Multiple sequence alignment - TraesCS7B01G234400

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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 TraesCS7B01G234400 chr7B 100.000 4509 0 0 1 4509 438787029 438791537 0.000000e+00 8327
1 TraesCS7B01G234400 chr7B 92.110 1597 98 10 1209 2791 392014056 392015638 0.000000e+00 2226
2 TraesCS7B01G234400 chr7B 90.434 1589 108 15 1209 2791 74769460 74771010 0.000000e+00 2052
3 TraesCS7B01G234400 chr7B 94.151 1043 53 6 3472 4509 465895030 465893991 0.000000e+00 1581
4 TraesCS7B01G234400 chr7B 94.056 1043 53 7 3472 4509 175461980 175460942 0.000000e+00 1574
5 TraesCS7B01G234400 chr7B 87.433 374 41 4 1209 1579 720355215 720355585 4.170000e-115 425
6 TraesCS7B01G234400 chr7B 90.520 327 20 3 1652 1978 720355582 720355897 5.390000e-114 422
7 TraesCS7B01G234400 chr6D 92.958 2684 113 38 807 3475 272639774 272642396 0.000000e+00 3840
8 TraesCS7B01G234400 chr6D 89.286 784 53 14 3 778 272638777 272639537 0.000000e+00 953
9 TraesCS7B01G234400 chr6B 94.750 2476 82 18 1001 3475 433678940 433681368 0.000000e+00 3808
10 TraesCS7B01G234400 chr6B 89.322 1592 122 22 1209 2794 113029210 113027661 0.000000e+00 1954
11 TraesCS7B01G234400 chr6B 94.875 839 27 6 1 824 433677643 433678480 0.000000e+00 1297
12 TraesCS7B01G234400 chr6B 87.705 244 30 0 1180 1423 113029947 113029704 7.380000e-73 285
13 TraesCS7B01G234400 chr6B 96.939 98 3 0 913 1010 433678661 433678758 1.000000e-36 165
14 TraesCS7B01G234400 chr4B 93.090 1592 89 10 1209 2794 141031094 141029518 0.000000e+00 2311
15 TraesCS7B01G234400 chr4B 93.858 1042 59 5 3472 4509 380923242 380922202 0.000000e+00 1565
16 TraesCS7B01G234400 chr4B 93.780 1045 56 8 3472 4509 171680641 171681683 0.000000e+00 1561
17 TraesCS7B01G234400 chr4B 94.653 505 23 2 2972 3475 373352779 373353280 0.000000e+00 780
18 TraesCS7B01G234400 chr6A 92.968 1607 74 21 1871 3475 389165053 389166622 0.000000e+00 2305
19 TraesCS7B01G234400 chr6A 89.458 1366 96 20 384 1711 389163697 389165052 0.000000e+00 1681
20 TraesCS7B01G234400 chr6A 84.884 344 32 9 54 395 389163198 389163523 3.360000e-86 329
21 TraesCS7B01G234400 chr3B 91.882 1589 106 11 1212 2794 26475040 26473469 0.000000e+00 2198
22 TraesCS7B01G234400 chr2D 90.431 1369 54 24 1944 3304 120981899 120980600 0.000000e+00 1731
23 TraesCS7B01G234400 chr2D 96.183 131 5 0 3345 3475 120974067 120973937 9.820000e-52 215
24 TraesCS7B01G234400 chr1B 94.439 1043 50 5 3472 4509 561350749 561351788 0.000000e+00 1598
