Multiple sequence alignment - TraesCS6D01G147700

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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 TraesCS6D01G147700 chr6D 100.000 3936 0 0 1 3936 120660734 120656799 0.000000e+00 7269.0
1 TraesCS6D01G147700 chr6D 93.478 92 3 3 1 89 247627620 247627711 2.470000e-27 134.0
2 TraesCS6D01G147700 chr6B 96.248 1466 48 5 1622 3082 212567083 212568546 0.000000e+00 2396.0
3 TraesCS6D01G147700 chr6B 93.432 807 35 8 3130 3936 212568708 212569496 0.000000e+00 1181.0
4 TraesCS6D01G147700 chr6B 94.033 553 28 3 1023 1571 212566509 212567060 0.000000e+00 833.0
5 TraesCS6D01G147700 chr5D 98.686 685 8 1 1 684 547233388 547234072 0.000000e+00 1214.0
6 TraesCS6D01G147700 chr6A 91.375 800 45 12 844 1621 158922533 158921736 0.000000e+00 1074.0
7 TraesCS6D01G147700 chr6A 92.216 758 38 11 2301 3045 158921032 158920283 0.000000e+00 1053.0
8 TraesCS6D01G147700 chr6A 95.613 661 20 5 1622 2273 158921692 158921032 0.000000e+00 1051.0
9 TraesCS6D01G147700 chr6A 87.339 545 50 11 3402 3936 158919856 158919321 1.210000e-169 606.0
10 TraesCS6D01G147700 chr6A 95.349 43 2 0 1579 1621 252749647 252749605 7.060000e-08 69.4
11 TraesCS6D01G147700 chr6A 100.000 34 0 0 1582 1615 158921701 158921734 3.280000e-06 63.9
12 TraesCS6D01G147700 chr7A 86.103 698 57 15 171 848 463443612 463444289 0.000000e+00 715.0
13 TraesCS6D01G147700 chr7A 83.623 403 32 15 171 550 535401202 535401593 8.090000e-92 348.0
14 TraesCS6D01G147700 chr7A 89.147 129 11 1 1 126 463443281 463443409 1.460000e-34 158.0
15 TraesCS6D01G147700 chr7A 96.739 92 3 0 3072 3163 21260022 21259931 1.890000e-33 154.0
16 TraesCS6D01G147700 chr7A 94.792 96 4 1 3073 3168 167268877 167268783 8.810000e-32 148.0
17 TraesCS6D01G147700 chr5B 90.376 426 32 6 422 846 79559816 79560233 5.750000e-153 551.0
18 TraesCS6D01G147700 chr5B 92.424 132 6 2 1 129 79553386 79553516 6.720000e-43 185.0
19 TraesCS6D01G147700 chr5B 95.960 99 3 1 3064 3161 461134485 461134387 4.070000e-35 159.0
20 TraesCS6D01G147700 chr2D 89.414 444 33 8 414 856 36553143 36552713 7.440000e-152 547.0
21 TraesCS6D01G147700 chr2D 95.789 95 2 2 3070 3164 217496995 217496903 6.810000e-33 152.0
22 TraesCS6D01G147700 chr2D 95.745 94 4 0 3067 3160 645082976 645083069 6.810000e-33 152.0
23 TraesCS6D01G147700 chr2D 97.561 41 1 0 1581 1621 146408117 146408157 1.960000e-08 71.3
24 TraesCS6D01G147700 chr4A 89.136 405 34 6 443 846 688046442 688046837 2.730000e-136 496.0
25 TraesCS6D01G147700 chr3B 88.642 405 34 9 443 846 382152121 382151728 2.130000e-132 483.0
