Multiple sequence alignment - TraesCS7D01G066200

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 TraesCS7D01G066200 chr7D 100.000 4595 0 0 1 4595 36993079 36997673 0.000000e+00 8486.0
1 TraesCS7D01G066200 chr7A 91.524 3858 241 41 482 4306 36648024 36651828 0.000000e+00 5234.0
2 TraesCS7D01G066200 chr7A 89.805 461 37 6 4 462 36647500 36647952 2.380000e-162 582.0
3 TraesCS7D01G066200 chr4A 88.446 3765 359 35 852 4595 689353490 689357199 0.000000e+00 4473.0
4 TraesCS7D01G066200 chr4A 84.062 389 32 6 461 830 689353121 689353498 9.460000e-92 348.0
5 TraesCS7D01G066200 chr4A 91.748 206 13 1 257 462 689352866 689353067 2.710000e-72 283.0
6 TraesCS7D01G066200 chr4A 96.296 54 2 0 176 229 689352816 689352869 6.330000e-14 89.8
7 TraesCS7D01G066200 chr5A 82.488 217 32 5 3382 3595 448619502 448619715 7.850000e-43 185.0
8 TraesCS7D01G066200 chr5D 82.243 214 32 5 3380 3590 348485263 348485473 3.650000e-41 180.0
9 TraesCS7D01G066200 chr5B 82.243 214 32 5 3380 3590 408961166 408961376 3.650000e-41 180.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G066200 chr7D 36993079 36997673 4594 False 8486.00 8486 100.0000 1 4595 1 chr7D.!!$F1 4594
1 TraesCS7D01G066200 chr7A 36647500 36651828 4328 False 2908.00 5234 90.6645 4 4306 2 chr7A.!!$F1 4302
2 TraesCS7D01G066200 chr4A 689352816 689357199 4383 False 1298.45 4473 90.1380 176 4595 4 chr4A.!!$F1 4419

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
138 139 0.405198 ACATGTGGGGTGAGCAATGA 59.595 50.0 0.0 0.0 0.00 2.57 F
1555 1677 0.250295 TTCTCCCAAGCTGTCAACGG 60.250 55.0 0.0 0.0 0.00 4.44 F
2120 2244 0.602638 TCATGGCAGTGTGGACGTTC 60.603 55.0 0.0 0.0 0.00 3.95 F
2809 2937 0.035152 GGTCATGCTGATCACCACCA 60.035 55.0 0.0 0.0 32.44 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2099 2223 0.391661 ACGTCCACACTGCCATGATC 60.392 55.0 0.0 0.0 0.00 2.92 R
2809 2937 0.030297 ATCACCAGGGAGAGCAGGAT 60.030 55.0 0.0 0.0 0.00 3.24 R
3015 3143 0.098200 TGTTCGCCATCTCGTACTCG 59.902 55.0 0.0 0.0 38.55 4.18 R
4043 4173 0.762418 TTCGTCCCTCCACATGTTGT 59.238 50.0 0.0 0.0 0.00 3.32 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
33 34 6.811665 TGATGCTATAGGTGTTTATATGCGAC 59.188 38.462 1.04 0.00 0.00 5.19
34 35 5.158494 TGCTATAGGTGTTTATATGCGACG 58.842 41.667 1.04 0.00 0.00 5.12
96 97 8.648422 TTTATGTCAACAACGAATTAACGATG 57.352 30.769 0.00 0.00 40.74 3.84
112 113 1.005242 CGATGCTCATTGTCTTGCTCG 60.005 52.381 0.00 0.00 0.00 5.03
134 135 2.282391 GCACATGTGGGGTGAGCA 60.282 61.111 26.55 0.00 38.54 4.26
138 139 0.405198 ACATGTGGGGTGAGCAATGA 59.595 50.000 0.00 0.00 0.00 2.57
149 150 3.503363 GGTGAGCAATGATGAACTGACAA 59.497 43.478 0.00 0.00 0.00 3.18
155 156 4.614535 GCAATGATGAACTGACAAGTGTCC 60.615 45.833 8.91 0.00 44.15 4.02
156 157 3.126001 TGATGAACTGACAAGTGTCCC 57.874 47.619 8.91 0.00 44.15 4.46
171 172 1.269517 TGTCCCAACAAATGCTTTCGC 60.270 47.619 0.00 0.00 30.70 4.70
216 217 2.042686 AGTGCTTTGCAGTCAGTTCA 57.957 45.000 0.00 0.00 37.74 3.18
238 239 4.010349 AGTCACCTGCTTTAATACAAGGC 58.990 43.478 0.00 0.00 0.00 4.35
262 263 0.529378 CAGCTGTCAATCCCTTTGGC 59.471 55.000 5.25 0.00 40.49 4.52
270 271 6.371595 TGTCAATCCCTTTGGCAAAATAAT 57.628 33.333 14.43 4.66 46.60 1.28
272 273 6.013898 TGTCAATCCCTTTGGCAAAATAATCA 60.014 34.615 14.43 3.89 46.60 2.57
278 279 5.335127 CCTTTGGCAAAATAATCAGAGACG 58.665 41.667 14.43 0.00 0.00 4.18
296 297 7.122204 TCAGAGACGTGTTCTTATATTTGGAGA 59.878 37.037 0.00 0.00 33.22 3.71
463 465 9.800572 TCTACTGCTATGATGAAGTATAAGTCT 57.199 33.333 0.00 0.00 28.56 3.24
465 467 8.704849 ACTGCTATGATGAAGTATAAGTCTCT 57.295 34.615 0.00 0.00 0.00 3.10
466 468 8.792633 ACTGCTATGATGAAGTATAAGTCTCTC 58.207 37.037 0.00 0.00 0.00 3.20
467 469 8.932434 TGCTATGATGAAGTATAAGTCTCTCT 57.068 34.615 0.00 0.00 0.00 3.10
468 470 9.360901 TGCTATGATGAAGTATAAGTCTCTCTT 57.639 33.333 0.00 0.00 39.89 2.85
