Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397331.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1088.0, 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: 55563
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.27
Warning! 14974 characters in sequence are not A, C, G, or T
Found at i:1590 original size:172 final size:160
Alignment explanation
Indices: 1373--1704 Score: 308
Period size: 172 Copynumber: 2.0 Consensus size: 160
1363 NGGAATATGT
** * * * *
1373 GACTATAAATGGACTTTTCTTGTCGATGAATACTTTTTGCTTCATGTTTCTCTAGATAGACATTC
1 GACTATAAATGGACTTTTCTTACCAATGAATACTTTTTGCTTCATGTTTATCGAGATAGACAATC
* * * *
1438 AATTATAATTTGTTTAAACCAAAAATGTATAAAAAATCCAACTTAAAATCAATTTTGAGATTATA
66 AATTATAATCTGTTTAAACCAAAAA--AATAAAAAATCCAACTTAAAATCAATTATGAGATAATA
* * *
1503 ATACCATTTAAA-CTGAGTAATAAGGCTTTTGA
129 AAACCATTTAAAGC-GAGTAATAACGCATTTGA
* * *
1535 NNNNNNNNNNGACTATAAATGGACTTTTTTTACCAATGGATGCCTTTTT-CTTCATGTTTATCGA
1 ----------GACTATAAATGGACTTTTCTTACCAATGAAT-ACTTTTTGCTTCATGTTTATCGA
* * ** **
1599 GGTAGGCAATCAATTATAATCTGTTTGCACCAAAAAAATAAAAAATTTAACTTAAAATCAATTAT
55 GATAGACAATCAATTATAATCTGTTTAAACCAAAAAAATAAAAAATCCAACTTAAAATCAATTAT
* *
1664 GAGATAATAAAATCTTTTAAAGCGAGTAATAACGCATTTGA
120 GAGATAATAAAACCATTTAAAGCGAGTAATAACGCATTTGA
1705 AGGAATGGGA
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
170 58 0.43
171 1 0.01
172 69 0.51
173 6 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.36
Consensus pattern (160 bp):
GACTATAAATGGACTTTTCTTACCAATGAATACTTTTTGCTTCATGTTTATCGAGATAGACAATC
AATTATAATCTGTTTAAACCAAAAAAATAAAAAATCCAACTTAAAATCAATTATGAGATAATAAA
ACCATTTAAAGCGAGTAATAACGCATTTGA
Found at i:1771 original size:170 final size:167
Alignment explanation
Indices: 962--2157 Score: 621
Period size: 171 Copynumber: 7.0 Consensus size: 167
952 NNNNNNNNNN
* * * * *
962 AATTCAAAC-TAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAAGC-TTGAAG
1 AATTC-AACTTAAAATAAATTATGAGATTATAAAA-CTTTTAAAGCGAGTAATAAGGCTTTGAAG
** * * * * *
1025 GAATGGCCGA-TGATAAATGGACTTTTCTTACC-ATGAATACCTTTTTCTTTATGTCTC-CTAAG
64 GAATGGGTGACT-ATAAATGAACTTTTCTT-CCAATGAATGCCTTTTTCTTCATGTTTCTC-GAG
* * * * * *
1087 GTTGACATTTAATTATAATCT-ATTCTAACCAAAAATGTAAAA
126 GTAGA-AATCAATTATAATCTGTTTGTAACAAAAAATGTAAAA
* * * * ********** *
1129 AATTCAA-TCAAAAATCAATTATGAGATTATAAAGCCATTTANNNNNNNNNNTAAAGCTTTTGAA
1 AATTCAACT-TAAAATAAATTATGAGATTATAAA-ACTTTTAAAGCGAGTAATAAGGC-TTTGAA
* * * * ** * **
1193 GGAATAGGTGAATATAAAT-AGACTTTTCCTGCGAATGAATGTTTTTTTCTTCACGTTTCTTAAG
63 GGAATGGGTGACTATAAATGA-ACTTTT-CTTCCAATGAATGCCTTTTTCTTCATGTTTCTCGAG
* * * * **
1257 GTAGACATTCAATTACAGTTTGTTT-TAACCCAAAATGTAAAA
126 GTAGA-AATCAATTATAATCTGTTTGTAACAAAAAATGTAAAA
* * * * * * *********
1299 ATATTCAACTGAAAATGAATTATAACATTATAAAACCATTTAAAGTGAGTAATAANNNNNNNNNN
1 A-ATTCAACTTAAAATAAATTATGAGATTATAAAA-CTTTTAAAGCGAGTAATAA-GGCTTTGAA
** * * * * *
1364 GGAATATGTGACTATAAATGGACTTTTCTTGTCGATGAAT-ACTTTTTGCTTCATGTTTCTCTAG
63 GGAATGGGTGACTATAAATGAACTTTTCTT-CCAATGAATGCCTTTTT-CTTCATGTTTCTCGAG
* * * * *
1428 ATAGACATTCAATTATAATTTGTTT-AAACCAAAAATGTATAAAA
126 GTAGA-AATCAATTATAATCTGTTTGTAACAAAAAATG--TAAAA
* * * * * *
1472 AATCCAACTTAAAATCAATTTTGAGATTATAATACCATTTAAA-CTGAGTAATAAGGCTTTTGAN
1 AATTCAACTTAAAATAAATTATGAGATTATAA-AACTTTTAAAGC-GAGTAATAAGGC-TTTGAA
********* * * * *
1536 NNNNNNNNNGACTATAAATGGACTTTTTTTACCAATGGATGCCTTTTTCTTCATGTTTATCGAGG
63 GGAATGGGTGACTATAAATGAACTTTTCTT-CCAATGAATGCCTTTTTCTTCATGTTTCTCGAGG
* * * *
1601 TAGGCAATCAATTATAATCTGTTTGCACCAAAAAA-ATAAAA
127 TA-GAAATCAATTATAATCTGTTTGTAACAAAAAATGTAAAA
* * * *
1642 AATTTAACTTAAAATCAATTATGAGATAATAAAATCTTTTAAAGCGAGTAATAACGCATTTGAAG
1 AATTCAACTTAAAATAAATTATGAGATTATAAAA-CTTTTAAAGCGAGTAATAAGGC-TTTGAAG
* * * *
1707 GAATGGGAGACTATAAATGAACTTTTCTTCCAAATGAATGGCTTGTTCTAT-ATGGTTCTCGAGG
64 GAATGGGTGACTATAAATGAACTTTTCTTCC-AATGAATGCCTTTTTCT-TCATGTTTCTCGAGG
* * * * *
1771 TAAGTATTCAATTATACTCTATTT-TAATAAAAAATGTAAAAA
127 T-AGAAATCAATTATAATCTGTTTGTAACAAAAAATGT-AAAA
* * * * * *
1813 AACTCAACTGAAAATTAATCATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAG
1 AATTCAACTTAAAATAAATTATGAGATTATAAAA-CTTTTAAAGCGAGTAATAAGGC-TTTGAAG
* * * * *
1878 AAATGCGTGGCTATAAATAAACTTTTCTTTCCAATGAATGCCTTTTTCTTCAAT-TTTCTTGAGG
64 GAATGGGTGACTATAAATGAACTTTTC-TTCCAATGAATGCCTTTTTCTTC-ATGTTTCTCGAGG
* *
1942 TAAAAATTTAA-TATAATCTG-TTGTAACAAAAAATGTACAAA
127 TAGAAA-TCAATTATAATCTGTTTGTAACAAAAAATGTA-AAA
* * *
1983 GAATTCAACTTAAAATAAATTTTTAGATTATAAAACTATTTAAAACGAGTAATAAGGCTTATGAA
1 -AATTCAACTTAAAATAAATTATGAGATTATAAAACT-TTTAAAGCGAGTAATAAGGCTT-TGAA
* * * * **
2048 GGAATGGGTGACTATAAATGGATTTTTCTTGCTAATGAATGCTTTTTTTCTTCACATTTCTCGAG
63 GGAATGGGTGACTATAAATGAACTTTTCTT-CCAATGAATGC-CTTTTTCTTCATGTTTCTCGAG
* * * * *
2113 GTAGACATTCAACTATAAGCTATTT-TAACCAAAAATGTGAAAA
126 GTAGA-AATCAATTATAATCTGTTTGTAACAAAAAATGT-AAAA
2156 AA
1 AA
2158 AAATTAAACT
Statistics
Matches: 780, Mismatches: 200, Indels: 93
0.73 0.19 0.09
Matches are distributed among these distances:
166 2 0.00
167 39 0.05
169 39 0.05
170 214 0.27
171 304 0.39
172 135 0.17
173 44 0.06
174 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.34
Consensus pattern (167 bp):
AATTCAACTTAAAATAAATTATGAGATTATAAAACTTTTAAAGCGAGTAATAAGGCTTTGAAGGA
ATGGGTGACTATAAATGAACTTTTCTTCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGA
AATCAATTATAATCTGTTTGTAACAAAAAATGTAAAA
Found at i:2780 original size:172 final size:171
Alignment explanation
Indices: 2390--4262 Score: 1495
Period size: 171 Copynumber: 10.9 Consensus size: 171
2380 NNNNNNNNNN
* * * * *
2390 TAAGGCTTTTGAAAGAATGAGTGACTATAAATAGACTTTTCTTTCCAATGAATGTCTTTTTCTTA
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * * * ** * *
2455 TCGTTTCTCGAGGTAGACATTTAATTATAATATGTTTTAACAAAAAACATAAAAAAATTAAACTG
66 TCATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTT
* * * * *
2520 AAAATCAATTCTAAGATAATAAAACCATTTAAAATGAGTAG
131 AAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* * * *
2561 TAAGGCTTTTGAAGAAATGGGTGGCTATAAATAGACTTTTTTTGCCAATGAATGCCTTTTTTTTC
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * * *
2626 TCATTTCTGAAGGTAGACATTTAATTATAATCTATTTTAACCAAAAATGTATAAAGAATTCAAAT
66 TCATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACT
* * * * *
2691 TGAAATCAATTTTAAGATTATAAAACCATTTAAATTGGGTAC
130 TAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* ** * * *
2733 TAAGGCTTTTAAAAAAATAGGTGACTATAAATGGACCTTTCTTGCCAATGAATGCCTTTTTCTTC
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * *********** * * * *
2798 AC-GTT-TCAATTGCNNNNNNNNNNATTATAATCTATTTTAACTAAAAATGTAAAAATATTTGAA
66 TCATTTCTCAA--GGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAA-AATTCAA
* * *
2861 CTTAAAATTAATTTTGAGATTATAAAACCATTGAATGTGAGTAA
128 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* *
2905 TAAGGCTTTTGAAGTAATGGGTGACTATAAATAGAC-TTTCTTGCCAATGCATGCCTTTTTCTTA
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTT-
* * * * ** * *
2969 AT-ATTTCTTGAA-GTAGATATTGAATTATAATCTGTTTTAACTTAAAATTTAAAAAAATTTAAC
65 CTCATTTC-TCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* * *
3032 TTAAAATCAATTATGAGATTATAAAACCTTTTAATGTGAGTAA
129 TTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* * * * *
3075 TAAAGCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTT-
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * * * * *
3139 TACCTTTTTCAAGGTAAATATTTAATTATAATCTGTTTTAATCAAAAATATAAAAAAATTCAACT
66 T-CATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACT
* * * * * *
3204 CAAAAATCAATTATAAGATTATAAAACCTTTTAAAGCGAGTCA
130 -TAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* * * *
3247 TAAGGCTTTTGAAAGAATGGGTGACTATAAAT-GAACTTTTATTGCAAATGAATCCCTTTTTCTT
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAATGCCTTTTTCTT
* ** * *
3311 CAT-GTTTCTTTAGGTAGACATTCAATTATAATCTGTTCTAACAAAAAATGTGAAAAAAA-T-AG
65 C-TCATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAAAATTCA-
* * * * * **
3373 ACCTAAAATTAGTTATGAGATTATAAAACCCTTTAAAACGAGTAA
127 ACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
********** * *
3418 TAAGGCTTTTGAAGGAATGGGTGACTANNNNNNNNNNTTTCTTGTCAATGAATGTCTTTTTCTTC
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * * * * * * *
3483 AT-GTTTCTCAAGATAGATATTCAATTATAATCTATTTTAACAAAAAATATATAAAGAACTCAAA
66 -TCATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAAC
* *
3547 TTAAAGTTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
129 TTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* * * * * **
3590 TAAGGCTTTTGATGAAACGGGTGACTATAAATAGACTTTCCTTACCAATGAATATCTTTTTCTTC
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * * * * *
3655 -GAGTTTCTCAAGGTAGACACTCAATAATAATCTATTTTAACCAAAAATATAAAAAAATTTAAAT
66 TCA-TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAA-TTCAAC
* *
3719 TTCAAATCAATGTTGAGATTATAAAACCATTTAAAGTGAGTAA
129 TTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* * ********** * * *
3762 TAAAGCTTTTGATGGANNNNNNNNNNATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTC
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * * * *
3827 ACGTTTC-CTAGGGCAGAGC-TTCAATTATAATCTGTTATAACCAAAAATGTAAAAAAATTTAAC
66 TCATTTCTC-AAGGTAGA-CATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAAC
* **
3890 TTAAAATCAATTATT-ATG-CTATAAAACCATTTAAAGCAAGTAA
129 TTAAAATCAATT-TTGA-GATTATAAAACCATTTAAAGTGAGTAA
* ********** * * * *
3933 TAAGGCTTTCGAANNNNNNNNNNACTATAAATGGACTTTT-TGTGCTAATGGATGGCTTTTTCTT
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCT-TGCCAATGAATGCCTTTTTCTT
* * * * * * *
3997 -T-ATATTCCCTAAGGCAGACATTTAATTATAACCTTTTTTAATCAAACATGTAAAAAAATTCAA
65 CTCAT-TTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAA
* * * *
4060 CTTAAAATCAATTATAAGATTATGAAACCATTTAAACTGAGTAA
128 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
* * ** * * *
4104 TAAGGCTTTTGAGGGAATGAGCAACAATAAATAGACTTTTCTTGCCAATGAATGCCATTTT-TTA
1 TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
* * * *
4168 ACATTTCTCAAGATAGACATTCAGTTATAATCTGTTTT-ACTCAAAAATGTACAAAGAATTCAAA
66 TCATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAC-CAAAAATGTA-AAAAAATTC-AA
*
4232 C-TAAAATCAATTTTGAGATTATAAAATCATT
128 CTTAAAATCAATTTTGAGATTATAAAACCATT
4263 NNNNNNNNNN
Statistics
Matches: 1362, Mismatches: 298, Indels: 84
0.78 0.17 0.05
Matches are distributed among these distances:
169 3 0.00
170 124 0.09
171 615 0.45
172 607 0.45
173 9 0.01
174 4 0.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.36
Consensus pattern (171 bp):
TAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTC
TCATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTT
AAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAA
Found at i:3462 original size:343 final size:339
Alignment explanation
Indices: 2394--4262 Score: 1255
Period size: 343 Copynumber: 5.5 Consensus size: 339
2384 NNNNNNTAAG
* * *
2394 GCTTTTGAAAGAATGAG-TGACTATAAATAGACTTTTCTT-TCCAATGAATGTCTTTTTCTT-AT
1 GCTTTTGAAGGAAT-AGCTGACTATGAATAGACTTTTCTTGT-CAATGAATGCCTTTTTCTTCA-
* * * * * * * * * * *
2456 CGTTTCTCGAGGTAGACATTTAATTATAATATGTTTTAACAAAAAACATAAAAAAATTAAACTGA
63 CCTTTCTCAAGATAAATATTCAATTATAATCTATTTTAACAAAAAATATAAAAAAATTCAACTTA
* * * * * * *
2521 AAATCAATTCTAAGATAATAAAACCATTTAAAATGAGTAGTAAGGCTTTTGAAGAAATGGGTGGC
128 AAATTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGAC
* * * * * *
2586 TATAAATAGACTTTTTTTGCCAATGAATGCCTTTTTTTTC-TCATTTCTGAAGGTAGACATTTAA
193 TATAAATAGACTTTTCTTGCCAATGAATACCTTTTTCTTCAT-GTTTCTTAAGGTAGACATTCAA
* * * ** * * *
2650 TTATAATCTATTTTAACCAAAAATGTATAAAGAATTCAAATTGAAATCAATTTTAAGATTATAAA
257 TTATAATCTGTTTTAACAAAAAAT-TA-AAA-AAAT-AACCTAAAATCAATTATGAGATTATAAA
* ** * * *
2715 ACCATTTAAATTGGGTACTAAG
318 ACCCTTTAAAACGAGTAATAAA
* ** * * * * * *
2737 GCTTTTAAAAAAATAGGTGACTATAAATGGACCTTTCTTGCCAATGAATGCCTTTTTCTTCA-CG
1 GCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACCT
*********** * * * *
2801 TT-TCAATTGCNNNNNNNNNNATTATAATCTATTTTAACTAAAAATGTAAAAATATTTGAACTTA
66 TTCTCAA--GATAAATATTCAATTATAATCTATTTTAACAAAAAATATAAAAA-AATTCAACTTA
* * *
2865 AAATTAATTTTGAGATTATAAAACCATTGAATGTGAGTAATAAGGCTTTTGAAGTAATGGGTGAC
128 AAATTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGAC
* * * * * *
2930 TATAAATAGAC-TTTCTTGCCAATGCATGCCTTTTTCTTAATATTTCTTGAA-GTAGATATTGAA
193 TATAAATAGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTT-AAGGTAGACATTCAA
* * *
2993 TTATAATCTGTTTTAACTTAAAATTTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAA
257 TTATAATCTGTTTTAAC-AAAAAATTAAAAAAA--TAACCTAAAATCAATTATGAGATTATAAAA
* ***
3058 CCTTTTAATGTGAGTAATAAA
319 CCCTTTAAAACGAGTAATAAA
*
3079 GCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTTACCT
1 GCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACCT
* * * * *
3144 TTTTCAAGGTAAATATTTAATTATAATCTGTTTTAATC-AAAAATATAAAAAAATTCAACTCAAA
66 TTCTCAAGATAAATATTCAATTATAATCTATTTTAA-CAAAAAATATAAAAAAATTCAACT-TAA
* * * * * *
3208 AATCAATTATAAGATTATAAAACCTTTTAAAGCGAGTCATAAGGCTTTTGAA-AGAATGGGTGAC
129 AATTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGA-AATGGGTGAC
* * * *
3272 TATAAAT-GAACTTTTATTGCAAATGAATCCCTTTTTCTTCATGTTTCTTTAGGTAGACATTCAA
193 TATAAATAG-ACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTAAGGTAGACATTCAA
* * *
3336 TTATAATCTGTTCTAACAAAAAATGTGAAAAAAATAGACCTAAAATTAGTTATGAGATTATAAAA
257 TTATAATCTGTTTTAACAAAAAAT-T-AAAAAAATA-ACCTAAAATCAATTATGAGATTATAAAA
*
3401 CCCTTTAAAACGAGTAATAAG
319 CCCTTTAAAACGAGTAATAAA
* * ********** * **
3422 GCTTTTGAAGGAATGGGTGACTANNNNNNNNNNTTTCTTGTCAATGAATGTCTTTTTCTTCATGT
1 GCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACCT
* * * *
3487 TTCTCAAGATAGATATTCAATTATAATCTATTTTAACAAAAAATATATAAAGAACTCAAATTAAA
66 TTCTCAAGATAAATATTCAATTATAATCTATTTTAACAAAAAATATA-AAAAAATTCAACTTAAA
* * *
3552 GTTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGATGAAACGGGTGACTA
130 ATTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGACTA
* * * * * *
3617 TAAATAGACTTTCCTTACCAATGAATATCTTTTTCTTCGA-GTTTCTCAAGGTAGACACTCAATA
195 TAAATAGACTTTTCTTGCCAATGAATACCTTTTTCTTC-ATGTTTCTTAAGGTAGACATTCAATT
* * ** *
3681 ATAATCTATTTTAACCAAAAATATAAAAAAATTTAAATTTCAAATCAATGT-TGAGATTATAAAA
259 ATAATCTGTTTTAACAAAAAAT-TAAAAAAA--T-AACCTAAAATCAAT-TATGAGATTATAAAA
* **
3745 CCATTTAAAGTGAGTAATAAA
319 CCCTTTAAAACGAGTAATAAA
* ********** * * ** * *
3766 GCTTTTGATGGANNNNNNNNNNATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTCACGT
1 GCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACCT
* ** * ** * * * * *
3831 TTC-CTAGGGCAGAGCTTCAATTATAATCTGTTATAACCAAAAATGTAAAAAAATTTAACTTAAA
66 TTCTC-AAGATAAATATTCAATTATAATCTATTTTAACAAAAAATATAAAAAAATTCAACTTAAA
* * ** * **********
3895 ATCAATTATT-ATG-CTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAANNNNNNNNNNAC
130 ATTAATT-TTGA-GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGAC
* * * ** * * * * * *
3958 TATAAATGGACTTTT-TGTGCTAATGGATGGCTTTTTCTTTATATTCCCTAAGGCAGACATTTAA
193 TATAAATAGACTTTTCT-TGCCAATGAATACCTTTTTCTTCATGTTTCTTAAGGTAGACATTCAA
* * * * * *
4022 TTATAACCTTTTTTAATC-AAACATGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATGAA
257 TTATAATCTGTTTTAA-CAAAAAAT-TAAAAAAA-T-AACCTAAAATCAATTATGAGATTATAAA
* *
4086 ACCATTT-AAACTGAGTAATAAG
318 ACCCTTTAAAAC-GAGTAATAAA
* * * * * * * *
4108 GCTTTTGAGGGAATGAGC-AACAATAAATAGACTTTTCTTGCCAATGAATGCCATTTT-TTAACA
1 GCTTTTGAAGGAAT-AGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACC
* * * * * * *
4171 TTTCTCAAGATAGACATTCAGTTATAATCTGTTTT-ACTCAAAAATGTACAAAGAATTCAAAC-T
65 TTTCTCAAGATAAATATTCAATTATAATCTATTTTAAC-AAAAAATATA-AAAAAATTC-AACTT
* *
4234 AAAATCAATTTTGAGATTATAAAATCATT
127 AAAATTAATTTTGAGATTATAAAACCATT
4263 NNNNNNNNNN
Statistics
Matches: 1198, Mismatches: 282, Indels: 93
0.76 0.18 0.06
Matches are distributed among these distances:
340 2 0.00
341 59 0.05
342 325 0.27
343 585 0.49
344 225 0.19
345 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.36
Consensus pattern (339 bp):
GCTTTTGAAGGAATAGCTGACTATGAATAGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACCT
TTCTCAAGATAAATATTCAATTATAATCTATTTTAACAAAAAATATAAAAAAATTCAACTTAAAA
TTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGACTAT
AAATAGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTAT
AATCTGTTTTAACAAAAAATTAAAAAAATAACCTAAAATCAATTATGAGATTATAAAACCCTTTA
AAACGAGTAATAAA
Found at i:5486 original size:171 final size:167
Alignment explanation
Indices: 4645--5489 Score: 640
Period size: 171 Copynumber: 4.9 Consensus size: 167
4635 NNNNNNNNNN
* * * ** *
4645 TTGAAGGAATAGGTGAATATAAATGGACTTTTTCTGCCAATGAATGCCTTTTTCTTCACATTTCT
1 TTGAAAGAATAGGTGACTATAAATGAAC-TTTTCTTTCAATGAATGCCTTTTTCTTAAC-TTTCT
* * *
4710 CAAGGTAGACATTCAATTATAGTTTGATTTAACCCAAAATGTA-AAATAATTCAACTAAAAATCA
64 CAAGGTAGACATTCAATTATAATCTG-TTTAA-CCAAAATGTATAAA-AATTCAACTTAAAATCA
* **********
4774 ATTATGACATTATAAAACTATTTAAAGNNNNNNNNNNGGCTT
126 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTT
* * * * *
4816 TTGAAAGAATAGGTGACTATAAATGGACTTTTCTTGTCGATGATTGCTTTTTTCTTTACGTTTCT
1 TTGAAAGAATAGGTGACTATAAATGAACTTTTCTT-TCAATGAATGCCTTTTTCTTAAC-TTTCT
* * *
4881 CTAGATAGACATTCAATTATAATCTGTTTAAACTAAAAATGTATAAAAACTTCAACTTAAAATCA
64 CAAGGTAGACATTCAATTATAATCTGTTT-AAC-CAAAATGTATAAAAA-TTCAACTTAAAATCA
* **********
4946 ATTTTGAGATTATAAAACTATTNNNNNNNNNNAATAAGGCTT
126 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTT
* * * * **
4988 TTGAAAGAAT-GAGTGACTATAAATGGACTTTTTTTTGCCAATGGATGTCTTTTTCTTCATGTTT
1 TTGAAAGAATAG-GTGACTATAAATGAACTTTTCTTT--CAATGAATGCCTTTTTCTT-AACTTT
* * * * ** * * *
5052 ATCAAGGTAGGCAATCAATTATAATCTGTTTTCACCAAAA-AAATAAACAATTTAACCTAAACTC
62 CTCAAGGTAGACATTCAATTATAATCTG-TTTAACCAAAATGTATAAA-AATTCAACTTAAAATC
* * * * *
5116 AATTATGAGATAATAAAACTTTTTAAAACGAGTGATAACG-TAT
125 AATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT-T
* * * * * * *
5159 TTGAAGGAATGGGAGACTATAAATGAACTTTTCTTCCAAATGAATGGCTTTTT-GTACATGTTTC
1 TTGAAAGAATAGGTGACTATAAATGAACTTTTCTTTC-AATGAATGCCTTTTTCTTA-A-CTTTC
** * * * * * * * *
5223 TTGAGGCA-AGCATTCAATTATACTCTATTTTAACAAAAAATGTAAAAAAACTCAACTGAAAATT
63 TCAAGGTAGA-CATTCAATTATAATCT-GTTTAAC-CAAAATGTATAAAAATTCAACTTAAAATC
* *
5287 AATGATGAGATTATAAAACTATTTAAAGCTAGTAATAAGGCTT
125 AATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTT
* * *
5330 TTGAAAAAATAGGTGGCTATAAATAAACTTTTCTTTCTAATGAATGCCTTTTTCTTGAACTTTCT
1 TTGAAAGAATAGGTGACTATAAATGAACTTTTCTTTC-AATGAATGCCTTTTTCTT-AACTTTCT
* *
5395 CGAGGTAAACATTCAATTATAATCTGTTGTAACCAAAATGTATAAAGAATTCAACTTAAAATCAA
64 CAAGGTAGACATTCAATTATAATCTGTT-TAACCAAAATGTATAAA-AATTCAACTTAAAATCAA
* *
5460 TTTTTAGATTATAAAACTATTTAAAGCGAG
127 TTATGAGATTATAAAACTATTTAAAGCGAG
5490 NNNNNNNNNN
Statistics
Matches: 526, Mismatches: 122, Indels: 52
0.75 0.17 0.07
Matches are distributed among these distances:
168 1 0.00
169 2 0.00
170 65 0.12
171 318 0.60
172 94 0.18
173 43 0.08
174 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (167 bp):
TTGAAAGAATAGGTGACTATAAATGAACTTTTCTTTCAATGAATGCCTTTTTCTTAACTTTCTCA
AGGTAGACATTCAATTATAATCTGTTTAACCAAAATGTATAAAAATTCAACTTAAAATCAATTAT
GAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTT
Found at i:6257 original size:172 final size:170
Alignment explanation
Indices: 5603--9345 Score: 1907
Period size: 172 Copynumber: 21.8 Consensus size: 170
5593 NNNNNNNNNN
* * * * *
5603 ATTATAATATGTTTTAACCAAAAATGTAAAAAAATTTAACTTAAAATCAATTATAAAATTATATA
1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
** * * * ********** * *
5668 ACTTTTTAAAACGAGTAATAAGGCTTTTGAAGGNNNNNNNNNNTATAAATGGACTTTTCTTACCA
66 ACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTACTA
* * * *
5733 ATGAATGTCTTTTTCTTCATGTTTGTCGAGGTAGACATTCA
131 ATGAATGCCTTTTTCTTCACGTTT-CCTAGGTAGACATTCA
* * * **********
5774 ACTATAAACTGTTTTAACCAAAAATGTGAAAAAAAATTAAACTTAAAATCAATTNNNNNNNNNNA
1 ATTATAATCTGTTTTAACCAAAAATGT--AAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * *
5839 AAACCATTTAAAG-TGAGTAATAAGGTTTTTGATAGAATGGGTGATTATAAATAGACTTTTCTTG
64 AAACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTA
* * * * *
5903 CTAAT-ACATACCTTTTTCTTCATGTTTCCCATGGCAGAAATTCA
128 CTAATGA-ATGCCTTTTTCTTCACGTTTCCTA-GGTAGACATTCA
* * * ** * *
