Multiple sequence alignment - TraesCS7B01G434200

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G434200 chr7B 100.000 3913 0 0 1 3913 701285358 701289270 0.000000e+00 7227.0
1 TraesCS7B01G434200 chr7B 87.530 826 96 4 1175 1993 464344867 464344042 0.000000e+00 948.0
2 TraesCS7B01G434200 chr7B 88.162 642 74 2 2287 2927 464343971 464343331 0.000000e+00 763.0
3 TraesCS7B01G434200 chr7B 91.011 534 26 10 1 530 596985362 596985877 0.000000e+00 701.0
4 TraesCS7B01G434200 chr7A 90.574 1517 80 26 516 1992 701692770 701694263 0.000000e+00 1951.0
5 TraesCS7B01G434200 chr7A 94.583 923 31 5 2271 3186 701694319 701695229 0.000000e+00 1410.0
6 TraesCS7B01G434200 chr7A 86.383 918 103 12 1086 1993 498230784 498229879 0.000000e+00 983.0
7 TraesCS7B01G434200 chr7A 87.912 637 75 2 2287 2922 498229814 498229179 0.000000e+00 749.0
8 TraesCS7B01G434200 chr7D 89.845 1546 82 27 516 2013 611755995 611757513 0.000000e+00 1916.0
9 TraesCS7B01G434200 chr7D 96.258 962 28 1 2226 3187 611757511 611758464 0.000000e+00 1570.0
10 TraesCS7B01G434200 chr7D 86.477 880 100 11 1121 1993 446997800 446996933 0.000000e+00 948.0
11 TraesCS7B01G434200 chr7D 89.193 731 65 9 3194 3913 568652062 568652789 0.000000e+00 900.0
12 TraesCS7B01G434200 chr7D 89.088 724 62 9 3203 3913 104359724 104360443 0.000000e+00 883.0
13 TraesCS7B01G434200 chr7D 88.558 638 71 2 2287 2923 446996865 446996229 0.000000e+00 773.0
14 TraesCS7B01G434200 chrUn 91.516 719 55 5 3201 3913 343514111 343514829 0.000000e+00 985.0
15 TraesCS7B01G434200 chr6B 90.972 720 54 5 3201 3913 644388361 644389076 0.000000e+00 959.0
16 TraesCS7B01G434200 chr6B 91.199 534 26 11 1 530 29406837 29406321 0.000000e+00 706.0
17 TraesCS7B01G434200 chr6B 98.492 199 3 0 2026 2224 716899501 716899303 6.220000e-93 351.0
18 TraesCS7B01G434200 chr2D 90.305 722 58 7 3203 3913 590329762 590329042 0.000000e+00 935.0
19 TraesCS7B01G434200 chr2D 74.855 688 131 31 1191 1857 15631353 15630687 1.390000e-69 274.0
20 TraesCS7B01G434200 chr5B 90.000 720 65 4 3200 3913 584135298 584136016 0.000000e+00 924.0
21 TraesCS7B01G434200 chr5B 91.313 518 27 10 1 514 478602449 478602952 0.000000e+00 691.0
22 TraesCS7B01G434200 chr5B 88.641 537 41 11 1 534 533095263 533095782 1.530000e-178 636.0
23 TraesCS7B01G434200 chr1B 89.861 720 59 5 3200 3913 543883676 543882965 0.000000e+00 913.0
24 TraesCS7B01G434200 chr1B 89.291 719 67 5 3201 3913 536093901 536094615 0.000000e+00 893.0
25 TraesCS7B01G434200 chr1B 90.414 532 35 8 1 530 684866028 684866545 0.000000e+00 686.0
26 TraesCS7B01G434200 chr1B 97.475 198 4 1 2026 2223 67529699 67529895 1.740000e-88 337.0
27 TraesCS7B01G434200 chr1B 94.975 199 8 1 2026 2224 484328557 484328753 1.060000e-80 311.0
28 TraesCS7B01G434200 chr1B 94.059 202 6 4 2027 2227 604640436 604640240 6.350000e-78 302.0
29 TraesCS7B01G434200 chr2B 89.694 718 67 4 3203 3913 770487870 770487153 0.000000e+00 909.0
30 TraesCS7B01G434200 chr2B 76.759 611 113 19 2311 2896 27736538 27735932 8.160000e-82 315.0
31 TraesCS7B01G434200 chr2B 74.891 689 129 35 1191 1857 27737498 27736832 1.390000e-69 274.0
32 TraesCS7B01G434200 chr4B 91.948 534 22 10 1 530 472886963 472887479 0.000000e+00 728.0
33 TraesCS7B01G434200 chr4B 92.041 490 28 7 1 486 60201442 60201924 0.000000e+00 678.0
34 TraesCS7B01G434200 chr4B 91.129 496 31 7 1 491 39733030 39732543 0.000000e+00 660.0
35 TraesCS7B01G434200 chr3B 89.888 534 30 12 1 530 6198360 6197847 0.000000e+00 665.0
36 TraesCS7B01G434200 chr1A 98.990 198 2 0 2026 2223 556824458 556824261 4.810000e-94 355.0
37 TraesCS7B01G434200 chr1D 95.455 198 7 2 2026 2223 100823953 100824148 8.160000e-82 315.0
38 TraesCS7B01G434200 chr2A 75.837 687 126 32 1191 1857 17681429 17680763 2.940000e-81 313.0
39 TraesCS7B01G434200 chr2A 75.040 625 120 21 2304 2896 17680472 17679852 1.400000e-64 257.0
40 TraesCS7B01G434200 chr3A 94.500 200 8 3 2026 2224 595964367 595964564 4.910000e-79 305.0
41 TraesCS7B01G434200 chr5D 94.872 195 7 2 2029 2223 331322558 331322367 6.350000e-78 302.0
42 TraesCS7B01G434200 chr6A 92.424 198 12 2 2026 2223 11479767 11479961 2.980000e-71 279.0
43 TraesCS7B01G434200 chr4A 87.640 89 9 2 2576 2662 713894036 713893948 6.920000e-18 102.0
44 TraesCS7B01G434200 chr4A 86.957 92 10 2 2570 2659 713934675 713934766 6.920000e-18 102.0
45 TraesCS7B01G434200 chr5A 88.000 50 4 2 1096 1144 39732543 39732591 1.520000e-04 58.4


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 TraesCS7B01G434200 chr7B 701285358 701289270 3912 False 7227.0 7227 100.0000 1 3913 1 chr7B.!!$F2 3912
