Multiple sequence alignment - TraesCS6B01G205500

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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 TraesCS6B01G205500 chr6B 100.000 4965 0 0 1 4965 257564717 257569681 0.000000e+00 9169.0
1 TraesCS6B01G205500 chr6B 82.022 267 29 14 4650 4911 695133171 695132919 5.040000e-50 209.0
2 TraesCS6B01G205500 chr6B 80.976 205 21 7 4292 4480 704894675 704894877 4.010000e-31 147.0
3 TraesCS6B01G205500 chr6B 79.630 216 29 5 4280 4480 56071326 56071541 1.860000e-29 141.0
4 TraesCS6B01G205500 chr6B 88.172 93 10 1 4388 4480 34038332 34038241 5.250000e-20 110.0
5 TraesCS6B01G205500 chr6D 91.814 5094 208 83 1 4965 144467526 144472539 0.000000e+00 6903.0
6 TraesCS6B01G205500 chr6D 82.500 360 45 16 4569 4921 14237595 14237247 2.910000e-77 300.0
7 TraesCS6B01G205500 chr6D 80.978 368 48 16 4547 4909 456836322 456835972 6.330000e-69 272.0
8 TraesCS6B01G205500 chr6D 87.143 70 7 1 4898 4965 315175310 315175241 1.480000e-10 78.7
9 TraesCS6B01G205500 chr6A 92.241 4395 213 51 644 4965 202356900 202352561 0.000000e+00 6109.0
10 TraesCS6B01G205500 chr6A 91.192 386 22 5 1 375 202357995 202357611 9.530000e-142 514.0
11 TraesCS6B01G205500 chr6A 91.855 221 16 2 408 628 202357416 202357198 1.740000e-79 307.0
12 TraesCS6B01G205500 chr3A 79.412 442 43 17 4545 4965 71232135 71232549 8.190000e-68 268.0
13 TraesCS6B01G205500 chr3A 81.776 214 28 9 4274 4480 630767221 630767012 8.550000e-38 169.0
14 TraesCS6B01G205500 chr3A 91.860 86 7 0 4395 4480 472806757 472806672 2.430000e-23 121.0
15 TraesCS6B01G205500 chr7D 83.333 294 37 10 4680 4965 65898393 65898682 1.370000e-65 261.0
16 TraesCS6B01G205500 chr2A 83.688 282 31 12 4645 4920 9065357 9065085 8.250000e-63 252.0
17 TraesCS6B01G205500 chr2D 81.962 316 37 13 4601 4909 9750833 9750531 2.970000e-62 250.0
18 TraesCS6B01G205500 chr2D 76.179 424 37 26 4576 4961 561885108 561884711 1.110000e-36 165.0
19 TraesCS6B01G205500 chr2D 91.429 70 4 2 4898 4965 522147870 522147939 1.470000e-15 95.3
20 TraesCS6B01G205500 chr2B 79.883 343 46 20 4545 4879 13053675 13053348 3.870000e-56 230.0
21 TraesCS6B01G205500 chr7A 76.761 426 70 17 4553 4965 74698950 74698541 1.400000e-50 211.0
22 TraesCS6B01G205500 chr3B 82.533 229 21 6 4274 4484 650055180 650054953 3.050000e-42 183.0
