Multiple sequence alignment - TraesCS3D01G156700

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 TraesCS3D01G156700 chr3D 100.000 7004 0 0 1 7004 124075661 124082664 0.000000e+00 12935.0
1 TraesCS3D01G156700 chr3B 92.978 4685 229 51 1454 6063 178263001 178267660 0.000000e+00 6737.0
2 TraesCS3D01G156700 chr3B 90.959 2356 126 36 1225 3516 178262750 178265082 0.000000e+00 3090.0
3 TraesCS3D01G156700 chr3B 89.726 1022 51 22 212 1226 178261707 178262681 0.000000e+00 1256.0
4 TraesCS3D01G156700 chr3B 89.506 991 63 11 6041 7004 178267670 178268646 0.000000e+00 1216.0
5 TraesCS3D01G156700 chr3B 91.364 220 6 4 3 221 178261309 178261516 8.890000e-74 289.0
6 TraesCS3D01G156700 chr3B 97.436 39 1 0 6556 6594 178268234 178268272 4.530000e-07 67.6
7 TraesCS3D01G156700 chr3A 90.641 2308 131 33 1231 3470 131646721 131649011 0.000000e+00 2987.0
8 TraesCS3D01G156700 chr3A 93.015 2033 71 19 4324 6306 131649797 131651808 0.000000e+00 2902.0
9 TraesCS3D01G156700 chr3A 95.532 761 29 3 3535 4293 131649040 131649797 0.000000e+00 1212.0
10 TraesCS3D01G156700 chr3A 88.336 703 46 15 6305 7004 131651877 131652546 0.000000e+00 811.0
11 TraesCS3D01G156700 chr3A 87.805 615 25 23 631 1213 131646077 131646673 0.000000e+00 675.0
12 TraesCS3D01G156700 chr3A 88.062 578 39 11 3 559 131645487 131646055 0.000000e+00 658.0
13 TraesCS3D01G156700 chr7A 95.588 68 3 0 5128 5195 616735066 616734999 7.430000e-20 110.0


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 TraesCS3D01G156700 chr3D 124075661 124082664 7003 False 12935.000000 12935 100.000000 1 7004 1 chr3D.!!$F1 7003
1 TraesCS3D01G156700 chr3B 178261309 178268646 7337 False 2109.266667 6737 91.994833 3 7004 6 chr3B.!!$F1 7001
2 TraesCS3D01G156700 chr3A 131645487 131652546 7059 False 1540.833333 2987 90.565167 3 7004 6 chr3A.!!$F1 7001

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
569 788 0.248825 CCACGAGATGAGAGGAAGCG 60.249 60.000 0.00 0.0 0.00 4.68 F
826 1069 0.250338 GGGGAGCGTTAATGGCTAGG 60.250 60.000 4.21 0.0 41.72 3.02 F
1493 1844 0.036388 CGTGTCTGGCATTAGGGTGT 60.036 55.000 0.00 0.0 0.00 4.16 F
1518 1869 0.597568 CGAATTTTGCTGCCACCTGA 59.402 50.000 0.00 0.0 0.00 3.86 F
1524 1875 0.682532 TTGCTGCCACCTGAAACACA 60.683 50.000 0.00 0.0 0.00 3.72 F
1900 2259 1.153549 CGACCTCAACCTAGCTGCC 60.154 63.158 0.00 0.0 0.00 4.85 F
2947 3323 1.191535 CCTGTTCCGGTCCATCACTA 58.808 55.000 0.00 0.0 0.00 2.74 F
3462 3887 0.179059 TTCTTCGCTTGCCACACTCA 60.179 50.000 0.00 0.0 0.00 3.41 F
4797 5258 0.033601 TGATTTCCCGGGGTGAATGG 60.034 55.000 23.50 0.0 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1474 1802 0.036388 ACACCCTAATGCCAGACACG 60.036 55.000 0.00 0.00 0.00 4.49 R
2500 2871 0.107800 TGGATCTGCAGCAGCTTCTC 60.108 55.000 18.43 10.85 42.74 2.87 R
2688 3059 0.179181 CGAAGCTTACGACGTAGCCA 60.179 55.000 19.14 2.64 0.00 4.75 R
2925 3300 0.323629 TGATGGACCGGAACAGGAAC 59.676 55.000 9.46 1.03 34.73 3.62 R
2949 3325 0.829990 TGAGCATGGCGTCCAGAATA 59.170 50.000 4.90 0.00 36.75 1.75 R
2986 3372 1.023513 ATCAAGCACGCAGAAGAGGC 61.024 55.000 0.00 0.00 0.00 4.70 R
4350 4805 0.533491 TTCTGCATTTCAGCCATGCC 59.467 50.000 2.56 0.00 45.59 4.40 R
5376 5837 0.881118 GCACCCGCTTCTTGATGAAA 59.119 50.000 0.00 0.00 33.79 2.69 R
6793 7403 1.131504 CGAGGAGGAAGAAGACTGACG 59.868 57.143 0.00 0.00 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
163 168 0.714180 TTGGCCCCTCTCTGTACCTA 59.286 55.000 0.00 0.00 0.00 3.08
164 169 0.941963 TGGCCCCTCTCTGTACCTAT 59.058 55.000 0.00 0.00 0.00 2.57
165 170 1.343069 GGCCCCTCTCTGTACCTATG 58.657 60.000 0.00 0.00 0.00 2.23
166 171 0.682292 GCCCCTCTCTGTACCTATGC 59.318 60.000 0.00 0.00 0.00 3.14
167 172 1.343069 CCCCTCTCTGTACCTATGCC 58.657 60.000 0.00 0.00 0.00 4.40
168 173 0.962489 CCCTCTCTGTACCTATGCCG 59.038 60.000 0.00 0.00 0.00 5.69
169 174 0.962489 CCTCTCTGTACCTATGCCGG 59.038 60.000 0.00 0.00 0.00 6.13
170 175 1.693627 CTCTCTGTACCTATGCCGGT 58.306 55.000 1.90 0.00 41.10 5.28
