Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397299.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_163.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 271445
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.28
Warning! 57930 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:205752 original size:170 final size:168
Alignment explanation
Indices: 205325--205773 Score: 535
Period size: 170 Copynumber: 2.6 Consensus size: 168
205315 NNNNNNNNNN
* * * *
205325 TCACCCATGCCTTTGGAAGCCTTATTACTATCTTTAAATGGTTTTAGAATCTCATAATTGATTTT
1 TCACCCAAGCCTTCGAAAGCCTTATTACTATCTTTAAATGATTTT-GAATCTCATAATTGATTTT
* * *
205390 GAGTCAAATTTTTTATATTTTTTATTAAAGCAGATTATATTTGAATGTATACCTTGGAAAACATG
65 GAGT-TAATTTTTTATATTTTTGATTAAAGCAGATTATATTTGAATATATACCTTGGAAAACATG
*
205455 AAGAAAAAGCTATTCATTGGCAAGAAAAGTCCATTTGGAG
129 AAGAAAAAGCTATTCATTGGCAAGAAAAGTCCATTTAGAG
* * * * * *
205495 TCACCCATGGCTTGGGAAGCCTCATTACTATCTTTAAAT-AGTTTTATAATCTCATAATTGATTT
1 TCACCCAAGCCTTCGAAAGCCTTATTACTATCTTTAAATGA-TTTT-GAATCTCATAATTGATTT
* *
205559 TGACTCTAATTTTTTATATTTTTGATTAAAGCAGATTATATTTGAATATATTCCTT-GAGAAACA
64 TGAGT-TAATTTTTTATATTTTTGATTAAAGCAGATTATATTTGAATATATACCTTGGA-AAACA
* *
205623 TGAAG-AAAAGCTATTCATTGGCAAGAAAAGTCTATTTATAG
127 TGAAGAAAAAGCTATTCATTGGCAAGAAAAGTCCATTTAGAG
* * * **
205664 TCACTCAAGCCTTCGAAAGCCTTATTACTTTCTTGAAATGATTTTGCAATCTCATAAAAGATTTT
1 TCACCCAAGCCTTCGAAAGCCTTATTACTATCTTTAAATGATTTTG-AATCTCATAATTGATTTT
* * * ** *
205729 AAGTTGAATTCTTTTACATTTTTGGTTAAAATAGATTATAATTGA
65 GAGTT-AATT-TTTTATATTTTTGATTAAAGCAGATTATATTTGA
205774 GTGTGTGCCT
Statistics
Matches: 242, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
168 1 0.00
169 92 0.38
170 149 0.62
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (168 bp):
TCACCCAAGCCTTCGAAAGCCTTATTACTATCTTTAAATGATTTTGAATCTCATAATTGATTTTG
AGTTAATTTTTTATATTTTTGATTAAAGCAGATTATATTTGAATATATACCTTGGAAAACATGAA
GAAAAAGCTATTCATTGGCAAGAAAAGTCCATTTAGAG
Found at i:206199 original size:171 final size:172
Alignment explanation
Indices: 205325--206217 Score: 491
Period size: 171 Copynumber: 5.2 Consensus size: 172
205315 NNNNNNNNNN
*** ** * *
205325 TCACCCATGCCTTTGGAAGCCTTATTACTATCTTTAAATGGTTTTAGAATCTCATAATTGATTTT
1 TCACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAGCTCATAATTGATTTT
* * * * * * * * * * *
205390 GAGTCAAATTTTTTATA-TTTTTTA-TTAAAGCAGATTATATTTGAATGTATACCTTGGAAAACA
66 AAGTTAAATTTTTTTTACATTTTTACTTAAAACAGATTACATTTAAATGTTTGCATTGGGAAACA
* * * ** **
205453 TGA-AGAAAAAGCTATTCATTGGCAAGAAAAGTCCATTTGGAG
131 AGAGA-AAAAAACCATTCATTACCAAGAAAAGTCCATTTATAG
* *** * ** * *
205495 TCACCCATGGCTTGGGAAGCCTCATTACTATCTTTAAATAGTTTTATAATCTCATAATTGATTTT
1 TCACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAGCTCATAATTGATTTT
* * * * * * * * *
205560 GACTCT-AA--TTTTTTATATTTTTGA-TTAAAGCAGATTATATTTGAATATATT-CCTTGAGAA
66 AAGT-TAAATTTTTTTTACATTTTT-ACTTAAAACAGATTACATTTAAATGT-TTGCATTGGGAA
* * * * ** *
205620 ACATGA-AGAAAAGCTATTCATTGGCAAGAAAAGTCTATTTATAG
128 ACAAGAGAAAAAAACCATTCATTACCAAGAAAAGTCCATTTATAG
* * * ** * * ** * **
205664 TCACTCAAGCCTTCGAAAGCCTTATTACTTTCTTGAAATGATTTTGCAATCTCATAAAAGATTTT
1 TCACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAGCTCATAATTGATTTT
* * ** * * * * * * * ***
205729 AAGTTGAA-TTCTTTTACATTTTTGGTTAAAATAGATTATAATTGAGTGTGTGCCTCAAGAAACA
66 AAGTTAAATTTTTTTTACATTTTTACTTAAAACAGATTACATTTAAATGTTTGCATTGGGAAACA
* * **** * ***********
205793 TGA-AGAGAATGTGATTCATTAGCAAGAGNNNNNNNNNNATAG
131 AGAGA-AAAAAACCATTCATTACCAAGAAAAGTCCATTTATAG
* * *
205835 TCACCCATGCCTTCTAAAA-CCTTATTACTCACTTTAAACGGTTTTATAAGCTCATATTTGATTT
1 TCACCCATGCCTTC-AAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAGCTCATAATTGATTT
* * * *
205899 TAAGTTAAATTTTTTTTATATTTTTACTTAAAATAGATTATATTTAAATGTTTGCATTGGGAAAT
65 TAAGTTAAATTTTTTTTACATTTTTACTTAAAACAGATTACATTTAAATGTTTGCATTGGGAAAC
* ** *
205964 AAGAGGAAAAATTCATTCATTACCAAGAAAAGTTCATTTATAG
130 AAGAGAAAAAAACCATTCATTACCAAGAAAAGTCCATTTATAG
* *
206007 CCACCCATGCCTTTC-AAAGCCTTATTACTCGCTTTTAATGGTTTTATAAGCTCATAATTGATTT
1 TCACCCATGCC-TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAGCTCATAATTGATTT
********** ** * * *
206071 T-NNNNNNNNNNTTTTTACATTTTTGGTTAAAACAGATTACATTTGAATGTTTTCCTTGGGAAAC
65 TAAGTTAAATTTTTTTTACATTTTTACTTAAAACAGATTACATTTAAATGTTTGCATTGGGAAAC
* * *
206135 AGGAGAAAAAAACCATTCATTAGCAAGAATAGTCCATTTATAG
130 AAGAGAAAAAAACCATTCATTACCAAGAAAAGTCCATTTATAG
*
206178 TCACCCATGCCTTCAAAAGCCTTATTACTTGCTTTAAATG
1 TCACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATG
206218 ANNNNNNNNN
Statistics
Matches: 567, Mismatches: 141, Indels: 29
0.77 0.19 0.04
Matches are distributed among these distances:
168 7 0.01
169 94 0.17
170 151 0.27
171 191 0.34
172 121 0.21
173 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.38
Consensus pattern (172 bp):
TCACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAGCTCATAATTGATTTT
AAGTTAAATTTTTTTTACATTTTTACTTAAAACAGATTACATTTAAATGTTTGCATTGGGAAACA
AGAGAAAAAAACCATTCATTACCAAGAAAAGTCCATTTATAG
Found at i:208281 original size:170 final size:168
Alignment explanation
Indices: 207817--208427 Score: 437
Period size: 170 Copynumber: 3.6 Consensus size: 168
207807 NNNNNNNNNN
** * * **
207817 GATTTTAAGTTGAATTCTTTTAC-ATTTTTAATTAAAATAGATTATAATTGAGTGTTTGTCTCAA
1 GATTTTAAGTTG-ATT-TTTT-CTATTTTTGGTTAAAACAGATTATAATTCAGTGTTTACCTCAA
* * * *
207881 GAAACGTGAAGAAAACATG--ATTCATTGGTAAGAAAAGTCCATTTATGGTCACCCATGCCTTTC
63 GAAACATGAAGAAAA-A-GCCATTCATTGGCAAG-AAAGTCCATTTATAGTCACCCATGCCTTCC
* ********** *
207944 AAAGACTTATT-CNNNNNNNNNNTAGTTTTATAATCTCATTATT
125 AAAGCCTTATTACCTGCTCTAAATGGTTTTATAATCTCATTATT
* * * * *
207987 GATTTTAAGTTGAATTTTTTTATATTTTTGGTCAAAATAGATTATAATTTAGTGTTTAGCTCCAA
1 GATTTTAAGTTG-A-TTTTTTCTATTTTTGGTTAAAACAGATTATAATTCAGTGTTTACCT-CAA
* * * * ********** *
208052 -AAACATGAAGAAAAGGTCACTCATTGGCAAAAAAAGTCNNNNNNNNNNCACCCATGCCTTTCAA
63 GAAACATGAAGAAAAAGCCATTCATTGGC-AAGAAAGTCCATTTATAGTCACCCATGCCTTCCAA
* *
208116 AGCCTTATTACTTGCT-TGAAATGGTTTTATAAGCTCA-TATT
127 AGCCTTATTACCTGCTCT-AAATGGTTTTATAATCTCATTATT
* * *
208157 GGATTTTAAGTTGATTTGTTTCTATTTTTGGTTAAAACAGATTATAATTGAGTTTTTACCTCTAG
1 -GATTTTAAGTTGATTT-TTTCTATTTTTGGTTAAAACAGATTATAATTCAGTGTTTACCTCAAG
*
208222 AAACATGAAGAAAAAGCCATTCATTGGCACAGAAAGTCCATTTATAGTCACCTATGCCTTCCAAA
64 AAACATGAAGAAAAAGCCATTCATTGGCA-AGAAAGTCCATTTATAGTCACCCATGCCTTCCAAA
* * * *
208287 GTCTTATTACCTGCTCTAAATGATTTTTTAATCTAATTATT
128 GCCTTATTACCTGCTCTAAATGGTTTTATAATCTCATTATT
* * ** * * * * *
208328 AATTTTAAGTTAAATCTTTTTAC-ATTTTTTATTAAAGCAAATTAAAATTCAATGTTTATCTCAA
1 GATTTTAAGTT-GAT-TTTTT-CTATTTTTGGTTAAAACAGATTATAATTCAGTGTTTACCTCAA
* * *
208392 GAAACATGATGAACAAGCCATTCATTGGTAAGAAAG
63 GAAACATGAAGAAAAAGCCATTCATTGGCAAGAAAG
208428 GTGCATTNNN
Statistics
Matches: 346, Mismatches: 78, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
168 1 0.00
169 6 0.02
170 234 0.68
171 102 0.29
172 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.37
Consensus pattern (168 bp):
GATTTTAAGTTGATTTTTTCTATTTTTGGTTAAAACAGATTATAATTCAGTGTTTACCTCAAGAA
ACATGAAGAAAAAGCCATTCATTGGCAAGAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCC
TTATTACCTGCTCTAAATGGTTTTATAATCTCATTATT
Found at i:209201 original size:171 final size:167
Alignment explanation
Indices: 209017--209458 Score: 528
Period size: 169 Copynumber: 2.6 Consensus size: 167
209007 NNNNNNNNNN
* * * * *
209017 TTTAACCAAAAATAGAAACAAATTCAACTTAAAATCAAATATGAGCTTATAAAATCATTTCAAGT
1 TTTAACTAAAAATATAAA-AAATTCAACTTAAAATCAAATATGAGCTTATAAAACCATTTAAAGC
* *
209082 GAGTAATAAGGCTTTGAAAGGCATGGGTGACCATAAATTGACTTTTCTTGCCAATGAAT-AATGT
65 GAGTAATAAGGCTTTGAAAGG-ATGGGTGACTATAAATAGACTTTT-TTGCCAATGAATGAA-GT
* * * *
209146 TTTCTTAAACTTTTC-TAAGACAAACACTTAAGTATAATCTGT
127 TTTCTCAAA--TTTCGAAAGACAAACACTCAAATATAATCTGT
* * * *
209188 TTTAACTAAAAATATAAAAGAATTCAACTTAAAATCAAGTATAAGATTGTAAAACCATTTAAAGC
1 TTTAACTAAAAATATAAAA-AATTCAACTTAAAATCAAATATGAGCTTATAAAACCATTTAAAGC
* ** *
209253 GAGTAATAAGGTTTTGAAAGGATTGGGTGACTATAAATAGACTTTTTTGCTGATGAATGGAGTTT
65 GAGTAATAAGGCTTTGAAAGGA-TGGGTGACTATAAATAGACTTTTTTGCCAATGAATGAAGTTT
* * * *
209318 TCTCCAATTTCGAAAGGCAAATAGTCAAATATAATCTGT
129 TCTCAAATTTCGAAAGACAAACACTCAAATATAATCTGT
* * * *
209357 TTTAAATATAAATATAAAAACATTCAACTTAAAATCAATTATGAGCTAATAAAACCATTTAAAGC
1 TTTAACTAAAAATATAAAAA-ATTCAACTTAAAATCAAATATGAGCTTATAAAACCATTTAAAGC
*
209422 AAGTAATAAGGCTTTGAAAGGTATGGGTGACTATAAA
65 GAGTAATAAGGCTTTGAAAGG-ATGGGTGACTATAAA
209459 NNNNNNNNNN
Statistics
Matches: 233, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
168 5 0.02
169 110 0.47
170 22 0.09
171 96 0.41
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (167 bp):
TTTAACTAAAAATATAAAAAATTCAACTTAAAATCAAATATGAGCTTATAAAACCATTTAAAGCG
AGTAATAAGGCTTTGAAAGGATGGGTGACTATAAATAGACTTTTTTGCCAATGAATGAAGTTTTC
TCAAATTTCGAAAGACAAACACTCAAATATAATCTGT
Found at i:211027 original size:171 final size:170
Alignment explanation
Indices: 210457--211195 Score: 681
Period size: 171 Copynumber: 4.3 Consensus size: 170
210447 NNNNNNNNNN
* * * ** * * *
210457 ATAAAACCATTTAAAGCGTGTAATAAAGCTTTGAAACCCATGAGTGGCTATAAATGGACTTTTCT
1 ATAAAACTATTTAAAGC-AGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATAGACTTTTCT
* *
210522 TGCCAATGAATGG-TATTTTCTTCATGTTTTCCAAGGTAAACACTAAATTATAATCTGTTTTCAC
65 AGCCAATGAATGGCT-TTTTCTTCATGTTTTCCAAGGTAAACACTAAATTATAATCTGTTTTAAC
* * * * **********
210586 CAAAATTGTAAAAAGATTCAACTTAAAGTCANNNNNNNNNNT
129 CAAAAATATAAAAAGAATCAACTTAAAATCAATTATGAGCTT
* * * *
210628 ATAAAACTATTTAAAGTGAGTAATAAGGCTTTGGAAGGTATAGGTGACTATAAAT-GCACTTTTC
1 ATAAAACTATTTAAAG-CAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATAG-ACTTTTC
* * * *
210692 -ATGCCAATGAATGGCTTTCTCTTCATG-TTTCTCGAGGTAAAAAAAC-AAA-TATAATCTGTAT
64 TA-GCCAATGAATGGCTTTTTCTTCATGTTTTC-CAAGGT--AAACACTAAATTATAATCTGTTT
*
210753 TAACCAAAAATAGAAAGCAA-AATTCAACTTAAAATCAATATATGAGCTT
125 TAACCAAAAATATAAA--AAGAA-TCAACTTAAAATCAAT-TATGAGCTT
* * * *
210802 ATAAAACTATTTAAAGCAATAATAAAGCTTTGAAAGGCATGAGTGACCATAAATAGACTTTTCTA
1 ATAAAACTATTTAAAGCAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATAGACTTTTCTA
* * * * *
210867 GCCAAAGAATGGCTTTTTCTTTATGTTTTCCAAGGTAAACGCTCAATTATAATCTGTTTTAACTA
66 GCCAATGAATGGCTTTTTCTTCATGTTTTCCAAGGTAAACACTAAATTATAATCTGTTTTAACCA
*
210932 AAAATATAAAACA-AATCAACTTAAAATCAATTATGAGATT
131 AAAATATAAAA-AGAATCAACTTAAAATCAATTATGAGCTT
* * * * *
210972 ATGATACCATTTAAAGCATGTAATAAAGCTTTGGAAGGCATGGGCGGCTATAAATAGACTTTTCT
1 ATAAAACTATTTAAAGCA-GTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATAGACTTTTC-
* * ** * * * * *
211037 TA-CCAATGAGTGGC-TTTTATTGTTGTTTTTCAAGATAAACACTAAAGTATAACCT-TTTTGAC
64 TAGCCAATGAATGGCTTTTTCTTCATGTTTTCCAAGGTAAACACTAAATTATAATCTGTTTTAAC
* * * *
211099 TAAAAATGTAAAAAGATTCAACTTAAAATCAATAATGAGCTT
129 CAAAAATATAAAAAGAATCAACTTAAAATCAATTATGAGCTT
* * *
211141 ATAAAACTATTTAAAACGAGTAATAAGGCCTTGGAAGGCATGGGTGACTATAAAT
1 ATAAAACTATTTAAAGC-AGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAAT
211196 GAACCTTTCT
Statistics
Matches: 463, Mismatches: 84, Indels: 44
0.78 0.14 0.07
Matches are distributed among these distances:
168 1 0.00
169 87 0.19
170 61 0.13
171 170 0.37
172 12 0.03
173 109 0.24
174 23 0.05
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.32
Consensus pattern (170 bp):
ATAAAACTATTTAAAGCAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATAGACTTTTCTA
GCCAATGAATGGCTTTTTCTTCATGTTTTCCAAGGTAAACACTAAATTATAATCTGTTTTAACCA
AAAATATAAAAAGAATCAACTTAAAATCAATTATGAGCTT
Found at i:218763 original size:171 final size:171
Alignment explanation
Indices: 218293--218774 Score: 441
Period size: 171 Copynumber: 2.8 Consensus size: 171
218283 ACTTGCTTAA
* * * * * *
218293 AAATGGTTTAACAATCTTC-TAATTG-TTTTGAAGTCAAATATTTTTATAGTTTTGGTTAAAACA
1 AAATGGTTTTACAAAC-TCATAATTGATTGT-AAGTTAAATTTTTTTATAGTTTTAGTTAAAACA
* * * * * * *
218356 GATTAAATTTGAATG-TTGACCTTGGGAAATGGGTTGAAAAAGCCATTCATTAGGAAGAAAATTC
64 GATTATATTTGAATGTTTG-CCTCGGGAAACGGGATGAAAAAGCCATTCATTAGCAAAAAAAGTC
*
218420 CATTTATAGCCACCAATGCCTTCGAAAGCCTTGTTAGTCGCTTT
128 CATTTATAGTCACCAATGCCTTCGAAAGCCTTGTTAGTCGCTTT
* * * *
218464 AAATGGTTTTACAAACTCATAATTGATTTTAAGTTAATTTTTTTTACAG-TTTAGGTTAAAATAG
1 AAATGGTTTTACAAACTCATAATTGATTGTAAGTTAAATTTTTTTATAGTTTTA-GTTAAAACAG
* * * ** ** * * ** * * *
218528 ATTATAATTGAGTGTTTTCCTCAAGAAACATGATGAGAATGTGATTTATTGGCAAAAGAAGTCCA
65 ATTATATTTGAATGTTTGCCTCGGGAAACGGGATGAAAAAGCCATTCATTAGCAAAAAAAGTCCA
* * * * **********
218593 TTTAGAGTCACCCATGCTTTCTAAAGCCTNNNNNNNNNNTTT
130 TTTATAGTCACCAATGCCTTCGAAAGCCTTGTTAGTCGCTTT
* *
218635 AAATGGTTTTATAAGCTCATAATTGATTGTAAGTTAAATTTTTTTATAGTTTTAGTTAAAACAGA
1 AAATGGTTTTACAAACTCATAATTGATTGTAAGTTAAATTTTTTTATAGTTTTAGTTAAAACAGA
* * *
218700 TTATATTTAAATGTTTGCCTGGGGAAACGGGAGGAAAAAGCCATTCATTAGCAAAAAAAGTCCAT
66 TTATATTTGAATGTTTGCCTCGGGAAACGGGATGAAAAAGCCATTCATTAGCAAAAAAAGTCCAT
218765 TTATAGTCAC
131 TTATAGTCAC
218775 ACATTCCTTN
Statistics
Matches: 238, Mismatches: 68, Indels: 10
0.75 0.22 0.03
Matches are distributed among these distances:
170 5 0.02
171 223 0.94
172 10 0.04
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.36
Consensus pattern (171 bp):
AAATGGTTTTACAAACTCATAATTGATTGTAAGTTAAATTTTTTTATAGTTTTAGTTAAAACAGA
TTATATTTGAATGTTTGCCTCGGGAAACGGGATGAAAAAGCCATTCATTAGCAAAAAAAGTCCAT
TTATAGTCACCAATGCCTTCGAAAGCCTTGTTAGTCGCTTT
Found at i:222015 original size:147 final size:147
Alignment explanation
Indices: 221743--222015 Score: 352
Period size: 147 Copynumber: 1.9 Consensus size: 147
221733 TTTGACCAAA
* * * * ** *
221743 AATGTAAAAATATTAAACTTCAAATCAATTATGAGATTAAAAAATGATTTAAAGAGTGTAACAAA
1 AATGTAAAAAGATTAAACTTAAAATCAATAATGAGATCAAAAAACCATTTAAAGAGAGTAACAAA
* * *
221808 GCTTTGGAAGGCATGGGTAGCTATAAATGGACTTTTCTTACCAATGAGTGACTTTTTCTTCAATT
66 GCTTTGGAAGGCATGGGTAGCTATAAATGAACTTTTCTTACCAATGAATGACTTTCTCTTCAATT
221873 TTTTCAGGATAAACACT
131 TTTTCAGGATAAACACT
* * * *
221890 AATGTAAAAAGATTCAACTTAAAATCTATAATGAGA-CAATAAAACCATTTAAAGCGAGTAATAA
1 AATGTAAAAAGATTAAACTTAAAATCAATAATGAGATCAA-AAAACCATTTAAAGAGAGTAACAA
* * * *
221954 GGCTTTGGAAGGCATGGGT-GACTCTAAATGAACTTTTCTTGCCAATGAATGGCTTTCTCTTC
65 AGCTTTGGAAGGCATGGGTAG-CTATAAATGAACTTTTCTTACCAATGAATGACTTTCTCTTC
222016 TGGTTTCCTA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
146 3 0.03
147 103 0.97
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (147 bp):
AATGTAAAAAGATTAAACTTAAAATCAATAATGAGATCAAAAAACCATTTAAAGAGAGTAACAAA
GCTTTGGAAGGCATGGGTAGCTATAAATGAACTTTTCTTACCAATGAATGACTTTCTCTTCAATT
TTTTCAGGATAAACACT
Found at i:222160 original size:318 final size:318
Alignment explanation
Indices: 221583--222183 Score: 739
Period size: 318 Copynumber: 1.9 Consensus size: 318
221573 NNNNAAAACA
* ** * *
221583 ATTCAACTTAAAATCAATAATGCGATTATAAAACCATTTAAAGCAAGTAGTAAGGCGTTCGGGGG
1 ATTCAACTTAAAATCAATAATGAGACAATAAAACCATTTAAAGCAAGTAATAAGGCGTTCGGAGG
* * ***
221648 CATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATAGCTTTTTCCTCATGTTTCCCAAGTCC
66 CATGGGTGACTACAAATGAACTTTTCTTGCCAATGAATAGCTTTCTCCTCATGTTTCCCAAGGAA
* * *
221713 AACACTCAAATCTAATTTATTTTGACCAAAAATGTAAAAATATTAAACTTCAAATCAATTATGAG
131 AACACTCAAATATAATCTATTTTGACCAAAAATGTAAAAATATTAAACTTAAAATCAATTATGAG
** *
221778 ATTAAAAAATGATTTAAAGAGTGTAACAAAGCTTTGGAAGGCATGGGTAGCTATAAATGGACTTT
196 ATTAAAAAACCATTTAAAGAGTGTAACAAAGCTTTCGAAGGCATGGGTAGCTATAAATGGACTTT
*
221843 TCTTACCAATGAGTGACTTTTTCTTCAATTTTTTCAGGATAAACACTAATGTAAAAAG
261 TCTTACCAATGAATGACTTTTTCTTCAATTTTTTCAGGATAAACACTAATGTAAAAAG
* * *
221901 ATTCAACTTAAAATCTATAATGAGACAATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGGAAG
1 ATTCAACTTAAAATCAATAATGAGACAATAAAACCATTTAAAGCAAGTAATAAGGCGTTCGG-AG
* * *
221965 GCATGGGTGACT-CTAAATGAACTTTTCTTGCCAATGAATGGCTTTCTCTTC-TGGTTTCCTAAG
65 GCATGGGTGACTAC-AAATGAACTTTTCTTGCCAATGAATAGCTTTCTCCTCAT-GTTTCCCAAG
*** * * * *
222028 GAAAATGTTCAATTATAATCTGTTTTGACTAAAAATGTAGAACAAT-TT-AGCTTAAAATCAATT
128 GAAAACACTCAAATATAATCTATTTTGACCAAAAATGTA-AA-AATATTAAACTTAAAATCAATT
** ** * * *
222091 ATGAGATTGCAAAACCATTTAAAGCAG-GTAGTAAGGCTTTCGAAGGCATTGGT-GACTATAAGT
191 ATGAGATTAAAAAACCATTTAAAG-AGTGTAACAAAGCTTTCGAAGGCATGGGTAG-CTATAAAT
* *
222154 GGACTTTTCTTGCCAATGAATGGCTTTTTC
254 GGACTTTTCTTACCAATGAATGACTTTTTC
222184 CTCATGTTTC
Statistics
Matches: 237, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
317 7 0.03
318 221 0.93
319 6 0.03
320 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (318 bp):
ATTCAACTTAAAATCAATAATGAGACAATAAAACCATTTAAAGCAAGTAATAAGGCGTTCGGAGG
CATGGGTGACTACAAATGAACTTTTCTTGCCAATGAATAGCTTTCTCCTCATGTTTCCCAAGGAA
AACACTCAAATATAATCTATTTTGACCAAAAATGTAAAAATATTAAACTTAAAATCAATTATGAG
ATTAAAAAACCATTTAAAGAGTGTAACAAAGCTTTCGAAGGCATGGGTAGCTATAAATGGACTTT
TCTTACCAATGAATGACTTTTTCTTCAATTTTTTCAGGATAAACACTAATGTAAAAAG
Found at i:222225 original size:171 final size:171
Alignment explanation
Indices: 221890--222269 Score: 437
Period size: 171 Copynumber: 2.2 Consensus size: 171
221880 GATAAACACT
* * * ****
221890 AATGTAAAAAGATTCAACTTAAAATCTATAATGAGACAATAAAACCATTTAAAGCGAGTAATAAG
1 AATGTAAAAATATTCAACTTAAAATCAATTATGAGATTGCAAAACCATTTAAAGCGAGTAATAAG
* * *
221955 GCTTTGGAAGGCATGGGTGACTCTAAATGAACTTTTCTTGCCAATGAATGGCTTTCTCTTCTGGT
66 GCTTTCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGGCTTTCTCCTCTGGT
*** * *
222020 TTCCTAAGGAAAATGTTCAATTATAATCTGTTTTGACTAAA
131 TTCCTAAGGAAAACACTCAAATATAATCTGTTTTGACCAAA
* *
222061 AATGTAGAACAAT-TT-AGCTTAAAATCAATTATGAGATTGCAAAACCATTTAAAGC-AGGTAGT
1 AATGTA-AA-AATATTCAACTTAAAATCAATTATGAGATTGCAAAACCATTTAAAGCGA-GTAAT
* * * *
222123 AAGGCTTTCGAAGGCATTGGTGACTATAAGTGGACTTTTCTTGCCAATGAATGGCTTTTTCCTCA
63 AAGGCTTTCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGGCTTTCTCCTC-
* ** * * *
222188 T-GTTTCC-CAGGTCCACCACTCAAATCTAATTTGTTTTGACCAAA
127 TGGTTTCCTAAGG-AAAACACTCAAATATAATCTGTTTTGACCAAA
222232 AATGTAAAAATATTCAACTTAAAATCAATTATGAGATT
1 AATGTAAAAATATTCAACTTAAAATCAATTATGAGATT
222270 AAAAAANNNN
Statistics
Matches: 174, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
169 3 0.02
170 8 0.05
171 156 0.90
172 5 0.03
173 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (171 bp):
AATGTAAAAATATTCAACTTAAAATCAATTATGAGATTGCAAAACCATTTAAAGCGAGTAATAAG
GCTTTCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGGCTTTCTCCTCTGGT
TTCCTAAGGAAAACACTCAAATATAATCTGTTTTGACCAAA
Found at i:223148 original size:169 final size:169
Alignment explanation
Indices: 222628--223192 Score: 621
Period size: 171 Copynumber: 3.3 Consensus size: 169
222618 NNNNNNTTTG
* * * *
222628 GAAGGCATGGGTGGCTATAAATGGAGTTTTCTTGCCAATGAATGGATTTTTCTTCATG-TTCCCT
1 GAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCC-
* * * * * * *
222692 AAGAAAAACACTCAATGATAATCTGTTTTGACTAAAAACATAAAAAAATTTAGCTTAAAATCAAT
65 AAG--GAACACTAAATTATAATCTGTTTTGACAAAAAATATAAAAAAATTCAACTTAAAATCAAT
* * * *
222757 TATGAGATGATAAAACCATTTAAAGCAAGTAGTAAGGCTTTC
128 AATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTT
* *
222799 GAAGGCATGGATGATTACAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCA
1 GAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCA
* ** * * * *
222864 AGGCCAACACTGAATTCCAATTTGTTTTGACCAAAAATGTAAAATAATTCAACTTAAAATCAATA
66 AGG--AACACTAAATTATAATCTGTTTTGACAAAAAATATAAAAAAATTCAACTTAAAATCAATA
* * *
222929 ATGAGATTATAGAACCATTTAAAGCATGTAATAAAG-TTTT
129 ATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTT
* * * **********
222969 GGATGGCATGGGTGGCTATAAATGGACTTTTNNNNNNNNNNAATGGCTTTTTCTTCATGTTTCCC
1 -GAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCC
*
223034 AAGGAACACTAAATTATAATCTGTTTTGACAAAAAATATAAAAAAATTCAACTTAAAATCAGTAA
65 AAGGAACACTAAATTATAATCTGTTTTGACAAAAAATATAAAAAAATTCAACTTAAAATCAATAA
*
223099 AGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTT
130 TGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTT
* * * * * *
223139 AAAGGCATGGGTGACTACAAATAGACTTTTTTTTACCTAGGAATGGCTTTTTCT
1 GAAGGCATGGGTGACTACAAATGGAC-TTTTCTTGCCAATGAATGGCTTTTTCT
223193 NNNNNNNNNN
Statistics
Matches: 321, Mismatches: 67, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
169 105 0.33
170 24 0.07
171 187 0.58
172 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.32
Consensus pattern (169 bp):
GAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCA
AGGAACACTAAATTATAATCTGTTTTGACAAAAAATATAAAAAAATTCAACTTAAAATCAATAAT
GAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTT
Found at i:224578 original size:171 final size:170
Alignment explanation
Indices: 224151--224633 Score: 436
Period size: 171 Copynumber: 2.8 Consensus size: 170
224141 NAAGGAATGT
* * *
224151 GTGACTATAAATGGACTTTTTTTGCTAATGAATGGCTTTTTCCTCTCGTTTCCCTAGGCAAACAT
1 GTGACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCCTCACGTTTCCCAAGGC-AACAT
* * * * *
224216 TTAAATATAATCTGTTTTAA-CTAAAACTAT-AAAAAAATTCAACTTACAATCAATTATGAGCTT
65 TCAAATTTAATCTATTTTAACCT-AAACTATAAAAAAAATT-AACTTAAAATCAATTATGAGATT
* **********
224279 ATAAAACCATTTAAANNNNNNNNNNAGGCTTTAGAAAGCATGG
128 GTAAAACCATTTAAAGTGACTAACAAGGCTTTAGAAAGCATGG
* * * * ** * * * * *** * *
224322 GTGACTCTAAATGGACTTCTCTTGCCAATAAATCACATTCTCGTCATGTTTCTTGAGGAAAACAC
1 GTGACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCCTCACGTTTCCCAAGG-CAACAT
*
224387 TC-AATTATAATCTATTTTAACCTAAACTATAAAAAAAATTAACTTAAAATCAATTATGAGTTTG
65 TCAAATT-TAATCTATTTTAACCTAAACTATAAAAAAAATTAACTTAAAATCAATTATGAGATTG
* * *
224451 TAAAACCATTTAAAGTGACTAACAAGGCTTTCGAAGGCATTG
129 TAAAACCATTTAAAGTGACTAACAAGGCTTTAGAAAGCATGG
* * * *
224493 GTGGCTATAAATGGAATTTTCTTGCTAATGAATGGCTTTTTCCTCCCATTTCCCAAGGTCAACAT
1 GTGACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCCTCACGTTTCCCAAGG-CAACAT
* * *
224558 TCAAATTTAATCTTTTTTAACCAAAACTATAAAAAAAATTTGACTTCAAAA-CAATTA-GAAGAT
65 TCAAATTTAATCTATTTTAACCTAAACTATAAAAAAAA-TTAACTT-AAAATCAATTATG-AGAT
*
224621 TGTTAAACCATTT
127 TGTAAAACCATTT
224634 TTAAGCAAGT
Statistics
Matches: 243, Mismatches: 61, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
170 3 0.01
171 194 0.80
172 42 0.17
173 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.34
Consensus pattern (170 bp):
GTGACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCCTCACGTTTCCCAAGGCAACATT
CAAATTTAATCTATTTTAACCTAAACTATAAAAAAAATTAACTTAAAATCAATTATGAGATTGTA
AAACCATTTAAAGTGACTAACAAGGCTTTAGAAAGCATGG
Found at i:225263 original size:171 final size:170
Alignment explanation
Indices: 224846--225797 Score: 940
Period size: 171 Copynumber: 5.6 Consensus size: 170
224836 NNNNNNNNNN
* * * * *
224846 TTTTAACAAAAAATGTAAAAACATTTAACTTAAAATTAATTATGAGATTCTAAAGCCATTTAAAG
1 TTTTGACAAAAAATGTAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * *
224911 CGAGCAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACATTTCTTGCTAATGAATGGTTT
65 CGAGTAATAAGGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTT
**********
224976 TTTCTTCATGTTTCTCAA-G-NNNNNNNNNNTTATAATCTG
130 TTTCTTCATGTTTCTCAAGGCAAACACTCAATTATAATCTG
* * * * **
225015 TCTTGACAAAAAATGTAAAACAGTTCAACTTAAAATCAATAATGGGATCGTAAAACCATTTAAAG
1 TTTTGACAAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * *
225080 CAAGTAGTAAGGCTTCCAAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTT
65 CGAGTAATAAGGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTT
* * * * *
225145 TTTCCTCATGTTTCCCAAGGCCAACACTCAATTCTAATTTG
130 TTTCTTCATGTTTCTCAAGGCAAACACTCAATTATAATCTG
* *
225186 TTTTGACCAAAAATGTAAAAAACTTCATCTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
1 TTTTGACAAAAAATGTAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * *
225251 CAAGTAGTAAGGCTTTCGAAGGCATGGGTGACTACAAGTGGACGTTTCTTTCCAATGAATGGCTT
65 CGAGTAATAAGGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTT
* * ** * *
225316 TTTCTTCATGTTTCCCAAGGCCAACACTCAATTCCAATTTT
130 TTTCTTCATGTTTCTCAAGGCAAACACTCAATTATAATCTG
* * *
225357 TTTTGATAAAAAATGTAAATAAATTGAACTTAAAATCAATTATGAGATTATAAAAACATTTAAAG
1 TTTTGACAAAAAATGTAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * * ** * *
225422 CGTGTAATAAAGCTTTGGAAGGCTTGGATGGCTAGAAATGGACTTTTCTTGAGAATGAGTGACTT
65 CGAGTAATAAGGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTT
* ** * *
225487 TTTCTTCATGTTTTTGGA-GCTAAACAATAAATTATAATCTG
130 TTTCTTCATGTTTCTCAAGGC-AAACACTCAATTATAATCTG
* * *
225528 TTTTAATAAAAAATGTAAAAAGATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAAG
1 TTTTGACAAAAAATGTAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * *
225593 CGAGTAATAAGGCTTTGGAAGGTATGGATGACCATAAATGGACTTTTCTTGCCAATGAATAGCTT
65 CGAGTAATAAGGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTT
* * * *
225658 TTTCTTCACGTTTCTTAAGGCAAAAAGTCAATTATAATCTG
130 TTTCTTCATGTTTCTCAAGGCAAACACTCAATTATAATCTG
* ********* * * *
225699 TTTTAACCAANNNNNNNNNNAAAA-TCAACTTAAAATCAAATATGAGCTTACAAAACCATTTAAA
1 TTTTGA-CAA-AAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* *
225763 GCGAGTAATAAGGCTTTGGAAGGCATGGATGACTA
64 GCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTA
225798 TNNNNNNNNN
Statistics
Matches: 652, Mismatches: 121, Indels: 18
0.82 0.15 0.02
Matches are distributed among these distances:
169 124 0.19
170 7 0.01
171 510 0.78
172 8 0.01
173 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (170 bp):
TTTTGACAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
GAGTAATAAGGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCCAATGAATGGCTTT
TTCTTCATGTTTCTCAAGGCAAACACTCAATTATAATCTG
Found at i:229306 original size:172 final size:170
Alignment explanation
Indices: 229124--229532 Score: 410
Period size: 169 Copynumber: 2.4 Consensus size: 170
229114 NNNNNNNNNN
* *
229124 CCATTTAAAGCGAGTAATAAGGCTTTAAAAGGCATGGGTGTCTATAAATGGACTTTTCTTTTCAA
1 CCATTTAAAGCGAGTAATAAGGCTTTAGAAGGCATGGGTGTCTATAAATGGACTTTTCTTGTCAA
* *
229189 TGAATGGCTTTTTCTTCACATTTCCGAAGGAAAACACTCAATTATAATCTGTTTTCA-CTAAAAA
66 TGAATGGCTTTTTCTTCACATTTCCCAAGGAAAACACTCAATTACAATCTGTTTTCATC-AAAAA
**
229253 TGTAAAAAACCTTCAACTTAAAATCAATAATGGGATTATAAAA
130 TGTAAAAAA-C-TCAACTTAAAATCAATAATGAAATTATAAAA
* * * * * ***
229296 CCATTTAAAGCAAGTAGTTAGGCTTTCGAAGGCATGGGTGAT-TACAAATGGAC-TTTCTTGNNN
1 CCATTTAAAGCGAGTAATAAGGCTTTAGAAGGCATGGGTG-TCTATAAATGGACTTTTCTTGTCA
******* * * ** * * *
229359 NNNNNNNGCTTTTTTTTCACATTTCCCTAGGCCAACACTCAATTCCAATTTGTTTTGATCAAAAA
65 ATGAATGGCTTTTTCTTCACATTTCCCAAGGAAAACACTCAATTACAATCTGTTTTCATCAAAAA
* *
229424 TGTAAAAAACTGAACTTAAAATCAATTATGAAATTATAAAA
130 TGTAAAAAACTCAACTTAAAATCAATAATGAAATTATAAAA
* * * * * * * * *
229465 CCATCTAAAGTGTGTAAAAAAGCTTTGGAAGGCATGGGTGGCTATAAACGGACTTTTCTTGCCAA
1 CCATTTAAAGCGAGTAATAAGGCTTTAGAAGGCATGGGTGTCTATAAATGGACTTTTCTTGTCAA
229530 TGA
66 TGA
229533 GTGGNNNNNN
Statistics
Matches: 184, Mismatches: 49, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
169 67 0.36
170 8 0.04
171 62 0.34
172 46 0.25
173 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.32
Consensus pattern (170 bp):
CCATTTAAAGCGAGTAATAAGGCTTTAGAAGGCATGGGTGTCTATAAATGGACTTTTCTTGTCAA
TGAATGGCTTTTTCTTCACATTTCCCAAGGAAAACACTCAATTACAATCTGTTTTCATCAAAAAT
GTAAAAAACTCAACTTAAAATCAATAATGAAATTATAAAA
Found at i:233918 original size:172 final size:171
Alignment explanation
Indices: 233725--234042 Score: 395
Period size: 172 Copynumber: 1.9 Consensus size: 171
233715 TAAAATTCAA
* * * *
233725 CTTAAAATCAATAATGAGATTATAAAGCTATTTAAAGCAAGTAGTAAAGCTTTTGAAGGCATGGT
1 CTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTCGAAGGCATGGG
* *
233790 TGACTACAAATGGGCTTTTTTTTATCTACGAATGGCT-TTTACTTCATGTTTCCCAAGGCCAACA
66 TGACTACAAATGGGC-TTTTCTTATCAACGAATGG-TGTTTACTTCATGTTTCCCAAGGCCAACA
*
233854 CTCAATTCTAATTTGTTTGGACCAAATATGTAAAAGAATTTAG
129 CTCAATTCCAATTTGTTTGGACCAAATATGTAAAAGAATTTAG
* ***********
233897 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGNNNNNNNNNNGGCTTTCGAAGGCATGGG
1 CTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTCGAAGGCATGGG
* * * **
233962 TGACTACAAATGGGCTTTTCTTGTCAATGAATGGTGTTTTCTTCATGTTTCCTGAGGCCAACACT
66 TGACTACAAATGGGCTTTTCTTATCAACGAATGGTGTTTACTTCATGTTTCCCAAGGCCAACACT
234027 CAATTCCAATTTGTTT
131 CAATTCCAATTTGTTT
234043 TGATCAAAAN
Statistics
Matches: 121, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
170 1 0.01
171 56 0.46
172 64 0.53
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.34
Consensus pattern (171 bp):
CTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTCGAAGGCATGGG
TGACTACAAATGGGCTTTTCTTATCAACGAATGGTGTTTACTTCATGTTTCCCAAGGCCAACACT
CAATTCCAATTTGTTTGGACCAAATATGTAAAAGAATTTAG
Found at i:235856 original size:170 final size:170
Alignment explanation
Indices: 235610--236033 Score: 509
Period size: 172 Copynumber: 2.5 Consensus size: 170
235600 TTTTTTTCTT
* *
235610 GTTTCCCAAGG--AACACTCAATTATAATCTGTGTTGACAAAAAATGT-AAA-ATTTAACTTAAA
1 GTTTCCCAAGGCCAACACTCAATT-TAATTTGTTTTGACAAAAAATGTAAAACATTTAACTTAAA
* * * *
235671 ATCAATAATGAGATTATAAAGCCATTTAAAGCAAGTAGTAAAGCTTTCAAAGAC-ATGGTTGAGT
65 ATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTCAAAGACAATGGGTGACT
* * * *
235735 ACAAATGGGCTTTT-TTATCTACGAATGGCTTTTACTTCAC
130 ACAAATGGACTTTTCTTACCAACGAATGGATTTTACTTCAC
* * *
235775 GTTTCCCAAGGCCAACACTCAATTCTAATTTGTTTTGACCAAATATGTAAAAACATTTAGCTTAA
1 GTTTCCCAAGGCCAACACTCAATT-TAATTTGTTTTGACAAAAAATGT-AAAACATTTAACTTAA
* * * * * *
235840 AATCAATTATGAGATTATAAAATCATTTAAAGCAAGTTGTTAGGCTTTCGAAGGCAATGGGTGAC
64 AATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTCAAAGACAATGGGTGAC
* * *
235905 TACAAATGGACTTTTCTTGCCAATGAATGGATTTTTCTTCAC
129 TACAAATGGACTTTTCTTACCAACGAATGGATTTTACTTCAC
* * * * *
235947 ATTTCCCAAGGCCAACAATCACTTTCAATTTGTTTTGATAAAAAATGTAAAACAATTGAACTTAA
1 GTTTCCCAAGGCCAACACTCAATTT-AATTTGTTTTGACAAAAAATGTAAAAC-ATTTAACTTAA
*
236012 AATCAATTATGAAATTATAAAA
64 AATCAATTATGAGATTATAAAA
236034 GNNNNNNNNN
Statistics
Matches: 218, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
165 11 0.05
167 30 0.14
169 3 0.01
170 57 0.26
171 27 0.12
172 90 0.41
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (170 bp):
GTTTCCCAAGGCCAACACTCAATTTAATTTGTTTTGACAAAAAATGTAAAACATTTAACTTAAAA
TCAATTATGAGATTATAAAACCATTTAAAGCAAGTAGTAAAGCTTTCAAAGACAATGGGTGACTA
CAAATGGACTTTTCTTACCAACGAATGGATTTTACTTCAC
Found at i:236560 original size:170 final size:159
Alignment explanation
Indices: 236351--236664 Score: 335
Period size: 170 Copynumber: 1.9 Consensus size: 159
236341 ATTCAACTGA
* * *
236351 AAATCAAGAATGATATTATAAAACCATTTAAAGCAAGTAGTCAAGCTTCCAAAGGTATGGGTGAC
1 AAATCAAGAATGAAATTATAAAACAATTTAAAGCAAGTAGTCAAGCTTCCAAAGGCATGGGTGAC
* * *
236416 TACAAATGAACTTTTTTTACCT-AGGAATGGCTTTTTCTTCATGTTTCCCGAGGCCAGCACTCAA
66 TACAAATGAAC-TTTCTT-CCTAAGGAATGGCTTTTTCTCCATGTTTCCCGAGGCCAACACTCAA
*
236480 -TTCTGATTTGTTTTGACCANNNNNNNNNNAGAATTTAGCTT
129 TTTC-AATTTGTTTTGACCA----------AGAATTTAGCTT
** * * ***
236521 AAATCAATTATGAAATTATAAAACAATTTAAAGCAAGTAGTTAGGCTTTTGAAGGCATGGGTGAC
1 AAATCAAGAATGAAATTATAAAACAATTTAAAGCAAGTAGTCAAGCTTCCAAAGGCATGGGTGAC
* * * *
236586 TACAAATGGACTTTCTTGCTAATGAATGGCTTTTTCTCCATGTTTCCTGAGGCCAACACTCAATT
66 TACAAATGAACTTTCTTCCTAAGGAATGGCTTTTTCTCCATGTTTCCCGAGGCCAACACTCAATT
236651 TCAATTTGTTTTGA
131 TCAATTTGTTTTGA
236665 TCAAAAATGT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
168 2 0.02
169 54 0.44
170 68 0.55
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.33
Consensus pattern (159 bp):
AAATCAAGAATGAAATTATAAAACAATTTAAAGCAAGTAGTCAAGCTTCCAAAGGCATGGGTGAC
TACAAATGAACTTTCTTCCTAAGGAATGGCTTTTTCTCCATGTTTCCCGAGGCCAACACTCAATT
TCAATTTGTTTTGACCAAGAATTTAGCTT
Found at i:236697 original size:170 final size:170
Alignment explanation
Indices: 235590--236700 Score: 628
Period size: 171 Copynumber: 6.6 Consensus size: 170
235580 TTTTTTCATC
* * * *
235590 AATGAAT-GCTTTTTTTTCTTGTTTCCCAAGG--AACACTCAATTAT-AATCTGTGTTGACAAAA
1 AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATT-TCAATTTGTTTTGAC-AAA
* * *
235651 AATGT---AAAATTTAACTTAAAATCAATAATGAGATTATAAAGCCATTTAAAGCAAGTAGTAAA
64 AATGTAAAAAAATTTAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTAAA
* * * * * *
235713 GCTTTCAAAGACATGGTTGAGTACAAATGGGCTTTT-TTATCT
129 GCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTT-GCT
* * *
235755 -ACGAATGGCTTTTACTTCACGTTTCCCAAGGCCAACACTCAA-TTCTAATTTGTTTTGACCAAA
1 AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATTTC-AATTTGTTTTGA-CAAA
* * * * * * * *
235818 TATGTAAAAACATTTAGCTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTTGTTAG
64 AATGTAAAAAAATTTAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTAAA
*
235883 GCTTTCGAAGGCAATGGGTGACTACAAATGGACTTTTCTTGCC
129 GCTTTCGAAGGC-ATGGGTGACTACAAATGGACTTTTCTTGCT
* ** * * *
235926 AATGAATGGATTTTTCTTCACATTTCCCAAGGCCAACAATCACTTTCAATTTGTTTTGATAAAAA
1 AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATTTCAATTTGTTTTGA-CAAAA
* * ************* *
235991 ATGTAAAACAATTGAACTTAAAATCAATTATGAAATTATAAAAGNNNNNNNNNNGTGTAATAAAG
65 ATGTAAAAAAATTTAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTAAAG
* * * * *
236056 CTTTGGAAGGCATGGGTGGCTATAAATAGACTTTTCATG-T
130 CTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCT
* ********** * * *
236096 CAATGAGTGGCTTTTTCTTCATGTTTNNNNNNNNNNACAATAAATTAT-AATCTGTTTTGACTAA
1 -AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATT-TCAATTTGTTTTGAC-AA
* * ** * * ********** * *
236160 AAATAT-GAAAGGTTTCAACTTAAAATCAATAATGACATTATAANNNNNNNNNNAGCGAGTAATA
63 AAATGTAAAAAAATTT-AACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTA
* * * * * * *
236224 AGGCTTT-GAAAGCCATGGATGACCATAAATGGACTTTTCCTGCC
127 AAGCTTTCG-AAGGCATGGGTGACTACAAATGGACTTTTCTTGCT
* * ********** *
236268 AATGAATGAC-TTTTCTTTCATGTTTCCCAAGG--ACCNNNNNNNNNNAATCTGTTTTGACAAAA
1 AATGAATGGCTTTTTC-TTCATGTTTCCCAAGGCCAACACTCAATTTCAATTTGTTTTGAC--AA
* * * ** * *
236330 AAATGT-AATAAATTCAACTGAAAATCAAGAATGATATTATAAAACCATTTAAAGCAAGTAGTCA
63 AAATGTAAAAAAATTTAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTAA
* * * * * *
236394 AGCTTCCAAAGGTATGGGTGACTACAAATGAACTTTTTTTACCT
128 AGCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTT-GCT
