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 F15 I1 R5	785	665.2	22963641	98.6%	22642150	138.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP025268	356,677	2 bp→CC	intergenic (+172/+164)	codA → / ← cynR	cytosine/isoguanine deaminase/transcriptional regulator CynR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP025268	356,677	0	T	C	96.6%	1352.6 / NA	479	intergenic (+172/+165)	codA/cynR	cytosine/isoguanine deaminase/transcriptional regulator CynR
Reads supporting (aligned to +/- strand): ref base T (3/0); major base C (157/301); minor base A (14/2); total (175/304)
Fisher's exact test for biased strand distribution p-value = 2.48e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
*	NZ_CP025268	356,678	0	A	C	97.5%	1407.9 / 3.4	479	intergenic (+173/+164)	codA/cynR	cytosine/isoguanine deaminase/transcriptional regulator CynR
Reads supporting (aligned to +/- strand): ref base A (11/1); new base C (164/303); total (175/304)
Fisher's exact test for biased strand distribution p-value = 1.03e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 479 total aligned reads displayed.

CGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAG  >  NZ_CP025268/356543‑356811

||

cggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCa                                                                                                                                    <  1:221877/140‑1 (MQ=255)

   cgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACg                                                                                                                                 >  1:3071996/1‑140 (MQ=255)

     tGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGcc                                                                                                                               <  1:10938940/140‑1 (MQ=255)

          gCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATTAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCAtgtg                                                                                                                          <  2:463993/140‑1 (MQ=11)

            cTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTACCGCCAACAACCGCGCATTACTCCAACGCCATGTGCa                                                                                                                        >  1:5853005/1‑140 (MQ=255)

               aTCCGGCCTACGTAGAGCACTGACCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTCCCGTGATTCATTTCCGCCAACAACCGCGCATTAATCCAACGCCCTGTGCaaaa                                                                                                                     >  2:10914583/1‑140 (MQ=11)

                tCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCaaaaa                                                                                                                    <  2:4136920/140‑1 (MQ=255)

                    gCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCCATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGcc                                                                                                                >  2:6889868/1‑140 (MQ=11)

                    gCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCTCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGcc                                                                                                                >  2:2781306/1‑140 (MQ=11)

                     ccTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTAATCCAACGCCATGTGCAAAAATGCCt                                                                                                               >  2:1331715/1‑140 (MQ=21)

                     ccTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTACTCCAACGCCATGTGCAAAAATGcat                                                                                                               >  2:11285369/1‑138 (MQ=11)

                      cTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCtt                                                                                                              <  1:7574150/140‑1 (MQ=255)

                            agagCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGc                                                                                                        <  2:7499864/140‑1 (MQ=255)

                              agCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTACCGCCAACAACCGCGCATTACTCCAACGCCATGTGCAAAAATGCCTTCGCTGCgg                                                                                                      >  2:6264439/1‑140 (MQ=11)

                               gCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGc                                                                                                     <  1:6406773/140‑1 (MQ=255)

                                cACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCt                                                                                                    >  1:10825006/1‑140 (MQ=255)

                                     aaCTCGTAGGCCTGCTAAGCGTAGCGCATCAGCCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTg                                                                                              <  2:9837297/140‑1 (MQ=11)

                                      aCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGc                                                                                             <  1:4055581/140‑1 (MQ=255)

                                      aCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCAGTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGc                                                                                             <  1:2024222/140‑1 (MQ=11)

                                       cTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGcc                                                                                            <  2:8293629/140‑1 (MQ=255)

                                       cTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGcc                                                                                            <  2:2457921/140‑1 (MQ=255)

                                       cTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGcc                                                                                            <  1:9965387/140‑1 (MQ=255)

                                         cGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAg                                                                                          <  1:1710981/140‑1 (MQ=255)

                                          gTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGc                                                                                         >  2:3251904/1‑140 (MQ=255)

                                          gTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGc                                                                                         >  2:8444589/1‑140 (MQ=255)

                                           tAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCt                                                                                        <  1:799374/140‑1 (MQ=255)

                                             ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGt                                                                                      <  2:3000802/140‑1 (MQ=255)

                                             ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGt                                                                                      >  2:10392182/1‑140 (MQ=255)

                                               ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAg                                                                                    >  2:1547029/1‑140 (MQ=255)

                                                  gATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTACAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGtta                                                                                 >  2:6142020/1‑139 (MQ=14)

                                                        cGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCg                                                                           >  1:9678881/1‑140 (MQ=255)

                                                           aGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGAt                                                                        <  1:7004054/140‑1 (MQ=255)

