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
A19 F14 I0 R1	97	70.6	1554972	93.6%	1455453	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,196,508	C→A	100%	intergenic (+2563/‑1229)	ftsQ → / → USA300HOU_1125	cell division protein FtsQ/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,196,508	0	C	A	98.8%	253.4 / ‑5.5	84	intergenic (+2563/‑1229)	ftsQ/USA300HOU_1125	cell division protein FtsQ/hypothetical protein
Reads supporting (aligned to +/- strand): ref base C (2/0); new base A (33/48); total (35/49)
Fisher's exact test for biased strand distribution p-value = 1.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GATTTTCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTCTAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGAAGAAAG  >  CP000730/1196371‑1196643

gATTTTCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAg                                                                                                                                      <  2:394756/141‑1 (MQ=255)

  ttttCGGTCCAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAATTATTGCAACTGGTTTTGATGACAAACCAACATCAGATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCa                                                                                                                                    >  2:569642/1‑141 (MQ=255)

  ttttCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTTGAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCa                                                                                                                                    >  2:3657/1‑141 (MQ=255)

  ttttCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAgaa                                                                                                                                    >  2:223089/1‑139 (MQ=255)

  ttttCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCa                                                                                                                                    >  2:35220/1‑141 (MQ=255)

  ttttCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCa                                                                                                                                    <  2:24574/141‑1 (MQ=255)

  ttttCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCa                                                                                                                                    >  2:694621/1‑141 (MQ=255)

   tttCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCCCTGGATTCGGA‑ACAAGCGTAAATACTTATAGCaa                                                                                                                                   <  1:33016/141‑1 (MQ=255)

      cGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGc                                                                                                                                <  2:488857/141‑1 (MQ=255)

        gTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACGTATAGCAATGGaa                                                                                                                              >  1:217721/1‑141 (MQ=255)

        gTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATAATTATAGCaacggtc                                                                                                                              >  2:574895/1‑136 (MQ=255)

         tACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAAc                                                                                                                             <  2:26841/141‑1 (MQ=255)

              ttattaATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACGTCTa                                                                                                                        <  1:528074/141‑1 (MQ=255)

                attaATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑AAAAGAGTAAAAACGTATAGCAATGCAAATTCTaaa                                                                                                                      >  2:45121/1‑141 (MQ=255)

                 ttaATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAg                                                                                                                     >  1:745876/1‑141 (MQ=255)

                 ttaATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAg                                                                                                                     >  1:79864/1‑141 (MQ=255)

                 ttaATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGAAACTTCTAAAg                                                                                                                     >  1:745864/1‑141 (MQ=255)

                    aTCCTGCATTACAAGATGAGATTATAGTAACAGATATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATg                                                                                                                  >  2:452242/1‑141 (MQ=255)

                           aTTACAAGATTAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATTACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCAtt                                                                                                           <  1:401911/141‑1 (MQ=255)

                           aTTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCAtt                                                                                                           <  1:200047/141‑1 (MQ=255)

                            ttACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTc                                                                                                          >  2:359011/1‑141 (MQ=255)

                            ttACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTc                                                                                                          <  2:248450/141‑1 (MQ=255)

                                aaGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACtt                                                                                                      >  1:75789/1‑141 (MQ=255)

                                aaGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACtt                                                                                                      <  1:747522/141‑1 (MQ=255)

                                 caaTGAGATTGTTGTAACAGTCATTGCAACTTGTTTCGATGACAACCCAACATCACATGGTCGTACATCTGGTAGCACTTGATTCGGA‑ACAAGCGTACACACTTATAGCAATGCAACTTCTAAAGACGAATCATTCACTTc                                                                                                     <  2:624854/139‑1 (MQ=255)

                                 aGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGTCAAACAACCATCACACGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTc                                                                                                     <  1:213760/141‑1 (MQ=255)

                                 aGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTc                                                                                                     <  1:710020/141‑1 (MQ=255)