26 TraesCS6D01G147700 chr3B 88.264 409 36 9 443 850 161761196 161761593 2.750000e-131 479.0
27 TraesCS6D01G147700 chr4B 88.119 404 37 7 444 846 77006514 77006907 1.660000e-128 470.0
28 TraesCS6D01G147700 chr2B 87.901 405 33 8 443 846 762097515 762097126 2.770000e-126 462.0
29 TraesCS6D01G147700 chr3D 81.172 239 29 12 1 224 611376210 611376447 1.120000e-40 178.0
30 TraesCS6D01G147700 chr7D 98.864 88 1 0 3074 3161 494673680 494673593 1.460000e-34 158.0
31 TraesCS6D01G147700 chr2A 96.774 93 2 1 3073 3164 185729103 185729195 1.890000e-33 154.0
32 TraesCS6D01G147700 chr2A 95.556 45 1 1 1581 1624 680521961 680522005 1.960000e-08 71.3
33 TraesCS6D01G147700 chr4D 100.000 79 0 0 867 945 484473123 484473045 3.170000e-31 147.0
34 TraesCS6D01G147700 chr4D 97.727 44 1 0 1580 1623 19394963 19395006 4.220000e-10 76.8
35 TraesCS6D01G147700 chr5A 91.589 107 6 3 3059 3163 178391477 178391582 1.140000e-30 145.0
36 TraesCS6D01G147700 chr5A 95.238 42 2 0 1581 1622 400392172 400392131 2.540000e-07 67.6
37 TraesCS6D01G147700 chr5A 94.737 38 1 1 1593 1630 445252561 445252597 1.530000e-04 58.4
38 TraesCS6D01G147700 chr1D 92.157 102 6 2 3065 3164 68449223 68449122 4.100000e-30 143.0
39 TraesCS6D01G147700 chr1D 92.857 42 3 0 1581 1622 24048064 24048105 1.180000e-05 62.1


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 TraesCS6D01G147700 chr6D 120656799 120660734 3935 True 7269.0 7269 100.00000 1 3936 1 chr6D.!!$R1 3935
1 TraesCS6D01G147700 chr6B 212566509 212569496 2987 False 1470.0 2396 94.57100 1023 3936 3 chr6B.!!$F1 2913
2 TraesCS6D01G147700 chr5D 547233388 547234072 684 False 1214.0 1214 98.68600 1 684 1 chr5D.!!$F1 683
3 TraesCS6D01G147700 chr6A 158919321 158922533 3212 True 946.0 1074 91.63575 844 3936 4 chr6A.!!$R2 3092
4 TraesCS6D01G147700 chr7A 463443281 463444289 1008 False 436.5 715 87.62500 1 848 2 chr7A.!!$F2 847

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
663 853 0.034337 TGACGGAGGGGAAGTTTTCG 59.966 55.0 0.0 0.0 0.0 3.46 F
1190 1396 0.048117 TACCTCCCCTCTCCCTCTCT 59.952 60.0 0.0 0.0 0.0 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2400 2670 0.251742 CCCAAATGGTCCTGAAGCCA 60.252 55.0 0.0 0.0 39.33 4.75 R
3148 3562 0.459759 GGCGAAAACTACTCCCTCCG 60.460 60.0 0.0 0.0 0.00 4.63 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
89 93 1.000359 TCGGAGGAGATGACCTGCA 60.000 57.895 0.00 0.00 46.40 4.41
472 661 5.395682 ACAACAAATGCATGCAGACTATT 57.604 34.783 26.69 12.15 0.00 1.73
663 853 0.034337 TGACGGAGGGGAAGTTTTCG 59.966 55.000 0.00 0.00 0.00 3.46
