.181439 GGTGAAGGCCCTAGCTAATGATT 60.181 47.826 0.00 0.00 39.73 2.57
1606 1775 4.026744 AGCAGCTATAGAACTCAGGTGAA 58.973 43.478 3.21 0.00 39.56 3.18
1607 1776 3.636679 AGCAGCTATAGAACTCAGGTGA 58.363 45.455 3.21 0.00 39.56 4.02
1682 1851 3.719924 CAGATGAGAACATGAGAGAGGC 58.280 50.000 0.00 0.00 36.82 4.70
1784 1953 1.252904 TAGCAGTACCACCACCGGAC 61.253 60.000 9.46 0.00 0.00 4.79
1839 2011 6.708676 CGACGACAGTACATAGTACATACAA 58.291 40.000 9.68 0.00 0.00 2.41
1862 2034 1.858091 ATAGTCATTCAGCCGAAGCG 58.142 50.000 0.00 0.00 46.67 4.68
1943 2117 2.447443 GAAGTAAAAAGGGCTGGAGGG 58.553 52.381 0.00 0.00 0.00 4.30
1944 2118 2.084546 CGAAGTAAAAAGGGCTGGAGG 58.915 52.381 0.00 0.00 0.00 4.30
1945 2119 2.484264 CACGAAGTAAAAAGGGCTGGAG 59.516 50.000 0.00 0.00 41.61 3.86
1947 2121 2.227194 ACACGAAGTAAAAAGGGCTGG 58.773 47.619 0.00 0.00 41.61 4.85
1948 2122 5.622770 AATACACGAAGTAAAAAGGGCTG 57.377 39.130 0.00 0.00 41.61 4.85
1949 2123 6.704310 TCTAATACACGAAGTAAAAAGGGCT 58.296 36.000 0.00 0.00 41.61 5.19
1950 2124 6.973229 TCTAATACACGAAGTAAAAAGGGC 57.027 37.500 0.00 0.00 41.61 5.19
1951 2125 9.769093 CAAATCTAATACACGAAGTAAAAAGGG 57.231 33.333 0.00 0.00 41.61 3.95
1956 2130 9.917129 TGAGACAAATCTAATACACGAAGTAAA 57.083 29.630 0.00 0.00 33.97 2.01
1957 2131 9.917129 TTGAGACAAATCTAATACACGAAGTAA 57.083 29.630 0.00 0.00 33.97 2.24
1958 2132 9.569167 CTTGAGACAAATCTAATACACGAAGTA 57.431 33.333 0.00 0.00 33.97 2.24
1959 2133 8.088981 ACTTGAGACAAATCTAATACACGAAGT 58.911 33.333 0.00 0.00 36.57 3.01
1960 2134 8.467402 ACTTGAGACAAATCTAATACACGAAG 57.533 34.615 0.00 0.00 34.34 3.79
1961 2135 8.085909 TGACTTGAGACAAATCTAATACACGAA 58.914 33.333 0.00 0.00 34.34 3.85
1962 2136 7.599171 TGACTTGAGACAAATCTAATACACGA 58.401 34.615 0.00 0.00 34.34 4.35
1963 2137 7.812309 TGACTTGAGACAAATCTAATACACG 57.188 36.000 0.00 0.00 34.34 4.49
1974 2148 9.921637 AGTTTGTAAAATTTGACTTGAGACAAA 57.078 25.926 7.22 10.18 41.98 2.83
1975 2149 9.921637 AAGTTTGTAAAATTTGACTTGAGACAA 57.078 25.926 7.22 0.00 0.00 3.18
1976 2150 9.921637 AAAGTTTGTAAAATTTGACTTGAGACA 57.078 25.926 7.22 0.00 35.21 3.41
2103 2277 9.483916 CACAATGCCAAATCAATATTATCACAT 57.516 29.630 0.00 0.00 0.00 3.21
2104 2278 8.693625 TCACAATGCCAAATCAATATTATCACA 58.306 29.630 0.00 0.00 0.00 3.58
2105 2279 9.531942 TTCACAATGCCAAATCAATATTATCAC 57.468 29.630 0.00 0.00 0.00 3.06
2109 2283 9.887629 AACATTCACAATGCCAAATCAATATTA 57.112 25.926 0.00 0.00 42.69 0.98
2110 2284 8.670135 CAACATTCACAATGCCAAATCAATATT 58.330 29.630 0.00 0.00 42.69 1.28
2111 2285 8.041919 TCAACATTCACAATGCCAAATCAATAT 58.958 29.630 0.00 0.00 42.69 1.28
2112 2286 7.384477 TCAACATTCACAATGCCAAATCAATA 58.616 30.769 0.00 0.00 42.69 1.90