171 176 2.488528 CCTCTCTGTACCTATGCCGGTA 60.489 54.545 1.90 0.00 38.49 4.02
185 190 1.227263 CGGTATGCCCTCTTCCACG 60.227 63.158 0.00 0.00 0.00 4.94
223 428 4.989168 GGAAGTTAATCAATACCGCTCGAT 59.011 41.667 0.00 0.00 0.00 3.59
297 509 9.910267 CATCATTATCATTATCCCCAATCACTA 57.090 33.333 0.00 0.00 0.00 2.74
418 633 3.073678 GTTGACATGCACCACAGTATCA 58.926 45.455 0.00 0.00 0.00 2.15
456 671 6.131544 TGTTTCTTTCAGCTAAACTCAACC 57.868 37.500 9.75 0.00 34.84 3.77
457 672 5.885912 TGTTTCTTTCAGCTAAACTCAACCT 59.114 36.000 9.75 0.00 34.84 3.50
476 691 3.181500 ACCTTTGTTTCTTCTTCGTGTGC 60.181 43.478 0.00 0.00 0.00 4.57
496 711 1.993370 CGTTGGAGATTTCACGAGACC 59.007 52.381 0.00 0.00 0.00 3.85
499 714 1.201647 TGGAGATTTCACGAGACCGAC 59.798 52.381 0.00 0.00 39.50 4.79
503 718 1.719780 GATTTCACGAGACCGACACAC 59.280 52.381 0.00 0.00 39.50 3.82
568 787 1.107114 TCCACGAGATGAGAGGAAGC 58.893 55.000 0.00 0.00 0.00 3.86
569 788 0.248825 CCACGAGATGAGAGGAAGCG 60.249 60.000 0.00 0.00 0.00 4.68
570 789 0.248825 CACGAGATGAGAGGAAGCGG 60.249 60.000 0.00 0.00 0.00 5.52
571 790 1.361993 CGAGATGAGAGGAAGCGGG 59.638 63.158 0.00 0.00 0.00 6.13
572 791 1.103987 CGAGATGAGAGGAAGCGGGA 61.104 60.000 0.00 0.00 0.00 5.14
573 792 1.337118 GAGATGAGAGGAAGCGGGAT 58.663 55.000 0.00 0.00 0.00 3.85
574 793 1.691434 GAGATGAGAGGAAGCGGGATT 59.309 52.381 0.00 0.00 0.00 3.01
575 794 2.894126 GAGATGAGAGGAAGCGGGATTA 59.106 50.000 0.00 0.00 0.00 1.75
576 795 2.896685 AGATGAGAGGAAGCGGGATTAG 59.103 50.000 0.00 0.00 0.00 1.73
577 796 1.414158 TGAGAGGAAGCGGGATTAGG 58.586 55.000 0.00 0.00 0.00 2.69
578 797 0.682292 GAGAGGAAGCGGGATTAGGG 59.318 60.000 0.00 0.00 0.00 3.53
579 798 0.264955 AGAGGAAGCGGGATTAGGGA 59.735 55.000 0.00 0.00 0.00 4.20
580 799 0.393448 GAGGAAGCGGGATTAGGGAC 59.607 60.000 0.00 0.00 0.00 4.46
581 800 1.069258 GGAAGCGGGATTAGGGACG 59.931 63.158 0.00 0.00 0.00 4.79
582 801 1.397390 GGAAGCGGGATTAGGGACGA 61.397 60.000 0.00 0.00 0.00 4.20
594 813 6.041511 GGATTAGGGACGAGAGAAAAACTAC 58.958 44.000 0.00 0.00 0.00 2.73
595 814 6.127394 GGATTAGGGACGAGAGAAAAACTACT 60.127 42.308 0.00 0.00 0.00 2.57
596 815 7.067981 GGATTAGGGACGAGAGAAAAACTACTA 59.932 40.741 0.00 0.00 0.00 1.82
597 816 5.900865 AGGGACGAGAGAAAAACTACTAG 57.099 43.478 0.00 0.00 0.00 2.57
598 817 4.158209 AGGGACGAGAGAAAAACTACTAGC 59.842 45.833 0.00 0.00 0.00 3.42
599 818 4.082354 GGGACGAGAGAAAAACTACTAGCA 60.082 45.833 0.00 0.00 0.00 3.49
826 1069 0.250338 GGGGAGCGTTAATGGCTAGG 60.250 60.000 4.21 0.00 41.72 3.02
885 1128 3.411517 CCGGGCATTCACTCCCCT 61.412 66.667 0.00 0.00 39.39 4.79
886 1129 2.124570 CGGGCATTCACTCCCCTG 60.125 66.667 0.00 0.00 39.39 4.45
887 1130 2.440980 GGGCATTCACTCCCCTGC 60.441 66.667 0.00 0.00 36.50 4.85
888 1131 2.440980 GGCATTCACTCCCCTGCC 60.441 66.667 0.00 0.00 46.54 4.85
889 1132 2.440980 GCATTCACTCCCCTGCCC 60.441 66.667 0.00 0.00 0.00 5.36
890 1133 3.089838 CATTCACTCCCCTGCCCA 58.910 61.111 0.00 0.00 0.00 5.36
891 1134 1.379044 CATTCACTCCCCTGCCCAC 60.379 63.158 0.00 0.00 0.00 4.61
892 1135 1.542375 ATTCACTCCCCTGCCCACT 60.542 57.895 0.00 0.00 0.00 4.00
893 1136 1.856539 ATTCACTCCCCTGCCCACTG 61.857 60.000 0.00 0.00 0.00 3.66
894 1137 4.729918 CACTCCCCTGCCCACTGC 62.730 72.222 0.00 0.00 41.77 4.40
1024 1275 2.683933 GGAAGAGCTGGGGACGGA 60.684 66.667 0.00 0.00 39.98 4.69
1107 1364 2.888863 GTCTCCCTCAGCCTGACG 59.111 66.667 0.00 0.00 0.00 4.35
1109 1366 1.679305 TCTCCCTCAGCCTGACGAC 60.679 63.158 0.00 0.00 0.00 4.34
1222 1480 0.460987 CTGCAAGGTAAGAGCCTCCG 60.461 60.000 0.00 0.00 38.03 4.63
1235 1563 2.347731 AGCCTCCGTCTTTCGAATTTC 58.652 47.619 0.00 0.00 42.86 2.17
1285 1613 5.106555 CGTGCTCATTTAGTCAGGTTCAATT 60.107 40.000 0.00 0.00 0.00 2.32
1290 1618 7.011857 GCTCATTTAGTCAGGTTCAATTAGAGG 59.988 40.741 0.00 0.00 0.00 3.69
1300 1628 7.182026 TCAGGTTCAATTAGAGGAATCCAAGTA 59.818 37.037 0.61 0.00 0.00 2.24
1301 1629 7.995488 CAGGTTCAATTAGAGGAATCCAAGTAT 59.005 37.037 0.61 0.00 0.00 2.12