674 864 2.647680 AAGTTTTCGTCGGCCGGTGA 62.648 55.000 27.83 20.55 37.11 4.02
800 990 2.170166 ACCGATGTACACTTAACGGGA 58.830 47.619 21.72 0.00 43.76 5.14
813 1003 4.456566 ACTTAACGGGATGCACGTAAAAAT 59.543 37.500 0.93 0.00 44.83 1.82
820 1010 5.391097 CGGGATGCACGTAAAAATGTTCTTA 60.391 40.000 0.00 0.00 0.00 2.10
895 1085 3.215975 CCCAAAGACCTACCACGAAAAA 58.784 45.455 0.00 0.00 0.00 1.94
912 1102 6.196535 CGAAAAACATTTTCGCAATTCTCA 57.803 33.333 20.59 0.00 43.52 3.27
923 1113 0.445436 CAATTCTCAGAGCGCACCAC 59.555 55.000 11.47 0.00 0.00 4.16
942 1132 0.250295 CCCACCAACTTCTTCTGCGA 60.250 55.000 0.00 0.00 0.00 5.10
1006 1206 2.989253 TCGGTGCGCCAGAGAGAA 60.989 61.111 18.18 0.00 34.09 2.87
1065 1270 2.920384 GCGATCCCCCTCCTCCTC 60.920 72.222 0.00 0.00 0.00 3.71
1182 1388 2.363361 CACCGGTACCTCCCCTCT 59.637 66.667 6.87 0.00 0.00 3.69
1190 1396 0.048117 TACCTCCCCTCTCCCTCTCT 59.952 60.000 0.00 0.00 0.00 3.10
1286 1496 1.080093 GATCGCAGGTCGTTGGTGA 60.080 57.895 0.00 0.00 39.67 4.02
1288 1498 0.740868 ATCGCAGGTCGTTGGTGATG 60.741 55.000 0.00 0.00 39.67 3.07
1418 1631 2.094659 CGCGTCGGAGATGTTTGCT 61.095 57.895 0.00 0.00 46.97 3.91
1420 1633 1.970917 GCGTCGGAGATGTTTGCTGG 61.971 60.000 0.00 0.00 46.97 4.85
1436 1649 0.258484 CTGGATGGGGTGTAATGCCA 59.742 55.000 0.00 0.00 0.00 4.92
1528 1741 1.212229 GCTGCTCTGCTTTTGCCTC 59.788 57.895 0.00 0.00 46.87 4.70
1559 1772 5.784578 AGGTGGTAAAGTTCAACATTTCC 57.215 39.130 0.00 0.00 0.00 3.13
1603 1816 7.769044 GTGTACTCCCTCTGCAAAGAAATATAA 59.231 37.037 0.00 0.00 0.00 0.98
1713 1973 5.503194 CGCAACCTGGTTTTTATTTTGTTGG 60.503 40.000 9.90 0.00 34.08 3.77
1767 2027 6.201234 TGTGATGTTTGTTTGATGCATTTGAG 59.799 34.615 0.00 0.00 0.00 3.02
1854 2114 1.135689 AGTTTTTGCAATAGGCTCGCG 60.136 47.619 0.00 0.00 45.15 5.87
2014 2276 5.550290 TCTGTGTTCTGTGCATATTTCAGA 58.450 37.500 0.10 0.10 36.59 3.27
2025 2287 6.539826 TGTGCATATTTCAGAGTGGACAATAG 59.460 38.462 0.00 0.00 39.43 1.73
2051 2314 6.734532 TGTAGTGGTTATGAGGGAACTACTA 58.265 40.000 7.42 7.42 44.08 1.82
2108 2371 6.047870 TGCACATTGTTAAACTGCATTTCTT 58.952 32.000 0.00 0.00 32.97 2.52
2398 2668 6.694411 CACATGCCATAATAGAGCTGTTTTTC 59.306 38.462 0.00 0.00 0.00 2.29
2399 2669 6.604795 ACATGCCATAATAGAGCTGTTTTTCT 59.395 34.615 0.00 0.00 0.00 2.52
2400 2670 7.123247 ACATGCCATAATAGAGCTGTTTTTCTT 59.877 33.333 0.00 0.00 0.00 2.52
2401 2671 6.855836 TGCCATAATAGAGCTGTTTTTCTTG 58.144 36.000 0.00 0.00 0.00 3.02
2402 2672 6.127647 TGCCATAATAGAGCTGTTTTTCTTGG 60.128 38.462 0.00 0.00 0.00 3.61