476 478 9.658799 TGAAGTATAAGTCTCTCTTTTGGATTG 57.341 33.333 0.00 0.00 37.56 2.67
477 479 8.499403 AAGTATAAGTCTCTCTTTTGGATTGC 57.501 34.615 0.00 0.00 37.56 3.56
479 481 8.270744 AGTATAAGTCTCTCTTTTGGATTGCAT 58.729 33.333 0.00 0.00 37.56 3.96
528 593 8.208224 TGTTTTTCTAAAGACCACTATGAGTCA 58.792 33.333 0.00 0.00 35.38 3.41
531 596 9.871238 TTTTCTAAAGACCACTATGAGTCATAC 57.129 33.333 8.84 0.00 35.38 2.39
599 668 5.473066 AATTTTCTTGGATGAGTTGGTGG 57.527 39.130 0.00 0.00 0.00 4.61
612 681 3.696051 GAGTTGGTGGATGCATGTTGTAT 59.304 43.478 2.46 0.00 0.00 2.29
613 682 3.696051 AGTTGGTGGATGCATGTTGTATC 59.304 43.478 2.46 0.00 38.52 2.24
614 683 2.287769 TGGTGGATGCATGTTGTATCG 58.712 47.619 2.46 0.00 39.86 2.92
615 684 2.093235 TGGTGGATGCATGTTGTATCGA 60.093 45.455 2.46 0.00 39.86 3.59
622 691 4.135747 TGCATGTTGTATCGATCCTTGA 57.864 40.909 0.00 0.00 0.00 3.02
634 703 5.713792 TCGATCCTTGATCTTCATACTCC 57.286 43.478 0.00 0.00 36.96 3.85
637 706 5.242615 CGATCCTTGATCTTCATACTCCTCA 59.757 44.000 0.00 0.00 36.96 3.86
652 721 1.490490 TCCTCATGGCCAGGTTATGTC 59.510 52.381 18.43 0.00 32.20 3.06
657 726 0.535335 TGGCCAGGTTATGTCGAGAC 59.465 55.000 0.00 0.00 0.00 3.36
749 834 0.708370 CGTGAACGACACCGAGAATG 59.292 55.000 0.00 0.00 45.73 2.67
762 847 4.074970 ACCGAGAATGCAAGACTTCAATT 58.925 39.130 0.00 0.00 0.00 2.32
787 898 3.507233 CAGGTGCATTTTAGAAGCTCCAA 59.493 43.478 0.00 0.00 42.65 3.53
789 900 4.219288 AGGTGCATTTTAGAAGCTCCAAAG 59.781 41.667 0.00 0.00 42.65 2.77
904 1015 1.070127 ATCTGCTGGTGGGGGCATAT 61.070 55.000 0.00 0.00 37.83 1.78
952 1066 3.750922 GCCTCTACCCCTGTTCTGTTTTT 60.751 47.826 0.00 0.00 0.00 1.94
981 1095 3.181439 CCTTTTTAGGGGAGCTATGGAGG 60.181 52.174 0.00 0.00 0.00 4.30
988 1102 2.119886 GAGCTATGGAGGCTCGTGT 58.880 57.895 8.69 0.00 45.01 4.49
1002 1116 4.759693 AGGCTCGTGTTCTCTATCTCTATG 59.240 45.833 0.00 0.00 0.00 2.23
1037 1152 5.182001 ACTGCAACCTCTCAACATTGTTATC 59.818 40.000 0.86 0.00 0.00 1.75
1056 1171 4.021925 GTGGGCCGGACTGCTTCT 62.022 66.667 7.57 0.00 0.00 2.85
1139 1254 3.181465 ACAGTCTCAATGGACGTTGAAGT 60.181 43.478 8.18 3.08 40.76 3.01
1162 1277 4.080919 TGGGAAGAGATGACAAGGTATGTG 60.081 45.833 0.00 0.00 44.12 3.21
1186 1301 4.712122 TGTGAGACAGCAATACGATACA 57.288 40.909 0.00 0.00 0.00 2.29
1191 1306 6.750501 GTGAGACAGCAATACGATACAAGTTA 59.249 38.462 0.00 0.00 0.00 2.24
1210 1325 8.764558 ACAAGTTAATTTGTTCCCCTTTTTAGT 58.235 29.630 10.30 0.00 38.05 2.24
1224 1339 9.148879 TCCCCTTTTTAGTGATTAATTTGTTCA 57.851 29.630 0.00 0.00 0.00 3.18
1266 1382 5.835113 ATAATTGTATGCCTTCACACCAC 57.165 39.130 0.00 0.00 0.00 4.16
1305 1421 0.695347 CCTGCAGAAGAAGGGGTTCT 59.305 55.000 17.39 0.00 36.85 3.01
1343 1459 2.706190 AGCTTACAAGACTCTGGGTGTT 59.294 45.455 0.00 0.00 31.20 3.32
1409 1529 3.432749 CGATGAATCTGACCAATCCCACT 60.433 47.826 0.00 0.00 0.00 4.00
1457 1577 0.984230 TCATGTTCTGGACCCTGACC 59.016 55.000 0.00 0.00 0.00 4.02
1499 1619 4.907809 ACATATGCATAGCTCTGAATGCT 58.092 39.130 17.68 5.67 46.87 3.79
1548 1670 1.558756 ACCAGAGATTCTCCCAAGCTG 59.441 52.381 10.09 1.20 0.00 4.24
1553 1675 3.006247 GAGATTCTCCCAAGCTGTCAAC 58.994 50.000 1.97 0.00 0.00 3.18
1555 1677 0.250295 TTCTCCCAAGCTGTCAACGG 60.250 55.000 0.00 0.00 0.00 4.44
1563 1685 4.250464 CCAAGCTGTCAACGGTAGATAAA 58.750 43.478 0.00 0.00 0.00 1.40
1571 1693 3.833650 TCAACGGTAGATAAACCAGACCA 59.166 43.478 0.00 0.00 39.71 4.02
1665 1789 1.294138 GTGCCAGCATGCCAACATT 59.706 52.632 15.66 0.00 32.87 2.71
1695 1819 5.185056 CCTCCCGTCCAAAAAGATTTACATT 59.815 40.000 0.00 0.00 0.00 2.71
1722 1846 1.673920 GAGGATCTGGTCTCGACTCAC 59.326 57.143 0.00 0.00 0.00 3.51
1928 2052 4.264614 CAGTAAACGTATGCAGTTAGTCCG 59.735 45.833 0.00 0.00 0.00 4.79
1929 2053 3.308438 AAACGTATGCAGTTAGTCCGT 57.692 42.857 0.00 0.00 0.00 4.69
1937 2061 2.751259 TGCAGTTAGTCCGTAGTAGTGG 59.249 50.000 0.00 0.00 0.00 4.00
1940 2064 4.818546 GCAGTTAGTCCGTAGTAGTGGATA 59.181 45.833 0.00 0.00 36.48 2.59