1394 1722 5.264395 AGCTGGCCTTGAATTAAACTGTAT 58.736 37.500 3.32 0.00 0.00 2.29
1473 1801 7.810759 CCGGTCAAATATAATTTAAAATCCGGG 59.189 37.037 0.00 0.00 45.00 5.73
1474 1802 7.327518 CGGTCAAATATAATTTAAAATCCGGGC 59.672 37.037 0.00 0.00 0.00 6.13
1482 1833 0.391927 TAAAATCCGGGCGTGTCTGG 60.392 55.000 0.00 0.00 34.52 3.86
1493 1844 0.036388 CGTGTCTGGCATTAGGGTGT 60.036 55.000 0.00 0.00 0.00 4.16
1518 1869 0.597568 CGAATTTTGCTGCCACCTGA 59.402 50.000 0.00 0.00 0.00 3.86
1524 1875 0.682532 TTGCTGCCACCTGAAACACA 60.683 50.000 0.00 0.00 0.00 3.72
1525 1876 1.360192 GCTGCCACCTGAAACACAC 59.640 57.895 0.00 0.00 0.00 3.82
1533 1884 5.772672 TGCCACCTGAAACACACTTATTTAT 59.227 36.000 0.00 0.00 0.00 1.40
1871 2230 3.749088 TGTTGGTTAAGTAACGCATCCAG 59.251 43.478 0.00 0.00 37.07 3.86
1900 2259 1.153549 CGACCTCAACCTAGCTGCC 60.154 63.158 0.00 0.00 0.00 4.85
1906 2265 1.667724 CTCAACCTAGCTGCCAAATCG 59.332 52.381 0.00 0.00 0.00 3.34
1920 2279 3.193263 CCAAATCGATCTCCACTGACTG 58.807 50.000 0.00 0.00 0.00 3.51
2093 2459 2.425283 CGACGTACGTATGTGACAGAC 58.575 52.381 24.57 8.38 37.22 3.51
2094 2460 2.159801 CGACGTACGTATGTGACAGACA 60.160 50.000 24.57 0.00 36.71 3.41
2111 2479 2.042979 AGACAATTGGCCTGGTATGGTT 59.957 45.455 7.95 0.00 0.00 3.67
2121 2489 2.169352 CCTGGTATGGTTCCACTCTCAG 59.831 54.545 0.00 0.95 0.00 3.35
2131 2499 4.282496 GTTCCACTCTCAGGGAATCTCTA 58.718 47.826 0.00 0.00 44.44 2.43
2402 2770 5.453339 CGTACTACCATCCCAACTGATGATT 60.453 44.000 2.70 0.00 43.94 2.57
2614 2985 2.938539 GATGAACTCGTCCGCGGAGG 62.939 65.000 35.79 35.79 42.97 4.30
2616 2987 3.966026 GAACTCGTCCGCGGAGGTG 62.966 68.421 38.08 36.57 41.99 4.00
2691 3062 4.700365 GGCAACCGTCGCTTTGGC 62.700 66.667 13.24 13.24 40.58 4.52
2693 3064 2.322081 GCAACCGTCGCTTTGGCTA 61.322 57.895 6.87 0.00 36.09 3.93
2716 3087 1.814394 TCGTAAGCTTCGCTGTCCTTA 59.186 47.619 0.00 0.00 39.62 2.69
2786 3161 3.819564 TCATACGCCTGAATGCTAACT 57.180 42.857 0.00 0.00 0.00 2.24
2899 3274 5.358442 CCCGGTTTATTCATCACAACCATTA 59.642 40.000 0.00 0.00 38.97 1.90
2947 3323 1.191535 CCTGTTCCGGTCCATCACTA 58.808 55.000 0.00 0.00 0.00 2.74
2948 3324 1.553248 CCTGTTCCGGTCCATCACTAA 59.447 52.381 0.00 0.00 0.00 2.24
2949 3325 2.170607 CCTGTTCCGGTCCATCACTAAT 59.829 50.000 0.00 0.00 0.00 1.73
2984 3370 5.748630 CCATGCTCAATGTTGATCTGATTTG 59.251 40.000 0.00 0.00 36.46 2.32
2986 3372 5.705902 TGCTCAATGTTGATCTGATTTGTG 58.294 37.500 0.00 0.00 36.46 3.33
2997 3383 1.129998 CTGATTTGTGCCTCTTCTGCG 59.870 52.381 0.00 0.00 0.00 5.18
3020 3408 3.285215 GATGGATGGCGCTGCTGG 61.285 66.667 7.64 0.00 0.00 4.85
3049 3437 1.725164 CGACGGCCTTCTGTTAAACTC 59.275 52.381 7.75 0.00 30.45 3.01
3229 3622 9.391006 ACATCTGAATAAACGGCTAAATTAAGA 57.609 29.630 0.00 0.00 0.00 2.10
3455 3880 1.133790 AGCATTCATTCTTCGCTTGCC 59.866 47.619 0.00 0.00 0.00 4.52
3458 3883 1.603456 TTCATTCTTCGCTTGCCACA 58.397 45.000 0.00 0.00 0.00 4.17
3460 3885 0.877071 CATTCTTCGCTTGCCACACT 59.123 50.000 0.00 0.00 0.00 3.55
3461 3886 1.135859 CATTCTTCGCTTGCCACACTC 60.136 52.381 0.00 0.00 0.00 3.51
3462 3887 0.179059 TTCTTCGCTTGCCACACTCA 60.179 50.000 0.00 0.00 0.00 3.41
3464 3889 0.877071 CTTCGCTTGCCACACTCATT 59.123 50.000 0.00 0.00 0.00 2.57
3465 3890 1.267806 CTTCGCTTGCCACACTCATTT 59.732 47.619 0.00 0.00 0.00 2.32
3466 3891 0.592637 TCGCTTGCCACACTCATTTG 59.407 50.000 0.00 0.00 0.00 2.32
3511 3936 6.495872 CCAATCCAACCCTTTGATCATCATAT 59.504 38.462 0.00 0.00 34.24 1.78
3512 3937 7.309621 CCAATCCAACCCTTTGATCATCATATC 60.310 40.741 0.00 0.00 34.24 1.63
3513 3938 6.264771 TCCAACCCTTTGATCATCATATCA 57.735 37.500 0.00 0.00 34.24 2.15
3514 3939 6.855667 TCCAACCCTTTGATCATCATATCAT 58.144 36.000 0.00 0.00 35.84 2.45
3516 3941 7.884877 TCCAACCCTTTGATCATCATATCATAC 59.115 37.037 0.00 0.00 35.84 2.39
3517 3942 7.666804 CCAACCCTTTGATCATCATATCATACA 59.333 37.037 0.00 0.00 35.84 2.29
3518 3943 9.239551 CAACCCTTTGATCATCATATCATACAT 57.760 33.333 0.00 0.00 35.84 2.29
