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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,036,373	C→T	578 (TAG→TAA)	recJ ←	ssDNA exonuclease, 5' ‑‑> 3'‑specific

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,036,373	0	C	T	100.0%	162.9 / NA	52	578 (TAG→TAA)	recJ	ssDNA exonuclease, 5' ‑‑> 3'‑specific
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (27/25); total (27/25)

GGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGCTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTAAAAG  >  NC_000913/3036243‑3036506

ggTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTgg                                                                                                                               <  1:251735/139‑1 (MQ=255)

       aaTGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGC‑GGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGatat                                                                                                                       >  2:1099300/1‑139 (MQ=255)

              ttattTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCga                                                                                                                 >  1:1471526/1‑139 (MQ=255)

                            aaTTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGC‑GGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGc                                                                                                  <  1:1099300/139‑1 (MQ=255)

                                        ggTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCcg                                                                                       >  2:204220/1‑139 (MQ=255)

                                         gTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCgatgat                                                                                                             >  2:46603/1‑116 (MQ=255)

                                         gTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCgatgat                                                                                                             <  1:46603/116‑1 (MQ=255)

                                                    tttATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTgg                                                                                                                               >  1:888653/1‑87 (MQ=255)

                                                    tttATTGAGCTAGTCAAAATGCGGTGATAAGAGCCGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGCCGTTAAATCgg                                                                                                                               <  2:888653/87‑1 (MQ=255)

                                                                gTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGaaa                                                                                  >  1:217699/1‑120 (MQ=255)

                                                                gTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGaaa                                                                                  <  2:217699/120‑1 (MQ=255)

                                                                gTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCg                                                                              >  2:270030/1‑124 (MQ=255)

                                                                gTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCg                                                                              <  1:270030/124‑1 (MQ=255)

                                                                     aaTGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAAt                                                                                                                                  <  2:1428265/67‑1 (MQ=255)

                                                                     aaTGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAAt                                                                                                                                  >  1:1428265/1‑67 (MQ=255)

                                                                                     cGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCgcgc                                          <  1:204220/139‑1 (MQ=255)

                                                                                     cGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCgcgc                                          <  2:1471526/139‑1 (MQ=255)

                                                                                      gggATTGTCCCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCa                                         >  2:651520/1‑139 (MQ=255)

                                                                                      gggATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCa                                         <  1:590646/139‑1 (MQ=255)

                                                                                        gATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATaa                                                            <  2:138554/118‑1 (MQ=255)

                                                                                        gATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATaa                                                            >  1:138554/1‑118 (MQ=255)

                                                                                             tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGc                                                                                                                              <  2:198720/47‑1 (MQ=255)

                                                                                             tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGc                                                                                                                              >  1:198720/1‑47 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTg                                                                                                       <  1:218813/63‑1 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTg                                                                                                       >  2:218813/1‑63 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGt                                                                                            >  2:1170909/1‑74 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGt                                                                                            <  1:1170909/74‑1 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATaa                                                            <  1:206020/106‑1 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATaa                                                            >  2:206020/1‑106 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCAc                                                 >  1:170511/1‑117 (MQ=255)

                                                                                                    tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCAc                                                 <  2:170511/117‑1 (MQ=255)

                                                                                                       aCGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGa                                                                    >  2:300097/1‑95 (MQ=255)

                                                                                                       aCGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGa                                                                    <  1:300097/95‑1 (MQ=255)

                                                                                                         gCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTcgcg                                           >  1:1519447/1‑118 (MQ=255)

                                                                                                         gCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTcgcg                                           <  2:1519447/118‑1 (MQ=255)

                                                                                                              tttttATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCgg                 >  2:1405090/1‑139 (MQ=255)

                                                                                                                  tataGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATc             >  1:745105/1‑139 (MQ=255)

                                                                                                                       agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTg                                                    >  2:305145/1‑95 (MQ=255)

                                                                                                                       agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTg                                                    <  1:305145/95‑1 (MQ=255)

                                                                                                                       agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCa                                         >  1:316760/1‑106 (MQ=255)

                                                                                                                       agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCa                                         <  2:316760/106‑1 (MQ=255)

                                                                                                                       agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCa                         >  1:269223/1‑122 (MQ=255)

                                                                                                                       agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCa                         <  2:269223/122‑1 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGTAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTa      >  1:807365/1‑139 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGTAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTa      >  1:1066957/1‑139 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCgcgc                                          <  1:1252720/103‑1 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCgcgc                                          >  2:1252720/1‑103 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATc                               >  2:86602/1‑114 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATc                               <  1:86602/114‑1 (MQ=255)

                                                                                                                         aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTa      >  1:297662/1‑139 (MQ=255)

                                                                                                                             tGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGTAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTAAAAg  <  2:807365/139‑1 (MQ=255)

                                                                                                                             tGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTAAAAg  <  2:297662/139‑1 (MQ=255)

GGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGCTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTAAAAG  >  NC_000913/3036243‑3036506

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