Multiple sequence alignment - TraesCS7B01G300400

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 TraesCS7B01G300400 chr7B 100.000 5150 0 0 1 5150 537677969 537672820 0.000000e+00 9511.0
1 TraesCS7B01G300400 chr7B 83.097 2396 357 30 1179 3543 537831109 537828731 0.000000e+00 2137.0
2 TraesCS7B01G300400 chr7B 80.998 2526 423 32 1063 3543 537795897 537793384 0.000000e+00 1953.0
3 TraesCS7B01G300400 chr7B 94.330 388 20 2 4764 5150 537827426 537827040 1.230000e-165 593.0
4 TraesCS7B01G300400 chr7B 90.909 242 13 5 4763 5004 537792089 537791857 2.990000e-82 316.0
5 TraesCS7B01G300400 chr7B 76.000 600 89 25 3682 4239 537828621 537828035 5.120000e-65 259.0
6 TraesCS7B01G300400 chr7D 94.611 4528 186 23 643 5150 509560202 509555713 0.000000e+00 6957.0
7 TraesCS7B01G300400 chr7D 81.575 2502 416 33 1070 3543 509614758 509612274 0.000000e+00 2025.0
8 TraesCS7B01G300400 chr7D 91.512 377 31 1 4763 5139 509611328 509610953 7.640000e-143 518.0
9 TraesCS7B01G300400 chr7D 90.099 303 20 5 1 296 509561968 509561669 8.090000e-103 385.0
10 TraesCS7B01G300400 chr7D 87.143 140 12 3 507 645 509560410 509560276 2.480000e-33 154.0
11 TraesCS7B01G300400 chr7A 95.131 3327 128 18 1027 4341 580474551 580471247 0.000000e+00 5216.0
12 TraesCS7B01G300400 chr7A 82.930 2396 359 34 1179 3543 580509399 580507023 0.000000e+00 2113.0
13 TraesCS7B01G300400 chr7A 77.051 2462 510 40 1079 3502 580693865 580696309 0.000000e+00 1365.0
14 TraesCS7B01G300400 chr7A 96.021 779 28 2 4375 5150 580471246 580470468 0.000000e+00 1264.0
15 TraesCS7B01G300400 chr7A 90.476 462 32 6 499 957 580475217 580474765 2.650000e-167 599.0
16 TraesCS7B01G300400 chr7A 89.870 385 24 6 4763 5139 580506502 580506125 1.000000e-131 481.0
17 TraesCS7B01G300400 chr7A 90.270 185 15 2 3942 4123 158300376 158300192 6.660000e-59 239.0
18 TraesCS7B01G300400 chr7A 95.522 134 4 2 960 1091 580474686 580474553 4.040000e-51 213.0
19 TraesCS7B01G300400 chr7A 85.714 168 13 4 334 501 580476173 580476017 3.190000e-37 167.0
20 TraesCS7B01G300400 chr7A 100.000 32 0 0 719 750 580474966 580474935 5.570000e-05 60.2
21 TraesCS7B01G300400 chr5A 95.833 456 18 1 3942 4396 425486005 425485550 0.000000e+00 736.0
22 TraesCS7B01G300400 chr5A 92.982 456 31 1 3942 4396 44117404 44116949 0.000000e+00 664.0
23 TraesCS7B01G300400 chr3D 95.175 456 21 1 3942 4396 258275022 258275477 0.000000e+00 719.0
24 TraesCS7B01G300400 chr1A 95.745 423 17 1 3975 4396 13962862 13963284 0.000000e+00 680.0
25 TraesCS7B01G300400 chr2B 86.420 486 42 9 4409 4893 126731047 126731509 1.280000e-140 510.0
26 TraesCS7B01G300400 chr2B 96.410 195 6 1 4930 5124 126731509 126731702 2.310000e-83 320.0
27 TraesCS7B01G300400 chr5B 89.305 187 20 0 4958 5144 667412452 667412638 8.620000e-58 235.0


