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
A9 F56 I0 R1	218	83.1	3292392	95.3%	3137649	126.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP006881	1,973,569	A→C	23.6%	L385R (CTT→CGT)	U712_09760 ←	Putative transporter yoaB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	1,973,569	0	A	C	23.6%	63.0 / 3.4	44	L385R (CTT→CGT)	U712_09760	Putative transporter yoaB
Reads supporting (aligned to +/- strand): ref base A (16/16); new base C (2/9); total (18/26)
Fisher's exact test for biased strand distribution p-value = 8.56e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTAAAAAGATAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTGCCCCTTTATCTTTTCCTGCC  >  CP006881/1973435‑1973706

tttAAAAAGATAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGc                                                                                                                                       <  3:390370/139‑1 (MQ=255)

    aaaaGATAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCa                                                                                                                                   <  8:287252/139‑1 (MQ=255)

    aaaaGATAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCa                                                                                                                                   <  4:93147/139‑1 (MQ=255)

    aaaaGAAAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCa                                                                                                                                   <  5:272333/139‑1 (MQ=255)

     aaaGATAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGATTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGCCCGCACTTGCAAGGTAAAGGGCCGCaa                                                                                                                                  <  7:230479/139‑1 (MQ=255)

          tAAAACGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATTAATACTTTTTGTCAAGACCGCACTTGAAAGGTAAAGGGCCGCAAAGAt                                                                                                                              <  7:98396/138‑1 (MQ=255)

                   ccccTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGaca                                                                                                                    >  1:350897/1‑139 (MQ=255)

                   caccTCAAACAGGGCGCTTTCTAATTAAGATGAATATTGAGGAGATGTTTCCTCCTTAACTGATTTTTCCTCAGGTATTTGAATACATTTTGTCTCGACAGCACTTGCAAGGTAACTGGCCGCAAAGAACCAGACGaca                                                                                                                    >  5:338227/3‑139 (MQ=255)

                               ggCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCcg                                                                                                        >  5:368703/1‑139 (MQ=255)

                                   cTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCCCTTGCAAGGTATAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCcgac                                                                                                      >  4:323433/1‑137 (MQ=255)

                                       cTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCCGACGACACCTTGCGCGCCGACGAGAc                                                                                                 <  7:120351/138‑1 (MQ=255)

                                             aaGATGCAAATTGAGGAGATGTTGCCTCCTTAACTGCTTTTTCCTCAGGTATATTAATAAATTTTGTCAAGCCCGCACTTGCAAGGTAACGGGCCGCAAAGATCCACACGACACCTTGCGCGCCGACGAGACCGATGa                                                                                           <  7:219726/138‑1 (MQ=255)

                                              aGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGTTATAGGAATACATTTTGTCACGACCGCACTTGCAAGGTAACGGGCCGAAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAAc                                                                                         <  8:222882/139‑1 (MQ=255)

                                                aTGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGCCGAGACCGATGAACAg                                                                                       >  1:302616/1‑139 (MQ=255)

                                                aTGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAg                                                                                       >  3:198695/1‑139 (MQ=255)

                                                 tGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAACACCGCACTTGCAAGGTAACGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGc                                                                                      <  1:289513/139‑1 (MQ=255)

                                                       ttGAGGATATGTTTCCTACTTAACTGCTTTTTCGTCAGGTATATGAAAACATTTTGTCAAGACCGCACTTGCAAGGTAACGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGc                                                                                 <  8:61966/138‑1 (MQ=255)

                                                       ttGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTAAGGTATATGAATACATTTTGTCAAGACCTCACTTGCAAGGTAACGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGc                                                                                 <  8:250476/138‑1 (MQ=255)

                                                         gaggagATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAAc                                                                                         <  6:127938/128‑1 (MQ=255)

                                                         gaggagATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAAc                                                                                         >  5:127938/1‑128 (MQ=255)

                                                          aggagATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTATAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGAGGAACAGCCAAGCGa                                                                               >  7:381017/1‑137 (MQ=255)

                                                            gagaTGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGCCCGCAAAGATAAAGACGACACCTTGCGCGCCGACGAGACCGATGAACATCCAAGCGAGTg                                                                            >  8:13303/1‑138 (MQ=255)

                                                              gaTGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGAGGAGACCGATGAACAGCCAAGCGAGTGCAg                                                                         >  1:110820/1‑139 (MQ=255)

