Multiple sequence alignment - TraesCS1B01G015200

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 TraesCS1B01G015200 chr1B 100.000 2817 0 0 1 2817 7321294 7318478 0.000000e+00 5203
1 TraesCS1B01G015200 chr4B 96.354 2578 56 18 1 2574 411180398 411177855 0.000000e+00 4205
2 TraesCS1B01G015200 chr4B 93.875 702 42 1 2 703 38607826 38608526 0.000000e+00 1057
3 TraesCS1B01G015200 chr4B 90.948 232 18 3 2340 2568 534718837 534719068 2.730000e-80 309
4 TraesCS1B01G015200 chr4B 92.500 200 11 3 2618 2817 454868426 454868231 1.650000e-72 283
5 TraesCS1B01G015200 chr2B 96.505 2575 35 3 1 2575 600080212 600082731 0.000000e+00 4205
6 TraesCS1B01G015200 chr2B 87.814 837 68 20 1248 2066 171100955 171101775 0.000000e+00 950
7 TraesCS1B01G015200 chr2D 96.118 2164 65 16 1 2155 621361718 621363871 0.000000e+00 3513
8 TraesCS1B01G015200 chr2D 91.634 514 29 10 2067 2572 621363679 621364186 0.000000e+00 699
9 TraesCS1B01G015200 chr5B 85.862 2617 271 78 1 2576 567869106 567866548 0.000000e+00 2691
10 TraesCS1B01G015200 chr5B 93.416 243 12 3 2575 2817 642062958 642062720 9.600000e-95 357
11 TraesCS1B01G015200 chr6B 98.441 1475 22 1 1098 2572 127848619 127847146 0.000000e+00 2595
12 TraesCS1B01G015200 chr6B 96.748 246 8 0 2572 2817 675188291 675188046 7.260000e-111 411
13 TraesCS1B01G015200 chr7A 90.509 1907 165 14 1 1900 683625670 683627567 0.000000e+00 2505
14 TraesCS1B01G015200 chr7A 90.289 1905 168 14 1 1900 683510164 683508272 0.000000e+00 2477
15 TraesCS1B01G015200 chr6D 90.466 1888 152 16 1 1882 61814017 61812152 0.000000e+00 2464
16 TraesCS1B01G015200 chr3D 90.451 1885 159 14 1 1879 535143557 535145426 0.000000e+00 2464
17 TraesCS1B01G015200 chr3D 95.122 246 12 0 2327 2572 49967053 49967298 3.400000e-104 388
18 TraesCS1B01G015200 chr3D 83.268 257 17 13 2072 2320 49964637 49964875 2.200000e-51 213
19 TraesCS1B01G015200 chr2A 93.276 580 37 2 1 580 480692572 480691995 0.000000e+00 854
20 TraesCS1B01G015200 chr2A 90.517 232 19 3 2340 2568 719359120 719359351 1.270000e-78 303
21 TraesCS1B01G015200 chr4A 90.769 585 53 1 1 585 645736784 645736201 0.000000e+00 780
22 TraesCS1B01G015200 chr4A 90.598 585 54 1 1 585 645769325 645768742 0.000000e+00 774
23 TraesCS1B01G015200 chr3B 93.034 445 19 6 2130 2572 652789312 652788878 8.510000e-180 640
24 TraesCS1B01G015200 chr3A 89.787 235 21 3 2340 2571 671024135 671023901 5.900000e-77 298


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 TraesCS1B01G015200 chr1B 7318478 7321294 2816 True 5203.0 5203 100.000 1 2817 1 chr1B.!!$R1 2816
1 TraesCS1B01G015200 chr4B 411177855 411180398 2543 True 4205.0 4205 96.354 1 2574 1 chr4B.!!$R1 2573
2 TraesCS1B01G015200 chr4B 38607826 38608526 700 False 1057.0 1057 93.875 2 703 1 chr4B.!!$F1 701
3 TraesCS1B01G015200 chr2B 600080212 600082731 2519 False 4205.0 4205 96.505 1 2575 1 chr2B.!!$F2 2574
4 TraesCS1B01G015200 chr2B 171100955 171101775 820 False 950.0 950 87.814 1248 2066 1 chr2B.!!$F1 818
5 TraesCS1B01G015200 chr2D 621361718 621364186 2468 False 2106.0 3513 93.876 1 2572 2 chr2D.!!$F1 2571
6 TraesCS1B01G015200 chr5B 567866548 567869106 2558 True 2691.0 2691 85.862 1 2576 1 chr5B.!!$R1 2575
7 TraesCS1B01G015200 chr6B 127847146 127848619 1473 True 2595.0 2595 98.441 1098 2572 1 chr6B.!!$R1 1474
8 TraesCS1B01G015200 chr7A 683625670 683627567 1897 False 2505.0 2505 90.509 1 1900 1 chr7A.!!$F1 1899
9 TraesCS1B01G015200 chr7A 683508272 683510164 1892 True 2477.0 2477 90.289 1 1900 1 chr7A.!!$R1 1899
10 TraesCS1B01G015200 chr6D 61812152 61814017 1865 True 2464.0 2464 90.466 1 1882 1 chr6D.!!$R1 1881
11 TraesCS1B01G015200 chr3D 535143557 535145426 1869 False 2464.0 2464 90.451 1 1879 1 chr3D.!!$F1 1878
12 TraesCS1B01G015200 chr3D 49964637 49967298 2661 False 300.5 388 89.195 2072 2572 2 chr3D.!!$F2 500
13 TraesCS1B01G015200 chr2A 480691995 480692572 577 True 854.0 854 93.276 1 580 1 chr2A.!!$R1 579
14 TraesCS1B01G015200 chr4A 645736201 645736784 583 True 780.0 780 90.769 1 585 1 chr4A.!!$R1 584
15 TraesCS1B01G015200 chr4A 645768742 645769325 583 True 774.0 774 90.598 1 585 1 chr4A.!!$R2 584

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
295 297 2.573341 CTTGCGCCATTCTCGTGCTG 62.573 60.000 4.18 0.0 37.62 4.41 F
1362 1375 2.935849 TGTATGTTGTGCAGGCTAATCG 59.064 45.455 0.00 0.0 0.00 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1678 1694 0.033504 TGTCAGAACGAGCCAACTCC 59.966 55.0 0.0 0.0 40.03 3.85 R
2659 5035 0.625849 ACTCATCCCCAAATCGGCTT 59.374 50.0 0.0 0.0 0.00 4.35 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