25 TraesCS7B01G234400 chr1B 93.852 1041 58 5 3473 4509 125748602 125747564 0.000000e+00 1563
26 TraesCS7B01G234400 chr3D 94.247 1043 53 5 3472 4509 237959444 237960484 0.000000e+00 1587
27 TraesCS7B01G234400 chr2B 94.231 1040 57 3 3472 4509 139248609 139249647 0.000000e+00 1585
28 TraesCS7B01G234400 chr2B 93.858 1042 57 6 3472 4509 529531869 529532907 0.000000e+00 1563
29 TraesCS7B01G234400 chr2B 90.964 332 19 3 1652 1983 384661156 384661476 1.930000e-118 436
30 TraesCS7B01G234400 chrUn 95.050 505 24 1 2972 3475 325926075 325925571 0.000000e+00 793


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 TraesCS7B01G234400 chr7B 438787029 438791537 4508 False 8327.000000 8327 100.000000 1 4509 1 chr7B.!!$F3 4508
1 TraesCS7B01G234400 chr7B 392014056 392015638 1582 False 2226.000000 2226 92.110000 1209 2791 1 chr7B.!!$F2 1582
2 TraesCS7B01G234400 chr7B 74769460 74771010 1550 False 2052.000000 2052 90.434000 1209 2791 1 chr7B.!!$F1 1582
3 TraesCS7B01G234400 chr7B 465893991 465895030 1039 True 1581.000000 1581 94.151000 3472 4509 1 chr7B.!!$R2 1037
4 TraesCS7B01G234400 chr7B 175460942 175461980 1038 True 1574.000000 1574 94.056000 3472 4509 1 chr7B.!!$R1 1037
5 TraesCS7B01G234400 chr7B 720355215 720355897 682 False 423.500000 425 88.976500 1209 1978 2 chr7B.!!$F4 769
6 TraesCS7B01G234400 chr6D 272638777 272642396 3619 False 2396.500000 3840 91.122000 3 3475 2 chr6D.!!$F1 3472
7 TraesCS7B01G234400 chr6B 433677643 433681368 3725 False 1756.666667 3808 95.521333 1 3475 3 chr6B.!!$F1 3474
8 TraesCS7B01G234400 chr6B 113027661 113029947 2286 True 1119.500000 1954 88.513500 1180 2794 2 chr6B.!!$R1 1614
9 TraesCS7B01G234400 chr4B 141029518 141031094 1576 True 2311.000000 2311 93.090000 1209 2794 1 chr4B.!!$R1 1585
10 TraesCS7B01G234400 chr4B 380922202 380923242 1040 True 1565.000000 1565 93.858000 3472 4509 1 chr4B.!!$R2 1037
11 TraesCS7B01G234400 chr4B 171680641 171681683 1042 False 1561.000000 1561 93.780000 3472 4509 1 chr4B.!!$F1 1037
12 TraesCS7B01G234400 chr4B 373352779 373353280 501 False 780.000000 780 94.653000 2972 3475 1 chr4B.!!$F2 503
13 TraesCS7B01G234400 chr6A 389163198 389166622 3424 False 1438.333333 2305 89.103333 54 3475 3 chr6A.!!$F1 3421
14 TraesCS7B01G234400 chr3B 26473469 26475040 1571 True 2198.000000 2198 91.882000 1212 2794 1 chr3B.!!$R1 1582
15 TraesCS7B01G234400 chr2D 120980600 120981899 1299 True 1731.000000 1731 90.431000 1944 3304 1 chr2D.!!$R2 1360
16 TraesCS7B01G234400 chr1B 561350749 561351788 1039 False 1598.000000 1598 94.439000 3472 4509 1 chr1B.!!$F1 1037