5947 ATTATAATATGTTTTAACTAAAAATGTACAAAGAATTTGACTTAAAATCGATTTTGAGATTATAA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * ** * ********** *
6012 AGCCATTTAAAGCTAGTAATGAGTATTTT-AAAGGAATAGGTGACTATAAANNNNNNNNNNTT-G
65 AACCATTTAAAGCTAGTAATAAGGCTTTTGAAA-GAATGGGTGACTATAAATAGACTTTTCTTAC
* *
6075 TCAATGAATGCCTTTTTCTTCAGGTTTCGCTAGGTAGGCATTCA
129 T-AATGAATGCCTTTTTCTTCACGTTTC-CTAGGTAGACATTCA
* * * *
6119 ATTATAATCTGTTGTAACCAAAAATGTACAAAGAATTCAATTTAAAATCAATTTTGAGATTATAA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * * * * *
6184 AATCATTGAAACCTAGTAATAAGACTTTTGAAAGAATGAGTGATTATAAATTGACTTTTTTTACT
65 AACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTACT
* * * *
6249 AGTGAATGCCTTTTTCTTCACGTTTCTTGAAGTACACATTCA
130 AATGAATGCCTTTTTCTTCACGTTTCCT-AGGTAGACATTCA
* * * **
6291 ATTATAATATGTTTTCACCAAACAA-ATAAAAAAA-TCAACTTAAAATCAATTATGAGA-TANNN
1 ATTATAATCTGTTTTAACCAAA-AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTA-TA
******* * * * * * *
6353 NNNNNNNTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGTGAGACTATAAATAGACATTTCTTCC
64 AAACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTAC
* * * *
6418 AAATGAATGACTTTTT-TTACACGTTT-CTAGAGGCAGGCATTCA
129 TAATGAATGCCTTTTTCTT-CACGTTTCCT--AGGTAGACATTCA
* * * *
6461 ATTATAGTCTATTTTAA-TAGAAAATGTAAAAAACTTCAACTTAAAATCAATTATGAGATTATAA
1 ATTATAATCTGTTTTAACCA-AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
********** * * * * *
6525 ANNNNNNNNNNGCGAGTAATAAGGCTTTTGAAGGAATGGGTGGCCATAAAT-GAACTTTTCTTGC
65 AACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTAC
* * ** * * *
6589 CAATGAATTCCTTTTTCTTCAAATTTCTCGATA-TTA-AAATTTA
129 TAATGAATGCCTTTTTCTTCACGTTTC-C--TAGGTAGACATTCA
* * * * *
6632 ATTATAATCTGTTATT-ACCAAAAATGTACAAAGAATTCAACTTAAAATTAATTTTTAGATTACA
1 ATTATAATCTGTT-TTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * ***********
6696 AAACTATTTAAAGCGAGTAATAAGGCTTTNNNNNNNNNNAGTGACTATAAATAGACTTTTCTTAG
64 AAACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTA-
* * * **
6761 C-AATGAATG--TTGTTTTTTCACGTTTATCGACATAGACATTCA
128 CTAATGAATGCCTT-TTTCTTCACGTTT-CCTAGGTAGACATTCA
** * * * * *
6803 ATTATAATCCATTTTAACCAAAAATGTAAAAAAAATTAAACTTAAAATTAATTTTAAAATTATAA
1 ATTATAATCTGTTTTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTAT-A
* * * * * *
6868 AAACCTTTTAAACACGAGTAATAAGGCTATTGAGACTGAATGGG-GACTAT--A-GGACTTTTCT
64 AAACCATTTAAA-GCTAGTAATAAGGCTTTTGA-A-AGAATGGGTGACTATAAATAGACTTTTCT
* * * * * *
6929 TGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTTA
126 TACTAATGAATGCCTTTTTCTTCACGTTTCCT-AGGTAGACATTCA
* * ** * * *
6975 ACTATAATCCGTTTTAATAAAAAATGTGAAAAAAA---AAATTAAAATCAATT-TTACGTTTATA
1 ATTATAATCTGTTTTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGA-GATTATA
** * * * * * *
7036 AAACCATTTAAA-CTGAGTAATAAGGCTTTTGATTGAAAGGTTGATTGTAAATGGACTTTTTTTA
64 AAACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTA
* * * * * *
7100 CCAATGGAT-ACTTTTTCTTCACGTTTCCCATTGTAGAGATTCA
128 CTAATGAATGCCTTTTTCTTCACGTTTCCTA-GGTAGACATTCA
* * ** *
7143 ATTATAATCTGTTCTAACCAAAAATATAAAAAAATTTGACTTAAAATCGATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
************ * * * * *
7208 ACCATTTAAAGCGNNNNNNNNNNATTTTGAAGGAATGGGTGACTATAAATAAACTTTGTTTTGCC
66 ACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTT-TCTTACT
* * *
7273 AATGAATGCCTTTTTTTTCACATTTCTCGAGGTAGACATTCA
130 AATGAATGCCTTTTTCTTCACGTTTC-CTAGGTAGACATTCA
* * * ** * * **
7315 ATTATAATTTGTTTTAACAAAAAATGTACAAAGAATTCAAAGTAAAATCAATTTTAAGATTGCAA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * *
7380 AACCATTTAAAG-TGAGTAATAAGGCTTTTAAAAGAATGCGTGACTATAAAT-GAACTTTTCTTT
65 AACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTA
* * *
7443 CTAATTAATG-CTTTTTCCTTCACGTTTCTTGAGGTAGATATTCA
128 CTAATGAATGCCTTTTT-CTTCACGTTTCCT-AGGTAGACATTCA
* * * * * * * *
7487 AGTATAATCTGTTTTAACTAAAAATGTACAAAGAGTTCAAATTGAAATCAATTTTGAGAGTATAA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
********** * *
7552 AACCATTTAAAG-TGAGTAATNNNNNNNNNNAAGGAATGGGTGACTGTAAATAGACTTTTCTTAC
65 AACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTAC
* ** * * * *
7616 CAATGAACACTTTTTTCTTCATGCTTCCCAAAGG-AGACATTCA
129 TAATGAATGCCTTTTTCTTCACG-TTTCC-TAGGTAGACATTCA
* ** *
7659 ATTATAATAC-GTTCTAATGAAAAATATAAAAAAATTCAA-TCTAAAATCAATTATGAGATTATA
1 ATTATAAT-CTGTTTTAACCAAAAATGTAAAAAAATTCAACT-TAAAATCAATTATGAGATTATA
* ********** * * * *
7722 AAACTATNNNNNNNNNNTAATAATGCTTTCGAAGGAATGGGTGACTATAAAT-GACATTTTCTTG
64 AAACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGAC-TTTTCTTA
* * * * *
7786 CTAATGAATACCTTTCTCTTCATGTTTTCCAAGGCAGACATTCA
128 CTAATGAATGCCTTTTTCTTCACG-TTTCCTAGGTAGACATTCA
* * * * *
7830 ATTATAATCTGTTCTAACTAAAAATGTAAAAAAATTCTACCTAAAATCAATTATGAGATTATTAA
1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
** * *
7895 ACCATTTAAAGAGAGTAACAAGGCTTTT-AAAGGAATGAGG-GA-TAATAAATGGACTTTTCTTA
66 ACCATTTAAAGCTAGTAATAAGGCTTTTGAAA-GAATG-GGTGACT-ATAAATAGACTTTTCTTA
* * * * * *
7957 -TCAATGTATGTCTTTTTCTTCACATTTTTCAAGGTCGACATTCA
128 CT-AATGAATGCCTTTTTCTTCAC-GTTTCCTAGGTAGACATTCA
* * * *
8001 ATTATAATTTCT-TTTTAACCAAAAATGTATAAAGAATTCAAAC-GAAAATCAATTTTGACATTA
1 ATTATAA--TCTGTTTTAACCAAAAATGTA-AAAAAATTC-AACTTAAAATCAATTATGAGATTA
* * * * *
8064 GAAAATCATTTAAAG-TGAGTAATAAGGCTTTTAAAAGAAAGGGTGACTATAAATGGACTTTTCT
62 TAAAACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCT
* * *
8128 TAGCT-ATGAATGCCTTTTTAC-TCACATTTTACTAAGTAGACATTCA
126 TA-CTAATGAATGCCTTTTT-CTTCAC-GTTTCCTAGGTAGACATTCA
* * * *
8174 ATTATAATATGTTTTAACAAAAAATGTACAAAGAACTCAACTTAAAATCAATTATGAGATTATAA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* ********* * *
8239 AAGCATTTAAAG-TNNNNNNNNNNGCTTTTGAAAGAATGGGTAACTATAAAT-GAACTTTTCTTG
65 AACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTA
* * * * * *
8302 CTAATGGATACCTTTTTCTTCAAGTTTCCCATGG-CGATGATTCA
128 CTAATGAATGCCTTTTTCTTCACGTTTCCTA-GGTAGA-CATTCA
* * * * * ********** **
8346 ATCATAGTCCGTTCTAACCAAAAATATAANNNNNNNNNNCTTAAAATGGATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * ** * * *
8411 ATCATTTAATGCGAGTAATCAGGCTTTCAAAAGAATGAGTGACTACAAAT-GAACTTTTCTTGCC
66 ACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTT-AC
* * * *
8475 T-ATGAATGCCTTTTGCTTCATGTTTTACTAGGTAAACATTCA
129 TAATGAATGCCTTTTTCTTCACG-TTTCCTAGGTAGACATTCA
* *
8517 ATTATAATCTGTTTTAACTAAAAATGTACAAAAAATTTAACTTAAAATCAAATT-TGAGATTATA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATC-AATTATGAGATTATA
* * * * * * *
8581 AAACCATTTAAACCGAGTAATATGACTTTTCAAAGAATGGGTGACTATAAATGGACTTTT-TTAG
64 AAACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTAC
* * *
8645 TCAATGAATGCCTTTTTCTTTACATTTCTCGAGGTA-AGCATTCA
129 T-AATGAATGCCTTTTTCTTCACGTTTC-CTAGGTAGA-CATTCA
* * ** *
8689 ATTATAATCTGTTTTCACTAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATAATAAA
1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* ** * *
8754 A-CATTTTAAAGCGT-GTAATAAGACTTTTGATGGAATGAGAGACTATAAATAGACTTTTCTT-C
66 ACCA-TTTAAAGC-TAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTAC
* * * * * * * * *
8816 CAATTAAATGGCTTTTTCTACATGTTTCTCAAAGCAGGCATTCA
129 TAA-TGAATGCCTTTTTCTTCACGTTTC-CTAGGTAGACATTCA
** * * *
8860 ATTATGGTCTATTTTAA-CAGAAAATGTAAAAAAACTCAACTTAAAATCAATGATGAGATTATAA
1 ATTATAATCTGTTTTAACCA-AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* ********************** * * * *
8924 AACTATTTAGNNNNNNNNNNNNNNNNNNNNNAGGAATAGGTGGCTATAAAT-GAACTTTTCTTGC
65 AACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAG-ACTTTTCTTAC
* * * * *
8988 CAATGAATGCCTTTTTCTTCAAGTTTCTCAAGGTAAAAATTCA
129 TAATGAATGCCTTTTTCTTCACGTTTC-CTAGGTAGACATTCA
* ** * * *
9031 ATTATAATCTGTTGTAATAAAAAATGTACAAAGAATTC-ACTTAAAATCAATTTTTAGATTATAA
1 ATTATAATCTGTTTTAACCAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * ********** * *
9095 AACTATTTAAAG-TGAGTAATAAAGCNNNNNNNNNNATGAGTGACTATAAATAGACTTTTCTTGC
65 AACCATTTAAAGCT-AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTAC
* ** * * * * * * *
9159 CAACAAATACTTTTTTCTCTTCATGTTTTTCGAGATAGACAATCA
129 TAATGAATGC-CTTTT-TCTTCACG-TTTCCTAGGTAGACATTCA
* * * * *
9204 ATTGTAATCTGTTTTAACCAAAAATGTAAAAAAATTTAACTTAAAATAAATTATAAAATTATAAA
1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * * * * * * *
9269 ACCTTTTAAAACAAGTAATAAGACTTTTGAAGGAATGGATGATTATAAATGGACTTTTCTTGCCA
66 ACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTACTA
*
9334 ATGAATGTCTTT
131 ATGAATGCCTTT
9346 NNNNNNNNNN
Statistics
Matches: 2687, Mismatches: 752, Indels: 265
0.73 0.20 0.07
Matches are distributed among these distances:
165 6 0.00
166 5 0.00
167 24 0.01
168 61 0.02
169 44 0.02
170 206 0.08
171 924 0.34
172 929 0.35
173 469 0.17
174 16 0.01
175 3 0.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.34
Consensus pattern (170 bp):
ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
ACCATTTAAAGCTAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTACTA
ATGAATGCCTTTTTCTTCACGTTTCCTAGGTAGACATTCA
Found at i:7930 original size:171 final size:171
Alignment explanation
Indices: 5603--9345 Score: 1994
Period size: 171 Copynumber: 21.8 Consensus size: 171
5593 NNNNNNNNNN
* * * * * *
5603 ATTATAATATGTTTTAACCAAAAATGTAAAAAAATTTAACTTAAAATCAATTATAAAATTATATA
1 ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
** * * ********** * * *
5668 ACTTTTTAAAACGAGTAATAAGGCTTTTGAAGGNNNNNNNNNNTATAAATGGACTTTTCTTACCA
66 ACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTA
* *
5733 ATGAATGTCTTTTTCTTCATGTTTGT-CGAGGTAGACATTCA
131 ATGAATGCCTTTTTCTTCATGTTT-TCCAAGGTAGACATTCA
* * * * **********
5774 ACTATAAACTGTTTTAACCAAAAATGTGAAAAAAAATTAAACTTAAAATCAATTNNNNNNNNNNA
1 ATTATAATCTGTTTTAACTAAAAATGT--AAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * *
5839 AAACCATTTAAAGTGAGTAATAAGGTTTTTGATA-GAATGGGTGATTATAAATAGACTTTTCTTG
64 AAACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTG
* * * * *
5903 CTAAT-ACATACCTTTTTCTTCATGTTTCCCATGGCAGAAATTCA
128 CTAATGA-ATGCCTTTTTCTTCATGTTTTCCAAGGTAGACATTCA
* * ** * *
5947 ATTATAATATGTTTTAACTAAAAATGTACAAAGAATTTGACTTAAAATCGATTTTGAGATTATAA
1 ATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * ** * **********
6012 AGCCATTTAAAGCTAGTAATGAGTATTTTAAAGGAATAGGTGACTATAAANNNNNNNNNNTTG-T
65 AACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCT
* * *
6076 CAATGAATGCCTTTTTCTTCA-GGTTTCGCTAGGTAGGCATTCA
130 -AATGAATGCCTTTTTCTTCATGTTTTC-CAAGGTAGACATTCA
* * * * *
6119 ATTATAATCTGTTGTAACCAAAAATGTACAAAGAATTCAATTTAAAATCAATTTTGAGATTATAA
1 ATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * * * * * * *
6184 AATCATTGAAACCTAGTAATAAGACTTTTGAAA-GAATGAGTGATTATAAATTGACTTTTTTTAC
65 AACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTTGC
* * ** *
6248 TAGTGAATGCCTTTTTCTTCACGTTTCTTGAA-GTACACATTCA
129 TAATGAATGCCTTTTTCTTCATGTTT-TCCAAGGTAGACATTCA
* * * * **
6291 ATTATAATATGTTTTCACCAAACAA-ATAAAAAAA-TCAACTTAAAATCAATTATGAGA-TANNN
1 ATTATAATCTGTTTTAACTAAA-AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTA-TA
******* * * * * *
6353 NNNNNNNTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGTGAGACTATAAATAGACATTTCTTCC
64 AAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGC
* * * * * *
6418 AAATGAATGACTTTTT-TTACACG-TTTCTAGAGGCAGGCATTCA
129 TAATGAATGCCTTTTTCTT-CATGTTTTCCA-AGGTAGACATTCA
* * *
6461 ATTATAGTCTATTTTAA-TAGAAAATGTAAAAAACTTCAACTTAAAATCAATTATGAGATTATAA
1 ATTATAATCTGTTTTAACTA-AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
********** * * *
6525 ANNNNNNNNNNGCGAGTAATAAGGCTTTTGAAGGAATGGGTGGCCATAAAT-GAACTTTTCTTGC
65 AACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGC
* * ** * * * *
6589 CAATGAATTCCTTTTTCTTCAAATTTCTCGATA-TTA-AAATTTA
129 TAATGAATGCCTTTTTCTTCATGTTT-TCCA-AGGTAGACATTCA
* * * * * *
6632 ATTATAATCTGTTATT-ACCAAAAATGTACAAAGAATTCAACTTAAAATTAATTTTTAGATTACA
1 ATTATAATCTGTT-TTAACTAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATA
* ***********
6696 AAACTATTTAAAGCGAGTAATAAGGCTTTNNNNNNNNNNAGTGACTATAAATAGACTTTTCTTAG
64 AAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTT-G
* * *
6761 C-AATGAATG--TTGTTTTTTCACGTTTATCGACA--TAGACATTCA
128 CTAATGAATGCCTT-TTTCTTCATGTTT-TCCA-AGGTAGACATTCA
** * * * * * *
6803 ATTATAATCCATTTTAACCAAAAATGTAAAAAAAATTAAACTTAAAATTAATTTTAAAATTATAA
1 ATTATAATCTGTTTTAACTAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTAT-A
* * * ** *
6868 AAACCTTTTAAACACGAGTAATAAGGCTATTGAGACTGAATGGG-GACTAT--A-GGACTTTTCT
64 AAACCATTTAAA-GCGAGTAATAAGGCT-TTTA-AAGGAATGGGTGACTATAAATAGACTTTTCT
* * ** *
6929 TGCCAATGAATACCTTTTTCTTCATG-TTTCTTGAGGTAGACATTTA
126 TGCTAATGAATGCCTTTTTCTTCATGTTTTC-CAAGGTAGACATTCA
* * * * *
6975 ACTATAATCCGTTTTAA-TAAAAAATGTGAAAAAAA---AAATTAAAATCAATT-TTACGTTTAT
1 ATTATAATCTGTTTTAACT-AAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGA-GATTAT
* ** * * * * * *
7035 AAAACCATTTAAA-CTGAGTAATAAGGCTTTTGATTGAAAGGTTGATTGTAAATGGACTTTTTTT
63 AAAACCATTTAAAGC-GAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTT
* * * * * * ** *
7099 ACCAATGGAT-ACTTTTTCTTCACGTTTCCCATTGTAGAGATTCA
127 GCTAATGAATGCCTTTTTCTTCATGTTTTCCAAGGTAGACATTCA
* * * ** *
7143 ATTATAATCTGTTCTAACCAAAAATATAAAAAAATTTGACTTAAAATCGATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
*********** * * * *
7208 ACCATTTAAAGCGNNNNNNNNNNATTTTGAAGGAATGGGTGACTATAAATAAACTTTGTTTTGCC
66 ACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTT-TCTTGCT
* ** *
7273 AATGAATGCCTTTTTTTTCA-CATTTCTCGAGGTAGACATTCA
130 AATGAATGCCTTTTTCTTCATGTTTTC-CAAGGTAGACATTCA
* * * ** * * **
7315 ATTATAATTTGTTTTAACAAAAAATGTACAAAGAATTCAAAGTAAAATCAATTTTAAGATTGCAA
1 ATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * *
7380 AACCATTTAAAGTGAGTAATAAGGCTTTTAAAAGAATGCGTGACTATAAAT-GAACTTTTCTTTC
65 AACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGC
* * ** *
7444 TAATTAATG-CTTTTTCCTTCACG-TTTCTTGAGGTAGATATTCA
129 TAATGAATGCCTTTTT-CTTCATGTTTTC-CAAGGTAGACATTCA
* * * * * * *
7487 AGTATAATCTGTTTTAACTAAAAATGTACAAAGAGTTCAAATTGAAATCAATTTTGAGAGTATAA
1 ATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* ********** * * *
7552 AACCATTTAAAGTGAGTAATNNNNNNNNNNAAGGAATGGGTGACTGTAAATAGACTTTTCTTACC
65 AACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCT
** * * *
7617 AATGAACACTTTTTTCTTCATGCTTCCCAAAGG-AGACATTCA
130 AATGAATGCCTTTTTCTTCATGTTTTCC-AAGGTAGACATTCA
* *
7659 ATTATAATAC-GTTCTAA-TGAAAAATATAAAAAAATTCAA-TCTAAAATCAATTATGAGATTAT
1 ATTATAAT-CTGTTTTAACT-AAAAATGTAAAAAAATTCAACT-TAAAATCAATTATGAGATTAT
* ********** * **
7721 AAAACTATNNNNNNNNNNTAATAATGCTTTCGAAGGAATGGGTGACTATAAAT-GACATTTTCTT
63 AAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGAC-TTTTCTT
* * *
7785 GCTAATGAATACCTTTCTCTTCATGTTTTCCAAGGCAGACATTCA
127 GCTAATGAATGCCTTTTTCTTCATGTTTTCCAAGGTAGACATTCA
* * * *
7830 ATTATAATCTGTTCTAACTAAAAATGTAAAAAAATTCTACCTAAAATCAATTATGAGATTATTAA
1 ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *
7895 ACCATTTAAAGAGAGTAACAAGGCTTTTAAAGGAATGAGG-GA-TAATAAATGGACTTTTCTT-A
66 ACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATG-GGTGACT-ATAAATAGACTTTTCTTGC
* * ** * *
7957 TCAATGTATGTCTTTTTCTTCACATTTTTCAAGGTCGACATTCA
129 T-AATGAATGCCTTTTTCTTCATGTTTTCCAAGGTAGACATTCA
* * * * *
8001 ATTATAATTTCT-TTTTAACCAAAAATGTATAAAGAATTCAAAC-GAAAATCAATTTTGACATTA
1 ATTATAA--TCTGTTTTAACTAAAAATGTA-AAAAAATTC-AACTTAAAATCAATTATGAGATTA
* * * * * *
8064 GAAAATCATTTAAAGTGAGTAATAAGGCTTTTAAAAGAAAGGGTGACTATAAATGGACTTTTCTT
62 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTT
* * *
8129 AGCT-ATGAATGCCTTTTTACTCACAT-TTTACTAA-GTAGACATTCA
127 -GCTAATGAATGCCTTTTT-CT-TCATGTTTTCCAAGGTAGACATTCA
* * * *
8174 ATTATAATATGTTTTAACAAAAAATGTACAAAGAACTCAACTTAAAATCAATTATGAGATTATAA
1 ATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* *********** *
8239 AAGCATTTAAAGTNNNNNNNNNNGCTTTTGAAA-GAATGGGTAACTATAAAT-GAACTTTTCTTG
65 AACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAATAG-ACTTTTCTTG
* * * * * * *
8302 CTAATGGATACCTTTTTCTTCAAGTTTCCCATGG-CGATGATTCA
128 CTAATGAATGCCTTTTTCTTCATGTTTTCCAAGGTAGA-CATTCA
* * * * * * ********** **
8346 ATCATAGTCCGTTCTAACCAAAAATATAANNNNNNNNNNCTTAAAATGGATTATGAGATTATAAA
1 ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * * * *
8411 ATCATTTAATGCGAGTAATCAGGCTTTCAAAAGAATGAGTGACTACAAAT-GAACTTTTCTTGCC
66 ACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTG-C
* * * *
8475 T-ATGAATGCCTTTTGCTTCATGTTTTACTAGGTAAACATTCA
129 TAATGAATGCCTTTTTCTTCATGTTTTCCAAGGTAGACATTCA
*
8517 ATTATAATCTGTTTTAACTAAAAATGTACAAAAAATTTAACTTAAAATCAAATT-TGAGATTATA
1 ATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAACTTAAAATC-AATTATGAGATTATA
* * * *
8581 AAACCATTTAAACCGAGTAATATGACTTTTCAAA-GAATGGGTGACTATAAATGGACTTTT-TTA
64 AAACCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTATAAATAGACTTTTCTT-
* *
8644 G-TCAATGAATGCCTTTTTCTTTACAT-TTCT-CGAGGTA-AGCATTCA
127 GCT-AATGAATGCCTTTTTC-TT-CATGTTTTCCAAGGTAGA-CATTCA
* ** *
8689 ATTATAATCTGTTTTCACTAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATAATAAA
1 ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * * * *
8754 A-CATTTTAAAGCGTGTAATAAGACTTTTGATGGAATGAGAGACTATAAATAGACTTTTCTT-CC
66 ACCA-TTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCT
* * * * * *
8817 AATTAAATGGCTTTTTCTACATG-TTTCTCAAAGCAGGCATTCA
130 AA-TGAATGCCTTTTTCTTCATGTTTTC-CAAGGTAGACATTCA
** * * *
8860 ATTATGGTCTATTTTAAC-AGAAAATGTAAAAAAACTCAACTTAAAATCAATGATGAGATTATAA
1 ATTATAATCTGTTTTAACTA-AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* ********************** * *
8924 AACTATTTAGNNNNNNNNNNNNNNNNNNNNNAGGAATAGGTGGCTATAAAT-GAACTTTTCTTGC
65 AACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGC
* * * *
8988 CAATGAATGCCTTTTTCTTCAAG-TTTCTCAAGGTAAAAATTCA
129 TAATGAATGCCTTTTTCTTCATGTTTTC-CAAGGTAGACATTCA
* * * *
9031 ATTATAATCTGTTGTAA-TAAAAAATGTACAAAGAATTC-ACTTAAAATCAATTTTTAGATTATA
1 ATTATAATCTGTTTTAACT-AAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * ********** *
9094 AAACTATTTAAAGTGAGTAATAAAGCNNNNNNNNNNATGAGTGACTATAAATAGACTTTTCTTGC
64 AAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGC
* ** * * * * * *
9159 CAACAAATACTTTTTTCTCTTCATGTTTTTCGAGATAGACAATCA
129 TAATGAATGC-CTTTT-TCTTCATGTTTTCCAAGGTAGACATTCA
* * * * * *
9204 ATTGTAATCTGTTTTAACCAAAAATGTAAAAAAATTTAACTTAAAATAAATTATAAAATTATAAA
1 ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * * * * * * *
9269 ACCTTTTAAAACAAGTAATAAGACTTTTGAAGGAATGGATGATTATAAATGGACTTTTCTTGCCA
66 ACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTA
*
9334 ATGAATGTCTTT
131 ATGAATGCCTTT
9346 NNNNNNNNNN
Statistics
Matches: 2691, Mismatches: 743, Indels: 275
0.73 0.20 0.07
Matches are distributed among these distances:
165 7 0.00
166 7 0.00
167 20 0.01
168 59 0.02
169 55 0.02
170 208 0.08
171 933 0.35
172 898 0.33
173 474 0.18
174 26 0.01
175 4 0.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.34
Consensus pattern (171 bp):
ATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
ACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTA
ATGAATGCCTTTTTCTTCATGTTTTCCAAGGTAGACATTCA
Found at i:8734 original size:343 final size:340
Alignment explanation
Indices: 5603--9345 Score: 1934
Period size: 343 Copynumber: 10.9 Consensus size: 340
5593 NNNNNNNNNN
* ** * * * *
5603 ATTATAATATGTTTTAACCAAAAATGTAAAAAAATTTAACTTAAAATCAATTATAAAATTATATA
1 ATTATAATCTGTTTT-ACCAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * ********** * *
5668 ACTTTTTAAAACGAGTAATAAGGCTTTTGAAGGNNNNNNNNNNTATAAATGGACTTTTCTTACCA
65 AC-ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACTTTTCTTGCCA
* * * * * *
5733 ATGAATGTCTTTTTCTTCATGTTTGT-CGAGGTAGACATTCAACTATAAACTGTTTTAACCAAAA
129 ATGAATGCCTTTTTCTTCACGTTT-TACTAGGTAGACATTCAATTATAATCTGTTTTAACTAAAA
* ********* *
5797 ATGTGAAAAAAAATTAAACTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAAGTGAGTAATAA
193 ATGT--AAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACCATTTAAAGCGAGTAATAA
** * * * * *
5862 GGTTTTTGATAGAATGGGTGATTATAAATAGACTTTTCTT-GCTAAT-ACATACCTTTTTCTTCA
255 GACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGA-ATGCCTTTTTCTTCA
** * * *
5925 TGTTTC-CCATGGCAGAAATTCA
319 CATTTCTCGA-GGTAGACATTCA
* * ** * ** * *
5947 ATTATAATATGTTTTAACTAAAAATGTACAAAGAATTTGACTTAAAATCGATTTTGAGATTATAA
1 ATTATAATCTGTTTT-ACCAAAAAAATA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * ** **********