3525 3950 9.813446 TTGATCATCATATCATACATAGACAGC 57.187 33.333 0.00 0.00 35.84 4.40
3526 3951 9.198475 TGATCATCATATCATACATAGACAGCT 57.802 33.333 0.00 0.00 30.92 4.24
3527 3952 9.681692 GATCATCATATCATACATAGACAGCTC 57.318 37.037 0.00 0.00 0.00 4.09
3528 3953 8.585471 TCATCATATCATACATAGACAGCTCA 57.415 34.615 0.00 0.00 0.00 4.26
3529 3954 9.198475 TCATCATATCATACATAGACAGCTCAT 57.802 33.333 0.00 0.00 0.00 2.90
3531 3956 8.585471 TCATATCATACATAGACAGCTCATCA 57.415 34.615 0.00 0.00 0.00 3.07
3532 3957 9.198475 TCATATCATACATAGACAGCTCATCAT 57.802 33.333 0.00 0.00 0.00 2.45
3615 4065 1.377202 AATCGCAACCATCGCCACT 60.377 52.632 0.00 0.00 0.00 4.00
3836 4290 6.013842 TCACATACATACCATCTGATCGAC 57.986 41.667 0.00 0.00 0.00 4.20
3842 4296 0.593618 ACCATCTGATCGACGATCGG 59.406 55.000 31.96 31.96 44.30 4.18
3923 4378 4.322080 TCGAGATGGCTGTCGATAAATT 57.678 40.909 0.00 0.00 41.68 1.82
4213 4668 2.268920 GATGGGAAGCCGCTGACA 59.731 61.111 0.00 0.00 0.00 3.58
4280 4735 4.338118 TGTTTCTCCTTGCGTTTGATTTCT 59.662 37.500 0.00 0.00 0.00 2.52
4293 4748 5.159209 GTTTGATTTCTGTCTCCATGCTTG 58.841 41.667 0.00 0.00 0.00 4.01
4300 4755 1.078759 GTCTCCATGCTTGTCGTCGG 61.079 60.000 0.00 0.00 0.00 4.79
4301 4756 2.434185 TCCATGCTTGTCGTCGGC 60.434 61.111 0.00 0.00 0.00 5.54
4307 4762 1.584175 TGCTTGTCGTCGGCTTTTTA 58.416 45.000 0.00 0.00 0.00 1.52
4311 4766 2.806608 TGTCGTCGGCTTTTTAGAGT 57.193 45.000 0.00 0.00 0.00 3.24
4313 4768 1.647702 GTCGTCGGCTTTTTAGAGTCG 59.352 52.381 0.00 0.00 45.59 4.18
4319 4774 3.924686 TCGGCTTTTTAGAGTCGTCATTC 59.075 43.478 0.00 0.00 44.60 2.67
4333 4788 3.126514 TCGTCATTCTCGTTACACCTCTC 59.873 47.826 0.00 0.00 0.00 3.20
4388 4843 0.467384 ATCAGGACATGAAGCCCGAG 59.533 55.000 0.00 0.00 42.53 4.63
4450 4905 6.131544 TGATACTTCGTCTTCATGATCGAA 57.868 37.500 20.89 20.89 37.02 3.71
4471 4926 5.849081 CGAATACTCTCGAGACTTATCAAGC 59.151 44.000 12.08 2.37 41.44 4.01
4480 4935 5.296035 TCGAGACTTATCAAGCGACAGATTA 59.704 40.000 0.00 0.00 0.00 1.75
4481 4936 5.971792 CGAGACTTATCAAGCGACAGATTAA 59.028 40.000 0.00 0.00 0.00 1.40
4577 5033 1.264749 TGTCATTGGGGGAGGTCTCG 61.265 60.000 0.00 0.00 0.00 4.04
4580 5036 1.200519 CATTGGGGGAGGTCTCGTAA 58.799 55.000 0.00 0.00 0.00 3.18
4681 5137 1.741706 AGGTTTGAGATCATGCTTGCG 59.258 47.619 0.00 0.00 0.00 4.85
4740 5196 2.111384 ACTCATCAGAGGTACGCCATT 58.889 47.619 0.00 0.00 46.44 3.16
4776 5232 3.131755 TGATCGATGCAGAGATCTTGTGT 59.868 43.478 25.09 0.00 42.62 3.72
4790 5251 1.272212 CTTGTGTTTGATTTCCCGGGG 59.728 52.381 23.50 6.77 0.00 5.73
4797 5258 0.033601 TGATTTCCCGGGGTGAATGG 60.034 55.000 23.50 0.00 0.00 3.16
4881 5342 3.650950 TTCCTGGTGGCCCTGCTC 61.651 66.667 0.00 0.00 0.00 4.26
5079 5540 2.651361 CTGTTCGAGGACCTGCGT 59.349 61.111 0.00 0.00 0.00 5.24
5160 5621 2.190313 GACCAGCGGATCATGGCA 59.810 61.111 9.98 0.00 40.45 4.92
5241 5702 4.597004 TGAGGATCTACTACACGTTCCTT 58.403 43.478 2.85 0.00 33.83 3.36
5474 5935 0.171231 CTCATCGACAGGAACAGCGA 59.829 55.000 0.00 0.00 37.17 4.93
6221 6754 6.248433 TCTTCATAATCACCTTTTTGGCTCT 58.752 36.000 0.00 0.00 40.22 4.09
6226 6766 7.554118 TCATAATCACCTTTTTGGCTCTAGAAG 59.446 37.037 0.00 0.00 40.22 2.85
6261 6801 6.472486 GTGAGTTTTTGCCTAGAGAACAAAAC 59.528 38.462 10.47 8.81 41.53 2.43
6263 6803 6.930731 AGTTTTTGCCTAGAGAACAAAACAA 58.069 32.000 10.47 0.00 41.53 2.83
6275 6815 7.974504 AGAGAACAAAACAAATACTCCCTCTA 58.025 34.615 0.00 0.00 0.00 2.43
6366 6976 6.047231 GTGGTAGTTTCTTACTGTGTTGAGT 58.953 40.000 0.00 0.00 37.73 3.41
6385 6995 5.249420 TGAGTATCCTATCATCCAGACTCG 58.751 45.833 0.00 0.00 35.84 4.18
6394 7004 1.821753 CATCCAGACTCGGAGTGAACT 59.178 52.381 16.72 3.56 38.83 3.01
6404 7014 3.340034 TCGGAGTGAACTTGTGTTGTTT 58.660 40.909 0.00 0.00 36.39 2.83
6405 7015 3.126171 TCGGAGTGAACTTGTGTTGTTTG 59.874 43.478 0.00 0.00 36.39 2.93
6407 7017 4.614993 CGGAGTGAACTTGTGTTGTTTGTT 60.615 41.667 0.00 0.00 36.39 2.83
6408 7018 4.857037 GGAGTGAACTTGTGTTGTTTGTTC 59.143 41.667 0.00 0.00 36.39 3.18