2113 2287 6.231951 TCAACATTCACAATGCCAAATCAAT 58.768 32.000 0.00 0.00 42.69 2.57
2114 2288 5.608449 TCAACATTCACAATGCCAAATCAA 58.392 33.333 0.00 0.00 42.69 2.57
2115 2289 5.211174 TCAACATTCACAATGCCAAATCA 57.789 34.783 0.00 0.00 42.69 2.57
2116 2290 7.037438 AGTATCAACATTCACAATGCCAAATC 58.963 34.615 0.00 0.00 42.69 2.17
2117 2291 6.938507 AGTATCAACATTCACAATGCCAAAT 58.061 32.000 0.00 0.00 42.69 2.32
2118 2292 6.343716 AGTATCAACATTCACAATGCCAAA 57.656 33.333 0.00 0.00 42.69 3.28
2119 2293 5.981088 AGTATCAACATTCACAATGCCAA 57.019 34.783 0.00 0.00 42.69 4.52
2120 2294 5.981088 AAGTATCAACATTCACAATGCCA 57.019 34.783 0.00 0.00 42.69 4.92
2121 2295 7.148590 GGAAAAAGTATCAACATTCACAATGCC 60.149 37.037 0.00 0.00 42.69 4.40
2122 2296 7.599998 AGGAAAAAGTATCAACATTCACAATGC 59.400 33.333 0.00 0.00 42.69 3.56
2123 2297 8.918658 CAGGAAAAAGTATCAACATTCACAATG 58.081 33.333 0.00 0.00 44.48 2.82
2124 2298 8.641541 ACAGGAAAAAGTATCAACATTCACAAT 58.358 29.630 0.00 0.00 0.00 2.71
2125 2299 8.006298 ACAGGAAAAAGTATCAACATTCACAA 57.994 30.769 0.00 0.00 0.00 3.33
2126 2300 7.581213 ACAGGAAAAAGTATCAACATTCACA 57.419 32.000 0.00 0.00 0.00 3.58
2127 2301 9.959749 TTTACAGGAAAAAGTATCAACATTCAC 57.040 29.630 0.00 0.00 0.00 3.18
2132 2306 9.757227 CCAAATTTACAGGAAAAAGTATCAACA 57.243 29.630 0.00 0.00 0.00 3.33
2133 2307 9.758651 ACCAAATTTACAGGAAAAAGTATCAAC 57.241 29.630 0.28 0.00 0.00 3.18
2134 2308 9.974980 GACCAAATTTACAGGAAAAAGTATCAA 57.025 29.630 0.28 0.00 0.00 2.57
2135 2309 9.137459 TGACCAAATTTACAGGAAAAAGTATCA 57.863 29.630 0.28 0.00 0.00 2.15
2136 2310 9.974980 TTGACCAAATTTACAGGAAAAAGTATC 57.025 29.630 0.28 0.00 0.00 2.24
2138 2312 9.810545 CTTTGACCAAATTTACAGGAAAAAGTA 57.189 29.630 0.28 0.00 0.00 2.24
2139 2313 8.318412 ACTTTGACCAAATTTACAGGAAAAAGT 58.682 29.630 16.24 16.24 37.08 2.66
2140 2314 8.716646 ACTTTGACCAAATTTACAGGAAAAAG 57.283 30.769 15.49 15.49 35.97 2.27
2141 2315 9.810545 CTACTTTGACCAAATTTACAGGAAAAA 57.189 29.630 0.28 0.84 0.00 1.94
2142 2316 9.191479 TCTACTTTGACCAAATTTACAGGAAAA 57.809 29.630 0.28 1.12 0.00 2.29
2143 2317 8.754991 TCTACTTTGACCAAATTTACAGGAAA 57.245 30.769 0.28 0.00 0.00 3.13
2144 2318 8.215050 TCTCTACTTTGACCAAATTTACAGGAA 58.785 33.333 0.28 0.00 0.00 3.36
2145 2319 7.741785 TCTCTACTTTGACCAAATTTACAGGA 58.258 34.615 0.28 0.00 0.00 3.86
2146 2320 7.979444 TCTCTACTTTGACCAAATTTACAGG 57.021 36.000 0.00 0.00 0.00 4.00
2159 2333 7.123697 TCTCCGGTCAAAATATCTCTACTTTGA 59.876 37.037 0.00 0.00 35.88 2.69
2160 2334 7.222999 GTCTCCGGTCAAAATATCTCTACTTTG 59.777 40.741 0.00 0.00 0.00 2.77