1 TraesCS7B01G434200 chr7B 464343331 464344867 1536 True 855.5 948 87.8460 1175 2927 2 chr7B.!!$R1 1752
2 TraesCS7B01G434200 chr7B 596985362 596985877 515 False 701.0 701 91.0110 1 530 1 chr7B.!!$F1 529
3 TraesCS7B01G434200 chr7A 701692770 701695229 2459 False 1680.5 1951 92.5785 516 3186 2 chr7A.!!$F1 2670
4 TraesCS7B01G434200 chr7A 498229179 498230784 1605 True 866.0 983 87.1475 1086 2922 2 chr7A.!!$R1 1836
5 TraesCS7B01G434200 chr7D 611755995 611758464 2469 False 1743.0 1916 93.0515 516 3187 2 chr7D.!!$F3 2671
6 TraesCS7B01G434200 chr7D 568652062 568652789 727 False 900.0 900 89.1930 3194 3913 1 chr7D.!!$F2 719
7 TraesCS7B01G434200 chr7D 104359724 104360443 719 False 883.0 883 89.0880 3203 3913 1 chr7D.!!$F1 710
8 TraesCS7B01G434200 chr7D 446996229 446997800 1571 True 860.5 948 87.5175 1121 2923 2 chr7D.!!$R1 1802
9 TraesCS7B01G434200 chrUn 343514111 343514829 718 False 985.0 985 91.5160 3201 3913 1 chrUn.!!$F1 712
10 TraesCS7B01G434200 chr6B 644388361 644389076 715 False 959.0 959 90.9720 3201 3913 1 chr6B.!!$F1 712
11 TraesCS7B01G434200 chr6B 29406321 29406837 516 True 706.0 706 91.1990 1 530 1 chr6B.!!$R1 529
12 TraesCS7B01G434200 chr2D 590329042 590329762 720 True 935.0 935 90.3050 3203 3913 1 chr2D.!!$R2 710
13 TraesCS7B01G434200 chr2D 15630687 15631353 666 True 274.0 274 74.8550 1191 1857 1 chr2D.!!$R1 666
14 TraesCS7B01G434200 chr5B 584135298 584136016 718 False 924.0 924 90.0000 3200 3913 1 chr5B.!!$F3 713
15 TraesCS7B01G434200 chr5B 478602449 478602952 503 False 691.0 691 91.3130 1 514 1 chr5B.!!$F1 513
16 TraesCS7B01G434200 chr5B 533095263 533095782 519 False 636.0 636 88.6410 1 534 1 chr5B.!!$F2 533
17 TraesCS7B01G434200 chr1B 543882965 543883676 711 True 913.0 913 89.8610 3200 3913 1 chr1B.!!$R1 713
18 TraesCS7B01G434200 chr1B 536093901 536094615 714 False 893.0 893 89.2910 3201 3913 1 chr1B.!!$F3 712
19 TraesCS7B01G434200 chr1B 684866028 684866545 517 False 686.0 686 90.4140 1 530 1 chr1B.!!$F4 529
20 TraesCS7B01G434200 chr2B 770487153 770487870 717 True 909.0 909 89.6940 3203 3913 1 chr2B.!!$R1 710
21 TraesCS7B01G434200 chr2B 27735932 27737498 1566 True 294.5 315 75.8250 1191 2896 2 chr2B.!!$R2 1705
22 TraesCS7B01G434200 chr4B 472886963 472887479 516 False 728.0 728 91.9480 1 530 1 chr4B.!!$F2 529
23 TraesCS7B01G434200 chr3B 6197847 6198360 513 True 665.0 665 89.8880 1 530 1 chr3B.!!$R1 529
24 TraesCS7B01G434200 chr2A 17679852 17681429 1577 True 285.0 313 75.4385 1191 2896 2 chr2A.!!$R1 1705

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
513 522 0.234884 GCTTGTTTAGCGCGTCTGTT 59.765 50.0 8.43 0.0 40.71 3.16 F
2024 2167 0.036732 GTCCATGTCCTCCTTGTGCA 59.963 55.0 0.00 0.0 0.00 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2221 2364 0.173255 TCGATCTCGATGCACAAGCA 59.827 50.0 0.0 0.0 46.02 3.91 R
3613 3839 0.390209 ATGCCTTGCGGATGTTTTGC 60.390 50.0 0.0 0.0 0.00 3.68 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
437 444 1.300080 GGTTATTACGCGCCCGCTA 60.300 57.895 5.73 0.02 39.32 4.26
487 496 4.905193 GCCTAATTTGCGGCGCGG 62.905 66.667 28.09 21.22 36.45 6.46
488 497 4.905193 CCTAATTTGCGGCGCGGC 62.905 66.667 30.55 30.55 0.00 6.53
511 520 4.725758 GCTTGTTTAGCGCGTCTG 57.274 55.556 8.43 0.00 40.71 3.51
512 521 1.860078 GCTTGTTTAGCGCGTCTGT 59.140 52.632 8.43 0.00 40.71 3.41
513 522 0.234884 GCTTGTTTAGCGCGTCTGTT 59.765 50.000 8.43 0.00 40.71 3.16
514 523 1.721804 GCTTGTTTAGCGCGTCTGTTC 60.722 52.381 8.43 1.57 40.71 3.18
515 524 1.792949 CTTGTTTAGCGCGTCTGTTCT 59.207 47.619 8.43 0.00 0.00 3.01
516 525 1.136690 TGTTTAGCGCGTCTGTTCTG 58.863 50.000 8.43 0.00 0.00 3.02
517 526 1.137513 GTTTAGCGCGTCTGTTCTGT 58.862 50.000 8.43 0.00 0.00 3.41
518 527 1.525619 GTTTAGCGCGTCTGTTCTGTT 59.474 47.619 8.43 0.00 0.00 3.16
519 528 1.136690 TTAGCGCGTCTGTTCTGTTG 58.863 50.000 8.43 0.00 0.00 3.33
520 529 0.666274 TAGCGCGTCTGTTCTGTTGG 60.666 55.000 8.43 0.00 0.00 3.77
521 530 1.954146 GCGCGTCTGTTCTGTTGGA 60.954 57.895 8.43 0.00 0.00 3.53
522 531 1.891060 GCGCGTCTGTTCTGTTGGAG 61.891 60.000 8.43 0.00 0.00 3.86
523 532 0.318699 CGCGTCTGTTCTGTTGGAGA 60.319 55.000 0.00 0.00 0.00 3.71
524 533 1.670087 CGCGTCTGTTCTGTTGGAGAT 60.670 52.381 0.00 0.00 0.00 2.75
525 534 1.728971 GCGTCTGTTCTGTTGGAGATG 59.271 52.381 0.00 0.00 0.00 2.90
526 535 1.728971 CGTCTGTTCTGTTGGAGATGC 59.271 52.381 0.00 0.00 0.00 3.91
527 536 2.611473 CGTCTGTTCTGTTGGAGATGCT 60.611 50.000 0.00 0.00 0.00 3.79
530 539 3.056250 TCTGTTCTGTTGGAGATGCTCTC 60.056 47.826 5.01 5.01 42.66 3.20