1945 2069 8.654997 AGTTAGTCCGTAGTAGTGGATATCTTA 58.345 37.037 2.05 0.00 36.48 2.10
1946 2070 8.934825 GTTAGTCCGTAGTAGTGGATATCTTAG 58.065 40.741 2.05 0.00 36.48 2.18
1951 2075 6.072064 CCGTAGTAGTGGATATCTTAGTTGGG 60.072 46.154 2.05 0.00 0.00 4.12
1953 2077 7.094720 CGTAGTAGTGGATATCTTAGTTGGGAG 60.095 44.444 2.05 0.00 0.00 4.30
1954 2078 6.684538 AGTAGTGGATATCTTAGTTGGGAGT 58.315 40.000 2.05 0.00 0.00 3.85
1955 2079 7.133483 AGTAGTGGATATCTTAGTTGGGAGTT 58.867 38.462 2.05 0.00 0.00 3.01
1956 2080 6.893020 AGTGGATATCTTAGTTGGGAGTTT 57.107 37.500 2.05 0.00 0.00 2.66
1958 2082 5.823045 GTGGATATCTTAGTTGGGAGTTTGG 59.177 44.000 2.05 0.00 0.00 3.28
1959 2083 5.104109 TGGATATCTTAGTTGGGAGTTTGGG 60.104 44.000 2.05 0.00 0.00 4.12
1960 2084 5.132144 GGATATCTTAGTTGGGAGTTTGGGA 59.868 44.000 2.05 0.00 0.00 4.37
1961 2085 3.782656 TCTTAGTTGGGAGTTTGGGAC 57.217 47.619 0.00 0.00 0.00 4.46
1962 2086 3.050089 TCTTAGTTGGGAGTTTGGGACA 58.950 45.455 0.00 0.00 0.00 4.02
1977 2101 3.950397 TGGGACAAGATCGTGCTTAATT 58.050 40.909 8.68 0.00 31.92 1.40
1994 2118 7.865385 GTGCTTAATTGTGTGTCTGGAATTAAA 59.135 33.333 0.00 0.00 32.57 1.52
1995 2119 8.584157 TGCTTAATTGTGTGTCTGGAATTAAAT 58.416 29.630 0.00 0.00 32.57 1.40
1996 2120 9.423061 GCTTAATTGTGTGTCTGGAATTAAATT 57.577 29.630 0.00 0.00 32.57 1.82
2021 2145 1.414866 TTACAGCTGTGGTGGAGGCA 61.415 55.000 29.57 2.44 35.13 4.75
2022 2146 2.111999 TACAGCTGTGGTGGAGGCAC 62.112 60.000 29.57 0.00 35.13 5.01
2048 2172 1.152881 GGCGATCCTCATTGGGCTT 60.153 57.895 0.00 0.00 36.20 4.35
2057 2181 2.621407 CCTCATTGGGCTTTTCCTGCTA 60.621 50.000 0.00 0.00 34.39 3.49
2096 2220 6.368791 CGTCCAAAGTGAGTTTCATATTCTCA 59.631 38.462 0.00 0.00 36.12 3.27
2108 2232 3.324556 TCATATTCTCACCGATCATGGCA 59.675 43.478 0.00 0.00 0.00 4.92
2110 2234 0.904649 TTCTCACCGATCATGGCAGT 59.095 50.000 0.00 0.00 0.00 4.40
2117 2241 1.423721 CGATCATGGCAGTGTGGACG 61.424 60.000 0.00 0.00 0.00 4.79
2120 2244 0.602638 TCATGGCAGTGTGGACGTTC 60.603 55.000 0.00 0.00 0.00 3.95
2213 2337 7.254117 CCACACTACATCGTTATGTTCTTCATC 60.254 40.741 0.00 0.00 44.07 2.92
2267 2391 1.078759 GGACCGTTCTCTGCATCACG 61.079 60.000 0.00 0.00 0.00 4.35
2294 2419 6.744537 GCATGTACATTAAGCTTTTCTCTGTG 59.255 38.462 3.20 0.00 0.00 3.66
2300 2425 6.318648 ACATTAAGCTTTTCTCTGTGTTCACA 59.681 34.615 3.20 5.52 0.00 3.58
2304 2429 3.002759 GCTTTTCTCTGTGTTCACAGTCC 59.997 47.826 25.52 9.28 38.75 3.85
2327 2452 4.093408 CGTTGTAATGTCCTCCATTGACAG 59.907 45.833 0.00 0.00 45.20 3.51
2409 2534 1.529226 AGAGGTCTATCCAGATCGCG 58.471 55.000 0.00 0.00 36.86 5.87
2445 2570 2.681778 CCCTCCCTCGTGCTCACT 60.682 66.667 0.00 0.00 0.00 3.41
2482 2607 2.668250 CGTACCTGATCAACAACGTCA 58.332 47.619 12.70 0.00 0.00 4.35
2541 2666 0.608035 CCGTGTACTGGCCCATGTTT 60.608 55.000 0.00 0.00 0.00 2.83
2601 2729 2.109774 CTGATCTCAGCCACCTTCTCT 58.890 52.381 0.00 0.00 37.15 3.10
2703 2831 0.611714 ACTCGCCGGAAACCAACTAT 59.388 50.000 5.05 0.00 0.00 2.12
2755 2883 2.819595 GCTTCGGCGATGGCAAGA 60.820 61.111 23.54 3.10 42.47 3.02
2809 2937 0.035152 GGTCATGCTGATCACCACCA 60.035 55.000 0.00 0.00 32.44 4.17
2865 2993 1.152694 ACATGTGGTGCTTGTGGCT 60.153 52.632 0.00 0.00 42.39 4.75
2976 3104 2.462889 GTGTCATTGTTGTTGGCACTG 58.537 47.619 1.42 0.00 44.35 3.66
3015 3143 0.896226 ACGGTAGACAGAGGAAAGCC 59.104 55.000 0.00 0.00 0.00 4.35
3039 3167 0.670546 ACGAGATGGCGAACAAGGTG 60.671 55.000 0.00 0.00 34.83 4.00
3054 3182 2.049063 GTGACACTCGAGCGGCTT 60.049 61.111 13.61 0.00 0.00 4.35
3088 3216 4.961511 GTCCTGACGTGCACCGCA 62.962 66.667 12.15 8.68 41.42 5.69
3111 3239 0.755686 CCGGGCTCTGCTTCTTCTAT 59.244 55.000 0.00 0.00 0.00 1.98
3135 3263 2.104859 CATGCAGGACTGGCTCACG 61.105 63.158 0.00 0.00 0.00 4.35
3163 3291 0.458543 CGCGCACTACATCAGGAACT 60.459 55.000 8.75 0.00 43.88 3.01
3270 3398 2.354729 CGGCTTGGACCCAATGGA 59.645 61.111 0.00 0.00 35.20 3.41