                                                               aTGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAgg                                                                        >  5:322537/1‑139 (MQ=255)

                                                                    tcctccTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGa                                                                   >  1:203794/1‑139 (MQ=255)

                                                                      ctcctTAACTGCTTTTTCCTCAGGTATATGAATACAATTTGTCAAGACCGAACTAGCAAGGTAAAGCGCCGCAAAGATCCAGACGACACATTGCGAGCCGAATAGACCGATCAACAGCCACGCGAGTGCAGGGCCGAc                                                                  >  3:303747/1‑138 (MQ=255)

                                                                         ctTAACTGCTTTTTCCTAAGGTATATTAAAAAATTTTGTCAAGACGGCACTTGAAAGGTAAAGGGCCTCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACaa                                                                <  2:350897/137‑1 (MQ=255)

                                                                               tGCTTTACCCACAGTTATATAAAAAATTTTTGCAAACCCCCCCCTTGCACGGAAACGGCCCCCAACCAGCCCCACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGa                                                         <  2:203794/138‑1 (MQ=255)

                                                                                 cTTTTTCCTCAGGTATATCAATACATTTTGTCAACACCCCACTTGCAAGGTAAAGGGCCGCAAAGACCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGAt                                                        <  3:133038/137‑1 (MQ=255)

                                                                                     ttCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAAcc                                                   <  6:177178/138‑1 (MQ=255)

                                                                                                tatCAATACATTTTGTATAGACGGCAGTGTCAAGGTATTGGCCCTCAAAGCTCCAGACGACACCTTGCGCGCCGACTAGACCGATGAACATCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCATCTAAttt                                       <  6:338227/139‑1 (MQ=255)

                                                                                                  tGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTc                                      >  1:340055/1‑138 (MQ=255)

                                                                                                    aacaCATTTTGTCAAGACCGCCCTTGCAAGGAAACGGCCCGAAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAAt                                   <  8:381017/136‑1 (MQ=255)

                                                                                                     aTACATTTTGTCACTCCCCCACTTGCATGGTAACGGGCCCCAAAGAGCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAAt                                   <  3:254613/138‑1 (MQ=255)

                                                                                                       aCATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCt                                            <  2:230100/127‑1 (MQ=255)

                                                                                                       aCATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCt                                            >  1:230100/1‑127 (MQ=255)

                                                                                                         aTTTTGTCAAGACCGCACTGGCAAGGTACAGGGCCGCAAAGAACCCGCCGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGa                              <  5:2253/139‑1 (MQ=255)

                                                                                                             tGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGCCACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACCAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATg                          >  4:79455/1‑139 (MQ=255)

                                                                                                                 aaGCCCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTg                      <  2:110820/139‑1 (MQ=255)

                                                                                                                 aaGACCGCTATTGCATGGTAAAGGGCCGCAAATAGCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTg                      <  4:312722/139‑1 (MQ=255)

                                                                                                                 aaGACCGCACTTGCAATGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTg                      <  7:13303/139‑1 (MQ=255)

                                                                                                                          cTTGCAAGGTAACGGCCCGCAACTATCCTGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTGCCCCTTTAt             <  6:322537/139‑1 (MQ=255)

                                                                                                                             gCAAGGTAACGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTGCCCCTTTATCtt          >  8:245983/1‑139 (MQ=255)

                                                                                                                              cAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTGCCCCTTTATCgtt         >  1:166908/1‑139 (MQ=255)

                                                                                                                                     aaGGGCCGCAAAGATCCCGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTGCCCCTTTATCTTTTCCTGcc  <  6:354878/139‑1 (MQ=255)

TTTAAAAAGATAAAAAGCGCCCCTCAAACAGGGCGCTTTCTAATTAAGATGCATATTGAGGAGATGTTTCCTCCTTAACTGCTTTTTCCTCAGGTATATGAATACATTTTGTCAAGACCGCACTTGCAAGGTAAAGGGCCGCAAAGATCCAGACGACACCTTGCGCGCCGACGAGACCGATGAACAGCCAAGCGAGTGCAGGGCCGACAAACGCTGATAAACCTGCAGCTAAATTCAATACAGACATGGCTGCCCCTTTATCTTTTCCTGCC  >  CP006881/1973435‑1973706

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A