New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1040370	52 (0.740)	5 (0.080)	5/242	9.1	9.1%	intergenic (‑6787/‑919)	USA300HOU_0983/USA300HOU_0984	competence protein/glycosyltransferase
	?	CP000730	= 1040397	53 (0.840)					intergenic (‑6814/‑892)	USA300HOU_0983/USA300HOU_0984	competence protein/glycosyltransferase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ATTTGGTTTGGTCGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1040222‑1040370 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑taaaagccaatcaaACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAATTTTATCTTTTGGATATCACATAGATGCTACTTTTCTATACTGTTCTAAATCTATTATTTCGTCACATTGATTTGCAATAGCCATATCATGTGT  <  CP000730/1040397‑1040262                                                                                                                                                                                                                                                                                               ATTTGGTTTGGTCGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAG                                                                                                                                                  <  2:371443/141‑1        TTGGTCGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATTGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCA                                                                                                                                           >  2:90202/1‑141                                       CAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAAATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTG                                                                                                            <  1:338026/141‑1                                             ATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGC                                                                                                      <  2:538713/141‑1                                                     GCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAATT                                                                                              <  2:746068/141‑1                                                                          GAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAAT                                                                                               >  1:730749/1‑119                                                                          GAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAAT                                                                                               <  2:730749/119‑1                                                                                                                                        TAAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAATTTTATCTTTTGGATATCACATAGATGCTACTTTTCTATACTGTTCTAAATCTATTATTTCGTCACATTGATTTGCAATAGCCAT           <  1:277457/141‑1                                                                                                                                         AAAAGCCAATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAATTTTATCTTTTGGATATCACATAGATGCTACTTTTCTATACTGTTCTAAATCTATTATTTCGTCACATTGATTTGCAATAGCCATA          >  1:724041/1‑141                                                                                                                                                 ATCAAACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAATTTTATCTTTTGGATATCACATAGATGCTACTTTTCTATACTGTTCTAAATCTATTATTTCGTCACATTGATTTGCAATAGCCATATCATGTGT  <  1:843788/141‑1                                                                                                                                                                                                                                                                                               ATTTGGTTTGGTCGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1040222‑1040370 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑taaaagccaatcaaACGGAGTGTTGAAGTCAACATTTCCCATTGATTGGCTTTTAATTTTATCTTTTGGATATCACATAGATGCTACTTTTCTATACTGTTCTAAATCTATTATTTCGTCACATTGATTTGCAATAGCCATATCATGTGT  <  CP000730/1040397‑1040262

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.