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
A1 F1 I1 R1	1548	369.5	20095359	96.9%	19472402	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	996,684	A→G	S18P (TCC→CCC)	ycbP ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	996,684	0	A	G	99.6%	740.1 / NA	230	S18P (TCC→CCC)	ycbP	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (122/107); minor base T (0/1); total (122/108)
Fisher's exact test for biased strand distribution p-value = 4.70e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 238 total aligned reads displayed.

GTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGAGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA  >  NC_000913/996594‑996774

gTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGc                                                                                          >  1:7937551/1‑93 (MQ=255)

gTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGc                                                                                          <  1:4717399/93‑1 (MQ=255)

gTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGc                                                                                          >  1:4654160/1‑93 (MQ=255)

gTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGc                                                                                          >  2:7513574/1‑93 (MQ=255)

 tAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCt                                                                                         >  2:8548727/1‑93 (MQ=255)

    aTCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTggg                                                                                      >  1:7319473/1‑92 (MQ=255)

     tCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAg                                                                                     >  2:6272049/1‑93 (MQ=255)

     tCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAg                                                                                     <  1:9306757/93‑1 (MQ=255)

     tCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAg                                                                                     <  1:2877819/93‑1 (MQ=255)

     tCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAg                                                                                     >  1:1678985/1‑93 (MQ=255)

      cTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGc                                                                                    <  2:2410711/93‑1 (MQ=255)

       ttCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCg                                                                                   >  2:9426312/1‑93 (MQ=255)

       ttCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCg                                                                                   >  2:1615825/1‑93 (MQ=255)

         ccGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCgag                                                                                 <  1:1752554/93‑1 (MQ=255)

           ggggCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGaa                                                                               <  2:7427730/93‑1 (MQ=255)

           ggggCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGaa                                                                               >  1:5438233/1‑93 (MQ=255)

            gggCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAg                                                                              >  1:2635612/1‑93 (MQ=255)

            gggCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAg                                                                              <  1:8638132/93‑1 (MQ=255)

            gggCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAg                                                                              <  1:5181143/93‑1 (MQ=255)

            gggCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAg                                                                              >  2:60642/1‑93 (MQ=255)

             ggCTAAGTTGTGCAGATTGCAGTGATAAACCTCTACATCCAGGCCATGTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAgg                                                                             <  1:5253566/93‑1 (MQ=255)

              gCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGa                                                                            >  2:5879144/1‑93 (MQ=255)

                gAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGaaa                                                                          >  2:8595347/1‑93 (MQ=255)

                 aaGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAg                                                                         <  2:9642208/93‑1 (MQ=255)

                 aaGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAg                                                                         >  2:3614701/1‑93 (MQ=255)

                   gTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCg                                                                       <  2:2328717/93‑1 (MQ=255)

                    ttttGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGa                                                                      <  1:1025979/93‑1 (MQ=255)

                    ttttGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGa                                                                      >  1:8977322/1‑93 (MQ=255)

                      ttGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTGCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAgg                                                                    <  2:5136672/93‑1 (MQ=255)

                       tGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGa                                                                   >  1:3483919/1‑93 (MQ=255)

                             ttCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTAccc                                                             <  1:9129034/93‑1 (MQ=255)

                             ttCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTAccc                                                             <  2:9921899/93‑1 (MQ=255)

                              tCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCg                                                            >  1:6594898/1‑93 (MQ=255)

                               ccAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGc                                                           >  2:7144798/1‑93 (MQ=255)

                                 aGTGATAACCCTCTACATCCAGGCAATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCa                                                         <  1:7793110/93‑1 (MQ=255)

                                 aGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCa                                                         >  2:9217865/1‑93 (MQ=255)

                                 aGTGAGAATCCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCa                                                         <  2:9050218/93‑1 (MQ=255)

                                  gTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAg                                                        <  2:3928039/93‑1 (MQ=255)

                                  gTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAg                                                        <  2:8669832/93‑1 (MQ=255)

                                   tGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAgg                                                       <  1:7152319/93‑1 (MQ=255)

                                   tGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAgg                                                       <  1:5366228/93‑1 (MQ=255)

                                    gATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAggg                                                      >  2:2267007/1‑93 (MQ=255)

                                     aTAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGt                                                     <  1:2782311/93‑1 (MQ=255)

                                      tAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtg                                                    >  2:6553369/1‑93 (MQ=255)

                                      tAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtg                                                    >  2:7576169/1‑93 (MQ=255)

                                      tAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtg                                                    >  1:7519702/1‑93 (MQ=255)