17 TraesCS7B01G234400 chr1B 125747564 125748602 1038 True 1563.000000 1563 93.852000 3473 4509 1 chr1B.!!$R1 1036
18 TraesCS7B01G234400 chr3D 237959444 237960484 1040 False 1587.000000 1587 94.247000 3472 4509 1 chr3D.!!$F1 1037
19 TraesCS7B01G234400 chr2B 139248609 139249647 1038 False 1585.000000 1585 94.231000 3472 4509 1 chr2B.!!$F1 1037
20 TraesCS7B01G234400 chr2B 529531869 529532907 1038 False 1563.000000 1563 93.858000 3472 4509 1 chr2B.!!$F3 1037
21 TraesCS7B01G234400 chrUn 325925571 325926075 504 True 793.000000 793 95.050000 2972 3475 1 chrUn.!!$R1 503

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
886 1317 0.472734 CCACCCAATGAAACCCCCAA 60.473 55.0 0.0 0.0 0.0 4.12 F
1986 3421 0.550914 AGGAGGTTGCTGTGTTTGGA 59.449 50.0 0.0 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2378 3823 0.474184 AGCAAGGCAGTTAGTGGTGT 59.526 50.000 0.0 0.0 0.0 4.16 R
3633 5097 1.468520 CTGTCAATAGTTGGGTTGCCG 59.531 52.381 0.0 0.0 0.0 5.69 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
52 53 5.895636 TTATTCACCGACATGCAAAGAAT 57.104 34.783 0.00 0.0 0.00 2.40
128 134 2.412870 GTTGGCCAAATAACTTGCCAC 58.587 47.619 22.47 0.0 39.44 5.01
139 145 1.189524 ACTTGCCACGTACCCTGCTA 61.190 55.000 0.00 0.0 0.00 3.49
164 170 3.716195 CCATGAGGCCGTCCACCA 61.716 66.667 0.00 0.0 33.74 4.17
198 204 5.221087 GCTAGAGAACAGGGTACACTCATAC 60.221 48.000 0.00 0.0 0.00 2.39
201 207 4.157246 AGAACAGGGTACACTCATACACA 58.843 43.478 0.00 0.0 30.23 3.72
241 247 0.697854 AGTTCCACCACCTCACCCTT 60.698 55.000 0.00 0.0 0.00 3.95
301 307 1.949799 AGAACTCAGCCCAGATCTGT 58.050 50.000 21.11 0.0 33.48 3.41
522 717 4.431131 CCACGCCAAGCCTCCCAT 62.431 66.667 0.00 0.0 0.00 4.00
562 757 3.207265 TCTTGCACAAGAAGTAAGGCA 57.793 42.857 10.58 0.0 43.79 4.75
628 846 2.814280 TCACCTTCTTGGACGAGAAC 57.186 50.000 0.00 0.0 39.71 3.01
885 1316 1.157276 CCACCCAATGAAACCCCCA 59.843 57.895 0.00 0.0 0.00 4.96
886 1317 0.472734 CCACCCAATGAAACCCCCAA 60.473 55.000 0.00 0.0 0.00 4.12
890 1321 3.584848 CACCCAATGAAACCCCCAATTAA 59.415 43.478 0.00 0.0 0.00 1.40
901 1336 3.344696 ACCCCCAATTAAATAAACCCCCT 59.655 43.478 0.00 0.0 0.00 4.79
915 1438 2.443394 CCCCTGGCCTCGCTAATCA 61.443 63.158 3.32 0.0 0.00 2.57
978 1501 3.518552 AACCCTCCTCCGTCCGTCA 62.519 63.158 0.00 0.0 0.00 4.35
1061 1776 4.830826 ACCTTTTCGATTTCTTGTGGTC 57.169 40.909 0.00 0.0 0.00 4.02
1093 1808 3.586470 TGTTGTCCCTTCCTTTTGCTA 57.414 42.857 0.00 0.0 0.00 3.49
1110 1830 2.280628 GCTAGATTTTCCGTGGTCTGG 58.719 52.381 0.00 0.0 0.00 3.86
1112 1832 1.358152 AGATTTTCCGTGGTCTGGGA 58.642 50.000 0.00 0.0 0.00 4.37