540 549 2.093553 GGAGATGCTCTCACTTTCAGCT 60.094 50.000 13.06 0.00 45.12 4.24
543 552 4.695396 AGATGCTCTCACTTTCAGCTATG 58.305 43.478 0.00 0.00 34.03 2.23
555 564 1.139654 TCAGCTATGCATCAGGTGGTC 59.860 52.381 23.19 3.97 40.95 4.02
592 601 2.682494 TACCTGACCTGGTCCGGC 60.682 66.667 30.27 6.75 39.93 6.13
632 645 1.620822 AGCATCAACCGGCTTCTTTT 58.379 45.000 0.00 0.00 36.92 2.27
634 647 1.541588 GCATCAACCGGCTTCTTTTCT 59.458 47.619 0.00 0.00 0.00 2.52
680 717 8.327941 TGAATAATGAGAAACTCACCTGAAAG 57.672 34.615 3.54 0.00 43.63 2.62
801 839 2.281484 TGGCCTTCACAAGCGGTC 60.281 61.111 3.32 0.00 0.00 4.79
838 889 5.239525 GGAAACTGCTAAAGTGAGACAATGT 59.760 40.000 0.00 0.00 39.81 2.71
914 976 1.299089 GCGTGCTTGTTTGGTGACC 60.299 57.895 0.00 0.00 0.00 4.02
982 1045 4.868026 CCATAAATGGCCGACGGA 57.132 55.556 20.50 0.00 41.75 4.69
986 1049 1.732259 CATAAATGGCCGACGGATAGC 59.268 52.381 20.50 0.88 0.00 2.97
1044 1107 2.823147 CCGCGGACGAGGTAGAGT 60.823 66.667 24.07 0.00 43.93 3.24
1045 1108 2.404995 CCGCGGACGAGGTAGAGTT 61.405 63.158 24.07 0.00 43.93 3.01
1046 1109 1.062206 CGCGGACGAGGTAGAGTTC 59.938 63.158 0.00 0.00 43.93 3.01
1060 1127 0.257039 GAGTTCTGGGTGCCATGGAT 59.743 55.000 18.40 0.00 30.82 3.41
1077 1144 0.107459 GATTCAGTGGGAGTGGGAGC 60.107 60.000 0.00 0.00 0.00 4.70
1165 1238 2.673200 GCTGGTCAGGAGGCATGGA 61.673 63.158 0.00 0.00 0.00 3.41
2008 2151 1.181786 CCTCCACACTCTCTCAGTCC 58.818 60.000 0.00 0.00 30.26 3.85
2011 2154 2.166050 CTCCACACTCTCTCAGTCCATG 59.834 54.545 0.00 0.00 30.26 3.66
2013 2156 2.094286 CCACACTCTCTCAGTCCATGTC 60.094 54.545 0.00 0.00 30.26 3.06
2020 2163 2.168106 CTCTCAGTCCATGTCCTCCTTG 59.832 54.545 0.00 0.00 0.00 3.61
2022 2165 1.625315 TCAGTCCATGTCCTCCTTGTG 59.375 52.381 0.00 0.00 0.00 3.33
2023 2166 0.326264 AGTCCATGTCCTCCTTGTGC 59.674 55.000 0.00 0.00 0.00 4.57
2024 2167 0.036732 GTCCATGTCCTCCTTGTGCA 59.963 55.000 0.00 0.00 0.00 4.57
2026 2169 0.250858 CCATGTCCTCCTTGTGCACA 60.251 55.000 17.42 17.42 0.00 4.57
2027 2170 1.162698 CATGTCCTCCTTGTGCACAG 58.837 55.000 20.59 13.74 0.00 3.66
2030 2173 0.886490 GTCCTCCTTGTGCACAGTGG 60.886 60.000 25.80 25.80 0.00 4.00
2031 2174 2.263741 CCTCCTTGTGCACAGTGGC 61.264 63.158 26.50 0.00 0.00 5.01
2032 2175 2.591429 TCCTTGTGCACAGTGGCG 60.591 61.111 26.50 12.94 36.28 5.69
2033 2176 3.663176 CCTTGTGCACAGTGGCGG 61.663 66.667 20.59 12.35 36.28 6.13
2034 2177 2.591429 CTTGTGCACAGTGGCGGA 60.591 61.111 20.59 1.94 36.28 5.54
2035 2178 2.591429 TTGTGCACAGTGGCGGAG 60.591 61.111 20.59 0.00 36.28 4.63
2054 2197 5.178797 CGGAGCCAGGAAATATGTATTAGG 58.821 45.833 0.00 0.00 0.00 2.69
2055 2198 5.501156 GGAGCCAGGAAATATGTATTAGGG 58.499 45.833 0.00 0.00 0.00 3.53
2056 2199 5.501156 GAGCCAGGAAATATGTATTAGGGG 58.499 45.833 0.00 0.00 0.00 4.79
2057 2200 4.292306 AGCCAGGAAATATGTATTAGGGGG 59.708 45.833 0.00 0.00 0.00 5.40
2071 2214 2.438795 GGGGGCCAAGTGCTGTTA 59.561 61.111 4.39 0.00 40.92 2.41
2072 2215 1.228737 GGGGGCCAAGTGCTGTTAA 60.229 57.895 4.39 0.00 40.92 2.01
2073 2216 0.830023 GGGGGCCAAGTGCTGTTAAA 60.830 55.000 4.39 0.00 40.92 1.52
2074 2217 1.044611 GGGGCCAAGTGCTGTTAAAA 58.955 50.000 4.39 0.00 40.92 1.52
2075 2218 1.270094 GGGGCCAAGTGCTGTTAAAAC 60.270 52.381 4.39 0.00 40.92 2.43
2076 2219 1.410882 GGGCCAAGTGCTGTTAAAACA 59.589 47.619 4.39 0.00 40.92 2.83
2077 2220 2.159028 GGGCCAAGTGCTGTTAAAACAA 60.159 45.455 4.39 0.00 38.66 2.83
2078 2221 3.123050 GGCCAAGTGCTGTTAAAACAAG 58.877 45.455 0.00 0.00 38.66 3.16
2079 2222 3.430236 GGCCAAGTGCTGTTAAAACAAGT 60.430 43.478 0.00 0.00 38.66 3.16
2080 2223 4.180817 GCCAAGTGCTGTTAAAACAAGTT 58.819 39.130 0.00 0.00 38.66 2.66
2081 2224 5.344884 GCCAAGTGCTGTTAAAACAAGTTA 58.655 37.500 0.00 0.00 38.66 2.24
2082 2225 5.458779 GCCAAGTGCTGTTAAAACAAGTTAG 59.541 40.000 0.00 0.00 38.66 2.34
2083 2226 5.977129 CCAAGTGCTGTTAAAACAAGTTAGG 59.023 40.000 0.00 0.00 38.66 2.69
2084 2227 5.767816 AGTGCTGTTAAAACAAGTTAGGG 57.232 39.130 0.00 0.00 38.66 3.53
2085 2228 5.442391 AGTGCTGTTAAAACAAGTTAGGGA 58.558 37.500 0.00 0.00 38.66 4.20
2086 2229 5.531287 AGTGCTGTTAAAACAAGTTAGGGAG 59.469 40.000 0.00 0.00 38.66 4.30
2087 2230 4.825085 TGCTGTTAAAACAAGTTAGGGAGG 59.175 41.667 0.00 0.00 38.66 4.30
2088 2231 4.217767 GCTGTTAAAACAAGTTAGGGAGGG 59.782 45.833 0.00 0.00 38.66 4.30
2089 2232 4.146564 TGTTAAAACAAGTTAGGGAGGGC 58.853 43.478 0.00 0.00 35.67 5.19
2090 2233 2.304221 AAAACAAGTTAGGGAGGGCC 57.696 50.000 0.00 0.00 0.00 5.80
2091 2234 1.154430 AAACAAGTTAGGGAGGGCCA 58.846 50.000 6.18 0.00 35.15 5.36
2092 2235 1.154430 AACAAGTTAGGGAGGGCCAA 58.846 50.000 6.18 0.00 35.15 4.52