6012 AGCCATTTAAAGCTAGTAATGAGTATTTT-AAAGGAAT-AGGTGACTATAAANNNNNNNNNNTTG
64 A-ACATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGA-GTGACTATAAATGAACTTTTCTTG
* * ** * * *
6075 TCAATGAATGCCTTTTTCTTCAGGTTTCGCTAGGTAGGCATTCAATTATAATCTGTTGTAACCAA
126 CCAATGAATGCCTTTTTCTTCACGTTTTACTAGGTAGACATTCAATTATAATCTGTTTTAACTAA
* * * * * *
6140 AAATGTACAAAGAATTCAATTTAAAATCAATTTTGAGATTATAAAATCATTGAAACCTAGTAATA
191 AAATGTA-AAAAAATTCAACTTAAAATCAA-TTTGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * * *
6205 AGACTTTTGAAAGAATGAGTGATTATAAATTGACTTTTTTTA-CTAGTGAATGCCTTTTTCTTCA
254 AGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTTCA
* * * *
6269 CGTTTCTTGAAGTACACATTCA
319 CATTTCTCGAGGTAGACATTCA
* * **
6291 ATTATAATATGTTTTCACCAAACAAATAAAAAAA-TCAACTTAAAATCAATTATGAGA-TANNNN
1 ATTATAATCTGTTTT-ACCAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATTA--TA
****** * * * *
6354 NNNNNNTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGTGAGACTATAAAT-AGACATTTCTT-C
63 AAACATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGA-ACTTTTCTTGC
* * * * * *
6417 CAAATGAATGACTTTTT-TTACACGTTTCTA-GAGGCAGGCATTCAATTATAGTCTATTTTAA-T
127 C-AATGAATGCCTTTTTCTT-CACGTTT-TACTAGGTAGACATTCAATTATAATCTGTTTTAACT
* **********
6479 AGAAAATGTAAAAAACTTCAACTTAAAATCAATTATGAGATTATAAANNNNNNNNNNGCGAGTAA
189 A-AAAATGTAAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACCATTTAAAGCGAGTAA
* * * * * *
6544 TAAGGCTTTTGAAGGAATGGGTGGCCATAAATGAACTTTTCTT-GCCAATGAATTCCTTTTTCTT
252 TAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTT
* ** * *
6608 CAAATTTCTCGATATTA-AAATTTA
317 CACATTTCTCGA-GGTAGACATTCA
** * * * * *
6632 ATTATAATCTGTTATTACCAAAAATGTACAAAGAATTCAACTTAAAATTAATTTTTAGATTACAA
1 ATTATAATCTGTT-TTACCAAAAAAATA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
**********
6697 AACTATTTAAAGCGAGTAATAAGGCTTTNNNNNNNNNNAGTGACTATAAAT-AGACTTTTCTTAG
64 AAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGA-ACTTTTCTT-G
* * ** ** *
6761 -CAATGAATG--TTGTTTTTTCACG-TTTATCGACATAGACATTCAATTATAATCCATTTTAACC
126 CCAATGAATGCCTT-TTTCTTCACGTTTTA-CTAGGTAGACATTCAATTATAATCTGTTTTAACT
* * * * * *
6822 AAAAATGTAAAAAAAATTAAACTTAAAATTAATTTTAAAATTATAAAAACCTTTTAAACACGAGT
189 AAAAATGT-AAAAAAATTCAACTTAAAATCAA-TTTGAGATTAT-AAAACCATTTAAA-GCGAGT
* * * *
6887 AATAAGGCTATTGAGACTGAATGGG-GACTAT--A-GGACTTTTCTT-GCCAATGAATACCTTTT
250 AATAAGACTTTTGA-A-AGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTT
** * *
6947 TCTTCATGTTTCTTGAGGTAGACATTTA
313 TCTTCACATTTCTCGAGGTAGACATTCA
* * ** * * * *
6975 ACTATAATCCGTTTTAATAAAAAATGTGAAAAAAA---AAATTAAAATCAATT-TTACGTTTATA
1 ATTATAATCTGTTTTACCAAAAAA-AT-AAAAAAATTCAACTTAAAATCAATTATGA-GATTATA
** * * * * *
7036 AAACCATTTAAA-CTGAGTAATAAGGCTTTTGATTGAAAG-GTTGATTGTAAATGGACTTTTTTT
63 AAA-CATTTAAAGC-GAGTAATAAGGCTTTTGAAAGAATGAG-TGACTATAAATGAACTTTTCTT
* * * * * * * * *
7099 ACCAATGGAT-ACTTTTTCTTCACG-TTTCCCATTGTAGAGATTCAATTATAATCTGTTCTAACC
125 GCCAATGAATGCCTTTTTCTTCACGTTTTACTA-GGTAGACATTCAATTATAATCTGTTTTAACT
* ** * *****
7162 AAAAATATAAAAAAATTTGACTTAAAATCGATTATGAGATTATAAAACCATTTAAAGCGNNNNNN
189 AAAAATGTAAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACCATTTAAAGCG-AGTAA
**** * ** * *
7227 NNNNA-TTTTGAAGGAATGGGTGACTATAAATAAACTTTGT-TTTGCCAATGAATGCCTTTTTTT
252 TAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTT-TCTTAGCCAATGAATGCCTTTTTCT
7290 TCACATTTCTCGAGGTAGACATTCA
316 TCACATTTCTCGAGGTAGACATTCA
* * * * ** * * **
7315 ATTATAATTTGTTTTAACAAAAAATGTACAAAGAATTCAAAGTAAAATCAATTTTAAGATTGCAA
1 ATTATAATCTGTTTTACCAAAAAA-ATA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * *
7380 AACCATTTAAAGTGAGTAATAAGGCTTTTAAAAGAATGCGTGACTATAAATGAACTTTTCTTTCT
64 AA-CATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACTTTTCTTGCC
* * *
7445 AATTAATG-CTTTTTCCTTCACG-TTT-CTTGAGGTAGATATTCAAGTATAATCTGTTTTAACTA
128 AATGAATGCCTTTTT-CTTCACGTTTTAC-T-AGGTAGACATTCAATTATAATCTGTTTTAACTA
* * * * * *
7507 AAAATGTACAAAGAGTTCAAATTGAAATCAATTTTGAGAGTATAAAACCATTTAAAGTGAGTAAT
190 AAAATGTA-AAAAAATTCAACTTAAAATCAA-TTTGAGATTATAAAACCATTTAAAGCGAGTAAT
********** * * * ** *
7572 NNNNNNNNNNAAGGAATGGGTGACTGTAAATAGACTTTTCTTA-CCAATGAACACTTTTTTCTTC
253 AAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTTC
*** * *
7636 ATGCTTCCCAAAGG-AGACATTCA
318 ACATTTCTC-GAGGTAGACATTCA
* ** *
7659 ATTATAATAC-GTTCTAATGAAAAATATAAAAAAATTCAA-TCTAAAATCAATTATGAGATTATA
1 ATTATAAT-CTGTT-TTACCAAAAAAATAAAAAAATTCAACT-TAAAATCAATTATGAGATTATA
********** * * * *
7722 AAACTATNNNNNNNNNNTAATAATGCTTTCGAAGGAATGGGTGACTATAAATG-ACATTTTCTTG
63 AAAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAAC-TTTTCTTG
* * * * * * * *
7786 CTAATGAATACCTTTCTCTTCATGTTTTCCAAGGCAGACATTCAATTATAATCTGTTCTAACTAA
126 CCAATGAATGCCTTTTTCTTCACGTTTTACTAGGTAGACATTCAATTATAATCTGTTTTAACTAA
* * * * *
7851 AAATGTAAAAAAATTCTACCTAAAATCAATTATGAGATTATTAAACCATTTAAAGAGAGTAACAA
191 AAATGTAAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * *
7916 GGCTTTT-AAAGGAATGAGG-GA-TAATAAATGGACTTTTCTTA-TCAATGTATGTCTTTTTCTT
255 GACTTTTGAAA-GAATG-GGTGACT-ATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTT
* * *
7977 CACATTTTTCAAGGTCGACATTCA
317 CACATTTCTCGAGGTAGACATTCA
** * * * *
8001 ATTATAATTTCT-TTTTAACCAAAAATGTATAAAGAATTCAAAC-GAAAATCAATTTTGACATTA
1 ATTATAA--TCTGTTTT-ACCAAAAAAATA-AAAAAATTC-AACTTAAAATCAATTATGAGATTA
* * * * * *
8064 GAAAATCATTTAAAGTGAGTAATAAGGCTTTTAAAAGAAAGGGTGACTATAAATGGACTTTTCTT
61 TAAAA-CATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACTTTTCTT
* * * *
8129 AG-CTATGAATGCCTTTTTAC-TCACATTTTACTAAGTAGACATTCAATTATAATATGTTTTAAC
125 -GCCAATGAATGCCTTTTT-CTTCACGTTTTACTAGGTAGACATTCAATTATAATCTGTTTTAAC
* * * * *****
8192 AAAAAATGTACAAAGAACTCAACTTAAAATCAATTATGAGATTATAAAAGCATTTAAAGTNNNNN
188 TAAAAATGTA-AAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACCATTTAAAG-CGAGT
***** * * * * *
8257 NNNNNG-CTTTTGAAAGAATGGGTAACTATAAATGAACTTTTCTT-GCTAATGGATACCTTTTTC
250 AATAAGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTC
* * *
8320 TTCA-AGTTTC-CCATGG-CGATGATTCA
315 TTCACA-TTTCTCGA-GGTAGA-CATTCA
* * * * * ********** **
8346 ATCATAGTCCGTTCTAACCAAAAATATAANNNNNNNNNNCTTAAAATGGATTATGAGATTATAAA
1 ATTATAATCTGTT-TTACCAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * ** * *
8411 ATCATTTAATGCGAGTAATCAGGCTTTCAAAAGAATGAGTGACTACAAATGAACTTTTCTTGCCT
65 A-CATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACTTTTCTTGCCA
* * *
8476 ATGAATGCCTTTTGCTTCATGTTTTACTAGGTAAACATTCAATTATAATCTGTTTTAACTAAAAA
129 ATGAATGCCTTTTTCTTCACGTTTTACTAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAA
* * *
8541 TGTACAAAAAATTTAACTTAAAATCAAATTTGAGATTATAAAACCATTTAAACCGAGTAATATGA
194 TGTA-AAAAAATTCAACTTAAAATC-AATTTGAGATTATAAAACCATTTAAAGCGAGTAATAAGA
* * *
8606 CTTTTCAAAGAATGGGTGACTATAAATGGACTTTT-TTAGTCAATGAATGCCTTTTTCTTTACAT
257 CTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTTCACAT
8670 TTCTCGAGGTA-AGCATTCA
322 TTCTCGAGGTAGA-CATTCA
* *
8689 ATTATAATCTGTTTTCACTAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATAATAAA
1 ATTATAATCTGTTTT-ACCAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * ** *
8754 ACATTTTAAAGCGTGTAATAAGACTTTTGATGGAATGAGAGACTATAAAT-AGACTTTTCTT-CC
65 ACA-TTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGA-ACTTTTCTTGCC
* * * * * * * * ** *
8817 AATTAAATGGCTTTTTCTACATGTTTCT-CAAAGCAGGCATTCAATTATGGTCTATTTTAAC-AG
128 AA-TGAATGCCTTTTTCTTCACGTTT-TACTAGGTAGACATTCAATTATAATCTGTTTTAACTA-
* * * ************
8880 AAAATGTAAAAAAACTCAACTTAAAATCAATGATGAGATTATAAAACTATTTAGNNNNNNNNNNN
190 AAAATGTAAAAAAATTCAACTTAAAATCAAT-TTGAGATTATAAAACCATTTAAAGCGAGTAATA
********** * * * *
8945 NNNNNNNNNNAGGAATAGGTGGCTATAAATGAACTTTTCTT-GCCAATGAATGCCTTTTTCTTCA
254 AGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTTCA
* * *
9009 -AGTTTCTCAAGGTAAAAATTCA
319 CA-TTTCTCGAGGTAGACATTCA
* ** * * * *
9031 ATTATAATCTGTTGTAATAAAAAATGTACAAAGAATTC-ACTTAAAATCAATTTTTAGATTATAA
1 ATTATAATCTGTTTTACCAAAAAA-ATA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * **********
9095 AACTATTTAAAGTGAGTAATAAAGCNNNNNNNNNNATGAGTGACTATAAAT-AGACTTTTCTTGC
64 AAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGA-ACTTTTCTTGC
** * * * * * * * * *
9159 CAACAAATACTTTTTTCTCTTCATGTTTTTCGAGATAGACAATCAATTGTAATCTGTTTTAACCA
127 CAATGAATGC-CTTTT-TCTTCACGTTTTACTAGGTAGACATTCAATTATAATCTGTTTTAACTA
* * * * * * *
9224 AAAATGTAAAAAAATTTAACTTAAAATAAATTATAAAATTATAAAACCTTTTAAAACAAGTAATA
190 AAAATGTAAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * *
9289 AGACTTTTGAAGGAATGGATGATTATAAATGGACTTTTCTT-GCCAATGAATGTCTTT
254 AGACTTTTGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTT
9346 NNNNNNNNNN
Statistics
Matches: 2568, Mismatches: 692, Indels: 278
0.73 0.20 0.08
Matches are distributed among these distances:
335 7 0.00
336 7 0.00
337 7 0.00
338 15 0.01
339 41 0.02
340 183 0.07
341 157 0.06
342 471 0.18
343 790 0.31
344 541 0.21
345 329 0.13
346 13 0.01
347 7 0.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.34
Consensus pattern (340 bp):
ATTATAATCTGTTTTACCAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
CATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAATGAACTTTTCTTGCCAAT
GAATGCCTTTTTCTTCACGTTTTACTAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATG
TAAAAAAATTCAACTTAAAATCAATTTGAGATTATAAAACCATTTAAAGCGAGTAATAAGACTTT
TGAAAGAATGGGTGACTATAAATGGACTTTTCTTAGCCAATGAATGCCTTTTTCTTCACATTTCT
CGAGGTAGACATTCA
Found at i:10677 original size:172 final size:170
Alignment explanation
Indices: 10345--11255 Score: 720
Period size: 172 Copynumber: 5.3 Consensus size: 170
10335 NNNNNNATTC
* * **
10345 AAATTGAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGAAATAAGAATTTTAAAGAAATT
1 AAATTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATT
* ** *
10410 GGTGACTATAATGA-ACTTTTCTTACCAATGAATGCCTTTTTCTTCACATTTCTCAAGGTAAACA
66 GGTGACTATAATTAGACTTTTCTTACCAATGAATGCCTTTTTCTT-ATGTTTCTCAAGGTAGACA
* *
10474 TTCAATTAAAATCTGTTTTAACTAAAAATGTACAAAGAATTG
130 TTCAATTATAATCTGTTTTACCTAAAAATGTA-AAAGAATTG
* * * * *
10516 AAATTTAAATCAATCTTGAGATTATAAAACCATTTAAGGTGAGTAATAAGGCTTTTAAAGGAATA
1 AAATTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATT
* * * * **
10581 GGTGACAATAATTAGAGTTTTCTTATCAATAAATGCCTTTTTCTTTATGTTTCTTGAGGTAGACA
66 GGTGACTATAATTAGACTTTTCTTACCAATGAATGCCTTTTTC-TTATGTTTCTCAAGGTAGACA
* * * * *
10646 TTCAACTCTAATCTATTTTACCTGAAAATGTATAAAGAATTC
130 TTCAATTATAATCTGTTTTACCTAAAAATGTA-AAAGAATTG
* * * * ** *
10688 AAATCAAAATAAATTTTGATATTATAAAACCATTTAAAGTGAGTAATATGGCTTTTGTAGCAATT
1 AAATTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATT
* * * * *
10753 GGTGACTATAAATAGACTTTTCTTGCCAACGAATGTCTTTTTC--ATGTTTCTCAAGGTAGACTT
66 GGTGACTATAATTAGACTTTTCTTACCAATGAATGCCTTTTTCTTATGTTTCTCAAGGTAGACAT
* *
10816 TCAATTATAATATGTTTTAACC-AAAAATGTAAAAAAATTG
131 TCAATTATAATCTGTTTT-ACCTAAAAATGTAAAAGAATTG
*** * * * * *****
10856 GGCTGAAAATCCATTTTGAGATTAAAAAAATCATTTAAAGTGAGTAATAAGGCTTTTAAANNNNN
1 AAATTAAAATCAATTTTGAGATT-ATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGAAAT
***** ** * * * ** *
10921 NNNNNACTATAAAAAGACCTTTCTTGCCAATGAATGCATTTTTCATTATGTTTCTTGAGGTAGAT
65 TGGTGACTATAATTAGACTTTTCTTACCAATGAATGCCTTTTTC-TTATGTTTCTCAAGGTAGAC
* * * * * *
10986 ATTCAATTATAGTTTGCTTTA-ATAAAAAAATGTAAAAAAATTC
129 ATTCAATTATAATCTGTTTTACCT--AAAAATGTAAAAGAATTG
* * * * ********** * *
11029 AACTAAAAATTAATTATGAGATTATAAAACNNNNNNNNNNGAGTAATAAGGCTTTTGAAGGAA-T
1 AAATTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATT
* * * * ** * ** * *
11093 GAGAGACCATAAATGGACTTTTCTT-CTCAATGAATTACTTTTTCTACACATTTCTTAAGGTAGG
66 G-GTGACTATAATTAGACTTTTCTTAC-CAATGAATGCCTTTTTCT-TATGTTTCTCAAGGTAGA
* *
11157 CATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTG
128 CATTCAATTATAATCTGTTTTACCTAAAAATGTAAAAGAATTG
** * * *
11200 ACCTAAAAATCAATTTTGAGATAATAAAACCATTTGAAGTGAGTAATAAGGCTTTT
1 AAATTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
11256 GAANNNNNNN
Statistics
Matches: 575, Mismatches: 151, Indels: 28
0.76 0.20 0.04
Matches are distributed among these distances:
168 23 0.04
169 104 0.18
170 3 0.01
171 131 0.23
172 277 0.48
173 37 0.06
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
AAATTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGAAATT
GGTGACTATAATTAGACTTTTCTTACCAATGAATGCCTTTTTCTTATGTTTCTCAAGGTAGACAT
TCAATTATAATCTGTTTTACCTAAAAATGTAAAAGAATTG
Found at i:10972 original size:341 final size:338
Alignment explanation
Indices: 10341--11255 Score: 879
Period size: 341 Copynumber: 2.7 Consensus size: 338
10331 NNNNNNNNNN
** * * ** *
10341 ATTCAAATTGAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGAAATAAGAATTTTAAAGA
1 ATTCAAATAAAAATAAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGA
*
10406 AATTGGTGACTAT-AATGAACTTTTCTTACCAATGAATGCCTTTTTCTTCACATTTCTCAAGGTA
66 AATTGGTGACTATAAATG-ACTTTTCTT-CCAATGAATG--TCTTT-TTCACATTTCTCAAGGTA
* * * * ** *
10470 AACATTCAATTAAAATCTGTTTTAACTAAAAATGTACAAAGAATTGAAATTTAAATCAATCTTGA
126 GACATTCAATTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTGAACTAAAAATCAATTTTGA
* ** **
10535 GATT-ATAAAACCATTTAAGGTGAGTAATAAGGCTTTTAAAGGAATAGGTGACAATAATTAGAGT
190 GATTAATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATAGGTGACAATAAAAAGACC
* * * * *
10599 TTTCTTATCAATAAATGCCTTTTTCTTTATGTTTCTTGAGGTAGACATTCAACTCTAATCTATTT
255 TTTCTTACCAATAAATGCATTTTTCATTATGTTTCTTGAGGTAGACATTCAACTATAATCTACTT
* * *
10664 TACCT-GAAAATGTATAAAGA
320 TA-ATAAAAAATGTA-AAAAA
* * * * *
10684 ATTCAAATCAAAATAAATTTTGATATTATAAAACCATTTAAAGTGAGTAATATGGCTTTTGTAGC
1 ATTCAAATAAAAATAAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGA
* **
10749 AATTGGTGACTATAAATAGACTTTTCTTGCCAACGAATGTCTTTTTCATGTTTCTCAAGGTAGAC
66 AATTGGTGACTATAAAT-GACTTTTCTT-CCAATGAATGTCTTTTTCACATTTCTCAAGGTAGAC
* * * ** * *
10814 TTTCAATTATAATATGTTTTAACCAAAAATGTAAAAAAATTGGGCTGAAAATCCATTTTGAGATT
129 ATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGAACTAAAAATCAATTTTGAGATT
* * ********** *
10879 AAAAAAATCATTTAAAGTGAGTAATAAGGCTTTTAAANNNNNNNNNNACTATAAAAAGACCTTTC
194 AATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATAGGTGACAATAAAAAGACCTTTC
* * * * * * *
10944 TTGCCAATGAATGCATTTTTCATTATGTTTCTTGAGGTAGATATTCAATTATAGTTTGCTTTAAT
259 TTACCAATAAATGCATTTTTCATTATGTTTCTTGAGGTAGACATTCAACTATAATCTACTTTAAT
11009 AAAAAAATGTAAAAAA
324 -AAAAAATGTAAAAAA
* * * ********** *
11025 ATTCAACTAAAAATTAATTATGAGATTATAAAACNNNNNNNNNNGAGTAATAAGGCTTTTGAAGG
1 ATTCAAATAAAAATAAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGA
* * *
11090 AA-TGAGAGACCATAAATGGACTTTTCTTCTCAATGAAT-TACTTTTTCTACACATTTCTTAAGG
66 AATTG-GTGACTATAAAT-GACTTTTCTTC-CAATGAATGT-C-TTTT-T-CACATTTCTCAAGG
* *
11153 TAGGCATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGACCTAAAAATCAATTTTG
124 TAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGAACTAAAAATCAATTTTG
*
11218 AGA-TAATAAAACCATTTGAAGTGAGTAATAAGGCTTTT
189 AGATTAATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
11256 GAANNNNNNN
Statistics
Matches: 463, Mismatches: 98, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
340 29 0.06
341 225 0.49
342 16 0.03
343 100 0.22
344 92 0.20
345 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (338 bp):
ATTCAAATAAAAATAAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGA
AATTGGTGACTATAAATGACTTTTCTTCCAATGAATGTCTTTTTCACATTTCTCAAGGTAGACAT
TCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGAACTAAAAATCAATTTTGAGATTAA
TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATAGGTGACAATAAAAAGACCTTTCTT
ACCAATAAATGCATTTTTCATTATGTTTCTTGAGGTAGACATTCAACTATAATCTACTTTAATAA
AAAATGTAAAAAA
Found at i:11650 original size:171 final size:171
Alignment explanation
Indices: 11359--12968 Score: 1017
Period size: 171 Copynumber: 9.5 Consensus size: 171
11349 NNNNNNNNNN
* * * * * * *
11359 AAATCTATTTATAGTCTCTCATTCTTTCAATAGCCTTATTACTCACTTTAAATAATTTTATAAGC
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
* ** * ** *
11424 TCAAAATTGATTT-TATGGTCAAATTGTTTTACATTTTTGGTTAAAACAGATTATAATTAAATGT
66 TCAAAATTGATTTAAAT--TTGAATTCTTTTACATTTTTTATTAAAACAGATTATAATTGAATGT
* *
11488 CTAACTTGAGAAACATGAAGAAAAAGGCATTCATT-GCAAGAA
129 CTACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
* * * * * *
11530 AAATCCATTTATAGTCACCCATTCCTTTAAAAGCGTTACTACTCGCCTTAAATAGTTTTATAATA
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
* * *
11595 TAAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTTATTAAAATATATTATAATTGAATGTC
66 TCAAAATTGATTTAAATTTGAATTCTTT-TACATTTTTTATTAAAACAGATTATAATTGAATGTC
* * * *
11660 TA-CTTCAAGAAACTTGAAGAAAAGGGCATTCATTAGCAAGAA
130 TACCTT-GAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
* * ** * *
11702 AAGTTCATTTATAG-CTACCCCATTCCTTC---A-----A--A-T-GGTTTAAATGGTTTTTTAA
1 AAATCCATTTATAGTC-A-CCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAA
* *** * ** * *
11754 TGTCGTCATTGATTATAAGA--TGAATTTTTTTACATTTACTATTAAAATAGACTATAATTGAAT
64 TCTCAAAATTGATT-TAA-ATTTGAATTCTTTTACATTTTTTATTAAAACAGATTATAATTGAAT
* * * * ** *
11817 G-CTTACCTCGAGAAACATGTAA-AAAAAGTCATTTATT-TTAAAAA
127 GTC-TACCTTGAGAAACGTG-AAGAAAAAGGCATTCATTGGCAAGAA
* * * * * * *
11861 AAAGTTCATTTATAGTCACCTATACCTTCAAAAGCCTTATTTCTCACTTTAAATGGATTCATAAT
1 AAA-TCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAAT
* * * * * * *
11926 GTCATAGTTGATTTTAAGTTGAATACTTTTACATTTTTTATTAACACAGATTATAATTGAATGTC
65 CTCAAAATTGATTTAAATTTGAATTCTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTC
* * ** *
11991 TACCTTAAGAAACGTAAAGAAAAAGTTATTCATTGGTAAG-A
130 TACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
* ** * *
12032 AAAGCCTATTTATAGTCACCGTTTCTTTCAAAAGCCTTATTACTCATTTTAAAT-GCTTTTATAA
1 AAATCC-ATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAG-TTTTATAA
* * * * * *
12096 TCTCATAACTGATTTTAGA-TTGAGTT-TTTT-CATGTTTTTAGTTAGAACATATTATAATTGAA
64 TCTCAAAATTGA-TTTAAATTTGAATTCTTTTACAT-TTTTTA-TTAAAACAGATTATAATTGAA
* ****
12158 TGTCTACCTT-AGGAAACGTGAAGAAAAAGGTATTCATTGGCANNNN
126 TGTCTACCTTGA-GAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
******** * *
12204 NNNNNNNNTTATAGTCACTCATTTCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAGA-
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATA-AT
*
12268 CTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTTATTGAAACAGATTATAATTGAATGT
65 CTCAAAATTGATTTAAATTTGAATTCTTT-TACATTTTTTATTAAAACAGATTATAATTGAATGT
* ** * * * *
12333 CTACCTTGACAAATATGAACAAAAGGGTATTCATTGGTAAGAA
129 CTACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
* * * ************ *
12376 AAGTCTATTTATAGTCACCCATTTCTTCAAAAGCCTNNNNNNNNNNNNTAAATGGTTTTATAATC
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
* ** * *
12441 TCAAAATTGATTTAAATTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTAAATGTCT
66 TCAAAATTGATTTAAATTTGAATTCTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCT
* * * *******
12506 ACCATGAGAAATGTAAAGAAAAAGGCATTCATTGNNNNNNN
131 ACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
*** ** * * * * *
12547 NNNTCCATTTATAGTCACATATTCCTTCAAAAACGTTATTAGTCATTTTAAATAGTTTTATAATA
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
* * ** * *
12612 TAAAAATTGATTTTAATTTGAATTCTTTGTACATTTTTGGTTAAAACATATTATAAATGAATGTC
66 TCAAAATTGATTTAAATTTGAATTCTTT-TACATTTTTTATTAAAACAGATTATAATTGAATGTC
* ** * *
12677 GACCTCAAGACATGTGAAGAAAAAGGCATTCATTGGCAAGAA
130 TACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
* * * ********** ** *
12719 AAGTCCATTTATAGTCACCTAGTCNNNNNNNNNNCTTATTACTTGCTTTAAATATTTTTATAATC
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
* * *** * * ** ** *
12784 TCATAATTGATTTTAAGCGGAATTGTTTTACAATTTTGGTTAAAACAGGCTATAATTGAATGTTT
66 TCAAAATTGATTTAAATTTGAATTCTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCT
* ** * ** * *
12849 GCCTTGAGAAATATGAAGAAAAATGCATTCATAAGCTACAA
131 ACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
** * * * * ** * *
12890 AGGTCTATTTATAGTCACCCATTCCTTCGAAAGCTTTATTACTCAGTACAAATGGTTTTATTATC
1 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
*
12955 TCAAAATTAATTTA
66 TCAAAATTGATTTA
12969 TAGGTTTATT
Statistics
Matches: 1100, Mismatches: 293, Indels: 92
0.74 0.20 0.06
Matches are distributed among these distances:
159 16 0.01
160 64 0.06
161 38 0.03
162 5 0.00
163 2 0.00
165 1 0.00
167 1 0.00
169 4 0.00
170 35 0.03
171 632 0.57
172 281 0.26
173 18 0.02
174 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38
Consensus pattern (171 bp):
AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATC
TCAAAATTGATTTAAATTTGAATTCTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCT
ACCTTGAGAAACGTGAAGAAAAAGGCATTCATTGGCAAGAA
Found at i:12497 original size:343 final size:336
Alignment explanation
Indices: 11362--12737 Score: 917
Period size: 343 Copynumber: 4.0 Consensus size: 336
11352 NNNNNNNAAA
* * * * ** *
11362 TCTATTTATAGTCTCTCA-TTCTTTCAATAGCCTTATTACTCACTTTAAATAATTTTATAAGCTC
1 TCTATTTATAGTCACCCATTTCTTTCAAAAGCCTTATTACTCATTTTAAATGCTTTTATAATCTC
* ** ** * *
11426 AAAATTGATTTTATGGTCAAATTGTTTT-ACATTTTTGGTTAAAACAGATTATAATTAAATGTCT
66 AAAACTGATTTTA-AATTGAATT-TTTTCACATTTTTAGTTAAAACAGACTATAATTAAATGTCT
* * * * * **
11490 AACTTGAGAAACATGAAGAAAAAGGCATTCATTGCAAGAAAAATCCATTTATAGTCACCCATTCC
129 ACCATGAGAAACGTAAAGAAAAAGGCATTCATTG---G---CATCCATTTATAGTCACATATTCC
* * * * * * *
11555 TTTAAAAGCGTTACTACTCGCCTTAAATAGTTTTATAATATAAAAATTGATTTAAATTTGAATTC
188 TTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATATCAAAATTGATTTTAATTTGAATTC
* *
11620 TTTGTACATTTTTTATTAAAATATATTATAATTGAATGTCTA-CTTCAAGAAACT-TGAAGAAAA
253 TTTGTACATTTTTTATT-AAACAGATTATAATTGAATGTCTACCTT-AAGAAA-TGTGAAGAAAA
* * * *
11683 GGGCATTCATTAGCAAGAAAAG
315 AGGTATTCATTGGTAAGAAAAG
* ** * *
11705 T-TCATTTATAG-CTACCCCA-TTCCTTC---A-----A--A-T-GGTTTAAATGGTTTTTTAAT
1 TCT-ATTTATAGTC-A-CCCATTTCTTTCAAAAGCCTTATTACTCATTTTAAATGCTTTTATAAT
* *** * * * * * *
11755 GTCGTCATTGATTATAAGA-TGAATTTTTTTACATTTACTA-TTAAAATAGACTATAATTGAATG
63 CTCAAAACTGATTTTAA-ATTGAATTTTTTCACATTT-TTAGTTAAAACAGACTATAATTAAATG
* * *** *
11818 -CTTACC-TCGAGAAACATGT-AA-AAAAAGTCATTTATTTTAAAAAAAAGTTCATTTATAGTCA
126 TC-TACCAT-GAGAAAC--GTAAAGAAAAAGGCATTCA--TT----GGCA-TCCATTTATAGTCA
* * * * * * * * * *
11879 CCTATACCTTCAAAAGCCTTATTTCTCACTTTAAATGGATTCATAATGTCATAGTTGATTTTAAG
180 CATATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATATCAAAATTGATTTTAAT
* * *
11944 TTGAATACTTT-TACATTTTTTATTAACACAGATTATAATTGAATGTCTACCTTAAGAAACGTAA
245 TTGAATTCTTTGTACATTTTTTATTAA-ACAGATTATAATTGAATGTCTACCTTAAGAAATGTGA
*
12008 AGAAAAAGTTATTCATTGGTAAGAAAAG
309 AGAAAAAGGTATTCATTGGTAAGAAAAG
* *
12036 CCTATTTATAGTCA-CCGTTTCTTTCAAAAGCCTTATTACTCATTTTAAATGCTTTTATAATCTC
1 TCTATTTATAGTCACCCATTTCTTTCAAAAGCCTTATTACTCATTTTAAATGCTTTTATAATCTC
* * * ** * * * *
12100 ATAACTGATTTTAGATTGAGTTTTTTCATGTTTTTAGTTAGAACATATTATAATTGAATGTCTAC
66 AAAACTGATTTTAAATTGAATTTTTTCACATTTTTAGTTAAAACAGACTATAATTAAATGTCTAC
* * * ***** *
12165 C-TTAGGAAACGTGAAGAAAAAGGTATTCATTGGCANNNNNNNNNNNNTTATAGTCAC-TCATTT
131 CATGA-GAAACGTAAAGAAAAAGGCATTCATTGGCA-------TCCATTTATAGTCACAT-ATTC
* *
12228 CTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAGA-CTCAAAATTGATTTAAATTTGAAT
187 CTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATA-ATATCAAAATTGATTTTAATTTGAAT
* * * *
12292 TCTTTGTACATTTTTTATTGAAACAGATTATAATTGAATGTCTACCTTGACAAATATGAACAAAA
251 TCTTTGTACATTTTTTATT-AAACAGATTATAATTGAATGTCTACCTTAAGAAATGTGAAGAAAA
*
12357 GGGTATTCATTGGTAAGAAAAG
315 AGGTATTCATTGGTAAGAAAAG
************ *
12379 TCTATTTATAGTCACCCATTTC-TTCAAAAGCCTNNNNNNNNNNNNTAAATGGTTTTATAATCTC
1 TCTATTTATAGTCACCCATTTCTTTCAAAAGCCTTATTACTCATTTTAAATGCTTTTATAATCTC
* * *
12443 AAAATTGA-TTTAAATTTGAATTTTTTTACATTTTTGGTTAAAACAGACTATAATTAAATGTCTA
66 AAAACTGATTTTAAA-TTGAATTTTTTCACATTTTTAGTTAAAACAGACTATAATTAAATGTCTA
* ***
12507 CCATGAGAAATGTAAAGAAAAAGGCATTCATTGNNNNNNNNNNTCCATTTATAGTCACATATTCC
130 CCATGAGAAACGTAAAGAAAAAGGCATTCATTG-------GCATCCATTTATAGTCACATATTCC
* * * * *
12572 TTCAAAAACGTTATTAGTCATTTTAAATAGTTTTATAATATAAAAATTGATTTTAATTTGAATTC
188 TTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATATCAAAATTGATTTTAATTTGAATTC
** * * * * *
12637 TTTGTACATTTTTGGTTAAAACATATTATAAATGAATGTCGACCTCAAGACATGTGAAGAAAAAG
253 TTTGTACATTTTTTATT-AAACAGATTATAATTGAATGTCTACCTTAAGAAATGTGAAGAAAAAG
* *
12702 GCATTCATTGGCAAGAAAAG
317 GTATTCATTGGTAAGAAAAG
*
12722 TCCATTTATAGTCACC
1 TCTATTTATAGTCACC
12738 TAGTCNNNNN
Statistics
Matches: 795, Mismatches: 175, Indels: 126
0.73 0.16 0.11
Matches are distributed among these distances:
329 2 0.00
330 14 0.02
331 126 0.16
332 104 0.13
333 5 0.01
334 1 0.00
336 2 0.00
338 1 0.00
340 5 0.01
341 9 0.01
342 156 0.20
343 350 0.44
344 20 0.03
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.38
Consensus pattern (336 bp):
TCTATTTATAGTCACCCATTTCTTTCAAAAGCCTTATTACTCATTTTAAATGCTTTTATAATCTC
AAAACTGATTTTAAATTGAATTTTTTCACATTTTTAGTTAAAACAGACTATAATTAAATGTCTAC
CATGAGAAACGTAAAGAAAAAGGCATTCATTGGCATCCATTTATAGTCACATATTCCTTCAAAAG
CCTTATTACTCACTTTAAATAGTTTTATAATATCAAAATTGATTTTAATTTGAATTCTTTGTACA
TTTTTTATTAAACAGATTATAATTGAATGTCTACCTTAAGAAATGTGAAGAAAAAGGTATTCATT
GGTAAGAAAAG
Found at i:13646 original size:172 final size:171
Alignment explanation
Indices: 13033--13930 Score: 583
Period size: 172 Copynumber: 5.2 Consensus size: 171
13023 CATTGAGAAG
* * * ** * *
13033 AAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTAATTTTTAGTTAAATT-TTCT
1 AAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTAAATTCTTTT
* * * * * * * * *
13097 TACATTTTTTGTTAAAACAAACTATAATTGAATATCTACCTCAAGAAACAT-AATGAAAAATGCA
66 TACAATTTTAGTTAAAA-AGATTACAATTGAATGTCTACCTTAAGAAACGTGAA-GAAAAAGGCA
* ** * **********
13161 TTTATTGGCAAGAAAGGTCT-TTTTATAGTCNNNNNNNNNNTTA
129 TTAATTGGCAAGAAAAAT-TAATTTATAGTCACCCATTCCTTTA
* * * ** ** *
13204 AAAGCCTTATTACTCACTTTAAA-GGATTTTTTTTATCTCAAAATTGATTTTGAGCTCAATT-TT
1 AAAGTCTTATTACTCACTTTAAATGG--TTTTATAATCTCAAAATTGATTTAAATTTAAATTCTT
*** * * * *
13267 TTTATGTTTTTTGTTAAAACAGATTATAATTGAATGTCTACC-TAGACAAACATGAAGAAAAAGG
64 TTTACAATTTTAGTTAAAA-AGATTACAATTGAATGTCTACCTTA-AGAAACGTGAAGAAAAAGG
* ** * * * **
13331 TATTTGTTGGCAAGAAAAGTCT-ATTTATAGTCATCCATTGCTACA
127 CATTAATTGGCAAGAAAAAT-TAATTTATAGTCACCCATTCCTTTA
* * * * ********** *
13376 AAAGCCATATTACTCACTTTAAATGGTTTTATAATATCAAAATTGATTTCAANNNNNNNNNNTTA
1 AAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTAAATTCTTTT
* * * * * *
13441 TAC-ATTTTCGGGTAAAATAGATTAGAGTTGAATGTCTACCTCAAGAAACGTAAAGAAAAAGGCA
66 TACAATTTT-AGTTAAAA-AGATTACAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGGCA
* * ** *
13505 TTTATTGGCAAGAAAACTCCATTTATTGTCACCCATTCCTTTA
129 TTAATTGGCAAGAAAAATTAATTTATAGTCACCCATTCCTTTA
* * * *
13548 AAAGTCTTATTAATCACTTTAAATGGTTTTATAATATCAAAATTGATTTAAATTTGAATTCTTTN
1 AAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTAAATTCTTTT
********* * * * *
13613 NNNNNNNNNAGTTAAAACAGATTATAATTGAATGTTTACCTTGAGAAACGTGAAG-AAAAGACAT
66 TACAATTTTAGTTAAAA-AGATTACAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGGCAT
* * * *
13677 TCATTGGTAAGAAAAGTTTATTTATAGTCACCCATTCCTTTA
130 TAATTGGCAAGAAAAATTAATTTATAGTCACCCATTCCTTTA
********** *
13719 AAAGTCTTATTACTCANNNNNNNNNNTTTTATAATCTCAAAATTGATTTCAATTTAAATTCTTTT
1 AAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTAAATTCTTTT
*
13784 TACAATTTTGGTTAAAGAAGATTACAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGGCAT
66 TACAATTTTAGTTAAA-AAGATTACAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGGCAT
*
13849 TAATTGGCAAGAAAAATTAATTTATAAAT-ACCCATTCCTTTA
130 TAATTGGCAAGAAAAATTAATTTAT-AGTCACCCATTCCTTTA
*
13891 AAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAA
1 AAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTCAA
13931 NNNNNNNNNN
Statistics
Matches: 562, Mismatches: 152, Indels: 25
0.76 0.21 0.03
Matches are distributed among these distances:
170 2 0.00
171 183 0.33
172 370 0.66
173 7 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.36
Consensus pattern (171 bp):
AAAGTCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTAAATTCTTTT
TACAATTTTAGTTAAAAAGATTACAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGGCATT
AATTGGCAAGAAAAATTAATTTATAGTCACCCATTCCTTTA
Found at i:17321 original size:172 final size:169
Alignment explanation
Indices: 16662--17938 Score: 747
Period size: 172 Copynumber: 7.4 Consensus size: 169
16652 NNNNNNNNNN
** *
16662 TTTTTTACATTTTCAATTAGAACAGATTATAGA-TGAATGTCTACCTTTG-GAAA-TG-AGAAAA
1 TTTTTTACATTTTTGATTA-AACAGATTATA-ATTGAATGTCTACC-TCGAGAAATTGAAG-AAA
* * * * * ******
16723 GAAAGGTATTCATTAGCAAGAAAAGGCCATTTATAGTCACCCATTCCTTCAAAAGCGTTNNNNNN
62 -AAA-GCATTCATTGGCAAGAAAAGTCCATTTATAGTCAACCATTCCTTCAAAAGCCTTATTACT
**** * * *
16788 NNNNTTAAATGGTTTTATAATCTCATAATTGATTTT-AGATT-AAGC
125 CGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAG-TTGAA-T
* * * * * *
16833 TTTTTTATATTTTTTG-TTAGAACAGAATATAATTGAATGTCTCCCTTG-GCAAACATGAAGACA
1 TTTTTTACA-TTTTTGATTA-AACAGATTATAATTGAATGTCTACCTCGAG-AAA-TTGAAGAAA
* ** * * ********** * *
16896 AAGGTGTTCATTGGTAAGAAAAGTCCATTTATAGTCACCCNNNNNNNNNNAAGCCTTATTATTCA
62 AAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCAACCATTCCTTCAAAAGCCTTATTACTCG
* * * *
16961 CTTTAAATGGTTTTATAACCTCAAAATTGATTTCAATTTGAAT
127 CTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
* ********* * * * * *
17004 TCTTTGTA-ANNNNNNNNNNAAAACAGATTATACTTGAATGTTTACCTCAAGAAACATAAAGAAA
1 T-TTTTTACA--TTTTTGATTAAACAGATTATAATTGAATGTCTACCTCGAGAAA-TTGAAGAAA
* * * * *** * * *
17068 AAAGCATTAATTGGCAAGAAAATTTCACTTATAGTCATGTATTCTTTTAAAAGCCTTATTACTCA
62 AAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCAACCATTCCTTCAAAAGCCTTATTACTCG
********** ***
17133 NNNNNNNNNNTTTTATAATCTCAAAATTGATTTTGCTTTGAAT
127 CTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
* *
17176 TCTTTGTACATTTTTTG-TTGAAACAGATTATAATGGAATGTCTACCTCGAGAAATGTGAAGAAA
1 T-TTTTTACA-TTTTTGATT-AAACAGATTATAATTGAATGTCTACCTCGAGAAAT-TGAAGAAA
* * * * *
17240 AAGGCATTCATTGGCAAGAAAAGTCTACTTATAGTCATCCATTCCTTCAAAATCCTTATTACTCG
62 AAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCAACCATTCCTTCAAAAGCCTTATTACTCG
* * * **
17305 CTTTAAATAGTTTTATAATCTCATAATCGATTTTCAGTCAAAT
127 CTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
* * *
17348 TTTTTTACATTTTTGATTAGAACAGATTATAATTGAATCTCTACCATAG-GAAACATGAAGAAAA
1 TTTTTTACATTTTTGATTA-AACAGATTATAATTGAATGTCTACC-TCGAGAAA-TTGAAGAAAA
** ** * * *
17412 AAG-AACCATTGGCCAA-AAAAGTCCATTTATAAACAACCATTTCATCAAAAGCCTTATTACTCA
63 AAGCATTCATTGG-CAAGAAAAGTCCATTTATAGTCAACCATTCCTTCAAAAGCCTTATTACTCG
* * * *
17475 CTTTAAATGGTTTTATAATCGCAAAAATGATTTTAAGTTCAATT
127 CTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAA-T
* * * *
17519 TTTTTTCACATTTTTGATTAAAACATATTATAGTTGAATGTCTACCTCTAGAAACTTGAATAAAA
1 TTTTTT-ACATTTTTGATT-AAACAGATTATAATTGAATGTCTACCTCGAGAAA-TTGAAGAAAA
* * *
17584 ATA-TATTCATTGGCAAGAAAAGTCCAGTTATAGT-AACCCATTCCTTCAAAAGCATTATTACTC
63 A-AGCATTCATTGGCAAGAAAAGTCCATTTATAGTCAA-CCATTCCTTCAAAAGCCTTATTACTC
* * * * *
17647 GTTTTAAA-AGGATTTATAATTTTATAATTGATTTTAAGTTGAAT
126 GCTTTAAATA-GTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
* * * * * *
17691 TTTTTTGACATTTTTGATTAAAATAGACTATAATTGAATGTCTACGTCAAGAAACGTAAAGAAAA
1 TTTTTT-ACATTTTTGATT-AAACAGATTATAATTGAATGTCTACCTCGAGAAA-TTGAAG-AAA
* *********
17756 AAAGCATTCATTGGTAAGAAAAGTCCATTTATAGTCANNNNNNNNNNT-AAAAGCCTTATTACTC
62 AAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCA-ACCATTCCTTCAAAAGCCTTATTACTC
* *
17820 GCTTTAAATAGTTTTATAATCTAAAAATTAATTTTAAGTTGAAT
126 GCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
* * *
17864 TCTTTATACATTTTTTG-TTATAACAGATTATAATTAAATTTCTACCTCGAGAAACTTGAAG-AA
1 T-TTTTTACA-TTTTTGATTA-AACAGATTATAATTGAATGTCTACCTCGAGAAA-TTGAAGAAA
17927 AAAGACATTCAT
62 AAAG-CATTCAT
17939 NNNNNNNNNN
Statistics
Matches: 846, Mismatches: 222, Indels: 75
0.74 0.19 0.07
Matches are distributed among these distances:
170 91 0.11
171 172 0.20
172 361 0.43
173 207 0.24
174 15 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.36
Consensus pattern (169 bp):
TTTTTTACATTTTTGATTAAACAGATTATAATTGAATGTCTACCTCGAGAAATTGAAGAAAAAAG
CATTCATTGGCAAGAAAAGTCCATTTATAGTCAACCATTCCTTCAAAAGCCTTATTACTCGCTTT
AAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT
Found at i:17644 original size:173 final size:171
Alignment explanation
Indices: 17143--17938 Score: 723
Period size: 173 Copynumber: 4.6 Consensus size: 171
17133 NNNNNNNNNN
* *** * * * *
17143 TTTTATAATCTCAAAATTGATTTTGCTTTGAATTCTTTGTACATTTTTTG-TTGAAACAGATTAT
1 TTTTATAATCTCAAAAATGATTTTAAGTTCAATTTTTTTTACA-TTTTTGATTAAAACAGATTAT
* * * * *
17207 AATGGAATGTCTACCTCGAGAAA-TGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTACTTA
65 AATTGAATGTCTACCTCTAGAAACT-TGAAGAAAAA-ACATTCATTGGCAAGAAAAGTCCATTTA
* * * *
17271 TAGTCATCCATTCCTTCAAAATCCTTATTACTCGCTTTAAATAG
128 TAGTAACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG
* * * *
17315 TTTTATAATCTC-ATAATCGATTTTCAG-TCAAATTTTTTTACATTTTTGATTAGAACAGATTAT
1 TTTTATAATCTCAAAAAT-GATTTTAAGTTCAATTTTTTTTACATTTTTGATTAAAACAGATTAT
* * * * **
17378 AATTGAATCTCTACC-ATAGGAAACATGAAGAAAAAAGAACCATTGGCCAA-AAAAGTCCATTTA
65 AATTGAATGTCTACCTCTA-GAAACTTGAAGAAAAAACATTCATTGG-CAAGAAAAGTCCATTTA
* * *
17441 TA--AACAACCATTTCATCAAAAGCCTTATTACTCACTTTAAATGG
128 TAGTAAC--CCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG
* *
17485 TTTTATAATCGCAAAAATGATTTTAAGTTCAATTTTTTTTCACATTTTTGATTAAAACATATTAT
1 TTTTATAATCTCAAAAATGATTTTAAGTTCAATTTTTTTT-ACATTTTTGATTAAAACAGATTAT
* * * *
17550 AGTTGAATGTCTACCTCTAGAAACTTGAATAAAAATATATTCATTGGCAAGAAAAGTCCAGTTAT
65 AATTGAATGTCTACCTCTAGAAACTTGAAGAAAAA-ACATTCATTGGCAAGAAAAGTCCATTTAT
* * *
17615 AGTAACCCATTCCTTCAAAAGCATTATTACTCGTTTTAAAAGG
129 AGTAACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG
* * * * * * * * *
17658 ATTTATAATTTTATAATTGATTTTAAGTTGAATTTTTTTGACATTTTTGATTAAAATAGACTATA
1 TTTTATAATCTCAAAAATGATTTTAAGTTCAATTTTTTTTACATTTTTGATTAAAACAGATTATA
* * * * *
17723 ATTGAATGTCTACGTCAAGAAACGTAAAGAAAAAAAGCATTCATTGGTAAGAAAAGTCCATTTAT
66 ATTGAATGTCTACCTCTAGAAACTTGAAG-AAAAAA-CATTCATTGGCAAGAAAAGTCCATTTAT
********** *
17788 AGTCANNNNNNNNNNT-AAAAGCCTTATTACTCGCTTTAAATAG
129 AGT-AACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG
* * * * *
17831 TTTTATAATCT-AAAAATTAATTTTAAGTTGAATTCTTTATACATTTTTTG-TTATAACAGATTA
1 TTTTATAATCTCAAAAA-TGATTTTAAGTTCAATTTTTTTTACA-TTTTTGATTAAAACAGATTA
* * *
17894 TAATTAAATTTCTACCTCGAGAAACTTGAAGAAAAAGACATTCAT
64 TAATTGAATGTCTACCTCTAGAAACTTGAAGAAAAA-ACATTCAT
17939 NNNNNNNNNN
Statistics
Matches: 502, Mismatches: 101, Indels: 42
0.78 0.16 0.07
Matches are distributed among these distances:
168 1 0.00
170 78 0.16
171 71 0.14
172 131 0.26
173 210 0.42
174 8 0.02
175 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.37
Consensus pattern (171 bp):
TTTTATAATCTCAAAAATGATTTTAAGTTCAATTTTTTTTACATTTTTGATTAAAACAGATTATA
ATTGAATGTCTACCTCTAGAAACTTGAAGAAAAAACATTCATTGGCAAGAAAAGTCCATTTATAG
TAACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGG
Found at i:18761 original size:175 final size:172
Alignment explanation
Indices: 18403--18779 Score: 429
Period size: 175 Copynumber: 2.2 Consensus size: 172
18393 AATTTTGAAG
* * *
18403 GAATGGGTGGCTATAAATGAACTTTTCTTGTCAATGAATGCCTTTTTCTTCAATTTTCTCGAGAT
1 GAATGGGTGACTATAAATGAACTTTTCTTGTAAATGAATGCCTTTTTCTTCAATTTTCTAGAGAT
* * * * * ** * *
18468 AGAAATTTAATTATAATTTGTTATCACCAAAAATGTACAAAGAATTTAACTTAAATTCAATTTTT
66 AGAAATTCAATTATAATCTGTTATAACCAAAAATGTAAAAACAAAATAACTTAAATTCAATTATA
* * *
18533 AGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAA
131 AAATTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAA
* * * *
18575 GAATAGGTGACTATAAATAAACTTTTCTTAG-AAATGAGTGCTTTTTTTCTTCACA-TTTCTAG-
1 GAATGGGTGACTATAAATGAACTTTTCTT-GTAAATGAATGC-CTTTTTCTTCA-ATTTTCTAGA
* * *
18637 GCGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAACAAAATAACTTTTATAA-TC
63 G-ATAGAAATTCAATTATAATCTGTTATAACCAAAAATGTAAAAACAAAATAAC--TTA-AATTC
* * *
18701 AATTATAAAATTATAAAACTTTTTAAAACGAGTAATAAGGCTTTCGAAT
124 AATTATAAAATTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAA
*
18750 GAATGGGTGACTATAACTGAACTTTTCTTG
1 GAATGGGTGACTATAAATGAACTTTTCTTG
18780 CTAATAAATA
Statistics
Matches: 170, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
172 35 0.21
173 59 0.35
174 2 0.01
175 72 0.42
176 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (172 bp):
GAATGGGTGACTATAAATGAACTTTTCTTGTAAATGAATGCCTTTTTCTTCAATTTTCTAGAGAT
AGAAATTCAATTATAATCTGTTATAACCAAAAATGTAAAAACAAAATAACTTAAATTCAATTATA
AAATTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAA
Found at i:18796 original size:175 final size:171
Alignment explanation
Indices: 18403--19041 Score: 474
Period size: 173 Copynumber: 3.7 Consensus size: 171
18393 AATTTTGAAG
* * *
18403 GAATGGGTGGCTATAAATGAACTTTTCTTGTCAATGAATGC-CTTTTTCTTCA-ATTTTCTCGAG
1 GAATGGGTGACTATAAATGAACTTTTCTTGT-AATGAATGCTTTTTTTCTTCACA-TTTCTAG-G
* * * * * * * * ** *
18466 ATAGAAATTTAATTATAATTTGTTATCACCAAAAATGTACAAAGAATTTAACTTAAATTCAATTT
63 GTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAACAAAATAACTTAAATTCAATTA
* * * *
18531 TTAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAAA
128 TAAAATTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAA
* * * *
18575 GAATAGGTGACTATAAATAAACTTTTCTTAGAAATGAGTGCTTTTTTTCTTCACATTTCTAGGCG
1 GAATGGGTGACTATAAATGAACTTTTCTT-GTAATGAATGCTTTTTTTCTTCACATTTCTAGG-G
18640 TAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAACAAAATAACTTTTATAA-TCAAT
64 TAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAACAAAATAAC--TTA-AATTCAAT
* * *
18704 TATAAAATTATAAAACTTTTTAAAACGAGTAATAAGGCTTTCGAAT
126 TATAAAATTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAA
* * * * *
18750 GAATGGGTGACTATAACTGAACTTTTCTTGCTAATAAATACTTTTTTT-TTCACGTTTCTCAAGG
1 GAATGGGTGACTATAAATGAACTTTTCTTG-TAATGAATGCTTTTTTTCTTCACATTTCT-AGGG
* * * * ** * *
18814 TAGACGTACAACTATAATCTATTTTAATAAAAAATAAG-AGAAAA-AAATTAAACTTAAAATCAA
64 TAGACATTCAATTATAATCTGTTTTAACCAAAAAT--GTA-AAAACAAAAT-AACTTAAATTCAA
* ** * ** *
18877 TTTTGTAATTATAAAACCATTT-AAACTGAGTAATAAGGCTTTTGAAG
125 TTATAAAATTATAAAACTATTTAAAAC-GAGTAATAAGGCTTTCAAAA
* * * * * * * * * *
18924 GAA-GGTTGATTGTAAATGGACTTTT-TT-TACCACTGGATAC-CTTTTTCTTCACGTTTTTCAT
1 GAATGGGTGACTATAAATGAACTTTTCTTGTA--A-TGAATGCTTTTTTTCTTCACATTTCT-AG
* * * * **
18985 GGTGGAGATTCAATTATAATCTGTTCTAACTAAAAATGTAAAAA-AATTTAACTTAAA
62 GGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAACAAAATAACTTAAA
19042 ATNNNNNNNN
Statistics
Matches: 379, Mismatches: 68, Indels: 42
0.78 0.14 0.09
Matches are distributed among these distances:
170 10 0.03
171 9 0.02
172 44 0.12
173 127 0.34
174 87 0.23
175 92 0.24
176 10 0.03
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (171 bp):
GAATGGGTGACTATAAATGAACTTTTCTTGTAATGAATGCTTTTTTTCTTCACATTTCTAGGGTA
GACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAACAAAATAACTTAAATTCAATTATAA
AATTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAA
Found at i:21235 original size:172 final size:173
Alignment explanation
Indices: 20816--21603 Score: 447
Period size: 172 Copynumber: 4.6 Consensus size: 173
20806 NNNNAGGCAT
* * * * * * *
20816 TCAATTATAATCTGTTTTCACCAAAAAA-ATAAAAAAATTTAACTTAAAATTAATTATGAGATAA
1 TCAATTATAATCTGTTGT-AACAAAAAATGTAAAAAAAATTAACTTAAAATCAATTATGAAATTA
* * * * *
20880 TAAAACAT-TTTAAAGCAAGTAATAAGACATTTGATA-GAATGAGAGACTATAAATAGACTTTTC
65 TAAAACCTATTTAAAGCAAGTAATAAGGCTTTTGA-AGGAATGGGTGACTATAAATAGACTTTTC
* ** * * * * * * *
20943 TT-CTAATTGAATGGT-TTTTTCTACATGTTTCTCGA-AGCAGACAT
129 TTGCCAA-CAAATGCTCTTTTTCTTCATATTTCTCGAGA-TAAAAAA
** * * * * * * ****
20987 TCAATTATGGTCTATTTTAATAAAAAAATGTAAAAAAACTCAACTTAAAATCAATGATG-ANNNN
1 TCAATTATAATCTGTTGTAA-CAAAAAATGTAAAAAAAATTAACTTAAAATCAATTATGAAATTA
****** * * **
21051 NNNNNNCTATTTAGAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGGGTATAAAT-GAACTTTTC
65 TAAAACCTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTC
** *
21115 TTGCCAATGAATGC-CTTTTTCTTCA-AGTTTCTCGAGGTAAAAAA
129 TTGCCAACAAATGCTCTTTTTCTTCATA-TTTCTCGAGATAAAAAA
* * * * * * *
21159 TTAATTATAATCTGTTGTAACAAAAAATGTACACAGAATTCAACTTAAAATCAATTTTTAGATTA
1 TCAATTATAATCTGTTGTAACAAAAAATGTAAAAAAAATT-AACTTAAAATCAATTATGAAATTA
*********
21224 TAAAA-CTATTTAAAGNNNNNNNNNNA-GCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTC
65 TAAAACCTATTTAAAG-CAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTC
* * *