6409 7019 5.335661 GGAGTGAACTTGTGTTGTTTGTTCT 60.336 40.000 0.00 0.00 38.17 3.01
6422 7032 5.657470 TGTTTGTTCTCGAGTGAAATCTG 57.343 39.130 13.13 0.00 0.00 2.90
6438 7048 7.010738 AGTGAAATCTGAAAATTTGCACACTTG 59.989 33.333 11.71 0.00 32.01 3.16
6447 7057 6.548441 AAATTTGCACACTTGAAATCATGG 57.452 33.333 0.00 0.00 0.00 3.66
6591 7201 3.636153 AAGAAAGTGATCCAGTAGGGC 57.364 47.619 0.00 0.00 36.21 5.19
6660 7270 3.251004 GCATCTAAAATAGGAAGGCACCG 59.749 47.826 0.00 0.00 34.73 4.94
6687 7297 2.040278 CCATCCAACAACCTCTTCTCCA 59.960 50.000 0.00 0.00 0.00 3.86
6690 7300 1.873591 CCAACAACCTCTTCTCCAACG 59.126 52.381 0.00 0.00 0.00 4.10
6706 7316 2.283966 CGGGTGTGAGAGGAGGGT 60.284 66.667 0.00 0.00 0.00 4.34
6753 7363 2.855370 GAGAACGAGAGAGAAATTCGGC 59.145 50.000 0.00 0.00 38.58 5.54
6754 7364 2.231478 AGAACGAGAGAGAAATTCGGCA 59.769 45.455 0.00 0.00 38.58 5.69
6867 7478 2.356818 CTTCATCCCGACCTCTCCGC 62.357 65.000 0.00 0.00 0.00 5.54
6874 7485 2.680352 GACCTCTCCGCCTCACCA 60.680 66.667 0.00 0.00 0.00 4.17
6907 7518 2.427095 GTCTTTGACAATGCCATACCCC 59.573 50.000 0.00 0.00 32.09 4.95
6938 7549 3.914771 CCATGGAGGACAAATTACCCAT 58.085 45.455 5.56 0.00 41.22 4.00
6943 7554 4.044065 TGGAGGACAAATTACCCATGACTT 59.956 41.667 0.00 0.00 0.00 3.01
6944 7555 5.251932 TGGAGGACAAATTACCCATGACTTA 59.748 40.000 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.678048 AAGAGGGAATCAACCTGCGC 60.678 55.000 0.00 0.00 38.79 6.09
1 2 2.691409 TAAGAGGGAATCAACCTGCG 57.309 50.000 0.00 0.00 38.79 5.18
163 168 1.451936 GAAGAGGGCATACCGGCAT 59.548 57.895 0.00 0.00 46.96 4.40
164 169 2.742116 GGAAGAGGGCATACCGGCA 61.742 63.158 0.00 0.00 46.96 5.69
165 170 2.111251 GGAAGAGGGCATACCGGC 59.889 66.667 0.00 0.00 46.96 6.13
166 171 1.146263 GTGGAAGAGGGCATACCGG 59.854 63.158 0.00 0.00 46.96 5.28
167 172 1.227263 CGTGGAAGAGGGCATACCG 60.227 63.158 0.00 0.00 46.96 4.02
168 173 0.105039 CTCGTGGAAGAGGGCATACC 59.895 60.000 0.00 0.00 40.67 2.73
169 174 0.824759 ACTCGTGGAAGAGGGCATAC 59.175 55.000 0.00 0.00 42.31 2.39
170 175 1.112113 GACTCGTGGAAGAGGGCATA 58.888 55.000 0.00 0.00 42.31 3.14
171 176 0.616111 AGACTCGTGGAAGAGGGCAT 60.616 55.000 0.00 0.00 42.31 4.40
185 190 9.362539 TGATTAACTTCCGTTTTACATAGACTC 57.637 33.333 0.00 0.00 34.59 3.36
210 215 6.399669 CGGTTATTTAAGATCGAGCGGTATTG 60.400 42.308 0.00 0.00 0.00 1.90
253 465 3.053019 TGATGGGGAATCACTGGCAATTA 60.053 43.478 0.00 0.00 40.50 1.40
297 509 6.153170 CAGTGACTGAGGATATGATATCAGCT 59.847 42.308 6.79 3.24 42.33 4.24
456 671 3.029074 CGCACACGAAGAAGAAACAAAG 58.971 45.455 0.00 0.00 43.93 2.77
457 672 2.417239 ACGCACACGAAGAAGAAACAAA 59.583 40.909 0.00 0.00 43.93 2.83
476 691 1.993370 GGTCTCGTGAAATCTCCAACG 59.007 52.381 0.00 0.00 0.00 4.10
496 711 0.179134 GATTCTCCCTCCGTGTGTCG 60.179 60.000 0.00 0.00 39.52 4.35
499 714 0.613260 TTGGATTCTCCCTCCGTGTG 59.387 55.000 0.00 0.00 35.03 3.82
503 718 1.227380 CGCTTGGATTCTCCCTCCG 60.227 63.158 0.00 0.00 35.03 4.63
522 741 0.456221 GACTGCGAGGCTTAGCTACA 59.544 55.000 15.16 0.00 0.00 2.74
568 787 1.688772 TTCTCTCGTCCCTAATCCCG 58.311 55.000 0.00 0.00 0.00 5.14
569 788 4.081031 AGTTTTTCTCTCGTCCCTAATCCC 60.081 45.833 0.00 0.00 0.00 3.85
570 789 5.087391 AGTTTTTCTCTCGTCCCTAATCC 57.913 43.478 0.00 0.00 0.00 3.01
571 790 6.865411 AGTAGTTTTTCTCTCGTCCCTAATC 58.135 40.000 0.00 0.00 0.00 1.75
572 791 6.854091 AGTAGTTTTTCTCTCGTCCCTAAT 57.146 37.500 0.00 0.00 0.00 1.73
573 792 6.127786 GCTAGTAGTTTTTCTCTCGTCCCTAA 60.128 42.308 0.00 0.00 0.00 2.69
574 793 5.356470 GCTAGTAGTTTTTCTCTCGTCCCTA 59.644 44.000 0.00 0.00 0.00 3.53
575 794 4.158209 GCTAGTAGTTTTTCTCTCGTCCCT 59.842 45.833 0.00 0.00 0.00 4.20
576 795 4.082354 TGCTAGTAGTTTTTCTCTCGTCCC 60.082 45.833 0.00 0.00 0.00 4.46
577 796 5.056894 TGCTAGTAGTTTTTCTCTCGTCC 57.943 43.478 0.00 0.00 0.00 4.79
578 797 4.559643 GCTGCTAGTAGTTTTTCTCTCGTC 59.440 45.833 9.73 0.00 0.00 4.20
579 798 4.218852 AGCTGCTAGTAGTTTTTCTCTCGT 59.781 41.667 9.73 0.00 0.00 4.18