2093 2236 1.154430 ACAAGTTAGGGAGGGCCAAA 58.846 50.000 6.18 0.00 35.15 3.28
2094 2237 1.203013 ACAAGTTAGGGAGGGCCAAAC 60.203 52.381 6.18 1.91 35.15 2.93
2095 2238 1.075536 CAAGTTAGGGAGGGCCAAACT 59.924 52.381 6.18 4.38 41.20 2.66
2096 2239 2.307686 CAAGTTAGGGAGGGCCAAACTA 59.692 50.000 6.18 1.18 39.58 2.24
2097 2240 2.859951 AGTTAGGGAGGGCCAAACTAT 58.140 47.619 6.18 0.00 39.05 2.12
2098 2241 4.016962 AGTTAGGGAGGGCCAAACTATA 57.983 45.455 6.18 0.00 39.05 1.31
2099 2242 3.974642 AGTTAGGGAGGGCCAAACTATAG 59.025 47.826 6.18 0.00 39.05 1.31
2100 2243 1.141185 AGGGAGGGCCAAACTATAGC 58.859 55.000 6.18 0.00 35.15 2.97
2101 2244 0.843984 GGGAGGGCCAAACTATAGCA 59.156 55.000 6.18 0.00 35.15 3.49
2102 2245 1.214424 GGGAGGGCCAAACTATAGCAA 59.786 52.381 6.18 0.00 35.15 3.91
2103 2246 2.357777 GGGAGGGCCAAACTATAGCAAA 60.358 50.000 6.18 0.00 35.15 3.68
2104 2247 3.361786 GGAGGGCCAAACTATAGCAAAA 58.638 45.455 6.18 0.00 0.00 2.44
2105 2248 3.960755 GGAGGGCCAAACTATAGCAAAAT 59.039 43.478 6.18 0.00 0.00 1.82
2106 2249 5.137551 GGAGGGCCAAACTATAGCAAAATA 58.862 41.667 6.18 0.00 0.00 1.40
2107 2250 5.241728 GGAGGGCCAAACTATAGCAAAATAG 59.758 44.000 6.18 0.00 35.86 1.73
2108 2251 6.013554 AGGGCCAAACTATAGCAAAATAGA 57.986 37.500 6.18 0.00 34.22 1.98
2109 2252 6.614657 AGGGCCAAACTATAGCAAAATAGAT 58.385 36.000 6.18 0.00 34.22 1.98
2110 2253 7.069344 AGGGCCAAACTATAGCAAAATAGATT 58.931 34.615 6.18 0.78 34.22 2.40
2111 2254 7.565029 AGGGCCAAACTATAGCAAAATAGATTT 59.435 33.333 6.18 3.29 34.22 2.17
2112 2255 7.867909 GGGCCAAACTATAGCAAAATAGATTTC 59.132 37.037 4.39 0.00 34.22 2.17
2113 2256 7.867909 GGCCAAACTATAGCAAAATAGATTTCC 59.132 37.037 0.00 3.51 34.22 3.13
2114 2257 8.413229 GCCAAACTATAGCAAAATAGATTTCCA 58.587 33.333 0.00 0.00 34.22 3.53
2115 2258 9.956720 CCAAACTATAGCAAAATAGATTTCCAG 57.043 33.333 0.00 0.00 34.22 3.86
2116 2259 9.455847 CAAACTATAGCAAAATAGATTTCCAGC 57.544 33.333 0.00 0.00 34.22 4.85
2117 2260 8.752005 AACTATAGCAAAATAGATTTCCAGCA 57.248 30.769 0.00 0.00 34.22 4.41
2118 2261 8.752005 ACTATAGCAAAATAGATTTCCAGCAA 57.248 30.769 0.00 0.00 34.22 3.91
2119 2262 8.624776 ACTATAGCAAAATAGATTTCCAGCAAC 58.375 33.333 0.00 0.00 34.22 4.17
2120 2263 5.726980 AGCAAAATAGATTTCCAGCAACA 57.273 34.783 8.68 0.00 0.00 3.33
2121 2264 6.100404 AGCAAAATAGATTTCCAGCAACAA 57.900 33.333 8.68 0.00 0.00 2.83
2122 2265 6.523840 AGCAAAATAGATTTCCAGCAACAAA 58.476 32.000 8.68 0.00 0.00 2.83
2123 2266 6.991531 AGCAAAATAGATTTCCAGCAACAAAA 59.008 30.769 8.68 0.00 0.00 2.44
2124 2267 7.172019 AGCAAAATAGATTTCCAGCAACAAAAG 59.828 33.333 8.68 0.00 0.00 2.27
2125 2268 7.171337 GCAAAATAGATTTCCAGCAACAAAAGA 59.829 33.333 0.00 0.00 0.00 2.52
2126 2269 9.211485 CAAAATAGATTTCCAGCAACAAAAGAT 57.789 29.630 0.00 0.00 0.00 2.40
2127 2270 9.783081 AAAATAGATTTCCAGCAACAAAAGATT 57.217 25.926 0.00 0.00 0.00 2.40
2129 2272 9.860898 AATAGATTTCCAGCAACAAAAGATTAC 57.139 29.630 0.00 0.00 0.00 1.89
2130 2273 7.530426 AGATTTCCAGCAACAAAAGATTACT 57.470 32.000 0.00 0.00 0.00 2.24
2131 2274 8.635765 AGATTTCCAGCAACAAAAGATTACTA 57.364 30.769 0.00 0.00 0.00 1.82
2132 2275 9.077885 AGATTTCCAGCAACAAAAGATTACTAA 57.922 29.630 0.00 0.00 0.00 2.24
2133 2276 9.860898 GATTTCCAGCAACAAAAGATTACTAAT 57.139 29.630 0.00 0.00 0.00 1.73
2153 2296 8.654230 ACTAATTATGTCACTGTTCATAGCAG 57.346 34.615 0.00 0.00 39.67 4.24
2154 2297 8.478066 ACTAATTATGTCACTGTTCATAGCAGA 58.522 33.333 0.00 0.00 37.40 4.26
2155 2298 9.486497 CTAATTATGTCACTGTTCATAGCAGAT 57.514 33.333 0.00 0.00 37.40 2.90
2156 2299 8.743085 AATTATGTCACTGTTCATAGCAGATT 57.257 30.769 0.00 0.40 37.40 2.40
2157 2300 9.836864 AATTATGTCACTGTTCATAGCAGATTA 57.163 29.630 0.00 0.00 37.40 1.75
2158 2301 8.877808 TTATGTCACTGTTCATAGCAGATTAG 57.122 34.615 0.00 0.00 37.40 1.73
2159 2302 5.111989 TGTCACTGTTCATAGCAGATTAGC 58.888 41.667 0.00 0.00 37.40 3.09
2160 2303 5.111989 GTCACTGTTCATAGCAGATTAGCA 58.888 41.667 0.00 0.00 37.40 3.49
2161 2304 5.233902 GTCACTGTTCATAGCAGATTAGCAG 59.766 44.000 0.00 0.00 37.40 4.24
2162 2305 4.025061 CACTGTTCATAGCAGATTAGCAGC 60.025 45.833 0.00 0.00 37.40 5.25
2163 2306 4.124970 CTGTTCATAGCAGATTAGCAGCA 58.875 43.478 0.00 0.00 36.12 4.41
2164 2307 4.516323 TGTTCATAGCAGATTAGCAGCAA 58.484 39.130 0.00 0.00 36.85 3.91
2165 2308 4.943093 TGTTCATAGCAGATTAGCAGCAAA 59.057 37.500 0.00 0.00 36.85 3.68
2166 2309 5.415389 TGTTCATAGCAGATTAGCAGCAAAA 59.585 36.000 0.00 0.00 36.85 2.44
2167 2310 6.095860 TGTTCATAGCAGATTAGCAGCAAAAT 59.904 34.615 0.00 0.00 36.85 1.82
2168 2311 6.309712 TCATAGCAGATTAGCAGCAAAATC 57.690 37.500 10.97 10.97 36.85 2.17
