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
A15 F48 I1 R1	115	87.5	3003888	99.1%	2976853	139.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,296,381	+GC	intergenic (+587/+55)	gltP → / ← yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,296,380	1	.	C	100.0%	190.0 / NA	50	intergenic (+586/+56)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (23/27); total (23/27)
*	NC_000913	4,296,380	2	.	G	100.0%	188.9 / NA	50	intergenic (+586/+56)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (23/27); total (23/27)

TATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCA  >  NC_000913/4296312‑4296503

||

tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTa                                                        <  2:1331693/140‑1 (MQ=255)

  tCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAAt                                                      <  2:516532/140‑1 (MQ=255)

       ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTc                                                 >  1:924809/1‑140 (MQ=255)

          aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCaaa                                              <  1:1355171/140‑1 (MQ=255)

           cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCCGTTGGTTAATTTTTCaaa                                              >  1:1350586/1‑140 (MQ=14)

           cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTc                                                 <  2:400348/136‑1 (MQ=255)

           cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTc                                                 >  1:400348/1‑136 (MQ=255)

           cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAAc                                             >  2:602369/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTc                                        >  2:1480665/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTc                                        >  2:135674/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTc                                        >  2:540588/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTc                                        >  1:165247/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTc                                        >  2:559706/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTc                                        >  2:865190/1‑140 (MQ=255)

                gACAGCGCAATAGCCTGATATAGCGTGATTTTTTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTGTTCAAACTCTTc                                        >  1:1410637/1‑140 (MQ=17)

                     cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAcc                                   <  2:121349/140‑1 (MQ=255)

                     cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAcc                                   >  2:1275331/1‑140 (MQ=255)

                     cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAcc                                   >  1:482324/1‑140 (MQ=255)

                     cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAcc                                   >  1:405643/1‑140 (MQ=255)

                     cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAcc                                   >  2:950047/1‑140 (MQ=255)

                      gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAccc                                  <  1:602369/140‑1 (MQ=255)

                      gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAccc                                  <  1:634578/140‑1 (MQ=255)

                      gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAccc                                  <  2:394340/140‑1 (MQ=255)

                             ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCa                           <  1:571788/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGGCATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  1:1225525/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAccc                                  >  1:1148434/1‑131 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACAccc                                  <  2:1148434/131‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  2:924809/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  1:1275331/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  1:774169/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  1:1480665/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  2:405643/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  2:362356/140‑1 (MQ=255)

                               tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  2:3970/140‑1 (MQ=255)

                                gATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAc                        >  1:364580/1‑140 (MQ=255)

                                 aTTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAcc                       >  2:1102653/1‑140 (MQ=255)

                                  tttAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAccc                      >  1:78571/1‑140 (MQ=255)

                                    tAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt                    <  2:901983/140‑1 (MQ=255)

                                       cGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa                 >  1:1476622/1‑140 (MQ=255)

                                         tGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATa               <  1:559706/140‑1 (MQ=255)

                                           aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         <  2:504203/128‑1 (MQ=255)

                                           aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                         >  1:504203/1‑128 (MQ=255)

                                            ttttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAg            <  2:165247/140‑1 (MQ=255)

                                              ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt          <  2:364580/140‑1 (MQ=255)

                                              ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt          <  1:540588/140‑1 (MQ=255)

                                              ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt          <  2:482324/140‑1 (MQ=255)

                                              ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt          <  1:625602/140‑1 (MQ=255)

                                              ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt          <  1:745348/140‑1 (MQ=255)

                                              ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt          <  1:935867/140‑1 (MQ=255)

                                                     tCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTc   >  2:486931/1‑140 (MQ=255)

                                                      cGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCa  >  1:880952/1‑140 (MQ=255)

||

TATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAA‑CCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCA  >  NC_000913/4296312‑4296503

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A