23 TraesCS6B01G205500 chr3B 92.045 88 5 1 4386 4471 454727781 454727694 6.750000e-24 122.0
24 TraesCS6B01G205500 chr7B 86.184 152 19 2 4544 4695 679885952 679886101 3.980000e-36 163.0
25 TraesCS6B01G205500 chr1A 81.250 208 31 8 4547 4747 9911568 9911774 1.430000e-35 161.0
26 TraesCS6B01G205500 chr4B 87.324 71 5 2 4898 4965 647406680 647406749 1.480000e-10 78.7
27 TraesCS6B01G205500 chr4B 87.324 71 5 2 4898 4965 647412955 647413024 1.480000e-10 78.7


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 TraesCS6B01G205500 chr6B 257564717 257569681 4964 False 9169 9169 100.000000 1 4965 1 chr6B.!!$F2 4964
1 TraesCS6B01G205500 chr6D 144467526 144472539 5013 False 6903 6903 91.814000 1 4965 1 chr6D.!!$F1 4964
2 TraesCS6B01G205500 chr6A 202352561 202357995 5434 True 2310 6109 91.762667 1 4965 3 chr6A.!!$R1 4964

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
723 1198 0.245539 TGAAGTACTGCCAGCGTACC 59.754 55.0 15.92 7.25 38.34 3.34 F
1103 1604 0.267356 AATGGAGGAGGAGGAGGAGG 59.733 60.0 0.00 0.00 0.00 4.30 F
1704 2223 0.108851 GGCCCAATAAAGTTGCCACG 60.109 55.0 0.00 0.00 41.76 4.94 F
2659 3224 0.666374 TCGACGTCTGCTTGTCTTCA 59.334 50.0 14.70 0.00 32.93 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1704 2223 0.249031 GCACCAAAACAGTGAGGCAC 60.249 55.0 0.00 0.0 37.42 5.01 R
2440 3005 0.318441 CTGCCCTCGAGTTGAAGTCA 59.682 55.0 12.31 0.0 0.00 3.41 R
2804 3369 0.589729 CACGCTTCTGCACAACACAC 60.590 55.0 0.00 0.0 39.64 3.82 R
4233 4827 0.400213 TTCCCACAAAGGCGAGTCAT 59.600 50.0 0.00 0.0 35.39 3.06 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
76 85 2.076863 CCACATGAACGAACCTCTTCC 58.923 52.381 0.00 0.00 0.00 3.46
79 88 2.632996 ACATGAACGAACCTCTTCCTCA 59.367 45.455 0.00 0.00 0.00 3.86
81 90 3.594603 TGAACGAACCTCTTCCTCATC 57.405 47.619 0.00 0.00 0.00 2.92
123 132 2.287608 ACAGCAGTTTAAAAAGAGCGGC 60.288 45.455 0.00 0.00 0.00 6.53
255 268 3.606346 CGTTGCATTATTGGTTTCCGTTC 59.394 43.478 0.00 0.00 0.00 3.95
312 325 9.793252 ATTCTTATCAGTTTGATGTTGTATTGC 57.207 29.630 1.94 0.00 37.70 3.56
347 360 2.486203 ACGAGTGTCAAGTTTGCAAACA 59.514 40.909 36.46 19.20 41.30 2.83
352 365 6.449635 AGTGTCAAGTTTGCAAACAGATTA 57.550 33.333 36.46 23.86 41.30 1.75
354 367 7.491682 AGTGTCAAGTTTGCAAACAGATTATT 58.508 30.769 36.46 21.73 41.30 1.40
387 568 7.655521 TGTTGCTGGTGTAATACTAGTATCT 57.344 36.000 15.72 8.84 39.83 1.98