2169 2312 5.240183 TCATAGCAGATTAGCAGCAAAATCC 59.760 40.000 14.01 3.86 36.85 3.01
2170 2313 3.359033 AGCAGATTAGCAGCAAAATCCA 58.641 40.909 14.01 0.00 36.85 3.41
2171 2314 3.380637 AGCAGATTAGCAGCAAAATCCAG 59.619 43.478 14.01 9.90 36.85 3.86
2172 2315 3.379372 GCAGATTAGCAGCAAAATCCAGA 59.621 43.478 14.01 0.00 33.44 3.86
2173 2316 4.037684 GCAGATTAGCAGCAAAATCCAGAT 59.962 41.667 14.01 0.00 33.44 2.90
2174 2317 5.520632 CAGATTAGCAGCAAAATCCAGATG 58.479 41.667 14.01 5.47 33.44 2.90
2175 2318 5.067413 CAGATTAGCAGCAAAATCCAGATGT 59.933 40.000 14.01 0.00 33.44 3.06
2176 2319 5.655532 AGATTAGCAGCAAAATCCAGATGTT 59.344 36.000 14.01 0.00 33.44 2.71
2177 2320 6.830324 AGATTAGCAGCAAAATCCAGATGTTA 59.170 34.615 14.01 0.00 33.44 2.41
2178 2321 4.978083 AGCAGCAAAATCCAGATGTTAG 57.022 40.909 0.00 0.00 0.00 2.34
2179 2322 3.698040 AGCAGCAAAATCCAGATGTTAGG 59.302 43.478 0.00 0.00 0.00 2.69
2180 2323 3.181483 GCAGCAAAATCCAGATGTTAGGG 60.181 47.826 0.00 0.00 0.00 3.53
2181 2324 3.382546 CAGCAAAATCCAGATGTTAGGGG 59.617 47.826 0.00 0.00 0.00 4.79
2182 2325 2.695147 GCAAAATCCAGATGTTAGGGGG 59.305 50.000 0.00 0.00 0.00 5.40
2222 2365 4.087892 CCCCTGTCTCCGCCACTG 62.088 72.222 0.00 0.00 0.00 3.66
2223 2366 4.767255 CCCTGTCTCCGCCACTGC 62.767 72.222 0.00 0.00 0.00 4.40
2224 2367 3.699894 CCTGTCTCCGCCACTGCT 61.700 66.667 0.00 0.00 34.43 4.24
2291 2443 0.242825 TCGAACGAAACGAGCAGGAT 59.757 50.000 0.00 0.00 34.85 3.24
2979 3173 3.551863 GGCTAGGATCAGATCAACTCGTG 60.552 52.174 12.66 0.00 0.00 4.35
3013 3209 0.599991 TCGTGATCCAGTGTGTGCAC 60.600 55.000 10.75 10.75 45.57 4.57
3033 3229 1.522355 CTGTGCTCGCCATGGTAGG 60.522 63.158 14.67 3.33 0.00 3.18
3040 3236 2.009774 CTCGCCATGGTAGGAAAACAG 58.990 52.381 14.67 0.00 0.00 3.16
3042 3238 1.839424 GCCATGGTAGGAAAACAGCT 58.161 50.000 14.67 0.00 0.00 4.24
3068 3264 3.666883 TTCTGTGCGTACTGTTTTGTG 57.333 42.857 4.97 0.00 0.00 3.33
3074 3270 4.023783 GTGCGTACTGTTTTGTGTTGTAC 58.976 43.478 0.00 0.00 0.00 2.90
3075 3271 3.063725 TGCGTACTGTTTTGTGTTGTACC 59.936 43.478 0.00 0.00 32.39 3.34
3076 3272 3.546616 GCGTACTGTTTTGTGTTGTACCC 60.547 47.826 0.00 0.00 32.39 3.69
3077 3273 3.872771 CGTACTGTTTTGTGTTGTACCCT 59.127 43.478 0.00 0.00 32.39 4.34
3078 3274 4.260456 CGTACTGTTTTGTGTTGTACCCTG 60.260 45.833 0.00 0.00 32.39 4.45
3079 3275 3.958018 ACTGTTTTGTGTTGTACCCTGA 58.042 40.909 0.00 0.00 0.00 3.86
3080 3276 3.692593 ACTGTTTTGTGTTGTACCCTGAC 59.307 43.478 0.00 0.00 0.00 3.51
3081 3277 3.945285 CTGTTTTGTGTTGTACCCTGACT 59.055 43.478 0.00 0.00 0.00 3.41
3132 3328 4.201940 TGTTGTGCATGCAATATGCTAGAC 60.202 41.667 24.58 6.29 45.31 2.59
3141 3337 7.437267 GCATGCAATATGCTAGACTTTCAAAAT 59.563 33.333 14.21 0.00 45.31 1.82
3196 3397 5.723672 AACTAGCTAGTGTCTTGTGCTTA 57.276 39.130 26.70 0.00 36.50 3.09
3366 3570 3.010767 CGCGCCGCTTATTTGCTA 58.989 55.556 7.78 0.00 0.00 3.49
3375 3579 1.401905 GCTTATTTGCTACGCCTGCTT 59.598 47.619 0.00 0.00 0.00 3.91
3428 3642 0.181350 CTTCACCTACCCATCCAGCC 59.819 60.000 0.00 0.00 0.00 4.85
3429 3643 0.548926 TTCACCTACCCATCCAGCCA 60.549 55.000 0.00 0.00 0.00 4.75
3430 3644 1.224592 CACCTACCCATCCAGCCAC 59.775 63.158 0.00 0.00 0.00 5.01
3431 3645 1.082954 ACCTACCCATCCAGCCACT 59.917 57.895 0.00 0.00 0.00 4.00
3432 3646 1.274703 ACCTACCCATCCAGCCACTG 61.275 60.000 0.00 0.00 0.00 3.66
3535 3761 0.394488 CCGTCTCCCTCTAGTCAGCA 60.394 60.000 0.00 0.00 0.00 4.41
3620 3846 0.179124 GCAAGGTGTTCGGCAAAACA 60.179 50.000 0.00 0.00 36.82 2.83
3621 3847 1.537990 GCAAGGTGTTCGGCAAAACAT 60.538 47.619 6.44 0.00 40.96 2.71
3838 4078 1.078988 TTCGGTTATGGGTCGGCAC 60.079 57.895 0.00 0.00 0.00 5.01
3843 4083 1.614413 GGTTATGGGTCGGCACAAAAA 59.386 47.619 0.00 0.00 0.00 1.94
3859 4099 5.833131 GCACAAAAATTGGAGGGATAGGATA 59.167 40.000 0.00 0.00 34.12 2.59
3903 4143 5.184892 AGGCACTATTTTGTGGAGAATCT 57.815 39.130 0.00 0.00 36.02 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
292 297 1.227664 CTCCTCTCCGCCTCCTACA 59.772 63.158 0.00 0.00 0.00 2.74
352 357 2.361865 GGTGTATTTGGGGCGCCA 60.362 61.111 30.85 20.22 33.35 5.69
495 504 1.792949 AGAACAGACGCGCTAAACAAG 59.207 47.619 5.73 0.00 0.00 3.16
496 505 1.525197 CAGAACAGACGCGCTAAACAA 59.475 47.619 5.73 0.00 0.00 2.83
497 506 1.136690 CAGAACAGACGCGCTAAACA 58.863 50.000 5.73 0.00 0.00 2.83
498 507 1.137513 ACAGAACAGACGCGCTAAAC 58.862 50.000 5.73 0.00 0.00 2.01
499 508 1.525197 CAACAGAACAGACGCGCTAAA 59.475 47.619 5.73 0.00 0.00 1.85
500 509 1.136690 CAACAGAACAGACGCGCTAA 58.863 50.000 5.73 0.00 0.00 3.09
501 510 0.666274 CCAACAGAACAGACGCGCTA 60.666 55.000 5.73 0.00 0.00 4.26