3276 3404 3.365472 GCTTGGACCCAATGGAGTTTAT 58.635 45.455 0.00 0.00 35.20 1.40
3303 3431 2.031069 CACGATACAGTATGGCTACGCT 60.031 50.000 0.00 0.00 43.62 5.07
3318 3446 3.444805 GCTGACCCGCTCGACTCT 61.445 66.667 0.00 0.00 0.00 3.24
3334 3462 3.360867 GACTCTGAGGAGGATGAACTCA 58.639 50.000 9.85 0.00 43.46 3.41
3373 3501 1.226974 CTGCGGGACTACATCACCG 60.227 63.158 0.00 0.00 41.50 4.94
3374 3502 1.663379 CTGCGGGACTACATCACCGA 61.663 60.000 6.10 0.00 41.25 4.69
3375 3503 1.065928 GCGGGACTACATCACCGAG 59.934 63.158 6.10 0.00 41.25 4.63
3376 3504 1.734137 CGGGACTACATCACCGAGG 59.266 63.158 0.00 0.00 41.25 4.63
3377 3505 0.750546 CGGGACTACATCACCGAGGA 60.751 60.000 0.00 0.00 41.25 3.71
3378 3506 1.033574 GGGACTACATCACCGAGGAG 58.966 60.000 0.00 0.00 0.00 3.69
3454 3582 0.038166 GGGCAAGATGAGGTTCCACA 59.962 55.000 0.00 0.00 0.00 4.17
3609 3737 3.059472 CTGACGCTACGCTTGCACG 62.059 63.158 0.00 0.00 39.50 5.34
3615 3743 1.130613 CTACGCTTGCACGCACTTC 59.869 57.895 16.08 0.00 36.19 3.01
3630 3758 2.155732 GCACTTCCATATGTATGACGCG 59.844 50.000 3.53 3.53 35.75 6.01
3645 3773 2.100216 GCGGTGCGTGCCAATAAG 59.900 61.111 0.00 0.00 0.00 1.73
3771 3899 1.880027 CTGCGGAAGGTAAGCTTTTGT 59.120 47.619 3.20 0.00 0.00 2.83
3819 3947 4.949856 ACTCTGGAAACTTTCAGCTCAAAA 59.050 37.500 3.93 0.00 0.00 2.44
3937 4066 5.244178 GGTTGTGGGTAATTTATGTTGGTCA 59.756 40.000 0.00 0.00 0.00 4.02
3938 4067 6.071051 GGTTGTGGGTAATTTATGTTGGTCAT 60.071 38.462 0.00 0.00 40.25 3.06
3951 4080 0.612744 TGGTCATGATGACTTCGCCA 59.387 50.000 23.28 11.11 46.19 5.69
3954 4083 0.107703 TCATGATGACTTCGCCACCC 60.108 55.000 0.00 0.00 0.00 4.61
4056 4186 5.745227 AGTTCCTATTACAACATGTGGAGG 58.255 41.667 7.39 3.14 0.00 4.30
4128 4258 4.022503 GTGCTTCTTCTGCTTTCTTTGGAT 60.023 41.667 0.00 0.00 0.00 3.41
4137 4268 6.970484 TCTGCTTTCTTTGGATTACAACTTC 58.030 36.000 0.00 0.00 39.19 3.01
4139 4270 7.285401 TCTGCTTTCTTTGGATTACAACTTCTT 59.715 33.333 0.00 0.00 39.19 2.52
4156 4287 7.093552 ACAACTTCTTATAGACTCTGTGATGCT 60.094 37.037 0.00 0.00 0.00 3.79
4193 4324 8.250332 TCACTTGAGTGTTTTGCTTCTTAATTT 58.750 29.630 10.66 0.00 45.76 1.82
4197 4328 9.651913 TTGAGTGTTTTGCTTCTTAATTTCTTT 57.348 25.926 0.00 0.00 0.00 2.52
4198 4329 9.651913 TGAGTGTTTTGCTTCTTAATTTCTTTT 57.348 25.926 0.00 0.00 0.00 2.27
4217 4348 6.563422 TCTTTTTGTGAGAAATGACTTGGTG 58.437 36.000 0.00 0.00 0.00 4.17
4287 4418 2.025605 AGTGATGTAGAGGTCGGTGGTA 60.026 50.000 0.00 0.00 0.00 3.25
4376 4511 6.404734 CGGATTAGCTTAGCCTTGACAAAAAT 60.405 38.462 5.37 0.00 0.00 1.82
4385 4520 9.185192 CTTAGCCTTGACAAAAATTGTAGAAAG 57.815 33.333 0.00 1.86 45.52 2.62
4386 4521 7.112452 AGCCTTGACAAAAATTGTAGAAAGT 57.888 32.000 0.00 0.00 45.52 2.66
4407 4542 5.380043 AGTTGAAACATGGATCTCAACACT 58.620 37.500 22.47 9.19 46.51 3.55
4413 4548 8.485392 TGAAACATGGATCTCAACACTCATATA 58.515 33.333 0.00 0.00 0.00 0.86
4416 4551 6.784473 ACATGGATCTCAACACTCATATAGGA 59.216 38.462 0.00 0.00 0.00 2.94
4446 4581 8.360390 GTCAACTTGGGAGTTTCATCTTTAATT 58.640 33.333 0.00 0.00 43.48 1.40
4447 4582 9.581289 TCAACTTGGGAGTTTCATCTTTAATTA 57.419 29.630 0.00 0.00 43.48 1.40
4452 4587 8.533569 TGGGAGTTTCATCTTTAATTAATCCC 57.466 34.615 16.06 16.06 41.56 3.85
4453 4588 7.563556 TGGGAGTTTCATCTTTAATTAATCCCC 59.436 37.037 18.55 0.00 40.67 4.81
4454 4589 7.255486 GGGAGTTTCATCTTTAATTAATCCCCG 60.255 40.741 13.43 0.00 36.32 5.73
4457 4592 8.683615 AGTTTCATCTTTAATTAATCCCCGAAC 58.316 33.333 0.00 2.25 0.00 3.95
4470 4605 5.740290 ATCCCCGAACATATATCGAAGTT 57.260 39.130 10.70 0.00 42.76 2.66
4481 4616 7.792032 ACATATATCGAAGTTCCAGGAAAAGA 58.208 34.615 2.45 1.65 0.00 2.52
4524 4659 4.871933 AAACCTTCAGGCCATAGTTTTG 57.128 40.909 5.01 0.00 39.32 2.44
4527 4662 4.082125 ACCTTCAGGCCATAGTTTTGAAG 58.918 43.478 17.51 17.51 42.59 3.02
4528 4663 4.082125 CCTTCAGGCCATAGTTTTGAAGT 58.918 43.478 20.87 0.00 41.82 3.01