2161 2335 7.093465 TGTCTCCGGTCAAAATATCTCTACTTT 60.093 37.037 0.00 0.00 0.00 2.66
2162 2336 6.380274 TGTCTCCGGTCAAAATATCTCTACTT 59.620 38.462 0.00 0.00 0.00 2.24
2163 2337 5.892119 TGTCTCCGGTCAAAATATCTCTACT 59.108 40.000 0.00 0.00 0.00 2.57
2164 2338 6.145338 TGTCTCCGGTCAAAATATCTCTAC 57.855 41.667 0.00 0.00 0.00 2.59
2165 2339 6.785337 TTGTCTCCGGTCAAAATATCTCTA 57.215 37.500 0.00 0.00 0.00 2.43
2166 2340 5.677319 TTGTCTCCGGTCAAAATATCTCT 57.323 39.130 0.00 0.00 0.00 3.10
2167 2341 6.144080 CGTATTGTCTCCGGTCAAAATATCTC 59.856 42.308 0.00 0.00 0.00 2.75
2168 2342 5.983720 CGTATTGTCTCCGGTCAAAATATCT 59.016 40.000 0.00 0.00 0.00 1.98
2169 2343 5.751990 ACGTATTGTCTCCGGTCAAAATATC 59.248 40.000 0.00 0.00 0.00 1.63
2170 2344 5.667466 ACGTATTGTCTCCGGTCAAAATAT 58.333 37.500 0.00 0.00 0.00 1.28
2171 2345 5.075858 ACGTATTGTCTCCGGTCAAAATA 57.924 39.130 0.00 0.00 0.00 1.40
2172 2346 3.934068 ACGTATTGTCTCCGGTCAAAAT 58.066 40.909 0.00 0.00 0.00 1.82
2173 2347 3.389925 ACGTATTGTCTCCGGTCAAAA 57.610 42.857 0.00 0.00 0.00 2.44
2174 2348 4.724074 ATACGTATTGTCTCCGGTCAAA 57.276 40.909 1.14 0.00 0.00 2.69
2175 2349 5.765176 CATATACGTATTGTCTCCGGTCAA 58.235 41.667 14.33 6.64 0.00 3.18
2176 2350 4.320714 GCATATACGTATTGTCTCCGGTCA 60.321 45.833 14.33 0.00 0.00 4.02
2177 2351 4.164294 GCATATACGTATTGTCTCCGGTC 58.836 47.826 14.33 0.00 0.00 4.79
2178 2352 3.570975 TGCATATACGTATTGTCTCCGGT 59.429 43.478 14.33 0.00 0.00 5.28
2179 2353 4.082949 TCTGCATATACGTATTGTCTCCGG 60.083 45.833 14.33 0.00 0.00 5.14
2180 2354 4.852104 GTCTGCATATACGTATTGTCTCCG 59.148 45.833 14.33 0.00 0.00 4.63
2181 2355 5.769367 TGTCTGCATATACGTATTGTCTCC 58.231 41.667 14.33 0.00 0.00 3.71
2182 2356 7.694388 TTTGTCTGCATATACGTATTGTCTC 57.306 36.000 14.33 0.32 0.00 3.36
2183 2357 8.487313 TTTTTGTCTGCATATACGTATTGTCT 57.513 30.769 14.33 0.00 0.00 3.41
2184 2358 7.850982 CCTTTTTGTCTGCATATACGTATTGTC 59.149 37.037 14.33 3.77 0.00 3.18
2185 2359 7.551262 TCCTTTTTGTCTGCATATACGTATTGT 59.449 33.333 14.33 0.14 0.00 2.71
2186 2360 7.850982 GTCCTTTTTGTCTGCATATACGTATTG 59.149 37.037 14.33 12.37 0.00 1.90
2187 2361 7.012044 GGTCCTTTTTGTCTGCATATACGTATT 59.988 37.037 14.33 0.00 0.00 1.89
2188 2362 6.482308 GGTCCTTTTTGTCTGCATATACGTAT 59.518 38.462 13.54 13.54 0.00 3.06
2189 2363 5.813672 GGTCCTTTTTGTCTGCATATACGTA 59.186 40.000 0.00 0.00 0.00 3.57
2190 2364 4.634443 GGTCCTTTTTGTCTGCATATACGT 59.366 41.667 0.00 0.00 0.00 3.57
2191 2365 4.260212 CGGTCCTTTTTGTCTGCATATACG 60.260 45.833 0.00 0.00 0.00 3.06
2192 2366 4.035208 CCGGTCCTTTTTGTCTGCATATAC 59.965 45.833 0.00 0.00 0.00 1.47
2193 2367 4.080807 TCCGGTCCTTTTTGTCTGCATATA 60.081 41.667 0.00 0.00 0.00 0.86