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 TraesCS7B01G300400 chr7B 537672820 537677969 5149 True 9511.000000 9511 100.000000 1 5150 1 chr7B.!!$R1 5149
1 TraesCS7B01G300400 chr7B 537791857 537795897 4040 True 1134.500000 1953 85.953500 1063 5004 2 chr7B.!!$R2 3941
2 TraesCS7B01G300400 chr7B 537827040 537831109 4069 True 996.333333 2137 84.475667 1179 5150 3 chr7B.!!$R3 3971
3 TraesCS7B01G300400 chr7D 509555713 509561968 6255 True 2498.666667 6957 90.617667 1 5150 3 chr7D.!!$R1 5149
4 TraesCS7B01G300400 chr7D 509610953 509614758 3805 True 1271.500000 2025 86.543500 1070 5139 2 chr7D.!!$R2 4069
5 TraesCS7B01G300400 chr7A 580693865 580696309 2444 False 1365.000000 1365 77.051000 1079 3502 1 chr7A.!!$F1 2423
6 TraesCS7B01G300400 chr7A 580506125 580509399 3274 True 1297.000000 2113 86.400000 1179 5139 2 chr7A.!!$R3 3960
7 TraesCS7B01G300400 chr7A 580470468 580476173 5705 True 1253.200000 5216 93.810667 334 5150 6 chr7A.!!$R2 4816
8 TraesCS7B01G300400 chr2B 126731047 126731702 655 False 415.000000 510 91.415000 4409 5124 2 chr2B.!!$F1 715

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
993 2648 0.106868 CTTGCTGGATGCCTGGATCA 60.107 55.000 0.0 0.0 42.00 2.92 F
1228 2962 1.734137 CTACATCACCTCCCCGTCG 59.266 63.158 0.0 0.0 0.00 5.12 F
2776 4572 0.113776 ACCACAGGAACCTAGTCCGA 59.886 55.000 0.0 0.0 43.03 4.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1959 3742 0.588252 CCACGACAAGTTGCTCCTTG 59.412 55.0 1.81 12.52 45.83 3.61 R
2845 4641 1.308783 GCTGGAAAAGGAAGCTCCGG 61.309 60.0 0.00 0.00 42.75 5.14 R
4178 6482 2.290260 CCAAGGAAGCACATGGACAGTA 60.290 50.0 0.00 0.00 34.82 2.74 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
18 19 2.877975 GCTCCAGGACACATGCAAT 58.122 52.632 0.00 0.00 0.00 3.56
21 22 0.324614 TCCAGGACACATGCAATCGT 59.675 50.000 0.00 0.00 0.00 3.73
57 58 2.594962 GGCATCCGACCAATACGCG 61.595 63.158 3.53 3.53 0.00 6.01
64 65 3.379865 GACCAATACGCGCCTCCCA 62.380 63.158 5.73 0.00 0.00 4.37
90 97 2.765969 CAGTCCATGGGGGCACTT 59.234 61.111 13.02 0.00 43.06 3.16
93 100 3.671410 TCCATGGGGGCACTTGGG 61.671 66.667 13.02 0.00 36.58 4.12
102 109 1.079336 GGCACTTGGGTACGGACTC 60.079 63.158 0.00 0.00 0.00 3.36
114 121 4.477975 GGACTCGTCTCGTGGCCG 62.478 72.222 0.00 0.00 38.74 6.13
131 138 4.090057 GCTTCGGCCTGAACGTGC 62.090 66.667 0.00 2.95 31.87 5.34
140 147 0.248458 CCTGAACGTGCACACAAACC 60.248 55.000 18.64 0.00 0.00 3.27
176 183 1.845205 ACTGGCAGCCTGGACTCTT 60.845 57.895 21.55 0.00 0.00 2.85
177 184 0.545309 ACTGGCAGCCTGGACTCTTA 60.545 55.000 21.55 0.00 0.00 2.10
216 223 0.322008 CTGAGGGAGCGGCTCTTTTT 60.322 55.000 27.47 11.94 0.00 1.94
229 236 2.494059 CTCTTTTTCCTTGACTCGCCA 58.506 47.619 0.00 0.00 0.00 5.69
296 303 5.586243 CACAACCAGATACAAGGGTTCATAG 59.414 44.000 0.00 0.00 42.78 2.23
297 304 5.250774 ACAACCAGATACAAGGGTTCATAGT 59.749 40.000 0.00 0.00 42.78 2.12