2403 2673 6.268566 CCATAATAGAGCTGTTTTTCTTGGC 58.731 40.000 0.00 0.00 0.00 4.52
2474 2744 0.753262 CCTCTGTATCCCAGGGAACG 59.247 60.000 13.94 8.79 45.27 3.95
2604 2874 3.006537 ACGTTTCAGCTTAGCCTTACTCA 59.993 43.478 0.00 0.00 0.00 3.41
2742 3019 1.094073 GCGATGCAGGTGAGCTCAAT 61.094 55.000 20.19 7.89 34.99 2.57
2754 3031 4.197750 GTGAGCTCAATTCACTGATGGAT 58.802 43.478 20.19 0.00 41.29 3.41
2840 3117 1.565305 GAGAATCTGCGCTTCGACAT 58.435 50.000 9.73 0.00 0.00 3.06
2843 3120 0.647410 AATCTGCGCTTCGACATTCG 59.353 50.000 9.73 0.00 42.10 3.34
2963 3240 2.771943 AGGGCTTGTGAGATCCGAAATA 59.228 45.455 0.00 0.00 0.00 1.40
2967 3244 4.024556 GGCTTGTGAGATCCGAAATATGTG 60.025 45.833 0.00 0.00 0.00 3.21
2991 3268 4.402056 TCACTCGAGTTCCTTTGTTTCT 57.598 40.909 17.26 0.00 0.00 2.52
3083 3360 7.629157 TCTGATGATAGTAGATACTCCCTCTG 58.371 42.308 0.00 0.00 37.73 3.35
3085 3362 7.398829 TGATGATAGTAGATACTCCCTCTGTC 58.601 42.308 0.00 0.00 37.73 3.51
3089 3366 3.730059 AGTAGATACTCCCTCTGTCCCAT 59.270 47.826 0.00 0.00 0.00 4.00
3090 3367 4.920749 AGTAGATACTCCCTCTGTCCCATA 59.079 45.833 0.00 0.00 0.00 2.74
3091 3368 4.834406 AGATACTCCCTCTGTCCCATAA 57.166 45.455 0.00 0.00 0.00 1.90
3092 3369 5.361630 AGATACTCCCTCTGTCCCATAAT 57.638 43.478 0.00 0.00 0.00 1.28
3093 3370 6.485388 AGATACTCCCTCTGTCCCATAATA 57.515 41.667 0.00 0.00 0.00 0.98
3094 3371 7.062584 AGATACTCCCTCTGTCCCATAATAT 57.937 40.000 0.00 0.00 0.00 1.28
3095 3372 8.188501 AGATACTCCCTCTGTCCCATAATATA 57.811 38.462 0.00 0.00 0.00 0.86
3096 3373 8.633724 AGATACTCCCTCTGTCCCATAATATAA 58.366 37.037 0.00 0.00 0.00 0.98
3097 3374 8.846423 ATACTCCCTCTGTCCCATAATATAAG 57.154 38.462 0.00 0.00 0.00 1.73
3098 3375 6.875469 ACTCCCTCTGTCCCATAATATAAGA 58.125 40.000 0.00 0.00 0.00 2.10
3099 3376 6.957020 ACTCCCTCTGTCCCATAATATAAGAG 59.043 42.308 0.00 0.00 0.00 2.85
3100 3377 5.721960 TCCCTCTGTCCCATAATATAAGAGC 59.278 44.000 0.00 0.00 0.00 4.09
3101 3378 5.394663 CCCTCTGTCCCATAATATAAGAGCG 60.395 48.000 0.00 0.00 0.00 5.03
3103 3380 6.295349 CCTCTGTCCCATAATATAAGAGCGTT 60.295 42.308 0.00 0.00 0.00 4.84
3105 3382 7.506114 TCTGTCCCATAATATAAGAGCGTTTT 58.494 34.615 0.00 0.00 0.00 2.43
3134 3411 4.743644 ACTAGTGTAGTGTCAAAAACGCTC 59.256 41.667 0.00 0.00 45.69 5.03
3136 3413 4.189231 AGTGTAGTGTCAAAAACGCTCTT 58.811 39.130 0.00 0.00 45.69 2.85
3137 3414 5.353938 AGTGTAGTGTCAAAAACGCTCTTA 58.646 37.500 0.00 0.00 45.69 2.10
3138 3415 5.989777 AGTGTAGTGTCAAAAACGCTCTTAT 59.010 36.000 0.00 0.00 45.69 1.73
3146 3560 7.855904 GTGTCAAAAACGCTCTTATATTATGGG 59.144 37.037 0.00 0.00 35.42 4.00
