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
A9 F1 I1 R1	759	71.0	3673240	91.5%	3361014	104.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	913,349	G→A	L156L (CTG→TTG)	hcp ←	hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	913,349	0	G	A	100.0%	131.6 / NA	41	L156L (CTG→TTG)	hcp	hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (22/19); total (22/19)

GGTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCA  >  NC_000913/913239‑913467

ggTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGttt                                                                                            >  2:1793047/1‑139 (MQ=255)

             gCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGGGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATTCAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATcgccg                                                                               <  1:1296346/139‑1 (MQ=255)

                       tATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCttt                                                                     >  1:1600513/1‑139 (MQ=255)

                         tGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt                                                                   <  1:1793047/139‑1 (MQ=255)

                          ggTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGtt                                                                  <  2:1600513/139‑1 (MQ=255)

                             aCTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAgg                                                               >  2:821492/1‑139 (MQ=255)

                                 ggCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTa                                                           >  2:576312/1‑139 (MQ=255)

                                      aaaTATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGtt                                                                  >  1:1421076/1‑127 (MQ=255)

                                      aaaTATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGtt                                                                  <  2:1421076/127‑1 (MQ=255)

                                                gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCg                                                                                         >  1:931919/1‑94 (MQ=255)

                                                gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCg                                                                                         <  2:931919/94‑1 (MQ=255)

                                                gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                             <  2:372043/106‑1 (MQ=255)

                                                gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                             >  1:372043/1‑106 (MQ=255)

                                                gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGa                                            >  2:1294743/1‑139 (MQ=255)

                                                 tCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGAc                                           >  1:1686714/1‑139 (MQ=255)

                                                        gACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAg                                    <  1:576312/139‑1 (MQ=255)

                                                             agaACATGCGCG‑GTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGttt                                                                                            >  2:1778044/1‑77 (MQ=255)

                                                             agaACATGCGCG‑GTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGttt                                                                                            <  1:1778044/77‑1 (MQ=255)

                                                              gaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg                                                    <  1:1694267/117‑1 (MQ=255)

                                                              gaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg                                                    >  2:1694267/1‑117 (MQ=255)

                                                              gaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCAAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAggg                                                              >  1:1175894/1‑107 (MQ=255)

                                                              gaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCAAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAggg                                                              <  2:1175894/107‑1 (MQ=255)

                                                                   tGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt                                                                   <  1:1399003/97‑1 (MQ=255)

                                                                   tGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt                                                                   >  2:1399003/1‑97 (MQ=255)

                                                                         tgtTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGAGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGc                   <  1:1294743/139‑1 (MQ=255)

                                                                           ttCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTGGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTc                 >  2:500958/1‑139 (MQ=255)

                                                                                   aGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTg         <  2:1686714/139‑1 (MQ=255)

                                                                                     gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCa                                                                                                          <  1:652979/40‑1 (MQ=255)

                                                                                     gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCa                                                                                                          >  2:652979/1‑40 (MQ=255)

                                                                                     gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCAc               <  1:279488/131‑1 (MQ=255)

                                                                                     gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCAc               >  2:279488/1‑131 (MQ=255)

                                                                                      ccgccgCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATc                                                                                   >  1:665299/1‑62 (MQ=255)

                                                                                      ccgccgCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATc                                                                                   <  2:665299/62‑1 (MQ=255)

                                                                                          cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                             >  2:458282/1‑64 (MQ=255)

                                                                                          cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                             <  1:458282/64‑1 (MQ=255)

                                                                                          cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATc                                                                        <  1:915899/69‑1 (MQ=255)

                                                                                          cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATc                                                                        >  2:915899/1‑69 (MQ=255)

                                                                                          cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCa  >  1:831261/1‑139 (MQ=255)

                                                                                          cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCa  >  1:653278/1‑139 (MQ=255)

                                                                                                          tACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATc                                                                                   >  2:507715/1‑42 (MQ=255)

                                                                                                          tACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATc                                                                                   <  1:507715/42‑1 (MQ=255)

GGTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCA  >  NC_000913/913239‑913467

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A