298 305 6.180472 CAACCAGATACAAGGGTTCATAGTT 58.820 40.000 0.00 0.00 42.78 2.24
300 307 5.487488 ACCAGATACAAGGGTTCATAGTTCA 59.513 40.000 0.00 0.00 0.00 3.18
302 309 7.347222 ACCAGATACAAGGGTTCATAGTTCATA 59.653 37.037 0.00 0.00 0.00 2.15
325 954 6.235231 ACACCTTTCTTCTTCAAGAGTACA 57.765 37.500 0.00 0.00 39.90 2.90
328 957 6.538742 CACCTTTCTTCTTCAAGAGTACACAA 59.461 38.462 0.00 0.00 39.90 3.33
347 992 3.293337 CAAATTGCATCCTCATCAGGGA 58.707 45.455 0.00 0.00 40.80 4.20
363 1008 2.811317 GAGCCAACGACCAGAGCG 60.811 66.667 0.00 0.00 0.00 5.03
389 1034 3.056179 ACACCAAAACACCAGGAAACAAG 60.056 43.478 0.00 0.00 0.00 3.16
410 1055 2.169561 GAGCAAAAGAGGGCTAGCTACT 59.830 50.000 15.72 13.27 41.22 2.57
435 1080 7.784176 TCGCTAAGAAATAAATATTGCTCGAC 58.216 34.615 0.00 0.00 30.23 4.20
454 1099 3.406764 GACTTCCTCAACAATCTGCACT 58.593 45.455 0.00 0.00 0.00 4.40
455 1100 3.144506 ACTTCCTCAACAATCTGCACTG 58.855 45.455 0.00 0.00 0.00 3.66
456 1101 1.527034 TCCTCAACAATCTGCACTGC 58.473 50.000 0.00 0.00 0.00 4.40
457 1102 1.202794 TCCTCAACAATCTGCACTGCA 60.203 47.619 3.11 3.11 36.92 4.41
458 1103 1.068748 CCTCAACAATCTGCACTGCAC 60.069 52.381 0.00 0.00 33.79 4.57
570 2061 4.629200 ACGTTAGAAGACACTACTCCGTAG 59.371 45.833 0.00 0.00 41.43 3.51
573 2064 3.608796 AGAAGACACTACTCCGTAGTCC 58.391 50.000 3.82 0.67 44.86 3.85
574 2065 2.021355 AGACACTACTCCGTAGTCCG 57.979 55.000 3.82 0.00 44.86 4.79
575 2066 1.277557 AGACACTACTCCGTAGTCCGT 59.722 52.381 3.82 1.13 44.86 4.69
576 2067 2.497675 AGACACTACTCCGTAGTCCGTA 59.502 50.000 3.82 0.00 44.86 4.02
579 2070 2.349886 CACTACTCCGTAGTCCGTACAC 59.650 54.545 3.82 0.00 44.86 2.90
583 2074 1.129998 CTCCGTAGTCCGTACACACAG 59.870 57.143 0.00 0.00 33.66 3.66
584 2075 1.159285 CCGTAGTCCGTACACACAGA 58.841 55.000 0.00 0.00 33.66 3.41
585 2076 1.129998 CCGTAGTCCGTACACACAGAG 59.870 57.143 0.00 0.00 33.66 3.35
586 2077 1.802960 CGTAGTCCGTACACACAGAGT 59.197 52.381 0.00 0.00 0.00 3.24
635 2126 7.555965 AGGTAAATTTAACATGGGAAATGAGC 58.444 34.615 15.47 8.41 0.00 4.26
679 2247 6.037610 CCTTCTACAGCAATAAAGTGATCCAC 59.962 42.308 0.00 0.00 34.10 4.02
688 2256 0.403271 AAGTGATCCACCTGCAAGCT 59.597 50.000 0.00 0.00 34.49 3.74
704 2276 1.804601 AGCTTACGTACTGGGCAAAC 58.195 50.000 0.00 0.00 0.00 2.93
705 2277 1.346722 AGCTTACGTACTGGGCAAACT 59.653 47.619 0.00 0.00 0.00 2.66
706 2278 2.564062 AGCTTACGTACTGGGCAAACTA 59.436 45.455 0.00 0.00 0.00 2.24
707 2279 3.007182 AGCTTACGTACTGGGCAAACTAA 59.993 43.478 0.00 0.00 0.00 2.24
714 2286 1.679153 ACTGGGCAAACTAAAACGTGG 59.321 47.619 0.00 0.00 0.00 4.94
717 2289 1.682323 GGGCAAACTAAAACGTGGGAA 59.318 47.619 0.00 0.00 0.00 3.97
750 2328 5.048504 CAGCTTCCTTTCAGTCAGCAAATTA 60.049 40.000 0.00 0.00 32.58 1.40
751 2329 5.182760 AGCTTCCTTTCAGTCAGCAAATTAG 59.817 40.000 0.00 0.00 32.58 1.73