243 245 3.245016 TGAAAGAGTGGGCATCAAGTCAT 60.245 43.478 0.00 0.00 0.00 3.06
295 297 2.573341 CTTGCGCCATTCTCGTGCTG 62.573 60.000 4.18 0.00 37.62 4.41
1362 1375 2.935849 TGTATGTTGTGCAGGCTAATCG 59.064 45.455 0.00 0.00 0.00 3.34
1747 1763 5.122396 CCTTAGTGAACGCTTATTTCAAGCT 59.878 40.000 7.34 0.00 40.94 3.74
1997 2074 2.291465 CTGCTGTTGCTGTATGTGTTGT 59.709 45.455 0.00 0.00 40.48 3.32
1998 2075 2.687425 TGCTGTTGCTGTATGTGTTGTT 59.313 40.909 0.00 0.00 40.48 2.83
1999 2076 3.044986 GCTGTTGCTGTATGTGTTGTTG 58.955 45.455 0.00 0.00 36.03 3.33
2000 2077 3.489059 GCTGTTGCTGTATGTGTTGTTGT 60.489 43.478 0.00 0.00 36.03 3.32
2001 2078 4.671377 CTGTTGCTGTATGTGTTGTTGTT 58.329 39.130 0.00 0.00 0.00 2.83
2002 2079 5.731967 GCTGTTGCTGTATGTGTTGTTGTTA 60.732 40.000 0.00 0.00 36.03 2.41
2003 2080 5.574082 TGTTGCTGTATGTGTTGTTGTTAC 58.426 37.500 0.00 0.00 0.00 2.50
2004 2081 5.355630 TGTTGCTGTATGTGTTGTTGTTACT 59.644 36.000 0.00 0.00 0.00 2.24
2005 2082 6.539103 TGTTGCTGTATGTGTTGTTGTTACTA 59.461 34.615 0.00 0.00 0.00 1.82
2006 2083 7.227711 TGTTGCTGTATGTGTTGTTGTTACTAT 59.772 33.333 0.00 0.00 0.00 2.12
2007 2084 8.714179 GTTGCTGTATGTGTTGTTGTTACTATA 58.286 33.333 0.00 0.00 0.00 1.31
2008 2085 9.443323 TTGCTGTATGTGTTGTTGTTACTATAT 57.557 29.630 0.00 0.00 0.00 0.86
2015 2092 9.613428 ATGTGTTGTTGTTACTATATATGCTGT 57.387 29.630 0.00 0.00 0.00 4.40
2016 2093 9.443323 TGTGTTGTTGTTACTATATATGCTGTT 57.557 29.630 0.00 0.00 0.00 3.16
2017 2094 9.702726 GTGTTGTTGTTACTATATATGCTGTTG 57.297 33.333 0.00 0.00 0.00 3.33
2018 2095 8.394877 TGTTGTTGTTACTATATATGCTGTTGC 58.605 33.333 0.00 0.00 40.20 4.17
2120 2235 3.201290 GCTGCTTCTGTATATGTGCTGT 58.799 45.455 0.00 0.00 0.00 4.40
2156 2346 1.945394 GCTGTATATGTGCTGCTGCTT 59.055 47.619 17.00 4.53 40.48 3.91
2539 4915 9.985730 GATTTGATATTGAGGCCAATTCAATTA 57.014 29.630 20.25 9.66 41.25 1.40
2576 4952 9.590451 AATATCAACATCCAAACAAAGCATTAG 57.410 29.630 0.00 0.00 0.00 1.73
2577 4953 5.229423 TCAACATCCAAACAAAGCATTAGC 58.771 37.500 0.00 0.00 42.56 3.09
2578 4954 4.870123 ACATCCAAACAAAGCATTAGCA 57.130 36.364 0.00 0.00 45.49 3.49
2579 4955 5.410355 ACATCCAAACAAAGCATTAGCAT 57.590 34.783 0.00 0.00 45.49 3.79
2580 4956 5.797051 ACATCCAAACAAAGCATTAGCATT 58.203 33.333 0.00 0.00 45.49 3.56
2581 4957 6.232692 ACATCCAAACAAAGCATTAGCATTT 58.767 32.000 0.00 0.00 45.49 2.32
2582 4958 6.711645 ACATCCAAACAAAGCATTAGCATTTT 59.288 30.769 0.00 0.00 45.49 1.82
2583 4959 7.877097 ACATCCAAACAAAGCATTAGCATTTTA 59.123 29.630 0.00 0.00 45.49 1.52
2584 4960 8.885722 CATCCAAACAAAGCATTAGCATTTTAT 58.114 29.630 0.00 0.00 45.49 1.40
2585 4961 8.845413 TCCAAACAAAGCATTAGCATTTTATT 57.155 26.923 0.00 0.00 45.49 1.40
2586 4962 8.934825 TCCAAACAAAGCATTAGCATTTTATTC 58.065 29.630 0.00 0.00 45.49 1.75
2587 4963 8.719648 CCAAACAAAGCATTAGCATTTTATTCA 58.280 29.630 0.00 0.00 45.49 2.57
2590 4966 8.428186 ACAAAGCATTAGCATTTTATTCATGG 57.572 30.769 0.00 0.00 45.49 3.66
2591 4967 7.011669 ACAAAGCATTAGCATTTTATTCATGGC 59.988 33.333 0.00 0.00 45.49 4.40
2592 4968 5.544650 AGCATTAGCATTTTATTCATGGCC 58.455 37.500 0.00 0.00 45.49 5.36
2593 4969 5.306160 AGCATTAGCATTTTATTCATGGCCT 59.694 36.000 3.32 0.00 45.49 5.19
2594 4970 5.636543 GCATTAGCATTTTATTCATGGCCTC 59.363 40.000 3.32 0.00 41.58 4.70
2595 4971 5.789643 TTAGCATTTTATTCATGGCCTCC 57.210 39.130 3.32 0.00 0.00 4.30
2596 4972 3.645434 AGCATTTTATTCATGGCCTCCA 58.355 40.909 3.32 0.00 38.19 3.86
2597 4973 3.385755 AGCATTTTATTCATGGCCTCCAC 59.614 43.478 3.32 0.00 35.80 4.02
2598 4974 3.132646 GCATTTTATTCATGGCCTCCACA 59.867 43.478 3.32 0.00 35.80 4.17
2599 4975 4.202284 GCATTTTATTCATGGCCTCCACAT 60.202 41.667 3.32 0.00 35.80 3.21
2600 4976 5.685599 GCATTTTATTCATGGCCTCCACATT 60.686 40.000 3.32 0.00 35.80 2.71
2601 4977 6.462768 GCATTTTATTCATGGCCTCCACATTA 60.463 38.462 3.32 0.00 35.80 1.90
2602 4978 6.463995 TTTTATTCATGGCCTCCACATTAC 57.536 37.500 3.32 0.00 35.80 1.89
2603 4979 3.668141 ATTCATGGCCTCCACATTACA 57.332 42.857 3.32 0.00 35.80 2.41
2604 4980 3.668141 TTCATGGCCTCCACATTACAT 57.332 42.857 3.32 0.00 35.80 2.29
2605 4981 3.668141 TCATGGCCTCCACATTACATT 57.332 42.857 3.32 0.00 35.80 2.71
2606 4982 3.289836 TCATGGCCTCCACATTACATTG 58.710 45.455 3.32 0.00 35.80 2.82
2607 4983 2.142356 TGGCCTCCACATTACATTGG 57.858 50.000 3.32 0.00 0.00 3.16
2608 4984 1.638070 TGGCCTCCACATTACATTGGA 59.362 47.619 3.32 0.00 39.72 3.53
2609 4985 2.042297 TGGCCTCCACATTACATTGGAA 59.958 45.455 3.32 0.00 41.49 3.53
2610 4986 3.299503 GGCCTCCACATTACATTGGAAT 58.700 45.455 0.00 0.00 41.49 3.01
2611 4987 4.079500 TGGCCTCCACATTACATTGGAATA 60.080 41.667 3.32 0.00 41.49 1.75
2612 4988 5.079643 GGCCTCCACATTACATTGGAATAT 58.920 41.667 0.00 0.00 41.49 1.28