                                       aaaCCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtga                                                   <  2:1863224/93‑1 (MQ=255)

                                       aaaCCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtga                                                   >  2:4158782/1‑93 (MQ=255)

                                       aaaCCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtga                                                   <  1:4087111/93‑1 (MQ=255)

                                        aaCCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtgat                                                  <  2:7094370/93‑1 (MQ=255)

                                          ccTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtgatga                                                <  1:2687048/93‑1 (MQ=255)

                                          ccTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtgatga                                                >  1:2316489/1‑93 (MQ=255)

                                          ccTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGtgatga                                                >  2:4791809/1‑93 (MQ=255)

                                           ctctACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGac                                               <  2:7001718/93‑1 (MQ=255)

                                            tctACATCCAGGTCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGaca                                              <  1:6883454/93‑1 (MQ=255)

                                            tctACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGaca                                              >  2:3002525/1‑93 (MQ=255)

                                            tctACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGaca                                              >  2:4708266/1‑93 (MQ=255)

                                              tACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACg                                            >  1:1436380/1‑93 (MQ=255)

                                                cATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCa                                          <  1:4688422/93‑1 (MQ=255)

                                                cATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCa                                          <  1:3260514/93‑1 (MQ=255)

                                                cATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGGGATGACACGCa                                          >  2:2764886/1‑93 (MQ=255)

                                                 aTCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCAt                                         >  2:5541366/1‑93 (MQ=255)

                                                  tCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATa                                        >  2:6897502/1‑93 (MQ=255)

                                                    cAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATAct                                      >  1:8008380/1‑93 (MQ=255)

                                                    cAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATAct                                      <  1:8155775/93‑1 (MQ=255)

                                                     aGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATActc                                     >  2:6835799/1‑93 (MQ=255)

                                                      ggCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGTGTGATGACACGCATActct                                    <  1:6870569/93‑1 (MQ=255)

                                                         cATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACtctctc                                 >  2:4301898/1‑93 (MQ=255)

                                                           tttAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCt                               >  2:4747348/1‑93 (MQ=255)

                                                           tttAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCt                               >  1:3086563/1‑93 (MQ=255)

                                                           tttAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCt                               >  1:5587225/1‑93 (MQ=255)

                                                            ttAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCtt                              >  2:4971743/1‑93 (MQ=255)

                                                            ttAGTTTTTCCCGCGAATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCtt                              >  1:7207186/1‑93 (MQ=255)

                                                              aGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTtat                            <  1:305199/93‑1 (MQ=255)

                                                              aGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTtat                            >  1:6089461/1‑93 (MQ=255)

                                                                  tttCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAAcc                        >  2:5089173/1‑93 (MQ=255)

                                                                   ttCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCa                       >  2:407611/1‑93 (MQ=255)

                                                                    tCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCaa                      <  2:8277060/93‑1 (MQ=255)

                                                                    tCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCaa                      <  1:8597134/93‑1 (MQ=255)

                                                                     cccGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAAt                     >  2:7899066/1‑93 (MQ=255)

                                                                      ccGCGCATATTCCAGCAAGGTGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATTACACGCATACTCTCTCCTTATAACCAAtt                    <  1:1761950/93‑1 (MQ=255)

                                                                       cgcgCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTg                   >  2:10012311/1‑93 (MQ=255)

                                                                           cATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCt               <  2:1448286/93‑1 (MQ=255)

                                                                            atatTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCtt              >  1:9533192/1‑93 (MQ=255)

                                                                            atatTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCtt              >  2:2837032/1‑93 (MQ=255)

                                                                             tatTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCttt             <  2:37926/93‑1 (MQ=255)

                                                                             tatTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCttt             <  1:9904454/93‑1 (MQ=255)

                                                                             tatTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCttt             >  2:7925789/1‑93 (MQ=255)

                                                                               ttCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCttttt           >  1:1145878/1‑93 (MQ=255)

                                                                               ttCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCttttt           >  2:67272/1‑93 (MQ=255)

                                                                                tCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCtttttt          <  1:377659/93‑1 (MQ=255)

                                                                                tCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCtttttt          <  1:3380864/93‑1 (MQ=255)

                                                                                   aGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGt       >  2:1085736/1‑93 (MQ=255)

                                                                                   aGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGt       <  2:8854927/93‑1 (MQ=255)

                                                                                      aaGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTaa    >  2:7619519/1‑93 (MQ=255)

                                                                                       aGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAAc   <  1:9828681/93‑1 (MQ=255)

                                                                                       aGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAAc   >  2:4222658/1‑93 (MQ=255)