* * * * **
236438 -AGGAATGGCTTTTTCTTCATGTTTCCCGAGGCCAGCACTCAA-TTCTGATTTGTTTTGACCANN
1 AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATTTC-AATTTGTTTTGA-CAAA
******** * * * * *
236501 NNNNNNNNAGAATTTAGCTT-AAATCAATTATGAAATTATAAAACAATTTAAAGCAAGTAGTTAG
64 AATGTAAAAAAATTTAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTAAA
*
236565 GCTTTTGAAGGCATGGGTGACTACAAATGGAC-TTTCTTGCT
129 GCTTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCT
* **
236606 AATGAATGGCTTTTTCTCCATGTTTCCTGAGGCCAACACTCAATTTCAATTTGTTTTGATCAAAA
1 AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATTTCAATTTGTTTTGA-CAAAA
*
236671 ATGTAAAAAAATTGAACTTAAAATCAATTA
65 ATGTAAAAAAATTTAACTTAAAATCAATTA
236701 NNNNNNNNNN
Statistics
Matches: 695, Mismatches: 218, Indels: 61
0.71 0.22 0.06
Matches are distributed among these distances:
164 5 0.01
165 21 0.03
166 1 0.00
167 26 0.04
168 3 0.00
169 162 0.23
170 165 0.24
171 201 0.29
172 108 0.16
173 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.32
Consensus pattern (170 bp):
AATGAATGGCTTTTTCTTCATGTTTCCCAAGGCCAACACTCAATTTCAATTTGTTTTGACAAAAA
TGTAAAAAAATTTAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGCAAGTAGTAAAGC
TTTCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGCT
Found at i:238701 original size:171 final size:171
Alignment explanation
Indices: 238286--238709 Score: 408
Period size: 171 Copynumber: 2.5 Consensus size: 171
238276 NNNNACGTTG
* * * * * *
238286 AATTTTAATCTGTTTTAA-GAAGAAATGTAAAAAGATTCAACTTAAAATCAATAATGACATTATA
1 AATTATAATCTGTTTTAACTAA-AAAAGTAAAAAAATTCAACTTAAAATCAATTATGACATTACA
* ** * * *
238350 AAACTATTTAAAAAGAGTACTAAGGCTTTGGAAGTCATAGGTGACTATAAATAGACTTTTCATGC
65 AAACCATTTAAAGCGAGTAATAAGGCTTTGGAAGGCATAGGTGACTATAAATAGACTTCTCATGC
** *
238415 CAATGAATGGCTTTTTCTTCATGTTTCCCAAGGCAAAAACTC
130 CAATGAATCACTTCTTCTTCATGTTTCCCAAGGCAAAAACTC
* * * *******
238457 AATTATAATCTGTTTTAACTTAAAATAG-AAAAATATTCAACTTAAAATCAAATATGANNNNNNN
1 AATTATAATCTGTTTTAAC-TAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGACATTACA
*** * *
238521 NNNCCATTTAAAGCGAGTAATAAGG-TGTTGGAAGGCATGGGTGACTATAAATAGACTTCTCTTG
65 AAACCATTTAAAGCGAGTAATAAGGCT-TTGGAAGGCATAGGTGACTATAAATAGACTTCTCATG
* *** *
238585 CCCATGAATCACGTTCTT-TT-ATTGTTTCTTGAGGCAAACACTC
129 CCAATGAATCAC-TTCTTCTTCA-TGTTTCCCAAGGCAAAAACTC
* * * * *
238628 AATTATAATCTATTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAGTCAGTTATGAGATTGCAA
1 AATTATAATCTGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGACATTACAA
238693 AACCATTTAAAGCGAGT
66 AACCATTTAAAGCGAGT
238710 NNNNNNNNNN
Statistics
Matches: 198, Mismatches: 49, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
170 9 0.05
171 180 0.91
172 7 0.04
173 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.32
Consensus pattern (171 bp):
AATTATAATCTGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGACATTACAA
AACCATTTAAAGCGAGTAATAAGGCTTTGGAAGGCATAGGTGACTATAAATAGACTTCTCATGCC
AATGAATCACTTCTTCTTCATGTTTCCCAAGGCAAAAACTC
Found at i:240981 original size:171 final size:169
Alignment explanation
Indices: 240687--241604 Score: 699
Period size: 171 Copynumber: 5.4 Consensus size: 169
240677 NNNNNACTCG
** * ** * * * *
240687 CTTTAAATGGTTTTGCAATCTCATAACTGACTTTAAGTTGAATTTTTTTTTACTTTTTTTGTTAA
1 CTTTAAATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTCTTTTATA--TTTTTGGTTAA
* * * *
240752 AATAGATTATAATTGAGTGTTTCTCTCAAGAAACAAGAA-AAGAACATG-ATTCATTGGCAAGAG
64 AACAGATTATAATTGAGTGTTTATCTCAAGAAACATGAAGAA-AA-A-GCATTCATTGGCAAGAA
* * *
240815 AAGTCTATTTATAGTCACTCATGCCTTCCAAAGACTTATTACTCA
126 AAGTCCATTTATAGTCA-TCATGCCTTCCAAAGCCTTATTACTTA
* * *
240860 TTTTAAATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTGTTTTCTATTTTTGGTTAAAA
1 CTTTAAATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTCTTTTATATTTTTGGTTAAAA
* * * * *
240925 CAGATTATAATTGAGTTTTTTTCTCGAGAAACATGAAGAAAAAGCCATTTATTGGCACGAAAAGT
66 CAGATTATAATTGAGTGTTTATCTCAAGAAACATGAAGAAAAAG-CATTCATTGGCAAGAAAAGT
* * ****
240990 CTATTTATAGTCACCTATGCCTTCCAAAGCCTTATTANNNN
130 CCATTTATAGTCATC-ATGCCTTCCAAAGCCTTATTACTTA
****** **
241031 NNNNNNATGGTTTTATAATG-TCAT-TATTGATTTTAAGTTGAA-TCTTTTTATATTTTTTATTA
1 CTTTAAATGGTTTTATAA-GCTCATAT-TTGATTTTAAGTTGAATTC-TTTTATATTTTTGGTTA
* * * * * * *
241093 AAAGAGATTAAAATTCAATGTCTATCTAAAGAAACATGACGAAAAAGCCATTCATTGGCAAGAAA
63 AAACAGATTATAATTGAGTGTTTATCTCAAGAAACATGAAGAAAAAG-CATTCATTGGCAAGAAA
* * *
241158 AGTGCATTTGTAGTCATCCATGCCTT-TAGAAGCCTTATTAC-TA
127 AGTCCATTTATAGTCAT-CATGCCTTCCA-AAGCCTTATTACTTA
** ** **
241201 TCTTTAAATGGTTTTATAATATCATAATTT-ATTTTAAGTCAAATTTTCTTTTATATTTTTCATT
1 -CTTTAAATGGTTTTATAAGCTCAT-ATTTGATTTTAAGTTGAA--TTCTTTTATATTTTTGGTT
* ** * * * *** *
241265 AAAACATATTATGTTTGAATGTCTACCTTGGGAAACATGAAGAAAAAGCTATTCATTGACAAGAA
62 AAAACAGATTATAATTGAGTGTTTATCTCAAGAAACATGAAGAAAAAGC-ATTCATTGGCAAGAA
********* * *
241330 AAGTCCATTTATAGTCANNNNNNNNNNCAAAAGCCTTATTACTTG
126 AAGTCCATTTATAGTCA-TCATGCCTTCCAAAGCCTTATTACTTA
* * * * * * **
241375 CTTGAAATGGTTTTATAATCTTATAATTGATTTT-ACTTGAATTCTGTTGCATTTTTGGTTAAAA
1 CTTTAAATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTCTTTTATATTTTTGGTTAAAA
* ** * * *
241439 TAGATTATAATTGAGTGTTTGCCTCAAGAAACATGAGGAGAACATG-ATTCATT-GCAAAGAGAA
66 CAGATTATAATTGAGTGTTTATCTCAAGAAACATGA--AGAAAAAGCATTCATTGGC-AAGAAAA
* * *
241502 GTCCATTTATGGTCATCAATACCTTCCAAAGCCTTATTACTTG
128 GTCCATTTATAGTCATC-ATGCCTTCCAAAGCCTTATTACTTA
*
241545 CTTTAGATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTCTTTTATA-TTTTGGTT
1 CTTTAAATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTCTTTTATATTTTTGGTT
241605 NNNNNNNNNN
Statistics
Matches: 584, Mismatches: 135, Indels: 55
0.75 0.17 0.07
Matches are distributed among these distances:
169 2 0.00
170 130 0.22
171 265 0.45
172 20 0.03
173 163 0.28
174 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.40
Consensus pattern (169 bp):
CTTTAAATGGTTTTATAAGCTCATATTTGATTTTAAGTTGAATTCTTTTATATTTTTGGTTAAAA
CAGATTATAATTGAGTGTTTATCTCAAGAAACATGAAGAAAAAGCATTCATTGGCAAGAAAAGTC
CATTTATAGTCATCATGCCTTCCAAAGCCTTATTACTTA
Found at i:249654 original size:170 final size:168
Alignment explanation
Indices: 249478--249984 Score: 504
Period size: 172 Copynumber: 3.0 Consensus size: 168
249468 NNNNNNGTGA
* *
249478 CTATAAATGGACTTTTCTTCCTAATGAATGGCTTTTCCTCTCATTGCTTAAGGTAAACATTAATA
1 CTATAAAT-GACTTTTCTTCCTAATGAATGACTTTTCCTCTCATTTCTTAAGGTAAACATTAATA
* * *
249543 TATAATCTATTTTAACTAAAAATATAAAAAAATTCAACTTCAAATCAATTATGAGCTTATAAAAC
65 TATAATCTATTTTAAC-AAAAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAAC
* * * * * *
249608 TATTTAAAGCAAGTAATAAGGCTTTGGAAAGCATGGGTGT
129 CATTTAAAGCAAATAATAAGGCTTTCGAAGGCATAGGTGG
* * * *
249648 CTATAAATGAGCTTCTCTTGCC-AATGAATCAC-ATT-CTCTTCATGTTTCTTAAGGCAAACACT
1 CTATAAATGA-CTTTTCTT-CCTAATGAATGACTTTTCCTC-TCA--TTTCTTAAGGTAAACA-T
* * *
249710 CAAT-TATAATCTATTTTAACCAAAACTATAAAATAAATTTAACTTAAAATCAATTATGAGATTG
60 TAATATATAATCTATTTTAA-CAAAAATATAAAA-AAATTTAACTTAAAATCAATTATGAGATTA
*** * * *
249774 TAAAACCATTTAAAATGACTAACAAGGCTTTTGAAGGCATAGGTGG
123 TAAAACCATTTAAAGCAAATAATAAGGCTTTCGAAGGCATAGGTGG
* * * ** *
249820 CTACAAATAGTCTTTTCTTGCTAATGAATGACTTTTTCCTCCTGTTTTC-CAAGGTAAACATTCA
1 CTATAAAT-GACTTTTCTTCCTAATGAATGAC-TTTTCCT-CTCATTTCTTAAGGTAAACATT-A
* * * ** **
249884 A-ATATAATCTGTTTTAACAAAAATATAAAAAAATTTGACTTTAAATCAATTACAAGATTATTGA
62 ATATATAATCTATTTTAACAAAAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
*
249948 ACCATATAAAGCAAATAATAAGGCTTTCGAAGGCATA
127 ACCATTTAAAGCAAATAATAAGGCTTTCGAAGGCATA
249985 AGCGATTAGA
Statistics
Matches: 272, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
168 3 0.01
169 7 0.03
170 80 0.29
171 56 0.21
172 115 0.42
173 5 0.02
174 2 0.01
175 3 0.01
176 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (168 bp):
CTATAAATGACTTTTCTTCCTAATGAATGACTTTTCCTCTCATTTCTTAAGGTAAACATTAATAT
ATAATCTATTTTAACAAAAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCA
TTTAAAGCAAATAATAAGGCTTTCGAAGGCATAGGTGG
Found at i:249933 original size:342 final size:341
Alignment explanation
Indices: 249309--249983 Score: 766
Period size: 342 Copynumber: 2.0 Consensus size: 341
249299 NNNNNNGACC
* * *
249309 ATAAATGGACTTTTCTTGCCAATGAATCACATTTTCTTCATGTTTCTCCAGAAAAACACTCAAGT
1 ATAAATGGACTTCTCTTGCCAATGAATCACATTCTCTTCATGTTTCTCAAGAAAAACACTCAAGT
* * * * * *
249374 ATAATCTGTTTTAACTAAAAATGTAAAAGAATTCAGCTTATAATCAATTATAAGATTGTAAAACC
66 ATAATCTATTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTGTAAAACC
* * * ********** * *
249439 ATTTAAAGCGAGTAATAAGGTCTTGNNNNNNNNNNGTGACTATAAATGGACTTTTCTTCCTAATG
131 ATTTAAAACGACTAACAAGGTCTTGAAAGGCATAGGTGACTACAAATAGACTTTTCTTCCTAATG
* *
249504 AATGGCTTTTCCTCTCATTGCTTAAGGTAAACATTAATATATAATCTATTTTAACTAAAAATATA
196 AATGACTTTTCCTCTCATTGCTCAAGGTAAACATTAATATATAATCTATTTTAACTAAAAATATA
** * * * * *
249569 AAAAAATTCAACTTCAAATCAATTATGAGCTTATAAAACTATTTAAAGCAAGTAATAAGGCTTTG
261 AAAAAATTCAACTTCAAATCAATTACAAGATTATAAAACCATATAAAGCAAATAATAAGGCTTTC
249634 GAAAGCATGGGTGTCT
326 GAAAGCATGGGTGTCT
* ** *
249650 ATAAAT-GAGCTTCTCTTGCCAATGAATCACATTCTCTTCATGTTTCTTAAGGCAAACACTCAAT
1 ATAAATGGA-CTTCTCTTGCCAATGAATCACATTCTCTTCATGTTTCTCAAGAAAAACACTCAAG
* * *
249714 TATAATCTATTTTAACCAAAACTATAAAATAAATTTAACTTAAAATCAATTATGAGATTGTAAAA
65 TATAATCTATTTTAACCAAAAATATAAAA-AAATTCAACTTAAAATCAATTATAAGATTGTAAAA
* * * * *
249779 CCATTTAAAATGACTAACAAGGCTTTTG-AAGGCATAGGTGGCTACAAATAGTCTTTTCTTGCTA
129 CCATTTAAAACGACTAACAAGG-TCTTGAAAGGCATAGGTGACTACAAATAGACTTTTCTTCCTA
** * *
249843 ATGAATGACTTTTTCCTCCTGTTTTC-CAAGGTAAACATTCAA-ATATAATCTGTTTTAAC-AAA
193 ATGAATGAC-TTTTCCT-CTCATTGCTCAAGGTAAACATT-AATATATAATCTATTTTAACTAAA
** * **
249905 AATATAAAAAAATTTGACTTTAAATCAATTACAAGATTATTGAACCATATAAAGCAAATAATAAG
255 AATATAAAAAAATTCAACTTCAAATCAATTACAAGATTATAAAACCATATAAAGCAAATAATAAG
*
249970 GCTTTCGAAGGCAT
320 GCTTTCGAAAGCAT
249984 AAGCGATTAG
Statistics
Matches: 274, Mismatches: 54, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
340 2 0.01
341 79 0.29
342 147 0.54
343 39 0.14
344 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (341 bp):
ATAAATGGACTTCTCTTGCCAATGAATCACATTCTCTTCATGTTTCTCAAGAAAAACACTCAAGT
ATAATCTATTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAGATTGTAAAACC
ATTTAAAACGACTAACAAGGTCTTGAAAGGCATAGGTGACTACAAATAGACTTTTCTTCCTAATG
AATGACTTTTCCTCTCATTGCTCAAGGTAAACATTAATATATAATCTATTTTAACTAAAAATATA
AAAAAATTCAACTTCAAATCAATTACAAGATTATAAAACCATATAAAGCAAATAATAAGGCTTTC
GAAAGCATGGGTGTCT
Found at i:251863 original size:171 final size:170
Alignment explanation
Indices: 251484--251910 Score: 469
Period size: 171 Copynumber: 2.5 Consensus size: 170
251474 NNNNNNNNNN
* * * * * *
251484 TATTACTTGCTTTAAATGGTTTTATAATCTCATAATTGATTGTAATTTGAATTTGTTTTAAATTT
1 TATTACTTGCTCTAAATAGTTTTACAAACTCATAATTGATTTTAAGTTGAATTT-TTTTAAATTT
* * * * ** *
251549 TTTTGTAAAACAAATTATAATTGAGTGTTTGCCTTGAGAGGCATGAAGAAAATGAGATTTATTGG
65 TTGT-TAAAACAGATTATAATTAAGTGTTTGCCCTGAGAAACATGAAGAAAATCAGATTTATTGG
* * *
251614 CAAGAAAAGTCCATTTATAGTCACCCATGCTTTTCAAAGACT
129 CAAAAAAAATCCATTTATAGTCACCCATGCCTTTCAAAGACT
************ *
251656 TATTACTTGCTCTAAANNNNNNNNNNNNCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTT
1 TATTACTTGCTCTAAATAGTTTTACAAACTCATAATTGATTTTAAGTTGAATTTTTTTAAATTTT
* *