580 799 4.739195 AGCTGCTAGTAGTTTTTCTCTCG 58.261 43.478 9.73 0.00 0.00 4.04
581 800 6.859017 ACTAGCTGCTAGTAGTTTTTCTCTC 58.141 40.000 34.35 0.00 44.35 3.20
582 801 6.844097 ACTAGCTGCTAGTAGTTTTTCTCT 57.156 37.500 34.35 10.73 44.35 3.10
594 813 6.265649 TGTCCCTTATTTCTACTAGCTGCTAG 59.734 42.308 29.91 29.91 39.72 3.42
595 814 6.134055 TGTCCCTTATTTCTACTAGCTGCTA 58.866 40.000 9.34 9.34 0.00 3.49
596 815 4.962995 TGTCCCTTATTTCTACTAGCTGCT 59.037 41.667 7.57 7.57 0.00 4.24
597 816 5.163395 ACTGTCCCTTATTTCTACTAGCTGC 60.163 44.000 0.00 0.00 0.00 5.25
598 817 6.472686 ACTGTCCCTTATTTCTACTAGCTG 57.527 41.667 0.00 0.00 0.00 4.24
599 818 7.331791 CAAACTGTCCCTTATTTCTACTAGCT 58.668 38.462 0.00 0.00 0.00 3.32
611 831 2.979678 AGAAGAGCCAAACTGTCCCTTA 59.020 45.455 0.00 0.00 0.00 2.69
765 987 0.674534 GTAGTGAGGTATGGAGGCGG 59.325 60.000 0.00 0.00 0.00 6.13
826 1069 4.849310 TGGGGAATGGCGCGCTAC 62.849 66.667 32.29 16.28 0.00 3.58
979 1222 1.383803 ATCCTCCCCAGAGTCAGCC 60.384 63.158 0.00 0.00 38.58 4.85
987 1230 1.050988 ACACCATCGATCCTCCCCAG 61.051 60.000 0.00 0.00 0.00 4.45
1216 1474 1.060698 CGAAATTCGAAAGACGGAGGC 59.939 52.381 10.18 0.00 43.74 4.70
1217 1475 2.602878 TCGAAATTCGAAAGACGGAGG 58.397 47.619 16.25 0.00 46.90 4.30
1235 1563 4.963237 TTTGAAAAATGGAATGCGTTCG 57.037 36.364 12.42 0.00 35.10 3.95
1285 1613 7.616150 GCTAGGATGTATACTTGGATTCCTCTA 59.384 40.741 3.95 0.00 34.17 2.43
1290 1618 7.100409 GGAAGCTAGGATGTATACTTGGATTC 58.900 42.308 4.17 4.32 0.00 2.52
1300 1628 2.958818 TGTCCGGAAGCTAGGATGTAT 58.041 47.619 5.23 0.00 38.97 2.29
1301 1629 2.447408 TGTCCGGAAGCTAGGATGTA 57.553 50.000 5.23 0.00 38.97 2.29
1348 1676 7.934120 AGCTTCATGTCTTTGTTCTTAACTACT 59.066 33.333 0.00 0.00 0.00 2.57
1352 1680 6.145535 CCAGCTTCATGTCTTTGTTCTTAAC 58.854 40.000 0.00 0.00 0.00 2.01
1361 1689 1.891150 CAAGGCCAGCTTCATGTCTTT 59.109 47.619 5.01 0.00 0.00 2.52
1394 1722 4.053983 GCGCTGTAGAATCATTCATCTCA 58.946 43.478 0.00 0.00 0.00 3.27
1469 1797 3.673956 TAATGCCAGACACGCCCGG 62.674 63.158 0.00 0.00 0.00 5.73
1473 1801 1.078426 ACCCTAATGCCAGACACGC 60.078 57.895 0.00 0.00 0.00 5.34
1474 1802 0.036388 ACACCCTAATGCCAGACACG 60.036 55.000 0.00 0.00 0.00 4.49
1482 1833 4.965119 ATTCGAAAAGACACCCTAATGC 57.035 40.909 0.00 0.00 0.00 3.56
1493 1844 3.380142 GTGGCAGCAAAATTCGAAAAGA 58.620 40.909 0.00 0.00 0.00 2.52
1533 1884 7.337480 TGCTGATACCAATACTTCTTACGTA 57.663 36.000 0.00 0.00 0.00 3.57
1575 1927 4.637534 GCAGACATGTGGAATCTACAATGT 59.362 41.667 1.15 8.68 0.00 2.71
1625 1978 3.772060 AGTACGTATTCAGGTTCGACC 57.228 47.619 0.00 0.00 38.99 4.79
1871 2230 1.534163 GTTGAGGTCGGGTTTAGTTGC 59.466 52.381 0.00 0.00 0.00 4.17
1900 2259 3.615937 CACAGTCAGTGGAGATCGATTTG 59.384 47.826 0.00 0.00 44.69 2.32
1973 2339 4.351938 CCGTGAACGCCGACTCCA 62.352 66.667 0.00 0.00 38.18 3.86
2093 2459 1.756538 GGAACCATACCAGGCCAATTG 59.243 52.381 5.01 0.00 0.00 2.32
2094 2460 1.360852 TGGAACCATACCAGGCCAATT 59.639 47.619 5.01 0.00 33.22 2.32
2111 2479 4.478203 CATAGAGATTCCCTGAGAGTGGA 58.522 47.826 0.00 0.00 0.00 4.02
2121 2489 1.689273 ACCAGACGCATAGAGATTCCC 59.311 52.381 0.00 0.00 0.00 3.97
2131 2499 0.817654 TTCGATGAGACCAGACGCAT 59.182 50.000 0.00 0.00 33.43 4.73
2332 2700 3.077556 GGAGCTCCTCCGGAAGCA 61.078 66.667 26.02 3.88 41.08 3.91
2421 2789 2.071540 CAGATCAGTGCGTTGTGATGT 58.928 47.619 0.00 0.00 33.43 3.06
2426 2794 2.350522 GGATTCAGATCAGTGCGTTGT 58.649 47.619 0.00 0.00 33.77 3.32
2500 2871 0.107800 TGGATCTGCAGCAGCTTCTC 60.108 55.000 18.43 10.85 42.74 2.87
2538 2909 3.998672 TCGTCGTTGGTGGCCTCC 61.999 66.667 17.33 17.33 0.00 4.30
2685 3056 1.992170 AGCTTACGACGTAGCCAAAG 58.008 50.000 19.14 12.42 0.00 2.77
2688 3059 0.179181 CGAAGCTTACGACGTAGCCA 60.179 55.000 19.14 2.64 0.00 4.75
2786 3161 4.991153 TGTTCACCTGCACACAAATTAA 57.009 36.364 0.00 0.00 0.00 1.40
2925 3300 0.323629 TGATGGACCGGAACAGGAAC 59.676 55.000 9.46 1.03 34.73 3.62
2947 3323 2.158769 TGAGCATGGCGTCCAGAATATT 60.159 45.455 4.90 0.00 36.75 1.28