                                                                                       aGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAAc   <  1:6232937/93‑1 (MQ=255)

                                                                                       aGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAAc   <  1:2228484/93‑1 (MQ=255)

                                                                                       aGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAAc   <  2:6185180/93‑1 (MQ=255)

GTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGAGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA  >  NC_000913/996594‑996774

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 29 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGAGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACAT  >  NC_000913/996591‑996775

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGG                                                                                             >  SRR4302540.2061510/1‑94 (MQ=60)

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGG                                                                                             <  SRR4302540.8249724/94‑1 (MQ=60)

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGG                                                                                             <  SRR4302540.8249723/94‑1 (MQ=60)

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGG                                                                                             <  SRR4302540.7072811/94‑1 (MQ=60)

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGG                                                                                             <  SRR4302540.7224911/94‑1 (MQ=60)

 AAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGG                                                                                            >  SRR4302540.3852192/1‑94 (MQ=60)

  AGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGC                                                                                           >  SRR4302540.9945615/1‑94 (MQ=60)

  AGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGC                                                                                           >  SRR4302540.4703963/1‑94 (MQ=60)

  AGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGC                                                                                           >  SRR4302540.1585528/1‑94 (MQ=60)

  AGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGC                                                                                           >  SRR4302540.8030057/1‑94 (MQ=60)

   GTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCT                                                                                          <  SRR4302540.7572874/94‑1 (MQ=60)

   GTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCT                                                                                          <  SRR4302540.4767796/94‑1 (MQ=60)

   GTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCT                                                                                          <  SRR4302540.4232729/94‑1 (MQ=60)

     AGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGG                                                                                        <  SRR4302540.6769415/94‑1 (MQ=60)

     AGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGG                                                                                        >  SRR4302540.8432280/1‑94 (MQ=60)

     AGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGG                                                                                        >  SRR4302540.3288862/1‑94 (MQ=60)

      GATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGG                                                                                       >  SRR4302540.7401222/1‑94 (MQ=60)

      GATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGA                                                                                       >  SRR4302540.694812/1‑94 (MQ=60)

      GATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGA                                                                                       >  SRR4302540.5311536/1‑94 (MQ=60)

       ATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAG                                                                                      >  SRR4302540.1697211/1‑94 (MQ=60)

        TCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGC                                                                                     <  SRR4302540.9417891/94‑1 (MQ=60)

        TCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGC                                                                                     >  SRR4302540.2924630/1‑94 (MQ=60)

        TCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGC                                                                                     <  SRR4302540.2909116/94‑1 (MQ=60)

         CTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCG                                                                                    <  SRR4302540.4533442/94‑1 (MQ=60)

         CTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCG                                                                                    >  SRR4302540.9383848/1‑94 (MQ=60)

         CTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCG                                                                                    >  SRR4302540.5373414/1‑94 (MQ=60)

          TTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGA                                                                                   >  SRR4302540.8998408/1‑94 (MQ=60)

            CCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGA                                                                                 <  SRR4302540.1771542/94‑1 (MQ=60)

            CCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGA                                                                                 <  SRR4302540.1771835/94‑1 (MQ=60)

             CGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAA                                                                                >  SRR4302540.7561820/1‑94 (MQ=60)

             CGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAA                                                                                >  SRR4302540.5498058/1‑94 (MQ=60)

              GGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAG                                                                               <  SRR4302540.2882065/94‑1 (MQ=60)

              GGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAG                                                                               >  SRR4302540.2664148/1‑94 (MQ=60)

              GGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAG                                                                               <  SRR4302540.349611/94‑1 (MQ=60)

              GGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAG                                                                               >  SRR4302540.1702975/1‑94 (MQ=60)

              CGGGCGAAGTTTTGCAGATCCGAGTGAGGACACTCTCCATCCGGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAG                                                                               <  SRR4302540.1493268/94‑1 (MQ=50)

              CGGGCGAAGGTGTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTCCCCCGCGCACACGCCATCAAGGGGCTGGAGCGAGAAG                                                                               <  SRR4302540.4831975/94‑1 (MQ=50)

               GGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGG                                                                              <  SRR4302540.5237538/94‑1 (MQ=60)

               GGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGG                                                                              <  SRR4302540.8738476/94‑1 (MQ=60)

                GGCTAAGTTGTGCAGATTGCAGTGATAAACCTCTACATCCAGGCCATGTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGA                                                                             <  SRR4302540.5310870/94‑1 (MQ=60)

                  CGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAA                                                                           <  SRR4302540.6441564/94‑1 (MQ=60)