251721 TAGTTAAAACAGATTATTATTAAGTGTTTTCCCTGAGAAACATGAAGAAAA-CATGATTTATTGG
66 T-GTTAAAACAGATTATAATTAAGTGTTTGCCCTGAGAAACATGAAGAAAATCA-GATTTATTGG
* * *
251785 CAAAAAAAATCTATTTATAGTCACCTATGCCTTTCAAAGCCT
129 CAAAAAAAATCCATTTATAGTCACCCATGCCTTTCAAAGACT
* * *
251827 TATTACTTGCTCTAAATAGTTTTACAAACCCATAATTGATTTTAAGTTGAATGTTTTTACATTTT
1 TATTACTTGCTCTAAATAGTTTTACAAACTCATAATTGATTTTAAGTTGAATTTTTTTA-AATTT
251892 TTGTTAAAACAGATTATAA
65 TTGTTAAAACAGATTATAA
251911 NNNNNNNNNN
Statistics
Matches: 204, Mismatches: 48, Indels: 7
0.79 0.19 0.03
Matches are distributed among these distances:
170 1 0.00
171 158 0.77
172 45 0.22
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.40
Consensus pattern (170 bp):
TATTACTTGCTCTAAATAGTTTTACAAACTCATAATTGATTTTAAGTTGAATTTTTTTAAATTTT
TGTTAAAACAGATTATAATTAAGTGTTTGCCCTGAGAAACATGAAGAAAATCAGATTTATTGGCA
AAAAAAATCCATTTATAGTCACCCATGCCTTTCAAAGACT
Found at i:253114 original size:172 final size:171
Alignment explanation
Indices: 252524--253137 Score: 460
Period size: 170 Copynumber: 3.6 Consensus size: 171
252514 TATTGGAAAT
* * ** * **
252524 AAAAGTCCATTTATAGTCACCTATGCCTT-TCAAAGATTTATTACTCGCTTTAAATGGTTTTATA
1 AAAAGTCCATTTATAGTAACCCATGCCTTCT-AAAGCCTTATTACTCACTTTAAATAATTTTATA
********** *
252588 ATCTC-ATAATTGATTTTAAGTNNNNNNNNNNTACA-TTTTAGTTAAAACAGATAATAATTGAGT
65 ATCTCAAT-ATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGATAATAATTAAGT
** * ** *
252651 GTTTGCCTTGGCAAACATAAAGAAAAAATCATTCATTGACAAG
129 GCATACCTAAGCAAACATAAAGAAAAAACCATTCATTGACAAG
* * * * * **
252694 AAATGTCCATTTATCGTCACCCATGCCTT-TCAAAGCTTTATTACTCGCTTTAAATGGTTTTATA
1 AAAAGTCCATTTATAGTAACCCATGCCTTCT-AAAGCCTTATTACTCACTTTAAATAATTTTATA
**********
252758 NNNNNNNNNNTGATTTTAAGTTGAATTTTTTTACA-TTTTAGTTAAAACAGATAATAATTAAGTG
65 ATCTCAATATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGATAATAATTAAGTG
** * **
252822 TTTGCCTTGGCAAACATAAAGAAAAAACCATTCATTGACAAG
130 CATACCTAAGCAAACATAAAGAAAAAACCATTCATTGACAAG
* * * * * *
252864 AAATGTCCATTTATCGTCATCCATGCCTTCTAAAGCCTTATTACTCACTTTAAATAGTTTTGTAA
1 AAAAGTCCATTTATAGTAACCCATGCCTTCTAAAGCCTTATTACTCACTTTAAATAATTTTATAA
*
252929 TCTCAATATTGATTTCAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGATTAAT-ATTCAA-T
66 TCTCAATATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGA-TAATAATT-AAGT
* * *
252992 GCATACCTCAAG-AAACAT-GAGTTAAAAGCCATTCATT-AGCAAG
129 GCATACCT-AAGCAAACATAAAG-AAAAAACCATTCATTGA-CAAG
* * * * *
253035 AAAAAGTTCATTTGTAGTAACCCATGCCTT-TGGAAGTCTTATTACTTACTTTAAATAATTTTAT
1 -AAAAGTCCATTTATAGTAACCCATGCCTTCT-AAAGCCTTATTACTCACTTTAAATAATTTTAT
* ** *
253099 ATTCTC-ATAATTGATTTTAAGTCAAATTTTTTTATATTT
64 AATCTCAAT-ATTGATTTTAAGTTGAATTTTTTTACATTT
253138 NNNNNNNNNN
Statistics
Matches: 368, Mismatches: 65, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
170 228 0.62
171 52 0.14
172 88 0.24
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.38
Consensus pattern (171 bp):
AAAAGTCCATTTATAGTAACCCATGCCTTCTAAAGCCTTATTACTCACTTTAAATAATTTTATAA
TCTCAATATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGATAATAATTAAGTGC
ATACCTAAGCAAACATAAAGAAAAAACCATTCATTGACAAG
Found at i:255771 original size:170 final size:169
Alignment explanation
Indices: 255287--255777 Score: 499
Period size: 172 Copynumber: 2.9 Consensus size: 169
255277 NNNNNNNNNN
* * * *
255287 CTAATGAATGGCTTTTCCT-CTCATTTCTTAAGGTTAACATTAAAATATAATCTATTTTGACTAA
1 CTAATGAATGACTTTTCCTCCT-ATTTCTTAAGGTAAACATTCAAATATAATCTATTTTAAC-AA
* * *
255351 AAATAT-AAAAAAATTCAACTTCAAATCAATTATGAGCTTACAAAACCATTTAAAGCAAGTAATA
64 AAATATAAAAAAAATT-AACTTCAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATA
* * *
255415 AGGC-TTTGAAAAGCAT-AGGTGTCTATAAATGAGCTTTTCTTG
128 AGGCTTTTG-AAGGCATGA-GTGGCTACAAATGAGCTTTTCTTG
* * * * * * * * * * *
255457 CCAATGAATCACATTATCTTCATGTTTCTTGAGGCAAGCACTCAATTATAATCTATTTTAACCAA
1 CTAATGAATGAC-TTTTCCTCCTATTTCTTAAGGTAAACATTCAAATATAATCTATTTTAA-CAA
* * * * *** ** *
255522 AACTATAAAACAAATTTAACTTAAAATCAATTATAAGATTGTAAAACCATTTAAAATGACCAACA
64 AAATATAAAA-AAAATTAACTTCAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATA
*
255587 AGGCTTTCGAAGGCATGAGTGGCTACAAAT-AGTCTTTTCTTG
128 AGGCTTTTGAAGGCATGAGTGGCTACAAATGAG-CTTTTCTTG
* *
255629 CTAATGAATGACTTTTTCCTCCTATTT-TTCAAAGTAAACATTCAAATATAATCTGTTTTAACAA
1 CTAATGAATGAC-TTTTCCTCCTATTTCTT-AAGGTAAACATTCAAATATAATCTATTTTAACAA
* * * *
255693 AAATATAAAAAAAATTGACTTCAAATCAATTACAAGATTATTAAACCATATAAAGCAAGTAATAA
64 AAATATAAAAAAAATTAACTTCAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAA
255758 GGCTTTTGAAGGCATGAGTG
129 GGCTTTTGAAGGCATGAGTG
255778 ATTAGAAATG
Statistics
Matches: 251, Mismatches: 61, Indels: 18
0.76 0.18 0.05
Matches are distributed among these distances:
170 70 0.28
171 57 0.23
172 115 0.46
173 9 0.04
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (169 bp):
CTAATGAATGACTTTTCCTCCTATTTCTTAAGGTAAACATTCAAATATAATCTATTTTAACAAAA
ATATAAAAAAAATTAACTTCAAATCAATTATAAGATTATAAAACCATTTAAAGCAAGTAATAAGG
CTTTTGAAGGCATGAGTGGCTACAAATGAGCTTTTCTTG
Found at i:258683 original size:173 final size:168
Alignment explanation
Indices: 258426--258874 Score: 472
Period size: 173 Copynumber: 2.6 Consensus size: 168
258416 TTGCCTTGGC
* * *
258426 AAACATAAATAAAAATCCATTCATTGACAAGAAATGTCCATTTATCGTCACCCATGCCTTCTAAA
1 AAACATGAATAAAAA-CCATTCATTG-CAAGAAAAGTCCATTTATAGTCACCCATGCCTT-TAAA
** * ** *
258491 GCCTTATTACTCACTTTAAATAGTTTTGTAATCTCA-ATATAGATTTCAAGTTGAATGTTTTTTA
63 GCCTTATTACTTGCTTTAAATAGTTTTATAATCTCATA-ATAGATTTCAAGTCAAAT-TTGTTTA
258555 CATTTTTAGTTAAAACAGATTA-ATATTCAATG-CGTACCTCAAG
126 CATTTTTAGTTAAAACAGATTATAT-TTCAATGTC-TACCTCAAG
* * * * *
258598 AAACATGAGGTAAAAGCCATTCATTAGCAAGAAAAAGTCCATTTGTAGTAACCCATGCCTTTGGA
1 AAACATGA-ATAAAAACCATTCATT-GCAAG-AAAAGTCCATTTATAGTCACCCATGCCTTT-AA
* * * * *
258663 AGTCTTATTACTTGCTTTAAATAGTTTTATATTCTCATAATTGATTTTAAGTCAAATTTGTTTAT
62 AGCCTTATTACTTGCTTTAAATAGTTTTATAATCTCATAATAGATTTCAAGTCAAATTTGTTTAC
* * * ***
258728 ATTTTTATTTAAAACAGATTATATTTGAATGTCTGCCTTGGG
127 ATTTTTAGTTAAAACAGATTATATTTCAATGTCTACCTCAAG
* * *
258770 AAACATGAATAAAAACCTATTCAAGTGCAAGAAAAGTCCATTTATAGTCACCCATGCGTTCAAAA
1 AAACATGAATAAAAACC-ATTC-ATTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTT-TAAA
* * *
258835 GCCTTATTACTTGTTTTAAATAGTTTTACAACCTCATAAT
63 GCCTTATTACTTGCTTTAAATAGTTTTATAATCTCATAAT
258875 TGACTAAAAG
Statistics
Matches: 229, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
171 70 0.31
172 75 0.33
173 83 0.36
174 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (168 bp):
AAACATGAATAAAAACCATTCATTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAGCC
TTATTACTTGCTTTAAATAGTTTTATAATCTCATAATAGATTTCAAGTCAAATTTGTTTACATTT
TTAGTTAAAACAGATTATATTTCAATGTCTACCTCAAG
Found at i:258855 original size:171 final size:170
Alignment explanation
Indices: 258381--258930 Score: 527
Period size: 171 Copynumber: 3.2 Consensus size: 170
258371 NNNNNNNNNN
* * * * * *
258381 TTACA-TTTTAGTTAAAACAGATAATAATTGAGTGTTTGCCTTGGCAAACATAAATAAAAATCCA
1 TTACATTTTTAGTTAAAACAGATTATATTTGAATGTCTGCCTTGGGAAACATGAATAAAAA-CCA
* * * **
258445 TTCATTGACAAGAAATGTCCATTTATCGTCACCCATGCCTTCTAAAGCCTTATTACTCACTTTAA
65 TTCATTG-CAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACTTGCTTTAA
* * ** *
258510 ATAGTTTTGTAATCTCA-ATATAGATTTCAAGTTGAATGTTTT
129 ATAGTTTTATAATCTCATA-ATTGATTTCAAGTCAAATGTTGT
* * *** * *
258552 TTACATTTTTAGTTAAAACAGATTA-ATATTCAATG-CGTACCTCAAGAAACATGAGGTAAAAGC
1 TTACATTTTTAGTTAAAACAGATTATAT-TTGAATGTC-TGCCTTGGGAAACATGA-ATAAAAAC
* * *** *
258615 CATTCATTAGCAAGAAAAAGTCCATTTGTAGTAACCCATGCCTTTGGAAGTCTTATTACTTGCTT
63 CATTCATT-GCAAG-AAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACTTGCTT
* *
258680 TAAATAGTTTTATATTCTCATAATTGATTTTAAGTCAAAT-TTGT
126 TAAATAGTTTTATAATCTCATAATTGATTTCAAGTCAAATGTTGT
* *
258724 TTATATTTTTATTTAAAACAGATTATATTTGAATGTCTGCCTTGGGAAACATGAATAAAAACCTA
1 TTACATTTTTAGTTAAAACAGATTATATTTGAATGTCTGCCTTGGGAAACATGAATAAAAACC-A
* * *
258789 TTCAAGTGCAAGAAAAGTCCATTTATAGTCACCCATGCGTTCAAAAGCCTTATTACTTGTTTTAA
65 TTC-ATTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACTTGCTTTAA
* * * ** ** *
258854 ATAGTTTTACAACCTCATAATTGACTAAAAGTTGATTGTT-T
129 ATAGTTTTATAATCTCATAATTGATTTCAAGTCAAATGTTGT
* * * * *
258895 TTACATTTTTTGTTAAAATATATCATAATTGAATGT
1 TTACATTTTTAGTTAAAACAGATTATATTTGAATGT
258931 TTGCTNNNNN
Statistics
Matches: 303, Mismatches: 64, Indels: 24
0.77 0.16 0.06
Matches are distributed among these distances:
171 116 0.38
172 103 0.34
173 83 0.27
174 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (170 bp):
TTACATTTTTAGTTAAAACAGATTATATTTGAATGTCTGCCTTGGGAAACATGAATAAAAACCAT
TCATTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACTTGCTTTAAAT
AGTTTTATAATCTCATAATTGATTTCAAGTCAAATGTTGT
Found at i:260452 original size:170 final size:169
Alignment explanation
Indices: 260152--260934 Score: 672
Period size: 170 Copynumber: 4.6 Consensus size: 169
260142 TATAATTGAG
* ** * * *
260152 TGAAGAAGAAGCCATTCATTGGCAAGAAATTTTCATTTATAGTCACCCATGCCTTACGAAGCCTT
1 TGAAGAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTT
* * * * * **
260217 ATTAATCGCTTTAAATGGTTTAATAATCTAATAATTGATTTTAAGTTGAATTCTTTTGTATTTTT
66 ATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT
* *
260282 TAGTAAAATATATTATAATTGAGTGTTTGCCTTAGGAAACC
131 T-GTAAAATATATTATAATTGAATGTTTG-CTTAGGAAACA
* * * *
260323 TGAAGAAAAAGCCATTCA-TAGCAAGAAAAGTCCATTTATAGCCGCCCATGCCTTCCAAAGTCTT
1 TGAAGAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTT
* * * * *
260387 ATTACTCACTTTAAATGATTTTATAATATCATAATTGACTGTAAGTTCAATTTTTTTACATTTTT
66 ATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT
*
260452 TGTTAAAATATATTATAATTGAATGTTTGCTTCAAGAAACA
131 TG-TAAAATATATTATAATTGAATGTTTGCTT-AGGAAACA
* * * * * * ** *
260493 AGATGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTCTAGTCACCCATGCCTTTAAAAACCTT
1 TGAAGAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTT
* *
260558 -TT--T-ACTTTAAATGGTTTTTTAATCTTATAATTGATTTTAAGTTGAATTTTTTTACA-TTTT
66 ATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT
********
260618 TGNNNNNNNNNNATTATAATTGAATGTCTAT-CTTAGGAAACA
131 TG--TAAAATATATTATAATTGAATGT-T-TGCTTAGGAAACA
* ** * *
260660 TGACA-AAAAAGTCATTCATTGGTGAGAAAAGTCCATTTATAGTCACCTATGCCTTCC-AAGTCT
1 TGA-AGAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCT
* * * * *
260723 TATTACTCACTTTAAATGGTTTTACAATCTCATAAGTAATTTTAAGTTGAATGTTTTCACATTTT
65 TATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTT
* * * *********** *
260788 TGGTTAAAACAGANNNNNNNNNNGTGTTTTCCTT-GAGAAACA
130 TTG-TAAAATATATTATAATTGAATG-TTTGCTTAG-GAAACA
* * * * *
260830 TGAAGAAAATATG--ATTCATTAGTAAGAAGAGTCCATTTATAGTCACTCATACCTTCCAAAGCC
1 TGAAGAAAA-A-GCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCC
**
260893 TTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTGATT
64 TTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATT
260935 NNNNNNNNNN
Statistics
Matches: 484, Mismatches: 109, Indels: 38
0.77 0.17 0.06
Matches are distributed among these distances:
166 11 0.02
167 114 0.24
168 5 0.01
169 9 0.02
170 242 0.50
171 102 0.21
172 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.38
Consensus pattern (169 bp):
TGAAGAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTT
ATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT
TGTAAAATATATTATAATTGAATGTTTGCTTAGGAAACA
Found at i:263013 original size:69 final size:69
Alignment explanation
Indices: 262892--263030 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 69
262882 TATTAATATT
* * * *
262892 TTTTAACCAAAAATGTAAAATAATTCAACTTGAAATTAATATTGAGACTATAAAACCATTTAAAG
1 TTTTAACCAAAAATGTAAAACAATTCAACTTGAAATCAATAATGAAACTATAAAACCATTTAAAG
*
262957 TGAG
66 CGAG
* * * *
262961 TTTTGACCAAAAATGTAAAACCATTCAACTT-ATAATCAATAATGAAATTATAAAGCCATTTAAA
1 TTTTAACCAAAAATGTAAAACAATTCAACTTGA-AATCAATAATGAAACTATAAAACCATTTAAA
263025 GCGAG
65 GCGAG
263030 T
1 T
263031 AATAAAGCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
68 1 0.02
69 59 0.98
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (69 bp):
TTTTAACCAAAAATGTAAAACAATTCAACTTGAAATCAATAATGAAACTATAAAACCATTTAAAG
CGAG
Found at i:264258 original size:171 final size:170
Alignment explanation
Indices: 263676--264911 Score: 827
Period size: 171 Copynumber: 7.3 Consensus size: 170
263666 NNNNNNNTAA
* *
263676 AAAATGTAAAAAAATTCAA-TTAAAAATCAATTATGAGATTATAAAACTATTTAAAGCAAATAAT
1 AAAATGTAAAAAAATTCAACTT-AAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAAT
* * * * * *
263740 AAAGC-TTCGAAAGGCATGGTTGACTATAAATGGACTTTTTTTGCTAATAAATAACT-TTTTCTT
65 AAGGCTTTAG-AAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATCA-TGTTTTCTT
* * * * *
263803 TATGTTT-TCTAAGGC--ACATTC-ATACATAATATATTTTAACC
128 CATGTTTCTC-AAGGCAAACACTCAAT-TATAATCTGTTTTAACC
* * * * * * * *
263844 AAAATGTAAAAAAAATCAACTGAAAGTTAATAATGAGATTTTAAAACTAGTTAAAGCAAGCAATA
1 AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAATA
* * * *
263909 AAGCTTTAGAA-GCAATAGGTGGCTATAAATAGACTTTTCTTGCTAATGAATGGC-T-TTTTCTT
66 AGGCTTTAGAAGGC-ATGGGTGACTATAAATGGACTTTTCTTGCTAATGAAT--CATGTTTTCTT
* * * * *
263971 C-TCGTTTTTTAAGACAAACACTCAATTACAATCTGTTTTGA-C
128 CAT-GTTTCTCAAGGCAAACACTCAATTATAATCTGTTTTAACC
********** * *
264013 AAAATG-AAGAAAAATTCAACTTAAAATCAATTATGANNNNNNNNNNCCATTTAAAGTAAGTAAT
1 AAAATGTAA-AAAAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAAT
* * *
264077 AAGGCTTTAGAAGGCATGGGTAACTATAAATGAACTTTTCTTACTAATGAATCATGTTTTCTTCA
65 AAGGCTTTAGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATCATGTTTTCTTCA
*
264142 TGTTTCACAAGGCAAACACTCAATTATAA-CTTGTTTTAACC
130 TGTTTCTCAAGGCAAACACTCAATTATAATC-TGTTTTAACC
* * * * *
264183 AACAATGGAAAAAAATTCAACTTGAAATCAATTATGAGATTGTAAAACCATTTAGAGCGAGTAAT
1 AA-AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAAT
* * *
264248 AAGGCTTTAGAAGGCATGGGTGACTATAAGTGGACTTTTCTTGCCACTGAATCATGTTTTCTTCA
65 AAGGCTTTAGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATCATGTTTTCTTCA
* * * *
264313 CGTTTCTCAAGGCAAACACTTAATAATAATCTGTTTTAACTA
130 TGTTTCTCAAGGCAAACACTCAATTATAATCTGTTTTAAC-C
* * *
264355 AAAATATAAAACAAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAGAGCGAGTAAT
1 AAAATGTAAAA-AAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAAT
* * ** * * *
264420 AAGGCTTCAGAAGGCATGAGCAACTACAAATGGACTTTTCTT-ATACTTGAAT-A-GCTTTTTCT
65 AAGGCTTTAGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTA-ATGAATCATG--TTTTCT
* * * *
264482 TCATGTTTCCCAAAGCAAACATTCAAATATAATCTGTTTTAACC
127 TCATGTTTCTCAAGGCAAACACTCAATTATAATCTGTTTTAACC
* *********** * *
264526 AGAAATAT-AAAAAATTCAACTTAAAATCAANNNNNNNNNNATAAAACCATTTAAAGCAAGTAGT
1 A-AAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAAT
* * * * ** * * * *
264590 AAGGCCTCTA-AAGGTATAGGTGACTACAAATATACTTTTCTTGCCAATAAATGACT-TTTTCAT
65 AAGG-CTTTAGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATCA-TGTTTTCTT
* ** * * ** * * * **
264653 CATATTTCTTGAGACAGACGTTCAATTCTAATATATTTTAATA
128 CATGTTTCTCAAGGCAAACACTCAATTATAATCTGTTTTAACC
* * * *
264696 ACAAATATAAAAACAATTTAACTTAAAATCAATTATAAG-TT-TATAAACCATTTAAAGCAAGTA
1 A-AAATGTAAAAA-AATTCAACTTAAAATCAATTATGAGATTGTA-AAACTATTTAAAGCAAGTA
* * ** * * ** *
264759 ACAAGACTTTTA-AAGGTTTGGGTGACTAGAAATGGAC-TTTCCTG-TCAATGGGT--GGCTTTT
63 ATAAGGC-TTTAGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCT-AATGAATCATG-TTTT
* * * * * * * *
264819 GTATCATGTTTC-CTAAAGTAGACATTCAATTATAATATATTTTAACA
125 CT-TCATGTTTCTC-AAGGCAAACACTCAATTATAATCTGTTTTAACC
* * * *
264866 AAAATATAAAAACATTCAACTTAAAGTCAATTATGAGATTATAAAA
1 AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTGTAAAA
264912 NNNNNNNNNN
Statistics
Matches: 838, Mismatches: 188, Indels: 83
0.76 0.17 0.07
Matches are distributed among these distances:
167 4 0.00
168 132 0.16
169 148 0.18
170 185 0.22
171 207 0.25
172 162 0.19
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.33
Consensus pattern (170 bp):
AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCAAGTAATA
AGGCTTTAGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATCATGTTTTCTTCAT
GTTTCTCAAGGCAAACACTCAATTATAATCTGTTTTAACC
Found at i:265663 original size:171 final size:169
Alignment explanation
Indices: 265109--266790 Score: 1115
Period size: 171 Copynumber: 9.9 Consensus size: 169
265099 NNNNNNNNNN
* * * *
265109 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCCAAAGGCATGGGTTACAACAAATGGACTTTT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTTT
* ********** * * * * * *
265174 CTTGCCAATGAATGGCTTNNNNNNNNNNTTTCTCAAGGTAGACATTGAA-TATTAATCTATTTTA
66 CTTGCCAATGAATAGCTTTTTCTTCCATTTTC-CAAAGCAAACACTCAATTA-TAATCTGTTTTA
* *
265238 ACCAAAAATGTAAAACAAAATT-AACTTTAAATCAA-TATTGAGA
129 ACCAAAAA--TATAA-AAAATTCAACTTAAAATCAATTA-TGAGA
** * * *
265281 TTATAAAACCATTTAAAGTGAGTAATAGGGCTT-TGGAAGGCATGGGTGGCTATAAATGGACTTT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCT-AAAGGCATGGGTGACTATAAATGGACTTT
* ** * * *
265345 TCTTGCCAATGAAT--CATTTTTTTTTGAGTTTCTAAAGGCAAACACTCAATTATAATTTGTTTT
65 TCTTGCCAATGAATAGC-TTTTTCTTCCATTTTCCAAA-GCAAACACTCAATTATAATCTGTTTT
** * *
265408 AATGAAAAATGTAAAAAAGTTCAACTTAAAAT-AATTATGATA
128 AACCAAAAATATAAAAAA-TTCAACTTAAAATCAATTATGAGA
* * ** *
265450 TTGTAAAACCATTTAAAGCGAA-TAATAAGACTTCGGAAGGCATGGGTGACTATACATGGACTTT
1 TTATAAAACCATTTAAAGC-AAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTT
* * * * *
265514 TCTTG-CACTTGAATAGCTTTTTGTTCACATTTTCCAAAGCAATCATTCAAATATAATCTGTTTT
65 TCTTGCCA-ATGAATAGCTTTTTCTTC-CATTTTCCAAAGCAAACACTCAATTATAATCTGTTTT
* * *
265578 AACCAAATATATAAAAAGATTCAACTTAAAGTCATTTATGAGA
128 AACCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGA
* * * *
265621 TTATAAAACCATTTAAAGCAAATAATAAGGCTTCTAAAGGCATGGGTTACTACAAATAGACTTTT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTTT
* * * * *
265686 CTTGCCAATGCATGGCTTTTTC-TCCATGTTTCCTGAGATG-AAACAGTCAATTATAATCTATTT
66 CTTGCCAATGAATAGCTTTTTCTTCCAT-TTTCC--A-AAGCAAACACTCAATTATAATCTGTTT
* * * ********
265749 TGACCAAATATGTAAAAAAGTTCAACTTAAAATCAANNNNNNNN
127 TAACCAAAAATATAAAAAA-TTCAACTTAAAATCAATTATGAGA
** * * * * * *
265793 NNATAAAATCATTTAAAGCAAGTAATAAAGCTTCCAAAGGCATGGGTGACTACAAATAGACTTAT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTTT
* *** *
265858 CTTGCCAATGAAT-GAATTTTT-TGT-CATGTTTCTTGAG-ATAGACATTCAATTATAATCTGTT
66 CTTGCCAATGAATAG-CTTTTTCT-TCCAT-TTTCCAAAGCA-A-ACACTCAATTATAATCTGTT
* * * * * *
265919 TTAA-CTAAAATAATAAAAAAATTTAACTTTAAATTAATTATAAGT
126 TTAACCAAAAAT-AT-AAAAAATTCAACTTAAAATCAATTATGAGA
* * * *
265964 TTATAAAACCATTTAAAGCAAGTAATAAGGATTCGAAAGGTATGGGTGACTATAAATGGACCTTT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTTT
* * *** * * * * *
266029 CTTG-CACTTAAATAGCTTGTTGT-TTATGTTTTCCAAGGCAGACATTCAAATATAATCTGCTTT
66 CTTGCCA-ATGAATAGCTT-TT-TCTTCCATTTTCCAAAGCAAACACTCAATTATAATCTGTTTT
*
266092 AACAAAAAAATATAAAACAATTCAACTTAAAATCAATTATGAGA
128 AAC-CAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGA
********** * *
266136 TNNNNNNNNNNTTTAAAGCAAGTAATAAGGCTTCCAAAGGCATGGGTGAATATAAATGGACTTTT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTTT
* * ** ** *** * *
266201 CTTGCCAATAAATGGCTTTTTCTT-CAGGTTCCTTGAG-GTTCACATCGAA-TATTTATATGTTT
66 CTTGCCAATGAATAGCTTTTTCTTCCATTTTCC-AAAGCAAACAC-TC-AATTA-TAATCTGTTT
* * *
266263 TAACTAAAAATATAAAAAATTTAACTTAAAATCAATAATGAGA
127 TAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGA
********** *
266306 TTATAAAACCATTTAAAGNNNNNNNNNNGGCTT-TGAAAGGCATGGGTGACTATAAATGGACATT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCT-AAAGGCATGGGTGACTATAAATGGACTTT
* * * *
266370 TCTTGCCAATGACTGGCTTCTTCTT-CATATTTCTCAAAGCAAACACTCAATTATAATATGTTTT
65 TCTTGCCAATGAATAGCTTTTTCTTCCAT-TTTC-CAAAGCAAACACTCAATTATAATCTGTTTT
* * * *
266434 GATCAATAATGTAAAGAAATTCAACTTAAAATCAATTATGAGA
128 AACCAAAAATATAAA-AAATTCAACTTAAAATCAATTATGAGA
** * * * * *
266477 TTATAAAAGTATTTAAAGCAACTAATAAGGCTT-TGGAAGGTATGAGTGACTATAAATGGACTCT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCT-AAAGGCATGGGTGACTATAAATGGACTTT
** * *
266541 TCTTTACAATGAATA-ATGTTTTCTT-CATGTTTCTCAAGGCAAACACTCAATTATAATCTGTTT
65 TCTTGCCAATGAATAGCT-TTTTCTTCCAT-TTTC-CAAAGCAAACACTCAATTATAATCTGTTT
* * * * *
266604 TAA-CTAAAATGTCAAAAAATTCAAATTAAAATCAATAATGACA
127 TAACCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGA
* * * * * * *
266647 TTGT-AAACCATTTAGAGCGAGTAATAAGGCTT-TAGAAGACTTGGGTGACTATAATTGAACTTT
1 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTA-AAGGCATGGGTGACTATAAATGGACTTT
* * *
266710 TCTTGCCAATGAAT--CATGTTTTCTT-CATGTTTTTCAAGGCAAACACTCAATTATAACCTGTT
65 TCTTGCCAATGAATAGC-T-TTTTCTTCCA--TTTTCCAAAGCAAACACTCAATTATAATCTGTT
266772 TTAACCAAAAATATAAAAA
126 TTAACCAAAAATATAAAAA
266791 CAAATTCTAC
Statistics
Matches: 1177, Mismatches: 276, Indels: 117
0.75 0.18 0.07
Matches are distributed among these distances:
168 6 0.01
169 183 0.16
170 248 0.21
171 404 0.34
172 322 0.27
173 14 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.33
Consensus pattern (169 bp):
TTATAAAACCATTTAAAGCAAGTAATAAGGCTTCTAAAGGCATGGGTGACTATAAATGGACTTTT
CTTGCCAATGAATAGCTTTTTCTTCCATTTTCCAAAGCAAACACTCAATTATAATCTGTTTTAAC
CAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGA
Found at i:267151 original size:171 final size:168
Alignment explanation
Indices: 266917--267425 Score: 499
Period size: 171 Copynumber: 3.0 Consensus size: 168
266907 NNNNNNNTTC
* * * *
266917 TAAAACTATTTAAAGCGAGTAATAACGCTTTGGAAGGCATGGGTGACTATGAACGGACTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATGGACTTTTCTT
266982 -CTCAATGAATGATATATTCTTCATGTTTCCCAAGGCAGACATTCAACAATAATCTATTTTAACC
66 GCTCAATGAATGAT-T-TTCTTCATGTTTCCCAAGGCAGACATTCAA-AATAATCTATTTTAACC
267046 AAAAATATAAACAAATTCAACTTAAAATCAATAATGAGATTA
128 AAAAATATAAA-AAATTCAACTTAAAATCAATAATGAGATTA
********** * *
267088 TAAAACNNNNNNNNNNGAGTAATAAAGCTTTGGAAGGCATGGGTGGCTATAAATGGTCTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATGGACTTTTCTT
* * * * * * * * *
267153 GCT-AATGAATGGCTTTCTCTTCATATTTCCCAAGGCAAACACTCAATTACAATCTGTTCTGA-C
66 GCTCAATGAAT-GATTT-TCTTCATGTTTCCCAAGGCAGACATTCAA-AATAATCTATTTTAACC
* * *
267216 AAAGAATGTAAAAAAATTCAACGTAAAATCAATTATGTA-ATTA
128 AAA-AATAT-AAAAAATTCAACTTAAAATCAATAATG-AGATTA
* * * *** *
267259 TAAAACCATTTAAAGCAAGTACTAAGGCTTCCAAAGGTATGGGTGACTATAAATGGACTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATGGACTTTTCTT
** * * * *
267324 GC-CAACAAATGACTTT-TTCATGTTTCCCAAGACAGACATTCAAATGTAATCTATTTTAACTAA
66 GCTCAATGAATGATTTTCTTCATGTTTCCCAAGGCAGACATTCAAA-ATAATCTATTTTAACCAA
267387 AAATATAAAAATATTCAACTTAAAATCAATAATGAGATT
130 AAATATAAAAA-ATTCAACTTAAAATCAATAATGAGATT
267426 NNNNNNNNNN
Statistics
Matches: 262, Mismatches: 65, Indels: 25