1178 1898 5.451103 CGATCTGATCTGGTTTGCTTCTCTA 60.451 44.000 15.16 0.0 0.00 2.43
1203 1923 1.161563 TGCTTCCGTGGGTTCGTTTC 61.162 55.000 0.00 0.0 0.00 2.78
1401 2805 4.608170 ATGGTAGGGTCATTGTGGATTT 57.392 40.909 0.00 0.0 0.00 2.17
1492 2896 4.455533 TGCTTTTCTCGTTACATGCTGATT 59.544 37.500 0.00 0.0 0.00 2.57
1801 3228 2.607187 CTCCGTGCCAGTTAGTACTTG 58.393 52.381 0.00 0.0 30.26 3.16
1844 3271 8.768955 GCTACTAATTGTCTCTGGTTCATATTG 58.231 37.037 0.00 0.0 0.00 1.90
1910 3337 0.892755 TATGACACTGTCCACGGACC 59.107 55.000 13.60 0.0 43.97 4.46
1986 3421 0.550914 AGGAGGTTGCTGTGTTTGGA 59.449 50.000 0.00 0.0 0.00 3.53
2186 3624 7.831193 AGCTCACATTAAGGTACATTCTTTCAT 59.169 33.333 0.00 0.0 0.00 2.57
2218 3656 4.993705 TCATGGTACCTGAACCTTTCTT 57.006 40.909 14.36 0.0 40.44 2.52
2219 3657 4.651778 TCATGGTACCTGAACCTTTCTTG 58.348 43.478 14.36 0.0 40.44 3.02
2289 3734 3.091545 TGCCAAGAAGGTCATCATTTCC 58.908 45.455 0.00 0.0 40.61 3.13
2352 3797 7.768120 GTCAATGAGAAGGAATACAAGTCTGAT 59.232 37.037 0.00 0.0 0.00 2.90
2378 3823 2.496070 ACATTGTCTCCAACGCTAGCTA 59.504 45.455 13.93 0.0 32.26 3.32
2509 3954 5.875224 TCAGGTTATCAATGACAGGTTTGA 58.125 37.500 0.00 0.0 36.38 2.69
2546 3991 1.825090 TGACCACAGTTCATGCCATC 58.175 50.000 0.00 0.0 0.00 3.51
2560 4005 3.574354 TGCCATCACTGGTAATGCATA 57.426 42.857 0.00 0.0 45.10 3.14
2566 4011 5.008019 CCATCACTGGTAATGCATAACACTC 59.992 44.000 0.00 0.0 37.79 3.51
2707 4154 1.593296 GAAGGGCTGCCAGCTTCAAG 61.593 60.000 24.12 0.0 41.99 3.02
2768 4215 6.647229 TCAGCTGGCCTTCTATTATATCATG 58.353 40.000 15.13 0.0 0.00 3.07
2794 4241 9.891828 GAGTTATCTGATAGAACACTGTATCTG 57.108 37.037 4.85 0.0 31.45 2.90
2795 4242 9.415008 AGTTATCTGATAGAACACTGTATCTGT 57.585 33.333 6.18 0.0 31.45 3.41
2804 4251 6.706055 GAACACTGTATCTGTTCGATTGAA 57.294 37.500 0.00 0.0 38.52 2.69
2818 4265 6.647212 TTCGATTGAACACTGTATCATGAC 57.353 37.500 0.00 0.0 0.00 3.06
2819 4266 5.965922 TCGATTGAACACTGTATCATGACT 58.034 37.500 0.00 0.0 0.00 3.41
2820 4267 6.398095 TCGATTGAACACTGTATCATGACTT 58.602 36.000 0.00 0.0 0.00 3.01
2821 4268 7.543756 TCGATTGAACACTGTATCATGACTTA 58.456 34.615 0.00 0.0 0.00 2.24
2822 4269 8.197439 TCGATTGAACACTGTATCATGACTTAT 58.803 33.333 0.00 0.0 0.00 1.73
2823 4270 8.483218 CGATTGAACACTGTATCATGACTTATC 58.517 37.037 0.00 0.0 0.00 1.75
2824 4271 9.539825 GATTGAACACTGTATCATGACTTATCT 57.460 33.333 0.00 0.0 0.00 1.98
2825 4272 8.707938 TTGAACACTGTATCATGACTTATCTG 57.292 34.615 0.00 0.0 0.00 2.90
2826 4273 8.066612 TGAACACTGTATCATGACTTATCTGA 57.933 34.615 0.00 0.0 0.00 3.27