752 2330 5.182001 GCTTCCTTTCAGTCAGCAAATTAGA 59.818 40.000 0.00 0.00 0.00 2.10
753 2331 6.294176 GCTTCCTTTCAGTCAGCAAATTAGAA 60.294 38.462 0.00 0.00 0.00 2.10
754 2332 7.581213 TTCCTTTCAGTCAGCAAATTAGAAA 57.419 32.000 0.00 0.00 0.00 2.52
774 2352 7.117285 AGAAAGAAATGTTCAGCTTCCTTTT 57.883 32.000 0.00 0.00 0.00 2.27
807 2385 2.885644 CGGTCGGTCGATGCCTTG 60.886 66.667 0.00 0.00 0.00 3.61
824 2402 4.814234 TGCCTTGTATTAAGCTAATCGGTG 59.186 41.667 0.00 0.00 0.00 4.94
884 2462 7.721399 AGTTGACTGAGAACTTACCATTTTGAT 59.279 33.333 0.00 0.00 28.94 2.57
993 2648 0.106868 CTTGCTGGATGCCTGGATCA 60.107 55.000 0.00 0.00 42.00 2.92
1022 2677 7.505248 TCATGTTTATATACACCACAATGGCAT 59.495 33.333 0.00 0.00 42.67 4.40
1094 2816 7.408756 AGCTAATCACAAATGAAGCCATTAA 57.591 32.000 0.00 0.00 41.84 1.40
1102 2827 1.748950 TGAAGCCATTAAGCGCATCA 58.251 45.000 11.47 0.00 38.01 3.07
1228 2962 1.734137 CTACATCACCTCCCCGTCG 59.266 63.158 0.00 0.00 0.00 5.12
1391 3125 2.233605 CTCCACCGTAATGGCCACGA 62.234 60.000 8.16 0.00 43.94 4.35
1399 3133 2.423577 GTAATGGCCACGAAGTTGTCT 58.576 47.619 8.16 0.00 41.61 3.41
1411 3145 3.002656 CGAAGTTGTCTGTGTTCAGCATT 59.997 43.478 0.00 0.00 41.10 3.56
1528 3277 2.039084 CTCAGGCAACCTCCAGTTACTT 59.961 50.000 0.00 0.00 36.18 2.24
1767 3543 2.320681 TGGAGCACTAACACCTACCT 57.679 50.000 0.00 0.00 0.00 3.08
1813 3592 7.323420 ACATGACTATTTTCTTCGACTCATCA 58.677 34.615 0.00 0.00 0.00 3.07
1959 3742 1.729881 GACCGAAGAATGCCATGGC 59.270 57.895 30.54 30.54 42.35 4.40
2130 3917 3.316588 TCCTATGTCGATTCTCAGCTCAC 59.683 47.826 0.00 0.00 0.00 3.51
2383 4176 0.250513 GACGGCAAGGAGGAGACATT 59.749 55.000 0.00 0.00 0.00 2.71
2495 4291 1.270094 CGGCGTTCCTATTGCTATCCA 60.270 52.381 0.00 0.00 0.00 3.41
2623 4419 1.066143 TGTAAGTTGCTAGGCAGAGGC 60.066 52.381 0.00 0.00 40.61 4.70
2648 4444 1.760875 GGCGAGGTCTACCATGGGA 60.761 63.158 18.09 6.59 38.89 4.37
2649 4445 1.335132 GGCGAGGTCTACCATGGGAA 61.335 60.000 18.09 2.41 38.89 3.97
2653 4449 2.236395 CGAGGTCTACCATGGGAAGTTT 59.764 50.000 18.09 0.00 38.89 2.66
2659 4455 5.280317 GGTCTACCATGGGAAGTTTAAGTCA 60.280 44.000 18.09 0.00 35.64 3.41
2776 4572 0.113776 ACCACAGGAACCTAGTCCGA 59.886 55.000 0.00 0.00 43.03 4.55
2845 4641 1.379044 CATGCCAGGTGGTTCCCTC 60.379 63.158 0.00 0.00 37.57 4.30
3208 5007 3.710722 CGGAAGTGCCAGGAGCCT 61.711 66.667 0.00 0.00 42.71 4.58
3280 5079 3.882888 GTCAGTTGGTCTGTCATGGAAAA 59.117 43.478 0.00 0.00 43.97 2.29
3308 5107 6.015603 TGAGGTTTTGTTGCATAATGATGACA 60.016 34.615 0.00 0.00 34.73 3.58
3330 5129 5.128499 ACAACAACATTGAGGATTTGGTCAA 59.872 36.000 0.00 0.00 37.10 3.18
3453 5252 1.455248 GTCGACACTCTACCTGCTCT 58.545 55.000 11.55 0.00 0.00 4.09
3478 5277 0.955428 GCTCCAACTGTTCATCGCCA 60.955 55.000 0.00 0.00 0.00 5.69
3564 5366 3.701205 TTCTGATAGGCTGCAGTTTCA 57.299 42.857 16.64 11.84 33.90 2.69