431 612 9.696917 CTGTAAGCATTTTTAATGAGAAAAGGT 57.303 29.630 3.70 0.00 32.23 3.50
524 716 0.959867 TGTCCCGACAATGCACATGG 60.960 55.000 0.00 0.00 38.56 3.66
525 717 0.960364 GTCCCGACAATGCACATGGT 60.960 55.000 0.00 0.00 0.00 3.55
556 748 8.689061 TCCTTTTAGACGAATATAGTAAGCACA 58.311 33.333 0.00 0.00 0.00 4.57
557 749 9.309516 CCTTTTAGACGAATATAGTAAGCACAA 57.690 33.333 0.00 0.00 0.00 3.33
575 767 4.232221 CACAAATGTGCAGTGGATTTCTC 58.768 43.478 0.00 0.00 39.39 2.87
613 805 3.055819 GCTAACAGTGGAGACAAGATCCA 60.056 47.826 0.00 0.00 46.06 3.41
685 1160 5.482526 TGCAATCTTAGGTCAAGTACTACCA 59.517 40.000 15.68 1.40 38.30 3.25
714 1189 9.520204 AAACATGCATAATTAATGAAGTACTGC 57.480 29.630 0.00 0.00 37.86 4.40
718 1193 6.145535 GCATAATTAATGAAGTACTGCCAGC 58.854 40.000 0.00 0.00 37.86 4.85
723 1198 0.245539 TGAAGTACTGCCAGCGTACC 59.754 55.000 15.92 7.25 38.34 3.34
724 1199 0.531200 GAAGTACTGCCAGCGTACCT 59.469 55.000 15.92 7.83 38.34 3.08
725 1200 0.974383 AAGTACTGCCAGCGTACCTT 59.026 50.000 15.92 10.02 38.34 3.50
727 1202 1.346722 AGTACTGCCAGCGTACCTTTT 59.653 47.619 15.92 2.00 38.34 2.27
728 1203 2.564062 AGTACTGCCAGCGTACCTTTTA 59.436 45.455 15.92 0.00 38.34 1.52
729 1204 2.781681 ACTGCCAGCGTACCTTTTAT 57.218 45.000 0.00 0.00 0.00 1.40
730 1205 2.629051 ACTGCCAGCGTACCTTTTATC 58.371 47.619 0.00 0.00 0.00 1.75
731 1206 1.940613 CTGCCAGCGTACCTTTTATCC 59.059 52.381 0.00 0.00 0.00 2.59
732 1207 1.306148 GCCAGCGTACCTTTTATCCC 58.694 55.000 0.00 0.00 0.00 3.85
733 1208 1.963172 CCAGCGTACCTTTTATCCCC 58.037 55.000 0.00 0.00 0.00 4.81
734 1209 1.489230 CCAGCGTACCTTTTATCCCCT 59.511 52.381 0.00 0.00 0.00 4.79
735 1210 2.701951 CCAGCGTACCTTTTATCCCCTA 59.298 50.000 0.00 0.00 0.00 3.53
743 1218 7.650903 GCGTACCTTTTATCCCCTATATATTCG 59.349 40.741 0.00 0.00 0.00 3.34
747 1222 7.624077 ACCTTTTATCCCCTATATATTCGAGCT 59.376 37.037 0.00 0.00 0.00 4.09
968 1452 3.999705 CTCCAGCCAGCTCCTCCCT 63.000 68.421 0.00 0.00 0.00 4.20
997 1492 1.187567 CCAGCCAAACCCCTTGAAGG 61.188 60.000 3.69 3.69 37.17 3.46
1096 1597 2.363683 GTTCTTGCAATGGAGGAGGAG 58.636 52.381 0.00 0.00 0.00 3.69
1097 1598 0.914644 TCTTGCAATGGAGGAGGAGG 59.085 55.000 0.00 0.00 0.00 4.30
1098 1599 0.914644 CTTGCAATGGAGGAGGAGGA 59.085 55.000 0.00 0.00 0.00 3.71
1099 1600 0.914644 TTGCAATGGAGGAGGAGGAG 59.085 55.000 0.00 0.00 0.00 3.69