502 511 1.956170 CCAACAGAACAGACGCGCT 60.956 57.895 5.73 0.50 0.00 5.92
503 512 1.891060 CTCCAACAGAACAGACGCGC 61.891 60.000 5.73 0.00 0.00 6.86
504 513 0.318699 TCTCCAACAGAACAGACGCG 60.319 55.000 3.53 3.53 0.00 6.01
505 514 1.728971 CATCTCCAACAGAACAGACGC 59.271 52.381 0.00 0.00 33.62 5.19
506 515 1.728971 GCATCTCCAACAGAACAGACG 59.271 52.381 0.00 0.00 33.62 4.18
507 516 2.999355 GAGCATCTCCAACAGAACAGAC 59.001 50.000 0.00 0.00 33.62 3.51
508 517 3.325293 GAGCATCTCCAACAGAACAGA 57.675 47.619 0.00 0.00 33.62 3.41
521 530 4.695396 CATAGCTGAAAGTGAGAGCATCT 58.305 43.478 0.00 0.00 44.03 2.90
522 531 3.248125 GCATAGCTGAAAGTGAGAGCATC 59.752 47.826 0.00 0.00 35.03 3.91
523 532 3.204526 GCATAGCTGAAAGTGAGAGCAT 58.795 45.455 0.00 0.00 35.03 3.79
524 533 2.027837 TGCATAGCTGAAAGTGAGAGCA 60.028 45.455 0.00 0.00 35.03 4.26
525 534 2.625737 TGCATAGCTGAAAGTGAGAGC 58.374 47.619 0.00 0.00 35.30 4.09
526 535 4.439968 TGATGCATAGCTGAAAGTGAGAG 58.560 43.478 0.00 0.00 35.30 3.20
527 536 4.439968 CTGATGCATAGCTGAAAGTGAGA 58.560 43.478 0.00 0.00 35.30 3.27
530 539 3.064958 CACCTGATGCATAGCTGAAAGTG 59.935 47.826 0.00 0.00 35.30 3.16
540 549 1.486310 GACCAGACCACCTGATGCATA 59.514 52.381 0.00 0.00 45.78 3.14
543 552 1.078143 GGACCAGACCACCTGATGC 60.078 63.158 0.00 0.00 45.78 3.91
555 564 2.379972 AGGAATGTCTAGACGGACCAG 58.620 52.381 23.86 0.00 35.54 4.00
656 693 7.148171 CCCTTTCAGGTGAGTTTCTCATTATTC 60.148 40.741 2.80 0.00 42.73 1.75
662 699 2.487265 GCCCTTTCAGGTGAGTTTCTCA 60.487 50.000 0.00 0.00 33.34 3.27
665 702 2.278332 AGCCCTTTCAGGTGAGTTTC 57.722 50.000 0.00 0.00 31.93 2.78
680 717 6.475596 TCCTACAAAACTATACTGTAGCCC 57.524 41.667 3.46 0.00 40.71 5.19
681 718 8.959705 ATTTCCTACAAAACTATACTGTAGCC 57.040 34.615 3.46 0.00 40.71 3.93
750 788 1.092921 TACGAAATGATGTGGCCCGC 61.093 55.000 0.00 0.00 0.00 6.13
751 789 0.937304 CTACGAAATGATGTGGCCCG 59.063 55.000 0.00 0.00 0.00 6.13
752 790 1.134220 TCCTACGAAATGATGTGGCCC 60.134 52.381 0.00 0.00 0.00 5.80
754 792 2.609459 CTGTCCTACGAAATGATGTGGC 59.391 50.000 0.00 0.00 0.00 5.01
755 793 3.618594 CACTGTCCTACGAAATGATGTGG 59.381 47.826 0.00 0.00 0.00 4.17
756 794 4.494484 TCACTGTCCTACGAAATGATGTG 58.506 43.478 0.00 0.00 0.00 3.21
757 795 4.801330 TCACTGTCCTACGAAATGATGT 57.199 40.909 0.00 0.00 0.00 3.06
758 796 5.639506 ACTTTCACTGTCCTACGAAATGATG 59.360 40.000 0.00 0.00 0.00 3.07
759 797 5.639506 CACTTTCACTGTCCTACGAAATGAT 59.360 40.000 0.00 0.00 0.00 2.45
801 839 3.567164 AGCAGTTTCCATTGTCTCACTTG 59.433 43.478 0.00 0.00 0.00 3.16
838 889 1.630369 AGCCATGCTGGTCTCACTTTA 59.370 47.619 4.45 0.00 40.46 1.85
914 976 3.959975 CAAACCCACACCACGCGG 61.960 66.667 12.47 0.00 38.77 6.46
982 1045 1.597742 CTGCCAAATGTAGCGGCTAT 58.402 50.000 13.60 0.00 46.39 2.97
986 1049 1.097547 CCTCCTGCCAAATGTAGCGG 61.098 60.000 0.00 0.00 35.04 5.52
1044 1107 0.703488 TGAATCCATGGCACCCAGAA 59.297 50.000 6.96 0.00 36.75 3.02
1045 1108 0.256752 CTGAATCCATGGCACCCAGA 59.743 55.000 6.96 0.00 36.75 3.86
1046 1109 0.033796 ACTGAATCCATGGCACCCAG 60.034 55.000 6.96 13.32 36.75 4.45
1060 1127 2.583441 CGCTCCCACTCCCACTGAA 61.583 63.158 0.00 0.00 0.00 3.02
1129 1202 3.827898 GTGCCGACGAGGAGGAGG 61.828 72.222 0.00 0.00 45.00 4.30
1165 1238 4.743018 CCGTTCTTGGCATTCCCT 57.257 55.556 0.00 0.00 0.00 4.20
2008 2151 1.162698 CTGTGCACAAGGAGGACATG 58.837 55.000 21.98 0.63 36.72 3.21
2011 2154 0.886490 CCACTGTGCACAAGGAGGAC 60.886 60.000 26.13 0.00 0.00 3.85
2013 2156 2.263741 GCCACTGTGCACAAGGAGG 61.264 63.158 31.54 23.78 0.00 4.30
2030 2173 2.543777 TACATATTTCCTGGCTCCGC 57.456 50.000 0.00 0.00 0.00 5.54
2031 2174 5.178797 CCTAATACATATTTCCTGGCTCCG 58.821 45.833 0.00 0.00 0.00 4.63
2032 2175 5.501156 CCCTAATACATATTTCCTGGCTCC 58.499 45.833 0.00 0.00 0.00 4.70
2033 2176 5.501156 CCCCTAATACATATTTCCTGGCTC 58.499 45.833 0.00 0.00 0.00 4.70
2034 2177 4.292306 CCCCCTAATACATATTTCCTGGCT 59.708 45.833 0.00 0.00 0.00 4.75
2035 2178 4.600062 CCCCCTAATACATATTTCCTGGC 58.400 47.826 0.00 0.00 0.00 4.85
2054 2197 0.830023 TTTAACAGCACTTGGCCCCC 60.830 55.000 0.00 0.00 46.50 5.40
2055 2198 1.044611 TTTTAACAGCACTTGGCCCC 58.955 50.000 0.00 0.00 46.50 5.80
2056 2199 1.410882 TGTTTTAACAGCACTTGGCCC 59.589 47.619 0.00 0.00 46.50 5.80
2057 2200 2.880963 TGTTTTAACAGCACTTGGCC 57.119 45.000 0.00 0.00 46.50 5.36
2058 2201 3.780902 ACTTGTTTTAACAGCACTTGGC 58.219 40.909 0.00 0.00 40.50 4.52
2059 2202 5.977129 CCTAACTTGTTTTAACAGCACTTGG 59.023 40.000 0.00 0.00 40.50 3.61
2060 2203 5.977129 CCCTAACTTGTTTTAACAGCACTTG 59.023 40.000 0.00 0.00 40.50 3.16
2061 2204 5.889289 TCCCTAACTTGTTTTAACAGCACTT 59.111 36.000 0.00 0.00 40.50 3.16