3148 3562 8.068380 GTCAAAAACGCTCTTATATTATGGGAC 58.932 37.037 0.00 0.00 0.00 4.46
3173 3587 1.675116 GGAGTAGTTTTCGCCCTGGTC 60.675 57.143 0.00 0.00 0.00 4.02
3177 3591 0.765510 AGTTTTCGCCCTGGTCTCTT 59.234 50.000 0.00 0.00 0.00 2.85
3179 3593 0.762418 TTTTCGCCCTGGTCTCTTGA 59.238 50.000 0.00 0.00 0.00 3.02
3220 3634 9.678260 GAGGAATTTGCAATAGGATCAGTATAT 57.322 33.333 0.00 0.00 0.00 0.86
3286 3700 7.715265 AATACCGCAGACTAATTCATAACAG 57.285 36.000 0.00 0.00 0.00 3.16
3287 3701 3.871594 ACCGCAGACTAATTCATAACAGC 59.128 43.478 0.00 0.00 0.00 4.40
3387 3819 7.915397 GTGAAAATCTTCAGTTTACAGCAAGAA 59.085 33.333 0.00 0.00 42.27 2.52
3392 3824 7.525688 TCTTCAGTTTACAGCAAGAATATCG 57.474 36.000 0.00 0.00 0.00 2.92
3477 4113 4.579869 TCACCTGAATACCAGCTCTTTTC 58.420 43.478 0.00 0.00 41.57 2.29
3557 4200 4.503910 TCAATGCTAAACACAGCGATACT 58.496 39.130 0.00 0.00 44.88 2.12
3683 4337 2.203538 AACTGCAGGCCACAAGGG 60.204 61.111 19.93 0.00 40.85 3.95
3688 4342 3.160585 CAGGCCACAAGGGAGACA 58.839 61.111 5.01 0.00 40.01 3.41
3723 4377 3.885297 CCTTCTTGATGTTCCAGTTGTGT 59.115 43.478 0.00 0.00 0.00 3.72
3751 4405 4.365111 GCCCAGTGGTGATGCCCA 62.365 66.667 8.74 0.00 36.04 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 93 2.126071 CGCCTCATTGACGTCGGT 60.126 61.111 11.62 0.00 0.00 4.69
472 661 2.745884 CGCCCAATCAACGCCTCA 60.746 61.111 0.00 0.00 0.00 3.86
663 853 4.309950 ACCACTTCACCGGCCGAC 62.310 66.667 30.73 0.00 0.00 4.79
674 864 5.968676 TTATAATAGGCTGACCACCACTT 57.031 39.130 0.00 0.00 39.06 3.16
764 954 6.080648 ACATCGGTTAATTAGCATCGTCTA 57.919 37.500 1.55 0.00 0.00 2.59
770 960 8.823818 GTTAAGTGTACATCGGTTAATTAGCAT 58.176 33.333 0.00 0.00 0.00 3.79
782 972 2.538449 GCATCCCGTTAAGTGTACATCG 59.462 50.000 0.00 0.00 0.00 3.84
783 973 3.308866 GTGCATCCCGTTAAGTGTACATC 59.691 47.826 0.00 0.00 0.00 3.06
784 974 3.267483 GTGCATCCCGTTAAGTGTACAT 58.733 45.455 0.00 0.00 0.00 2.29
800 990 9.638239 ATCAAATAAGAACATTTTTACGTGCAT 57.362 25.926 0.00 0.00 0.00 3.96
836 1026 4.597004 TCGTCCTTGTACTTCTCCACTAT 58.403 43.478 0.00 0.00 0.00 2.12
849 1039 0.537371 CTGGGCCTTTTCGTCCTTGT 60.537 55.000 4.53 0.00 0.00 3.16
878 1068 6.459670 AAAATGTTTTTCGTGGTAGGTCTT 57.540 33.333 0.00 0.00 0.00 3.01
895 1085 4.088823 GCTCTGAGAATTGCGAAAATGT 57.911 40.909 9.28 0.00 0.00 2.71
907 1097 2.343758 GGTGGTGCGCTCTGAGAA 59.656 61.111 9.73 0.00 0.00 2.87
923 1113 0.250295 TCGCAGAAGAAGTTGGTGGG 60.250 55.000 0.00 0.00 0.00 4.61
942 1132 7.448777 GGTGGTTTCTCTATTTCTCTCCTTTTT 59.551 37.037 0.00 0.00 0.00 1.94