1100 1601 0.984961 TGCAATGGAGGAGGAGGAGG 60.985 60.000 0.00 0.00 0.00 4.30
1101 1602 0.692419 GCAATGGAGGAGGAGGAGGA 60.692 60.000 0.00 0.00 0.00 3.71
1102 1603 1.422531 CAATGGAGGAGGAGGAGGAG 58.577 60.000 0.00 0.00 0.00 3.69
1103 1604 0.267356 AATGGAGGAGGAGGAGGAGG 59.733 60.000 0.00 0.00 0.00 4.30
1104 1605 2.123033 GGAGGAGGAGGAGGAGGC 60.123 72.222 0.00 0.00 0.00 4.70
1149 1650 2.035442 GCAGCCCGAGGTGAACTTC 61.035 63.158 0.00 0.00 44.53 3.01
1290 1791 2.637382 TGAGTGTTCCTGGTGCATCTTA 59.363 45.455 0.00 0.00 0.00 2.10
1320 1824 5.771666 TGGCATTCATTCTCTCAACTCTTTT 59.228 36.000 0.00 0.00 0.00 2.27
1333 1837 3.375782 ACTCTTTTGCTTTCATGGTGC 57.624 42.857 0.00 0.00 0.00 5.01
1486 2004 5.201713 TCTGGAGATATCATTGGTTCGAC 57.798 43.478 5.32 0.00 0.00 4.20
1636 2154 2.219458 CCAATGAGTGCTGCCTATCTG 58.781 52.381 0.00 0.00 0.00 2.90
1704 2223 0.108851 GGCCCAATAAAGTTGCCACG 60.109 55.000 0.00 0.00 41.76 4.94
1989 2542 4.261614 CCACTTTCTTAGCAGTTGGGTTTC 60.262 45.833 0.00 0.00 0.00 2.78
2006 2559 5.221224 TGGGTTTCTGTTTTATCAGCAAGTG 60.221 40.000 0.00 0.00 35.63 3.16
2166 2719 4.280174 GGAGAGAGTTATGCCGGTACATAA 59.720 45.833 1.90 6.87 39.57 1.90
2241 2806 6.688637 TCTTCAGATATTCTTTGCATGTGG 57.311 37.500 0.00 0.00 0.00 4.17
2352 2917 8.712228 AAGGAAAACCTCAATCAGAATAAACT 57.288 30.769 0.00 0.00 0.00 2.66
2407 2972 6.146837 TGACTGAAACATTTTTGTTGTTGGTG 59.853 34.615 0.00 0.00 37.38 4.17
2440 3005 4.437682 TCCTGTTCTTCATTTCACCACT 57.562 40.909 0.00 0.00 0.00 4.00
2558 3123 2.033550 GTCAGCGAGTACTATGGTGGAG 59.966 54.545 20.43 2.88 0.00 3.86
2620 3185 0.810016 GAGAGACTAGCCGGTTCGTT 59.190 55.000 1.90 0.00 0.00 3.85
2659 3224 0.666374 TCGACGTCTGCTTGTCTTCA 59.334 50.000 14.70 0.00 32.93 3.02
2689 3254 1.419387 CAGTCAATGATCCTCTCCCCC 59.581 57.143 0.00 0.00 0.00 5.40
2724 3289 7.614494 TCATAGTCACAAACTGATCAGAATCA 58.386 34.615 29.27 4.88 39.11 2.57
2791 3356 4.038522 GGCAGCTATCTCTTGTCTGATGTA 59.961 45.833 0.00 0.00 0.00 2.29
2796 3361 6.045318 GCTATCTCTTGTCTGATGTAGCAAA 58.955 40.000 0.00 0.00 33.21 3.68
2798 3363 6.734104 ATCTCTTGTCTGATGTAGCAAAAC 57.266 37.500 0.00 0.00 0.00 2.43
2804 3369 3.189287 GTCTGATGTAGCAAAACTGTGGG 59.811 47.826 0.00 0.00 0.00 4.61
2870 3435 2.096657 GGAGGACGAGACGGTAAACTAC 59.903 54.545 0.00 0.00 0.00 2.73
3040 3630 7.756395 AAGTACGTATATGCATACAGGTACT 57.244 36.000 30.73 30.73 41.53 2.73