2062 2205 5.442391 TCCCTAACTTGTTTTAACAGCACT 58.558 37.500 0.00 0.00 40.50 4.40
2063 2206 5.278315 CCTCCCTAACTTGTTTTAACAGCAC 60.278 44.000 0.00 0.00 40.50 4.40
2064 2207 4.825085 CCTCCCTAACTTGTTTTAACAGCA 59.175 41.667 0.00 0.00 40.50 4.41
2065 2208 4.217767 CCCTCCCTAACTTGTTTTAACAGC 59.782 45.833 0.00 0.00 40.50 4.40
2066 2209 4.217767 GCCCTCCCTAACTTGTTTTAACAG 59.782 45.833 0.00 0.00 40.50 3.16
2067 2210 4.146564 GCCCTCCCTAACTTGTTTTAACA 58.853 43.478 0.00 0.00 37.08 2.41
2068 2211 3.508793 GGCCCTCCCTAACTTGTTTTAAC 59.491 47.826 0.00 0.00 0.00 2.01
2069 2212 3.140519 TGGCCCTCCCTAACTTGTTTTAA 59.859 43.478 0.00 0.00 0.00 1.52
2070 2213 2.717515 TGGCCCTCCCTAACTTGTTTTA 59.282 45.455 0.00 0.00 0.00 1.52
2071 2214 1.501604 TGGCCCTCCCTAACTTGTTTT 59.498 47.619 0.00 0.00 0.00 2.43
2072 2215 1.154430 TGGCCCTCCCTAACTTGTTT 58.846 50.000 0.00 0.00 0.00 2.83
2073 2216 1.154430 TTGGCCCTCCCTAACTTGTT 58.846 50.000 0.00 0.00 0.00 2.83
2074 2217 1.154430 TTTGGCCCTCCCTAACTTGT 58.846 50.000 0.00 0.00 0.00 3.16
2075 2218 1.545841 GTTTGGCCCTCCCTAACTTG 58.454 55.000 0.00 0.00 43.33 3.16
2078 2221 3.496337 GCTATAGTTTGGCCCTCCCTAAC 60.496 52.174 0.00 0.00 45.88 2.34
2079 2222 2.709397 GCTATAGTTTGGCCCTCCCTAA 59.291 50.000 0.00 0.00 0.00 2.69
2080 2223 2.335933 GCTATAGTTTGGCCCTCCCTA 58.664 52.381 0.00 0.00 0.00 3.53
2081 2224 1.141185 GCTATAGTTTGGCCCTCCCT 58.859 55.000 0.00 0.00 0.00 4.20
2082 2225 0.843984 TGCTATAGTTTGGCCCTCCC 59.156 55.000 0.00 0.00 0.00 4.30
2083 2226 2.729028 TTGCTATAGTTTGGCCCTCC 57.271 50.000 0.00 0.00 0.00 4.30
2084 2227 6.062095 TCTATTTTGCTATAGTTTGGCCCTC 58.938 40.000 0.00 0.00 31.44 4.30
2085 2228 6.013554 TCTATTTTGCTATAGTTTGGCCCT 57.986 37.500 0.00 0.00 31.44 5.19
2086 2229 6.901081 ATCTATTTTGCTATAGTTTGGCCC 57.099 37.500 0.00 0.00 31.44 5.80
2087 2230 7.867909 GGAAATCTATTTTGCTATAGTTTGGCC 59.132 37.037 0.00 0.00 33.23 5.36
2088 2231 8.413229 TGGAAATCTATTTTGCTATAGTTTGGC 58.587 33.333 0.84 0.00 36.66 4.52
2089 2232 9.956720 CTGGAAATCTATTTTGCTATAGTTTGG 57.043 33.333 0.84 0.00 36.66 3.28
2090 2233 9.455847 GCTGGAAATCTATTTTGCTATAGTTTG 57.544 33.333 0.84 0.00 36.66 2.93
2091 2234 9.189156 TGCTGGAAATCTATTTTGCTATAGTTT 57.811 29.630 0.84 0.00 36.66 2.66
2092 2235 8.752005 TGCTGGAAATCTATTTTGCTATAGTT 57.248 30.769 0.84 0.00 36.66 2.24
2093 2236 8.624776 GTTGCTGGAAATCTATTTTGCTATAGT 58.375 33.333 0.84 0.00 36.66 2.12
2094 2237 8.623903 TGTTGCTGGAAATCTATTTTGCTATAG 58.376 33.333 0.00 0.00 36.66 1.31
2095 2238 8.518430 TGTTGCTGGAAATCTATTTTGCTATA 57.482 30.769 0.00 0.00 36.66 1.31
2096 2239 7.408756 TGTTGCTGGAAATCTATTTTGCTAT 57.591 32.000 0.00 0.00 36.66 2.97
2097 2240 6.832520 TGTTGCTGGAAATCTATTTTGCTA 57.167 33.333 0.00 0.00 36.66 3.49
2098 2241 5.726980 TGTTGCTGGAAATCTATTTTGCT 57.273 34.783 0.00 0.00 36.66 3.91
2099 2242 6.783892 TTTGTTGCTGGAAATCTATTTTGC 57.216 33.333 0.00 0.00 36.29 3.68
2100 2243 8.592105 TCTTTTGTTGCTGGAAATCTATTTTG 57.408 30.769 0.00 0.00 0.00 2.44
2101 2244 9.783081 AATCTTTTGTTGCTGGAAATCTATTTT 57.217 25.926 0.00 0.00 0.00 1.82
2103 2246 9.860898 GTAATCTTTTGTTGCTGGAAATCTATT 57.139 29.630 0.00 0.00 0.00 1.73
2104 2247 9.247861 AGTAATCTTTTGTTGCTGGAAATCTAT 57.752 29.630 0.00 0.00 0.00 1.98
2105 2248 8.635765 AGTAATCTTTTGTTGCTGGAAATCTA 57.364 30.769 0.00 0.00 0.00 1.98
2106 2249 7.530426 AGTAATCTTTTGTTGCTGGAAATCT 57.470 32.000 0.00 0.00 0.00 2.40
2107 2250 9.860898 ATTAGTAATCTTTTGTTGCTGGAAATC 57.139 29.630 0.00 0.00 0.00 2.17
2127 2270 9.750125 CTGCTATGAACAGTGACATAATTAGTA 57.250 33.333 0.00 0.00 0.00 1.82
2128 2271 8.478066 TCTGCTATGAACAGTGACATAATTAGT 58.522 33.333 0.00 0.00 36.50 2.24
2129 2272 8.877808 TCTGCTATGAACAGTGACATAATTAG 57.122 34.615 0.00 5.66 36.50 1.73
2130 2273 9.836864 AATCTGCTATGAACAGTGACATAATTA 57.163 29.630 0.00 0.00 36.50 1.40
2131 2274 8.743085 AATCTGCTATGAACAGTGACATAATT 57.257 30.769 0.00 1.60 36.50 1.40
2132 2275 9.486497 CTAATCTGCTATGAACAGTGACATAAT 57.514 33.333 0.00 0.00 36.50 1.28
2133 2276 7.439356 GCTAATCTGCTATGAACAGTGACATAA 59.561 37.037 0.00 0.00 36.50 1.90
2134 2277 6.925718 GCTAATCTGCTATGAACAGTGACATA 59.074 38.462 0.00 5.94 36.50 2.29
2135 2278 5.757320 GCTAATCTGCTATGAACAGTGACAT 59.243 40.000 0.00 5.02 36.50 3.06
2136 2279 5.111989 GCTAATCTGCTATGAACAGTGACA 58.888 41.667 0.00 0.00 36.50 3.58
2137 2280 5.111989 TGCTAATCTGCTATGAACAGTGAC 58.888 41.667 0.00 0.00 36.50 3.67
2138 2281 5.343307 TGCTAATCTGCTATGAACAGTGA 57.657 39.130 0.00 0.00 36.50 3.41
2139 2282 4.025061 GCTGCTAATCTGCTATGAACAGTG 60.025 45.833 0.00 0.00 36.50 3.66