2827 4274 8.699130 TGAACACTGTATCATGACTTATCTGAT 58.301 33.333 0.00 0.0 34.22 2.90
2828 4275 9.539825 GAACACTGTATCATGACTTATCTGATT 57.460 33.333 0.00 0.0 32.20 2.57
2829 4276 8.883954 ACACTGTATCATGACTTATCTGATTG 57.116 34.615 0.00 0.0 32.20 2.67
2830 4277 8.699130 ACACTGTATCATGACTTATCTGATTGA 58.301 33.333 0.00 0.0 32.20 2.57
2831 4278 9.538508 CACTGTATCATGACTTATCTGATTGAA 57.461 33.333 0.00 0.0 32.20 2.69
2832 4279 9.539825 ACTGTATCATGACTTATCTGATTGAAC 57.460 33.333 0.00 0.0 32.20 3.18
2833 4280 9.538508 CTGTATCATGACTTATCTGATTGAACA 57.461 33.333 0.00 0.6 32.20 3.18
2834 4281 9.317936 TGTATCATGACTTATCTGATTGAACAC 57.682 33.333 0.00 0.0 32.20 3.32
2835 4282 9.539825 GTATCATGACTTATCTGATTGAACACT 57.460 33.333 0.00 0.0 32.20 3.55
2836 4283 7.838771 TCATGACTTATCTGATTGAACACTG 57.161 36.000 0.00 0.0 0.00 3.66
2837 4284 7.389232 TCATGACTTATCTGATTGAACACTGT 58.611 34.615 0.00 0.0 0.00 3.55
2901 4348 2.501602 GCAGGCTGTTGGCAAGGTT 61.502 57.895 17.16 0.0 44.01 3.50
2929 4376 5.227908 CAGAGCTTAACGGAAAGTTGACTA 58.772 41.667 0.00 0.0 44.01 2.59
2943 4390 0.178068 TGACTAGAATGGCCTTCCGC 59.822 55.000 3.32 0.0 34.11 5.54
3038 4485 5.365021 AAGGCTGCTATCAAGTGAGTAAT 57.635 39.130 0.00 0.0 0.00 1.89
3039 4486 5.365021 AGGCTGCTATCAAGTGAGTAATT 57.635 39.130 0.00 0.0 0.00 1.40
3044 4491 6.299805 TGCTATCAAGTGAGTAATTCCACT 57.700 37.500 0.00 0.0 44.69 4.00
3061 4508 5.319043 TCCACTAACCAGGAACAATTTCT 57.681 39.130 0.00 0.0 31.71 2.52
3118 4565 0.621609 TTGGGCCACATACCACCTAC 59.378 55.000 5.23 0.0 36.27 3.18
3122 4569 1.108776 GCCACATACCACCTACGAGA 58.891 55.000 0.00 0.0 0.00 4.04
3123 4570 1.687123 GCCACATACCACCTACGAGAT 59.313 52.381 0.00 0.0 0.00 2.75
3163 4622 3.447586 TCTGATTTTACAGGGAGGAGTCG 59.552 47.826 0.00 0.0 38.31 4.18
3262 4724 6.364976 GGTGTTTACCATTGCTTTGACAATAC 59.635 38.462 0.00 0.0 46.71 1.89
3276 4738 7.120726 GCTTTGACAATACCCATGTTACTACTT 59.879 37.037 0.00 0.0 0.00 2.24
3431 4894 1.694844 TGTCTCCTGGTACGACAACA 58.305 50.000 11.66 0.0 34.99 3.33
3498 4961 2.369203 TCGGACCACTGACCAATTTACA 59.631 45.455 0.00 0.0 0.00 2.41
3652 5116 1.529226 CGGCAACCCAACTATTGACA 58.471 50.000 0.00 0.0 33.05 3.58
3665 5129 7.390440 CCCAACTATTGACAGAAGACACAATTA 59.610 37.037 0.00 0.0 35.19 1.40
3906 5376 3.122780 TCGTGCTTTAACATGACACATCG 59.877 43.478 0.00 0.0 30.65 3.84
4026 5496 4.873746 TGAGAGATAAATTAGGCTCCCG 57.126 45.455 0.00 0.0 0.00 5.14
4048 5518 1.359848 CTATTGACCACACACTCGCC 58.640 55.000 0.00 0.0 0.00 5.54
4122 5592 8.732746 AGAACACTTATTATAAAACGGCTCAT 57.267 30.769 0.00 0.0 0.00 2.90
