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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,094,275	C→T	289 (TAG→TAA)	insF1 ←	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,094,275	0	C	T	100.0%	85.2 / NA	28	289 (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (12/16); total (12/16)

TGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCC  >  NC_000913/1094146‑1094380

tGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAgg                                                                                                  >  2:868563/1‑139 (MQ=255)

  gCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGtt                                                                                                >  1:848901/1‑139 (MQ=255)

            cACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCa                                                                                      >  2:905948/1‑139 (MQ=255)

            cACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCa                                                                                      <  1:699030/139‑1 (MQ=255)

              cTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGTTGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    <  1:580577/139‑1 (MQ=255)

              cTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    <  1:895584/139‑1 (MQ=255)

              cTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    <  2:848901/139‑1 (MQ=255)

              cTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGGTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                    <  2:609387/139‑1 (MQ=255)

                ttACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAAtt                                                                                  >  2:39848/1‑139 (MQ=255)

                   cGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGtt                                                                               <  1:881725/139‑1 (MQ=255)

                           aaGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTg                                                                       >  2:621306/1‑139 (MQ=255)

                                aCCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgcc                                                                  <  1:621306/139‑1 (MQ=255)

                                  cGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                <  1:905948/139‑1 (MQ=255)

                                               gtggtTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACtgtg                                                   >  2:706570/1‑139 (MQ=255)

                                                  gtTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgcc                                                                  >  1:372845/1‑121 (MQ=255)

                                                  gtTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgcc                                                                  <  2:372845/121‑1 (MQ=255)

                                                   ttGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccgc                                               >  2:212388/1‑139 (MQ=255)

                                                      tgAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccg                                                <  2:849859/135‑1 (MQ=255)

                                                      tgAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccg                                                >  1:849859/1‑135 (MQ=255)

                                                       gAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccgccgcc                                           <  1:782056/139‑1 (MQ=255)

                                                         gggATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCAc                                         <  2:949797/139‑1 (MQ=255)

                                                         gggATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCAc                                         >  1:179580/1‑139 (MQ=255)

                                                                            tgAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                      <  1:39848/139‑1 (MQ=255)

                                                                              aGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGata                    <  1:415417/139‑1 (MQ=255)

                                                                                         aGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGata                    <  2:954/128‑1 (MQ=255)

                                                                                         aGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGata                    >  1:954/1‑128 (MQ=255)

                                                                                              cATTTTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTg    >  1:148999/1‑139 (MQ=18)

                                                                                                ttttGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc  <  2:179580/139‑1 (MQ=14)

TGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCC  >  NC_000913/1094146‑1094380

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