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
A10 F1 I2 R1	67	36.0	1614110	95.1%	1535018	114.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,311,756	A→G	S332P (TCC→CCC)	ompC ←	outer membrane porin protein C

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,311,756	0	A	G	100.0%	133.6 / NA	36	S332P (TCC→CCC)	ompC	outer membrane porin protein C
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/19); total (17/19)

CGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAAC  >  NC_000913/2311631‑2311889

cGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                          <  1:91934/139‑1 (MQ=255)

cGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                          >  1:65016/1‑139 (MQ=255)

  atatCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGaa                                                                                                                        >  2:43450/1‑139 (MQ=255)

     tCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAagta                                                                                                                     <  1:789219/139‑1 (MQ=255)

       aaTCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAagtagt                                                                                                                   <  2:65016/139‑1 (MQ=255)

        aTCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAgtagta                                                                                                                  >  2:587297/1‑139 (MQ=255)

        aTCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAgtagta                                                                                                                  >  1:347855/1‑139 (MQ=255)

               ttAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCa                                                                                                           <  1:587297/139‑1 (MQ=255)

                       ggTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatc                                                                                                   >  2:245692/1‑139 (MQ=255)

                       ggTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGCGCATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatc                                                                                                   <  1:538684/139‑1 (MQ=255)

                                 aCCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTc                                                                                         >  2:515882/1‑139 (MQ=255)

                                  cccAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                          >  2:728005/1‑105 (MQ=255)

                                  cccAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                          <  1:728005/105‑1 (MQ=255)

                                    cAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAgg                                                                                      <  1:657512/139‑1 (MQ=255)

                                           aCGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                          <  1:70138/96‑1 (MQ=255)

                                           aCGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgttg                                                                                                                          >  2:70138/1‑96 (MQ=255)

                                           aCGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCtt                                                                               >  2:764240/1‑139 (MQ=255)

                                              aTGTTATCACTGTTGATGCCAGCGTCACGAGTGATCTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgt                                                                            <  1:515882/139‑1 (MQ=255)

                                                 ttATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgt                                                                                                                            <  2:703666/88‑1 (MQ=255)

                                                 ttATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgt                                                                                                                            >  1:703666/1‑88 (MQ=255)

                                                       gtgtTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGc                                                                   >  1:693545/1‑139 (MQ=255)

                                                          ttGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCAc                                                                >  2:297478/1‑139 (MQ=255)

                                                             aTGCCAGCGTCACGAGTGAACTGGTTGTAGTCCAACAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAc                                                             >  2:522282/1‑139 (MQ=255)

                                                              tGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAcc                                                            <  1:750082/139‑1 (MQ=255)

                                                                      tCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGtttt                                                    <  2:347855/139‑1 (MQ=255)

                                                                       cACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGttttt                                                   >  2:251262/1‑139 (MQ=255)

                                                                            gTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCtt                                              <  2:17415/139‑1 (MQ=255)

                                                                              gAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTa                                            <  1:43450/139‑1 (MQ=255)

                                                                                      tGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgt                                                                                                                            >  1:566351/1‑51 (MQ=255)

                                                                                      tGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTttgt                                                                                                                            <  2:566351/51‑1 (MQ=255)

                                                                                        tcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGt                                  <  1:245692/139‑1 (MQ=255)

                                                                                              agcagGTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCa                            >  2:529861/1‑139 (MQ=255)

                                                                                                  ggTTGATTTTGTAGTCAACGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGgga                        >  1:528230/1‑139 (MQ=255)

                                                                                                                   aCGTAGGTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGt       <  1:81168/139‑1 (MQ=255)

                                                                                                                        ggTGGGCATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAAc  <  1:297478/139‑1 (MQ=255)

                                                                                                                        ggTGGGCATGTCTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAAc  <  1:522282/139‑1 (MQ=255)

CGATATCAATCGAGATTAGAACTGGTAAACCAGACCCAGAGCTACGATGTTATCAGTGTTGATGCCAGCGTCACGAGTGAACTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAAC  >  NC_000913/2311631‑2311889

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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