4530 4665 5.335976 CCTTCAGGCCATAGTTTTGAAGTTC 60.336 44.000 20.87 0.00 41.82 3.01
4532 4667 3.826157 CAGGCCATAGTTTTGAAGTTCCA 59.174 43.478 5.01 0.00 0.00 3.53
4533 4668 4.280677 CAGGCCATAGTTTTGAAGTTCCAA 59.719 41.667 5.01 0.00 0.00 3.53
4534 4669 4.280929 AGGCCATAGTTTTGAAGTTCCAAC 59.719 41.667 5.01 3.85 0.00 3.77
4535 4670 4.038642 GGCCATAGTTTTGAAGTTCCAACA 59.961 41.667 14.38 4.66 0.00 3.33
4536 4671 5.279456 GGCCATAGTTTTGAAGTTCCAACAT 60.279 40.000 14.38 6.20 0.00 2.71
4537 4672 5.634859 GCCATAGTTTTGAAGTTCCAACATG 59.365 40.000 14.38 13.88 0.00 3.21
4571 4706 3.305608 GCTAGCCAAATTGTCCCATATGC 60.306 47.826 2.29 0.00 0.00 3.14
4578 4713 5.539574 CCAAATTGTCCCATATGCAGGATAA 59.460 40.000 10.96 10.96 37.62 1.75
4579 4714 6.449698 CAAATTGTCCCATATGCAGGATAAC 58.550 40.000 10.83 0.00 36.27 1.89
4581 4716 4.356405 TGTCCCATATGCAGGATAACAG 57.644 45.455 4.27 0.00 33.88 3.16
4583 4718 4.904853 TGTCCCATATGCAGGATAACAGTA 59.095 41.667 4.27 0.00 33.88 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.961326 AAACACCTATAGCATCATTTTTCCT 57.039 32.000 0.00 0.00 0.00 3.36
12 13 5.060569 CACGTCGCATATAAACACCTATAGC 59.939 44.000 0.00 0.00 0.00 2.97
15 16 3.739300 GCACGTCGCATATAAACACCTAT 59.261 43.478 5.30 0.00 41.79 2.57
20 21 1.849829 CTCGCACGTCGCATATAAACA 59.150 47.619 9.95 0.00 42.60 2.83
69 70 9.666626 ATCGTTAATTCGTTGTTGACATAAAAA 57.333 25.926 0.00 0.00 0.00 1.94
70 71 9.108449 CATCGTTAATTCGTTGTTGACATAAAA 57.892 29.630 0.00 0.00 0.00 1.52
81 82 5.323900 ACAATGAGCATCGTTAATTCGTTG 58.676 37.500 0.00 3.86 43.80 4.10
93 94 2.005451 ACGAGCAAGACAATGAGCATC 58.995 47.619 0.00 0.00 0.00 3.91
96 97 1.151668 ACACGAGCAAGACAATGAGC 58.848 50.000 0.00 0.00 0.00 4.26
134 135 4.074970 GGGACACTTGTCAGTTCATCATT 58.925 43.478 11.40 0.00 46.47 2.57
138 139 3.214328 GTTGGGACACTTGTCAGTTCAT 58.786 45.455 11.40 0.00 46.47 2.57
149 150 2.034558 CGAAAGCATTTGTTGGGACACT 59.965 45.455 0.00 0.00 39.27 3.55
216 217 4.010349 GCCTTGTATTAAAGCAGGTGACT 58.990 43.478 0.00 0.00 46.44 3.41
238 239 0.617413 AGGGATTGACAGCTGACAGG 59.383 55.000 23.35 0.00 0.00 4.00
268 269 8.258007 TCCAAATATAAGAACACGTCTCTGATT 58.742 33.333 0.31 0.00 34.56 2.57
270 271 7.122204 TCTCCAAATATAAGAACACGTCTCTGA 59.878 37.037 0.00 0.00 34.56 3.27
272 273 7.406031 TCTCCAAATATAAGAACACGTCTCT 57.594 36.000 0.00 0.00 34.56 3.10
447 449 9.035890 TCCAAAAGAGAGACTTATACTTCATCA 57.964 33.333 0.00 0.00 37.93 3.07
462 464 5.831702 AGCTTATGCAATCCAAAAGAGAG 57.168 39.130 3.16 0.00 42.74 3.20
463 465 6.179756 TGTAGCTTATGCAATCCAAAAGAGA 58.820 36.000 0.00 0.00 42.74 3.10
464 466 6.441093 TGTAGCTTATGCAATCCAAAAGAG 57.559 37.500 0.00 0.00 42.74 2.85
465 467 6.208402 TGTTGTAGCTTATGCAATCCAAAAGA 59.792 34.615 0.00 0.00 42.74 2.52
466 468 6.389091 TGTTGTAGCTTATGCAATCCAAAAG 58.611 36.000 0.00 0.00 42.74 2.27
467 469 6.338214 TGTTGTAGCTTATGCAATCCAAAA 57.662 33.333 0.00 0.00 42.74 2.44
468 470 5.973899 TGTTGTAGCTTATGCAATCCAAA 57.026 34.783 0.00 0.00 42.74 3.28
469 471 5.651576 TCATGTTGTAGCTTATGCAATCCAA 59.348 36.000 0.00 0.00 42.74 3.53
471 473 5.756195 TCATGTTGTAGCTTATGCAATCC 57.244 39.130 0.00 0.00 42.74 3.01
474 476 5.105837 TGCAATCATGTTGTAGCTTATGCAA 60.106 36.000 0.00 0.00 42.74 4.08
476 478 4.736793 GTGCAATCATGTTGTAGCTTATGC 59.263 41.667 0.00 0.00 40.05 3.14
477 479 6.127810 AGTGCAATCATGTTGTAGCTTATG 57.872 37.500 0.00 0.00 0.00 1.90
479 481 6.823182 ACATAGTGCAATCATGTTGTAGCTTA 59.177 34.615 0.00 0.00 28.56 3.09
577 642 5.147032 TCCACCAACTCATCCAAGAAAATT 58.853 37.500 0.00 0.00 0.00 1.82
586 651 1.679680 CATGCATCCACCAACTCATCC 59.320 52.381 0.00 0.00 0.00 3.51
598 667 3.668447 AGGATCGATACAACATGCATCC 58.332 45.455 10.99 0.00 0.00 3.51
599 668 4.751600 TCAAGGATCGATACAACATGCATC 59.248 41.667 10.99 0.00 0.00 3.91
612 681 5.389520 AGGAGTATGAAGATCAAGGATCGA 58.610 41.667 0.00 0.00 43.17 3.59
613 682 5.242615 TGAGGAGTATGAAGATCAAGGATCG 59.757 44.000 0.00 0.00 43.17 3.69