2194 2368 3.016736 CCGGTCCTTTTTGTCTGCATAT 58.983 45.455 0.00 0.00 0.00 1.78
2195 2369 2.039216 TCCGGTCCTTTTTGTCTGCATA 59.961 45.455 0.00 0.00 0.00 3.14
2196 2370 1.202879 TCCGGTCCTTTTTGTCTGCAT 60.203 47.619 0.00 0.00 0.00 3.96
2197 2371 0.181587 TCCGGTCCTTTTTGTCTGCA 59.818 50.000 0.00 0.00 0.00 4.41
2198 2372 0.875059 CTCCGGTCCTTTTTGTCTGC 59.125 55.000 0.00 0.00 0.00 4.26
2199 2373 1.523758 CCTCCGGTCCTTTTTGTCTG 58.476 55.000 0.00 0.00 0.00 3.51
2200 2374 0.400594 CCCTCCGGTCCTTTTTGTCT 59.599 55.000 0.00 0.00 0.00 3.41
2201 2375 0.399075 TCCCTCCGGTCCTTTTTGTC 59.601 55.000 0.00 0.00 0.00 3.18
2202 2376 0.400594 CTCCCTCCGGTCCTTTTTGT 59.599 55.000 0.00 0.00 0.00 2.83
2203 2377 0.400594 ACTCCCTCCGGTCCTTTTTG 59.599 55.000 0.00 0.00 0.00 2.44
2204 2378 1.627329 GTACTCCCTCCGGTCCTTTTT 59.373 52.381 0.00 0.00 0.00 1.94
2205 2379 1.203275 AGTACTCCCTCCGGTCCTTTT 60.203 52.381 0.00 0.00 0.00 2.27
2206 2380 0.412640 AGTACTCCCTCCGGTCCTTT 59.587 55.000 0.00 0.00 0.00 3.11
2207 2381 0.324460 CAGTACTCCCTCCGGTCCTT 60.324 60.000 0.00 0.00 0.00 3.36
2208 2382 1.212934 TCAGTACTCCCTCCGGTCCT 61.213 60.000 0.00 0.00 0.00 3.85
2209 2383 0.106116 ATCAGTACTCCCTCCGGTCC 60.106 60.000 0.00 0.00 0.00 4.46
2210 2384 1.777941 AATCAGTACTCCCTCCGGTC 58.222 55.000 0.00 0.00 0.00 4.79
2211 2385 3.231818 CATAATCAGTACTCCCTCCGGT 58.768 50.000 0.00 0.00 0.00 5.28
2212 2386 3.231818 ACATAATCAGTACTCCCTCCGG 58.768 50.000 0.00 0.00 0.00 5.14
2213 2387 4.939052 AACATAATCAGTACTCCCTCCG 57.061 45.455 0.00 0.00 0.00 4.63
2214 2388 9.091220 ACTAATAACATAATCAGTACTCCCTCC 57.909 37.037 0.00 0.00 0.00 4.30
2231 2405 9.955208 CCATGAGTGTACGTATTACTAATAACA 57.045 33.333 13.36 8.68 0.00 2.41
2232 2406 9.956720 ACCATGAGTGTACGTATTACTAATAAC 57.043 33.333 13.36 4.40 0.00 1.89
2240 2414 6.754675 CACATGAACCATGAGTGTACGTATTA 59.245 38.462 13.22 0.00 43.81 0.98
2254 2428 2.183478 TGAACGAGCACATGAACCAT 57.817 45.000 0.00 0.00 0.00 3.55
2272 2446 4.625742 CGTCTGTTACTGTCTTGGGTAATG 59.374 45.833 0.00 0.00 31.83 1.90
2278 2452 2.061773 CTGCGTCTGTTACTGTCTTGG 58.938 52.381 0.00 0.00 0.00 3.61
2332 2512 3.400505 TCAACAGTACTACGCGAGATG 57.599 47.619 15.93 10.15 0.00 2.90
2365 2545 2.997315 TGCCTACCAGCAGCGACT 60.997 61.111 0.00 0.00 38.00 4.18
2366 2546 2.815647 GTGCCTACCAGCAGCGAC 60.816 66.667 0.00 0.00 45.14 5.19
2367 2547 3.300934 CTGTGCCTACCAGCAGCGA 62.301 63.158 0.00 0.00 45.14 4.93
2368 2548 2.816958 CTGTGCCTACCAGCAGCG 60.817 66.667 0.00 0.00 45.14 5.18
2411 2591 2.202810 GAGAGGCCGAAGCTTCCG 60.203 66.667 20.62 15.15 45.93 4.30


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

AutoCloner maintained by Alex Coulton.