4324 5798 3.061322 CGACGGTGTTTCTGATAACCAA 58.939 45.455 0.00 0.0 32.69 3.67
4334 5808 4.574674 TCTGATAACCAAGCAATCAGGT 57.425 40.909 10.68 0.0 44.37 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 2.040359 TGTGTGTGGGGTGGAGGA 60.040 61.111 0.00 0.00 0.00 3.71
128 134 0.315568 GAGCCAGATAGCAGGGTACG 59.684 60.000 0.00 0.00 35.40 3.67
198 204 3.969287 TCCCTTTGTCTCTCATCTGTG 57.031 47.619 0.00 0.00 0.00 3.66
201 207 5.946486 ACTTTTTCCCTTTGTCTCTCATCT 58.054 37.500 0.00 0.00 0.00 2.90
241 247 2.656947 AGCTTGCTTGGACCAGTTTA 57.343 45.000 0.00 0.00 0.00 2.01
301 307 1.805943 CAATGCACGAGGTCATTGTCA 59.194 47.619 0.00 0.00 42.58 3.58
497 692 0.662077 GGCTTGGCGTGGTTAAAACG 60.662 55.000 7.42 7.42 43.81 3.60
498 693 0.671796 AGGCTTGGCGTGGTTAAAAC 59.328 50.000 0.00 0.00 0.00 2.43
522 717 2.045438 ATCAAATGACCGGCGGCA 60.045 55.556 28.71 24.60 0.00 5.69
562 757 3.038280 CCTTTTCTTGGAAAACCCCAGT 58.962 45.455 1.89 0.00 37.53 4.00
699 917 0.182775 ACGTTGGAGCCTTGGAAACT 59.817 50.000 0.00 0.00 0.00 2.66
740 958 2.314071 TGGTTTCGAGAAGGTCCCTA 57.686 50.000 0.00 0.00 0.00 3.53
885 1316 4.295201 GAGGCCAGGGGGTTTATTTAATT 58.705 43.478 5.01 0.00 36.17 1.40
886 1317 3.690148 CGAGGCCAGGGGGTTTATTTAAT 60.690 47.826 5.01 0.00 36.17 1.40
890 1321 1.613061 CGAGGCCAGGGGGTTTATT 59.387 57.895 5.01 0.00 36.17 1.40
901 1336 0.249447 CGATGTGATTAGCGAGGCCA 60.249 55.000 5.01 0.00 0.00 5.36
915 1438 1.269309 GGCTACTCGAGATTGCGATGT 60.269 52.381 21.68 0.00 39.85 3.06
978 1501 1.283321 GGGAAGGAAATCTGGAGCTGT 59.717 52.381 0.00 0.00 0.00 4.40
1015 1729 0.106894 AGCTAGTAATTGCTCGGGGC 59.893 55.000 0.00 0.00 42.22 5.80
1061 1776 0.165944 GGACAACAATCAGCGAACGG 59.834 55.000 0.00 0.00 0.00 4.44
1093 1808 1.358152 TCCCAGACCACGGAAAATCT 58.642 50.000 0.00 0.00 0.00 2.40
1110 1830 1.777101 CGATCTTGATCGGAGCTTCC 58.223 55.000 21.19 0.00 40.12 3.46
1178 1898 2.361610 CCCACGGAAGCAGCCAAT 60.362 61.111 0.00 0.00 0.00 3.16
1401 2805 2.632602 AAACGGGTGTCCCATGCACA 62.633 55.000 5.64 0.00 45.83 4.57
1492 2896 6.639563 TGTGCTTATGATAGTGTAGCAAAGA 58.360 36.000 0.00 0.00 42.80 2.52
1844 3271 5.376854 ACAAGCACATAATTCAGAACCAC 57.623 39.130 0.00 0.00 0.00 4.16
2002 3437 3.139850 CTGCATGGCCACAAAAATGAAA 58.860 40.909 8.16 0.00 0.00 2.69
2289 3734 3.207669 GCATCCTTGCTGGGAGCG 61.208 66.667 4.71 0.55 46.26 5.03
2378 3823 0.474184 AGCAAGGCAGTTAGTGGTGT 59.526 50.000 0.00 0.00 0.00 4.16
2509 3954 3.074412 GTCATCAAACCCTCAACGATGT 58.926 45.455 0.00 0.00 35.91 3.06
2546 3991 3.309682 CCGAGTGTTATGCATTACCAGTG 59.690 47.826 12.96 1.66 0.00 3.66