2613 4989 5.047802 GGCCTCCACATTACATTGGAATATG 60.048 44.000 0.00 0.00 41.49 1.78
2614 4990 5.536161 GCCTCCACATTACATTGGAATATGT 59.464 40.000 0.00 0.00 41.49 2.29
2615 4991 6.714810 GCCTCCACATTACATTGGAATATGTA 59.285 38.462 0.00 0.00 41.49 2.29
2639 5015 9.878599 GTAACCATGTAAAATATCGATTTGAGG 57.121 33.333 1.71 0.00 35.38 3.86
2640 5016 7.510549 ACCATGTAAAATATCGATTTGAGGG 57.489 36.000 1.71 0.00 35.38 4.30
2641 5017 7.060421 ACCATGTAAAATATCGATTTGAGGGT 58.940 34.615 1.71 0.00 35.38 4.34
2642 5018 8.215050 ACCATGTAAAATATCGATTTGAGGGTA 58.785 33.333 1.71 0.00 35.38 3.69
2643 5019 8.504005 CCATGTAAAATATCGATTTGAGGGTAC 58.496 37.037 1.71 0.00 35.38 3.34
2644 5020 9.051679 CATGTAAAATATCGATTTGAGGGTACA 57.948 33.333 1.71 4.55 35.38 2.90
2645 5021 8.428186 TGTAAAATATCGATTTGAGGGTACAC 57.572 34.615 1.71 0.00 35.38 2.90
2646 5022 6.598753 AAAATATCGATTTGAGGGTACACG 57.401 37.500 1.71 0.00 35.38 4.49
2647 5023 5.524971 AATATCGATTTGAGGGTACACGA 57.475 39.130 1.71 0.00 0.00 4.35
2648 5024 3.880047 ATCGATTTGAGGGTACACGAA 57.120 42.857 0.00 0.00 32.48 3.85
2649 5025 3.226346 TCGATTTGAGGGTACACGAAG 57.774 47.619 0.00 0.00 0.00 3.79
2650 5026 7.846914 AAATATCGATTTGAGGGTACACGAAGT 60.847 37.037 1.71 0.00 35.66 3.01
2651 5027 3.006110 TCGATTTGAGGGTACACGAAGTT 59.994 43.478 0.00 0.00 41.61 2.66
2652 5028 3.122948 CGATTTGAGGGTACACGAAGTTG 59.877 47.826 0.00 0.00 41.61 3.16
2653 5029 2.536761 TTGAGGGTACACGAAGTTGG 57.463 50.000 0.00 0.00 41.61 3.77
2654 5030 0.682852 TGAGGGTACACGAAGTTGGG 59.317 55.000 0.00 0.00 41.61 4.12
2655 5031 0.971386 GAGGGTACACGAAGTTGGGA 59.029 55.000 0.00 0.00 41.61 4.37
2656 5032 1.553704 GAGGGTACACGAAGTTGGGAT 59.446 52.381 0.00 0.00 41.61 3.85
2657 5033 1.278127 AGGGTACACGAAGTTGGGATG 59.722 52.381 0.00 0.00 41.61 3.51
2658 5034 1.002773 GGGTACACGAAGTTGGGATGT 59.997 52.381 0.00 0.00 41.61 3.06
2659 5035 2.234414 GGGTACACGAAGTTGGGATGTA 59.766 50.000 0.00 0.00 41.61 2.29
2660 5036 3.306919 GGGTACACGAAGTTGGGATGTAA 60.307 47.826 0.00 0.00 41.61 2.41
2661 5037 3.930848 GGTACACGAAGTTGGGATGTAAG 59.069 47.826 0.00 0.00 41.61 2.34
2662 5038 2.423577 ACACGAAGTTGGGATGTAAGC 58.576 47.619 0.00 0.00 41.61 3.09
2663 5039 1.737793 CACGAAGTTGGGATGTAAGCC 59.262 52.381 0.00 0.00 41.12 4.35
2664 5040 1.674817 ACGAAGTTGGGATGTAAGCCG 60.675 52.381 0.00 0.00 42.23 5.52
2665 5041 3.989228 ACGAAGTTGGGATGTAAGCCGA 61.989 50.000 0.00 0.00 42.23 5.54
2666 5042 5.253015 ACGAAGTTGGGATGTAAGCCGAT 62.253 47.826 0.00 0.00 42.23 4.18
2667 5043 6.669701 ACGAAGTTGGGATGTAAGCCGATT 62.670 45.833 0.00 0.00 42.23 3.34
2672 5048 1.318576 GGATGTAAGCCGATTTGGGG 58.681 55.000 0.00 0.00 38.63 4.96
2673 5049 1.133915 GGATGTAAGCCGATTTGGGGA 60.134 52.381 0.00 0.00 38.63 4.81
2674 5050 2.489073 GGATGTAAGCCGATTTGGGGAT 60.489 50.000 0.00 0.00 38.63 3.85
2675 5051 2.051334 TGTAAGCCGATTTGGGGATG 57.949 50.000 0.00 0.00 38.63 3.51
2676 5052 1.562008 TGTAAGCCGATTTGGGGATGA 59.438 47.619 0.00 0.00 38.63 2.92
2677 5053 2.222027 GTAAGCCGATTTGGGGATGAG 58.778 52.381 0.00 0.00 38.63 2.90
2678 5054 0.625849 AAGCCGATTTGGGGATGAGT 59.374 50.000 0.00 0.00 38.63 3.41
2679 5055 1.507140 AGCCGATTTGGGGATGAGTA 58.493 50.000 0.00 0.00 38.63 2.59
2680 5056 1.141053 AGCCGATTTGGGGATGAGTAC 59.859 52.381 0.00 0.00 38.63 2.73
2681 5057 1.134220 GCCGATTTGGGGATGAGTACA 60.134 52.381 0.00 0.00 38.63 2.90
2682 5058 2.682563 GCCGATTTGGGGATGAGTACAA 60.683 50.000 0.00 0.00 38.63 2.41
2683 5059 3.616219 CCGATTTGGGGATGAGTACAAA 58.384 45.455 0.00 0.00 37.25 2.83
2684 5060 3.627577 CCGATTTGGGGATGAGTACAAAG 59.372 47.826 0.00 0.00 36.41 2.77
2685 5061 3.627577 CGATTTGGGGATGAGTACAAAGG 59.372 47.826 0.00 0.00 36.41 3.11
2686 5062 4.600062 GATTTGGGGATGAGTACAAAGGT 58.400 43.478 0.00 0.00 36.41 3.50
2687 5063 3.433306 TTGGGGATGAGTACAAAGGTG 57.567 47.619 0.00 0.00 0.00 4.00
2688 5064 2.344592 TGGGGATGAGTACAAAGGTGT 58.655 47.619 0.00 0.00 42.09 4.16
2689 5065 3.522759 TGGGGATGAGTACAAAGGTGTA 58.477 45.455 0.00 0.00 39.30 2.90
2690 5066 4.108570 TGGGGATGAGTACAAAGGTGTAT 58.891 43.478 0.00 0.00 42.18 2.29
2691 5067 4.163458 TGGGGATGAGTACAAAGGTGTATC 59.837 45.833 0.00 0.00 42.18 2.24
2692 5068 4.163458 GGGGATGAGTACAAAGGTGTATCA 59.837 45.833 0.00 0.00 42.18 2.15
2693 5069 5.163195 GGGGATGAGTACAAAGGTGTATCAT 60.163 44.000 0.00 9.53 42.18 2.45
2694 5070 5.760253 GGGATGAGTACAAAGGTGTATCATG 59.240 44.000 12.42 0.00 42.18 3.07
2695 5071 5.760253 GGATGAGTACAAAGGTGTATCATGG 59.240 44.000 12.42 0.00 42.18 3.66
2696 5072 5.097742 TGAGTACAAAGGTGTATCATGGG 57.902 43.478 0.00 0.00 42.18 4.00