                                        aTTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTGGCACTGGATTCGGA‑ACAAGCGGAAATACTTATAGCAATGCAACTTCCAAAGAAGAAGCAttagatgcaaagtca                                                                                              >  1:558097/1‑128 (MQ=255)

                                        aTTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATtca                                                                                              >  1:776016/1‑141 (MQ=255)

                                           gttgtAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGCTGACTCATTCACTACAAATtcatca                                                                                           >  2:697524/1‑141 (MQ=255)

                                               tAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAGAGTCGAATCATTCACTTCTGATTCATCAAATg                                                                                       <  2:130025/141‑1 (MQ=255)

                                                aaCAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGc                                                                                      >  1:442600/1‑141 (MQ=255)

                                                aaCAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGc                                                                                      >  1:442632/1‑141 (MQ=255)

                                                   aGTTATTGCAACTGGTTTTGATTACAAACCAACATCACATGGTCGCAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTAGAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGcaca                                                                                   <  2:42591/141‑1 (MQ=255)

                                                   aGTTATTGCAACTGGTTTTGATGACAAACCAATATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGcaca                                                                                   <  1:344127/141‑1 (MQ=255)

                                                   aGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGcaca                                                                                   <  1:666243/141‑1 (MQ=255)

                                                   aGTTATTGCAACTGGCTTTGATGACAAACCAACATCATATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTTATCAAATTcaca                                                                                   <  1:546161/141‑1 (MQ=255)

                                                   aGTTATTGCAACTGGATTTGATGACAAACCAACATCATATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATCCAACTTCTAAAGATGAATCATTCACTTCAAATTTATCAAATTcaca                                                                                   <  1:546097/141‑1 (MQ=255)

                                                    gTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAAACTGGTAGCACTGGACTCGGA‑ATAAGCGTAAATACTTCTGGCAATGCAACTTCTAAAAATCAATCAAGCTCTTCCAATTCTTCCAATGTACaa                                                                                  >  2:313842/1‑141 (MQ=255)

                                                     ttATTGCCACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACATGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAg                                                                                 <  2:26655/141‑1 (MQ=255)

                                                      tATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGc                                                                                >  2:573660/1‑141 (MQ=255)

                                                       aTTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCa                                                                               <  1:563439/141‑1 (MQ=255)

                                                        ttGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCaa                                                                              <  1:450285/141‑1 (MQ=255)

                                                         tGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAAc                                                                             <  1:704765/141‑1 (MQ=255)

                                                         tGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAAc                                                                             <  1:654487/141‑1 (MQ=255)

                                                           cAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACACGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTg                                                                           <  2:370532/141‑1 (MQ=255)

                                                              cTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATCGCACTACAGCTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGTTa                                                                        >  1:177489/1‑141 (MQ=255)

                                                                 ggtttGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGCCACGGGACT‑AGTACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAgtg                                                                     <  1:367527/139‑1 (MQ=255)

                                                                 gTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAATCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCACATGCACAAGCAACTGATAgtg                                                                     <  1:399160/141‑1 (MQ=255)

                                                                    ttGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTaa                                                                  <  1:649177/141‑1 (MQ=255)

                                                                      gatgaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGt                                                                >  1:769950/1‑141 (MQ=255)

                                                                       atgaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTg                                                               >  1:636924/1‑141 (MQ=255)

                                                                       atgaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTg                                                               >  1:438992/1‑141 (MQ=255)

                                                                         gaCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGCATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTTTAAGTGaa                                                             >  2:508190/1‑141 (MQ=255)

                                                                          aCAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGaaa                                                            >  1:2718/1‑141 (MQ=255)

                                                                           cAAACCAACATCACATGGTCGTAAATCTGGTAGCCCTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAg                                                           <  2:718907/141‑1 (MQ=255)

                                                                           cAAAACAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATTAAATGCACAAGCAACTGATAGTGTAAGTGAAAg                                                           >  1:525677/1‑141 (MQ=255)

                                                                             aaCCAACATCACATGGTCCTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGaa                                                         <  2:375361/141‑1 (MQ=255)

                                                                               ccAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTCTAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAaca                                                       >  2:62313/1‑141 (MQ=255)

                                                                                   cATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATa                                                   <  1:45025/141‑1 (MQ=255)

                                                                                   aaTCACAGGGTCATAAATCTGGTAGCACGGGATTCGTA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATa                                                   <  1:748714/140‑1 (MQ=255)

                                                                                     tCACGTGGTCGTAAATATAGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGACGAAGCAAAGGTTAGTGTAAGTGAAAGAAAACATACa                                                 >  2:159174/1‑141 (MQ=255)

                                                                                     tCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGACAGAAAACATACa                                                 >  2:33633/1‑141 (MQ=255)

                                                                                     tCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACa                                                 <  1:213186/141‑1 (MQ=255)

                                                                                     tCACATGATCGTAAATCTGGCAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACa                                                 >  1:485696/1‑141 (MQ=255)

                                                                                          tGGTCGTAAATCTGGTAGGACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTaa                                            <  2:182508/141‑1 (MQ=255)

                                                                                            gTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAaag                                          <  1:306940/141‑1 (MQ=255)

                                                                                               gTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAaagaag                                       <  1:515111/141‑1 (MQ=255)

                                                                                                tAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAagaaga                                      <  1:44529/141‑1 (MQ=255)

                                                                                                   aTCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAgatga                                   >  1:701647/1‑141 (MQ=255)

                                                                                                   aTCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAgatga                                   <  2:324969/141‑1 (MQ=255)

                                                                                                        gTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTc                              <  1:723624/141‑1 (MQ=255)

                                                                                                        gTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTc                              <  1:723636/141‑1 (MQ=255)

                                                                                                         tAGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTcc                             <  1:604272/141‑1 (MQ=255)

                                                                                                          aGCACTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAACGAAAACATACAACTAAAGAAGATGATATGCCt                            >  1:330762/1‑141 (MQ=255)

                                                                                                              cTGGATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAAATGATATTCCTAGCt                        <  1:573660/141‑1 (MQ=255)

                                                                                                                ggATTCGGA‑ACAAGCGTAAATACTTATAGCAATGCAACTTCTACAGATGAATCATTCACTTCAAACTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAACGAACCCATAAAACTAAAGCAGATGATATTCCTAGCTTc                      <  2:102138/141‑1 (MQ=255)

                                                                                                                            aaGCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATag           <  1:359011/141‑1 (MQ=255)

                                                                                                                              gCGTAAATACTTTCAGCCATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATagag         <  2:558097/141‑1 (MQ=255)

                                                                                                                              gCGTAAATACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATagag         <  2:776016/141‑1 (MQ=255)

                                                                                                                                  aaaTACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGagaaga     >  1:647641/1‑141 (MQ=255)

                                                                                                                                     tACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGaagaaag  <  2:657084/141‑1 (MQ=255)

                                                                                                                                     tACTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGaagaaag  <  1:379673/141‑1 (MQ=255)

                                                                                                                                     aaCTTATAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGaagaaag  <  2:660223/140‑1 (MQ=255)

GATTTTCGGTACAGTTATTAATCCTGAATTACAAGATGAGATTGTTGTAACAGTTATTGCAACTGGTTTTGATGACAAACCAACATCACATGGTCGTAAATCTGGTAGCACTGGATTCGGA‑ACAAGCGTAAATACTTCTAGCAATGCAACTTCTAAAGATGAATCATTCACTTCAAATTCATCAAATGCACAAGCAACTGATAGTGTAAGTGAAAGAACACATACAACTAAAGAAGATGATATTCCTAGCTTCATTAGAAATAGAGAAGAAAG  >  CP000730/1196371‑1196643

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A