2948 3324 1.417517 TGAGCATGGCGTCCAGAATAT 59.582 47.619 4.90 0.00 36.75 1.28
2949 3325 0.829990 TGAGCATGGCGTCCAGAATA 59.170 50.000 4.90 0.00 36.75 1.75
2984 3370 1.963338 AAGCACGCAGAAGAGGCAC 60.963 57.895 0.00 0.00 0.00 5.01
2986 3372 1.023513 ATCAAGCACGCAGAAGAGGC 61.024 55.000 0.00 0.00 0.00 4.70
2997 3383 2.117156 AGCGCCATCCATCAAGCAC 61.117 57.895 2.29 0.00 0.00 4.40
3020 3408 4.570663 AGGCCGTCGCGTATCTGC 62.571 66.667 5.77 6.30 35.02 4.26
3227 3620 9.371136 CCATACGTGAAGCATTATATAACATCT 57.629 33.333 0.00 0.00 0.00 2.90
3228 3621 9.151471 ACCATACGTGAAGCATTATATAACATC 57.849 33.333 0.00 0.00 0.00 3.06
3229 3622 9.502091 AACCATACGTGAAGCATTATATAACAT 57.498 29.630 0.00 0.00 0.00 2.71
3242 3658 3.004315 AGCAAAACCAACCATACGTGAAG 59.996 43.478 0.00 0.00 0.00 3.02
3245 3661 3.363341 AAGCAAAACCAACCATACGTG 57.637 42.857 0.00 0.00 0.00 4.49
3246 3662 3.381908 TGAAAGCAAAACCAACCATACGT 59.618 39.130 0.00 0.00 0.00 3.57
3247 3663 3.971150 TGAAAGCAAAACCAACCATACG 58.029 40.909 0.00 0.00 0.00 3.06
3431 3856 5.277974 GGCAAGCGAAGAATGAATGCTATTA 60.278 40.000 0.00 0.00 34.19 0.98
3455 3880 7.138081 TGTGCTGTTAATAACAAATGAGTGTG 58.862 34.615 7.30 0.00 41.61 3.82
3458 3883 7.711846 TGTTGTGCTGTTAATAACAAATGAGT 58.288 30.769 7.30 0.00 41.61 3.41
3460 3885 7.436673 GGTTGTTGTGCTGTTAATAACAAATGA 59.563 33.333 7.30 0.00 41.26 2.57
3461 3886 7.307101 GGGTTGTTGTGCTGTTAATAACAAATG 60.307 37.037 7.30 0.00 41.26 2.32
3462 3887 6.704050 GGGTTGTTGTGCTGTTAATAACAAAT 59.296 34.615 7.30 0.00 41.26 2.32
3464 3889 5.127194 TGGGTTGTTGTGCTGTTAATAACAA 59.873 36.000 7.30 0.00 41.61 2.83
3465 3890 4.645136 TGGGTTGTTGTGCTGTTAATAACA 59.355 37.500 5.66 5.66 39.52 2.41
3466 3891 5.189659 TGGGTTGTTGTGCTGTTAATAAC 57.810 39.130 0.00 0.00 0.00 1.89
3511 3936 6.932960 CCAAATGATGAGCTGTCTATGTATGA 59.067 38.462 0.00 0.00 0.00 2.15
3512 3937 6.932960 TCCAAATGATGAGCTGTCTATGTATG 59.067 38.462 0.00 0.00 0.00 2.39
3513 3938 7.071069 TCCAAATGATGAGCTGTCTATGTAT 57.929 36.000 0.00 0.00 0.00 2.29
3514 3939 6.484364 TCCAAATGATGAGCTGTCTATGTA 57.516 37.500 0.00 0.00 0.00 2.29
3516 3941 4.213694 GCTCCAAATGATGAGCTGTCTATG 59.786 45.833 0.00 0.00 37.66 2.23
3517 3942 4.141551 TGCTCCAAATGATGAGCTGTCTAT 60.142 41.667 12.18 0.00 40.93 1.98
3518 3943 3.198417 TGCTCCAAATGATGAGCTGTCTA 59.802 43.478 12.18 0.00 40.93 2.59
3519 3944 2.026542 TGCTCCAAATGATGAGCTGTCT 60.027 45.455 12.18 0.00 40.93 3.41
3520 3945 2.362736 TGCTCCAAATGATGAGCTGTC 58.637 47.619 12.18 0.00 40.93 3.51
3521 3946 2.502142 TGCTCCAAATGATGAGCTGT 57.498 45.000 12.18 0.00 40.93 4.40
3523 3948 2.175069 AGGATGCTCCAAATGATGAGCT 59.825 45.455 12.18 0.00 39.61 4.09
3524 3949 2.584236 AGGATGCTCCAAATGATGAGC 58.416 47.619 4.61 4.61 39.61 4.26
3525 3950 6.060136 TCTTAAGGATGCTCCAAATGATGAG 58.940 40.000 1.85 0.00 39.61 2.90
3526 3951 6.005066 TCTTAAGGATGCTCCAAATGATGA 57.995 37.500 1.85 0.00 39.61 2.92
3527 3952 6.896021 ATCTTAAGGATGCTCCAAATGATG 57.104 37.500 1.85 0.00 39.61 3.07
3528 3953 7.909485 AAATCTTAAGGATGCTCCAAATGAT 57.091 32.000 1.85 3.56 39.61 2.45
3529 3954 7.722949 AAAATCTTAAGGATGCTCCAAATGA 57.277 32.000 1.85 1.81 39.61 2.57
3531 3956 8.829373 AGTAAAATCTTAAGGATGCTCCAAAT 57.171 30.769 1.85 0.00 39.61 2.32
3532 3957 9.920946 ATAGTAAAATCTTAAGGATGCTCCAAA 57.079 29.630 1.85 0.00 39.61 3.28
3615 4065 2.159310 GGCGGTTGCTGCAAATATTACA 60.159 45.455 17.80 0.00 42.25 2.41
3795 4246 4.521075 GCGATGAGCCTGCTGTAA 57.479 55.556 0.00 0.00 40.81 2.41
3923 4378 0.608856 TCGTAGTACTCCACCGGCAA 60.609 55.000 0.00 0.00 0.00 4.52
4192 4647 1.454479 CAGCGGCTTCCCATCCAAT 60.454 57.895 0.00 0.00 0.00 3.16
4213 4668 1.794714 AAGATCGGTACTCCATGGCT 58.205 50.000 6.96 0.00 0.00 4.75
4293 4748 1.647702 CGACTCTAAAAAGCCGACGAC 59.352 52.381 0.00 0.00 0.00 4.34
4300 4755 4.621886 ACGAGAATGACGACTCTAAAAAGC 59.378 41.667 0.00 0.00 34.70 3.51
4301 4756 6.692232 AACGAGAATGACGACTCTAAAAAG 57.308 37.500 0.00 0.00 34.70 2.27