3041 3631 7.756395 AGTACGTATATGCATACAGGTACTT 57.244 36.000 30.73 20.57 39.36 2.24
3042 3632 8.174733 AGTACGTATATGCATACAGGTACTTT 57.825 34.615 30.73 18.41 39.36 2.66
3043 3633 9.288576 AGTACGTATATGCATACAGGTACTTTA 57.711 33.333 30.73 13.28 39.36 1.85
3528 4121 1.690352 AGAACCTTTTCCTTCGGACGA 59.310 47.619 0.00 0.00 31.28 4.20
3645 4238 1.041447 CGGTGATCCCTCTAACGGGT 61.041 60.000 0.00 0.00 44.95 5.28
3778 4371 5.551233 ACTGAAGAGCAAGTTATGTAGCAA 58.449 37.500 0.00 0.00 0.00 3.91
3782 4375 7.885297 TGAAGAGCAAGTTATGTAGCAATTTT 58.115 30.769 0.00 0.00 0.00 1.82
3804 4397 4.600692 TTCCAGTTCTGAACGATCTTCA 57.399 40.909 14.35 7.20 36.23 3.02
3806 4399 4.748892 TCCAGTTCTGAACGATCTTCATC 58.251 43.478 14.35 3.91 36.23 2.92
3839 4432 2.423373 GGGTGGACTCAGGTATACGGTA 60.423 54.545 0.00 0.00 0.00 4.02
3916 4509 0.946221 CCGAACGCTCTCTTGTGCTT 60.946 55.000 0.00 0.00 0.00 3.91
3970 4563 4.141937 CCGGAAACCTTCTCATGATAGTGA 60.142 45.833 0.00 0.00 0.00 3.41
4048 4641 8.168058 AGGGGTTTAGTTATGTAAGAATGTGTT 58.832 33.333 0.00 0.00 0.00 3.32
4092 4685 0.679505 TGTCTGAAGCTGCGGTAGTT 59.320 50.000 0.00 0.00 0.00 2.24
4134 4728 5.333581 TGGTCTCTCTTTCTCCTGTATTCA 58.666 41.667 0.00 0.00 0.00 2.57
4155 4749 6.227298 TCAAGGCTTGGTAATTGTTCAAAA 57.773 33.333 25.92 0.00 0.00 2.44
4181 4775 1.538849 CCAGCCAGTTCTTTTTGTGCC 60.539 52.381 0.00 0.00 0.00 5.01
4225 4819 1.165907 CCTTTGTCTCAAGCGTGGCA 61.166 55.000 0.00 0.00 0.00 4.92
4226 4820 0.662619 CTTTGTCTCAAGCGTGGCAA 59.337 50.000 0.00 0.88 0.00 4.52
4227 4821 1.065401 CTTTGTCTCAAGCGTGGCAAA 59.935 47.619 0.00 8.38 0.00 3.68
4364 4958 9.996554 ATTTAAAGTTCCAAAAGAATCCGAAAT 57.003 25.926 0.00 0.00 36.69 2.17
4498 5107 6.524101 TGTTCGTATAGCCATCTGCATATA 57.476 37.500 0.00 0.00 44.83 0.86
4512 5121 5.052481 TCTGCATATATGACACTTGTGAGC 58.948 41.667 17.10 0.00 0.00 4.26
4517 5126 6.427853 GCATATATGACACTTGTGAGCCATTA 59.572 38.462 17.10 4.77 0.00 1.90
4672 5282 5.434408 ACCGGTCCTTTTATCACTATTTCC 58.566 41.667 0.00 0.00 0.00 3.13
4676 5286 7.771826 CCGGTCCTTTTATCACTATTTCCTTTA 59.228 37.037 0.00 0.00 0.00 1.85
4677 5287 9.169592 CGGTCCTTTTATCACTATTTCCTTTAA 57.830 33.333 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.249986 TGCTTTTGGATTTATGCAGGC 57.750 42.857 0.00 0.00 0.00 4.85
76 85 0.933097 CAAAGATGGCGGACGATGAG 59.067 55.000 0.00 0.00 0.00 2.90