2600 4045 4.156556 CAGCCACACATAAGCATACTTGTT 59.843 41.667 0.00 0.00 36.57 2.83
2707 4154 1.404391 CCAGTGCTGCTTGGAATGATC 59.596 52.381 15.66 0.00 33.96 2.92
2731 4178 3.217626 GCCAGCTGAATATACCTTTGCT 58.782 45.455 17.39 0.00 0.00 3.91
2768 4215 9.891828 CAGATACAGTGTTCTATCAGATAACTC 57.108 37.037 0.00 0.00 0.00 3.01
2795 4242 6.398095 AGTCATGATACAGTGTTCAATCGAA 58.602 36.000 0.00 0.00 0.00 3.71
2796 4243 5.965922 AGTCATGATACAGTGTTCAATCGA 58.034 37.500 0.00 0.00 0.00 3.59
2797 4244 6.653273 AAGTCATGATACAGTGTTCAATCG 57.347 37.500 0.00 0.00 0.00 3.34
2798 4245 9.539825 AGATAAGTCATGATACAGTGTTCAATC 57.460 33.333 0.00 0.00 0.00 2.67
2799 4246 9.322773 CAGATAAGTCATGATACAGTGTTCAAT 57.677 33.333 0.00 0.00 0.00 2.57
2800 4247 8.531146 TCAGATAAGTCATGATACAGTGTTCAA 58.469 33.333 0.00 0.00 0.00 2.69
2801 4248 8.066612 TCAGATAAGTCATGATACAGTGTTCA 57.933 34.615 0.00 5.86 0.00 3.18
2802 4249 9.539825 AATCAGATAAGTCATGATACAGTGTTC 57.460 33.333 0.00 0.00 33.40 3.18
2804 4251 8.699130 TCAATCAGATAAGTCATGATACAGTGT 58.301 33.333 0.00 0.00 33.40 3.55
2805 4252 9.538508 TTCAATCAGATAAGTCATGATACAGTG 57.461 33.333 0.00 0.00 33.40 3.66
2806 4253 9.539825 GTTCAATCAGATAAGTCATGATACAGT 57.460 33.333 0.00 0.00 33.40 3.55
2807 4254 9.538508 TGTTCAATCAGATAAGTCATGATACAG 57.461 33.333 0.00 0.00 33.40 2.74
2808 4255 9.317936 GTGTTCAATCAGATAAGTCATGATACA 57.682 33.333 0.00 0.00 33.40 2.29
2809 4256 9.539825 AGTGTTCAATCAGATAAGTCATGATAC 57.460 33.333 0.00 0.00 33.40 2.24
2810 4257 9.538508 CAGTGTTCAATCAGATAAGTCATGATA 57.461 33.333 0.00 0.00 33.40 2.15
2811 4258 8.045507 ACAGTGTTCAATCAGATAAGTCATGAT 58.954 33.333 0.00 0.00 35.21 2.45
2812 4259 7.389232 ACAGTGTTCAATCAGATAAGTCATGA 58.611 34.615 0.00 0.00 0.00 3.07
2813 4260 7.606858 ACAGTGTTCAATCAGATAAGTCATG 57.393 36.000 0.00 0.00 0.00 3.07
2814 4261 9.539825 GATACAGTGTTCAATCAGATAAGTCAT 57.460 33.333 0.00 0.00 0.00 3.06
2815 4262 8.753133 AGATACAGTGTTCAATCAGATAAGTCA 58.247 33.333 0.00 0.00 0.00 3.41
2820 4267 9.899226 CGAATAGATACAGTGTTCAATCAGATA 57.101 33.333 0.00 0.00 0.00 1.98
2821 4268 8.633561 TCGAATAGATACAGTGTTCAATCAGAT 58.366 33.333 0.00 0.00 0.00 2.90
2822 4269 7.996385 TCGAATAGATACAGTGTTCAATCAGA 58.004 34.615 0.00 0.00 0.00 3.27
2823 4270 8.697960 CATCGAATAGATACAGTGTTCAATCAG 58.302 37.037 0.00 0.00 37.52 2.90
2824 4271 7.653311 CCATCGAATAGATACAGTGTTCAATCA 59.347 37.037 0.00 0.00 37.52 2.57
2825 4272 7.867909 TCCATCGAATAGATACAGTGTTCAATC 59.132 37.037 0.00 0.00 37.52 2.67