21287 TTGCCAACAAATGCTTTTTTTCTTCATATTTCTCGAGATAGACAA
129 TTGCCAACAAATGCTCTTTTTCTTCATATTTCTCGAGATAAAAAA
* ** *
21332 TCAATTATAATCTGTTTTAACCTAAAATGTAAAAAAAATTAACTTAAAATGAATTATGAAATTAT
1 TCAATTATAATCTGTTGTAACAAAAAATGTAAAAAAAATTAACTTAAAATCAATTATGAAATTAT
* * * **********
21397 AAAACCT-TTTAAAACAAGTAATAAGGCTTTTAAAGGAATGGATGACNNNNNNNNNNCTTTTCTT
66 AAAACCTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTT
** * * * * *
21461 GCCAATGAATG-TCTTTTTCTTCATATTTTTC-ATGGTAGACAT
131 GCCAACAAATGCTCTTTTTCTTCATATTTCTCGA-GATAAAAAA
* * * * * **
21503 TCAACTATAAGCTGTTTTAACCAAAAATGTGAAAAAAAAATTGAACTTAAAATCAATTTTGTGAT
1 TCAATTATAATCTGTTGTAACAAAAAATGT--AAAAAAAATT-AACTTAAAATCAATTATGAAAT
* **
21568 TATTAAACC-ATTTAAAGTGAGTAATAAGGCTTTTGA
63 TATAAAACCTATTTAAAGCAAGTAATAAGGCTTTTGA
21604 TGGNNNNNNN
Statistics
Matches: 463, Mismatches: 132, Indels: 41
0.73 0.21 0.06
Matches are distributed among these distances:
170 2 0.00
171 91 0.20
172 247 0.53
173 74 0.16
174 49 0.11
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.34
Consensus pattern (173 bp):
TCAATTATAATCTGTTGTAACAAAAAATGTAAAAAAAATTAACTTAAAATCAATTATGAAATTAT
AAAACCTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTT
GCCAACAAATGCTCTTTTTCTTCATATTTCTCGAGATAAAAAA
Found at i:22908 original size:171 final size:172
Alignment explanation
Indices: 22701--23189 Score: 513
Period size: 172 Copynumber: 2.8 Consensus size: 172
22691 ATTCAAATTG
* * * ** * *
22701 AAATCAATTTTGATATTATAAAACTATTTAAAGTGAGTAATATGATTTTTGTAGCAATGGGTGAC
1 AAATCAATTTTGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGAC
* * **********
22766 TATAAATAGACTTTTCTTGC-CAATGAA-TATCTCTTTCTTCATGTTTNNNNNNNNNNACATTCA
66 TATAAATAGACTTTTCTT-CTCAATGAATTAT-TCTTTCTACACGTTTCTCAAGGTGCACATTCA
*
22829 ATTATAATCTGTTTTAACAAAAAACA-TAAAAAAATTGAGTTAA
129 ATTATAATCTGTTTTAACAAAAAACATTAAAAAAATTGACTTAA
* * *
22872 AAATCAATTTTGAGATAAAAAAACTATTTAAAGTGAGTAACAAGGCTTTTGAAGAAATGGGAGAC
1 AAATCAATTTTGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGAC
* * *
22937 TATAAATGGACTTTTCTTCTCAATGAATTATTTTTTCTACACGTTTCTCAAGGTGCGCATTCAAT
66 TATAAATAGACTTTTCTTCTCAATGAATTATTCTTTCTACACGTTTCTCAAGGTGCACATTCAAT
* *
23002 TATAATCTGTTTTAACCAAAAATATTAAAAAAATTGACTTAA
131 TATAATCTGTTTTAACAAAAAACATTAAAAAAATTGACTTAA
* * *
23044 AAATCAATTTTGAGATAATAAAACCATTTGAAA-TGAGTAATAAGGCTTTTGAAGGAATGAGTGA
1 AAATCAATTTTGAGATAATAAAACTATTT-AAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGA
* * * * * ** **
23108 CTATAAATAGACCTTTCTAGCT-GATGAATGCATT-TTTCTTCATATTTCTCAAGGTAAACATTC
65 CTATAAATAGACTTTTCT-TCTCAATGAAT-TATTCTTTCTACACGTTTCTCAAGGTGCACATTC
**
23171 AATTATAGCCTGTTTTAAC
128 AATTATAATCTGTTTTAAC
23190 TAANNNNNNN
Statistics
Matches: 265, Mismatches: 47, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
170 1 0.00
171 121 0.46
172 135 0.51
173 8 0.03
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (172 bp):
AAATCAATTTTGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGGGTGAC
TATAAATAGACTTTTCTTCTCAATGAATTATTCTTTCTACACGTTTCTCAAGGTGCACATTCAAT
TATAATCTGTTTTAACAAAAAACATTAAAAAAATTGACTTAA
Found at i:23642 original size:171 final size:169
Alignment explanation
Indices: 22422--25119 Score: 1359
Period size: 171 Copynumber: 15.8 Consensus size: 169
22412 NNNNNNNNNN
* ** *
22422 TATAAATGAACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCAAGGT-GAACATTCAA
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAG-ACATTCAA
* * * * **********
22486 TTAAAATCTATTTTAACTAAAAATGTACAAAGAATTCAAATTTAAATCANNNNNNNNNNTATAAA
65 TTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAAATTAAAATCAATTTTGAGATTATAAA
* *
22551 ACCATTTAAGGTGAGTAATAAGGCTTTTGAAGGAATGGATGAC
129 A-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGG-TGAC
* * * * * * * *
22594 AATAATTGGAGTTTTCTTGCCAATAAATGCCTTTTTCTTTATATTTCTTAAGGTAGACATTCAAC
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAAT
* * * * ********** * *
22659 TCTAATCTATTTTACCCGAAANNNNNNNNNNAATTCAAATTGAAATCAATTTTGATATTATAAAA
66 TATAATCTGTTTTA-ACTAAAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAA
* ** * *
22724 CTATTTAAAGTGAGTAATATGATTTTTGTAGCAATGGGTGAC
130 -TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
** * ** **********
22766 TATAAAT-AGACTTTTCTTGCCAATGAATATCTCTTTCTTCATGTTTNNNNNNNNNNACATTCAA
1 TATAAATGA-ACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAA
* ** * * * *
22830 TTATAATCTGTTTTAACAAAAAACATAAAAAAATT-GAGTTAAAAATCAATTTTGAGATAAAAAA
65 TTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAAATT-AAAATCAATTTTGAGATTATAAA
* * *
22894 ACTATTTAAAGTGAGTAACAAGGCTTTTGAAGAAATGGGAGAC
129 A-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* *** * * * *
22937 TATAAATGGACTTTTCTT-CTCAATGAATTATTTTTTCTACACGTTTCTCAAGGT-GCGCATTCA
1 TATAAATGAACTTTTCTTGC-CAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAG-ACATTCA
* * * * *
23000 ATTATAATCTGTTTTAACCAAAAATATTAAAAAAATT-GACTTAAAAATCAATTTTGAGATAATA
64 ATTATAATCTGTTTTAACTAAAAAT-GTAAAAAAATTCAAATT-AAAATCAATTTTGAGATTATA
*
23064 AAACCATTTGAAA-TGAGTAATAAGGCTTTTGAAGGAATGAGTGAC
127 AAA-TATTT-AAAGTGAGTAATAAGGCTTTTGAAGGAATG-GTGAC
* * ** * * * *
23109 TATAAAT-AGACCTTTCTAGCTGATGAATGCATTTTTCTTCATATTTCTCAAGGTAAACATTCAA
1 TATAAATGA-ACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAA
** **********************************
23173 TTATAGCCTGTTTTAACTAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGATTATAAAA
65 TTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAA
* *
23238 TTATTTAAAGCGAGTAATAAGCCTTTTGAAGGAATGGGTGAC
130 -TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * ********** * *
23280 TGTAAATGAACTTTTTTTGCCAATGAATGCCTTTTNNNNNNNNNNTCTTGAGGTTGACATTCAAT
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAAT
* * * * * *
23345 TATAATATATTTTAACTAAAAATGTACAAAGAATTAAAATTAAAATCAATTTTTATATTATAAAA
66 TATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAA
* ********** *
23410 TCATTTAAAATGNNNNNNNNNNCTTTTAAAGGAATGGGTGAC
130 T-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * * * *
23452 TATAAAT-AGACTCTTCTTGCCAATAAATGCGTTTTTCTTTACATTTCTTATGGTAGACATTCAA
1 TATAAATGA-ACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAA
* * * * * *
23516 TTATAGTCTGTTTTAACAAAAAATATAAAAAAATTTAAATTTAAATTAATTTTGAGATTATAAAA
65 TTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAA
* * *
23581 TAATTTAAAGTGATTGATAAGGCTTTTGAAGAAATGGTTGAC
130 T-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGG-TGAC
* * * * * **
23623 TATAAATGAACTTTTCTTGCTAATGAATACCCTTTTGTTCACATTTGTCGAGGTAGACATTCAAT
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAAT
* * * * * *
23688 TATAATATGTTTTAA-TCAGAAATTTACAAAGAATTCAAATTTAAATCAATTTTGAGACTATAAA
66 TATAATCTGTTTTAACT-AAAAATGTA-AAAAAATTCAAATTAAAATCAATTTTGAGATTATAAA
* ********** *
23752 ACTATTTAAAGTTAGTAANNNNNNNNNNGAAGAAATGGGTGAC
129 A-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * * * * **
23795 TATAAATGTACTTTTCTTACCAATGAAT-ACTTTTTCTTCACGTTTCCCTAA-ACAGACATTCAA
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTT-CTTAAGGTAGACATTCAA
* * * * **
23858 TTATAATCTGTTCTAACCAAAAATGTGAAAAAACTC-AATCTAAAATCAATTACGAGATTATAAA
65 TTATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAAAT-TAAAATCAATTTTGAGATTATAAA
* *
23922 AGCATTTAAAGTGAGTAATAATGCTTTTGAAGGAAATGGTGAC
129 A-TATTTAAAGTGAGTAATAAGGCTTTTGAAGG-AATGGTGAC
* ** * ****
23965 TATAAAT-AGACTTTTCTTGCCATTGAATAACTTTTTCTTTACATTTCTTAAGGTAGACATNNNN
1 TATAAATGA-ACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAA
****** ** * * * *
24029 NNNNNNTCTGTTTTAA-TCAAAAATGTAAAAGTATTCAACTTAAAATCAACTATGACATTAT-AA
65 TTATAATCTGTTTTAACT-AAAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAA
* * *
24092 ATCCATTTAAAGTGAGCAATAAGGCTTTTAAAGGTATAGGTGAC
129 AT--ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * * ** * * * * *
24136 TATAAATGGACTTTTCTT-CTAAATAAATGATTTTTTCTACACGTTTCTTGAGGTAGGCAATCAA
1 TATAAATGAACTTTTCTTGC-CAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAA
* * * * * * ** ** * *
24200 TCATAGTCTATTTCAAC-AGAAAATGAAAAAAAATTTATCTTAAAATCAATTAAGACATTAGAAA
65 TTATAATCTGTTTTAACTA-AAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAA
* * * *
24264 ACCA--T----T---T-A-AA-CCGTTTGAAGGAATGGTTAGC
129 A-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGTGA-C
* * * *
24295 TATAAATGAACTTTTTTTGCTAATGAATGCCTTTTTCTTCA-AGTTTCTCAAGGTTGACATTCAA
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACA-TTTCTTAAGGTAGACATTCAA
* * *
24359 TTATAATATGTTTTAACTAAAAATGTATAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAA
65 TTATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAAATTAAAATCAATTTTGAGATTATAAA
* * *
24424 ACTATTTAAAGCGAGTAGTAAGGCTTTTAAAGGAATGAGTGAC
129 A-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATG-GTGAC
* ** * * *
24467 TATAAAT-AGACTTTTCTTG-CAATGAATGCCTTTCTCTTCATGTTTCTCAAGTTAGACATTTAA
1 TATAAATGA-ACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAA
* * * *
24530 TTATAATCTGTTTTAACTAAAAATGTAAAAAGATTTGAACA-TAAAATCAATTTTGAGCTCATAA
65 TTATAATCTGTTTTAACTAAAAATGTAAAAA-AATTCAA-ATTAAAATCAATTTTGAGATTATAA
* ********** *
24594 AACTATTTAAAGTGAGTAATAAGACTNNNNNNNNNNTGAGAGAC
128 AA-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATG-GTGAC
* * * * * * * * * *
24638 TATAAATGGACTTTTCTTTCAAATGACTGGCTTTTTCTACACTTTTTTTATGGCAGACATTCAAT
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAAT
* * * * * * * * *
24703 TATAGTCTCTTTTAA-TGAAAAAAGTAAGAACATACAACTTAAAATCAATTATGTGATTATAAAA
66 TATAATCTGTTTTAACT-AAAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAA
* * *********
24767 CTATTTAAAGCGAGTAATAAGGATTTTGAAGGNNNNNNNNNN
130 -TATTTAAAGTGAGTAATAAGGCTTTTGAAGG-AATGGTGAC
** *
24809 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCATTTTTCTTAAAGTAGACATTCAAT
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAAT
* * * * *
24874 TTTAATCTGCTTTAACTAAAAATGTACAAAGAATTCAACTAAAAATCAATTTTGAGATTATAAGA
66 TATAATCTGTTTTAACTAAAAATGTA-AAAAAATTCAAATTAAAATCAATTTTGAGATTATAA-A
* * * *
24939 CA-ATTGAAAGTGAGTAATAAGGCTTTTAAAAGAATAAGTGAC
129 -ATATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * * * * * *
24981 TATCAATGGACTTTTCTTACTAATGAATACCTTTTTCTTTACGTTT-TTCAAGGTAGACATTCAA
1 TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTT-AAGGTAGACATTCAA
* * ** *
25045 TTATAATCGGTTTTAATTAAAAATGTAAAACAAATTCAACCTAAAATCAATTATT-AGTTTATAA
65 TTATAATCTGTTTTAACTAAAAATGTAAAA-AAATTCAAATTAAAATCAATT-TTGAGATTATAA
25109 AACTATTTAAA
128 AA-TATTTAAA
25120 NNNNNNNNNN
Statistics
Matches: 1849, Mismatches: 595, Indels: 164
0.71 0.23 0.06
Matches are distributed among these distances:
158 4 0.00
159 78 0.04
160 35 0.02
161 1 0.00
162 1 0.00
165 1 0.00
169 5 0.00
170 100 0.05
171 849 0.46
172 754 0.41
173 20 0.01
174 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.35
Consensus pattern (169 bp):
TATAAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAGACATTCAAT
TATAATCTGTTTTAACTAAAAATGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAAT
ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGTGAC
Found at i:24991 original size:343 final size:332
Alignment explanation
Indices: 24294--25119 Score: 723
Period size: 343 Copynumber: 2.4 Consensus size: 332
24284 GAATGGTTAG
* * * * * * * * **
24294 CTATAAATGAACTTTTTTTGCTAATGAATGCCTTTTTCTTCAAGTTTCTCAAGGTTGACATTCAA
1 CTATAAATGGACTTTTCTTACAAATGAATACCTTTTTCTACACGTTTTTCAAGGCAGACATTCAA
* * * * ** *
24359 TTATAATATG-TTTTAACT-AAAAATGTATAAAGAATTCAAATTTAAATCAATT-TTGAGATTAT
66 TTATAAT-CGCTTTTAA-TGAAAAAAGTA-AAACAATACAACCTAAAATCAATTATT-AGATTAT
* *
24421 AAAACTATTTAAAGCGAGTAGTAAGGCTTTTAAAGGAATGAGTGACTATAAATAGACTTTTCTTG
127 AAAACTATTTAAAGCGAGTAATAAGGATTTT----G-A--AG-G--TATAAATAGACTTTTCTTG
* * *
24486 CAATGAATGCCTTTCTCTTCATGTTTCTCAAGTTAGACATTTAATTATAATCTGTTTTAACTAAA
182 CAATGAATGCCTTTCTCTTCATGTTTCTAAAGTTAGACATTCAATTATAATCTGCTTTAACTAAA
* * * * *
24551 AATGTAAAAAGATTTGAACATAAAATCAATTTTGAGCTCATAAAACTATTTAAAGTGAGTAATAA
247 AATGTAAAAAGAATTCAACATAAAATCAATTTTGAGATCATAAAACAATTGAAAGTGAGTAATAA
********** *
24616 GACTNNNNNNNNNNTGAGAGA
312 GACTTTTAAAAGAATAAGAGA
* * ** * * *
24637 CTATAAATGGACTTTTCTTTCAAATGACTGGCTTTTTCTACACTTTTTTTATGGCAGACATTCAA
1 CTATAAATGGACTTTTCTTACAAATGAATACCTTTTTCTACACGTTTTTCAAGGCAGACATTCAA
* * *
24702 TTATAGTCTCTTTTAATGAAAAAAGTAAGAAC-ATACAACTTAAAATCAATTATGT-GATTATAA
66 TTATAATCGCTTTTAATGAAAAAAGTAA-AACAATACAACCTAAAATCAATTAT-TAGATTATAA
24765 AACTATTTAAAGCGAGTAATAAGGATTTTGAAGGNNNNNNNNNNTATAAAT-GAACTTTTCTTGC
129 AACTATTTAAAGCGAGTAATAAGGATTTTGAAGG----------TATAAATAG-ACTTTTCTTG-
* * *
24829 CAATGAATGCCTTTTTCTTCATTTTTCTTAAAG-TAGACATTCAATTTTAATCTGCTTTAACTAA
182 CAATGAATGCCTTTCTCTTCATGTTTC-TAAAGTTAGACATTCAATTATAATCTGCTTTAACTAA
* * *
24893 AAATGTACAAAGAATTCAAC-TAAAAATCAATTTTGAGATTATAAGACAATTGAAAGTGAGTAAT
246 AAATGTAAAAAGAATTCAACAT-AAAATCAATTTTGAGATCATAAAACAATTGAAAGTGAGTAAT
* *
24957 AAGGCTTTTAAAAGAATAAGTGA
310 AAGACTTTTAAAAGAATAAGAGA
* * ** *
24980 CTATCAATGGACTTTTCTTACTAATGAATACCTTTTTCTTTACGTTTTTCAAGGTAGACATTCAA
1 CTATAAATGGACTTTTCTTACAAATGAATACCTTTTTCTACACGTTTTTCAAGGCAGACATTCAA
* * * * *
25045 TTATAATCGGTTTTAATTAAAAATGTAAAACAAATTCAACCTAAAATCAATTATTAGTTTATAAA
66 TTATAATCGCTTTTAATGAAAAAAGTAAAAC-AATACAACCTAAAATCAATTATTAGATTATAAA
25110 ACTATTTAAA
130 ACTATTTAAA
25120 NNNNNNNNNN
Statistics
Matches: 390, Mismatches: 73, Indels: 39
0.78 0.15 0.08
Matches are distributed among these distances:
334 1 0.00
335 2 0.01
337 1 0.00
338 1 0.00
341 1 0.00
342 74 0.19
343 268 0.69
344 42 0.11
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.37
Consensus pattern (332 bp):
CTATAAATGGACTTTTCTTACAAATGAATACCTTTTTCTACACGTTTTTCAAGGCAGACATTCAA
TTATAATCGCTTTTAATGAAAAAAGTAAAACAATACAACCTAAAATCAATTATTAGATTATAAAA
CTATTTAAAGCGAGTAATAAGGATTTTGAAGGTATAAATAGACTTTTCTTGCAATGAATGCCTTT
CTCTTCATGTTTCTAAAGTTAGACATTCAATTATAATCTGCTTTAACTAAAAATGTAAAAAGAAT
TCAACATAAAATCAATTTTGAGATCATAAAACAATTGAAAGTGAGTAATAAGACTTTTAAAAGAA
TAAGAGA
Found at i:26129 original size:171 final size:171
Alignment explanation
Indices: 25534--26921 Score: 756
Period size: 171 Copynumber: 8.2 Consensus size: 171
25524 NNNNNNNNNN
** * * * *
25534 AATCAATTATGAGATTATAAAAATATTTAAAGCGAATAATAAGGCTTTTGAAGGAATGGGTGACT
1 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAGGTGACT
* * * ** * * * *
25599 GTAAATGGACTTTTTTTCTTACCAATGAATGCCTTTTTCTTCACATTTCTTGAGGTTGACATTTA
66 ATAAATGGAC---TTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAAGTAGACATTCA
* * *
25664 ATTATAATATATTTTAACCAAAAATGTACAAAGAATTCAA--ATTAA
128 ATTATAATCTGTTTTAATCAAAAATGTA-AAA-AATTCAATCA-TAA
* * * * * ********
25709 AATCAAGTT-TTATATTATAAAATCATTTAAAATGAGTAATAATGCTTTT-AAAGGANNNNNNNN
1 AATCAA-TTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAA-GAATAGGTGA
** * * ** * * *
25772 NNATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTTACATTTCT-TATGGTAAACATTCA
64 CTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGA-AGTAGACATTCA
* * ** * *
25836 ATTATAGTTTGTTTTAA--AAAATATAAAAAAAAATTTAA--ATTTA
128 ATTATAATCTGTTTTAATCAAAA-AT-GTAAAAAATTCAATCA-TAA
* * **********
25879 AATCAAATT-TGAGATTATATAACCATTTAAAGTGATTAATAA-NNNNNNNNNNGAA-ATGGTTG
1 AATC-AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATA-GG-TG
* * * *
25941 ACTATAAATGGACTTTTCTTGCCAATGAATACTTTTTTCTTCACGTTTCCCTAAGTAGACATTCA
63 ACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAAGTAGACATTCA
* * *
26006 ATTATAATCTGTTCTAATCAAAAACGTGAAAAAACTCAATC-TAA
128 ATTATAATCTGTTTTAATCAAAAATGT-AAAAAATTCAATCATAA
* *
26050 AATCAATTATGAGATTATAAAAGCATTTAAAGTGAGTAATAATGCTTTTGAAAGAA-ATGGTGAC
1 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATA-GGTGAC
* * * * * *
26114 TATAAATAGACTTTTCTTGCCAATGAATAACTTTTTCTTTATATTTCT-TAAGGTAAACATTCAA
65 TATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAA-GTAGACATTCAA
* * * *
26178 TTATAATCTATTTTAATCAAAAATATAAAAGTATTCAA-CTTAA
129 TTATAATCTGTTTTAATCAAAAATGTAAAA-AATTCAATCATAA
* * * * * * * *
26221 AATCAACTATGACG-TTATAAATCCATTTAAAGTTAGCAATAAGGCTTTTGAAGGTATGGGTAAC
1 AATCAATTATGA-GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAGGTGAC
* * * ** * * *
26285 TATAAATGGACTTTTCTT-CTAATAAACAATTTTTTCTACATGTTTCTCGAGGTAGGCATTCAAT
65 TATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAAGTAGACATTCAAT
* * * **
26349 TATAGTCTATTTTAA-CAGAAAATGTAAAAAAATGTATCATAA
130 TATAATCTGTTTTAATCA-AAAATGTAAAAAATTCAATCATAA
* * * ** * *
26391 AATCAATTAAGATATTAGAAAA-C---T--A-T---T--TAAACCATTTGAAAGAATGGGT-AGC
1 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAGGTGA-C
* * * * * * * * *
26443 TATAAATGAACTTTTTTTACTAATGAATGCCTTTTTCTTCACGTTTCTCGAGGTTGATATTCAAT
65 TATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAAGTAGACATTCAAT
* * * *
26508 TATAATATGTTTTAATAAAAAATATACAAAGAATTCAA--ATTTA
130 TATAATCTGTTTTAATCAAAAATGTA-AAA-AATTCAATCA-TAA
********** * * *
26551 AATNNNNNNNNNNATTATAAAACTATTTAAAGCGAGTAGTAAGGCTTTT-AAAGGAATAGGTGAC
1 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAA-GAATAGGTGAC
* * * * * *
26615 TATAAATAGTCTTTTCTTG-CAATAAATGCCTTTTTCTTCATATTTCTC-AAGTTAGACATTTAA
65 TATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAAG-TAGACATTCAA
*
26678 TTATAATCTGTTTTAATCAAAAATGTAAAAAGATTTGAA-CATAA
129 TTATAATCTGTTTTAATCAAAAATGTAAAAA-A-TTCAATCATAA
* * * * * *
26722 AATCAATTTTAAGCTTATAAAACCATTTAAAGTGAGTAATAAGACTTTTGAAAGAATAAGAGACT
1 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAGGTGACT
* * **** * * * *
26787 ATAAATGGACTTTTCTTTCAAATGACCGGCTTTTTCTACACT-TTTTTC-ATGGCATG-CATTCA
66 ATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCA-TGTTTCTCGA-AGTA-GACATTCA
* * * *
26849 ATTATAGTCTCTTTTAATGAAAAA-GTAAAAACATTCAA-CTTAA
128 ATTATAATCTGTTTTAATCAAAAATGTAAAAA-ATTCAATCATAA
26892 AATCAATTATGAGATTATAAAACCATTTAA
1 AATCAATTATGAGATTATAAAACCATTTAA
26922 NNNNNNNNNN
Statistics
Matches: 923, Mismatches: 235, Indels: 115
0.73 0.18 0.09
Matches are distributed among these distances:
157 1 0.00
158 34 0.04
159 56 0.06
160 17 0.02
161 4 0.00
163 1 0.00
164 2 0.00
166 2 0.00
169 9 0.01
170 244 0.26
171 344 0.37
172 152 0.16
173 4 0.00
174 2 0.00
175 49 0.05
176 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.37
Consensus pattern (171 bp):
AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATAGGTGACT
ATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAAGTAGACATTCAATT
ATAATCTGTTTTAATCAAAAATGTAAAAAATTCAATCATAA
Found at i:27853 original size:172 final size:171
Alignment explanation
Indices: 27675--27993 Score: 396
Period size: 172 Copynumber: 1.9 Consensus size: 171
27665 NNNNNNNNGA
* * ** * *
27675 CTTTTCTTGCCAATGAGTGCAT-TTTTCTTCACA-TTTGTTGAGGTAGATATTCAATTATAATCT
1 CTTTTCTTGCCAATGAATAC-TGTTTTCTTCA-AGTTTCCTAAGGTAAATATTCAATTATAATCT
* * * * **
27738 GTTTTACCTAAAAA-TAT-ATAAATAATTCAAAT-TGAAATCAATTTTGAGATTATAAAATTATT
64 GTTCTAAC-AAAAAGTATGA-AAA-AATTC-AATCTAAAATCAATTATGAGATTATAAAACCATT
* *
27800 TAAAGTGAGTAATAAGGTTTTTGAAGTAATAGGTGACTATTAATGGG
125 TAAAGCGAGTAATAAGGCTTTTGAAGTAATAGGTGACTATTAATGGG
27847 CTTTTCTTGCCAATGAATACTGTTTTCTTCAAGTTTCCTAAGGTAAATATTCAATTATAATCTGT
1 CTTTTCTTGCCAATGAATACTGTTTTCTTCAAGTTTCCTAAGGTAAATATTCAATTATAATCTGT
* *
27912 TCTAACAAAAAGTATGAAAAAATTCGATCTAAAATCAATTATGAGATTATAAAGCCATTTAAAGC
66 TCTAACAAAAAGTATGAAAAAATTCAATCTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
*
27977 GAGTAATAGGGCTTTTG
131 GAGTAATAAGGCTTTTG
27994 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
170 2 0.02
171 57 0.46
172 65 0.52
173 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (171 bp):
CTTTTCTTGCCAATGAATACTGTTTTCTTCAAGTTTCCTAAGGTAAATATTCAATTATAATCTGT
TCTAACAAAAAGTATGAAAAAATTCAATCTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
GAGTAATAAGGCTTTTGAAGTAATAGGTGACTATTAATGGG
Found at i:28712 original size:171 final size:168
Alignment explanation
Indices: 28535--28856 Score: 414
Period size: 171 Copynumber: 1.9 Consensus size: 168
28525 NNNNNNNNNN
* * * *
28535 ATAAGGCTTTTGAAGGAATGGATGGCAATAAA-TGGACATTTCTTGCCAATGAATACCTTTTTGT
1 ATAAGGCTTTTGAAGGAATGGAAGACAATAAATTGG-CATTTCTTACCAATGAATACCTTTTTCT
* * * * *
28599 TTATGTTT-CCTAGGACAGACATTCAATTATAATCTGTTCCAACCAAAAATATAAAAAAATTTAA
65 TCATATTTCCCAAGGA-AAACATTCAATTATAATCTGTTCCAA--AAAAATAT-AAAAAATTCAA
*
28663 TCTAAAATCAATTATGAGATTATAAAGCCATTTAATGTGAGTC