4307 4762 3.119919 GGTGTAACGAGAATGACGACTCT 60.120 47.826 0.00 0.00 38.12 3.24
4311 4766 3.079578 AGAGGTGTAACGAGAATGACGA 58.920 45.455 0.00 0.00 38.12 4.20
4313 4768 3.126514 TCGAGAGGTGTAACGAGAATGAC 59.873 47.826 0.00 0.00 38.12 3.06
4319 4774 1.402259 AGCATCGAGAGGTGTAACGAG 59.598 52.381 0.00 0.00 46.24 4.18
4350 4805 0.533491 TTCTGCATTTCAGCCATGCC 59.467 50.000 2.56 0.00 45.59 4.40
4388 4843 3.304525 GCAGCTTCATGATAATCTGTGCC 60.305 47.826 0.00 0.00 0.00 5.01
4450 4905 5.049954 GTCGCTTGATAAGTCTCGAGAGTAT 60.050 44.000 22.75 18.53 30.80 2.12
4577 5033 4.450053 AGGAGAAGAAGATGCAGCATTAC 58.550 43.478 9.90 4.44 0.00 1.89
4580 5036 2.158784 GGAGGAGAAGAAGATGCAGCAT 60.159 50.000 7.91 7.91 0.00 3.79
4681 5137 1.953559 TACAAGGCATCGCAAGGATC 58.046 50.000 0.00 0.00 31.28 3.36
4740 5196 4.557205 CATCGATCAGAGCATTGAGATGA 58.443 43.478 0.00 3.97 34.31 2.92
4771 5227 1.333177 CCCCGGGAAATCAAACACAA 58.667 50.000 26.32 0.00 0.00 3.33
4776 5232 2.175202 CATTCACCCCGGGAAATCAAA 58.825 47.619 26.32 7.63 0.00 2.69
4790 5251 3.393800 CCACCTGATCGATACCATTCAC 58.606 50.000 0.00 0.00 0.00 3.18
4797 5258 2.557490 GGTAGTCCCACCTGATCGATAC 59.443 54.545 0.00 0.00 35.55 2.24
4881 5342 2.046892 CCCAGCGACAGGAACAGG 60.047 66.667 0.00 0.00 0.00 4.00
5079 5540 3.334891 ATGTACTTGGGCGGGCCA 61.335 61.111 20.63 20.63 37.98 5.36
5160 5621 1.096386 CCTCGTTCTCGTCCTCCGAT 61.096 60.000 0.00 0.00 46.23 4.18
5241 5702 2.915659 ACCCGCTTCACCGACTCA 60.916 61.111 0.00 0.00 0.00 3.41
5376 5837 0.881118 GCACCCGCTTCTTGATGAAA 59.119 50.000 0.00 0.00 33.79 2.69
5541 6002 4.135493 GCGAACGCCAGCGAGAAC 62.135 66.667 20.32 5.85 42.83 3.01
5671 6132 2.355363 CGACGACGGAAGCACCAA 60.355 61.111 0.00 0.00 38.90 3.67
6023 6495 5.181009 TCTTATTCTCACATCACTTGCCAG 58.819 41.667 0.00 0.00 0.00 4.85
6247 6787 7.168905 AGGGAGTATTTGTTTTGTTCTCTAGG 58.831 38.462 0.00 0.00 0.00 3.02
6300 6840 6.764560 ACTCCGTTTGTAAAGAAATGTAGTGT 59.235 34.615 0.00 0.00 0.00 3.55
6366 6976 4.289934 ACTCCGAGTCTGGATGATAGGATA 59.710 45.833 0.00 0.00 37.41 2.59
6385 6995 4.434713 ACAAACAACACAAGTTCACTCC 57.565 40.909 0.00 0.00 35.28 3.85
6394 7004 3.997681 TCACTCGAGAACAAACAACACAA 59.002 39.130 21.68 0.00 0.00 3.33
6404 7014 7.496529 AATTTTCAGATTTCACTCGAGAACA 57.503 32.000 21.68 0.00 0.00 3.18
6405 7015 7.149063 GCAAATTTTCAGATTTCACTCGAGAAC 60.149 37.037 21.68 3.54 0.00 3.01
6407 7017 6.017192 TGCAAATTTTCAGATTTCACTCGAGA 60.017 34.615 21.68 0.00 0.00 4.04
6408 7018 6.087291 GTGCAAATTTTCAGATTTCACTCGAG 59.913 38.462 11.84 11.84 31.66 4.04
6409 7019 5.914635 GTGCAAATTTTCAGATTTCACTCGA 59.085 36.000 0.00 0.00 31.66 4.04
6422 7032 7.041916 TCCATGATTTCAAGTGTGCAAATTTTC 60.042 33.333 0.00 0.00 0.00 2.29
6438 7048 8.419442 AGAATAGCCTTTCAATTCCATGATTTC 58.581 33.333 0.00 0.00 31.35 2.17
6447 7057 8.992835 AAACAATCAGAATAGCCTTTCAATTC 57.007 30.769 0.00 0.00 0.00 2.17
6591 7201 2.433970 TCTTTGTTTGAGCCCCAAAAGG 59.566 45.455 3.78 0.00 45.40 3.11
6660 7270 5.478332 AGAAGAGGTTGTTGGATGGATTTTC 59.522 40.000 0.00 0.00 0.00 2.29
6687 7297 1.913762 CCCTCCTCTCACACCCGTT 60.914 63.158 0.00 0.00 0.00 4.44
6690 7300 1.990614 GGACCCTCCTCTCACACCC 60.991 68.421 0.00 0.00 32.53 4.61
6715 7325 4.662145 GTTCTCGGAAATTTCGCAATGAT 58.338 39.130 11.95 0.00 0.00 2.45
6793 7403 1.131504 CGAGGAGGAAGAAGACTGACG 59.868 57.143 0.00 0.00 0.00 4.35
6867 7478 1.748122 GACTGCTGGCATGGTGAGG 60.748 63.158 0.00 0.00 0.00 3.86
6874 7485 0.035317 TCAAAGACGACTGCTGGCAT 59.965 50.000 0.00 0.00 0.00 4.40
6907 7518 1.546476 GTCCTCCATGGCTATACTCGG 59.454 57.143 6.96 0.00 35.26 4.63
6943 7554 4.152647 CCCATGTATAGCTGGTGACTCTA 58.847 47.826 0.00 0.00 0.00 2.43
6944 7555 2.968574 CCCATGTATAGCTGGTGACTCT 59.031 50.000 0.00 0.00 0.00 3.24
6950 7561 1.212375 TGCACCCATGTATAGCTGGT 58.788 50.000 0.00 0.00 0.00 4.00
6951 7562 2.224597 TGATGCACCCATGTATAGCTGG 60.225 50.000 0.00 0.00 30.29 4.85


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

AutoCloner maintained by Alex Coulton.