Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397272.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.0, 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: 3572271
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 44823 characters in sequence are not A, C, G, or T
File 1 of 9
Found at i:634 original size:170 final size:170
Alignment explanation
Indices: 1--2160 Score: 1777
Period size: 171 Copynumber: 12.7 Consensus size: 170
* * * * * *
1 GCTTTTGCTTCATGTTTCATAAAGCATACATTCAATTATAATATATTTTAAT-TAAAATGTAAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAAA
* * * * *
65 ACATTCAA-TATAAAATCAATCATGAGATTATAAAACTATTTAAAGCAAGTAATAGGGCTTTTGA
66 A-ATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG-
* *
129 AGGCTT-GAGTAATTATAAATGGACTTTTCTTGTC-AATGGATG
128 AGGCTTAGAGTGACTATAAATGGACTTTTCTTG-CAAATGGATG
** * * * * *
171 GCTTTTGCTTCACATTTCCTAAGGTAGACATTCAAATATAATCTGTTTTAGTAAAAAATGTAAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAAA
* * *
236 AA-T---C-TAGAAATCAATTATGAGATTAGAAAACCGTTTAAAGCGAGTAATAAGGCTTTCAAA
66 AATTCAACTTA-AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-GA
* * * * * *
296 AGTTTA-AGTGACTATCAATGGACTTTTCTTACTAATGGATA
129 GGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
* * * * *
337 GCTTTTGCTTCATGTTT-TCTAAGATAGATATTCAAATATAATCTATTTTAGTGAAAAATGTAAA
1 GCTTTTGCTTCATGTTTCT-TAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAA
* *
401 AACATTCAACTTAAAATCAATTATGAGTTTATAAAACCATTTAAAGCGAGTAATATGGCTTTCGA
65 AA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGA
* *
466 GGGTTAGAATGACTATAAATGGACTTTTCTTGCAAAATGGATG
129 GGCTTAGAGTGACTATAAATGGACTTTTCTTGC-AAATGGATG
** * * *
509 GCTTTTGCTTCATGTTTCCCAAGGTTGACATTCAAATAT-ATCTATTTTAACCAAAAATGTAAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAAA
* * * *
573 AATTCAACTTAAAATTAATTATGAGATTATAAAACGATTTAAAGTGAGTAATAAAGCTTTCGAAG
66 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG-AG
* * * *
638 GCAT-GGGTGACTATAAAGGGACTTTTCTTGTAAAT-GATTG
130 GCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGA-TG
* * * * ** * *
678 GCTTTTTG-TTCATATGTCTCAAGATAGACATTGGATTATATTCTGTTTTAA-CTAAAAATGTAA
1 GC-TTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATC-AAAAATGTAA
* * * *
741 AACAATTCAACTTACAATCAATTATGAGATTATAAAACCATTTAAACCAAGTAATAATGCTTTCG
64 AA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG
* * * * * *
806 ACGGCATA-AATGACTATAAACGGACTTTTCTTTCTAATCGATG
128 A-GGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
* * * * * * * * *
849 GCTTTTGTTTTACGTTTCCTAAGGCAGACATTCAATTATAATCTGTTGT-ATCCAACAATATAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAAT-CAAAAATGT-AA
* * * *
913 AAAATTCACCTTAAAATCAATTATGAGACTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCGA
64 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG-
* * * * * *
978 AGGCTT-GACTGACTATAAATAGAATTTTTTTACTAATGGATG
128 AGGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
* * * ** * *
1020 GCTTTTGCTTCACGTTTCCTGAGACAGACATTCAAATATAATCTATTTTAATGAAAAATGTAAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAAA
* * *
1085 ACATTCAACTTAAAAATCAATTATGAGTTTTATAAAACTATTTAAA-CTGATTAATATA-GCTTT