2697 5073 4.534500 TGAGTACAAAGGTGTATCATGGGT 59.466 41.667 0.00 0.00 42.18 4.51
2698 5074 5.013704 TGAGTACAAAGGTGTATCATGGGTT 59.986 40.000 0.00 0.00 42.18 4.11
2699 5075 5.253330 AGTACAAAGGTGTATCATGGGTTG 58.747 41.667 0.00 0.00 42.18 3.77
2700 5076 2.825532 ACAAAGGTGTATCATGGGTTGC 59.174 45.455 0.00 0.00 35.72 4.17
2701 5077 3.091545 CAAAGGTGTATCATGGGTTGCT 58.908 45.455 0.00 0.00 0.00 3.91
2702 5078 2.717639 AGGTGTATCATGGGTTGCTC 57.282 50.000 0.00 0.00 0.00 4.26
2703 5079 1.915489 AGGTGTATCATGGGTTGCTCA 59.085 47.619 0.00 0.00 0.00 4.26
2704 5080 2.511218 AGGTGTATCATGGGTTGCTCAT 59.489 45.455 0.00 0.00 0.00 2.90
2705 5081 3.053395 AGGTGTATCATGGGTTGCTCATT 60.053 43.478 0.00 0.00 0.00 2.57
2706 5082 3.316308 GGTGTATCATGGGTTGCTCATTC 59.684 47.826 0.00 0.00 0.00 2.67
2707 5083 3.947196 GTGTATCATGGGTTGCTCATTCA 59.053 43.478 0.00 0.00 0.00 2.57
2708 5084 4.036027 GTGTATCATGGGTTGCTCATTCAG 59.964 45.833 0.00 0.00 0.00 3.02
2709 5085 2.885135 TCATGGGTTGCTCATTCAGT 57.115 45.000 0.00 0.00 0.00 3.41
2710 5086 2.715046 TCATGGGTTGCTCATTCAGTC 58.285 47.619 0.00 0.00 0.00 3.51
2711 5087 1.747355 CATGGGTTGCTCATTCAGTCC 59.253 52.381 0.00 0.00 0.00 3.85
2712 5088 1.067295 TGGGTTGCTCATTCAGTCCT 58.933 50.000 0.00 0.00 0.00 3.85
2713 5089 1.003580 TGGGTTGCTCATTCAGTCCTC 59.996 52.381 0.00 0.00 0.00 3.71
2714 5090 1.280421 GGGTTGCTCATTCAGTCCTCT 59.720 52.381 0.00 0.00 0.00 3.69
2715 5091 2.354259 GGTTGCTCATTCAGTCCTCTG 58.646 52.381 0.00 0.00 42.54 3.35
2725 5101 3.011566 TCAGTCCTCTGAGGTCTCATC 57.988 52.381 22.50 8.20 44.58 2.92
2726 5102 2.031120 CAGTCCTCTGAGGTCTCATCC 58.969 57.143 22.50 4.45 43.76 3.51
2727 5103 1.063266 AGTCCTCTGAGGTCTCATCCC 60.063 57.143 22.50 3.22 39.13 3.85
2728 5104 1.010795 TCCTCTGAGGTCTCATCCCA 58.989 55.000 22.50 0.00 39.13 4.37
2729 5105 1.118838 CCTCTGAGGTCTCATCCCAC 58.881 60.000 15.76 0.00 39.13 4.61
2730 5106 1.342874 CCTCTGAGGTCTCATCCCACT 60.343 57.143 15.76 0.00 39.13 4.00
2731 5107 2.465813 CTCTGAGGTCTCATCCCACTT 58.534 52.381 0.75 0.00 39.13 3.16
2732 5108 2.430332 CTCTGAGGTCTCATCCCACTTC 59.570 54.545 0.75 0.00 39.13 3.01
2733 5109 2.043664 TCTGAGGTCTCATCCCACTTCT 59.956 50.000 0.75 0.00 39.13 2.85
2734 5110 2.430332 CTGAGGTCTCATCCCACTTCTC 59.570 54.545 0.75 0.00 39.13 2.87
2735 5111 1.407258 GAGGTCTCATCCCACTTCTCG 59.593 57.143 0.00 0.00 0.00 4.04
2736 5112 1.006043 AGGTCTCATCCCACTTCTCGA 59.994 52.381 0.00 0.00 0.00 4.04
2737 5113 2.035632 GGTCTCATCCCACTTCTCGAT 58.964 52.381 0.00 0.00 0.00 3.59
2738 5114 2.432510 GGTCTCATCCCACTTCTCGATT 59.567 50.000 0.00 0.00 0.00 3.34
2739 5115 3.118592 GGTCTCATCCCACTTCTCGATTT 60.119 47.826 0.00 0.00 0.00 2.17
2740 5116 3.868077 GTCTCATCCCACTTCTCGATTTG 59.132 47.826 0.00 0.00 0.00 2.32
2741 5117 3.515502 TCTCATCCCACTTCTCGATTTGT 59.484 43.478 0.00 0.00 0.00 2.83
2742 5118 4.709886 TCTCATCCCACTTCTCGATTTGTA 59.290 41.667 0.00 0.00 0.00 2.41
2743 5119 5.186992 TCTCATCCCACTTCTCGATTTGTAA 59.813 40.000 0.00 0.00 0.00 2.41
2744 5120 5.800296 TCATCCCACTTCTCGATTTGTAAA 58.200 37.500 0.00 0.00 0.00 2.01
2745 5121 6.414732 TCATCCCACTTCTCGATTTGTAAAT 58.585 36.000 0.00 0.00 0.00 1.40
2746 5122 7.561251 TCATCCCACTTCTCGATTTGTAAATA 58.439 34.615 0.00 0.00 0.00 1.40
2747 5123 8.210946 TCATCCCACTTCTCGATTTGTAAATAT 58.789 33.333 0.00 0.00 0.00 1.28
2748 5124 8.840321 CATCCCACTTCTCGATTTGTAAATATT 58.160 33.333 0.00 0.00 0.00 1.28
2749 5125 8.801882 TCCCACTTCTCGATTTGTAAATATTT 57.198 30.769 5.89 5.89 0.00 1.40
2750 5126 8.673711 TCCCACTTCTCGATTTGTAAATATTTG 58.326 33.333 11.05 0.00 0.00 2.32
2751 5127 7.915397 CCCACTTCTCGATTTGTAAATATTTGG 59.085 37.037 11.05 0.00 0.00 3.28
2752 5128 7.432252 CCACTTCTCGATTTGTAAATATTTGGC 59.568 37.037 11.05 4.56 0.00 4.52
2753 5129 7.164171 CACTTCTCGATTTGTAAATATTTGGCG 59.836 37.037 11.05 5.64 0.00 5.69
2754 5130 6.912203 TCTCGATTTGTAAATATTTGGCGA 57.088 33.333 11.05 9.04 0.00 5.54
2755 5131 6.711579 TCTCGATTTGTAAATATTTGGCGAC 58.288 36.000 11.05 1.67 0.00 5.19
2756 5132 6.537301 TCTCGATTTGTAAATATTTGGCGACT 59.463 34.615 11.05 0.00 0.00 4.18
2757 5133 7.065324 TCTCGATTTGTAAATATTTGGCGACTT 59.935 33.333 11.05 0.00 0.00 3.01
2758 5134 8.199176 TCGATTTGTAAATATTTGGCGACTTA 57.801 30.769 11.05 0.00 0.00 2.24
2759 5135 8.666573 TCGATTTGTAAATATTTGGCGACTTAA 58.333 29.630 11.05 1.48 0.00 1.85
2760 5136 8.943925 CGATTTGTAAATATTTGGCGACTTAAG 58.056 33.333 11.05 0.00 0.00 1.85
2761 5137 9.783256 GATTTGTAAATATTTGGCGACTTAAGT 57.217 29.630 8.13 8.13 0.00 2.24
2763 5139 9.968870 TTTGTAAATATTTGGCGACTTAAGTTT 57.031 25.926 10.02 0.00 0.00 2.66
2764 5140 9.968870 TTGTAAATATTTGGCGACTTAAGTTTT 57.031 25.926 10.02 5.58 0.00 2.43