614 683 6.662865 TGAGGAGTATGAAGATCAAGGATC 57.337 41.667 0.00 0.00 39.17 3.36
615 684 6.013553 CCATGAGGAGTATGAAGATCAAGGAT 60.014 42.308 0.00 0.00 36.89 3.24
622 691 3.321039 TGGCCATGAGGAGTATGAAGAT 58.679 45.455 0.00 0.00 36.89 2.40
634 703 1.138859 TCGACATAACCTGGCCATGAG 59.861 52.381 15.66 5.50 0.00 2.90
637 706 1.139058 GTCTCGACATAACCTGGCCAT 59.861 52.381 5.51 0.00 0.00 4.40
731 816 0.438830 GCATTCTCGGTGTCGTTCAC 59.561 55.000 5.28 5.28 45.47 3.18
742 827 5.121298 TGAGAATTGAAGTCTTGCATTCTCG 59.879 40.000 23.46 0.00 43.02 4.04
749 834 3.365767 GCACCTGAGAATTGAAGTCTTGC 60.366 47.826 0.00 0.00 0.00 4.01
762 847 4.256920 GAGCTTCTAAAATGCACCTGAGA 58.743 43.478 0.00 0.00 0.00 3.27
787 898 1.707427 AGAGGATGTCAAACCCTGCTT 59.293 47.619 0.00 0.00 0.00 3.91
789 900 2.087646 GAAGAGGATGTCAAACCCTGC 58.912 52.381 0.00 0.00 0.00 4.85
859 970 0.838122 AGCCCCACTGCTTCACTAGT 60.838 55.000 0.00 0.00 38.85 2.57
860 971 1.986413 AGCCCCACTGCTTCACTAG 59.014 57.895 0.00 0.00 38.85 2.57
861 972 4.232905 AGCCCCACTGCTTCACTA 57.767 55.556 0.00 0.00 38.85 2.74
904 1015 1.072015 CTGCAAATTCCCCAGCCAAAA 59.928 47.619 0.00 0.00 0.00 2.44
952 1066 5.074746 AGCTCCCCTAAAAAGGAAGAAAA 57.925 39.130 0.00 0.00 0.00 2.29
981 1095 5.682943 ACATAGAGATAGAGAACACGAGC 57.317 43.478 0.00 0.00 0.00 5.03
1002 1116 6.864342 TGAGAGGTTGCAGTACTTATAGAAC 58.136 40.000 0.00 0.00 0.00 3.01
1056 1171 1.460255 CTTGGAACCTTGGCCCTCA 59.540 57.895 0.00 0.00 0.00 3.86
1109 1224 3.256631 GTCCATTGAGACTGTTGCCATTT 59.743 43.478 0.00 0.00 33.79 2.32
1139 1254 4.080919 CACATACCTTGTCATCTCTTCCCA 60.081 45.833 0.00 0.00 36.00 4.37
1162 1277 5.748630 TGTATCGTATTGCTGTCTCACAATC 59.251 40.000 0.00 0.00 37.63 2.67
1186 1301 8.983789 TCACTAAAAAGGGGAACAAATTAACTT 58.016 29.630 0.00 0.00 0.00 2.66
1241 1357 7.613801 AGTGGTGTGAAGGCATACAATTATTAA 59.386 33.333 0.00 0.00 37.82 1.40
1266 1382 5.390991 GCAGGAAAGACAGATTTAAACCGAG 60.391 44.000 0.00 0.00 0.00 4.63
1343 1459 2.915659 ACGAGGCCACCGAAGACA 60.916 61.111 21.82 0.00 0.00 3.41
1499 1619 4.783560 ATCACCTTCACCATGATCATCA 57.216 40.909 4.86 0.00 0.00 3.07
1548 1670 4.179298 GGTCTGGTTTATCTACCGTTGAC 58.821 47.826 0.00 0.00 41.28 3.18
1553 1675 9.367444 GAAATATATGGTCTGGTTTATCTACCG 57.633 37.037 0.00 0.00 41.28 4.02
1563 1685 9.699410 TGAAAATCAAGAAATATATGGTCTGGT 57.301 29.630 1.00 0.00 0.00 4.00
1588 1712 7.806690 TGAGAAAAATAACTCCGATCAAGTTG 58.193 34.615 16.81 0.00 37.52 3.16
1695 1819 3.020274 CGAGACCAGATCCTCTTCTTCA 58.980 50.000 0.00 0.00 0.00 3.02
1720 1844 0.604780 CTTCTGGTCACAGCAGGGTG 60.605 60.000 3.02 0.00 43.47 4.61
1722 1846 4.709840 CTTCTGGTCACAGCAGGG 57.290 61.111 3.02 0.00 43.47 4.45
1782 1906 1.760086 GAGGAGCAGCAGCCTCCTA 60.760 63.158 17.67 0.00 43.69 2.94
1830 1954 1.065199 GGTGTGAGAATGCCATCTCCA 60.065 52.381 11.94 7.72 44.27 3.86
1928 2052 7.724951 ACTCCCAACTAAGATATCCACTACTAC 59.275 40.741 0.00 0.00 0.00 2.73
1929 2053 7.823635 ACTCCCAACTAAGATATCCACTACTA 58.176 38.462 0.00 0.00 0.00 1.82
1937 2061 6.056236 GTCCCAAACTCCCAACTAAGATATC 58.944 44.000 0.00 0.00 0.00 1.63
1940 2064 3.655777 TGTCCCAAACTCCCAACTAAGAT 59.344 43.478 0.00 0.00 0.00 2.40
1945 2069 1.850345 TCTTGTCCCAAACTCCCAACT 59.150 47.619 0.00 0.00 0.00 3.16
1946 2070 2.358322 TCTTGTCCCAAACTCCCAAC 57.642 50.000 0.00 0.00 0.00 3.77
1951 2075 1.464997 GCACGATCTTGTCCCAAACTC 59.535 52.381 0.73 0.00 0.00 3.01
1953 2077 1.523758 AGCACGATCTTGTCCCAAAC 58.476 50.000 0.73 0.00 0.00 2.93
1954 2078 2.270352 AAGCACGATCTTGTCCCAAA 57.730 45.000 0.73 0.00 0.00 3.28
1955 2079 3.410631 TTAAGCACGATCTTGTCCCAA 57.589 42.857 0.73 0.00 0.00 4.12
1956 2080 3.627395 ATTAAGCACGATCTTGTCCCA 57.373 42.857 0.73 0.00 0.00 4.37
1958 2082 4.154195 ACACAATTAAGCACGATCTTGTCC 59.846 41.667 0.73 0.00 0.00 4.02
1959 2083 5.082059 CACACAATTAAGCACGATCTTGTC 58.918 41.667 0.73 0.00 0.00 3.18