998 1188 5.982356 TCTCTCTCTCTCTCTTTCTCTCTG 58.018 45.833 0.00 0.00 0.00 3.35
1006 1206 6.013379 TGTTTCTCTCTCTCTCTCTCTCTCTT 60.013 42.308 0.00 0.00 0.00 2.85
1182 1388 2.190843 CGCGGAGAGAGAGAGGGA 59.809 66.667 0.00 0.00 0.00 4.20
1276 1486 1.908066 GCCGTTCCATCACCAACGAC 61.908 60.000 5.80 0.00 46.70 4.34
1286 1496 2.173669 CAAGATCGCGCCGTTCCAT 61.174 57.895 0.00 0.00 0.00 3.41
1288 1498 2.799540 GACAAGATCGCGCCGTTCC 61.800 63.158 0.00 0.00 0.00 3.62
1418 1631 0.033601 GTGGCATTACACCCCATCCA 60.034 55.000 0.00 0.00 35.34 3.41
1436 1649 5.591067 TCAAAACAACCAGAATAAACTCGGT 59.409 36.000 0.00 0.00 0.00 4.69
1512 1725 1.624336 AATGAGGCAAAAGCAGAGCA 58.376 45.000 0.00 0.00 0.00 4.26
1528 1741 7.446013 TGTTGAACTTTACCACCTAACCTAATG 59.554 37.037 0.00 0.00 0.00 1.90
1603 1816 6.147492 CCGTACTATAGTGCTCTAAACGATCT 59.853 42.308 18.86 0.00 30.87 2.75
1615 1828 4.037684 AGAACCATCACCGTACTATAGTGC 59.962 45.833 15.90 13.18 0.00 4.40
1854 2114 5.751243 TGTGTTTTCTCCAACTAGCTTTC 57.249 39.130 0.00 0.00 0.00 2.62
1862 2122 0.317854 GCGGCTGTGTTTTCTCCAAC 60.318 55.000 0.00 0.00 0.00 3.77
1874 2134 2.297895 TAGGTCCCAATGCGGCTGT 61.298 57.895 0.00 0.00 0.00 4.40
1987 2247 7.330262 TGAAATATGCACAGAACACAGATCTA 58.670 34.615 0.00 0.00 0.00 1.98
2014 2276 5.562298 AACCACTACAACTATTGTCCACT 57.438 39.130 0.00 0.00 44.12 4.00
2025 2287 5.161943 AGTTCCCTCATAACCACTACAAC 57.838 43.478 0.00 0.00 0.00 3.32
2051 2314 3.157087 CCAAAGCCACTCCAACTAATGT 58.843 45.455 0.00 0.00 0.00 2.71
2108 2371 9.620259 TGTACTACACATTGAATGGCATTAATA 57.380 29.630 13.65 1.77 30.04 0.98
2214 2479 1.401905 GCGGAATCACCATCAACCTTC 59.598 52.381 0.00 0.00 38.90 3.46
2398 2668 1.547372 CCAAATGGTCCTGAAGCCAAG 59.453 52.381 0.00 0.00 38.38 3.61
2399 2669 1.631405 CCAAATGGTCCTGAAGCCAA 58.369 50.000 0.00 0.00 38.38 4.52
2400 2670 0.251742 CCCAAATGGTCCTGAAGCCA 60.252 55.000 0.00 0.00 39.33 4.75
2401 2671 2.583472 CCCAAATGGTCCTGAAGCC 58.417 57.895 0.00 0.00 0.00 4.35
2474 2744 3.859386 CACTTTCAACAGCACCAAAGTTC 59.141 43.478 0.00 0.00 37.04 3.01
2604 2874 5.582953 TCAATCCTTGACAATGGATTCCTT 58.417 37.500 20.22 0.00 46.61 3.36
2742 3019 5.233083 ACTTCTTGTCATCCATCAGTGAA 57.767 39.130 0.00 0.00 0.00 3.18
2754 3031 6.292865 CGCAGAATTTTGAGTACTTCTTGTCA 60.293 38.462 0.00 0.00 0.00 3.58
2840 3117 2.546368 GCACATGACAAACACCTACGAA 59.454 45.455 0.00 0.00 0.00 3.85
2843 3120 2.878406 ACAGCACATGACAAACACCTAC 59.122 45.455 0.00 0.00 0.00 3.18
2950 3227 7.290110 AGTGATACACATATTTCGGATCTCA 57.710 36.000 4.75 0.00 36.74 3.27