2765 5141 9.968870 TGTAAATATTTGGCGACTTAAGTTTTT 57.031 25.926 10.02 2.70 0.00 1.94
2768 5144 9.705290 AAATATTTGGCGACTTAAGTTTTTCAT 57.295 25.926 10.02 1.59 0.00 2.57
2769 5145 9.705290 AATATTTGGCGACTTAAGTTTTTCATT 57.295 25.926 10.02 0.66 0.00 2.57
2770 5146 9.705290 ATATTTGGCGACTTAAGTTTTTCATTT 57.295 25.926 10.02 0.00 0.00 2.32
2772 5148 7.917720 TTGGCGACTTAAGTTTTTCATTTAC 57.082 32.000 10.02 0.00 0.00 2.01
2773 5149 7.266922 TGGCGACTTAAGTTTTTCATTTACT 57.733 32.000 10.02 0.00 0.00 2.24
2774 5150 7.708998 TGGCGACTTAAGTTTTTCATTTACTT 58.291 30.769 10.02 0.00 36.23 2.24
2775 5151 7.646130 TGGCGACTTAAGTTTTTCATTTACTTG 59.354 33.333 10.02 0.00 34.26 3.16
2776 5152 7.646526 GGCGACTTAAGTTTTTCATTTACTTGT 59.353 33.333 10.02 0.00 34.26 3.16
2777 5153 9.016623 GCGACTTAAGTTTTTCATTTACTTGTT 57.983 29.630 10.02 0.00 34.26 2.83
2780 5156 9.646427 ACTTAAGTTTTTCATTTACTTGTTGCA 57.354 25.926 1.12 0.00 34.26 4.08
2782 5158 9.862371 TTAAGTTTTTCATTTACTTGTTGCAGA 57.138 25.926 0.00 0.00 34.26 4.26
2783 5159 7.755582 AGTTTTTCATTTACTTGTTGCAGAC 57.244 32.000 0.00 0.00 0.00 3.51
2784 5160 7.319646 AGTTTTTCATTTACTTGTTGCAGACA 58.680 30.769 0.00 0.00 36.19 3.41
2785 5161 7.816995 AGTTTTTCATTTACTTGTTGCAGACAA 59.183 29.630 12.00 12.00 45.70 3.18
2796 5172 5.868043 TGTTGCAGACAAGTTATCTGATG 57.132 39.130 15.38 0.00 45.46 3.07
2797 5173 5.550290 TGTTGCAGACAAGTTATCTGATGA 58.450 37.500 15.38 0.00 45.46 2.92
2798 5174 5.640783 TGTTGCAGACAAGTTATCTGATGAG 59.359 40.000 15.38 0.00 45.46 2.90
2799 5175 5.411831 TGCAGACAAGTTATCTGATGAGT 57.588 39.130 15.38 0.00 45.46 3.41
2800 5176 5.798132 TGCAGACAAGTTATCTGATGAGTT 58.202 37.500 15.38 0.00 45.46 3.01
2801 5177 5.640783 TGCAGACAAGTTATCTGATGAGTTG 59.359 40.000 21.62 21.62 45.46 3.16
2802 5178 5.871524 GCAGACAAGTTATCTGATGAGTTGA 59.128 40.000 27.04 0.00 45.46 3.18
2803 5179 6.538021 GCAGACAAGTTATCTGATGAGTTGAT 59.462 38.462 27.04 16.49 45.46 2.57
2804 5180 7.254387 GCAGACAAGTTATCTGATGAGTTGATC 60.254 40.741 27.04 20.88 45.46 2.92
2805 5181 6.977502 AGACAAGTTATCTGATGAGTTGATCG 59.022 38.462 27.04 9.23 34.41 3.69
2806 5182 6.867550 ACAAGTTATCTGATGAGTTGATCGA 58.132 36.000 27.04 0.00 34.41 3.59
2807 5183 6.977502 ACAAGTTATCTGATGAGTTGATCGAG 59.022 38.462 27.04 8.40 34.41 4.04
2808 5184 6.951062 AGTTATCTGATGAGTTGATCGAGA 57.049 37.500 0.00 0.00 0.00 4.04
2809 5185 6.969366 AGTTATCTGATGAGTTGATCGAGAG 58.031 40.000 0.00 0.00 0.00 3.20
2810 5186 4.852134 ATCTGATGAGTTGATCGAGAGG 57.148 45.455 0.00 0.00 0.00 3.69
2811 5187 2.954989 TCTGATGAGTTGATCGAGAGGG 59.045 50.000 0.00 0.00 0.00 4.30
2812 5188 2.954989 CTGATGAGTTGATCGAGAGGGA 59.045 50.000 0.00 0.00 0.00 4.20
2813 5189 3.570540 TGATGAGTTGATCGAGAGGGAT 58.429 45.455 0.00 0.00 0.00 3.85
2814 5190 4.729868 TGATGAGTTGATCGAGAGGGATA 58.270 43.478 0.00 0.00 0.00 2.59
2815 5191 5.140454 TGATGAGTTGATCGAGAGGGATAA 58.860 41.667 0.00 0.00 0.00 1.75
2816 5192 5.777223 TGATGAGTTGATCGAGAGGGATAAT 59.223 40.000 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
243 245 0.324738 TGGCAGTTTGGGGTTGTTGA 60.325 50.000 0.00 0.00 0.00 3.18
295 297 7.334671 CCCAAAAGTTCTCTCTACTACATTTCC 59.665 40.741 0.00 0.00 0.00 3.13
455 461 9.667989 CATTAATGATTCGAATCTGCAACAATA 57.332 29.630 32.08 14.04 36.39 1.90
974 985 7.561356 TCTCATCTGTCCATGTCAAGTAATCTA 59.439 37.037 0.00 0.00 0.00 1.98
1289 1301 9.442033 GCCATAGAATAAATTACGTAAACAACC 57.558 33.333 12.81 0.98 0.00 3.77
1362 1375 2.504367 TCTTGTAACAAGCTGCCTTCC 58.496 47.619 0.00 0.00 0.00 3.46
1678 1694 0.033504 TGTCAGAACGAGCCAACTCC 59.966 55.000 0.00 0.00 40.03 3.85
1747 1763 2.092429 GTCCATGGGCAACTCCATAAGA 60.092 50.000 12.68 0.00 45.08 2.10
2013 2090 2.616786 GCAGCAGCACTTGTGCAACA 62.617 55.000 24.82 0.00 43.64 3.33
2014 2091 1.947642 GCAGCAGCACTTGTGCAAC 60.948 57.895 24.82 16.61 43.82 4.17
2015 2092 2.122797 AGCAGCAGCACTTGTGCAA 61.123 52.632 24.82 0.00 43.82 4.08
2016 2093 2.517638 AGCAGCAGCACTTGTGCA 60.518 55.556 24.82 0.00 43.82 4.57
2017 2094 2.050351 CAGCAGCAGCACTTGTGC 60.050 61.111 16.98 16.98 45.49 4.57
2018 2095 0.594028 CAACAGCAGCAGCACTTGTG 60.594 55.000 3.17 0.00 45.49 3.33
2019 2096 1.033746 ACAACAGCAGCAGCACTTGT 61.034 50.000 3.17 7.19 45.49 3.16
2020 2097 0.946528 TACAACAGCAGCAGCACTTG 59.053 50.000 3.17 6.54 45.49 3.16
2021 2098 1.202687 TCTACAACAGCAGCAGCACTT 60.203 47.619 3.17 0.00 45.49 3.16
2022 2099 0.394192 TCTACAACAGCAGCAGCACT 59.606 50.000 3.17 0.00 45.49 4.40
2023 2100 1.129998 CATCTACAACAGCAGCAGCAC 59.870 52.381 3.17 0.00 45.49 4.40
2024 2101 1.271001 ACATCTACAACAGCAGCAGCA 60.271 47.619 3.17 0.00 45.49 4.41
2025 2102 1.129998 CACATCTACAACAGCAGCAGC 59.870 52.381 0.00 0.00 42.56 5.25