3572 5374 6.602803 TGATAGGCTGCAGTTTCAAAATGATA 59.397 34.615 16.64 0.00 0.00 2.15
3573 5375 5.927281 AGGCTGCAGTTTCAAAATGATAT 57.073 34.783 16.64 0.00 0.00 1.63
3574 5376 6.290294 AGGCTGCAGTTTCAAAATGATATT 57.710 33.333 16.64 0.00 0.00 1.28
3575 5377 6.704310 AGGCTGCAGTTTCAAAATGATATTT 58.296 32.000 16.64 0.00 0.00 1.40
3576 5378 7.839907 AGGCTGCAGTTTCAAAATGATATTTA 58.160 30.769 16.64 0.00 0.00 1.40
3610 5456 7.439056 ACTTTTCACCAATGCTAATTGTTTCAG 59.561 33.333 0.00 0.00 41.46 3.02
3809 5873 9.783256 GGTTCAAATTAAGTGTGTATAATGGTC 57.217 33.333 0.00 0.00 0.00 4.02
3882 5953 7.766219 AAATTATGTCAGCAATTCATTCAGC 57.234 32.000 0.00 0.00 0.00 4.26
3891 5968 3.944015 GCAATTCATTCAGCTCTACCTGT 59.056 43.478 0.00 0.00 34.47 4.00
3972 6169 5.591877 AGCAATGAGTCATAATTCAGGGAAC 59.408 40.000 5.94 0.00 0.00 3.62
3989 6186 2.017049 GAACCCCATCTGGATGTTTCG 58.983 52.381 9.35 0.00 37.11 3.46
4056 6262 4.095483 AGGCAAAGAAATGCTTATCACTCG 59.905 41.667 0.00 0.00 45.68 4.18
4107 6396 8.670135 CAACGGTAAGGTGAATGAATAATAACA 58.330 33.333 0.00 0.00 40.93 2.41
4161 6465 6.478129 ACGTGAAGGGTGAATAAATAAAGGA 58.522 36.000 0.00 0.00 0.00 3.36
4250 6554 0.179094 ACTTCAAAGCACCGTGACGA 60.179 50.000 6.54 0.00 0.00 4.20
4314 6711 9.657419 GTTAGGGAACAATGATCAATTTGATTT 57.343 29.630 14.50 3.50 34.85 2.17
4315 6712 9.656040 TTAGGGAACAATGATCAATTTGATTTG 57.344 29.630 14.50 15.22 37.20 2.32
4547 6968 6.989169 GTCTTCAGCTAGTCATAAATCATGGT 59.011 38.462 0.00 0.00 35.16 3.55
4548 6969 7.497249 GTCTTCAGCTAGTCATAAATCATGGTT 59.503 37.037 0.00 0.00 35.16 3.67
4672 7098 6.534634 ACAAGGCTACTACAAAAGTTCATCT 58.465 36.000 0.00 0.00 39.80 2.90
4727 7154 0.035439 TTTAGCCTCCGCCTTGAAGG 60.035 55.000 6.92 6.92 38.80 3.46
4868 7354 3.388552 TCCTGCTAGGATGTCTCTCAA 57.611 47.619 1.25 0.00 40.06 3.02
4950 7437 0.036164 ATACAGAACCACGGCAGCAA 59.964 50.000 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 0.032815 TCTTCCACACGACGATTGCA 59.967 50.000 0.00 0.00 0.00 4.08
18 19 0.387929 AAAGCTCTTCCACACGACGA 59.612 50.000 0.00 0.00 0.00 4.20
21 22 0.250295 CCCAAAGCTCTTCCACACGA 60.250 55.000 0.00 0.00 0.00 4.35
50 51 2.426023 GGATGGGAGGCGCGTATT 59.574 61.111 8.43 0.00 0.00 1.89
64 65 3.492353 CATGGACTGCCCCGGGAT 61.492 66.667 26.32 1.35 0.00 3.85
114 121 4.090057 GCACGTTCAGGCCGAAGC 62.090 66.667 9.79 7.13 33.09 3.86
125 132 0.963355 AGGTGGTTTGTGTGCACGTT 60.963 50.000 13.13 0.00 0.00 3.99
131 138 2.051334 TTCAGGAGGTGGTTTGTGTG 57.949 50.000 0.00 0.00 0.00 3.82
140 147 0.954452 GTGGCAAGTTTCAGGAGGTG 59.046 55.000 0.00 0.00 0.00 4.00
163 170 2.687935 GAGTCTCTAAGAGTCCAGGCTG 59.312 54.545 7.75 7.75 38.46 4.85
166 173 2.993937 ACGAGTCTCTAAGAGTCCAGG 58.006 52.381 5.88 0.00 40.70 4.45
199 206 1.027255 GGAAAAAGAGCCGCTCCCTC 61.027 60.000 16.99 8.17 0.00 4.30
200 207 1.002011 GGAAAAAGAGCCGCTCCCT 60.002 57.895 16.99 1.61 0.00 4.20