2826 4273 7.726216 TCCATCGAATAGATACAGTGTTCAAT 58.274 34.615 0.00 0.00 37.52 2.57
2827 4274 7.107639 TCCATCGAATAGATACAGTGTTCAA 57.892 36.000 0.00 0.00 37.52 2.69
2828 4275 6.709018 TCCATCGAATAGATACAGTGTTCA 57.291 37.500 0.00 0.00 37.52 3.18
2829 4276 9.130312 GTAATCCATCGAATAGATACAGTGTTC 57.870 37.037 0.00 0.00 37.52 3.18
2830 4277 8.088981 GGTAATCCATCGAATAGATACAGTGTT 58.911 37.037 0.00 0.00 37.52 3.32
2831 4278 7.232737 TGGTAATCCATCGAATAGATACAGTGT 59.767 37.037 0.00 0.00 39.03 3.55
2832 4279 7.602753 TGGTAATCCATCGAATAGATACAGTG 58.397 38.462 0.00 0.00 39.03 3.66
2833 4280 7.776618 TGGTAATCCATCGAATAGATACAGT 57.223 36.000 0.00 0.00 39.03 3.55
2873 4320 2.352421 CCAACAGCCTGCAAGAAATCAG 60.352 50.000 0.00 0.00 34.07 2.90
2881 4328 2.500714 CCTTGCCAACAGCCTGCAA 61.501 57.895 0.00 0.00 42.28 4.08
2901 4348 1.933021 TTCCGTTAAGCTCTGGGAGA 58.067 50.000 0.00 0.00 0.00 3.71
2929 4376 1.745489 GAACGCGGAAGGCCATTCT 60.745 57.895 12.47 0.00 38.07 2.40
2943 4390 2.878406 AGAAACATCAACAGTGGGAACG 59.122 45.455 0.00 0.00 0.00 3.95
3038 4485 5.701224 AGAAATTGTTCCTGGTTAGTGGAA 58.299 37.500 0.00 0.00 39.73 3.53
3039 4486 5.319043 AGAAATTGTTCCTGGTTAGTGGA 57.681 39.130 0.00 0.00 33.92 4.02
3044 4491 8.347035 CGAAGTAAAAGAAATTGTTCCTGGTTA 58.653 33.333 0.00 0.00 33.92 2.85
3061 4508 3.874543 ACCATATGCGCATCGAAGTAAAA 59.125 39.130 29.11 6.10 0.00 1.52
3118 4565 4.855531 TCGGTACACATCAATACATCTCG 58.144 43.478 0.00 0.00 0.00 4.04
3122 4569 6.405278 TCAGATCGGTACACATCAATACAT 57.595 37.500 0.00 0.00 0.00 2.29
3123 4570 5.845391 TCAGATCGGTACACATCAATACA 57.155 39.130 0.00 0.00 0.00 2.29
3290 4752 7.112122 AGTACTCACATAGGCAATCAAAATGA 58.888 34.615 0.00 0.00 0.00 2.57
3431 4894 1.909302 CACTGACCTGTATCCCCACTT 59.091 52.381 0.00 0.00 0.00 3.16
3498 4961 6.680378 GCCAAAAACTGACTGTCACAATAAGT 60.680 38.462 6.36 0.00 0.00 2.24
3633 5097 1.468520 CTGTCAATAGTTGGGTTGCCG 59.531 52.381 0.00 0.00 0.00 5.69
3652 5116 8.114331 TGCATCAATTTCTAATTGTGTCTTCT 57.886 30.769 10.83 0.00 0.00 2.85
3670 5134 8.641541 TCTCGGATATTGCTATATATGCATCAA 58.358 33.333 0.19 0.00 40.34 2.57
3906 5376 3.190874 CCCGCTTGAAGTCTTGAGATAC 58.809 50.000 0.00 0.00 0.00 2.24
4026 5496 1.739067 GAGTGTGTGGTCAATAGCCC 58.261 55.000 0.00 0.00 0.00 5.19
4122 5592 8.107095 AGTCACTTGTGGGCTCTTAAATTTATA 58.893 33.333 0.00 0.00 0.00 0.98
4324 5798 2.240667 ACAGCCTTATGACCTGATTGCT 59.759 45.455 0.00 0.00 0.00 3.91
4334 5808 5.700832 CACTTTGTCTGTTACAGCCTTATGA 59.299 40.000 7.61 0.00 39.87 2.15


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

AutoCloner maintained by Alex Coulton.