79 88 1.078497 TGCAAAGATGGCGGACGAT 60.078 52.632 0.00 0.00 0.00 3.73
81 90 1.851021 TTGTGCAAAGATGGCGGACG 61.851 55.000 0.00 0.00 0.00 4.79
123 132 2.463589 TTAGCCGGGCTTCCACAGTG 62.464 60.000 29.02 0.00 40.44 3.66
149 160 3.006430 CCTTTCCCGCATTACAAAAGGTT 59.994 43.478 4.41 0.00 40.58 3.50
255 268 5.637006 TCAAAATTAACCTCGGGAACATG 57.363 39.130 0.00 0.00 0.00 3.21
312 325 4.763874 GACACTCGTCACATCTATCTACG 58.236 47.826 0.00 0.00 42.13 3.51
347 360 7.546667 CACCAGCAACAAAGCAAATAATAATCT 59.453 33.333 0.00 0.00 36.85 2.40
352 365 4.959723 ACACCAGCAACAAAGCAAATAAT 58.040 34.783 0.00 0.00 36.85 1.28
354 367 5.521906 TTACACCAGCAACAAAGCAAATA 57.478 34.783 0.00 0.00 36.85 1.40
387 568 9.788889 TGCTTACAGAAGTAGTATATACTGCTA 57.211 33.333 27.35 13.25 46.34 3.49
404 585 9.912634 CCTTTTCTCATTAAAAATGCTTACAGA 57.087 29.630 0.00 0.00 0.00 3.41
405 586 9.696917 ACCTTTTCTCATTAAAAATGCTTACAG 57.303 29.630 0.00 0.00 0.00 2.74
524 716 6.979238 ACTATATTCGTCTAAAAGGACTGCAC 59.021 38.462 0.00 0.00 34.38 4.57
525 717 7.108841 ACTATATTCGTCTAAAAGGACTGCA 57.891 36.000 0.00 0.00 34.38 4.41
556 748 4.560108 GCAAGAGAAATCCACTGCACATTT 60.560 41.667 0.00 0.00 0.00 2.32
557 749 3.057033 GCAAGAGAAATCCACTGCACATT 60.057 43.478 0.00 0.00 0.00 2.71
566 758 2.094234 TGATCGACGCAAGAGAAATCCA 60.094 45.455 0.00 0.00 43.62 3.41
567 759 2.282820 GTGATCGACGCAAGAGAAATCC 59.717 50.000 0.00 0.00 43.62 3.01
613 805 5.359292 GCATTTCAGGAAGATAAGCTCCTTT 59.641 40.000 0.00 0.00 0.00 3.11
628 820 5.449107 AGCATTAGCATTAGCATTTCAGG 57.551 39.130 0.00 0.00 45.49 3.86
713 1188 1.306148 GGGATAAAAGGTACGCTGGC 58.694 55.000 0.00 0.00 0.00 4.85
714 1189 1.489230 AGGGGATAAAAGGTACGCTGG 59.511 52.381 0.00 0.00 0.00 4.85
718 1193 8.906867 TCGAATATATAGGGGATAAAAGGTACG 58.093 37.037 0.00 0.00 0.00 3.67
723 1198 7.863375 CGAGCTCGAATATATAGGGGATAAAAG 59.137 40.741 32.06 0.00 43.02 2.27
724 1199 7.558807 TCGAGCTCGAATATATAGGGGATAAAA 59.441 37.037 35.16 6.52 46.30 1.52
725 1200 7.058525 TCGAGCTCGAATATATAGGGGATAAA 58.941 38.462 35.16 6.87 46.30 1.40
727 1202 6.183810 TCGAGCTCGAATATATAGGGGATA 57.816 41.667 35.16 7.65 46.30 2.59
728 1203 5.050126 TCGAGCTCGAATATATAGGGGAT 57.950 43.478 35.16 0.00 46.30 3.85
729 1204 4.498894 TCGAGCTCGAATATATAGGGGA 57.501 45.455 35.16 8.84 46.30 4.81
968 1452 1.073923 GGTTTGGCTGGAGAAAGGAGA 59.926 52.381 0.00 0.00 0.00 3.71