2026 2103 1.129998 GCACATCTACAACAGCAGCAG 59.870 52.381 0.00 0.00 0.00 4.24
2027 2104 1.159285 GCACATCTACAACAGCAGCA 58.841 50.000 0.00 0.00 0.00 4.41
2028 2105 1.129998 CAGCACATCTACAACAGCAGC 59.870 52.381 0.00 0.00 0.00 5.25
2156 2346 6.202762 CACATACACAGCAACACTTTCTTAGA 59.797 38.462 0.00 0.00 0.00 2.10
2539 4915 3.668141 TGTTGATATTGAGGGCCATGT 57.332 42.857 6.18 0.00 0.00 3.21
2576 4952 3.132646 TGTGGAGGCCATGAATAAAATGC 59.867 43.478 5.01 0.00 35.28 3.56
2577 4953 5.540400 ATGTGGAGGCCATGAATAAAATG 57.460 39.130 5.01 0.00 35.28 2.32
2578 4954 6.610830 TGTAATGTGGAGGCCATGAATAAAAT 59.389 34.615 5.01 0.00 35.28 1.82
2579 4955 5.954752 TGTAATGTGGAGGCCATGAATAAAA 59.045 36.000 5.01 0.00 35.28 1.52
2580 4956 5.514169 TGTAATGTGGAGGCCATGAATAAA 58.486 37.500 5.01 0.00 35.28 1.40
2581 4957 5.122707 TGTAATGTGGAGGCCATGAATAA 57.877 39.130 5.01 0.00 35.28 1.40
2582 4958 4.787135 TGTAATGTGGAGGCCATGAATA 57.213 40.909 5.01 0.00 35.28 1.75
2583 4959 3.668141 TGTAATGTGGAGGCCATGAAT 57.332 42.857 5.01 0.00 35.28 2.57
2584 4960 3.668141 ATGTAATGTGGAGGCCATGAA 57.332 42.857 5.01 0.00 35.28 2.57
2585 4961 3.289836 CAATGTAATGTGGAGGCCATGA 58.710 45.455 5.01 0.00 35.28 3.07
2586 4962 2.363038 CCAATGTAATGTGGAGGCCATG 59.637 50.000 5.01 0.00 37.03 3.66
2587 4963 2.244510 TCCAATGTAATGTGGAGGCCAT 59.755 45.455 5.01 0.00 39.04 4.40
2588 4964 1.638070 TCCAATGTAATGTGGAGGCCA 59.362 47.619 5.01 0.00 39.04 5.36
2589 4965 2.435372 TCCAATGTAATGTGGAGGCC 57.565 50.000 0.00 0.00 39.04 5.19
2590 4966 5.536161 ACATATTCCAATGTAATGTGGAGGC 59.464 40.000 1.07 0.00 44.61 4.70
2591 4967 8.690203 TTACATATTCCAATGTAATGTGGAGG 57.310 34.615 5.55 0.00 43.82 4.30
2613 4989 9.878599 CCTCAAATCGATATTTTACATGGTTAC 57.121 33.333 0.00 0.00 32.87 2.50
2614 4990 9.062524 CCCTCAAATCGATATTTTACATGGTTA 57.937 33.333 0.00 0.00 32.87 2.85
2615 4991 7.559897 ACCCTCAAATCGATATTTTACATGGTT 59.440 33.333 0.00 0.00 32.87 3.67
2616 4992 7.060421 ACCCTCAAATCGATATTTTACATGGT 58.940 34.615 0.00 0.00 32.87 3.55
2617 4993 7.510549 ACCCTCAAATCGATATTTTACATGG 57.489 36.000 0.00 0.00 32.87 3.66
2618 4994 9.051679 TGTACCCTCAAATCGATATTTTACATG 57.948 33.333 0.00 0.00 32.87 3.21
2619 4995 9.052759 GTGTACCCTCAAATCGATATTTTACAT 57.947 33.333 0.00 0.00 32.87 2.29
2620 4996 7.223193 CGTGTACCCTCAAATCGATATTTTACA 59.777 37.037 0.00 0.00 32.87 2.41
2621 4997 7.436080 TCGTGTACCCTCAAATCGATATTTTAC 59.564 37.037 0.00 0.00 32.87 2.01
2622 4998 7.490840 TCGTGTACCCTCAAATCGATATTTTA 58.509 34.615 0.00 0.00 32.87 1.52
2623 4999 6.342906 TCGTGTACCCTCAAATCGATATTTT 58.657 36.000 0.00 0.00 32.87 1.82
2624 5000 5.909477 TCGTGTACCCTCAAATCGATATTT 58.091 37.500 0.00 0.00 35.65 1.40
2625 5001 5.524971 TCGTGTACCCTCAAATCGATATT 57.475 39.130 0.00 0.00 0.00 1.28
2626 5002 5.068723 ACTTCGTGTACCCTCAAATCGATAT 59.931 40.000 0.00 0.00 0.00 1.63
2627 5003 4.400251 ACTTCGTGTACCCTCAAATCGATA 59.600 41.667 0.00 0.00 0.00 2.92
2628 5004 3.194968 ACTTCGTGTACCCTCAAATCGAT 59.805 43.478 0.00 0.00 0.00 3.59
2629 5005 2.559668 ACTTCGTGTACCCTCAAATCGA 59.440 45.455 0.00 0.00 0.00 3.59
2630 5006 2.955614 ACTTCGTGTACCCTCAAATCG 58.044 47.619 0.00 0.00 0.00 3.34
2631 5007 3.435671 CCAACTTCGTGTACCCTCAAATC 59.564 47.826 0.00 0.00 0.00 2.17
2632 5008 3.408634 CCAACTTCGTGTACCCTCAAAT 58.591 45.455 0.00 0.00 0.00 2.32
2633 5009 2.485835 CCCAACTTCGTGTACCCTCAAA 60.486 50.000 0.00 0.00 0.00 2.69
2634 5010 1.071071 CCCAACTTCGTGTACCCTCAA 59.929 52.381 0.00 0.00 0.00 3.02
2635 5011 0.682852 CCCAACTTCGTGTACCCTCA 59.317 55.000 0.00 0.00 0.00 3.86
2636 5012 0.971386 TCCCAACTTCGTGTACCCTC 59.029 55.000 0.00 0.00 0.00 4.30
2637 5013 1.278127 CATCCCAACTTCGTGTACCCT 59.722 52.381 0.00 0.00 0.00 4.34
2638 5014 1.002773 ACATCCCAACTTCGTGTACCC 59.997 52.381 0.00 0.00 0.00 3.69
2639 5015 2.467566 ACATCCCAACTTCGTGTACC 57.532 50.000 0.00 0.00 0.00 3.34
2640 5016 3.370061 GCTTACATCCCAACTTCGTGTAC 59.630 47.826 0.00 0.00 0.00 2.90
2641 5017 3.592059 GCTTACATCCCAACTTCGTGTA 58.408 45.455 0.00 0.00 0.00 2.90
2642 5018 2.423577 GCTTACATCCCAACTTCGTGT 58.576 47.619 0.00 0.00 0.00 4.49
2643 5019 1.737793 GGCTTACATCCCAACTTCGTG 59.262 52.381 0.00 0.00 0.00 4.35
2644 5020 1.674817 CGGCTTACATCCCAACTTCGT 60.675 52.381 0.00 0.00 0.00 3.85
2645 5021 1.006832 CGGCTTACATCCCAACTTCG 58.993 55.000 0.00 0.00 0.00 3.79
2646 5022 2.396590 TCGGCTTACATCCCAACTTC 57.603 50.000 0.00 0.00 0.00 3.01
2647 5023 3.366052 AATCGGCTTACATCCCAACTT 57.634 42.857 0.00 0.00 0.00 2.66
2648 5024 3.016736 CAAATCGGCTTACATCCCAACT 58.983 45.455 0.00 0.00 0.00 3.16
2649 5025 2.099098 CCAAATCGGCTTACATCCCAAC 59.901 50.000 0.00 0.00 0.00 3.77