66 A-ATTCAACTT-AAAATCAATTATGAG-ATTATAAAACCATTTAAAGC-GAGTAATA-AGGCTTT
* * * * *
1148 TGAGGGC-TAAAGTGACTATAAATATGAATTTTCTT---AATAGAATG
126 CGA-GGCTTAGAGTGACTATAAAT-GGACTTTTCTTGCAAAT-GGATG
* * * **
1192 GCTTTTGCTATCATGTTTCTTGAGGTCGACATTCAA--AT-A--TA--TTAACCAAAATAAATAA
1 GCTTTTGCT-TCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAA-ATGT-A
* * * *
1250 AAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAAGTGAGTAATTAGGCTTTTA
63 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTC
* * * * *
1315 AAGGCAT-GAGTGACTATAAAGGGACTTTCCTTGTAAAT-GATTG
127 GAGGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGA-TG
* * * * * * *
1358 ACTTTT-CGTTCATGTGTCTCAAGAG-AGACATTGAATTATATTCTGTTTTAATTAAAAATGTAA
1 GCTTTTGC-TTCATGTTTCTTAAG-GTAGACATTCAATTATAATCTATTTTAATCAAAAATGT-A
* * * *
1421 AAAAATTCAACTTAAAATCAATCATGAGATTATAAAATCATTTAAAGCAAGTAATAATGCTTTCG
63 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG
* * * * *
1486 ACGGCATA-AATGACTATAAATGGACTTTTCTTTCTAATCGATG
128 A-GGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
* * * * ** *
1529 GC-TTTGCTTCATGTTTCTTGAGGTGGACATTTAATTATAATCTATTGT-ATCCAACGATATAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAAT-CAAAAATGT-AA
* * * * * *
1592 AAAATTCACCTTAAAATTAATTATGAGACTATAAAACCATTTAAAGCGAGTAAGAAGACTTTTGA
64 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG-
* * * *
1657 AGGCTT-GGGTGACTATAAATGGACTTTTTTTGCCAATGAATG
128 AGGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
* * * * * * * *
1699 GCTTTT-TTTGCACGTTTTTTAAGGCAAACATTCAATTACAATATGTTTTAA-CAAAAATGTAAA
1 GCTTTTGCTT-CATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGT-AA
* * *
1762 AAAATTTAACTTAAACTCAATTATGAGATTATAAAACCATTTAAAGGGAGTAATAAGG-TATTCA
64 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT-TTC-
* * * * *
1826 AAGGCTT-GAGTGATTACAAATAGACTTTTCTTGCCAATGGATG
127 GAGGCTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
* ** * * * * * *
1869 ACTTTTGCTTCATGTTTCTCGAGGCAAACATTCAATTATGATATATGTTAATCAAAAATATAAAA
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGT--AA
* * * *
1934 AAAATT-AACTTAAAATTAATTATGAAATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTCGG
64 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-G
* ** * *
1998 AGAC--AGAGGTGACTATCGATGGACTTTTCTTGCCAATGAATG
128 AGGCTTAGA-GTGACTATAAATGGACTTTTCTTGCAAATGGATG
* * * * * * * ** *
2040 ACTTTTTCTTTACGTTTCTTAAGGTAAACATTCAAATATTATCTGCTTTAATCAAAAATCTAAAT
1 GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAA-
* * ** *
2105 AAATTTAACTTAAAATCAATTATGATATTATATTACCATTTAAAGCAAGTAATAAG
65 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
2161 ACCTTTCTTG
Statistics
Matches: 1611, Mismatches: 297, Indels: 163
0.78 0.14 0.08
Matches are distributed among these distances:
164 9 0.01
165 63 0.04
166 169 0.10
167 17 0.01
168 10 0.01
169 40 0.02
170 444 0.28
171 683 0.42
172 103 0.06
173 63 0.04
174 10 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (170 bp):
GCTTTTGCTTCATGTTTCTTAAGGTAGACATTCAATTATAATCTATTTTAATCAAAAATGTAAAA
AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAGG
CTTAGAGTGACTATAAATGGACTTTTCTTGCAAATGGATG
Found at i:3321 original size:171 final size:169
Alignment explanation