0.74 0.18 0.07
Matches are distributed among these distances:
167 6 0.02
168 59 0.23
169 4 0.02
170 8 0.03
171 177 0.68
172 8 0.03
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.31
Consensus pattern (168 bp):
TAAAACCATTTAAAGCGAGTAATAAAGCTTTGGAAGGCATGGGTGACTATAAATGGACTTTTCTT
GCTCAATGAATGATTTTCTTCATGTTTCCCAAGGCAGACATTCAAAATAATCTATTTTAACCAAA
AATATAAAAAATTCAACTTAAAATCAATAATGAGATTA
Found at i:268022 original size:173 final size:170
Alignment explanation
Indices: 267756--268196 Score: 379
Period size: 171 Copynumber: 2.6 Consensus size: 170
267746 ATTATATGTT
* ** * * * *
267756 TATAAAACCATTTAAAGT-AAGTAATAAGGTTTCGAAACACATGGGTCACTAGAAATGGATTTTT
1 TATAAAACCATTTCAAGTGAA-TAATAAGGCCTCGAAAGACATAGGTGACTAGAAATGGACTTTT
* ** * ** * *
267820 CTTGC-CAATGGAT-GGCTTTTACATCACGTTTCCTAAAGCACACATTCTATTATAAAATATTGT
65 CTTGCAC-TTTAATAGCCTTTT-GTTCACGTTTCC-AAAGCACACATTCAAATATAAAATATTGT
*
267883 AACAAAAAATGTAAAAACATGTTCAACTTAAAGTCAATTAGGAAAG
127 AACAAAAAA--TAAAAACATGTTCAACTTAAAATCAATTAGGAAAG
267929 TATAAAACCATTTCAAGTGAATAATAAGGCCTCGAAAGACATAGGTGACTAGAAATGGACTTTTC
1 TATAAAACCATTTCAAGTGAATAATAAGGCCTCGAAAGACATAGGTGACTAGAAATGGACTTTTC
* * ** ** *
267994 TTGCACTTTAATAGCCTTTTGTTCACGTTTTCCAAGGTAGGCATTCAAATATAATCTATTTTAAC
66 TTGCACTTTAATAGCCTTTTGTTCACG-TTTCCAAAGCACACATTCAAATATAAAATATTGTAAC
* ********** * * *
268059 AAAAAATATAAANNNNNNNNNNTTAAAATCAATTATGAGAT
130 AAAAAATAAAAACATGTTCAACTTAAAATCAATTAGGAAAG
* * * *
268100 TATAAAACTA-TTCAAAGTGAATAATAAGGCCTC-AGAAGCCATAGGTGACTATAAATAGACTTT
1 TATAAAACCATTTC-AAGTGAATAATAAGGCCTCGA-AAGACATAGGTGACTAGAAATGGACTTT
* *
268163 TCTTGCACTTTAATAGCTTTTTGTTCATGTTTCC
64 TCTTGCACTTTAATAGCCTTTTGTTCACGTTTCC
268197 CAAANNNNNN
Statistics
Matches: 219, Mismatches: 43, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
170 9 0.04
171 100 0.46
173 96 0.44
174 14 0.06
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.32
Consensus pattern (170 bp):
TATAAAACCATTTCAAGTGAATAATAAGGCCTCGAAAGACATAGGTGACTAGAAATGGACTTTTC
TTGCACTTTAATAGCCTTTTGTTCACGTTTCCAAAGCACACATTCAAATATAAAATATTGTAACA
AAAAATAAAAACATGTTCAACTTAAAATCAATTAGGAAAG
Found at i:268599 original size:171 final size:169
Alignment explanation
Indices: 268301--268834 Score: 545
Period size: 171 Copynumber: 3.1 Consensus size: 169
268291 NNNNNNNNNN
** * *** *
268301 GAAGAAAAAGCCATTTGTTGGCAAGAAAAGTCTATTTATAGTCACCCATGCCTTTGGAAGGCTTA
1 GAAG-AAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTTA
*
268366 TTACTTGCTTTAAATGGTTTTATAAT-TGCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT
65 TTACTCGCTTTAAATGGTTTTATAATCT-CATAATTGATTTTAAGTTGAA-TTTTTTACATTTTT
* * * * * * *
268430 TGTCAAAACAGATTGTAATTGAGCGTTTGCCTTGGGAAATAT
128 GGTCAAAACAGATTATAATTGAACGTCTGCATTAGGAAACAT
* ** **
268472 GAAGAGAAAGCCATTCATTGGCAAGAAAAGACCATTTATAACCACCCATGCCTTCCAAAGTTTTA
1 GAAGA-AAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTTA
* *
268537 CTACTCGCTTTAAATGGTTTTATAATCTCATTATTGATTTTAAGTTGAATTTTTTCACATTTTTG
65 TTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTT-ACATTTTTG
* * * * *
268602 GTTAAAATAGATTATAGTTGAATGTCTGCATTAGGAAACGT
129 GTCAAAACAGATTATAATTGAACGTCTGCATTAGGAAACAT
* * * * *
268643 TAAGAACATGCCGTTCATTAGG-AAGAAAAGTCCATTCATAGTCACCCATGCCTTCTAAAGCCTT
1 GAAGAA-AAGCCATTCATT-GGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTT
* * * * *
268707 ATTACTCGCTTTAAATAGTTTTAGAATCTCATAATTTATTTTAAATTGAATATTTTTATATTTTT
64 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTACATTTTT
* * * * *
268772 GGTTAAAATC-TATTATAATTGAATGTCTAC-TTCGGGAAACAT
128 GGTCAAAA-CAGATTATAATTGAACGTCTGCATT-AGGAAACAT
* *
268814 GATGCAAAAGCCATCCATTGG
1 GAAG-AAAAGCCATTCATTGG
268835 TTGAATTTTA
Statistics
Matches: 300, Mismatches: 54, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
170 12 0.04
171 278 0.93
172 10 0.03
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (169 bp):
GAAGAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCCAAAGCCTTAT
TACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTGGT
CAAAACAGATTATAATTGAACGTCTGCATTAGGAAACAT
Found at i:269293 original size:171 final size:171
Alignment explanation
Indices: 268839--270094 Score: 1102
Period size: 171 Copynumber: 7.3 Consensus size: 171
268829 CATTGGTTGA
* * * * *
268839 ATTTTAAGTAGATTTTTTTTACATTTTTGGTTAAAACTGATTATAATTGAGTGTTTGCCTTGAGA
1 ATTTTAAGTTGA-ATTTTTTATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCTCGAGA
* * * * *
268904 AACATGAAGAAAACATG--ATTCATTGGCAAGAAAAGTTCAATTATAGTCACCCAAGTC-TTCTA
65 AACATGAAGAAAA-A-GACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCGA
* * * * *
268966 AAGCCTTATTAGTCGCTCTAAATGGTTTTACAATCTCATTATTG
128 AAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
* * * * * *
269010 ATTTTAATTTGAAATTTTTGATA-TTTTAGTTAAAACAAATTATAATTAAGTGTTTGCCTTGAGA
1 ATTTTAAGTTG-AATTTTTTATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCTCGAGA
* * * * * *
269074 AACATGAAGAAAACATG--ATTCATTAGAAAGAAGAGTCCATTTATAGTCACTCAT-ACTTTCTA
65 AACATGAAGAAAA-A-GACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCGA
* * * *
269136 AAGCCTTATTAGTAGCTTTAAATAGTTTTATAATCTTATAATTG
128 AAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
* * * *
269180 ATTTTAAGTTGAATTTCTTTATATTATTGGTCAAAACAGATGATAATTGAGTGTTTGTCTCGAGA
1 ATTTTAAGTTGAATTT-TTTATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCTCGAGA
* * * * * *
269245 AATATGAAGAAGAAGACAATCATTGGCTAGAAATGTCCATTTATAGTCACCCATGCCTTTC-AGA
65 AACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCGAAA
** * *
269309 GCCTTATTACTCACTTTAAATGATTTTATAATCTCATTATTG
130 GCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
** * * *
269351 ATTTTAAGTTGAATTTTTTTATATTTTTTATTAAAACATATTA-ATATATGA-TGTGTACCTCGA
1 ATTTTAAGTTGAA-TTTTTTATATTTTTGGTTAAAACAGATTATA-AT-TGAGTGTTTGCCTCGA
* * * *
269414 GAAATATGAAGAAAAAGCCATTCATTGGCAA-AACAAGTCCGTTTGA-ATTCACCCATGCCTTT-
63 GAAACATGAAGAAAAAGACATTCATTGGCAAGAA-AAGTCCATTT-ATAGTCACCCATGCCTTTC
* * *
269476 GGAAGCCTTATTACTTGCTTTAAATGATTTTGTAATCTCATAATTG
126 GAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
** * * * * * * *
269522 ATTTTAAGTTGAATTGTTTTATATTTTTTATTAAAGCAGATTATATTTGATTATCTGCCTTGGGA
1 ATTTTAAGTTGAATT-TTTTATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCTCGAGA
* * * * * * * **
269587 AATATAAACAACAAG-CTATTTA-AGTGCAAGAAAGGTCCATTTATAACCACCCATGCCTTTCG-
65 AACATGAAGAAAAAGAC-ATTCATTG-GCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCGA
* * *
269649 AAGCTTTATTACTTGCTTT-AATGGTTTTATAAACTTATAATTG
128 AAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
* * * ** *
269692 ATTTTAAGTTGAATTTTTTCATATTTTTGATTAAAACAGATTATAATTGAATGTCTATCTCAAGA
1 ATTTTAAGTTGAATTTTTT-ATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCTCGAGA
* * * *
269757 AACATGACA-AAAAAGTCATTCATTGGCAA-AATAAGTCAATTTGTAGTCACCCATGCCTTT-GG
65 AACATGA-AGAAAAAGACATTCATTGGCAAGAA-AAGTCCATTTATAGTCACCCATGCCTTTCGA
* * *
269819 AAGCTTTATTACTTGCTTTAAATGGCTTTATAATGTCATAATTG
128 AAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
* * * * * * * **
269863 ATTTCAAGCTAGACTTTTTTATCTTTTTGGTCAAAATAGATTATAATTGATTGTTTTATCTC-AG
1 ATTTTAAG-TTGAATTTTTTATATTTTTGGTTAAAACAGATTATAATTGAGTG-TTTGCCTCGA-
* ** * *
269927 GAAACATGGAGAAAAAG-CTAAGCATTGGCAAGAAAAGTCTATTTATAGTAACCCATGCCTTT-G
63 GAAACATGAAGAAAAAGAC-ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCG
* *
269990 AAAGCCTTATTATTTGCTTTAAATAGTTTTATAATCTCATACA-TG
127 AAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTCATA-ATTG
* * * * * * *
270035 ACTTTAAGTAGAATCTTTTTATATATTTAGTTAAAACAGATTATATTTGAATGATTGCCT
1 ATTTTAAGTTGAAT-TTTTTATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCT
270095 TAGAAAATGT
Statistics
Matches: 896, Mismatches: 153, Indels: 72
0.80 0.14 0.06
Matches are distributed among these distances:
169 14 0.02
170 284 0.32
171 438 0.49
172 157 0.18
173 3 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (171 bp):
ATTTTAAGTTGAATTTTTTATATTTTTGGTTAAAACAGATTATAATTGAGTGTTTGCCTCGAGAA
ACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCGAAAG
CCTTATTACTTGCTTTAAATGGTTTTATAATCTCATAATTG
Found at i:269591 original size:342 final size:337
Alignment explanation
Indices: 268839--270084 Score: 1131
Period size: 341 Copynumber: 3.6 Consensus size: 337
268829 CATTGGTTGA
* * * * * * * * * *
268839 ATTTTAAGTAGATTTTTTTTACATTTTTGGTTAAAACTGATTATAATTGAGTGTTTGCCTTGAGA
1 ATTTTAAGTTGA-ATTTTTTATATTTTTGGTCAAAACAGATTATAATTGATTATTTGTCTCGGGA
* * * * * *
268904 AACATGAAGAAAACATG-ATTCATTGGCAAGAAAAGTTCAATTATAGTCACCCAAGTC-TTCTAA
65 AATATGAAGAAAA-A-GCAATCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTC-AA
* * * * * * *
268967 AGCCTTATTAGTCGCTCTAAATGGTTTTACAATCTCATTATTGATTTTAATTTGAAATTTTTGAT
127 AGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATTATTGATTTTAAGTTGAATTTTTTTAT
* * * * *
269032 A-TTTTAGTTAAAACAAATTATAATTAAGTGTTTGCCTTGAGAAACATGAAGAAAACATG-ATTC
192 ATTTTTAGTTAAAACAGATTATAATTGA-TGTCTACCTCGAGAAACATGAAGAAAA-A-GCATTC
* * * ** * *
269095 ATTAG-AAAGAAGAGTCCATTT-ATAGTCACTCAT-ACTTTCTAAAGCCTTATTAGTAGCTTTAA
254 ATTGGCAAA-AA-AGTCCATTTGA-AGTCACCCATGCCTTT-GGAAGCCTTATTACTTGCTTTAA
*
269157 AT-AGTTTTATAATCTTATAATTG
315 ATGA-TTTTATAATCTCATAATTG
* * * * *
269180 ATTTTAAGTTGAATTTCTTTATATTATTGGTCAAAACAGATGATAATTGAGTGTTTGTCTCGAGA
1 ATTTTAAGTTGAATTT-TTTATATTTTTGGTCAAAACAGATTATAATTGATTATTTGTCTCGGGA
* * * *
269245 AATATGAAGAAGAAGACAATCATTGGCTAGAAATGTCCATTTATAGTCACCCATGCCTTTCAGAG
65 AATATGAAGAAAAAG-CAATCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCAAAG
*
269310 CCTTATTACTCACTTTAAATGATTTTATAATCTCATTATTGATTTTAAGTTGAATTTTTTTATAT
129 CCTTATTACTCGCTTTAAATGATTTTATAATCTCATTATTGATTTTAAGTTGAATTTTTTTATA-
* * *
269375 TTTTTA-TTAAAACATATTA-ATATATGATGTGTACCTCGAGAAATATGAAGAAAAAGCCATTCA
193 TTTTTAGTTAAAACAGATTATA-AT-TGATGTCTACCTCGAGAAACATGAAGAAAAAG-CATTCA
* *
269438 TTGGCAAAACAAGTCCGTTTGAATTCACCCATGCCTTTGGAAGCCTTATTACTTGCTTTAAATGA
255 TTGGCAAAA-AAGTCCATTTGAAGTCACCCATGCCTTTGGAAGCCTTATTACTTGCTTTAAATGA
*
269503 TTTTGTAATCTCATAATTG
319 TTTTATAATCTCATAATTG
** * * * * * *
269522 ATTTTAAGTTGAATTGTTTTATATTTTTTATTAAAGCAGATTATATTTGATTATCTGCCTTGGGA
1 ATTTTAAGTTGAATT-TTTTATATTTTTGGTCAAAACAGATTATAATTGATTATTTGTCTCGGGA
* * * * * ** *
269587 AATATAAACAACAAGCTAT--TTAAGTGCAAGAAAGGTCCATTTATAACCACCCATGCCTTTCGA
65 AATATGAAGAAAAAGCAATCATT--G-GCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCAA
* * * * * * *
269650 AGCTTTATTACTTGCTTT-AATGGTTTTATAAACTTATAATTGATTTTAAGTTGAATTTTTTCAT
127 AGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATTATTGATTTTAAGTTGAATTTTTTTAT
* *
269714 ATTTTT-GATTAAAACAGATTATAATTGAATGTCTATCTCAAGAAACATGACA-AAAAAGTCATT
192 ATTTTTAG-TTAAAACAGATTATAATTG-ATGTCTACCTCGAGAAACATGA-AGAAAAAG-CATT
* * *
269777 CATTGGCAAAATAAGTCAATTTGTAGTCACCCATGCCTTTGGAAGCTTTATTACTTGCTTTAAAT
253 CATTGGCAAAA-AAGTCCATTTGAAGTCACCCATGCCTTTGGAAGCCTTATTACTTGCTTTAAAT
** *
269842 GGCTTTATAATGTCATAATTG
317 GATTTTATAATCTCATAATTG
* * * * * * * *
269863 ATTTCAAGCTAGACTTTTTTATCTTTTTGGTCAAAATAGATTATAATTGATTGTTTTATCTCAGG
1 ATTTTAAG-TTGAATTTTTTATATTTTTGGTCAAAACAGATTATAATTGATT-ATTTGTCTCGGG
* * * * * *
269928 AAACATGGAGAAAAAGCTAAGCATTGGCAAGAAAAGTCTATTTATAGTAACCCATGCCTTTGAAA
64 AAATATGAAGAAAAAGC-AATCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCAAA
* * * * * *
