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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,392,890	G→A	300 (TAG→TAA)	pgrR →	murein peptide degradation regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,392,890	0	G	A	100.0%	164.0 / NA	51	300 (TAG→TAA)	pgrR	murein peptide degradation regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (27/24); total (27/24)

GATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAGCACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAC  >  NC_000913/1392764‑1393021

gATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACa                                                                                                                                   >  2:416285/1‑129 (MQ=255)

gATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACa                                                                                                                                   <  1:416285/129‑1 (MQ=255)

gATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTg                                                                                                                         >  1:1068788/1‑139 (MQ=255)

                 aaTTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        <  2:813622/139‑1 (MQ=255)

                          cAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTaa                                                                                               <  1:432517/139‑1 (MQ=255)

                             aTTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGt                                                                                            <  2:490681/139‑1 (MQ=255)

                             aTTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGt                                                                                            >  1:490681/1‑139 (MQ=255)

                                tACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTAtt                                                                                         <  1:430854/139‑1 (MQ=255)

                                                     aTCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        >  2:53890/1‑103 (MQ=255)

                                                     aTCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAAttc                                                                                                        <  1:53890/103‑1 (MQ=255)

                                                        cacaCCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGt                                                                 <  2:1097186/139‑1 (MQ=255)

                                                        cacaCCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGt                                                                 >  1:793378/1‑139 (MQ=255)

                                                         acacCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                <  2:1475912/139‑1 (MQ=255)

                                                           acCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                >  2:826612/1‑137 (MQ=255)

                                                           acCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                <  1:826612/137‑1 (MQ=255)

                                                             cGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAttt                                                            >  2:901763/1‑139 (MQ=255)

                                                              gTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACactact                                                                                                                              <  1:1110347/72‑1 (MQ=255)

                                                              gTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACactact                                                                                                                              >  2:1110347/1‑72 (MQ=255)

                                                              gTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttt                                                           >  2:1134501/1‑139 (MQ=255)

                                                                cGACATGCTGGCTCGGCATTCTCATTATTTGTAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         >  1:1246452/1‑139 (MQ=255)

                                                                cGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         <  1:146809/139‑1 (MQ=255)

                                                                cGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCAtttttt                                                         >  2:146809/1‑139 (MQ=255)

                                                                   cATGCTGGCTCGGCATTCTCATTATTTGTAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTAtt                                                      <  2:1246452/139‑1 (MQ=255)

                                                                   cATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTAtt                                                      <  1:1420839/139‑1 (MQ=255)

                                                                       cTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTAtt                                                                                         >  1:117562/1‑100 (MQ=255)

                                                                       cTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTAtt                                                                                         <  2:117562/100‑1 (MQ=255)

                                                                         ggCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGt                                                >  1:10347/1‑139 (MQ=255)

                                                                                    ctcATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACa                                             >  1:202754/1‑131 (MQ=255)

                                                                                    ctcATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACa                                             <  2:202754/131‑1 (MQ=255)

                                                                                         tatttatAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATg                                <  1:1134501/139‑1 (MQ=255)

                                                                                          atttatAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCa                                                                           >  2:158332/1‑95 (MQ=255)

                                                                                          atttatAGATAGGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCa                                                                           <  1:158332/95‑1 (MQ=255)

                                                                                               tagatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                >  2:554700/1‑101 (MQ=255)

                                                                                               tagatagGCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                <  1:554700/101‑1 (MQ=255)

                                                                                                     ggCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATa                    >  2:1295469/1‑139 (MQ=255)

                                                                                                      gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGtaaaaaat                                                          <  1:428320/100‑8 (MQ=255)

                                                                                                      gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGtaaaaaat                                                          >  2:428320/1‑93 (MQ=255)

                                                                                                      gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCt                              <  1:262147/128‑1 (MQ=255)

                                                                                                      gCTGAAGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCt                              >  2:262147/1‑128 (MQ=255)

                                                                                                           aGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGt                                                <  2:28938/105‑1 (MQ=255)

                                                                                                           aGTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGt                                                >  1:28938/1‑105 (MQ=255)

                                                                                                            gTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATg                                <  2:371571/120‑1 (MQ=255)

                                                                                                            gTATAAAGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATg                                >  1:371571/1‑120 (MQ=255)

                                                                                                                aaaGGTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACggg         >  1:711860/1‑139 (MQ=255)

                                                                                                                    gTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTg     >  2:199764/1‑139 (MQ=255)

                                                                                                                    gTGCTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTg     <  2:10347/139‑1 (MQ=255)

                                                                                                                       cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                >  2:29529/1‑77 (MQ=255)

                                                                                                                       cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTc                                                                <  1:29529/77‑1 (MQ=255)

                                                                                                                       cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAc  >  2:176774/1‑139 (MQ=255)

                                                                                                                       cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAc  >  2:1053546/1‑139 (MQ=255)

                                                                                                                       cTGTTTAACACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATCATGATACCGAAAACGGGTTTGAAc  >  2:900788/1‑139 (MQ=255)

GATACGTGTTTTGGATAAATTCACACCAGATTTACCCGGTTATCACCTGTACTATCCACACCGTCGACATGCTGGCTCGGCATTCTCATTATTTATAGATAGGCTGAAGTATAAAGGTGCTGTTTAGCACTACTTGCTGATACATTAATTTAATTCTTCTCTTAACGTATTCTCAGTTCCTTTCAACGTTTTGGTCATTTTTTATTCTTCGTACAATGGCGACAGATGCTGATTATGATACCGAAAACGGGTTTGAAC  >  NC_000913/1392764‑1393021

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A