<?xml version="1.0"?>
<cis-element-search
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xmlns:mi="MatInspector"
xsi:schemaLocation="http://zlab.bu.edu/schema/cisml cisml.xsd"
xmlns="http://zlab.bu.edu/schema/cisml"
>
	<program-name>MatInspector</program-name>
	<parameters>
		<sequence-file>chr3.seq</sequence-file>
	</parameters>
	<pattern accession="F$ABF1_01" name="F$ABF1_01">
		<scanned-sequence accession="SCCHRIII" name="SCCHRIII">
			<matched-element start="820" stop="841" score="0.930">
				<sequence>tcgcatcattatgcACGGcttg</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="8203" stop="8224" score="0.876">
				<sequence>cgatgtcatagagtACGTgtca</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="14114" stop="14093" score="0.914">
				<sequence>acacatccttaaatACGAaagt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="14584" stop="14563" score="0.931">
				<sequence>ggatatcattgcaaACGTcggg</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="17119" stop="17098" score="0.877">
				<sequence>actaatcaccgcgaACGGaaac</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="24619" stop="24640" score="0.857">
				<sequence>tagtatcgcgctgcACGAgcgt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="27217" stop="27238" score="0.853">
				<sequence>acttatcgttgaccACGCctag</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="28609" stop="28588" score="0.885">
				<sequence>tcaagtcagtgtctACGTtaca</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="33125" stop="33104" score="0.879">
				<sequence>gcaaatcaggttcaACGTtatt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="47021" stop="47042" score="0.919">
				<sequence>aaaaatcacggtgtACGAagaa</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="48488" stop="48467" score="0.877">
				<sequence>attcgtcacactgcACGAacgc</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="51172" stop="51193" score="0.857">
				<sequence>gaacgtcacatctgACGAcctg</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="51371" stop="51350" score="0.854">
				<sequence>cgacatcctttccgACGGtgtc</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="52479" stop="52500" score="0.907">
				<sequence>caatatcatcggaaACGGgcct</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="53367" stop="53388" score="0.850">
				<sequence>atatatcgatccgaACGAactc</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="54258" stop="54279" score="0.855">
				<sequence>gaaaatcagctatgACGAtaaa</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="61485" stop="61464" score="0.929">
				<sequence>cttgatcactttacACGTcaag</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="65680" stop="65659" score="0.900">
				<sequence>tgtcatcacttcgaACGAcgta</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="69015" stop="68994" score="0.863">
				<sequence>agagatcaaagaaaACGAagag</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="73225" stop="73246" score="0.892">
				<sequence>tcacgtcagtgttgACGAtaaa</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="83589" stop="83568" score="0.916">
				<sequence>tgtgatcaatgtacACGAaagt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="84210" stop="84231" score="0.872">
				<sequence>ttacatcaaaatccACGTtctt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="84725" stop="84746" score="0.867">
				<sequence>ttacatcaaaatccACGTtctc</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="85024" stop="85003" score="0.924">
				<sequence>acacgtcatcatagACGGttgt</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="85812" stop="85833" score="0.854">
				<sequence>gcacatctccaaacACGActaa</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="99264" stop="99243" score="0.862">
				<sequence>tgttttcatttgatACGCcctt</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="103095" stop="103116" score="0.913">
				<sequence>atacatcacttccgACGAtacc</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="105754" stop="105775" score="0.861">
				<sequence>ataactcattgactACGGtttg</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="107281" stop="107260" score="0.858">
				<sequence>tcatgtcttttaaaACGCttcc</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="108206" stop="108227" score="0.865">
				<sequence>atgattcattcaacACGAccac</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="108280" stop="108259" score="0.869">
				<sequence>aagtttcattggtgACGAatga</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="111614" stop="111635" score="0.874">
				<sequence>taaagtcactcctcACGCtaag</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="118099" stop="118120" score="0.865">
				<sequence>tctcatcgtatcatACGAttat</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="124722" stop="124701" score="0.908">
				<sequence>attagtcattgaatACGAcaaa</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="127471" stop="127492" score="0.879">
				<sequence>aaaaatcacctggcACGTcatt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="134015" stop="134036" score="0.931">
				<sequence>tgatatcattggagACGTtgta</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="135059" stop="135080" score="0.867">
				<sequence>agtcatcttgatcgACGAaccc</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="135605" stop="135626" score="0.859">
				<sequence>aagggtcaccaaacACGGtcaa</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="136083" stop="136062" score="0.856">
				<sequence>agggatcaattgtgACGTttgt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="136829" stop="136808" score="0.887">
				<sequence>acaaatcacgagcgACGGtaat</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="140088" stop="140109" score="0.870">
				<sequence>tcctttcactttctACGTcagt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="143824" stop="143845" score="0.857">