                  CGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAA                                                                           <  SRR4302540.2379379/94‑1 (MQ=60)

                      GTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGA                                                                       <  SRR4302540.6599251/94‑1 (MQ=60)

                      GTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGA                                                                       >  SRR4302540.9084195/1‑94 (MQ=60)

                      GTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGA                                                                       >  SRR4302540.9176442/1‑94 (MQ=60)

                      GTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGA                                                                       >  SRR4302540.2870057/1‑94 (MQ=60)

                       TTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAG                                                                      <  SRR4302540.1036388/94‑1 (MQ=60)

                         TTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGA                                                                    >  SRR4302540.3521850/1‑94 (MQ=60)

                          TGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGAC                                                                   <  SRR4302540.9203108/94‑1 (MQ=60)

                          TGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGAC                                                                   <  SRR4302540.617926/94‑1 (MQ=60)

                           GCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGGTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACT                                                                  >  SRR4302540.4093804/1‑94 (MQ=60)

                                TTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCG                                                             >  SRR4302540.6667933/1‑94 (MQ=60)

                                TTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCG                                                             <  SRR4302540.9238759/94‑1 (MQ=60)

                                    AGTGATAACCCTCTACATCCAGGCAATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAG                                                         <  SRR4302540.7884203/94‑1 (MQ=60)

                                     GTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGG                                                        <  SRR4302540.8061340/94‑1 (MQ=60)

                                      TGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGG                                                       <  SRR4302540.7232026/94‑1 (MQ=60)

                                      TGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGG                                                       <  SRR4302540.5425187/94‑1 (MQ=60)

                                       GATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGT                                                      <  SRR4302540.4925622/94‑1 (MQ=60)

                                        ATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTTGAGCGAGAAGGAAAGGGAGGACTACCCGCCCGGGTG                                                     >  SRR4302540.581843/1‑94 (MQ=60)

                                        ATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTG                                                     >  SRR4302540.7603796/1‑94 (MQ=60)

                                        ATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTG                                                     >  SRR4302540.5273483/1‑94 (MQ=60)

                                        ATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTG                                                     <  SRR4302540.2812367/94‑1 (MQ=60)

                                         TAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGA                                                    <  SRR4302540.2686941/94‑1 (MQ=60)

                                          AAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGAT                                                   <  SRR4302540.4131191/94‑1 (MQ=60)

                                          AAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGAG                                                   >  SRR4302540.1581003/1‑94 (MQ=60)

                                           ACCCTCTACATCCAGGCCATTGAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATG                                                  <  SRR4302540.3718446/94‑1 (MQ=60)

                                           AACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATG                                                  >  SRR4302540.545401/1‑94 (MQ=60)

                                            ACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGA                                                 >  SRR4302540.2341428/1‑94 (MQ=60)

                                            ACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGA                                                 <  SRR4302540.5636944/94‑1 (MQ=60)

                                             CCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGAC                                                >  SRR4302540.8018548/1‑94 (MQ=60)

                                             CCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGAC                                                <  SRR4302540.9779875/94‑1 (MQ=60)

                                             CCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGAC                                                <  SRR4302540.2716092/94‑1 (MQ=60)

                                             CCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGAC                                                >  SRR4302540.2078132/1‑94 (MQ=60)

                                              CTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACA                                               <  SRR4302540.4752705/94‑1 (MQ=60)

                                               TCTACATCCAGGTCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACAC                                              <  SRR4302540.6959761/94‑1 (MQ=60)

                                                CTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACG                                             >  SRR4302540.1451960/1‑94 (MQ=60)

                                                   CATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCAT                                          <  SRR4302540.4738562/94‑1 (MQ=60)

                                                   CATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCAT                                          <  SRR4302540.3296076/94‑1 (MQ=60)

                                                     TCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATAC                                        <  SRR4302540.7074204/94‑1 (MQ=60)

                                                      CCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACT                                       >  SRR4302540.8101557/1‑94 (MQ=60)

                                                       CAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTC                                      <  SRR4302540.8250468/94‑1 (MQ=60)

                                                        AGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCT                                     <  SRR4302540.8221285/94‑1 (MQ=60)

                                                         GGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGTGTGATGACACGCATACTCTC                                    <  SRR4302540.6946729/94‑1 (MQ=60)

                                                         GGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTC                                    >  SRR4302540.1144878/1‑94 (MQ=60)

                                                           CCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTC                                  >  SRR4302540.768828/1‑94 (MQ=60)

                                                             ATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCT                                >  SRR4302540.9522130/1‑94 (MQ=60)

                                                             ATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCT                                >  SRR4302540.10043231/1‑94 (MQ=60)

