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
A14 F60 I1 R1	17	287.4	9819666	99.1%	9731289	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,296,381	+GC	intergenic (+587/+55)	gltP → / ← yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,296,380	1	.	C	95.2%	415.5 / 10.9	126	intergenic (+586/+56)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
Reads supporting (aligned to +/- strand): ref base . (0/6); new base C (62/56); total (62/64)
Fisher's exact test for biased strand distribution p-value = 2.75e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
*	NC_000913	4,296,380	2	.	G	95.2%	420.9 / 10.8	126	intergenic (+586/+56)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
Reads supporting (aligned to +/- strand): ref base . (0/6); new base G (62/58); total (62/64)
Fisher's exact test for biased strand distribution p-value = 2.77e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 127 total aligned reads displayed.

AACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑A‑‑C‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGT  >  NC_000913/4296303‑4296509

||

 aCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAAcc                                                                      <  1:2594599/140‑1 (MQ=2)

  cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCg                                                                     <  2:630468/140‑1 (MQ=9)

  cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCg                                                                     >  1:3269841/1‑140 (MQ=9)

  cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCg                                                                     >  1:2752109/1‑140 (MQ=9)

       cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGt                                                                >  2:179240/1‑140 (MQ=255)

         tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTa                                                              <  1:3479182/140‑1 (MQ=255)

          aTCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTaa                                                             >  1:3825741/1‑140 (MQ=255)

            cAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAAtt                                                           >  2:2804716/1‑140 (MQ=255)

               gCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCATAACCGTTGGTTAAttttt                                                        >  1:400362/1‑140 (MQ=255)

               gCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGAGTCTTATAAGGCCTATCTTAACCGTTGGTTAAttttt                                                        >  1:1681120/1‑140 (MQ=14)

                 cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCa                                                      <  2:3727435/140‑1 (MQ=255)

                 cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCa                                                      <  2:3361702/140‑1 (MQ=255)

                  tACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCATAACCGTTGGTTAATTTTTCaa                                                     <  2:400362/140‑1 (MQ=255)

                   aCGCCAGACAGCGCATTAGCCTGATTTAGCGTGATTTCGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  1:2209495/140‑1 (MQ=14)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  1:179240/140‑1 (MQ=255)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  2:4687500/140‑1 (MQ=255)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  1:3211775/140‑1 (MQ=255)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  2:410128/140‑1 (MQ=255)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  1:2883684/140‑1 (MQ=255)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  2:2752109/140‑1 (MQ=255)

                   aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATATTAACCGTTGGTTAATTTTTCaaa                                                    <  2:3269841/140‑1 (MQ=255)

                    cGCCAGACATCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAc                                                   >  2:3802043/1‑140 (MQ=14)

                    cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAc                                                   >  1:2939310/1‑140 (MQ=255)

                    cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAc                                                   >  2:2960821/1‑140 (MQ=255)

                    cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAc                                                   <  1:4662243/140‑1 (MQ=255)

                    cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAc                                                   >  2:4662243/1‑140 (MQ=255)

                    cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAc                                                   >  1:2176968/1‑140 (MQ=255)

                        aGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ATGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCtt                                               <  1:1206935/140‑1 (MQ=255)

                         gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCTCGTCTTATTAGGTCTAACTTAACCGGTGGTAAATTTTTCAAACTCTTc                                              >  2:1801761/1‑140 (MQ=14)

                         gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAAt                                                            >  2:2689749/1‑126 (MQ=255)

                         gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTc                                              >  2:4442991/1‑140 (MQ=255)

                         gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTc                                              >  1:4679201/1‑140 (MQ=255)

                         gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTc                                              >  1:4129350/1‑140 (MQ=255)

                         gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCACGCCTATCCTAACCGCTGGTTATTTTTTCAAACTCTTc                                              >  1:2008816/1‑140 (MQ=14)

                          aCAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTca                                             >  2:1134015/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTGGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  2:2528650/1‑140 (MQ=17)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTGTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTcaca                                           >  2:2744721/1‑140 (MQ=17)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTTATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  1:2647322/140‑1 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa                                                    <  1:4355163/129‑1 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  2:408713/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:2539094/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:2564358/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:684445/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  1:4878112/140‑1 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:2775206/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:3039328/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  2:4076798/140‑1 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:4481356/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  1:429054/140‑1 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:3850772/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  1:4076798/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTAAATTTTTCAAACTCTTCACAcc                                         >  2:1990255/1‑140 (MQ=255)

                              cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACACCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  2:3871687/140‑1 (MQ=255)

                              cgcAATAGCCTGATTTACCGTGCTTTTGTAGGTCGCATATGGC‑‑GTTT‑‑AGGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  2:1528332/140‑1 (MQ=18)