997 1492 1.450312 ACACTAGAGCCGGCATTGC 60.450 57.895 31.54 14.87 0.00 3.56
1098 1599 4.488911 ATCCTGCCTCCGCCTCCT 62.489 66.667 0.00 0.00 0.00 3.69
1099 1600 3.934962 GATCCTGCCTCCGCCTCC 61.935 72.222 0.00 0.00 0.00 4.30
1100 1601 3.157252 TGATCCTGCCTCCGCCTC 61.157 66.667 0.00 0.00 0.00 4.70
1101 1602 3.474570 GTGATCCTGCCTCCGCCT 61.475 66.667 0.00 0.00 0.00 5.52
1102 1603 4.899239 CGTGATCCTGCCTCCGCC 62.899 72.222 0.00 0.00 0.00 6.13
1103 1604 3.781770 CTCGTGATCCTGCCTCCGC 62.782 68.421 0.00 0.00 0.00 5.54
1104 1605 2.415010 CTCGTGATCCTGCCTCCG 59.585 66.667 0.00 0.00 0.00 4.63
1149 1650 1.726265 GTAGCCCGAGTACTGACCG 59.274 63.158 0.00 0.00 0.00 4.79
1311 1815 3.492011 GCACCATGAAAGCAAAAGAGTTG 59.508 43.478 0.00 0.00 0.00 3.16
1320 1824 1.067425 GCAAGATGCACCATGAAAGCA 60.067 47.619 8.70 8.70 44.26 3.91
1486 2004 3.252458 CCAGGTCCTAAACAAGAAAACCG 59.748 47.826 0.00 0.00 31.21 4.44
1704 2223 0.249031 GCACCAAAACAGTGAGGCAC 60.249 55.000 0.00 0.00 37.42 5.01
1989 2542 5.858581 GGCTTAACACTTGCTGATAAAACAG 59.141 40.000 0.00 0.00 40.43 3.16
2025 2578 5.452255 AGAAATGTCAGTGCCCATCATAAT 58.548 37.500 0.00 0.00 0.00 1.28
2166 2719 9.959721 AAGACTGTAAATGAAGGTGTACATATT 57.040 29.630 0.00 0.00 0.00 1.28
2241 2806 0.322456 TGTGGAATGTAGTGCCCTGC 60.322 55.000 0.00 0.00 0.00 4.85
2249 2814 2.416547 CTCGGCAAGTTGTGGAATGTAG 59.583 50.000 4.48 0.00 0.00 2.74
2352 2917 6.643360 CAGAAAAATGCATCAACACTGAATCA 59.357 34.615 0.00 0.00 34.49 2.57
2359 2924 6.476380 TCAGAAACAGAAAAATGCATCAACAC 59.524 34.615 0.00 0.00 0.00 3.32
2407 2972 3.073274 AGAACAGGATTGCCCAACTAC 57.927 47.619 0.00 0.00 37.41 2.73
2440 3005 0.318441 CTGCCCTCGAGTTGAAGTCA 59.682 55.000 12.31 0.00 0.00 3.41
2551 3116 4.096003 GGGCTAAGCGCTCCACCA 62.096 66.667 12.06 0.00 38.48 4.17
2558 3123 4.836688 GCAAAGCGGGCTAAGCGC 62.837 66.667 0.00 0.00 40.04 5.92
2620 3185 4.445452 GAGGGTAACATCGTACTTGTCA 57.555 45.455 0.00 0.00 37.80 3.58
2659 3224 3.132646 GGATCATTGACTGAGAGAGCACT 59.867 47.826 0.00 0.00 37.28 4.40
2689 3254 5.819379 AGTTTGTGACTATGAGCATACATGG 59.181 40.000 0.00 0.00 36.65 3.66
2753 3318 2.105477 AGCTGCCTTCTCTCTCACAAAA 59.895 45.455 0.00 0.00 0.00 2.44
2757 3322 2.958355 AGATAGCTGCCTTCTCTCTCAC 59.042 50.000 0.00 0.00 0.00 3.51
2763 3328 3.384467 AGACAAGAGATAGCTGCCTTCTC 59.616 47.826 17.19 17.19 36.88 2.87