2140 2283 4.125703 GCTGCTAATCTGCTATGAACAGT 58.874 43.478 0.00 0.00 36.50 3.55
2141 2284 4.124970 TGCTGCTAATCTGCTATGAACAG 58.875 43.478 0.00 0.00 39.95 3.16
2142 2285 4.141233 TGCTGCTAATCTGCTATGAACA 57.859 40.909 0.00 0.00 39.95 3.18
2143 2286 5.490139 TTTGCTGCTAATCTGCTATGAAC 57.510 39.130 0.00 0.00 39.95 3.18
2144 2287 6.238842 GGATTTTGCTGCTAATCTGCTATGAA 60.239 38.462 19.73 0.00 39.95 2.57
2145 2288 5.240183 GGATTTTGCTGCTAATCTGCTATGA 59.760 40.000 19.73 0.00 39.95 2.15
2146 2289 5.009310 TGGATTTTGCTGCTAATCTGCTATG 59.991 40.000 19.73 0.00 39.95 2.23
2147 2290 5.135383 TGGATTTTGCTGCTAATCTGCTAT 58.865 37.500 19.73 3.15 39.95 2.97
2148 2291 4.525996 TGGATTTTGCTGCTAATCTGCTA 58.474 39.130 19.73 8.26 39.95 3.49
2149 2292 3.359033 TGGATTTTGCTGCTAATCTGCT 58.641 40.909 19.73 0.00 39.95 4.24
2150 2293 3.379372 TCTGGATTTTGCTGCTAATCTGC 59.621 43.478 19.73 8.74 39.73 4.26
2151 2294 5.067413 ACATCTGGATTTTGCTGCTAATCTG 59.933 40.000 19.73 14.88 32.60 2.90
2152 2295 5.198965 ACATCTGGATTTTGCTGCTAATCT 58.801 37.500 19.73 4.33 32.60 2.40
2153 2296 5.511234 ACATCTGGATTTTGCTGCTAATC 57.489 39.130 15.19 15.19 0.00 1.75
2154 2297 5.927281 AACATCTGGATTTTGCTGCTAAT 57.073 34.783 0.00 0.57 0.00 1.73
2155 2298 5.357878 CCTAACATCTGGATTTTGCTGCTAA 59.642 40.000 0.00 0.00 0.00 3.09
2156 2299 4.883585 CCTAACATCTGGATTTTGCTGCTA 59.116 41.667 0.00 0.00 0.00 3.49
2157 2300 3.698040 CCTAACATCTGGATTTTGCTGCT 59.302 43.478 0.00 0.00 0.00 4.24
2158 2301 3.181483 CCCTAACATCTGGATTTTGCTGC 60.181 47.826 0.00 0.00 0.00 5.25
2159 2302 3.382546 CCCCTAACATCTGGATTTTGCTG 59.617 47.826 0.00 0.00 0.00 4.41
2160 2303 3.628257 CCCCCTAACATCTGGATTTTGCT 60.628 47.826 0.00 0.00 0.00 3.91
2161 2304 2.695147 CCCCCTAACATCTGGATTTTGC 59.305 50.000 0.00 0.00 0.00 3.68
2219 2362 4.348318 TCGATCTCGATGCACAAGCAGT 62.348 50.000 0.00 0.00 46.18 4.40
2220 2363 1.800286 TCGATCTCGATGCACAAGCAG 60.800 52.381 0.00 0.00 46.18 4.24
2221 2364 0.173255 TCGATCTCGATGCACAAGCA 59.827 50.000 0.00 0.00 46.02 3.91
2222 2365 2.963499 TCGATCTCGATGCACAAGC 58.037 52.632 0.00 0.00 44.22 4.01
2233 2376 1.535860 GGCTCAGCTCACTTCGATCTC 60.536 57.143 0.00 0.00 0.00 2.75
2291 2443 2.777972 CGACCCGGCCGTGAAGATA 61.778 63.158 26.12 0.00 0.00 1.98
2326 2478 2.821366 CCAGCATCCACTCCACGC 60.821 66.667 0.00 0.00 0.00 5.34
3040 3236 2.096713 CAGTACGCACAGAAAACTCAGC 60.097 50.000 0.00 0.00 0.00 4.26
3042 3238 3.173668 ACAGTACGCACAGAAAACTCA 57.826 42.857 0.00 0.00 0.00 3.41
3068 3264 1.550976 CTCAGGGAGTCAGGGTACAAC 59.449 57.143 0.00 0.00 0.00 3.32
3074 3270 2.169352 CACATAACTCAGGGAGTCAGGG 59.831 54.545 0.00 0.00 42.59 4.45
3075 3271 2.834549 ACACATAACTCAGGGAGTCAGG 59.165 50.000 0.00 0.00 42.59 3.86
3076 3272 4.221703 AGAACACATAACTCAGGGAGTCAG 59.778 45.833 0.00 0.00 42.59 3.51
3077 3273 4.160329 AGAACACATAACTCAGGGAGTCA 58.840 43.478 0.00 0.00 42.59 3.41
3078 3274 4.810191 AGAACACATAACTCAGGGAGTC 57.190 45.455 0.00 0.00 42.59 3.36
3079 3275 5.334421 AGTAGAACACATAACTCAGGGAGT 58.666 41.667 0.00 0.00 45.64 3.85
3080 3276 5.923733 AGTAGAACACATAACTCAGGGAG 57.076 43.478 0.00 0.00 35.52 4.30
3081 3277 5.542635 ACAAGTAGAACACATAACTCAGGGA 59.457 40.000 0.00 0.00 0.00 4.20
3132 3328 9.360514 CAACGTGATGATTGAAAATTTTGAAAG 57.639 29.630 8.47 0.00 0.00 2.62
3141 3337 4.676546 TGTTGCAACGTGATGATTGAAAA 58.323 34.783 23.79 0.00 0.00 2.29
3192 3393 5.586243 TGTTGGAGATGCTCTTATGTTAAGC 59.414 40.000 0.00 0.00 36.56 3.09
3196 3397 3.944015 GCTGTTGGAGATGCTCTTATGTT 59.056 43.478 0.00 0.00 0.00 2.71
3286 3489 4.302172 CGGTTTTTGCGCGTCCGT 62.302 61.111 8.43 0.00 36.99 4.69
3308 3512 0.740868 GCTGAACTAGATGTGCCGCA 60.741 55.000 0.00 0.00 0.00 5.69
3315 3519 2.580470 CCGCGCGCTGAACTAGATG 61.580 63.158 30.48 9.02 0.00 2.90
3479 3705 1.609794 GGGGAGAGACCGGTGAAGT 60.610 63.158 14.63 0.00 40.11 3.01
3613 3839 0.390209 ATGCCTTGCGGATGTTTTGC 60.390 50.000 0.00 0.00 0.00 3.68
3630 3856 7.424227 AAAAATGTGTTGGAAGCAATACATG 57.576 32.000 0.55 0.00 43.03 3.21
3697 3933 8.560576 ACGAACTCATTTACAATGTTCAAAAG 57.439 30.769 0.00 0.00 37.46 2.27
3712 3952 6.422100 CGGAAGAATCATATGACGAACTCATT 59.578 38.462 7.78 0.00 40.38 2.57
3753 3993 1.686052 CAAGATCCTCCTCCTCTTCCG 59.314 57.143 0.00 0.00 0.00 4.30
3815 4055 1.407712 CCGACCCATAACCGAACCATT 60.408 52.381 0.00 0.00 0.00 3.16
3838 4078 7.094032 GCATCTATCCTATCCCTCCAATTTTTG 60.094 40.741 0.00 0.00 0.00 2.44
3843 4083 4.043596 GGCATCTATCCTATCCCTCCAAT 58.956 47.826 0.00 0.00 0.00 3.16
3859 4099 1.059098 TCAGTCTGTTGTGGGCATCT 58.941 50.000 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.