Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,153,047	A→G	D370G (GAT→GGT)	fabF →	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,153,047	0	A	G	100.0%	123.2 / NA	35	D370G (GAT→GGT)	fabF	3‑oxoacyl‑[acyl‑carrier‑protein] synthase II
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (18/17); total (18/17)

AAGCCGTGTGTTGGTAAGCTCCACGAAATCTATGACCGGTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGATAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTAATGGTTCTTTGATCTTTAAAAAGATCT  >  NC_000913/1152919‑1153178

aaGCCGTGTGTTGGTAAGCTCCACGAAATCTATGACCGGTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGAt                                                                                                                           <  1:276589/139‑1 (MQ=255)

                   aagagacagtCTATGACCGGTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGGTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGAtt                                                                                                        <  1:115456/130‑1 (MQ=255)

                    ccACGAAATCTATGACCGGTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGAttt                                                                                                       >  2:704762/1‑139 (MQ=255)

                                      gTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCt                                                                                                             <  1:640004/115‑1 (MQ=255)

                                      gTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCt                                                                                                             >  2:640004/1‑115 (MQ=255)

                                      gTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGcgcg                                                                                     >  2:681562/1‑139 (MQ=255)

                                       tCACCTGTTAGGTGCGGCGGGAGCATTAGAAACTTTCTAATCCATCCTGGCTCTGCGCGATCAGGCTGTTCCGCCAACCATCCACCTGGGTAACCCCGATGAAGGTTGCGCTCTGGATTTCGTACCGCAcctgtctttt                                                                                    >  2:115456/1‑130 (MQ=255)

                                            tGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGt                                                                               <  1:569487/139‑1 (MQ=255)

                                                     cggcggGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCa                                                                                              <  2:1021922/115‑1 (MQ=255)

                                                     cggcggGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCa                                                                                              >  1:1021922/1‑115 (MQ=255)

                                                        cggGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTAc                                                                                                  <  1:402336/108‑1 (MQ=255)

                                                        cggGTGCAGTAGAATCTATCTAATCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAAACCGGATGAAGGTTGCGATCTGGATTTCGTAc                                                                                                  >  2:402336/1‑108 (MQ=255)

                                                               aGTAGAATCTATCTACTCCATCCTGGCTCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACAct                                                            <  1:1216396/139‑1 (MQ=255)

                                                                                  aTCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCcttcggct                                         >  1:1251113/1‑139 (MQ=255)

                                                                                   tCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGTGGAATGGAATACACTCTGTGTAACTCcttcggctt                                        >  1:1127145/1‑139 (MQ=255)

                                                                                   tCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCcttcggctt                                        >  1:455447/1‑139 (MQ=255)

                                                                                    ccTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCcttcggcttc                                       >  1:62886/1‑139 (MQ=255)

                                                                                    ccTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCcttcggcttc                                       >  1:967049/1‑139 (MQ=255)

                                                                                       ggCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGt                                    <  1:1067167/139‑1 (MQ=255)

                                                                                          gcTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGc                                 <  1:704762/139‑1 (MQ=255)

                                                                                             gcgcGATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAAGGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACt                              >  2:827080/1‑139 (MQ=255)

                                                                                              cgcgATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAgg                                                                                                                      <  2:441526/50‑1 (MQ=255)

                                                                                              cgcgATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAgg                                                                                                                      >  1:441526/1‑50 (MQ=255)

                                                                                              cgcgATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTa                             <  2:1117615/139‑1 (MQ=255)

                                                                                              cgcgATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTa                             >  2:730217/1‑139 (MQ=255)

                                                                                               gcgATCAGGCTGTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTaa                            <  2:1251113/139‑1 (MQ=255)

                                                                                                          gTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTAATGGTTCTTTGa                 <  2:62886/139‑1 (MQ=255)

                                                                                                          gTTCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTAATGGTTCTTTGa                 <  2:967049/139‑1 (MQ=255)

                                                                                                           ttCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGc                                                                                               <  1:785888/60‑1 (MQ=255)

                                                                                                           ttCCGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGc                                                                                               >  2:785888/1‑60 (MQ=255)

                                                                                                             ccGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTTCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCggaat                                                                      >  1:154907/1‑83 (MQ=255)

                                                                                                             ccGCCAACCATCAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCggaat                                                                      <  2:154907/83‑1 (MQ=255)

                                                                                                                        cAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACAct                                                            <  2:498266/82‑1 (MQ=255)

                                                                                                                        cAACCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACAct                                                            >  1:498266/1‑82 (MQ=255)

                                                                                                                         aaCCTGGGTAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTAATGGTTCTTTGATCTTTAAAAAGATCt  >  2:307349/1‑139 (MQ=255)

AAGCCGTGTGTTGGTAAGCTCCACGAAATCTATGACCGGTCACCTGTTAGGTGCGGCGGGTGCAGTAGAATCTATCTACTCCATCCTGGCGCTGCGCGATCAGGCTGTTCCGCCAACCATCAACCTGGATAACCCGGATGAAGGTTGCGATCTGGATTTCGTACCGCACGAAGCGCGTCAGGTTAGCGGAATGGAATACACTCTGTGTAACTCCTTCGGCTTCGGTGGCACTAATGGTTCTTTGATCTTTAAAAAGATCT  >  NC_000913/1152919‑1153178

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A