                               gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAccc                                        <  1:4442991/140‑1 (MQ=255)

                               gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCCATCCTAACCGTTGGTTAATATTTCAAACTCTTCACAccc                                        >  2:1751939/1‑140 (MQ=17)

                                   tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTa                                    >  2:2730409/1‑140 (MQ=255)

                                   tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTa                                    >  2:3239163/1‑140 (MQ=255)

                                   tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTa                                    >  1:982275/1‑140 (MQ=255)

                                     gCCTGATTTAGCGTGCTTTTGTTGGTCGGCTAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATc                                  <  1:2047970/140‑1 (MQ=18)

                                     gCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTGTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTa                                    <  1:2744721/140‑1 (MQ=18)

                                      ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCa                                 >  1:3396173/1‑140 (MQ=255)

                                       cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaa                                >  2:3214378/1‑140 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACGGTTGGTTAATTTTTCAGACTCGTCACACCCGGTATCaaa                               >  2:1250335/1‑140 (MQ=17)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         <  1:3648951/130‑1 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAcc                                         >  2:3648951/1‑130 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               <  1:408713/140‑1 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               <  1:2730409/140‑1 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               <  2:4449934/140‑1 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               >  2:4777825/1‑140 (MQ=255)

                                        tGATTTAGCGTGATTTTGTAGGTCGGATAAGAC‑‑GTATACA‑‑C‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               <  2:1681120/140‑1 (MQ=21)

                                        tGATTTAGCGTGATTTTGTAGGCCGGATAAGGC‑‑GTTTTCG‑‑C‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               <  1:1801761/140‑1 (MQ=18)

                                         gATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAc                              >  1:1196513/1‑140 (MQ=255)

                                          aTTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               >  1:2953506/1‑138 (MQ=255)

                                          aTTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                               <  2:2953506/138‑1 (MQ=255)

                                          aTTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAcc                             <  1:4511551/140‑1 (MQ=255)

                                          aTTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGGTGGTTTATTTTTCAAATTCTTCACACCCGGTATCAAAcc                             >  2:2183659/1‑140 (MQ=18)

                                          aTTTAGCGTGATTTTGTAGGTCGGATAACGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAcc                             >  2:4065552/1‑140 (MQ=18)

                                           tttAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAccc                            <  2:684445/140‑1 (MQ=255)

                                             tAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt                          <  1:1990255/140‑1 (MQ=255)

                                             tAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt                          <  1:2577607/140‑1 (MQ=255)

                                                cGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa                       >  1:2988677/1‑140 (MQ=255)

                                                  tGATTTTGGAGGTCGGGAAAGGA‑‑GTTT‑‑A‑‑CGTCGCATCCGCCATCAATGTCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATa                     <  2:2315597/140‑1 (MQ=25)

                                                   gATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATAc                    <  1:3472344/140‑1 (MQ=255)

                                                       ttGTAGGTCGGATAAGGG‑‑GTTTTCG‑‑C‑‑CGCATCCGATATCGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt                <  2:1587490/140‑1 (MQ=25)

                                                       ttGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt                <  2:2786649/140‑1 (MQ=255)

                                                       ttGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt                <  1:1134015/140‑1 (MQ=255)

                                                       ttGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt                <  2:2176968/140‑1 (MQ=255)

                                                       ttGTAGGTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCAGTATCAAACCCTTCCATACAGCt                <  1:651577/140‑1 (MQ=255)

                                                       ttGTAGGTCGGATAACGC‑‑GTTTTCG‑‑C‑‑CGCTTCCGACACCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCt                <  1:1444356/140‑1 (MQ=25)

                                                            ggTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt           <  1:4569090/140‑1 (MQ=255)

                                                            ggTCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt           <  2:2564358/140‑1 (MQ=255)

                                                              tCGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTc         >  2:3303186/1‑140 (MQ=255)

                                                               cGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCa        >  2:3616355/1‑140 (MQ=255)

                                                               cGGATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCa        >  1:2441470/1‑140 (MQ=255)

                                                                 gATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAAc      >  2:1067498/1‑140 (MQ=255)

                                                                 gATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAAc      <  1:3178707/140‑1 (MQ=255)

                                                                 gATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAAc      <  1:2510478/140‑1 (MQ=255)

                                                                 gATAAGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTGCCATACAGCTCAGGTTCAAc      <  2:2956431/140‑1 (MQ=25)

                                                                     aGGC‑‑GTTT‑‑ACGC‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACTCGGGATCAAACCCTTCTATACGGCTCAGGTTCAACCAGt  >  2:1515518/1‑140 (MQ=25)

||

AACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGC‑‑GTTT‑‑A‑‑C‑‑CGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGT  >  NC_000913/4296303‑4296509

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A