269993 GCCTTATTATTTGCTTTAAAT-AGTTTTATAATCTCA-TACATGACTTTAAGTAGAATCTTTTTA
128 GCCTTATTACTCGCTTTAAATGA-TTTTATAATCTCATTA-TTGATTTTAAGTTGAATTTTTTTA
* *
270056 TATATTTAGTTAAAACAGATTATATTTGA
191 TATTTTTAGTTAAAACAGATTATAATTGA
270085 ATGATTGCCT
Statistics
Matches: 738, Mismatches: 134, Indels: 65
0.79 0.14 0.07
Matches are distributed among these distances:
339 3 0.00
340 12 0.02
341 357 0.48
342 286 0.39
343 77 0.10
344 1 0.00
345 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (337 bp):
ATTTTAAGTTGAATTTTTTATATTTTTGGTCAAAACAGATTATAATTGATTATTTGTCTCGGGAA
ATATGAAGAAAAAGCAATCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTCAAAGCC
TTATTACTCGCTTTAAATGATTTTATAATCTCATTATTGATTTTAAGTTGAATTTTTTTATATTT
TTAGTTAAAACAGATTATAATTGATGTCTACCTCGAGAAACATGAAGAAAAAGCATTCATTGGCA
AAAAAGTCCATTTGAAGTCACCCATGCCTTTGGAAGCCTTATTACTTGCTTTAAATGATTTTATA
ATCTCATAATTG
Found at i:269806 original size:512 final size:513
Alignment explanation
Indices: 268853--270131 Score: 1191
Period size: 512 Copynumber: 2.5 Consensus size: 513
268843 TAAGTAGATT
* * * * * * *
268853 TTTTTTACATTTTTGGTTAAAACTGATTATAATTGAGTGTT-TGCCT-TGAGAAACATGAAGAAA
1 TTTTTTATATTTTTGATCAAAACAGATTATAATTGATTGTTGTACCTCAG-GAAACATGAAGAAA
** * * * * * *
268916 ACATG--ATTCATTGGCAAGAAAAGTTCAATTATAGTCACCCAAGTCTTCT-AAAGCCTTATTAG
65 A-A-GCCAAGCATTGGCAAGAAAAGTCCATTTATAGTAACCCATGCCTT-TGAAAGCCTTATTAC
* * * * * * * * *
268978 TCGCTCTAAATGGTTTTACAATCTCATTA-TTGATTTTAATTTGAAAT-TTTTGATAT-TTTAGT
127 TTGCTTTAAATAGTTTTATAATCTCA-TACATGACTTTAAGTAG-AATCTTTTTATATATTTAGT
* * * * * * * *
269040 TAAAACAAATTATAATT-AAGTGTTTGCCTT-GAGAAACATGAAGAAAA-CATGATTC-ATTAGA
190 TAAAACAGATTATATTTGAA-TGATTGCCTTAGA-AAATATAAACAAAAGC-T-ATTCAAGT-GC
** * * * *
269101 AAG-AAGAGTCCATTTATAGTCACTCAT-ACTTTCTAAAGCCTTATTAGTAGCTTTAAATAGTTT
250 AAGAAAG-GTCCATTTATAACCACCCATGCCTTTC-GAAGCCTTATTACTAGCTTTAAATAGTTT
* *
269164 TATAATCTTATAATTGATTTTAAGTTGAATTTCTTTATATTATTGGTCAAAACAGATGATAATTG
313 TATAAACTTATAATTGATTTTAAGTTGAATTTCTTTATATTATTGATCAAAACAGATGATAATTG
* * * * * * *
269229 AGTGTTTGTCTCGAGAAATATGAAGAAGAAGACAATCATTGGCTAGAAATGTCCATTTATAGTCA
378 AATGTCTATCTCAAGAAACATGAAGAAAAAGACAATCATTGGCTAGAAATGTCAATTTATAGTCA
* * *
269294 CCCATGCCTTTCAG-AGCCTTATTACTCACTTTAAATGATTTTATAATCTCATTATTGATTTTAA
443 CCCATGCCTTT-AGAAGCCTTATTACTCACTTTAAATGACTTTATAATCTCATAATTGATTTCAA
* *
269358 G-TTGAAT
507 GCTAG-AC
* * * *
269365 TTTTTTATATTTTTTATTAAAACATATTA-ATATATGA-TG-TGTACCTC-GAGAAATATGAAGA
1 TTTTTTATATTTTTGATCAAAACAGATTATA-AT-TGATTGTTGTACCTCAG-GAAACATGAAGA
** * * * *
269426 AAAAGCCATTCATTGGCAA-AACAAGTCCGTTTGA-ATTCACCCATGCCTTTGGAAGCCTTATTA
63 AAAAGCCAAGCATTGGCAAGAA-AAGTCCATTT-ATAGTAACCCATGCCTTTGAAAGCCTTATTA
* * * *
269489 CTTGCTTTAAAT-GATTTTGTAATCTCATA-ATTGATTTTAAGTTGAAT-TGTTTTATATTTTTT
126 CTTGCTTTAAATAG-TTTTATAATCTCATACA-TGACTTTAAGTAGAATCT-TTTTATA-TATTT
* * * * *
269551 A-TTAAAGCAGATTATATTTG-ATTATCTGCCTTGGGAAATATAAACAACAAGCTATTTAAGTGC
187 AGTTAAAACAGATTATATTTGAATGAT-TGCCTTAGAAAATATAAACAA-AAGCTATTCAAGTGC
* * *
269614 AAGAAAGGTCCATTTATAACCACCCATGCCTTTCGAAGCTTTATTACTTGCTTT-AATGGTTTTA
250 AAGAAAGGTCCATTTATAACCACCCATGCCTTTCGAAGCCTTATTACTAGCTTTAAATAGTTTTA
* * *
269678 TAAACTTATAATTGATTTTAAGTTGAATTT-TTTCATATTTTTGATTAAAACAGATTATAATTGA
315 TAAACTTATAATTGATTTTAAGTTGAATTTCTTT-ATATTATTGATCAAAACAGATGATAATTGA
* * *
269742 ATGTCTATCTCAAGAAACATGACA-AAAAAGTCATTCATTGGC-A-AAATAAGTCAATTTGTAGT
379 ATGTCTATCTCAAGAAACATGA-AGAAAAAGACAATCATTGGCTAGAAAT--GTCAATTTATAGT
* * ** * *
269804 CACCCATGCCTTTGGAAGCTTTATTACTTGCTTTAAATGGCTTTATAATGTCATAATTGATTTCA
441 CACCCATGCCTTTAGAAGCCTTATTACTCACTTTAAATGACTTTATAATCTCATAATTGATTTCA
269869 AGCTAGAC
506 AGCTAGAC
* * * * * *
269877 TTTTTTATCTTTTTGGTCAAAATAGATTATAATTGATTGTTTTATCTCAGGAAACATGGAGAAAA
1 TTTTTTATATTTTTGATCAAAACAGATTATAATTGATTGTTGTACCTCAGGAAACATGAAGAAAA
* * *
269942 AGCTAAGCATTGGCAAGAAAAGTCTATTTATAGTAACCCATGCCTTTGAAAGCCTTATTATTTGC
66 AGCCAAGCATTGGCAAGAAAAGTCCATTTATAGTAACCCATGCCTTTGAAAGCCTTATTACTTGC
270007 TTTAAATAGTTTTATAATCTCATACATGACTTTAAGTAGAATCTTTTTATATATTTAGTTAAAAC
131 TTTAAATAGTTTTATAATCTCATACATGACTTTAAGTAGAATCTTTTTATATATTTAGTTAAAAC
* *
270072 AGATTATATTTGAATGATTGCCTTAGAAAATGTGAACAAAAGCTATTCAAGTGCAAGAAA
196 AGATTATATTTGAATGATTGCCTTAGAAAATATAAACAAAAGCTATTCAAGTGCAAGAAA
270132 AGTCTATGTA
Statistics
Matches: 629, Mismatches: 99, Indels: 78
0.78 0.12 0.10
Matches are distributed among these distances:
510 5 0.01
511 21 0.03
512 347 0.55
513 227 0.36
514 28 0.04
515 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (513 bp):
TTTTTTATATTTTTGATCAAAACAGATTATAATTGATTGTTGTACCTCAGGAAACATGAAGAAAA
AGCCAAGCATTGGCAAGAAAAGTCCATTTATAGTAACCCATGCCTTTGAAAGCCTTATTACTTGC
TTTAAATAGTTTTATAATCTCATACATGACTTTAAGTAGAATCTTTTTATATATTTAGTTAAAAC
AGATTATATTTGAATGATTGCCTTAGAAAATATAAACAAAAGCTATTCAAGTGCAAGAAAGGTCC
ATTTATAACCACCCATGCCTTTCGAAGCCTTATTACTAGCTTTAAATAGTTTTATAAACTTATAA
TTGATTTTAAGTTGAATTTCTTTATATTATTGATCAAAACAGATGATAATTGAATGTCTATCTCA
AGAAACATGAAGAAAAAGACAATCATTGGCTAGAAATGTCAATTTATAGTCACCCATGCCTTTAG
AAGCCTTATTACTCACTTTAAATGACTTTATAATCTCATAATTGATTTCAAGCTAGAC
Found at i:270572 original size:171 final size:171
Alignment explanation
Indices: 270145--271038 Score: 1006
Period size: 171 Copynumber: 5.2 Consensus size: 171
270135 CTATGTATAT
* * * *
270145 TTTTTTTACGTTTTTCATTAAAATAGACTATATTTGAATGCTTGCCTTGAGAAACCTATAGAAAA
1 TTTTTTTACATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAAAA
* ** * *
270210 AGCCATTCCTCAAGAAGAAAAGTCTA-TTATAGTCACCCATTCCTTCAAAAGCCTCATTACTCAC
66 AGCCATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCAC
* *
270274 TTTAAATGGTTTTATAATCTCATAATTGATTTCAAGTTCAA
131 TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * * * * *
270315 TGTTTTTTACATTTTT-TTTCAAAACAGATTATAATTGAGTTCCTACCTTGAGAAACATGAAGAA
1 T-TTTTTTACATTTTTCATT-AAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAA
* *
270379 AAAGGCATTCATTG-GCAAGAAAAGTCCATTTATAGTCACCCATTCCATCAAAAGCCTTATTACT
64 AAAGCCATTCATTGAG-AAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACT
* * *
270443 CGCTTTAAATGGTTTTATAATTTTATAATTGATTTTAAGTTGAA
128 CACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * *
270487 TTTTTTTATATTTTTCATTAAAATAGACTATAATTGAATGCTTGCC-TCAGGAAACATGTACAAA
1 TTTTTTTACATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGA-GAAACATGTAGAAA
* * * * * *
270551 AAGTCATTCATTGAGAAGAAAAGTCCATTAAAAGTCACCCATTCCTTTAAATGCCTTATTACTCG
65 AAGCCATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCA
* * *
270616 CTTTGAATGGTTTTATAATCCCACAATTGATTTT-AGTTTGAA
130 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG-TTGAA
* * *
270658 TTGTTTTACATTTTT-AGTTAAAATAGACTATAATT-ATATGCTTAG-CTCGA-TAA-ATGT-GA
1 TTTTTTTACATTTTTCA-TTAAAATAGACTATAATTGA-ATGCTT-GCCTTGAGAAACATGTAG-
* * *
270717 AAAAAGGCATTCATTG-GCAAGAAAAGTCCATTTATAGTCACTCATT-CTATCAAAAGTCTTATT
62 AAAAAGCCATTCATTGAG-AAGAAAAGTCCATTTATAGTCACCCATTCCT-TCAAAAGCCTTATT
* * *
270780 ACTCACTTTAAATGGTTTTATAATCTAATAATTCATGTTAAGTTGAA
125 ACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * *
270827 GTTTTTTATATTTTTCATTAAAATAGACTATAATTGAAAGCCTGCCTTGAGAAACATGTAGAAAA
1 TTTTTTTACATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAAAA
* * *
270892 AGCCATTTATT-AGGAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAAATGCCTTATTACTCA
66 AGCCATTCATTGA-GAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCA
* * * *
270956 CTGTAAATAGTTTTATAGTCACATAATTGATTTTTAAGTTGAA
130 CTTTAAATGGTTTTATAATCTCATAATTGA-TTTTAAGTTGAA
* * ** * * *
270999 TTGTTTTATATTTTTGGTTAAAACAAACAATAATTGAATG
1 TTTTTTTACATTTTTCATTAAAATAGACTATAATTGAATG
271039 TCNNNNNNNN
Statistics
Matches: 604, Mismatches: 94, Indels: 50
0.81 0.13 0.07
Matches are distributed among these distances:
168 4 0.01
169 130 0.22
170 18 0.03
171 327 0.54
172 125 0.21
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (171 bp):
TTTTTTTACATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAAAA
AGCCATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCAC
TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
Found at i:270800 original size:340 final size:339
Alignment explanation
Indices: 270145--271035 Score: 1164
Period size: 340 Copynumber: 2.6 Consensus size: 339
270135 CTATGTATAT
** * * *
270145 TTTTTTTACGTTTTTCATTAAAATAGACTATATTTGAATGCTTGCCTTGAGAAACCTATAGAAAA
1 TTTTTTTATATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAAAA
* * * * *
270210 AGCCATTCCTCAAGAAGAAAAGTCTATT-ATAGTCACCCATTCCTTCAAAAGCCTCATTACTCAC
66 AGCCATTCAT-TAGAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAAATGCCTTATTACTCAC
* * * * *
270274 TTTAAATGGTTTTATAATCTCATAATTGATTTCAAGTTCAATGTTTTTTACATTTTTTTTCAAAA
130 TTTAAATGGTTTTATAATCACATAATTGATTT-TAGTTGAAT-TGTTTTACATTTTTGTT-AAAA
* *
270339 CAGATTATAATTGAGTTCCTACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGT
192 CAGACTATAATTGAGTTCCTACCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGT
* * *
270404 CCATTTATAGTCACCCATTCCATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATTTTAT
257 CCATTTATAGTCACCCATTCCATCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTAAT
* *
270469 AATTGATTTTAAGTTGAA
322 AATTCATGTTAAGTTGAA
* *
270487 TTTTTTTATATTTTTCATTAAAATAGACTATAATTGAATGCTTGCC-TCAGGAAACATGTACAAA
1 TTTTTTTATATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGA-GAAACATGTAGAAA
* * * *
270551 AAGTCATTCATTGAGAAGAAAAGTCCATTAAAAGTCACCCATTCCTTTAAATGCCTTATTACTCG
65 AAGCCATTCATT-AGAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAAATGCCTTATTACTCA
* * *
270616 CTTTGAATGGTTTTATAATCCCACAATTGATTTTAGTTTGAATTGTTTTACATTTTTAGTTAAAA
129 CTTTAAATGGTTTTATAATCACATAATTGATTTTAG-TTGAATTGTTTTACATTTTT-GTTAAAA
* * * * **
270681 TAGACTATAATT-A-TATGCTTAGCTCGATAAATGTG-A-AAAAAGGCATTCATTGGCAAGAAAA
192 CAGACTATAATTGAGT-T-CCTACCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAA
* * *
270742 GTCCATTTATAGTCACTCATTCTATCAAAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTA
255 GTCCATTTATAGTCACCCATTCCATCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTA
270807 ATAATTCATGTTAAGTTGAA
320 ATAATTCATGTTAAGTTGAA
* * *
270827 GTTTTTTATATTTTTCATTAAAATAGACTATAATTGAAAGCCTGCCTTGAGAAACATGTAGAAAA
1 TTTTTTTATATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAAAA
*
270892 AGCCATTTATTAGGAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAAATGCCTTATTACTCAC
66 AGCCATTCATTA-GAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAAATGCCTTATTACTCAC
* * * *
270957 TGTAAATAGTTTTATAGTCACATAATTGATTTTTAAGTTGAATTGTTTTATATTTTTGGTTAAAA
130 TTTAAATGGTTTTATAATCACATAATTGA-TTTT-AGTTGAATTGTTTTACATTTTT-GTTAAAA
* *
271022 CAAACAATAATTGA
192 CAGACTATAATTGA
271036 ATGTCNNNNN
Statistics
Matches: 477, Mismatches: 60, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
339 1 0.00
340 241 0.51
341 46 0.10
342 122 0.26
343 67 0.14
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (339 bp):
TTTTTTTATATTTTTCATTAAAATAGACTATAATTGAATGCTTGCCTTGAGAAACATGTAGAAAA
AGCCATTCATTAGAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAAATGCCTTATTACTCACT
TTAAATGGTTTTATAATCACATAATTGATTTTAGTTGAATTGTTTTACATTTTTGTTAAAACAGA
CTATAATTGAGTTCCTACCTCGAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCAT
TTATAGTCACCCATTCCATCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTAATAATT
CATGTTAAGTTGAA
Done.