126 CCTAAAATCAATTATGAGATTATAAAGCCATTTAATGTGAGTC
* * * * *
28706 ATAAGGCTTTTGAAGGAATGTAAGACTATAAATTGGCTTTTTTTACTAATGAATACCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATGGAAGACAATAAATTGGCATTTCTTACCAATGAATACCTTTTTCTT
* * * *
28771 CATATTTCCCAAGGAAAATATTCAATTATAATCTGTTCTAAAAAAATGTAAAAAATTCAGCCTAA
66 CATATTTCCCAAGGAAAACATTCAATTATAATCTGTTCCAAAAAAATATAAAAAATTCAACCTAA
28836 AATCAATTATGAGATTATAAA
131 AATCAATTATGAGATTATAAA
28857 ANNNNNNNNN
Statistics
Matches: 130, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
168 34 0.26
169 7 0.05
171 80 0.62
172 9 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (168 bp):
ATAAGGCTTTTGAAGGAATGGAAGACAATAAATTGGCATTTCTTACCAATGAATACCTTTTTCTT
CATATTTCCCAAGGAAAACATTCAATTATAATCTGTTCCAAAAAAATATAAAAAATTCAACCTAA
AATCAATTATGAGATTATAAAGCCATTTAATGTGAGTC
Found at i:29074 original size:171 final size:169
Alignment explanation
Indices: 28535--29627 Score: 683
Period size: 172 Copynumber: 6.4 Consensus size: 169
28525 NNNNNNNNNN
* * * * * * * *
28535 ATAAGGCTTTTGAAGGAATGGATGGCAATAAATGGACATTTCTTGCCAATGAATACCTTTTTGTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
* * * * * * ** * * *
28600 TATGTTTCCTAGGACAGACATTCAATTATAATCTGTTCCAACCAAAAATATAAAAAAATTTAATC
66 CACGTTTCTTA-TATAGACATTCAATTATAATATGTTTTAACC-AAAATGTAAAAAAATTCAAAC
* * * *
28665 TAAAATCAATTA-TGAGATTATAAAGCCATTTAATGTGAGTC
129 TAAAATCAATTATTGA-ATTATAAAACTATTTAAAGTGAGTA
*** * * * * *
28706 ATAAGGCTTTTGAAGGAATGTAAGACTATAAATTGGCTTTTTTTACTAATGAATACCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
** ** * * * * * * **
28771 CATATTTCCCA-AGGAAAATATTCAATTATAATCTGTTCTAA-AAAAATGT-AAAAAATTCAGCC
66 CACGTTTCTTATA--TAGACATTCAATTATAATATGTTTTAACCAAAATGTAAAAAAATTCAAAC
***********
28833 TAAAATCAATTA-TGAGATTATAAAANNNNNNNNNNAGAGTA
129 TAAAATCAATTATTGA-ATTATAAAACTATTTAAAGTGAGTA
* * * * * *
28874 ATAAGACTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTATCAATGAATGCATTTTTTTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
* * * * *
28939 CACGTTTCTTATAGTAAACATTCAATTATAATCTGTTTTAACCGAAATGTACAGAGAATTCAAAC
66 CACGTTTCTTATA-TAGACATTCAATTATAATATGTTTTAACCAAAATGTA-AAAAAATTCAAAC
* *
29004 TAAAATAAATT-TTGAACTTAGAAAACTATTTAAAGTGAGTA
129 TAAAATCAATTATTGAA-TTATAAAACTATTTAAAGTGAGTA
* * * ***********
29045 ATAAGGCTTTTGAAGGTATAGGTGACTATAAATGGANNNNNNNNNNTAATGAATGCCTTTTTCCT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTT-CT
* * * * * *
29110 TCACATTTCTCA-AGGTAGACTTTCAATTATAATATGTTTTAGCTAAAAATGTAAAAAAATTTAA
65 TCACGTTTCTTATA--TAGACATTCAATTATAATATGTTTTAAC-CAAAATGTAAAAAAATTCAA
** * * * * *
29174 TTTCAAATTAATTATT-AGATTATAAAACTATTTAAAATTAATA
127 ACTAAAATCAATTATTGA-ATTATAAAACTATTTAAAGTGAGTA
* * * * * * * *
29217 ATAAGGCTTTTAAATGAATGGGTGACTGTAAATAGACTTTTATTGCCAATGGATACCTTTTTTTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCC-TTTTTCT
* ** * * * ********* *
29282 TCATGTTTTCCAACATAGACATTCAATTATAATCTGTTCTAANNNNNNNNNNAAAAAAATTCAAC
65 TCACG-TTTCTTATATAGACATTCAATTATAATATGTTTTAA-CCAAAATGTAAAAAAATTCAAA
* * *
29347 CTAAAATCAATTATAGAATTACAAAACAATTTAAAGTGAGTA
128 CTAAAATCAATTATTGAATTATAAAACTATTTAAAGTGAGTA
* * * *
29389 ATAAGGCTTTTGAAAGAATGAGTGACTATAAATTGACTTTTCTTAGCAATGAATGCCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
* * * *
29454 CATGTTTTTTGATATAGACATTCAATTATAATATGTTTTAACCAAAAATATATAAAGAATTCAAA
66 CACGTTTCTT-ATATAGACATTCAATTATAATATGTTTTAACC-AAAATGTA-AAAAAATTCAAA
* ** * * **
29519 TTAAAATCAACCA-TGAAATTATAAAACCATTTAAGGCAAGTA
128 CTAAAATCAATTATTG-AATTATAAAACTATTTAAAGTGAGTA
** *
29561 ATAAGGCTTTCAAAGGAATGGGTGACTATAAATAGACTTTTCCTACCAATGAATGCCTTTTTCTT
1 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
29626 CA
66 CA
29628 TGNNNNNNNN
Statistics
Matches: 700, Mismatches: 200, Indels: 43
0.74 0.21 0.05
Matches are distributed among these distances:
168 124 0.18
169 14 0.02
170 4 0.01
171 207 0.30
172 329 0.47
173 21 0.03
174 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (169 bp):
ATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
CACGTTTCTTATATAGACATTCAATTATAATATGTTTTAACCAAAATGTAAAAAAATTCAAACTA
AAATCAATTATTGAATTATAAAACTATTTAAAGTGAGTA
Found at i:30167 original size:171 final size:171
Alignment explanation
Indices: 29732--30232 Score: 609
Period size: 172 Copynumber: 2.9 Consensus size: 171
29722 NNNNNNNNTG
* **
29732 GGTGACTATAAATGAACTTTTCTTGTCAATGAATGCCTTTTTCTTCACATTTCTTAAGGTAAACA
1 GGTGACTATAAATGGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACATTT-TCCAGGTAAACA
* * * * * *
29797 TTCAATTTTAATCTGTTTTAACTAACATTGTACAAAAAATTCAAACTAAAATCAATTTCGAGATT
65 TTCAATTATAATCTGTTTTAACCAAAAATGTACAAAAAATTCAAATTAAAATCAATTTTGAGATT
* *
29862 ATAAAACCATTTATAGTGAGTAATAAGGCTTTTAAAAGAATT
130 ATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAAGAATA
* * * *
29904 GCTGACTATAAATGGACTTTTCTTGTCAATGAGTGCATTTTTCTTCACATTTGTCGAGGTAAACA
1 GGTGACTATAAATGGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACATTT-TCCAGGTAAACA
* ** *
29969 TTCAATTATAATCTGTTTTACCCAAAAATGTACAAAGTATTCAAATTGAAATCAATTTTGAGATT
65 TTCAATTATAATCTGTTTTAACCAAAAATGTACAAAAAATTCAAATTAAAATCAATTTTGAGATT
* *
30034 ATAAAATCATTTAAAGTGAGTAATAAGG-TTTT-GAAGTAATA
130 ATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAAG-AATA
* * * * *
30075 GGTGACTATAATTGGGCTTTTCTTGGCAATGAATACCTTTTTCTTCA-AGTTTTCCATGGCAAAC
1 GGTGACTATAAATGGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACA-TTTTCCA-GGTAAAC
* ** *
30139 ATTCAATTATAAT-TTTTTCTAACCAAAAATGTA-AAAAAATT-TGATCTAAAATCAATTATGAG
64 ATTCAATTATAATCTGTTT-TAACCAAAAATGTACAAAAAATTCAAAT-TAAAATCAATTTTGAG
* *
30201 ATTATAAAGCCATTTAAAGCGAGTAATAAGGC
127 ATTATAAAACCATTTAAAGTGAGTAATAAGGC
30233 NNNNNNNNNN
Statistics
Matches: 282, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
169 2 0.01
170 59 0.21
171 82 0.29
172 139 0.49
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (171 bp):
GGTGACTATAAATGGACTTTTCTTGTCAATGAATGCCTTTTTCTTCACATTTTCCAGGTAAACAT
TCAATTATAATCTGTTTTAACCAAAAATGTACAAAAAATTCAAATTAAAATCAATTTTGAGATTA
TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAAGAATA
Found at i:32250 original size:173 final size:162
Alignment explanation
Indices: 32043--32370 Score: 381
Period size: 173 Copynumber: 2.0 Consensus size: 162
32033 AAATTCAACC
* ** ** * *
32043 TAAAATCAATTATAGGATTATAAAACTTTTTAAAGTGAGTAATAAGGCTTTTAAAAGAATGGGTG
1 TAAAATCAATCATAGGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAAGAATAGGTG
** * *
32108 ACTATAAATGAACTTTCTTTTAG-CAATGAATGCCTTTTTCTTCATGTTTCTTGATATAGACATT
66 ACTATAAATGAACTTT-TCCT-GCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGATAGACATT
32172 CAATTATAATATGTTTTAACCAAAAATGTACNNNNNNNNNNAAT
129 CAATTATAATATGTTTTAACCAAAAATGTAC----------AAT
*
32216 TAAAATCAATCAT-GAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGAATAGGT
1 TAAAATCAATCATAG-GATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAAGAATAGGT
* *
32280 GACTATAAATGAACTTTTCCTGCCAATGAATGTCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
65 GACTATAAATGAACTTTTCCTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGATAGACATTC
* *
32345 AATTTTAATCTGTTTTAACCAAAAAT
130 AATTATAATATGTTTTAACCAAAAAT
32371 ATGCAAAGAA
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
171 1 0.01
172 65 0.47
173 71 0.52
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.36
Consensus pattern (162 bp):
TAAAATCAATCATAGGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAAGAATAGGTG
ACTATAAATGAACTTTTCCTGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGATAGACATTCA
ATTATAATATGTTTTAACCAAAAATGTACAAT
Found at i:32582 original size:172 final size:170
Alignment explanation
Indices: 31721--32984 Score: 774
Period size: 172 Copynumber: 7.4 Consensus size: 170
31711 NNNNNNNNNN
* * * * *
31721 TAAAACCATTTAAAGTGAGTAATAAGGTTTTTGAAGGTATGGGTGACTATAAATGAACTCTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCTT
* * * ** * * * * * *
31786 ACTAATGAATGCCTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAATATGTTCT-AGCT
65 GCCAATGAATGTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATT-TGAACA
* * * ***********
31850 AAAAATGTAAAAAAATTTAATTTNNNNNNNNNNATGAGATTA
129 AAAAATATAAAAAAATTAAACTTAAAATCAATTTTGAGATTA
* * * *
31892 TAAAACCATTTAAAATTAGTAATAAGGCTTTTAAATGAATGGATGACTGTAAATGGACTTTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGG-TGACTATAAATGGACTTTTCTT
* * * * * * *
31957 GCCAATGAATATCTTTTTTTTCACGTTTC-CTAGCATAGACATTCAATTATAATCTGTTCT-AAN
65 GCCAATGAATGTCTTTTTCTTCACATTTCTCAAG-GTAGACATTCAATTATAATCTATT-TGAAC
********* * * *
32020 NNNNNNNNNAAAAAAATTCAACCTAAAATCAATTAT-AGGATTA
128 AAAAAATATAAAAAAATTAAACTTAAAATCAATTTTGA-GATTA
** * * *
32063 TAAAACTTTTTAAAGTGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATGAACTTTCTTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGGACTTT-TCT
* ** ** ** * * *
32128 TAG-CAATGAATGCCTTTTTCTTCATGTTTCTTGATATAGACATTCAATTATAATATGTTTTAAC
64 T-GCCAATGAATGTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATTTGAAC
* * ********* **
32192 CAAAAATGTACNNNNNNNNNNAA-TTAAAATCAATCATGAGATTA
128 AAAAAATATA--AAAAAATTAAACTTAAAATCAATTTTGAGATTA
** * * *
32236 TAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGAATAGGTGACTATAAATGAACTTTTCCT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCTT
** * * * * *
32301 GCCAATGAATGTCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTTTAATCTGTTTTAACCA
65 GCCAATGAATGTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATTTGAACAA
* * * **********
32366 AAAATATGCAAAGAATTCAAA-TTTAAATNNNNNNNNNNATTA
130 AAAATAT-AAAAAAATT-AAACTTAAAATCAATTTTGAGATTA
* * * * *
32408 TAAAACCATTTAAAGTGAGTAATAAGACTTTTAAAGTAATAGGTAACTACAAATGGACTTTTATT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCTT
** *
32473 GCCAATGAATGTCTTTTTCTTCGTATTTCTCAAGTTAGACATTCAATTATAATCTATTTGAATC-
65 GCCAATGAATGTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATTTGAA-CA
*
32537 AAAAATGTAAAAAAATTTAAACTTAAAA-CTAATTTTGAGATTA
129 AAAAATATAAAAAAA-TTAAACTTAAAATC-AATTTTGAGATTA
* * * * *
32580 TAAAACCATTTAGAGTGAGTAATAAGGCTTTTGAAGCAGTGAGTGACTATAAATAGACTTTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATG-GTGACTATAAATGGACTTTTCTT
* ********** ** * * *
32645 ACNNNNNNNNNNCTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAATCTATTTTAACAA
65 GCCAATGAATGTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATTTGAACAA
* * * * *
32710 AAAATGT-AAAAAATTGAACTGAAAATCAATTTTCAGATAA
130 AAAATATAAAAAAATTAAACTTAAAATCAATTTTGAGATTA
** * * * *
32750 TAAAAGTATTTAAAATGAGTAATAAGGCTTTTGAAGGAGTGAGTGACTATAAATAGAAC-TTTCT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATG-GTGACTATAAAT-GGACTTTTCT
* *
32814 TGCCAATGAATG-CATTTGTT-TCCACATTTCTCAAGGTAGACATTCAATTATAGTCTATTTGAA
64 TGCCAATGAATGTC-TTT-TTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATTTGAA
* * * * **
32877 CTAAAAATATAAGAAAATTCAACTCAAAATCAA-TCAGAAGATTA
127 CAAAAAATATAAAAAAATTAAACTTAAAATCAATTTTG-AGATTA
* * * *
32921 TAAAGCTATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGGAGACCATAAATGGACTTTTCT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCT
32985 NNNNNNNNNN
Statistics
Matches: 842, Mismatches: 223, Indels: 56
0.75 0.20 0.05
Matches are distributed among these distances:
169 1 0.00
170 133 0.16
171 266 0.32
172 365 0.43
173 74 0.09
174 3 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
TAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGTGACTATAAATGGACTTTTCTTG
CCAATGAATGTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTATTTGAACAAA
AAATATAAAAAAATTAAACTTAAAATCAATTTTGAGATTA
Found at i:32842 original size:170 final size:169
Alignment explanation
Indices: 32404--32984 Score: 492
Period size: 170 Copynumber: 3.4 Consensus size: 169
32394 NNNNNNNNNN
** * * * * * * *
32404 ATTATAAAACCATTTAAAGTGAGTAATAAGACTTTTAAAGTAAT-AGGTAACTACAAATGGACTT
1 ATTATAAAAGTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAGTGA-GTGACTATAAATAGACTT
* * * ** * *
32468 TTATTGC-CAATGAATGTCTTTTTCTTCGTATTTCTCAAGTTAGACATTCAATTATAATCTATTT
65 TTCTTACACAATGAATG-CTTTTTCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTATTT
* *
32532 GAATCAAAAATGTAAAAAAATTTAAACTTAAAA-CTAATTTTGAG
129 GAA-CAAAAATGT-AAAAAA-TTAAACTCAAAATC-AATTTTAAG
** * *
32576 ATTATAAAACCATTTAGAGTGAGTAATAAGGCTTTTGAAGCAGTGAGTGACTATAAATAGACTTT
1 ATTATAAAAGTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAGTGAGTGACTATAAATAGACTTT
********** * ** * *
32641 TCTTACNNNNNNNNNNCTTTTTCTTCACATTTCTTGAGGTAAACTTTCAATTATAATCTATTTTA
66 TCTTACACAATGAATGCTTTTTCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTATTTGA
* * *
32706 ACAAAAAATGTAAAAAATTGAACTGAAAATCAATTTTCAG
131 AC-AAAAATGTAAAAAATTAAACTCAAAATCAATTTTAAG
* *
32746 ATAATAAAAGTATTTAAAATGAGTAATAAGGCTTTTGAAGGAGTGAGTGACTATAAATAGAAC-T
1 ATTATAAAAGTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAGTGAGTGACTATAAATAG-ACTT
* * *
32810 TTCTTGC-CAATGAATGCATTTGTT-TCCACATTTCTCAAGGTAGACATTCAATTATAGTCTATT
65 TTCTTACACAATGAATGC-TTT-TTCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTATT
* * ***
32873 TGAACTAAAAATATAAGAAAATTCAACTCAAAATCAATCAGAAG
128 TGAAC-AAAAATGTAA-AAAATTAAACTCAAAATCAATTTTAAG
* * * * * *
32917 ATTAT-AAAGCTATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGGAGACCATAAATGGACTT
1 ATTATAAAAG-TATTTAAAGTGAGTAATAAGGCTTTTGAAGGAGTGAGTGACTATAAATAGACTT
32981 TTCT
65 TTCT
32985 NNNNNNNNNN
Statistics
Matches: 330, Mismatches: 69, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
169 1 0.00
170 134 0.41
171 85 0.26
172 109 0.33
173 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.34
Consensus pattern (169 bp):
ATTATAAAAGTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAGTGAGTGACTATAAATAGACTTT
TCTTACACAATGAATGCTTTTTCTCCACATTTCTCAAGGTAAACATTCAATTATAATCTATTTGA
ACAAAAATGTAAAAAATTAAACTCAAAATCAATTTTAAG
Found at i:33575 original size:20 final size:19
Alignment explanation
Indices: 33550--33588 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33540 ATAAACGACT
*
33550 ATAAATAGACTTTTTTTTCA
1 ATAAAT-GACTTTTTCTTCA
*
33570 ATAAATGCCTTTTTCTTCA
1 ATAAATGACTTTTTCTTCA
33589 TGTTTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
ATAAATGACTTTTTCTTCA
Found at i:33695 original size:170 final size:171
Alignment explanation
Indices: 33498--33804 Score: 402
Period size: 170 Copynumber: 1.8 Consensus size: 171
33488 NNNNNNNNNG
*
33498 ATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAACGACTATAAATAGACTTT
1 ATTATAAAATCATTTAAAGCGAGTAATAAGACTTTTAAAGGAATAAACGACTATAAATAGACTTT
** * ** * * * *
33563 TTTTTC-AATAAATGCCTTTTTCTTCATGTTTTTCAAGATTGACATTTAATTATAATCTGTTTTA
66 CCTTGCTAATAAATGCCTTTTTCTTCACATTTCTCAAGATAGACATTCAATTATAATATGTTTTA
33627 ACTAAAACTGTACAAAGAATTCAAATTAAAATCAATTTGAT
131 ACTAAAACTGTACAAAGAATTCAAATTAAAATCAATTTGAT
* * **** *
33668 ATTATAAAA-CTATTTAAAGTGAGTAATAATACTTTTAAAGGAATGGGTGACTATAAATGGACTT
1 ATTATAAAATC-ATTTAAAGCGAGTAATAAGACTTTTAAAGGAATAAACGACTATAAATAGACTT
* * * *
33732 TCCTTGCTAATGAATGCCTTTTTCTTTACATTTCTCGAGATAGACATTCAATTATAGTATGTTTT
65 TCCTTGCTAATAAATGCCTTTTTCTTCACATTTCTCAAGATAGACATTCAATTATAATATGTTTT
33797 AACTAAAA
130 AACTAAAA
33805 ATAAAAAACA
Statistics
Matches: 114, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
169 1 0.01
170 58 0.51
171 55 0.48
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (171 bp):
ATTATAAAATCATTTAAAGCGAGTAATAAGACTTTTAAAGGAATAAACGACTATAAATAGACTTT
CCTTGCTAATAAATGCCTTTTTCTTCACATTTCTCAAGATAGACATTCAATTATAATATGTTTTA
ACTAAAACTGTACAAAGAATTCAAATTAAAATCAATTTGAT
Found at i:34447 original size:170 final size:169
Alignment explanation
Indices: 34093--34914 Score: 675
Period size: 171 Copynumber: 4.8 Consensus size: 169
34083 NNNNNNNNNN
* * *
34093 AAATGGACTTTTCTTGTCAATCAATACTTTTTTCTTCATGTTTCTCTAGATAAACATTCAATTAT
1 AAATGGACTTTTCTTGCCAATGAATACTTTTTT-TTCATGTTTCTCAAGATAAACATTCAATTAT
* * * * * * * **
34158 AATATCTTTTAACAAAAAATGTAAAACAATTCAATTTAAAATCAATTATGATATTATAAAACCGT
65 AATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAAATTATAAAACAAT
* * * * *
34223 TTAAAGTGAATAATAAGGCTTTTAAAGGTATAGGTGCCTAT
130 TTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTG-ATAT
* * * * *
34264 ATATGAACTTTTCTTGCCAATAAATACTTTTTTCTTCATGTTT-TCCAAGACAGACATTCAATTA
1 AAATGGACTTTTCTTGCCAATGAATACTTTTTT-TTCATGTTTCT-CAAGATAAACATTCAATTA
** * *
34328 TAGCCT-TCTTTAACCAAAAATATAAAAAAA-TCAACTTAAAATTAATTATAAAATTATAAAACA
64 TAATCTGT-TTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAAATTATAAAACA
* *
34391 TTTTAAAGTGAGTAATAAGGCGTTTGAAGGAATGGGTGATAAT
128 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAT-AT
* * * * * *
34434 AAATGGACTTTTCTTGCTAATGAATGTCTTTTTTTTCACGTTTCTCAAGGTAAATAGTCAATTAT
1 AAATGGACTTTTCTTGCCAATGAAT-ACTTTTTTTTCATGTTTCTCAAGATAAACATTCAATTAT
* * * * * * *
34499 AATCTGTTTTAA-ATGAAAATGTAAAAAAAAATTGAACTTAAAATCAATTTTAAGAGTATAAAAT
65 AATCTGTTTTAACA--AAAA-ATATAAAAAAATTCAACTTAAAATCAATTATAAAATTATAAAAC
* * * * *
34563 AATTTAAAGCGAGTCATAAGACTTTTGAAGGAATGGGTGACGAG
127 AATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGA-TAT
* * * * *
34607 AAATGGACTTTTCTTGTCAATGAATATCTTTTTTTTCATATTTCTCAAGGTAGACATTCAATCAT
1 AAATGGACTTTTCTTGCCAATGAATA-CTTTTTTTTCATGTTTCTCAAGATAAACATTCAATTAT
* * ********** **
34672 AATCTGTTTTAACAAAAAATGTAAAAAAATTCAGCTTAAAATCAANNNNNNNNNNATAAAACCTT
65 AATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAAATTATAAAACAAT
* * * *
34737 TTAAAGCGAGTAATAAGGCCTTTGAAAGAATGAGTGACTAT
130 TTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGA-TAT
* ** * ** * * *
34778 AAATGGGCTATTT-TTATCAATG-ATAGTCTTTTTCTTCATGTTTCTTGAGGTATACATTTAATT
1 AAATGGACT-TTTCTTGCCAATGAATA--CTTTTTTTTCATGTTTCTCAAGATAAACATTCAATT
* * * * * * *
34841 ACAATCTGTTTTAACAAAACATATACAAAGAATTCAAATTAAAATCAATTTTGAGATTATAAAAC
63 ATAATCTGTTTTAACAAAAAATATA-AAAAAATTCAACTTAAAATCAATTATAAAATTATAAAAC
*
34906 CATTTAAAG
127 AATTTAAAG
34915 CGANNNNNNN
Statistics
Matches: 521, Mismatches: 114, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
169 1 0.00
170 119 0.23
171 221 0.42
172 50 0.10
173 129 0.25
174 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (169 bp):
AAATGGACTTTTCTTGCCAATGAATACTTTTTTTTCATGTTTCTCAAGATAAACATTCAATTATA
ATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATAAAATTATAAAACAATT
TAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGATAT
Found at i:37126 original size:172 final size:169
Alignment explanation
Indices: 36900--37648 Score: 620
Period size: 172 Copynumber: 4.4 Consensus size: 169
36890 CTTTAACTAT
*
36900 AAATGTAAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAA-ACTTTTAAAGCGAGTAAC
1 AAATGTAAAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACA-ATTTAAAGCGAGTAAC
** * * * * *
36963 AAGACTTTCGAAGAAATGGGTGACTATAAATGGACTTTTCTTGAAAATAAATGTCTTTTTCTTTC
64 AAGACTTTTAAAGGAATAGGTGACTATAAATAGACTTTTCTTGACAATAAAT-ACTTTTTCTTTC
** * *
37028 TA-TTTCTTGAGGTACATAGTCAATTCTAATCTGTTTTAAATGA
128 -AGTTTCTCAAGGTACACAGTCAATTATAATCTGTTTTAAA-GA
* * * *
37071 AAATGTAAAAAAAATTGAACTTAAAATCAATGTTGAGAATATAAAACAATTTAAAGCGAGTCATA
1 AAATGTAAAAAAAATTCAACTTAAAATCAAT-TTGAGATTATAAAACAATTTAAAGCGAGTAACA
* * * *
37136 AGGCTTTTGAAGGAAT-GACTGACTATAAATAGACTTTTCTT-ATCAATGAATACTTTTT-TATT
65 AGACTTTTAAAGGAATAG-GTGACTATAAATAGACTTTTCTTGA-CAATAAATACTTTTTCT-TT
* * ** *
37198 CACGTTTCTCAAGGTAGACATTCAATCGTAATCTGTTTTAACAAA
127 CA-GTTTCTCAAGGTACACAGTCAATTATAATCTGTTTTAA-AGA
* * ** *
37243 AAATGT-AAAAAAATTCAACTTAAAATAAATTATGAGGTTATAAAACCGTTTAAAGCGAGTAATA
1 AAATGTAAAAAAAATTCAACTTAAAATCAATT-TGAGATTATAAAACAATTTAAAGCGAGTAACA
* * * * * * **
37307 AGGCTTTTAAAGGAATATGTGCCTATAAAT-GTAATTGTATTTTCAATAAATACTATTTTC-TTC
65 AGACTTTTAAAGGAATAGGTGACTATAAATAG-ACTTTTCTTGACAATAAATACT-TTTTCTTTC
* ** * *
37370 ACGTTTCTCGAGGTTGACATTCAATTATAATTTGTTTTAAA-A
128 A-GTTTCTCAAGGTACACAGTCAATTATAATCTGTTTTAAAGA
* * * * *
37412 AAATATATATAAAATATTCAAATTAAAATCAATTTTAAGATTATAAAATC-ATTTAAAACGAGTA
1 AAATGTA-A-AAAAAATTCAACTTAAAATCAA-TTTGAGATTATAAAA-CAATTTAAAGCGAGTA
* * * * * * *
37476 ACAAGACTTTTAAAGGAATAGGTGACTATAAATACACTTTTCTTGCCAATGATTGTCCTTTTATT
62 ACAAGACTTTTAAAGGAATAGGTGACTATAAATAGACTTTTCTTGACAATAAAT-ACTTTTTCTT
* * * * *
37541 TAAGTTTCTCAAGGCAGACAGTCAATTATAATCTATTTTATACGA
126 TCAGTTTCTCAAGGTACACAGTCAATTATAATCTGTTTTA-AAGA
* * ** ***
