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
A3 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

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%	180.1 / NA	56	578 (TAG→TAA)	recJ	ssDNA exonuclease, 5' ‑‑> 3'‑specific
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (28/28); total (28/28)

GTGAGGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGCTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTA  >  NC_000913/3036239‑3036502

gTGAGGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTaaa                                                                                                                               <  2:97796/139‑1 (MQ=255)

gTGAGGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTaaa                                                                                                                               <  2:879523/139‑1 (MQ=255)

 tGAGGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAAt                                                                                                                              <  1:775245/139‑1 (MQ=255)

   aGGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTg                                                                                                                            <  1:439393/139‑1 (MQ=255)

    ggTTCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTgg                                                                                                                           <  1:560146/139‑1 (MQ=255)

     gTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGc                                                                                                                          <  1:1317879/139‑1 (MQ=255)

       ccTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCa                                                                                                                        >  2:85880/1‑139 (MQ=255)

                gATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTc                                                                                                               >  2:904863/1‑139 (MQ=255)

                                             gTCTGATTTCTTTTATTGAGCTAGTCAAAGTGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCcgc                                                                                  >  2:982654/1‑139 (MQ=255)

                                             gTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAAt                                                                                                                              >  2:349263/1‑95 (MQ=255)

                                             gTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAAt                                                                                                                              <  1:349263/95‑1 (MQ=255)

                                                      cTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGt                                                                         >  1:1160267/1‑139 (MQ=255)

                                                      cTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGt                                                                         <  2:1238284/139‑1 (MQ=255)

                                                                 cTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTaaa                                                                                                                               <  1:1347609/74‑1 (MQ=255)

                                                                 cTAGTCAAAATGAGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTaaa                                                                                                                               >  2:1347609/1‑74 (MQ=255)

                                                                         aaTGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGc                                                      <  1:478445/139‑1 (MQ=255)

                                                                         aaTGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGc                                                      >  2:665873/1‑139 (MQ=255)

                                                                              ggTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGtt                                                 >  2:820179/1‑139 (MQ=255)

                                                                                         cGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTaaa                                                                                                                               <  1:177299/50‑1 (MQ=255)

                                                                                         cGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTaaa                                                                                                                               >  2:177299/1‑50 (MQ=255)

                                                                                          gggATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTTGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCCGTTGCACTTCGCGCa                                     <  1:982654/139‑1 (MQ=255)

                                                                                            gATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGc                                                                                                                          <  2:1378369/52‑1 (MQ=255)

                                                                                            gATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGc                                                                                                                          >  1:1378369/1‑52 (MQ=255)

                                                                                            gATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTcgcg                                       <  1:836042/135‑1 (MQ=255)

                                                                                            gATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTcgcg                                       >  2:836042/1‑135 (MQ=255)

                                                                                                 tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATAtt                                                                                                                  <  1:243237/55‑1 (MQ=255)

                                                                                                 tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATAtt                                                                                                                  >  2:243237/1‑55 (MQ=255)

                                                                                                 tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCg                                                                          <  1:1152217/95‑1 (MQ=255)

                                                                                                 tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCg                                                                          >  2:1152217/1‑95 (MQ=255)

                                                                                                 tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGatat                                                                   <  2:748574/102‑1 (MQ=255)

                                                                                                 tACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGatat                                                                   >  1:748574/1‑102 (MQ=255)

                                                                                                      aaTCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCg                         >  1:731861/1‑139 (MQ=255)

                                                                                                       aTCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGc                                  >  1:1422873/1‑129 (MQ=255)

                                                                                                       aTCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGc                                  <  2:1422873/129‑1 (MQ=255)

                                                                                                        tCCACGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGc                       <  1:904863/139‑1 (MQ=255)

                                                                                                           aCGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAg                                                                                                >  1:1375209/1‑63 (MQ=255)

                                                                                                           aCGCTCTTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAg                                                                                                <  2:1375209/63‑1 (MQ=255)

                                                                                                               tctTTTTTATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAggg                <  1:85880/139‑1 (MQ=255)

                                                                                                                  tttttATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGa                                                                >  1:1196200/1‑88 (MQ=255)

                                                                                                                  tttttATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGa                                                                <  2:1196200/88‑1 (MQ=255)

                                                                                                                    tttATAGAGAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTa           <  2:1160267/139‑1 (MQ=255)

                                                                                                                         agagAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGAc      >  1:237884/1‑139 (MQ=255)

                                                                                                                         agagAAGATGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGAc      >  2:837991/1‑139 (MQ=255)

                                                                                                                           agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGaaa                                                                              <  1:885212/65‑1 (MQ=255)

                                                                                                                           agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGaaa                                                                              >  2:885212/1‑65 (MQ=255)

                                                                                                                           agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCgcgc                                      <  1:1362684/105‑1 (MQ=255)

                                                                                                                           agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCgcgc                                      >  2:1362684/1‑105 (MQ=255)

                                                                                                                           agaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACAt    >  2:577239/1‑139 (MQ=255)

                                                                                                                            gaagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACAtt   <  2:731861/139‑1 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGa       >  2:851575/1‑134 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGa       <  1:851575/134‑1 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACAtt   >  1:1336020/1‑138 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACAtt   <  2:1336020/138‑1 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTa  >  2:1199202/1‑139 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTa  >  2:890595/1‑139 (MQ=255)

                                                                                                                             aagaTGACGTTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATACGGCCAGAGGGCGGTATCGACATTa  >  2:769838/1‑139 (MQ=255)

GTGAGGTCCTGAATGCGATTATTTACCGGATTAATTTCAAACATGGTCTGATTTCTTTTATTGAGCTAGTCAAAATGCGGTGATAAGAGCGGGATTGTACCCAATCCACGCTCTTTTTTATAGAGAAGATGACGCTAAATTGGCCAGATATTGTCGATGATAATTTGCAGGCTGCGGTTGCCGCGAAACTCGTTGATATCGAGCTTATAAGCCAGTTGCACTTCGCGCACGCCGTTATCCGGCCAGAGGGCGGTATCGACATTA  >  NC_000913/3036239‑3036502

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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