                                                           aGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGAt                                                                        <  2:10047294/140‑1 (MQ=255)

                                                           aGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CCGCCAGCTGTAGTTTATGCCGGAt                                                                        <  1:4198763/140‑1 (MQ=17)

                                                              gcATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATgcg                                                                     <  2:222626/140‑1 (MQ=255)

                                                                  cAGGCAATTCCAGCCGCTGAGCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTCTGCCGGATGCGGCGt                                                                 >  1:6732913/1‑140 (MQ=17)

                                                                   aGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTg                                                                <  1:11027458/140‑1 (MQ=255)

                                                                    ggCACTTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCAGTCCCGCCAACACCCGCGCAGTCCGCCCACGCCATGGGCAACAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGa                                                               <  2:11378243/140‑1 (MQ=255)

                                                                    ggCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAAAGCCATCGCAGCGGCAGA‑ATGCGAGCAGTAGGTAATACCGGATGCGGCGTGa                                                               >  2:8486481/1‑140 (MQ=17)

                                                                    ggCAATTCCAGCCGCTGATATGTGTCAGCGGCTACCGTGAGTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGa                                                               <  1:3700216/140‑1 (MQ=18)

                                                                     gCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACCACCGCGCATTCCTCCCACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGGTGTAGTTTATGCCGGATGCGGCGTGaa                                                              <  2:5563703/140‑1 (MQ=18)

                                                                     gCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCAGTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGaa                                                              <  1:10016076/140‑1 (MQ=18)

                                                                        aTTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCAGTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGc                                                           <  1:4500199/140‑1 (MQ=18)

                                                                         ttCCAGCCGCTGATCTGTGTCAGAGGCTACCGTGCTGCAATCCCGCCAACAACCGCGCAGTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTGGTGTATGCCGGATGCGGCGGGACCGcc                                                          >  1:7221302/1‑140 (MQ=17)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCCACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  1:824241/140‑1 (MQ=21)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCACCGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  2:7784724/140‑1 (MQ=21)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  1:9547587/140‑1 (MQ=255)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  2:5371818/140‑1 (MQ=255)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  2:9447710/140‑1 (MQ=255)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  1:2520166/140‑1 (MQ=255)

                                                                             aGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCAGTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCttct                                                      <  1:9268100/140‑3 (MQ=18)

                                                                               ccGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACACCCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATcc                                                    <  2:1786836/140‑1 (MQ=21)

                                                                               ccGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATcc                                                    >  2:8758067/1‑140 (MQ=255)

                                                                               ccGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATcc                                                    <  1:1988945/140‑1 (MQ=255)

                                                                               ccGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATcc                                                    <  1:5483412/140‑1 (MQ=255)

                                                                               ccGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTGAGCCCGGAAGCGGCGGGAACGCCGTCTcc                                                    >  1:2762518/1‑140 (MQ=17)

                                                                                  cTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                 <  2:5732402/140‑1 (MQ=255)

                                                                                  cTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                 <  2:1066172/140‑1 (MQ=255)

                                                                                  cTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                 <  2:3819850/140‑1 (MQ=255)

                                                                                  cTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                 <  2:2705518/140‑1 (MQ=255)

                                                                                    gATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAt                                                      <  1:10547056/133‑1 (MQ=255)

                                                                                    gATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCt                                               <  1:1351701/140‑1 (MQ=255)

                                                                                    gATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCAGTCCTCCCACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCt                                               <  2:3187781/140‑1 (MQ=21)

                                                                                    gATCTGTGTCAGCGGCTACCGTGATTCAGTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAACAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCt                                               <  2:6565748/140‑1 (MQ=21)

                                                                                       cTGTGTGAGCTGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTACCCCAACGCCATGTTCAAAAATGGCTTCGCTTCGGGTTTACTCCTTGC‑GTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACg                                            <  1:5245644/140‑1 (MQ=12)

                                                                                       cTGCGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCAGTCCTCCACCGCCATGTGCAAACATGCCTTCGCAGCGGCGGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTGATCCGGCCTACg                                            <  2:9328583/140‑1 (MQ=37)

                                                                                           gtCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTaga                                        <  1:11210326/140‑1 (MQ=255)

                                                                                              aGCGGCTACCGTGATTCAGTCCCGCCAACAACCGCGCAGTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCa                                     <  1:27136/140‑1 (MQ=25)

                                                                                               gCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCAc                                    <  1:7343087/140‑1 (MQ=255)

