New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	5684488 =	53 (0.860)	3 (0.050)	3/328	NT	5.4%	coding (2405/4941 nt)	PP_4988	signal transduction histidine kinase CheA/CheY‑like receiver
	?	AE015451	5684611 =	55 (0.930)					coding (2282/4941 nt)	PP_4988	signal transduction histidine kinase CheA/CheY‑like receiver

CCATGCCATGGACATCCTGCTCGATGCAGAGACGTTGTTGTCGCGCTGGCAGCAACAGCCCGGCCAGCGTGACGCTCTGGATAACCTGCTCGACCAGATGACCACCCTGGGGCACGCTGCGCACCTGGCCGACCTGTGGCAGATGGATGACGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/5684724‑5684488 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgcagcgTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTGGCCGGGCTGTTGCTGCCAGCGCGACAACAACGTCTCTGCATCGAGCAGGATGTCCATGGCATGGGCCAGGAAGCTGGCGACCAACTGCGGATCACGCTTGCTGCGGCCGGCATGGTGCGGGTCTTCATGCAGGCTGGCCAGGCGGCGGTCCACGGCCTGGCCAACCTGCTCGATCAGTT  >  AE015451/5684611‑5684839                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    CCATGCCATGGACATCCTGCGCGATGCAGAGACGTTGTTGTCGCGCTGGCAGCAACAGCCCGGCCAGCGTGACGCTCTGGATAACCTGCTCGACCAGATGACCACCCTGGGGCACGCTGCGCACCTGGCCGACCTGTGGCAGATGGATGACGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAG                                                                                                                                                                                                                                         <  1:318074/235‑1         TGGACATCCTGCTCGATGCAGAGACGTTGTTGTCGCGCTGGCAGCAACAGCCCGGCCAGCGTGACGCTCTGGATAACCTGCTCGACCAGATGACCACCCTGGGGCACGCTGCGCACCTGGCCGACCTGTGGCAGATGGATGACGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGCGTGCC                                                                                                                                                                                                                                   <  2:1061770/233‑1                                            CGCTGGCAGCAACAGCCCGGCCAGCGTGACGCTCTGGATAACCTGCTCGACCAGATGACCACCCTGGGGCACGCTGCGCACCTGGCCGACCTGTGGCAGATGGATGACGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGCGT                                                                                                                                                                                                                                      <  1:24188/195‑1                                                                                   AACCTGCTCGACCAGATGACCACCCGGGGGCACGCTGCGCGCCTGGCCGACCTTTGGCAGATGGATGCCGTGTGCGGGGCGTTGCTGGCCCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGC                                                                                                                                                                                                                                        <  2:122037/154‑1                                                                                                                             CTGGCCGACCTGGGGCAGATGGATGGCGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGC                                                                                                                                                                                                                                             <  2:207409/107‑1                                                                                                                                 CCGACCTGTGGCAGATGGATGACGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATTCCCGCTTCTTCAGCCAGGCGCAGCGTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTt                                                                                                                                                                                     >  1:250435/1‑158                                                                                                                                                                                                  GGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGCGTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTGGCCGGGCTGTTGCTGCCAGCGCGACAACAACGTCTCTGCAT                                                                                                                                            <  1:394463/135‑1                                                                                                                                                                                                  GGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGCGTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTGGCCGGGCTGTTGCTGCCAGCGCGACAACAACGTCTCTGCAT                                                                                                                                            >  2:394462/1‑135                                                                                                                                                                                                    CAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGC                                                                                                                                                                                                                                        >  1:280488/1‑41                                                                                                                                                                                                    CAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGC                                                                                                                                                                                                                                        <  2:280487/41‑1                                                                                                                                                                                                                                        GCAGCGTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTGGCCGGGCTGTTGCTGCCAGCGCGACAACAACGTCTCTGCATCGAGCAGGATGTCCATGGCATGGGCCAGGAAGCTGGCGACCAACTGCGGATCACGCTTGCTGCGGCCGGCATGGTGCGGGTCTTCATGCAGGCTGGCCAGGCGGCGGTCCACGGCCTGGCCAACCTGCTCGATCAGTT  <  1:629148/235‑1                                                                                                                                                                                                                                        GCAGCGTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTGGCCGGGCTGTTGCTGCCAGCGCGACAACAACGTCTCTGCATCGAGCAGGATGTCCATGGCATGGGCCAGGAAGCTGGCGACCAACTGCGGATCACGCTTGCTGCGGCCGGCATGGTGCGGGTCTTCATGCAGGCTGGCCAGGCGGCGGTCCACGGCCTGGCC                   <  1:507667/218‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    CCATGCCATGGACATCCTGCTCGATGCAGAGACGTTGTTGTCGCGCTGGCAGCAACAGCCCGGCCAGCGTGACGCTCTGGATAACCTGCTCGACCAGATGACCACCCTGGGGCACGCTGCGCACCTGGCCGACCTGTGGCAGATGGATGACGTGTGCGAGGCGTTGCTGGACCTGTATGGCGCTGTGGAGGAGGGCAGCCTGCCTGCCGATGCCCGCTTCTTCAGCCAGGCGCAGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/5684724‑5684488 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgcagcgTGCCCCAGGGTGGTCATCTGGTCGAGCAGGTTATCCAGAGCGTCACGCTGGCCGGGCTGTTGCTGCCAGCGCGACAACAACGTCTCTGCATCGAGCAGGATGTCCATGGCATGGGCCAGGAAGCTGGCGACCAACTGCGGATCACGCTTGCTGCGGCCGGCATGGTGCGGGTCTTCATGCAGGCTGGCCAGGCGGCGGTCCACGGCCTGGCCAACCTGCTCGATCAGTT  >  AE015451/5684611‑5684839

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ 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.