1960 2084 4.515191 ACACACAATTAAGCACGATCTTGT 59.485 37.500 0.73 0.00 0.00 3.16
1961 2085 5.034554 ACACACAATTAAGCACGATCTTG 57.965 39.130 0.00 0.00 0.00 3.02
1962 2086 4.997395 AGACACACAATTAAGCACGATCTT 59.003 37.500 0.00 0.00 0.00 2.40
1963 2087 4.389992 CAGACACACAATTAAGCACGATCT 59.610 41.667 0.00 0.00 0.00 2.75
1967 2091 2.805671 TCCAGACACACAATTAAGCACG 59.194 45.455 0.00 0.00 0.00 5.34
1994 2118 6.071391 CCTCCACCACAGCTGTAAAAATTAAT 60.071 38.462 21.20 0.00 0.00 1.40
1995 2119 5.242838 CCTCCACCACAGCTGTAAAAATTAA 59.757 40.000 21.20 0.00 0.00 1.40
1996 2120 4.764823 CCTCCACCACAGCTGTAAAAATTA 59.235 41.667 21.20 1.27 0.00 1.40
1997 2121 3.573967 CCTCCACCACAGCTGTAAAAATT 59.426 43.478 21.20 0.00 0.00 1.82
1998 2122 3.157087 CCTCCACCACAGCTGTAAAAAT 58.843 45.455 21.20 0.00 0.00 1.82
1999 2123 2.582052 CCTCCACCACAGCTGTAAAAA 58.418 47.619 21.20 3.53 0.00 1.94
2004 2128 3.170672 TGCCTCCACCACAGCTGT 61.171 61.111 15.25 15.25 0.00 4.40
2021 2145 3.069980 GAGGATCGCCGCAGACAGT 62.070 63.158 0.00 0.00 39.96 3.55
2022 2146 2.279120 GAGGATCGCCGCAGACAG 60.279 66.667 0.00 0.00 39.96 3.51
2030 2154 0.753111 AAAGCCCAATGAGGATCGCC 60.753 55.000 0.00 0.00 41.22 5.54
2048 2172 2.353406 GCCGTACTTCTGTAGCAGGAAA 60.353 50.000 0.00 0.00 31.51 3.13
2057 2181 1.288127 GGACGTGCCGTACTTCTGT 59.712 57.895 0.00 0.00 41.37 3.41
2096 2220 1.078214 CCACACTGCCATGATCGGT 60.078 57.895 0.00 0.00 0.00 4.69
2099 2223 0.391661 ACGTCCACACTGCCATGATC 60.392 55.000 0.00 0.00 0.00 2.92
2117 2241 0.999406 CGATGATCGGTGTGGTGAAC 59.001 55.000 7.00 0.00 36.00 3.18
2213 2337 0.469892 AGCCCCTTTTCTGGTTGGTG 60.470 55.000 0.00 0.00 0.00 4.17
2249 2373 2.363807 CGTGATGCAGAGAACGGTC 58.636 57.895 0.00 0.00 32.55 4.79
2267 2391 5.358160 AGAGAAAAGCTTAATGTACATGCCC 59.642 40.000 9.63 0.00 0.00 5.36
2294 2419 3.185797 GGACATTACAACGGACTGTGAAC 59.814 47.826 0.00 0.00 0.00 3.18
2300 2425 2.253610 TGGAGGACATTACAACGGACT 58.746 47.619 0.00 0.00 0.00 3.85
2327 2452 5.041951 TGCATGAATCAAAACGGTAAGTC 57.958 39.130 0.00 0.00 0.00 3.01
2409 2534 2.224548 GGGGTATATGCTGGTGAGGAAC 60.225 54.545 0.00 0.00 0.00 3.62
2445 2570 4.752879 GCCGTCTGCCCAGCGTAA 62.753 66.667 9.83 0.00 0.00 3.18
2482 2607 0.034896 AACCCGTCGCTGAAGTCATT 59.965 50.000 0.00 0.00 0.00 2.57
2601 2729 1.404181 GCTACCGACTGCTTGATGACA 60.404 52.381 0.00 0.00 0.00 3.58
2703 2831 5.178061 CCAACACAGAACAGCATGAGTATA 58.822 41.667 0.00 0.00 39.69 1.47
2751 2879 2.399396 ACGCGTTTCCAATGTTCTTG 57.601 45.000 5.58 0.00 0.00 3.02
2755 2883 0.040781 CCGAACGCGTTTCCAATGTT 60.041 50.000 27.32 0.00 35.23 2.71
2809 2937 0.030297 ATCACCAGGGAGAGCAGGAT 60.030 55.000 0.00 0.00 0.00 3.24
2976 3104 2.604046 AGTACCAGCCGAACATGATC 57.396 50.000 0.00 0.00 0.00 2.92
3015 3143 0.098200 TGTTCGCCATCTCGTACTCG 59.902 55.000 0.00 0.00 38.55 4.18
3039 3167 2.811317 CCAAGCCGCTCGAGTGTC 60.811 66.667 23.55 12.33 0.00 3.67
3088 3216 3.483869 GAAGCAGAGCCCGGGGAT 61.484 66.667 25.28 11.81 0.00 3.85
3111 3239 0.677731 GCCAGTCCTGCATGTTGCTA 60.678 55.000 0.75 0.00 45.31 3.49
3163 3291 2.712539 CTTGTGCAACGACCGCAA 59.287 55.556 0.00 0.00 41.97 4.85
3267 3395 0.687920 TCGTGCACCCATAAACTCCA 59.312 50.000 12.15 0.00 0.00 3.86
3270 3398 3.055385 ACTGTATCGTGCACCCATAAACT 60.055 43.478 12.15 0.00 0.00 2.66
3276 3404 1.138069 CCATACTGTATCGTGCACCCA 59.862 52.381 12.15 0.00 0.00 4.51
3303 3431 2.033602 TCAGAGTCGAGCGGGTCA 59.966 61.111 8.06 0.00 0.00 4.02
3318 3446 1.186200 CGGTGAGTTCATCCTCCTCA 58.814 55.000 0.00 0.00 33.03 3.86
3364 3492 0.924090 TCCTCCTCCTCGGTGATGTA 59.076 55.000 0.00 0.00 0.00 2.29
3373 3501 1.075600 CCACCTCCTCCTCCTCCTC 60.076 68.421 0.00 0.00 0.00 3.71
3374 3502 3.114390 CCACCTCCTCCTCCTCCT 58.886 66.667 0.00 0.00 0.00 3.69
3375 3503 2.766229 GCCACCTCCTCCTCCTCC 60.766 72.222 0.00 0.00 0.00 4.30
3376 3504 1.760480 GAGCCACCTCCTCCTCCTC 60.760 68.421 0.00 0.00 31.68 3.71
3377 3505 2.252898 AGAGCCACCTCCTCCTCCT 61.253 63.158 0.00 0.00 38.96 3.69