37586 AAATGTAAAAAAAATTGAACTGAAAATCAATTTTGAGAAAATAAAATTTTTTAAAGCGAGTAA
1 AAATGTAAAAAAAATTCAACTTAAAATCAA-TTTGAGATTATAAAACAATTTAAAGCGAGTAA
37649 TAAGGCATTA
Statistics
Matches: 468, Mismatches: 84, Indels: 51
0.78 0.14 0.08
Matches are distributed among these distances:
169 6 0.01
170 5 0.01
171 154 0.33
172 284 0.61
173 12 0.03
174 7 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (169 bp):
AAATGTAAAAAAAATTCAACTTAAAATCAATTTGAGATTATAAAACAATTTAAAGCGAGTAACAA
GACTTTTAAAGGAATAGGTGACTATAAATAGACTTTTCTTGACAATAAATACTTTTTCTTTCAGT
TTCTCAAGGTACACAGTCAATTATAATCTGTTTTAAAGA
Found at i:37337 original size:343 final size:341
Alignment explanation
Indices: 36891--37664 Score: 801
Period size: 343 Copynumber: 2.3 Consensus size: 341
36881 TATAGCCTTC
* *
36891 TTTAACTATAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAAACTTTTAAAGC
1 TTTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAACTTTTAAAGC
* * * * * * * *
36956 GAGTAACAAGACTTTCGAAGAAATGGGTGACTATAAATGGACTTTTCTTGAAAATAAATGTCT-T
65 GAGTAATAAGGCTTTCAAAGAAATAGGTGACTATAAATGGAATTGTATTGAAAATAAAT-ACTAT
* * *
37020 TTTCTTTCTA-TTTCTTGAGG-T-ACATAGTCAATTCTAATCTGTTTTAAATGAAAATGTA-A-A
129 TTTC-TTC-ACTTTCTCGAGGTTGACAT--TCAATTATAATCTGTTTTAAA--AAAATATATATA
* * * * * * *
37080 AAAAATTGAACTTAAAATCAATGTTGAGAATATAAAA-CAATTTAAAGCGAGTCATAAGGCTTTT
188 AAAAATTCAAATTAAAATCAATGTTAAGAATATAAAATC-ATTTAAAACGAGTAACAAGACTTTT
* * * * *
37144 GAAGGAAT-GACTGACTATAAATAGACTTTTCTTATCAATGAATACT-TTTTTATTCACGTTTCT
252 AAAGGAATAG-CTGACTATAAATACACTTTTCTTACCAATG-ATACTCCTTTTATTCAAGTTTCT
* * * *
37207 CAAGGTAGACATTCAATCGTAATCTGT
315 CAAGGCAGACAGTCAATCATAATCTAT
* * * *
37234 TTTAACAAAAAATGTAAAAAAATTCAACTTAAAATAAATTATGAGGTTATAAAACCGTTTAAAGC
1 TTTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAACTTTTAAAGC
* * * * * ***
37299 GAGTAATAAGGCTTTTAAAGGAATATGTGCCTATAAATGTAATTGTATTTTCAATAAATACTATT
65 GAGTAATAAGGCTTTCAAAGAAATAGGTGACTATAAATGGAATTGTATTGAAAATAAATACTATT
* *
37364 TTCTTCACGTTTCTCGAGGTTGACATTCAATTATAATTTGTTTTAAAAAAATATATATAAAATAT
130 TTCTTCAC-TTTCTCGAGGTTGACATTCAATTATAATCTGTTTTAAAAAAATATATATAAAAAAT
* *
37429 TCAAATTAAAATCAATTTTAAGATTATAAAATCATTTAAAACGAGTAACAAGACTTTTAAAGGAA
194 TCAAATTAAAATCAATGTTAAGAATATAAAATCATTTAAAACGAGTAACAAGACTTTTAAAGGAA
* * ** *
37494 TAGGTGACTATAAATACACTTTTCTTGCCAATGATTGTCCTTTTATTTAAGTTTCTCAAGGCAGA
259 TAGCTGACTATAAATACACTTTTCTTACCAATGATACTCCTTTTATTCAAGTTTCTCAAGGCAGA
*
37559 CAGTCAATTATAATCTAT
324 CAGTCAATCATAATCTAT
* * * * ** **
37577 TTTATACGAAAATGTAAAAAAAATTGAACTGAAAATCAATTTTGAGAAAATAAAATTTTTTAAAG
1 TTTA-ACAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAACTTTTAAAG
* *
37642 CGAGTAATAAGGCATTAAAAGAA
64 CGAGTAATAAGGCTTTCAAAGAA
37665 TNNNNNNNNN
Statistics
Matches: 353, Mismatches: 66, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
341 8 0.02
342 9 0.03
343 268 0.76
344 64 0.18
345 4 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (341 bp):
TTTAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAACTTTTAAAGCG
AGTAATAAGGCTTTCAAAGAAATAGGTGACTATAAATGGAATTGTATTGAAAATAAATACTATTT
TCTTCACTTTCTCGAGGTTGACATTCAATTATAATCTGTTTTAAAAAAATATATATAAAAAATTC
AAATTAAAATCAATGTTAAGAATATAAAATCATTTAAAACGAGTAACAAGACTTTTAAAGGAATA
GCTGACTATAAATACACTTTTCTTACCAATGATACTCCTTTTATTCAAGTTTCTCAAGGCAGACA
GTCAATCATAATCTAT
Found at i:38456 original size:171 final size:168
Alignment explanation
Indices: 38153--39348 Score: 1067
Period size: 171 Copynumber: 7.0 Consensus size: 168
38143 NNNNNNNNNN
* * *
38153 TTTTAAC-AGAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAATCCTTTTAAA
1 TTTTAACTA-AAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAA
* * * * * * *
38217 GCGAGTAATAAGACTTTTAAAAGAATAGGTGACTATAAATGAACTTTTCTTGCCAATAAATGTCT
65 GTGAGTAATAAGGCTTTT-GAAGAATTGGTGACTATAAATGGACTTTTCTTGCTAATAAATATCT
* * *
38282 TTTTCTTCACATTCTCTAAGGAAGACATTCAATTCTAGCCT
129 TTTTCTTCACATT-TCTAAGGTAGACATTCAATTATAGACT
* *
38323 TCTTTAACTAAAAATATAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAATCTTTTAAA
1 T-TTTAACTAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAA
* *
38388 GCGAGTAATAAGGCTTTTGAAGCAATTGGTGACTATAAATGGACTTTTCTTGCTAATGAATATCT
65 GTGAGTAATAAGGCTTTTGAAG-AATTGGTGACTATAAATGGACTTTTCTTGCTAATAAATATCT
* * ** * *
38453 TTTTATTCACATTTCTCAAGGTAGAAAACCAATTAGA-ATT
129 TTTTCTTCACATTTCT-AAGGTAGACATTCAATTATAGACT
* * * * * * *
38493 TGTTTGAAATGAAAATGTAAAAAACATTAAACTTAAAATCAATTTTGAGAATATAAAACCATTTA
1 T-TTT-AACTAAAAATGTAAAAAA-AATCAACTTAAAATCAATTATGAGATTATAAAACCTTTTA
* * * *
38558 AAGTGAGTTAGAAGGCTTTTGAAGGAA-TGAATGACTATAAATTGACTTTTCTTGGC-AATAAAT
63 AAGTGAGTAATAAGGCTTTTGAA-GAATTG-GTGACTATAAATGGACTTTTCTT-GCTAATAAAT
* * * *
38621 ACCTTTTTCTTCACGTTTCTTAAGGTGGACATTCAATTATA-ATTT
125 ATCTTTTTCTTCACATTTC-TAAGGTAGACATTCAATTATAGA-CT
*
38666 GTTTTAAC-AGAAAATGT-AAAAAAATACAACTTAAAATCAATTATTAGATTATAAAA-CTTATT
1 -TTTTAACTA-AAAATGTAAAAAAAAT-CAACTTAAAATCAATTATGAGATTATAAAACCTT-TT
* * * *
38728 AAAGCGAGTAATAAAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTTTCTTG-TCAATAAAT
62 AAAGTGAGTAATAAGGCTTTTG-AAGAATTGGTGACTATAAATGGACTTTTCTTGCT-AATAAAT
* * * *
38792 ATCTTTTTCTTTACGTTTCTCGAGGTAGACATTCAATTATA-ATAT
125 ATCTTTTTCTTCACATTTCT-AAGGTAGACATTCAATTATAGA-CT
* * *
38837 GTTTTAACAAAAAATATAAAAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTTAA
1 -TTTTAACTAAAAATGT-AAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAA
* * * * * * * **
38902 AATGAGTAATAATGCTTTTAAAAGAATAGGTGACCATAAATGAATTTTTCTTG-TCAATAAATGC
64 AGTGAGTAATAAGGCTTTT-GAAGAATTGGTGACTATAAATGGACTTTTCTTGCT-AATAAATAT
* * * * *
38966 CTTTCTCTTCACATTCTCCAAGGCAGACATTCAATTCTAGCCT
127 CTTTTTCTTCACATT-TCTAAGGTAGACATTCAATTATAGACT
* * *
39009 TCTTTAACCAAAAATGTGAAAAAAAAATTAACTTAAAATCAATTATGAGATTGTAAAACCTTTTC
1 T-TTTAACTAAAAATGT--AAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCTTTT-
* * *
39074 AAA-TGAGTAATAAGG-TTTCTGAAGGAA-TGAGTGACTATAAATAGACTTTTCTTGCCAAT-TA
62 AAAGTGAGTAATAAGGCTTT-TGAA-GAATTG-GTGACTATAAATGGACTTTTCTTGCTAATAAA
* * * *
39135 T-TGCCTTTTCTTCTCGTTTCTCAAGGTAGACAGTCAATTATA-ATCT
124 TAT-CTTTTTCTTCACATTTCT-AAGGTAGACATTCAATTATAGA-CT
* * * * * * * *
39181 GTTTTAAATGAAAATGTAAAAAAAATTGAACTTGAAATCAATTTTCAGAATATAAAACCATTTAA
1 -TTTTAACTAAAAATGTAAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAA
* * * ** * * *
39246 AGTGAGTCATAAGGCTTTTGAAGGAATGGGTGACTGTAAATTAACTTTTCTTGTTAATGAATACC
64 AGTGAGTAATAAGGCTTTTGAA-GAATTGGTGACTATAAATGGACTTTTCTTGCTAATAAATATC
* * *
39311 TTTTTTTTTACATTTCTTAAGGTCGACATTCAATTATA
128 TTTTTCTTCACATTTC-TAAGGTAGACATTCAATTATA
39349 AATTGTTTTA
Statistics
Matches: 846, Mismatches: 135, Indels: 88
0.79 0.13 0.08
Matches are distributed among these distances:
170 29 0.03
171 364 0.43
172 342 0.40
173 107 0.13
174 4 0.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (168 bp):
TTTTAACTAAAAATGTAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAG
TGAGTAATAAGGCTTTTGAAGAATTGGTGACTATAAATGGACTTTTCTTGCTAATAAATATCTTT
TTCTTCACATTTCTAAGGTAGACATTCAATTATAGACT
Found at i:38595 original size:172 final size:170
Alignment explanation
Indices: 38153--39358 Score: 1111
Period size: 172 Copynumber: 7.0 Consensus size: 170
38143 NNNNNNNNNN
* *
38153 TTTTAACA-GAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAATCCTTTTAAA
1 TTTTAA-ATGAAAATGTAAAAAAATT-AACTTAAAATCAATTATGAGATTATAAAACCTTTTAAA
* * * * * * *
38217 GCGAGTAATAAGACTTTTAAAAGAAT-AGGTGACTATAAATGAACTTTTCTTGCCAATAAATGTC
64 GTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTTTCTTGCTAATAAATATC
* **
38281 TTTTTCTTCACA-TTCTCTAAGGAAGACATTCAATTCTAG-CCTT-
128 TTTTTCTTCACATTTCTC-AAGGTAGACATTCAA-T-TAGAATTTG
* * * * * *
38324 CTTTAACTAAAAATATAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAATCTTTTAAAG
1 TTTTAAATGAAAATGT-AAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAG
* * *
38389 CGAGTAATAAGGCTTTTGAAGCAATTG-GTGACTATAAATGGACTTTTCTTGCTAATGAATATCT
65 TGAGTAATAAGGCTTTTGAAGGAA-TGAGTGACTATAAATGGACTTTTCTTGCTAATAAATATCT
* * **
38453 TTTTATTCACATTTCTCAAGGTAGAAAACCAATTAGAATTTG
129 TTTTCTTCACATTTCTCAAGGTAGACATTCAATTAGAATTTG
* * * *
38495 TTTGAAATGAAAATGTAAAAAACATTAAACTTAAAATCAATTTTGAGAATATAAAACCATTTAAA
1 TTTTAAATGAAAATGTAAAAAA-ATT-AACTTAAAATCAATTATGAGATTATAAAACCTTTTAAA
* * * * *
38560 GTGAGTTAGAAGGCTTTTGAAGGAATGAATGACTATAAATTGACTTTTCTTGGC-AATAAATACC
64 GTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTT-GCTAATAAATATC
* * * *
38624 TTTTTCTTCACGTTTCTTAAGGTGGACATTCAATTATAATTTG
128 TTTTTCTTCACATTTCTCAAGGTAGACATTCAATTAGAATTTG
* *
38667 TTTTAACA-GAAAATGTAAAAAAATACAACTTAAAATCAATTATTAGATTATAAAA-CTTATTAA
1 TTTTAA-ATGAAAATGTAAAAAAAT-TAACTTAAAATCAATTATGAGATTATAAAACCTT-TTAA
* * * * *
38730 AGCGAGTAATAAAGCTTTTGAAAGAATGGGTAACTATAAATGGACTTTTCTTG-TCAATAAATAT
63 AGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCT-AATAAATAT
* * * * *
38794 CTTTTTCTTTACGTTTCTCGAGGTAGACATTCAATTATAATATG
127 CTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTAGAATTTG
* *
38838 TTTTAACA-AAAAATATAAAAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTTAA
1 TTTTAA-ATGAAAATGT--AAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTTAA
* * * * * * * *
38902 AATGAGTAATAATGCTTTTAAAAGAAT-AGGTGACCATAAATGAATTTTTCTTG-TCAATAAATG
63 AGTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTTTCTTGCT-AATAAATA
* * * **
38965 CCTTTCTCTTCACA-TTCTCCAAGGCAGACATTCAATTCTAG-CCTT-
126 TCTTTTTCTTCACATTTCT-CAAGGTAGACATTCAA-T-TAGAATTTG
* *** *
39010 CTTTAACCAAAAATGTGAAAAAAAAATTAACTTAAAATCAATTATGAGATTGTAAAACCTTTTCA
1 TTTTAAATGAAAATGT---AAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTT-A
* * *
39075 AA-TGAGTAATAAGG-TTTCTGAAGGAATGAGTGACTATAAATAGACTTTTCTTGCCAAT-TAT-
62 AAGTGAGTAATAAGGCTTT-TGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCTAATAAATA
* * * * * *
39136 TGCCTTTTCTTCTCGTTTCTCAAGGTAGACAGTCAATTATAATCTG
126 T-CTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTAGAATTTG
* * * * *
39182 TTTTAAATGAAAATGTAAAAAAAATTGAACTTGAAATCAATTTTCAGAATATAAAACCATTTAAA
1 TTTTAAATGAAAATGT-AAAAAAATT-AACTTAAAATCAATTATGAGATTATAAAACCTTTTAAA
* * * ** * * *
39247 GTGAGTCATAAGGCTTTTGAAGGAATGGGTGACTGTAAATTAACTTTTCTTGTTAATGAATACCT
64 GTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCTAATAAATATCT
* * * * * *
39312 TTTTTTTTACATTTCTTAAGGTCGACATTCAATTATAAATTG
129 TTTTCTTCACATTTCTCAAGGTAGACATTCAATTAGAATTTG
39354 TTTTA
1 TTTTA
39359 NNNNNNNNNN
Statistics
Matches: 852, Mismatches: 145, Indels: 75
0.79 0.14 0.07
Matches are distributed among these distances:
169 3 0.00
170 27 0.03
171 354 0.42
172 356 0.42
173 106 0.12
174 6 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (170 bp):
TTTTAAATGAAAATGTAAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGT
GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCTAATAAATATCTTT
TTCTTCACATTTCTCAAGGTAGACATTCAATTAGAATTTG
Found at i:38820 original size:343 final size:339
Alignment explanation
Indices: 38153--39348 Score: 1324
Period size: 343 Copynumber: 3.5 Consensus size: 339
38143 NNNNNNNNNN
* * *
38153 TTTTAACA-GAAAATAT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAATCCTTTTAA
1 TTTTAA-ATGAAAATATAAAAAAAATT-AACTTAAAATCAATTATGAGAATATAAAACCATTTAA
* * * **
38216 AGCGAGTAATAAGACTTTTAAAAGAATAGGTGACTATAAATGAACTTTTCTTGCCAATAAATGTC
64 AGTGAGTAATAAGGCTTTTAAAAGAATAGGTGACTATAAATGAACTTTTCTTGTCAATAAATACC
* * * *
38281 TTTTTCTTCACATTCTCTAAGGAAGACATTCAATTCTAGCCTTCTTTAACTAAAAATATAAAAAA
129 TTTTTCTTCACATTCTCTAAGGTAGACATTCAATTATAGACTTCTTTAAC-AAAAATGTAAAAAA
* *
38346 AATCAACTTAAAATCAATTATGAGATTATAAAATCTTTTAAAGCGAGTAATAAGGCTTTTG-AAG
193 AATCAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAATAAAGCTTTTGAAAG
* * * *
38410 CAATTGGTGACTATAAATGGACTTTTCTTGCTAATGAATATCTTTTTATTCACATTTCTCAAGGT
258 -AATGGGTGACTATAAATGGACTTTTCTTGC-AAT-AATATCTTTTTCTTTACGTTTCTCAAGGT
* * * *
38475 AGAAAACCAATTAGAATTTG
320 AGACAATCAATTATAATATG
* * * *
38495 TTTGAAATGAAAATGTAAAAAACATTAAACTTAAAATCAATTTTGAGAATATAAAACCATTTAAA
1 TTTTAAATGAAAATATAAAAAAAATT-AACTTAAAATCAATTATGAGAATATAAAACCATTTAAA
* * * * * *
38560 GTGAGTTAGAAGGCTTTTGAAGGAAT-GAATGACTATAAATTG-ACTTTTCTTGGCAATAAATAC
65 GTGAGTAATAAGGCTTTTAAAAGAATAG-GTGACTATAAA-TGAACTTTTCTTGTCAATAAATAC
* * * *
38623 CTTTTTCTTCACGTT-TCTTAAGGTGGACATTCAATTATA-ATTTGTTTTAACAGAAAATGT-AA
128 CTTTTTCTTCACATTCTC-TAAGGTAGACATTCAATTATAGACTT-CTTTAACA-AAAATGTAAA
*
38685 AAAAATACAACTTAAAATCAATTATTAGATTATAAAA-CTTATTAAAGCGAGTAATAAAGCTTTT
190 AAAAAT-CAACTTAAAATCAATTATGAGATTATAAAACCTT-TTAAAGCGAGTAATAAAGCTTTT
* *
38749 GAAAGAATGGGTAACTATAAATGGACTTTTCTTGTCAATAAATATCTTTTTCTTTACGTTTCTCG
253 GAAAGAATGGGTGACTATAAATGGACTTTTCTTG-CAAT-AATATCTTTTTCTTTACGTTTCTCA
*
38814 AGGTAGACATTCAATTATAATATG
316 AGGTAGACAATCAATTATAATATG
* * *
38838 TTTTAACA-AAAAATATAAAAAAAAATTAACTTAAAATCAATTATGAGATTATAAAACCTTTTAA
1 TTTTAA-ATGAAAATAT-AAAAAAAATTAACTTAAAATCAATTATGAGAATATAAAACCATTTAA
* * * * *
38902 AATGAGTAATAATGCTTTTAAAAGAATAGGTGACCATAAATGAATTTTTCTTGTCAATAAATGCC
64 AGTGAGTAATAAGGCTTTTAAAAGAATAGGTGACTATAAATGAACTTTTCTTGTCAATAAATACC
* * * * *
38967 TTTCTCTTCACATTCTCCAAGGCAGACATTCAATTCTAGCCTTCTTTAACCAAAAATGTGAAAAA
129 TTTTTCTTCACATTCTCTAAGGTAGACATTCAATTATAGACTTCTTTAA-CAAAAATGT--AAAA
* * * *
39032 AAAATTAACTTAAAATCAATTATGAGATTGTAAAACCTTTTCAAA-TGAGTAAT-AAGGTTTCTG
191 AAAATCAACTTAAAATCAATTATGAGATTATAAAACCTTTT-AAAGCGAGTAATAAAGCTTT-TG
* * * * *
39095 AAGGAATGAGTGACTATAAATAGACTTTTCTTGCCAATTAT-TGCCTTTTCTTCT-CGTTTCTCA
254 AAAGAATGGGTGACTATAAATGGACTTTTCTTG-CAATAATAT-CTTTTTCTT-TACGTTTCTCA
* *
39158 AGGTAGACAGTCAATTATAATCTG
316 AGGTAGACAATCAATTATAATATG
* * * *
39182 TTTTAAATGAAAATGTAAAAAAAATTGAACTTGAAATCAATTTTCAGAATATAAAACCATTTAAA
1 TTTTAAATGAAAATATAAAAAAAATT-AACTTAAAATCAATTATGAGAATATAAAACCATTTAAA
* * * * * * * *
39247 GTGAGTCATAAGGCTTTTGAAGGAATGGGTGACTGTAAATTAACTTTTCTTGTTAATGAATACCT
65 GTGAGTAATAAGGCTTTTAAAAGAATAGGTGACTATAAATGAACTTTTCTTGTCAATAAATACCT
* * *
39312 TTTTTTTTACATT-TCTTAAGGTCGACATTCAATTATA
130 TTTTCTTCACATTCTC-TAAGGTAGACATTCAATTATA
39349 AATTGTTTTA
Statistics
Matches: 716, Mismatches: 109, Indels: 56
0.81 0.12 0.06
Matches are distributed among these distances:
341 1 0.00
342 31 0.04
343 405 0.57
344 193 0.27
345 72 0.10
346 14 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (339 bp):
TTTTAAATGAAAATATAAAAAAAATTAACTTAAAATCAATTATGAGAATATAAAACCATTTAAAG
TGAGTAATAAGGCTTTTAAAAGAATAGGTGACTATAAATGAACTTTTCTTGTCAATAAATACCTT
TTTCTTCACATTCTCTAAGGTAGACATTCAATTATAGACTTCTTTAACAAAAATGTAAAAAAAAT
CAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTAATAAAGCTTTTGAAAGAAT
GGGTGACTATAAATGGACTTTTCTTGCAATAATATCTTTTTCTTTACGTTTCTCAAGGTAGACAA
TCAATTATAATATG
Found at i:41324 original size:170 final size:162
Alignment explanation
Indices: 41148--41467 Score: 335
Period size: 172 Copynumber: 1.9 Consensus size: 162
41138 CAATGAACGT
* * * *
41148 CTTTTTCTTCACATTTCTCT-AGATAAACATTCAATTATAGTCTGTTTTGACTAAAAA-TTT-AA
1 CTTTTTCTTCACATTTCT-TAAGATAAACATTCAATTATAATATGTTTTAACCAAAAATTTTAAA
*
41210 AAAATTCAACTTAAAATTAATTAT-AACATTATAAAA-TCATTGAAAGTGAGTAATAAGGCTTTT
65 AAAATTCAACTAAAAATTAATTATGAA-ATTATAAAACT-ATTGAAAGTGAGTAATAAGGCTTTT
* *
41273 GAAGGAATGGGTGACTATAAATAAAANNNNNNNNNNAACGAATGC
128 GAAGGAATGGGAGACCATAAATAAAA----------AACGAATGC
** * * *
41318 CTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAATATTTTTTAACCAAAAATTTTAAAA
1 CTTTTTCTTCACATTTCTTAAGATAAACATTCAATTATAATATGTTTTAACCAAAAATTTTAAAA
* * * * *
41383 AAATTGAACTAAAAATTAATTTTGAAATTCTAAAACTATTTAAAGTGAGTAATAAGGGTTTTGAA
66 AAATTCAACTAAAAATTAATTATGAAATTATAAAACTATTGAAAGTGAGTAATAAGGCTTTTGAA
41448 GGAATGGGAGACCATAAATA
131 GGAATGGGAGACCATAAATA
41468 GACTTTNNNN
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
169 1 0.01
170 46 0.36
171 3 0.02
172 75 0.59
173 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.35
Consensus pattern (162 bp):
CTTTTTCTTCACATTTCTTAAGATAAACATTCAATTATAATATGTTTTAACCAAAAATTTTAAAA
AAATTCAACTAAAAATTAATTATGAAATTATAAAACTATTGAAAGTGAGTAATAAGGCTTTTGAA
GGAATGGGAGACCATAAATAAAAAACGAATGC
Found at i:45332 original size:172 final size:172
Alignment explanation
Indices: 43935--45374 Score: 519
Period size: 172 Copynumber: 8.4 Consensus size: 172
43925 NNNNNNNGCG
* * * *
43935 AGTAATAAGGCTTTTGAAGGAATGGGTGAATATAAATGGACTTTTCTTG-TCCATGAATA-CCTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCT-AATGAATATCTTT
* * * * * * * * *
43998 TTTCTTCACATTTCTCAAGGTAGACATTTAATTATAATCTGTTTTAATAGC--AAATGTACAAAG
65 TTTCTTTACATTTCTCTAGATACACAGTCAATTATAATCAGTTTTAA-A-CAAAAATG-AAAAAA
* * * * * **
44061 AATTCAAATTAAAATCAATTTTGAGATTGTAAAACTATTTAAAGGG
127 AATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
* * * * * * *
44107 AGTAAAAAGACTTTTAAAGAAATGGGT-ACTATAAATGGACTTTTCTTG-TAATGAAT-GCCTTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATATCTTTT
* * ********** * * * * * *
44169 TTCTTCACCTNNNNNNNNNNAGACATTCAATTATAATCTGTTTCAAGCAAAAATGTAAAAAAATT
66 TTCTTTACATTTCTCTAGATACACAGTCAATTATAATCAGTTTTAAACAAAAATGAAAAAAAATT
********** * *
44234 CAACTTNNNNNNNNNNATGAGATTATAAAACCTTTTAAAGCT
131 CAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
* * * *
44276 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATACACTTTTCTTACCAAT-AA-ATGCCTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATAT-CTTT
* ** * * * **
44339 TTTCTTCATGTTTCTCTA-AGT-CGAAAATCAATTATAATCTGTTTTAAATGAAAATGCAAAAAA
65 TTTCTTTACATTTCTCTAGA-TAC-ACAGTCAATTATAATCAGTTTTAAACAAAAATG-AAAAAA
* * * * * *
44402 AATTGAACTTAAAATCAATTTTGAGAATATAAAAGCATTTAAAGTA
127 AATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
** * **********
44448 AGTAATAAGGCTTTTGAAGGAATGAATGACTATAAATAGACTTTTCTTGCCAA-NNNNNNNNNNT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATATCTTTT
* * * * ** ** *
44512 TTCTTCACATTTCT-TGAGGTAGACATTCAATTATCCTTTGTTTTAACCAAAAAT-ATAAAAAAA
66 TTCTTTACATTTCTCT-AGATACACAGTCAATTATAATCAGTTTTAAACAAAAATGA-AAAAAAA
* * * * * *
44575 ATCAAATTAAAATCAATTATGACATTATAAAACTATTTAAAGCG
129 TTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
********** * * * * * * **
44619 AGTAANNNNNNNNNNGAAGGAATGAGAGACCATAAATGGA-TTTTTTTTCTTAATGAATGGC-TT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGC-TAATGAATATCTTT
** * * * * ***
44682 TTTCTACACATTTCT-T-GAGACAAGCATTCAATTGTAATCTA-TTTGAATGGAAAATGTAAAAA
65 TTTCTTTACATTTCTCTAGATAC-A-CAGTCAATTATAATC-AGTTTTAAACAAAAATG-AAAAA
* * * * * ***
44744 AAAGTTGAGAACTTAAAATAAATTTTAAGATAATAAAACCATTTAAANNN
126 AAA-TT--CAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
******* * * * * ** * **
44794 NNNNNNNAGGCTTTTAAAGGCATAGGTGACTATAAATGGACTTTTCAAG-TGAATGGATGGC-TT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCT-AATGAATATCTTT
* * * ** * * * * * * *
44857 TTGC-TT-CATGTTCCCCAAGGCAGATAATCAATTA-CAGCA-TTCTTTAACAAAAAATGTAAAA
65 TTTCTTTACAT-TT-CTCTAGATACACAGTCAATTATAATCAGTT-TTAAAC-AAAAATGAAAAA
* * * * * * *
44918 AATTTTAATTTAAAAATAATTATGAAATTATAAAATCTTTTAAAGCA
126 AAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
* * * * *
44965 AGTTATAAGGCTTTTAAAGGAATGGGTGACTATAAATAAACTTTTCTTGCTGATGAATGTC-TTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATATCTTTT
*
45029 TTCTTTACATTTCTCTAGGTACACAGTCAATTATAATCAGTTTTAAACAAAAATGTAAAAAAAAT
66 TTCTTTACATTTCTCTAGATACACAGTCAATTATAATCAGTTTTAAACAAAAATG-AAAAAAAAT
* * * * ****
45094 TGAACTTAAAATTAATTTTTAGAATATAAAACCATTTAANNNN
130 TCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
****** * *
45137 NNNNNNAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTTTTG-TCAATGAATATCTTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCT-AATGAATATCTTT
* ** * * ** *
45201 TTTTTTTATGTTTCT-TGAGATAGACATTCAATTATAATTTGTTTTAATCAAAAAT-AGAAAAAA
65 TTTCTTTACATTTCTCT-AGATACACAGTCAATTATAATCAGTTTTAAACAAAAATGA-AAAAAA
* * *
45264 ATTCAACTTAGAATTAATTAAGAGATTATAAAACCATTTAAAGCG
128 ATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
* * * * * *
45309 AGTAATAAGACTTTTGGAGGAATGGGAGACTATATATGGACTTTTCTTACTAATGAATA-CTTTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATATCTTTT
45373 TT
66 TT
45375 NNNNNNNNNN
Statistics
Matches: 910, Mismatches: 313, Indels: 91
0.69 0.24 0.07
Matches are distributed among these distances:
168 1 0.00
169 57 0.06
170 78 0.09
171 278 0.31
172 334 0.37
173 62 0.07
174 13 0.01
175 80 0.09
176 5 0.01
177 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.34