202 209 0.523519 CAAGGAAAAAGAGCCGCTCC 59.476 55.000 16.99 1.18 0.00 4.70
216 223 2.357034 GCGTTGGCGAGTCAAGGA 60.357 61.111 13.36 0.00 41.33 3.36
229 236 4.035558 TCGATACGGTAGTAGAAATGCGTT 59.964 41.667 0.00 0.00 36.12 4.84
280 287 7.441458 GGTGTATGAACTATGAACCCTTGTATC 59.559 40.741 0.00 0.00 0.00 2.24
296 303 7.442666 ACTCTTGAAGAAGAAAGGTGTATGAAC 59.557 37.037 0.00 0.00 37.77 3.18
297 304 7.509546 ACTCTTGAAGAAGAAAGGTGTATGAA 58.490 34.615 0.00 0.00 37.77 2.57
298 305 7.067496 ACTCTTGAAGAAGAAAGGTGTATGA 57.933 36.000 0.00 0.00 37.77 2.15
300 307 7.873505 GTGTACTCTTGAAGAAGAAAGGTGTAT 59.126 37.037 0.00 0.00 37.77 2.29
302 309 6.049790 GTGTACTCTTGAAGAAGAAAGGTGT 58.950 40.000 0.00 0.00 37.77 4.16
325 954 3.028850 CCCTGATGAGGATGCAATTTGT 58.971 45.455 0.00 0.00 42.93 2.83
328 957 2.752154 GCTCCCTGATGAGGATGCAATT 60.752 50.000 0.00 0.00 42.93 2.32
347 992 3.288308 CTCGCTCTGGTCGTTGGCT 62.288 63.158 0.00 0.00 0.00 4.75
363 1008 1.133915 TCCTGGTGTTTTGGTGTCCTC 60.134 52.381 0.00 0.00 0.00 3.71
389 1034 2.169561 AGTAGCTAGCCCTCTTTTGCTC 59.830 50.000 12.13 0.00 39.00 4.26
410 1055 7.652105 AGTCGAGCAATATTTATTTCTTAGCGA 59.348 33.333 0.00 0.00 0.00 4.93
423 1068 4.832248 TGTTGAGGAAGTCGAGCAATATT 58.168 39.130 0.00 0.00 0.00 1.28
424 1069 4.471904 TGTTGAGGAAGTCGAGCAATAT 57.528 40.909 0.00 0.00 0.00 1.28
425 1070 3.953712 TGTTGAGGAAGTCGAGCAATA 57.046 42.857 0.00 0.00 0.00 1.90
426 1071 2.839486 TGTTGAGGAAGTCGAGCAAT 57.161 45.000 0.00 0.00 0.00 3.56
435 1080 2.095364 GCAGTGCAGATTGTTGAGGAAG 60.095 50.000 11.09 0.00 0.00 3.46
454 1099 2.358582 CTGTCAATGGTCTTTGTGTGCA 59.641 45.455 0.00 0.00 0.00 4.57
455 1100 2.618241 TCTGTCAATGGTCTTTGTGTGC 59.382 45.455 0.00 0.00 0.00 4.57
456 1101 4.601019 GTTCTGTCAATGGTCTTTGTGTG 58.399 43.478 0.00 0.00 0.00 3.82
457 1102 3.312421 CGTTCTGTCAATGGTCTTTGTGT 59.688 43.478 0.00 0.00 0.00 3.72
458 1103 3.849645 GCGTTCTGTCAATGGTCTTTGTG 60.850 47.826 0.00 0.00 0.00 3.33
501 1146 1.480954 GATCGTGGAGGGACTAGCAAA 59.519 52.381 0.00 0.00 41.55 3.68
502 1147 1.112113 GATCGTGGAGGGACTAGCAA 58.888 55.000 0.00 0.00 41.55 3.91
503 1148 0.033503 TGATCGTGGAGGGACTAGCA 60.034 55.000 0.00 0.00 41.55 3.49
570 2061 2.415625 GGATGACTCTGTGTGTACGGAC 60.416 54.545 0.00 0.00 37.28 4.79
571 2062 1.816835 GGATGACTCTGTGTGTACGGA 59.183 52.381 0.00 0.00 39.85 4.69
573 2064 3.297830 TTGGATGACTCTGTGTGTACG 57.702 47.619 0.00 0.00 0.00 3.67
574 2065 3.433615 GCTTTGGATGACTCTGTGTGTAC 59.566 47.826 0.00 0.00 0.00 2.90
575 2066 3.324846 AGCTTTGGATGACTCTGTGTGTA 59.675 43.478 0.00 0.00 0.00 2.90
576 2067 2.105477 AGCTTTGGATGACTCTGTGTGT 59.895 45.455 0.00 0.00 0.00 3.72
579 2070 2.775890 ACAGCTTTGGATGACTCTGTG 58.224 47.619 0.00 0.00 34.00 3.66
583 2074 3.585862 TCGTTACAGCTTTGGATGACTC 58.414 45.455 0.00 0.00 32.57 3.36
584 2075 3.258372 TCTCGTTACAGCTTTGGATGACT 59.742 43.478 0.00 0.00 32.57 3.41