3378 3506 2.063378 CAGAGCCACCTCCTCCTCC 61.063 68.421 0.00 0.00 38.96 4.30
3454 3582 2.746277 GCCCGTGTCTTTGCCGAT 60.746 61.111 0.00 0.00 0.00 4.18
3609 3737 2.155732 CGCGTCATACATATGGAAGTGC 59.844 50.000 7.80 4.13 34.50 4.40
3615 3743 0.790207 GCACCGCGTCATACATATGG 59.210 55.000 4.92 0.00 34.50 2.74
3630 3758 1.296056 ACGACTTATTGGCACGCACC 61.296 55.000 0.00 0.00 0.00 5.01
3645 3773 1.667212 ACAACCGAAAACCAGAACGAC 59.333 47.619 0.00 0.00 0.00 4.34
3688 3816 4.581409 AGGTTTACTTACAAACGCCATTGT 59.419 37.500 6.94 6.94 45.14 2.71
3771 3899 6.594788 ACCGACACTCTTAAGTTATGGTTA 57.405 37.500 1.63 0.00 31.71 2.85
3819 3947 5.105392 TGGCGAAGAAATTTGGAAGCAATAT 60.105 36.000 0.00 0.00 0.00 1.28
3889 4017 9.507329 ACCACAAGAATTAATATGCTATACCAG 57.493 33.333 0.00 0.00 0.00 4.00
4043 4173 0.762418 TTCGTCCCTCCACATGTTGT 59.238 50.000 0.00 0.00 0.00 3.32
4056 4186 7.186804 CACCAAATAGTCAATGTATTTCGTCC 58.813 38.462 0.00 0.00 29.39 4.79
4137 4268 5.599732 AGCAAGCATCACAGAGTCTATAAG 58.400 41.667 0.00 0.00 0.00 1.73
4139 4270 5.604758 AAGCAAGCATCACAGAGTCTATA 57.395 39.130 0.00 0.00 0.00 1.31
4193 4324 6.405731 CCACCAAGTCATTTCTCACAAAAAGA 60.406 38.462 0.00 0.00 0.00 2.52
4197 4328 4.277476 ACCACCAAGTCATTTCTCACAAA 58.723 39.130 0.00 0.00 0.00 2.83
4198 4329 3.897239 ACCACCAAGTCATTTCTCACAA 58.103 40.909 0.00 0.00 0.00 3.33
4199 4330 3.576078 ACCACCAAGTCATTTCTCACA 57.424 42.857 0.00 0.00 0.00 3.58
4268 4399 2.756760 GTTACCACCGACCTCTACATCA 59.243 50.000 0.00 0.00 0.00 3.07
4314 4445 2.859165 TTCTCTGGATGTGTGGGTTC 57.141 50.000 0.00 0.00 0.00 3.62
4349 4484 3.055385 TGTCAAGGCTAAGCTAATCCGTT 60.055 43.478 0.00 0.00 0.00 4.44
4376 4511 7.719193 TGAGATCCATGTTTCAACTTTCTACAA 59.281 33.333 0.00 0.00 0.00 2.41
4385 4520 5.239306 TGAGTGTTGAGATCCATGTTTCAAC 59.761 40.000 13.54 13.54 45.88 3.18
4386 4521 5.375773 TGAGTGTTGAGATCCATGTTTCAA 58.624 37.500 0.00 0.00 0.00 2.69
4391 4526 6.784473 TCCTATATGAGTGTTGAGATCCATGT 59.216 38.462 0.00 0.00 0.00 3.21
4395 4530 7.102346 CCAATCCTATATGAGTGTTGAGATCC 58.898 42.308 5.03 0.00 0.00 3.36
4407 4542 5.669904 TCCCAAGTTGACCAATCCTATATGA 59.330 40.000 3.87 0.00 0.00 2.15
4413 4548 2.065799 ACTCCCAAGTTGACCAATCCT 58.934 47.619 3.87 0.00 28.74 3.24
4416 4551 3.909732 TGAAACTCCCAAGTTGACCAAT 58.090 40.909 3.87 0.00 45.07 3.16
4446 4581 6.845758 ACTTCGATATATGTTCGGGGATTA 57.154 37.500 9.23 0.00 37.22 1.75
4447 4582 5.740290 ACTTCGATATATGTTCGGGGATT 57.260 39.130 9.23 0.00 37.22 3.01
4448 4583 5.337330 GGAACTTCGATATATGTTCGGGGAT 60.337 44.000 9.23 0.43 39.50 3.85
4449 4584 4.021719 GGAACTTCGATATATGTTCGGGGA 60.022 45.833 9.23 0.00 39.50 4.81
4450 4585 4.243270 GGAACTTCGATATATGTTCGGGG 58.757 47.826 9.23 6.04 39.50 5.73
4451 4586 4.878439 TGGAACTTCGATATATGTTCGGG 58.122 43.478 9.23 6.30 39.50 5.14
4452 4587 4.923871 CCTGGAACTTCGATATATGTTCGG 59.076 45.833 9.23 0.00 39.50 4.30
4453 4588 5.769367 TCCTGGAACTTCGATATATGTTCG 58.231 41.667 0.00 4.10 39.50 3.95
4454 4589 8.433421 TTTTCCTGGAACTTCGATATATGTTC 57.567 34.615 9.04 5.49 38.33 3.18
4457 4592 8.662781 TTCTTTTCCTGGAACTTCGATATATG 57.337 34.615 9.04 0.00 0.00 1.78
4465 4600 5.521906 AGCTTTTCTTTTCCTGGAACTTC 57.478 39.130 9.04 0.00 0.00 3.01
4467 4602 5.939764 AAAGCTTTTCTTTTCCTGGAACT 57.060 34.783 9.04 0.00 42.06 3.01
4491 4626 5.533528 GGCCTGAAGGTTTAACTTTTCTACA 59.466 40.000 0.00 0.00 37.57 2.74
4492 4627 5.533528 TGGCCTGAAGGTTTAACTTTTCTAC 59.466 40.000 3.32 4.48 37.57 2.59
4499 4634 4.929146 ACTATGGCCTGAAGGTTTAACT 57.071 40.909 3.32 0.00 37.57 2.24
4500 4635 5.977489 AAACTATGGCCTGAAGGTTTAAC 57.023 39.130 3.32 0.00 37.57 2.01
4524 4659 4.762251 ACCTAAGCTTCATGTTGGAACTTC 59.238 41.667 0.00 0.00 0.00 3.01
4527 4662 5.803020 CTACCTAAGCTTCATGTTGGAAC 57.197 43.478 0.00 0.00 0.00 3.62


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

AutoCloner maintained by Alex Coulton.