Consensus pattern (172 bp):
AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATATCTTTT
TTCTTTACATTTCTCTAGATACACAGTCAATTATAATCAGTTTTAAACAAAAATGAAAAAAAATT
CAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGCA
Found at i:47085 original size:171 final size:162
Alignment explanation
Indices: 46795--47112 Score: 324
Period size: 171 Copynumber: 1.9 Consensus size: 162
46785 NNNNNNNNNN
* * * *
46795 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAAGAGACTTTTCTTACCAATGAATGTGTTT
1 GAGTAATAAGGCCTTTAAAGGAATGAGAGACTATAAAGAGACTTTTCTTACCAATGAATATGTTT
* * * * * *
46860 TTCTTCATATTTCTCGAGGTAGACATTCGATTATCATTTGTTTTAACCAAAAATATAAAAAAA-T
66 TTCTTCACATTTCTCGAGATAGACATTCAATTATAATATATTTTAACCAAAAATATAAAAAAAGT
46924 TCAACTTAAAATCAATNNNNNNNNNNTAAAACCATTTAAAGC
131 TCAACTTAAAATCAAT----------TAAAACCATTTAAAGC
*
46966 GAGTAATAAGGCCTTTAAAGGAATGAGAGA-TCATAAATG-GACTTTT-TTTCTCAATGAATCAT
1 GAGTAATAAGGCCTTTAAAGGAATGAGAGACT-ATAAA-GAGACTTTTCTTAC-CAATGAAT-AT
* * *
47028 -TTTTT-TTACACATTTCTTGAGATAGGCATTCAATTATAATATATTTTAACTAAAAATATAAAA
62 GTTTTTCTT-CACATTTCTCGAGATAGACATTCAATTATAATATATTTTAACCAAAAATATAAAA
*
47091 AAAGTTGAACTTAAAATCAATT
126 AAAGTTCAACTTAAAATCAATT
47113 TTGAGATAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
162 1 0.01
170 6 0.05
171 101 0.80
172 18 0.14
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.35
Consensus pattern (162 bp):
GAGTAATAAGGCCTTTAAAGGAATGAGAGACTATAAAGAGACTTTTCTTACCAATGAATATGTTT
TTCTTCACATTTCTCGAGATAGACATTCAATTATAATATATTTTAACCAAAAATATAAAAAAAGT
TCAACTTAAAATCAATTAAAACCATTTAAAGC
Found at i:47176 original size:172 final size:169
Alignment explanation
Indices: 46796--47628 Score: 543
Period size: 172 Copynumber: 4.9 Consensus size: 169
46786 NNNNNNNNNG
* * *
46796 AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAA-GAGACTTTTCTTAC-CAATGAAT-GTGT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG-GA-TTTT-TTTCTCAATGAATCAT-T
* * * * * **
46858 TTTTCTTCATATTTCTCGAGGTAGACATTCGATTATCATTTGTTTTAACCAAAAATATAAAAAAA
62 TTTT-TTCACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAAATAAAAATATAAAAAAA
* ********** ***
46923 TTCAACTTAAAATCAATNNNNNNNNNNTAAAACCATTTAAAGCG
126 TTGAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAATA
* * * *
46967 AGTAATAAGGCCTTTAAAGGAATGAGAGA-TCATAAATGGACTTTTTTTCTCAATGAATCATTTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACT-ATAAATGGA-TTTTTTTCTCAATGAATCATTTT
* * * * *
47031 TTTTACACATTTCTTGAGATAGGCATTCAATTATAATATATTTTAACTAAAAATATAAAAAAAGT
64 TTTT-CACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAAATAAAAATATAAAAAAA-T
* * *
47096 TGAACTTAAAATCAATTTTGAGATAATAAAACCATTTAAAGTG
127 TGAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAATA
********** * * *
47139 AGTANNNNNNNNNNTGAAGGAATGGGTGACTATAAATGGATATTTCTTGC-CAATGAATGCCTTA
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGAT-TTT-TTTCTCAATGAAT-CATTT
** * * * *
47203 TCCTTCACCTTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAAGTAAAAAATGTAAAAAAAT
63 TTTTTCACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAAAT-AAAAATATAAAAAAAT
* * * *
47268 TCAACTTAAAATCCATTATGAGATTATAAAACCTTTTAAAATA
127 TGAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAATA
** * *
47311 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAAATTTTTTTTATCAATAAAT-ACTTTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA-TTTTTTTCTCAATGAATCA-TTTT
* * * *
47375 TTCTTCACGTTTCTCT-AGGTAGATAATCAATTATAATCTGTTTTAAATGAAAATATAAAAAAAA
64 TT-TTCACATTTCT-TGAGGTAGACATTCAATTATAATCTGTTTTAAATAAAAATAT-AAAAAAA
************** * *
47439 TTGAACTTAAAATCAANNNNNNNNNNNNNNAACCATTTAAAGTG
126 TTGAACTTAAAATCAATTATGAGATAATAAAACCATTTAAAATA
* * *
47483 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAAGTTTTTTTGC-CATTGAATGCCTTT
1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA-TTTTTTT-CTCAATGAAT-CATTT
* * * * * * *
47547 TCCTTT-ACCTTT-TTAGAGGTAAATATTAAATTATAATCTGTTTTAACTAAAAATATAAAAATA
63 T-TTTTCACATTTCTT-GAGGTAGACATTCAATTATAATCTGTTTTAAATAAAAATATAAAAAAA
*
47610 TTCAACTTAAAATCAATTA
126 TTGAACTTAAAATCAATTA
47629 NNNNNNNNNN
Statistics
Matches: 517, Mismatches: 122, Indels: 46
0.75 0.18 0.07
Matches are distributed among these distances:
170 7 0.01
171 134 0.26
172 344 0.67
173 31 0.06
174 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.35
Consensus pattern (169 bp):
AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGATTTTTTTCTCAATGAATCATTTTTT
TTCACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAAATAAAAATATAAAAAAATTGAA
CTTAAAATCAATTATGAGATAATAAAACCATTTAAAATA
Found at i:47436 original size:344 final size:333
Alignment explanation
Indices: 46810--47454 Score: 663
Period size: 344 Copynumber: 1.9 Consensus size: 333
46800 ATAAGGCTTT
** * * *
46810 TGAAGGAATGAGTGACTATAAAGAGACTTTTCTTACCAATGAATGTGTTTTTCTTCATATTTCTC
1 TGAAGGAATGAGTGACTATAAAGAGACTTTTCTTACCAATGAATGCCTTATCCTTCACATTTCTC
* * * *
46875 GAGGTAGACATTCGATTATCATTTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAAT
66 GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAAT
********** * * *
46940 NNNNNNNNNNTAAAACCATTTAAAGCGAGTAATAAGGCCTTTAAAGGAATGAGAGATCATAAATG
131 TATGAGATTATAAAACCATTTAAAACAAGTAATAAGGCCTTTAAAGGAATGAGAGATCATAAATA
* * * * *
47005 GACTTTTTTTCTCAATGAATCATTTTTTTTACACATTTCTTGAGATAGGCATTCAATTATAATAT
196 AACTTTTTTTATCAATAAATCATTTTTTTTACACATTTCTTGAGATAGACAATCAATTATAATAT
* *
47070 ATTTTAACTAAAAATATAAAAAAAGTTGAACTTAAAATCAATTTTGAGATAATAAAACCATTTAA
261 ATTTTAAATAAAAATATAAAAAAAATTGAACTTAAAATCAATTTTGAGATAATAAAACCATTTAA
47135 AGTGAGTA
326 AGTGAGTA
* *
47143 NNNNNNNNNNTGAAGGAATGGGTGACTATAAATG-GA-TATTTCTTGCCAATGAATGCCTTATCC
1 ----------TGAAGGAATGAGTGACTATAAA-GAGACT-TTTCTTACCAATGAATGCCTTATCC
* * *
47206 TTCACCTTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAAGTAAAAAATGTAAAAAAATTCA
54 TTCACATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAA-CAAAAAATATAAAAAAATTCA
* * * * * *
47271 ACTTAAAATCCATTATGAGATTATAAAACCTTTTAAAATAAGTAATAAGGCTTTTGAAGGAATGG
118 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACAAGTAATAAGGCCTTTAAAGGAATGA
* * * *
47336 GTGA-CTATAAATAAATTTTTTTTATCAATAAAT-ACTTTTTTCTT-CACGTTTCTCT-AGGTAG
183 GAGATC-ATAAATAAACTTTTTTTATCAATAAATCA-TTTTTT-TTACACATTTCT-TGAGATAG
* * * *
47397 ATAATCAATTATAATCTGTTTTAAATGAAAATATAAAAAAAATTGAACTTAAAATCAA
244 ACAATCAATTATAATATATTTTAAATAAAAATATAAAAAAAATTGAACTTAAAATCAA
47455 NNNNNNNNNN
Statistics
Matches: 247, Mismatches: 48, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
342 1 0.00
343 83 0.34
344 160 0.65
345 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.35
Consensus pattern (333 bp):
TGAAGGAATGAGTGACTATAAAGAGACTTTTCTTACCAATGAATGCCTTATCCTTCACATTTCTC
GAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAAT
TATGAGATTATAAAACCATTTAAAACAAGTAATAAGGCCTTTAAAGGAATGAGAGATCATAAATA
AACTTTTTTTATCAATAAATCATTTTTTTTACACATTTCTTGAGATAGACAATCAATTATAATAT
ATTTTAAATAAAAATATAAAAAAAATTGAACTTAAAATCAATTTTGAGATAATAAAACCATTTAA
AGTGAGTA
Found at i:48359 original size:173 final size:169
Alignment explanation
Indices: 48142--48528 Score: 472
Period size: 173 Copynumber: 2.3 Consensus size: 169
48132 NNNNNNNNNN
* *
48142 ATTTAAAGCGAGTAATAAGGCTTTCAAAGGAATAGGTGACTATAAATGAACTTTTCTTGT-CAAT
1 ATTTAAAGCGAGTAATAAGGCTTT-TAAGGAATGGGTGACTATAAATGAACTTTTCTT-TCCAAT
* * *
48206 GAATGCCTTTTTCTCCACGTTTCTTGA-GGTAGACATTCAATTATAATCTGTTTTCAAAAAAAAA
64 GAATGCCTTTTCCTCCACCTTT-TTCATGGTAGACATTCAATTATAATCTGTTTT--AAAAAAAA
* * *
48270 ATGTACAAAGAATACAACTTAAAATCAATTTTGAGATTATAAACC
126 ATGTAAAAAAAAT-CAACTTAAAATCAATTATGAGATTATAAACC
* * * * *
48315 ATTTAAAGTGACTAAAAAGGCTTTTAATGGAATGGGTAACTATAAATGGACTTTTCTTTCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTAA-GGAATGGGTGACTATAAATGAACTTTTCTTTCCAATG
** * * **
48380 AATGCCTTTTCCTTTACCTTTTTCATTGTAGACATTTAATTATAATCTGTTTTAAGCAAAAATGT
65 AATGCCTTTTCCTCCACCTTTTTCATGGTAGACATTCAATTATAATCTGTTTTAAAAAAAAATGT
* *
48445 AAAAAAAATCAGCTTAAAATCAATTATGAGATTATAAATC
130 AAAAAAAATCAACTTAAAATCAATTATGAGATTATAAACC
* * *
48485 TTTTAAAGCGAGTAATAAGACTTTTGAAGAAATGGGTGACTATA
1 ATTTAAAGCGAGTAATAAGGCTTTT-AAGGAATGGGTGACTATA
48529 NNNNNNNNNN
Statistics
Matches: 182, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
170 62 0.34
171 19 0.10
172 6 0.03
173 95 0.52
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (169 bp):
ATTTAAAGCGAGTAATAAGGCTTTTAAGGAATGGGTGACTATAAATGAACTTTTCTTTCCAATGA
ATGCCTTTTCCTCCACCTTTTTCATGGTAGACATTCAATTATAATCTGTTTTAAAAAAAAATGTA
AAAAAAATCAACTTAAAATCAATTATGAGATTATAAACC
Found at i:48593 original size:170 final size:168
Alignment explanation
Indices: 48142--48620 Score: 415
Period size: 170 Copynumber: 2.8 Consensus size: 168
48132 NNNNNNNNNN
* * * * * * * * * *
48142 ATTTAAAGCGAGTAATAAGGCTTTCAAAGGAATAGGTGACTATAAATGAACTTTTCTTGTCAATG
1 ATTTAAAGCGACTAAAAAGACTTTTAATGAAATGGGTAACTATAAATGGACTTTTCTTGCCAATG
* ** *
48207 AATGCCTTTTTCTCCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTCAAAAAAAAAAT
66 AATGCCTTTTTCTTCATATTTCTT-A-GTAGACATTCAATTATAATCTGTTTT---AAGAAAAAT
* * *
48272 GTACAAAGAATACAACTTAAAATCAATTTTGAGATTATAAACC
126 GTAAAAAAAATACAACTTAAAATCAATTATGAGATTATAAACC
* * * *
48315 ATTTAAAGTGACTAAAAAGGCTTTTAATGGAATGGGTAACTATAAATGGACTTTTCTTTCCAATG
1 ATTTAAAGCGACTAAAAAGACTTTTAATGAAATGGGTAACTATAAATGGACTTTTCTTGCCAATG
* * * *
48380 AATGCCTTTTCCTTTACCTTTTTCATT-GTAGACATTTAATTATAATCTGTTTTAAGCAAAAATG
66 AATGCCTTTTTC-TT-CATATTTC-TTAGTAGACATTCAATTATAATCTGTTTTAAG-AAAAATG
* *
48444 TAAAAAAAAT-CAGCTTAAAATCAATTATGAGATTATAAATC
127 TAAAAAAAATACAACTTAAAATCAATTATGAGATTATAAACC
* * * * **********
48485 TTTTAAAGCGAGTAATAAGACTTTTGAA-GAAATGGGTGACTATANNNNNNNNNNTCTTGCCAAT
1 ATTTAAAGCGACTAAAAAGACTTTT-AATGAAATGGGTAACTATAAATGGACTTTTCTTGCCAAT
* * * *
48549 GAATGCTTTTTTCTTCATATTTCTTAAGATAGATATTCAATTATAGTCTGTTTTAATGAAATATG
65 GAATGCCTTTTTCTTCATATTTCTT-AG-TAGACATTCAATTATAATCTGTTTTAA-GAAAAATG
48614 TAAAAAA
127 TAAAAAA
48621 GTTCNNNNNN
Statistics
Matches: 249, Mismatches: 48, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
167 2 0.01
168 6 0.02
169 3 0.01
170 121 0.49
171 18 0.07
173 91 0.37
174 1 0.00
175 5 0.02
176 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.36
Consensus pattern (168 bp):
ATTTAAAGCGACTAAAAAGACTTTTAATGAAATGGGTAACTATAAATGGACTTTTCTTGCCAATG
AATGCCTTTTTCTTCATATTTCTTAGTAGACATTCAATTATAATCTGTTTTAAGAAAAATGTAAA
AAAAATACAACTTAAAATCAATTATGAGATTATAAACC
Found at i:49892 original size:172 final size:170
Alignment explanation
Indices: 49576--50051 Score: 443
Period size: 172 Copynumber: 2.8 Consensus size: 170
49566 NNNNNNNNNN
* * * * *
49576 TTTAATAAAAAATATAAAAAAATTCAACTTAAAGTCAATTATGATATTATAAAACTTTTTAAAGC
1 TTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTTTAAGATTATAAAACTATTTAAAGC
********** * * ** *
49641 GAGTAATAAAGCTTTTNNNNNNNNNNGTGACTATAAATGGACTTTTTTTTCCAATGAAGGCCTTT
66 GAGTAATAAAGCTTTTAAAAGAATAGGTGACTATAAATGGAC-TTTTCTTGCAATGAATACTTTT
* * * *
49706 TTCTTGAGGTTTCTCAAGGTAAATA-TTCAATTATAATCTAT
130 TTCTTGACGTTTCTCAAGATAAACAGTT-AATTATAATATAT
* * * *
49747 TTTAATTAAAAATATATAAAAAATTCAAATTAAAATTAATTTTTAGATTATAAAACTATTTAAAG
1 TTTAATAAAAAATATA-AAAAAATTCAACTTAAAATCAATTTTAAGATTATAAAACTATTTAAAG
* *
49812 CGAGTAATAAAGCTTTTAAAAGAATAGGTGACTATAAATGCACTTTTCTTGACAATGATTACTTT
65 CGAGTAATAAAGCTTTTAAAAGAATAGGTGACTATAAATGGACTTTTCTTG-CAATGAATACTTT
* * * * *
49877 TTTTTTTACGTTTCTCGAGATAGACAGTTAATTATAATATGT
129 TTTCTTGACGTTTCTCAAGATAAACAGTTAATTATAATATAT
* * * **
49919 TTTAA-ACGAAAATATAAAAAAAATTGAACTTAAAATCAATTTTAAGAATATAAAACTATTTAGG
1 TTTAATA-AAAAATAT-AAAAAAATTCAACTTAAAATCAATTTTAAGATTATAAAACTATTTAAA
* * * * * * *
49983 GTGAGTCATAAGGCTTTTGAAGGAATGGGTGATTATAAATGGACTTTTCTTGCTAATGAATATCT
64 GCGAGTAATAAAGCTTTTAAAAGAATAGGTGACTATAAATGGACTTTTCTTGC-AATGAATA-CT
50048 TTTT
127 TTTT
50052 CTTCATGTTT
Statistics
Matches: 246, Mismatches: 52, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
171 22 0.09
172 215 0.87
173 9 0.04
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.38
Consensus pattern (170 bp):
TTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTTTAAGATTATAAAACTATTTAAAGC
GAGTAATAAAGCTTTTAAAAGAATAGGTGACTATAAATGGACTTTTCTTGCAATGAATACTTTTT
TCTTGACGTTTCTCAAGATAAACAGTTAATTATAATATAT
Found at i:51396 original size:171 final size:169
Alignment explanation
Indices: 51110--52156 Score: 746
Period size: 171 Copynumber: 6.1 Consensus size: 169
51100 NNNNNNNNNN
* * * * * * *
51110 GACTATAAATAGACTTTTCTTACCAATGAAT-GCTTTTTTCTTCATGTTTCTTGATGTAGACATT
1 GACTATAAATAGACTTTTCTTACTAATGAATATC-TTTTTCTTCACGTTTCTCGAGGAAGACAAT
* * * * *
51174 CAATTGTACTCTATTTTAACAAAAAATGTAAAAAAA-TCTAACTTAAAATCAATTATGTGATTAT
65 CAATTATAGTCTGTTTT-ATAAAAAATGTAAAAAAATTC-AACTTAAAATCAATTATGAGATTAT
* * * *
51238 AAGA-CAGTTTAAAGTGAGTGATAAGGCTTTTGGAGGAATGGGA
128 AA-ACCA-TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* ** * *
51281 GACTATAAATAGACTTTTATTTTTTATGAATGTCTTTTTCTTCACGTTTCTCGAGGAA-AGCAAT
1 GACTATAAATAGACTTTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTCGAGGAAGA-CAAT
* *
51345 AAATTATAGTCTGTTTTCATAAAAAATGTAAAAAAATTCAACTTTAAATCAATTATGAGATTATA
65 CAATTATAGTCTGTTTT-ATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT-
* * * **
51410 AAACCATCTAAAGCAAGTAATAAGGCTTTCGAAGGCTTGGGT
128 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* * * * * * * *
51452 CACTATAAATAGACTTTTCTTACCAATAAATATCTTTTTCTTCATGTTCCTCAAGGCAGACATTC
1 GACTATAAATAGACTTTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTCGAGGAAGACAATC
* * * *
51517 AATTATAGCCT-TCTTTA-ACTAAAAATATAAACAAATTCAACTTAAAATCAATTATGGGATTAT
66 AATTATAGTCTGT-TTTATA--AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
********* *
51580 NNNNNNNNNNAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGT
128 -AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* * * * *
51623 GACTCTAAATAGACTTTTCTTACTAATGAATGT-TTATTTCTTCACGTTTCTTGAGGTAGACAGT
1 GACTATAAATAGACTTTTCTTACTAATGAATATCTT-TTTCTTCACGTTTCTCGAGGAAGACAAT
* * * *
51687 CAATTATAATCTGTTTTA-AATGAAAATGTAAAAAAATTGAACTTAAAATCAATTTTGAGAATAT
65 CAATTATAGTCTGTTTTATAA--AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * *
51751 GAAATCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGGC
128 -AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* * * *
51794 GACTATAAATTGACTTTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTTGAGGTAGACATTC
1 GACTATAAATAGACTTTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTCGAGGAAGACAATC
************************** * * *
51859 NNNNNNNNNNNNNNNNNNNNNNNNNNNTACAAAGAATTCAAATTAAAATCAATTTTGAGATTATA
66 -AATTATAGTCTGTTTTATAAAAAATGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTAT-
* * * * *
51924 AAATCATTTAAAGCAAATAATAAGGCTTTTAAAGGAATGAGT
128 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* * * ** * * * * *
51966 GACTATAAATGGA-TATTTCTTGCCAATGAATGCCTTTTTCCTCACCTTTCTTGAGGTAGACATT
1 GACTATAAATAGACT-TTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTCGAGGAAGACAAT
* * * *
52030 CAATTATAATCTGTTTTA-AGTAAAAATGTAAAAGAATTCAACTTAAAATCAATTATGAGGTTAG
65 CAATTATAGTCTGTTTTATA--AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * *
52094 AAAACTTTGTAAAGCGATTAATAAGGCTTTTGAAGGAATGGGT
128 AAACCATT-TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
*
52137 GACTATAAATGGACTTTTCT
1 GACTATAAATAGACTTTTCT
52157 NNNNNNNNNN
Statistics
Matches: 678, Mismatches: 176, Indels: 44
0.76 0.20 0.05
Matches are distributed among these distances:
169 2 0.00
170 11 0.02
171 528 0.78
172 137 0.20
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (169 bp):
GACTATAAATAGACTTTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTCGAGGAAGACAATC
AATTATAGTCTGTTTTATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
Found at i:51857 original size:342 final size:343
Alignment explanation
Indices: 51110--51858 Score: 879
Period size: 342 Copynumber: 2.2 Consensus size: 343
51100 NNNNNNNNNN
* *
51110 GACTATAAATAGACTTTTCTTACCAATGAAT-GCTTTTTTCTTCATGTTTCTTGATGTAGACATT
1 GACTATAAATAGACTTTTCTTACCAATGAATATC-TTTTTCTTCATGTTTCTTGAGGTAGACATT
* * *
51174 CAATTGTACTCTATTTTAACAAAAAATGTAAAAAAATCTAACTTAAAATCAATTATGTGATTATA
65 CAATTATACTCTATTTTAACAAAAAATATAAAAAAATCTAACTTAAAATCAATTATGGGATTATA
* * * * **
51239 AGACAGTTTAAAGTGAGTGATAAGGCTTTTGGAGGAATGGGAGACTATAAATAGACTTTTATTTT
130 AGACAGTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAGACTTTTATTAC
* *
51304 TTATGAATGTCTTTTTCTTCACGTTTCTCGAGGAAAGCAATAAATTATAGTCTGTTTTCATAAAA
195 TAATGAATGTCTTTTTCTTCACGTTTCTCGAGGAAAGCAATAAATTATAATCTGTTTTCATAAAA
* *
51369 AATGTAAAAAAATTCAACTTTAAATCAATTATGAGATTATAAAACCATCTAAAGCAAGTAATAAG
260 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAACCATCTAAAGCAAGTAATAAG
* **
51434 GCTTTCGAAGGCTTGGGTC
325 GCTTTCAAAGGAATGGGTC
* * ** *
51453 -ACTATAAATAGACTTTTCTTACCAATAAATATCTTTTTCTTCATGTTCCTCAAGGCAGACATTC
1 GACTATAAATAGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATTC
* *
51517 AATTATAGC-CT-TCTTTAACTAAAAATATAAACAAAT-TCAACTTAAAATCAATTATGGGATTA
66 AATTATA-CTCTAT-TTTAACAAAAAATATAAAAAAATCT-AACTTAAAATCAATTATGGGATTA
********** * * *
51579 TNNNNNNNNNNAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTCTAAATAGACTTTTCTT
128 TAAGACAGTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAGACTTTTATT
* * * *
51644 ACTAATGAATGT-TTATTTCTTCACGTTTCTTGAGG-TAGACAGTCAATTATAATCTGTTTT-A-
193 ACTAATGAATGTCTT-TTTCTTCACGTTTCTCGAGGAAAG-CAATAAATTATAATCTGTTTTCAT
* * * * * **
51705 AATGAAAATGTAAAAAAATTGAACTTAAAATCAATTTTGAGAATATGAAATCATTTAAAGTGAGT
256 AA--AAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAACCATCTAAAGCAAGT
*
51770 AATAAGGCTTTTAAAGGAATGGG-C
319 AATAAGGCTTTCAAAGGAATGGGTC
* * *
51794 GACTATAAATTGACTTTTCTTACTAATGAATATCTTTTTCTTCACGTTTCTTGAGGTAGACATTC
1 GACTATAAATAGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATTC
51859 NNNNNNNNNN
Statistics
Matches: 339, Mismatches: 58, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
340 2 0.01
341 8 0.02
342 327 0.96
343 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.36
Consensus pattern (343 bp):
GACTATAAATAGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATTC
AATTATACTCTATTTTAACAAAAAATATAAAAAAATCTAACTTAAAATCAATTATGGGATTATAA
GACAGTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAGACTTTTATTACT
AATGAATGTCTTTTTCTTCACGTTTCTCGAGGAAAGCAATAAATTATAATCTGTTTTCATAAAAA
ATGTAAAAAAATTCAACTTAAAATCAATTATGAGAATATAAAACCATCTAAAGCAAGTAATAAGG
CTTTCAAAGGAATGGGTC
Found at i:52665 original size:173 final size:168
Alignment explanation
Indices: 52247--52716 Score: 492
Period size: 173 Copynumber: 2.8 Consensus size: 168
52237 NNATTGAAAT
* * * * *
52247 TAAAATTAATTTTGAGAGTATAAAACTATTTAAAGTGAGTAATAAGCTTTTGAAGGAATGGATGA
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGCTTTTGAAGGAAT-GATGA
* * * * * * *
52312 CTATAAATAGATTTTTTTTACCATTGAATGCCTTTCTCTTTACCTTTCTCAAGGTAGACATTTAA
65 CTCTAAATGGATTTTTCTTACCAATGAATGCCTTTTTCTTTACATTTCTCAAGGTAGACATTCAA
* * * *
52377 TTATAATTTGTTTTGGCTAAAAAGTAAAAATATTCAACT
130 TTATAATCTGTTTTGGCCAAAAAGTAAAAAAATTCAACA
* * * *
52416 TAAAATCAATTATGAGATTATAAAAACTTTTAAAGCGAATAATAAAGCTTTTGAAGGACTGAGTG
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-AAGCTTTTGAAGGAATGA-TG
* * * ** *
52481 ACAAC-AAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTTACATTTCTCAAGGTGGACATTC
64 AC-TCTAAATGGATTTTTCTTACCAATGAATGCCTTTTTCTTTACATTTCTCAAGGTAGACATTC
*
52545 AATTATAATCTGTTTTGGCCAAAAATGTAAAAAAAAATTGAACA
128 AATTATAATCTGTTTTGGCCAAAAA-GT--AAAAAAATTCAACA
**********
52589 TAAAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAATGATG
1 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA-GCTTTTGAAGG-AATGATG
* **
52654 ACTCTAAATGGATTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATT
64 ACTCTAAATGGATTTTTCTTACCAATGAATGCCTTTTTCTTTACATTTCTCAAGGTAGACATT
52717 TAATNNNNNN
Statistics
Matches: 242, Mismatches: 50, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
169 37 0.15
170 90 0.37
171 2 0.01
172 3 0.01
173 106 0.44
174 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (168 bp):
TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGCTTTTGAAGGAATGATGAC
TCTAAATGGATTTTTCTTACCAATGAATGCCTTTTTCTTTACATTTCTCAAGGTAGACATTCAAT
TATAATCTGTTTTGGCCAAAAAGTAAAAAAATTCAACA
Done.