585 2076 3.585862 TCTCGTTACAGCTTTGGATGAC 58.414 45.455 0.00 0.00 32.57 3.06
586 2077 3.258372 ACTCTCGTTACAGCTTTGGATGA 59.742 43.478 0.00 0.00 32.57 2.92
635 2126 9.915629 GTAGAAGGTAATATCAGGTATCAACAG 57.084 37.037 0.00 0.00 0.00 3.16
679 2247 1.359848 CCAGTACGTAAGCTTGCAGG 58.640 55.000 15.13 1.41 45.62 4.85
688 2256 4.210955 CGTTTTAGTTTGCCCAGTACGTAA 59.789 41.667 0.00 0.00 0.00 3.18
704 2276 6.067263 TGAACATTTCTTCCCACGTTTTAG 57.933 37.500 0.00 0.00 0.00 1.85
705 2277 5.506649 GCTGAACATTTCTTCCCACGTTTTA 60.507 40.000 0.00 0.00 0.00 1.52
706 2278 4.736464 GCTGAACATTTCTTCCCACGTTTT 60.736 41.667 0.00 0.00 0.00 2.43
707 2279 3.243401 GCTGAACATTTCTTCCCACGTTT 60.243 43.478 0.00 0.00 0.00 3.60
717 2289 5.136105 ACTGAAAGGAAGCTGAACATTTCT 58.864 37.500 18.92 5.38 39.30 2.52
750 2328 6.721704 AAAGGAAGCTGAACATTTCTTTCT 57.278 33.333 0.00 0.00 0.00 2.52
751 2329 6.201615 CCAAAAGGAAGCTGAACATTTCTTTC 59.798 38.462 0.00 0.00 0.00 2.62
752 2330 6.051074 CCAAAAGGAAGCTGAACATTTCTTT 58.949 36.000 0.00 0.00 0.00 2.52
753 2331 5.129320 ACCAAAAGGAAGCTGAACATTTCTT 59.871 36.000 0.00 0.00 0.00 2.52
754 2332 4.651045 ACCAAAAGGAAGCTGAACATTTCT 59.349 37.500 0.00 0.00 0.00 2.52
774 2352 2.254951 CGCGCAATTTGCTGACCA 59.745 55.556 18.57 0.00 42.25 4.02
796 2374 6.400091 CGATTAGCTTAATACAAGGCATCGAC 60.400 42.308 0.00 0.00 34.69 4.20
803 2381 4.213482 GGCACCGATTAGCTTAATACAAGG 59.787 45.833 0.00 0.00 0.00 3.61
824 2402 1.923227 GCTGCCGTGAAGTTTAGGGC 61.923 60.000 20.98 20.98 46.42 5.19
884 2462 0.035439 GAATTCCGCTGGACCTTCCA 60.035 55.000 0.00 0.00 45.98 3.53
966 2544 1.941999 GCATCCAGCAAGTCTTGGGC 61.942 60.000 14.40 0.73 44.79 5.36
967 2545 2.187073 GCATCCAGCAAGTCTTGGG 58.813 57.895 14.40 7.98 44.79 4.12
1022 2677 2.124277 AGCTTCTTGCATGATCAGCA 57.876 45.000 21.62 13.62 45.94 4.41
1094 2816 4.256920 AGAACAAAAGATAGTGATGCGCT 58.743 39.130 9.73 0.00 0.00 5.92
1102 2827 4.762251 GCAAGGTGGAGAACAAAAGATAGT 59.238 41.667 0.00 0.00 0.00 2.12
1376 3110 0.035739 AACTTCGTGGCCATTACGGT 59.964 50.000 9.72 1.76 41.58 4.83
1391 3125 3.067180 CCAATGCTGAACACAGACAACTT 59.933 43.478 0.00 0.00 33.94 2.66
1399 3133 1.317613 GTGGACCAATGCTGAACACA 58.682 50.000 0.00 0.00 0.00 3.72
1411 3145 1.610673 GAGGGAGAGCTGTGGACCA 60.611 63.158 0.00 0.00 0.00 4.02
1767 3543 4.641645 CGACCTGGTTGCCTGGCA 62.642 66.667 19.30 19.30 45.01 4.92
1813 3592 2.896685 GCTCTGATAGTACAGATGGCCT 59.103 50.000 3.32 0.00 44.32 5.19
1959 3742 0.588252 CCACGACAAGTTGCTCCTTG 59.412 55.000 1.81 12.52 45.83 3.61
2102 3889 4.720046 TGAGAATCGACATAGGAGTAGCT 58.280 43.478 0.00 0.00 38.61 3.32
2130 3917 1.638388 CTGTGTGCAGCCCATGTACG 61.638 60.000 0.00 0.00 46.57 3.67
2188 3975 1.527380 GACAACCCCAAACTCGGCA 60.527 57.895 0.00 0.00 0.00 5.69
2383 4176 3.697542 CCTTGATCAATGCCTTCATGACA 59.302 43.478 8.96 0.00 32.23 3.58