                                                                                               gCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGAAGCTGCGTGAACGCCTTATCCGGCCTACGTAGAGCAc                                    >  2:5183377/1‑140 (MQ=21)

                                                                                                 ggctACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTg                                  <  1:7716548/137‑1 (MQ=255)

                                                                                                  gcttccGTGATTCAGTCCCTCCATCATCAGCGCAGTCCTCCTACGCCATGTTCAAAAATGCCTTCGCTGCGGCTGT‑CTGGCTTGTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGa                                 <  2:6418328/136‑1 (MQ=18)

                                                                                                  gctACCGTGATTCATTCCCGCCAACCACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGa                                 <  1:1210169/138‑1 (MQ=25)

                                                                                                  gctACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGa                                 <  1:1547029/138‑1 (MQ=255)

                                                                                                  gctACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGa                                 <  1:8590999/138‑1 (MQ=255)

                                                                                                  gctACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGa                                 <  1:10366637/138‑1 (MQ=255)

                                                                                                  gctACCGTGATTCAGTCCCGCCAACAACCGCGCAGTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGa                                 <  2:6044330/138‑1 (MQ=25)

                                                                                                    tACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCTGCAGT‑CAGCCAGCTGTAGATTATGCCGGATCCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAAc                               >  2:8142134/1‑140 (MQ=25)

                                                                                                    tACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGTAGAGCACTGAAc                               >  1:2835463/1‑140 (MQ=255)

                                                                                                    tACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTAACCGGCCTACGTAGAGCACTGaag                               >  1:9434949/1‑139 (MQ=255)

                                                                                                       cgagATTCAGTCCCGCCATCAACCGCGCATTCCTCCAACGCCATGTGAAAAAATGCCTTCGCATCTGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCg                            <  1:10105841/137‑1 (MQ=25)

                                                                                                       cGTGATTCATTCCCGCCACCAACCGCGCATTCCTCCAACGCCATGTGCAAACATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCg                            <  2:347949/140‑1 (MQ=37)

                                                                                                         tGATTCATTCCCGCCCACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTa                          <  2:4983611/140‑1 (MQ=255)

                                                                                                         tGATTCATTCCCGCCAACAACCGCGCATTCCTCCACCGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTa                          <  2:1972603/140‑1 (MQ=255)

                                                                                                           attcattcCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAgg                        >  1:5047975/1‑140 (MQ=255)

                                                                                                            ttCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGc                       <  2:3507955/140‑1 (MQ=255)

                                                                                                            ttCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGc                       <  1:5087071/140‑1 (MQ=255)

                                                                                                            ttCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGc                       <  1:8822010/140‑1 (MQ=255)

                                                                                                            ttCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGc                       <  1:6889869/140‑1 (MQ=255)

                                                                                                              cATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAATATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCt                     >  1:3427685/1‑140 (MQ=255)

                                                                                                                 tcccGCCCACAACCCCGCATCCCTCCCCCGCCATGTGCCACCATGCCTTCCCAGCGCCGGA‑CTGCCAGCTGTCGTTGATCCCGGATGCGGCGAGCACGCCTGAACCGGCCTACGTCGAGCACTGAACTCGTAGGCCTGag                  <  2:9541847/138‑2 (MQ=12)

                                                                                                                 tcccGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAATTGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGAt                  >  1:9071733/3‑140 (MQ=255)

                                                                                                                 tcccGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGAt                  <  1:8407109/138‑1 (MQ=255)

                                                                                                                      ccAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCTGCGGCTGT‑CTGCCAGCTGTAGTTAATGCCCGAAGAGGCGTGAACGCCATAACCGGCCTACGTAGAGCACTGAACTCGTAGGCCAGATAAGCg             >  1:6275588/1‑140 (MQ=25)

                                                                                                                        aacaacCGCGCATTCCTCCAACGCCAGGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTa           <  2:209362/140‑1 (MQ=255)

                                                                                                                        aacaacCGCGCATACCTCCAACGCCATGTGCAAAAATGCCTTCGCTGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTa           <  1:11340389/140‑1 (MQ=255)

                                                                                                                        aacaacCGCGCAGTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTa           <  2:9671307/140‑1 (MQ=255)

                                                                                                                                cgcATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCa   >  1:1451063/1‑140 (MQ=255)

                                                                                                                                cgcATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCa   >  2:4352405/1‑140 (MQ=255)

                                                                                                                                 gcATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAg  >  1:3305621/1‑140 (MQ=255)

||

CGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGT‑CTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAG  >  NZ_CP025268/356543‑356811

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 11 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A