				<sequence>ttttttcaatttggACGAaatc</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="145543" stop="145522" score="0.852">
				<sequence>ttgggtcgttgcatACGCattt</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="149345" stop="149324" score="0.906">
				<sequence>ctttttcattttatACGTttca</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="161525" stop="161504" score="0.857">
				<sequence>aaatatcaaaccttACGTtatt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="164032" stop="164053" score="0.897">
				<sequence>ttttatcgttaatgACGAagat</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="171962" stop="171983" score="0.862">
				<sequence>gaggttcattgaaaACGGtgat</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="174197" stop="174176" score="0.877">
				<sequence>tgatctcatgaataACGAattt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="175353" stop="175374" score="0.887">
				<sequence>aaagatcacgggctACGAaaag</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="175569" stop="175548" score="0.894">
				<sequence>ggctatcatgtttcACGTtacg</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="176122" stop="176101" score="0.876">
				<sequence>tcaaatcagctcatACGTtaat</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="184863" stop="184884" score="0.913">
				<sequence>caatatcattaccaACGCcggg</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="191868" stop="191847" score="0.917">
				<sequence>tcaaatcacagtcgACGAaagt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="208483" stop="208504" score="0.867">
				<sequence>tcaattctctatacACGTacgt</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="212059" stop="212038" score="0.924">
				<sequence>ccatatcatgtaaaACGTgagc</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="215219" stop="215198" score="0.870">
				<sequence>cacggtcactactcACGAggag</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="215729" stop="215708" score="0.856">
				<sequence>ccttgtcaccagtgACGTtttg</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="222131" stop="222110" score="0.856">
				<sequence>cttgatcacatgcgACGGgagt</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="224009" stop="224030" score="0.890">
				<sequence>aaaaatcagttacgACGAagca</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="226918" stop="226939" score="0.854">
				<sequence>atttgtcgttcacaACGGaaag</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="227591" stop="227570" score="0.855">
				<sequence>agtggtcgtctttgACGAagga</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="232427" stop="232406" score="0.876">
				<sequence>tacaatcacctaagACGAgtgt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="232885" stop="232906" score="0.861">
				<sequence>tgggatcaaattagACGCaact</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="241511" stop="241490" score="0.866">
				<sequence>ggccatcatgtaccACGTtgct</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="245089" stop="245110" score="0.876">
				<sequence>gcgattcattgaaaACGTatcg</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="257473" stop="257452" score="0.907">
				<sequence>acatgtcatttggtACGGtatc</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="261502" stop="261481" score="0.875">
				<sequence>cattatcgctaccgACGGacct</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="261859" stop="261838" score="0.859">
				<sequence>cttcttcactcttgACGCcagt</sequence>
				<mi:cor-sim>0.878</mi:cor-sim>
			</matched-element>
			<matched-element start="270172" stop="270151" score="0.885">
				<sequence>agacatcaaaatagACGAcgag</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="270747" stop="270768" score="0.863">
				<sequence>ttccatcagtaacgACGAtaat</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="272628" stop="272607" score="0.871">
				<sequence>ttgtttcattgatgACGAagga</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="275782" stop="275803" score="0.853">
				<sequence>ataattccttattaACGGagat</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="277614" stop="277635" score="0.887">
				<sequence>caaattcatcatacACGActtc</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="277915" stop="277894" score="0.862">
				<sequence>ggatgtcagattaaACGTtcac</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="278673" stop="278652" score="0.911">
				<sequence>atttatcactcctgACGGaata</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="281396" stop="281417" score="0.874">
				<sequence>tcagttcatggtcaACGTtact</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="282626" stop="282647" score="0.855">
				<sequence>acaattcagggtatACGAagaa</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="286846" stop="286825" score="0.893">
				<sequence>tgatttcatgataaACGTtttc</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="291477" stop="291498" score="0.928">
				<sequence>atacatcataaaatACGAacga</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="293044" stop="293023" score="0.937">
				<sequence>tttaatcattgaaaACGAattt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="293524" stop="293503" score="0.908">
				<sequence>ttatatcgccatatACGAaaat</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="301286" stop="301307" score="0.861">
				<sequence>ttgggtcatataaaACGTctgc</sequence>
				<mi:cor-sim>0.976</mi:cor-sim>
			</matched-element>
			<matched-element start="304162" stop="304141" score="0.901">
				<sequence>tgtcgtcattgaagACGGtaaa</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
			<matched-element start="309562" stop="309583" score="0.925">
				<sequence>acaagtcattgagaACGAaatt</sequence>
				<mi:cor-sim>1.000</mi:cor-sim>
			</matched-element>
			<matched-element start="314756" stop="314735" score="0.959">
				<sequence>ccacatcattatgcACGGcact</sequence>
				<mi:cor-sim>0.951</mi:cor-sim>
			</matched-element>
		</scanned-sequence>
	</pattern>
</cis-element-search>