2495 4291 9.383519 CCAATGTAACATGAGACTACTTATTGT 57.616 33.333 0.00 0.00 0.00 2.71
2623 4419 1.810030 GTAGACCTCGCCAAAGCCG 60.810 63.158 0.00 0.00 34.57 5.52
2648 4444 4.906060 AGGGGAGTGTAGTGACTTAAACTT 59.094 41.667 0.00 0.00 0.00 2.66
2649 4445 4.283722 CAGGGGAGTGTAGTGACTTAAACT 59.716 45.833 0.00 0.00 0.00 2.66
2653 4449 3.181426 TGTCAGGGGAGTGTAGTGACTTA 60.181 47.826 0.00 0.00 38.67 2.24
2659 4455 2.292257 TGCTATGTCAGGGGAGTGTAGT 60.292 50.000 0.00 0.00 0.00 2.73
2776 4572 3.005791 GCTCTTTGCAGTAACCAACCATT 59.994 43.478 0.00 0.00 42.31 3.16
2845 4641 1.308783 GCTGGAAAAGGAAGCTCCGG 61.309 60.000 0.00 0.00 42.75 5.14
3208 5007 3.716195 CCATCCAGCCCGGTCACA 61.716 66.667 0.00 0.00 35.57 3.58
3280 5079 8.095792 TCATCATTATGCAACAAAACCTCAATT 58.904 29.630 0.00 0.00 32.76 2.32
3308 5107 5.867903 TTGACCAAATCCTCAATGTTGTT 57.132 34.783 0.00 0.00 0.00 2.83
3312 5111 4.281688 CCACTTTGACCAAATCCTCAATGT 59.718 41.667 0.00 0.00 35.99 2.71
3330 5129 0.687354 ACGCATGAACCTCTCCACTT 59.313 50.000 0.00 0.00 0.00 3.16
3453 5252 3.745975 CGATGAACAGTTGGAGCTTGTAA 59.254 43.478 0.00 0.00 0.00 2.41
3478 5277 1.202582 CCGTCGACTGAAGAGGTCAAT 59.797 52.381 14.70 0.00 35.22 2.57
3610 5456 5.178797 ACACCATCTAGAGTTACACAATGC 58.821 41.667 0.00 0.00 0.00 3.56
3809 5873 5.647658 TCTTGCATGTGGTATGTTTTCCTAG 59.352 40.000 0.00 0.00 0.00 3.02
3882 5953 2.534042 TTCCCCTCTGACAGGTAGAG 57.466 55.000 1.81 0.00 41.51 2.43
3891 5968 9.551339 TTAGTTTACTAATACTTTCCCCTCTGA 57.449 33.333 0.00 0.00 33.83 3.27
3929 6126 4.539726 TGCTCTTATGAGAAATGCCCAAT 58.460 39.130 9.72 0.00 42.73 3.16
3972 6169 2.434336 TCTACGAAACATCCAGATGGGG 59.566 50.000 12.10 1.34 42.91 4.96
3989 6186 5.992217 AGTTGATCTTTGGCCGAATATCTAC 59.008 40.000 25.28 25.28 0.00 2.59
4056 6262 7.168637 TGTTCTGTTAGTATCTGTTCGACAAAC 59.831 37.037 0.00 0.00 38.43 2.93
4107 6396 9.753674 TCTTTCTTGTTATTATTCACCTCCAAT 57.246 29.630 0.00 0.00 0.00 3.16
4166 6470 6.757947 GCACATGGACAGTAAAATTTGCATAT 59.242 34.615 0.00 0.00 0.00 1.78
4178 6482 2.290260 CCAAGGAAGCACATGGACAGTA 60.290 50.000 0.00 0.00 34.82 2.74
4250 6554 7.765695 TCAATCTTGATTAAGTTCTTTGCCT 57.234 32.000 0.00 0.00 35.38 4.75
4547 6968 5.761205 TGGCCTGCAAAGGATATTACTTAA 58.239 37.500 3.32 0.00 0.00 1.85
4548 6969 5.381184 TGGCCTGCAAAGGATATTACTTA 57.619 39.130 3.32 0.00 0.00 2.24
4555 6978 4.518278 TCTTATTGGCCTGCAAAGGATA 57.482 40.909 3.32 0.00 0.00 2.59
4598 7023 9.267084 GTGATAAATTTCTTGATAGAGGACCTC 57.733 37.037 14.15 14.15 0.00 3.85
4621 7046 3.840666 AGTTCAGGCTCTTATTGGAGTGA 59.159 43.478 0.00 0.00 35.89 3.41
4868 7354 0.036010 CAGGGTGCATCGAGGACTTT 60.036 55.000 0.00 0.00 38.81 2.66
4950 7437 8.982723 TCTTCTGGAGCTACTCATACTATTTTT 58.017 33.333 0.00 0.00 31.08 1.94


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

AutoCloner maintained by Alex Coulton.