2650 5026 2.374184 CCAAATCGGCTTACATCCCAA 58.626 47.619 0.00 0.00 0.00 4.12
2651 5027 1.409521 CCCAAATCGGCTTACATCCCA 60.410 52.381 0.00 0.00 0.00 4.37
2652 5028 1.318576 CCCAAATCGGCTTACATCCC 58.681 55.000 0.00 0.00 0.00 3.85
2653 5029 1.133915 TCCCCAAATCGGCTTACATCC 60.134 52.381 0.00 0.00 0.00 3.51
2654 5030 2.341846 TCCCCAAATCGGCTTACATC 57.658 50.000 0.00 0.00 0.00 3.06
2655 5031 2.174639 TCATCCCCAAATCGGCTTACAT 59.825 45.455 0.00 0.00 0.00 2.29
2656 5032 1.562008 TCATCCCCAAATCGGCTTACA 59.438 47.619 0.00 0.00 0.00 2.41
2657 5033 2.222027 CTCATCCCCAAATCGGCTTAC 58.778 52.381 0.00 0.00 0.00 2.34
2658 5034 1.843851 ACTCATCCCCAAATCGGCTTA 59.156 47.619 0.00 0.00 0.00 3.09
2659 5035 0.625849 ACTCATCCCCAAATCGGCTT 59.374 50.000 0.00 0.00 0.00 4.35
2660 5036 1.141053 GTACTCATCCCCAAATCGGCT 59.859 52.381 0.00 0.00 0.00 5.52
2661 5037 1.134220 TGTACTCATCCCCAAATCGGC 60.134 52.381 0.00 0.00 0.00 5.54
2662 5038 3.275617 TTGTACTCATCCCCAAATCGG 57.724 47.619 0.00 0.00 0.00 4.18
2663 5039 3.627577 CCTTTGTACTCATCCCCAAATCG 59.372 47.826 0.00 0.00 0.00 3.34
2664 5040 4.399303 CACCTTTGTACTCATCCCCAAATC 59.601 45.833 0.00 0.00 0.00 2.17
2665 5041 4.202673 ACACCTTTGTACTCATCCCCAAAT 60.203 41.667 0.00 0.00 32.60 2.32
2666 5042 3.139397 ACACCTTTGTACTCATCCCCAAA 59.861 43.478 0.00 0.00 32.60 3.28
2667 5043 2.714250 ACACCTTTGTACTCATCCCCAA 59.286 45.455 0.00 0.00 32.60 4.12
2668 5044 2.344592 ACACCTTTGTACTCATCCCCA 58.655 47.619 0.00 0.00 32.60 4.96
2669 5045 4.163458 TGATACACCTTTGTACTCATCCCC 59.837 45.833 0.00 0.00 41.12 4.81
2670 5046 5.353394 TGATACACCTTTGTACTCATCCC 57.647 43.478 0.00 0.00 41.12 3.85
2671 5047 5.760253 CCATGATACACCTTTGTACTCATCC 59.240 44.000 0.00 0.00 41.12 3.51
2672 5048 5.760253 CCCATGATACACCTTTGTACTCATC 59.240 44.000 0.00 0.00 41.12 2.92
2673 5049 5.191722 ACCCATGATACACCTTTGTACTCAT 59.808 40.000 0.00 0.00 41.12 2.90
2674 5050 4.534500 ACCCATGATACACCTTTGTACTCA 59.466 41.667 0.00 0.00 41.12 3.41
2675 5051 5.099042 ACCCATGATACACCTTTGTACTC 57.901 43.478 0.00 0.00 41.12 2.59
2676 5052 5.253330 CAACCCATGATACACCTTTGTACT 58.747 41.667 0.00 0.00 41.12 2.73
2677 5053 4.142469 GCAACCCATGATACACCTTTGTAC 60.142 45.833 0.00 0.00 41.12 2.90
2678 5054 4.013728 GCAACCCATGATACACCTTTGTA 58.986 43.478 0.00 0.00 42.53 2.41
2679 5055 2.825532 GCAACCCATGATACACCTTTGT 59.174 45.455 0.00 0.00 40.02 2.83
2680 5056 3.091545 AGCAACCCATGATACACCTTTG 58.908 45.455 0.00 0.00 0.00 2.77
2681 5057 3.245229 TGAGCAACCCATGATACACCTTT 60.245 43.478 0.00 0.00 0.00 3.11
2682 5058 2.308570 TGAGCAACCCATGATACACCTT 59.691 45.455 0.00 0.00 0.00 3.50
2683 5059 1.915489 TGAGCAACCCATGATACACCT 59.085 47.619 0.00 0.00 0.00 4.00
2684 5060 2.418368 TGAGCAACCCATGATACACC 57.582 50.000 0.00 0.00 0.00 4.16
2685 5061 3.947196 TGAATGAGCAACCCATGATACAC 59.053 43.478 0.00 0.00 0.00 2.90
2686 5062 4.201657 CTGAATGAGCAACCCATGATACA 58.798 43.478 0.00 0.00 0.00 2.29
2687 5063 4.202441 ACTGAATGAGCAACCCATGATAC 58.798 43.478 0.00 0.00 0.00 2.24
2688 5064 4.454678 GACTGAATGAGCAACCCATGATA 58.545 43.478 0.00 0.00 0.00 2.15
2689 5065 3.285484 GACTGAATGAGCAACCCATGAT 58.715 45.455 0.00 0.00 0.00 2.45
2690 5066 2.618816 GGACTGAATGAGCAACCCATGA 60.619 50.000 0.00 0.00 0.00 3.07
2691 5067 1.747355 GGACTGAATGAGCAACCCATG 59.253 52.381 0.00 0.00 0.00 3.66
2692 5068 1.637553 AGGACTGAATGAGCAACCCAT 59.362 47.619 0.00 0.00 0.00 4.00
2693 5069 1.003580 GAGGACTGAATGAGCAACCCA 59.996 52.381 0.00 0.00 0.00 4.51
2694 5070 1.280421 AGAGGACTGAATGAGCAACCC 59.720 52.381 0.00 0.00 0.00 4.11
2695 5071 2.354259 CAGAGGACTGAATGAGCAACC 58.646 52.381 0.00 0.00 46.03 3.77
2706 5082 2.031120 GGATGAGACCTCAGAGGACTG 58.969 57.143 24.27 0.00 40.39 3.51
2707 5083 1.063266 GGGATGAGACCTCAGAGGACT 60.063 57.143 24.45 22.13 42.92 3.85
2708 5084 1.342474 TGGGATGAGACCTCAGAGGAC 60.342 57.143 24.45 17.31 43.61 3.85
2709 5085 1.010795 TGGGATGAGACCTCAGAGGA 58.989 55.000 24.45 0.00 43.61 3.71
2710 5086 1.118838 GTGGGATGAGACCTCAGAGG 58.881 60.000 15.72 15.72 43.61 3.69
2711 5087 2.157640 AGTGGGATGAGACCTCAGAG 57.842 55.000 5.90 0.00 43.61 3.35
2712 5088 2.043664 AGAAGTGGGATGAGACCTCAGA 59.956 50.000 5.90 0.00 43.61 3.27
2713 5089 2.430332 GAGAAGTGGGATGAGACCTCAG 59.570 54.545 5.90 0.00 43.61 3.35
2714 5090 2.461695 GAGAAGTGGGATGAGACCTCA 58.538 52.381 1.83 1.83 44.59 3.86
2715 5091 1.407258 CGAGAAGTGGGATGAGACCTC 59.593 57.143 0.00 0.00 0.00 3.85
2716 5092 1.006043 TCGAGAAGTGGGATGAGACCT 59.994 52.381 0.00 0.00 0.00 3.85
2717 5093 1.475403 TCGAGAAGTGGGATGAGACC 58.525 55.000 0.00 0.00 0.00 3.85
2718 5094 3.810310 AATCGAGAAGTGGGATGAGAC 57.190 47.619 0.00 0.00 0.00 3.36