2782 3347 3.189287 CCCACAGTTTTGCTACATCAGAC 59.811 47.826 0.00 0.00 0.00 3.51
2791 3356 1.204467 CAACACACCCACAGTTTTGCT 59.796 47.619 0.00 0.00 0.00 3.91
2796 3361 0.610509 TGCACAACACACCCACAGTT 60.611 50.000 0.00 0.00 0.00 3.16
2798 3363 0.747644 TCTGCACAACACACCCACAG 60.748 55.000 0.00 0.00 0.00 3.66
2804 3369 0.589729 CACGCTTCTGCACAACACAC 60.590 55.000 0.00 0.00 39.64 3.82
2870 3435 3.341823 CTGGACATCCTTCCTGTTCAAG 58.658 50.000 0.00 0.00 36.51 3.02
2985 3550 6.764085 TCTGTTTATTTCTCGAAAGGTCACAA 59.236 34.615 0.00 0.00 33.32 3.33
3021 3586 8.981724 ACATAAAGTACCTGTATGCATATACG 57.018 34.615 10.16 3.87 41.68 3.06
3027 3617 9.705290 CACATATACATAAAGTACCTGTATGCA 57.295 33.333 13.84 0.00 35.65 3.96
3028 3618 9.706691 ACACATATACATAAAGTACCTGTATGC 57.293 33.333 13.84 0.00 35.65 3.14
3032 3622 8.978472 ACAGACACATATACATAAAGTACCTGT 58.022 33.333 0.00 0.00 35.05 4.00
3033 3623 9.817809 AACAGACACATATACATAAAGTACCTG 57.182 33.333 0.00 0.00 35.05 4.00
3273 3864 7.609918 ACAAGGCTTTGTAATCCTTTTTGTTTT 59.390 29.630 13.18 0.00 45.45 2.43
3528 4121 4.263243 CCCAAAGTTGAGACTTGAGAGGAT 60.263 45.833 0.00 0.00 45.18 3.24
3645 4238 2.215942 TCTGCACTAGTGTCCTGCTA 57.784 50.000 23.44 1.05 0.00 3.49
3782 4375 4.956085 TGAAGATCGTTCAGAACTGGAAA 58.044 39.130 11.60 0.00 31.94 3.13
3790 4383 3.429960 CCTGCAGATGAAGATCGTTCAGA 60.430 47.826 17.39 0.00 33.34 3.27
3804 4397 1.075482 CACCCACCAACCTGCAGAT 59.925 57.895 17.39 0.00 0.00 2.90
3806 4399 2.598394 CCACCCACCAACCTGCAG 60.598 66.667 6.78 6.78 0.00 4.41
3839 4432 0.603975 GTGGCGAAGGAGAGCTTGTT 60.604 55.000 0.00 0.00 0.00 2.83
3898 4491 1.698165 TAAGCACAAGAGAGCGTTCG 58.302 50.000 0.00 0.00 36.39 3.95
4048 4641 5.278463 GCTAGGAACATGAAGAACAAAGCAA 60.278 40.000 0.00 0.00 0.00 3.91
4092 4685 3.640967 ACCAAAACCTTTAGAGCAATGCA 59.359 39.130 8.35 0.00 0.00 3.96
4155 4749 4.222810 ACAAAAAGAACTGGCTGGAACTTT 59.777 37.500 0.00 0.00 0.00 2.66
4209 4803 0.662619 CTTTGCCACGCTTGAGACAA 59.337 50.000 0.00 0.00 0.00 3.18
4233 4827 0.400213 TTCCCACAAAGGCGAGTCAT 59.600 50.000 0.00 0.00 35.39 3.06
4498 5107 5.126067 GGTATAATGGCTCACAAGTGTCAT 58.874 41.667 0.00 1.37 0.00 3.06
4512 5121 7.963532 AGTGTGATAAGTAGTGGGTATAATGG 58.036 38.462 0.00 0.00 0.00 3.16
4517 5126 7.490657 TTGAAGTGTGATAAGTAGTGGGTAT 57.509 36.000 0.00 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.