2963 3240 5.171476 CAAAGGAACTCGAGTGATACACAT 58.829 41.667 20.85 0.00 38.49 3.21
2967 3244 5.927115 AGAAACAAAGGAACTCGAGTGATAC 59.073 40.000 20.85 4.89 38.49 2.24
2991 3268 3.765381 TCAGAGATGAAACCATGGCAAA 58.235 40.909 13.04 0.00 0.00 3.68
3048 3325 6.743110 TCTACTATCATCAGAATGCACAGAC 58.257 40.000 0.00 0.00 34.76 3.51
3111 3388 4.690122 AGCGTTTTTGACACTACACTAGT 58.310 39.130 0.00 0.00 40.28 2.57
3112 3389 4.982916 AGAGCGTTTTTGACACTACACTAG 59.017 41.667 0.00 0.00 0.00 2.57
3124 3401 7.069569 CGTCCCATAATATAAGAGCGTTTTTG 58.930 38.462 0.00 0.00 0.00 2.44
3125 3402 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
3126 3403 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
3127 3404 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
3129 3406 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
3130 3407 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
3132 3409 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
3134 3411 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
3136 3413 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
3137 3414 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
3138 3415 3.400322 ACTACTCCCTCCGTCCCATAATA 59.600 47.826 0.00 0.00 0.00 0.98
3146 3560 1.735038 GCGAAAACTACTCCCTCCGTC 60.735 57.143 0.00 0.00 0.00 4.79
3148 3562 0.459759 GGCGAAAACTACTCCCTCCG 60.460 60.000 0.00 0.00 0.00 4.63
3173 3587 3.879295 TCCAGAAAAACTGCAGTCAAGAG 59.121 43.478 21.95 8.85 44.52 2.85
3177 3591 2.172505 TCCTCCAGAAAAACTGCAGTCA 59.827 45.455 21.95 0.00 44.52 3.41
3179 3593 3.297134 TTCCTCCAGAAAAACTGCAGT 57.703 42.857 15.25 15.25 44.52 4.40
3220 3634 1.270625 CGGTCCAGTCTGTTTAGGCAA 60.271 52.381 0.00 0.00 0.00 4.52
3226 3640 1.598130 GCAGCGGTCCAGTCTGTTT 60.598 57.895 0.00 0.00 0.00 2.83
3286 3700 4.614946 ACTGATTTTGAAGAGTTTGCTGC 58.385 39.130 0.00 0.00 0.00 5.25
3287 3701 7.701924 TGTAAACTGATTTTGAAGAGTTTGCTG 59.298 33.333 0.00 0.00 39.98 4.41
3335 3749 8.500753 TGTTATGAATTAGTCTGCCGTATTTT 57.499 30.769 0.00 0.00 0.00 1.82
3387 3819 7.834881 TGGGTCTTCTGTATAACTTCGATAT 57.165 36.000 0.00 0.00 0.00 1.63
3392 3824 8.561738 TTTTGATGGGTCTTCTGTATAACTTC 57.438 34.615 0.00 0.00 0.00 3.01
3441 4077 4.657952 GTGATTAGCCCCACCACC 57.342 61.111 0.00 0.00 0.00 4.61
3647 4300 3.977244 GGGTGCCTTGCGTTGTGG 61.977 66.667 0.00 0.00 0.00 4.17
3683 4337 1.065564 AGGCATGAGAAGGCTTGTCTC 60.066 52.381 22.93 16.01 41.66 3.36
3751 4405 1.852942 CTGCCATCGCAATACTACGT 58.147 50.000 0.00 0.00 46.66 3.57


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

AutoCloner maintained by Alex Coulton.