2719 5095 3.515502 ACAAATCGAGAAGTGGGATGAGA 59.484 43.478 0.00 0.00 0.00 3.27
2720 5096 3.866651 ACAAATCGAGAAGTGGGATGAG 58.133 45.455 0.00 0.00 0.00 2.90
2721 5097 3.981071 ACAAATCGAGAAGTGGGATGA 57.019 42.857 0.00 0.00 0.00 2.92
2722 5098 6.683974 ATTTACAAATCGAGAAGTGGGATG 57.316 37.500 0.00 0.00 0.00 3.51
2723 5099 8.980481 AATATTTACAAATCGAGAAGTGGGAT 57.020 30.769 0.00 0.00 0.00 3.85
2724 5100 8.673711 CAAATATTTACAAATCGAGAAGTGGGA 58.326 33.333 0.00 0.00 0.00 4.37
2725 5101 7.915397 CCAAATATTTACAAATCGAGAAGTGGG 59.085 37.037 0.00 0.00 0.00 4.61
2726 5102 7.432252 GCCAAATATTTACAAATCGAGAAGTGG 59.568 37.037 0.00 0.00 0.00 4.00
2727 5103 7.164171 CGCCAAATATTTACAAATCGAGAAGTG 59.836 37.037 0.00 0.00 0.00 3.16
2728 5104 7.065324 TCGCCAAATATTTACAAATCGAGAAGT 59.935 33.333 0.00 0.00 0.00 3.01
2729 5105 7.373441 GTCGCCAAATATTTACAAATCGAGAAG 59.627 37.037 0.00 0.00 0.00 2.85
2730 5106 7.065324 AGTCGCCAAATATTTACAAATCGAGAA 59.935 33.333 0.00 0.00 0.00 2.87
2731 5107 6.537301 AGTCGCCAAATATTTACAAATCGAGA 59.463 34.615 0.00 0.00 0.00 4.04
2732 5108 6.715464 AGTCGCCAAATATTTACAAATCGAG 58.285 36.000 0.00 0.00 0.00 4.04
2733 5109 6.671614 AGTCGCCAAATATTTACAAATCGA 57.328 33.333 0.00 0.00 0.00 3.59
2734 5110 8.829514 TTAAGTCGCCAAATATTTACAAATCG 57.170 30.769 0.00 0.00 0.00 3.34
2735 5111 9.783256 ACTTAAGTCGCCAAATATTTACAAATC 57.217 29.630 1.12 0.00 0.00 2.17
2737 5113 9.968870 AAACTTAAGTCGCCAAATATTTACAAA 57.031 25.926 8.95 0.00 0.00 2.83
2738 5114 9.968870 AAAACTTAAGTCGCCAAATATTTACAA 57.031 25.926 8.95 0.00 0.00 2.41
2739 5115 9.968870 AAAAACTTAAGTCGCCAAATATTTACA 57.031 25.926 8.95 0.00 0.00 2.41
2742 5118 9.705290 ATGAAAAACTTAAGTCGCCAAATATTT 57.295 25.926 8.95 0.00 0.00 1.40
2743 5119 9.705290 AATGAAAAACTTAAGTCGCCAAATATT 57.295 25.926 8.95 0.93 0.00 1.28
2744 5120 9.705290 AAATGAAAAACTTAAGTCGCCAAATAT 57.295 25.926 8.95 0.00 0.00 1.28
2746 5122 8.974408 GTAAATGAAAAACTTAAGTCGCCAAAT 58.026 29.630 8.95 0.00 0.00 2.32
2747 5123 8.192110 AGTAAATGAAAAACTTAAGTCGCCAAA 58.808 29.630 8.95 0.00 0.00 3.28
2748 5124 7.708998 AGTAAATGAAAAACTTAAGTCGCCAA 58.291 30.769 8.95 0.00 0.00 4.52
2749 5125 7.266922 AGTAAATGAAAAACTTAAGTCGCCA 57.733 32.000 8.95 5.60 0.00 5.69
2750 5126 7.646526 ACAAGTAAATGAAAAACTTAAGTCGCC 59.353 33.333 8.95 0.00 32.35 5.54
2751 5127 8.556517 ACAAGTAAATGAAAAACTTAAGTCGC 57.443 30.769 8.95 0.00 32.35 5.19
2754 5130 9.646427 TGCAACAAGTAAATGAAAAACTTAAGT 57.354 25.926 1.12 1.12 32.35 2.24
2756 5132 9.862371 TCTGCAACAAGTAAATGAAAAACTTAA 57.138 25.926 0.00 0.00 32.35 1.85
2757 5133 9.296400 GTCTGCAACAAGTAAATGAAAAACTTA 57.704 29.630 0.00 0.00 32.35 2.24
2758 5134 7.816995 TGTCTGCAACAAGTAAATGAAAAACTT 59.183 29.630 0.00 0.00 34.03 2.66
2759 5135 7.319646 TGTCTGCAACAAGTAAATGAAAAACT 58.680 30.769 0.00 0.00 34.03 2.66
2760 5136 7.518731 TGTCTGCAACAAGTAAATGAAAAAC 57.481 32.000 0.00 0.00 34.03 2.43
2773 5149 5.997129 TCATCAGATAACTTGTCTGCAACAA 59.003 36.000 10.01 12.00 45.60 2.83
2774 5150 5.550290 TCATCAGATAACTTGTCTGCAACA 58.450 37.500 10.01 0.00 42.17 3.33
2775 5151 5.641209 ACTCATCAGATAACTTGTCTGCAAC 59.359 40.000 10.01 0.00 42.17 4.17
2776 5152 5.798132 ACTCATCAGATAACTTGTCTGCAA 58.202 37.500 10.01 0.00 42.17 4.08
2777 5153 5.411831 ACTCATCAGATAACTTGTCTGCA 57.588 39.130 10.01 0.00 42.17 4.41
2778 5154 5.871524 TCAACTCATCAGATAACTTGTCTGC 59.128 40.000 10.01 0.00 42.17 4.26
2779 5155 7.043524 CGATCAACTCATCAGATAACTTGTCTG 60.044 40.741 8.82 8.82 43.46 3.51
2780 5156 6.977502 CGATCAACTCATCAGATAACTTGTCT 59.022 38.462 0.00 0.00 0.00 3.41
2781 5157 6.975197 TCGATCAACTCATCAGATAACTTGTC 59.025 38.462 0.00 0.00 0.00 3.18
2782 5158 6.867550 TCGATCAACTCATCAGATAACTTGT 58.132 36.000 0.00 0.00 0.00 3.16
2783 5159 7.199078 TCTCGATCAACTCATCAGATAACTTG 58.801 38.462 0.00 0.00 0.00 3.16
2784 5160 7.340122 TCTCGATCAACTCATCAGATAACTT 57.660 36.000 0.00 0.00 0.00 2.66
2785 5161 6.016360 CCTCTCGATCAACTCATCAGATAACT 60.016 42.308 0.00 0.00 0.00 2.24
2786 5162 6.148948 CCTCTCGATCAACTCATCAGATAAC 58.851 44.000 0.00 0.00 0.00 1.89
2787 5163 5.242615 CCCTCTCGATCAACTCATCAGATAA 59.757 44.000 0.00 0.00 0.00 1.75
2788 5164 4.764308 CCCTCTCGATCAACTCATCAGATA 59.236 45.833 0.00 0.00 0.00 1.98
2789 5165 3.573538 CCCTCTCGATCAACTCATCAGAT 59.426 47.826 0.00 0.00 0.00 2.90
2790 5166 2.954989 CCCTCTCGATCAACTCATCAGA 59.045 50.000 0.00 0.00 0.00 3.27
2791 5167 2.954989 TCCCTCTCGATCAACTCATCAG 59.045 50.000 0.00 0.00 0.00 2.90
2792 5168 3.018423 TCCCTCTCGATCAACTCATCA 57.982 47.619 0.00 0.00 0.00 3.07
2793 5169 5.713792 TTATCCCTCTCGATCAACTCATC 57.286 43.478 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.