                                                             ATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCT                                >  SRR4302540.3120433/1‑94 (MQ=60)

                                                             ATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCT                                >  SRR4302540.5648721/1‑94 (MQ=60)

                                                             ATTTAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAAGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCT                                >  SRR4302540.5097233/1‑94 (MQ=60)

                                                              TTTAGTTTTTCCCGCGAATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTT                               >  SRR4302540.7287529/1‑94 (MQ=60)

                                                                TAGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTAT                             >  SRR4302540.6157231/1‑94 (MQ=60)

                                                                 AGTTTTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATA                            <  SRR4302540.308229/94‑1 (MQ=60)

                                                                     TTTCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCA                        <  SRR4302540.1840558/94‑1 (MQ=60)

                                                                       TCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAAT                      <  SRR4302540.8697063/94‑1 (MQ=60)

                                                                       TCCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAAT                      <  SRR4302540.8697062/94‑1 (MQ=60)

                                                                        CCCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATT                     >  SRR4302540.8254492/1‑94 (MQ=60)

                                                                         CCGCGCATATTCCAGCAAGGTGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATTACACGCATACTCTCTCCTTATAACCAATTG                    <  SRR4302540.1781065/94‑1 (MQ=60)

                                                                         CCGCGCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTG                    <  SRR4302540.3296013/94‑1 (MQ=60)

                                                                             GCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTCCCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCT                <  SRR4302540.311067/94‑1 (MQ=60)

                                                                             GCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCT                <  SRR4302540.2726752/94‑1 (MQ=60)

                                                                             GCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCT                >  SRR4302540.9521597/1‑94 (MQ=60)

                                                                             GCATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCT                <  SRR4302540.7316564/94‑1 (MQ=60)

                                                                              CATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTT               >  SRR4302540.9646051/1‑94 (MQ=60)

                                                                              CATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTT               <  SRR4302540.2325517/94‑1 (MQ=60)

                                                                              CATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTT               >  SRR4302540.7251827/1‑94 (MQ=60)

                                                                               ATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTT              >  SRR4302540.143642/1‑94 (MQ=60)

                                                                               ATATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTT              >  SRR4302540.7128097/1‑94 (MQ=60)

                                                                                TATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTT             >  SRR4302540.2400829/1‑94 (MQ=60)

                                                                                TATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTT             <  SRR4302540.10020167/94‑1 (MQ=60)

                                                                                 ATTCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTT            >  SRR4302540.1157841/1‑94 (MQ=60)

                                                                                   TCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTT          <  SRR4302540.3417774/94‑1 (MQ=60)

                                                                                   TCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTT          <  SRR4302540.3417777/94‑1 (MQ=60)

                                                                                   TCCAGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTT          <  SRR4302540.381564/94‑1 (MQ=60)

                                                                                      AGCAAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTT       >  SRR4302540.330895/1‑94 (MQ=60)

                                                                                         AAGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAAC    <  SRR4302540.4727072/94‑1 (MQ=60)

                                                                                          AGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA   <  SRR4302540.2252485/94‑1 (MQ=60)

                                                                                          AGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA   >  SRR4302540.8401196/1‑94 (MQ=60)

                                                                                          AGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA   <  SRR4302540.8017157/94‑1 (MQ=60)

                                                                                          AGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA   <  SRR4302540.6302257/94‑1 (MQ=60)

                                                                                          AGGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACA   <  SRR4302540.9943649/94‑1 (MQ=60)

                                                                                           GGTGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGCTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACAT  <  SRR4302540.6126421/94‑1 (MQ=60)

                                                                                           GGGGCTGGAGCGAGAAGTAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACAT  <  SRR4302540.9621229/94‑1 (MQ=60)

                                                                                           GGGGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACAT  <  SRR4302540.4157256/94‑1 (MQ=60)

                                                                                           GGAGCTGGAGCGATAAGGAAAGCGAGGACTGCCCGCCAGGTTGATGACACGCATGCGCTCTCCTTATATCCAATTGTTCTTTTTTTGTTAACAT  <  SRR4302540.6126422/94‑1 (MQ=60)

AAAGTAGATCTTCCGGGGCGAAGTTTTGCAGATTCCAGTGATAAACCTCTACATCCAGGCCATTTAGTTTTTCCCGCGCATATTCCAGCAAGGAGCTGGAGCGAGAAGGAAAGCGAGGACTACCCGCCAGGGTGATGACACGCATACTCTCTCCTTATAACCAATTGTTCTTTTTTTGTTAACAT  >  NC_000913/996591‑996775

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 2 ≤` `ATCG/ATCG` `< 26 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`