Indices: 2164--5053 Score: 2245
Period size: 171 Copynumber: 16.9 Consensus size: 169
2154 TAATAAGACC
** ** *
2164 TTTCTTGTCAAT-AGATGATTTTTGCTTCATGTTTTTTGAGGTAAACATTCAATTATAATCTATT
1 TTTCTTGTCAATGA-ATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTA-T
* *
2228 TTTACATAAACAA-AATGTGAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTA
64 TTTA-ATAAA-AATAA----AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
* * *
2292 AAGCGAGTAATAAGGCATTCAAAGGCT-TGAGTGAATATAAATGGACT
123 AAGCGAGTAATAAGGCTTTCGAAGG-TATGAGTGACTATAAATGGACT
* * * * * * *
2339 TTTCTTGTCAATGAA-AGCTTTTGCTTCATATTT-CTAGAAGCAGACTTTAAATTATAATATATT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCT-GAGGTAGACATTCAATTATAATCTATT
* * * * *
2402 TCAATCAAAAATATAAAAAAGTTCAACTTACAATTAATTATGAGATTATAAAACCATTTTAAA-T
65 TTAAT-AAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA-TTTAAAGC
* *
2466 GAGTAATAAGGCTTTCGAAGGCT-TGAGTGACTATAAATTGACA
127 GAGTAATAAGGCTTTCGAAGG-TATGAGTGACTATAAATGGACT
* * * * * * * *
2509 TTACTTGCCAAT-AGATGGCTTTTGCATCAGGTTT-CTAGAAGCAGACATTTAATTATAATATAT
1 TTTCTTGTCAATGA-ATGGCTTTTGCTTCATGTTTCCT-GAGGTAGACATTCAATTATAATCTAT
* * * *
2572 TTTAATAAAAAAATAAAAAAATTCAACTTAAAATTAATTATGATATTATAAAACCATTTAAGGC-
64 TTTAATAAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * **
2636 ACATAATAAGGCTTTCAAAGGCGTA-G-GTGACTAT-AATAAACT
128 A-GTAATAAGGCTTTCGAA-G-GTATGAGTGACTATAAATGGACT
* * * * * * * * * * *
2678 TTTTTTGCCAATGAATGACTTTTTG-TTCAGGTTTCCTAAGGCAGATAATCAACTATTATCTGTT
1 TTTCTTGTCAATGAATGGC-TTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATT
* * * * * * *
2742 TTAACTAAAAATGTAAAAACATCCAACTTAAAATTAAATATGACATTATAAAACCATTTAAAGTG
65 TTAA-TAAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * *
2807 AGTAATAACGTTTTCGAAAGCT-TGAGTGACTATAAATGGACT
128 AGTAATAAGGCTTTCG-AAGGTATGAGTGACTATAAATGGACT
* * * * *
2849 TTTCTTGCCAAT-AGGTGGCTTTTGCTTCATGTTT-CTCAAGGTAGACATTTAATTATAATATAT
1 TTTCTTGTCAATGA-ATGGCTTTTGCTTCATGTTTCCT-GAGGTAGACATTCAATTATAATCTAT
* * * *
2912 TTTAATCAAAATGTAAAAAAATTCAACTT---A-CAATCATGAGATTATAAAACTC-TTTAAAGT
64 TTTAATAAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC-CATTTAAAGC
* *
2972 GAGTAATAACGCTTTTGAAGGTATGAGTGACTATAAATGGACTT
127 GAGTAATAAGGCTTTCGAAGGTATGAGTGACTATAAATGGAC-T
* * * * * * * ** *
3016 TTTTTTTTCAATGGATGGCCTTTACTTCACGTTTACTTTGGTAGACATTCAATTATAATCTGTTT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATTT
* * * *
3081 TAAATAACAATATAAAAAAATTCAACTTAATATCAATTATGAGATTATAAAACTATTTAAAGAGA
66 T-AATAAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
*
3146 GTAATAAGGCTATCGAAGGTAT-AGGTGACTATAAATGGACT
129 GTAATAAGGCTTTCGAAGGTATGA-GTGACTATAAATGGACT
* * * * *
3187 TTTCTTATCAATGAATGGCTTTCGTTTCATGTTTCCTGAGGTAGATATTCAACTATAATCTATTT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATTT
*
3252 TAACTAAAAATGAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTGAAAGCGA
66 TAA-TAAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* * * * * *
3317 GTAATAAGGCTGTCAAAGGCT-TGAGTGACAACAAATAGATT
129 GTAATAAGGCTTTCGAAGG-TATGAGTGACTATAAATGGACT
* * * * * ** *
3358 TTTCTTGGCACTGGATGGCTTTTGCTTCATGTTTTCTAAAATAGACATTCAATTATAATATATTT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATTT
* * ** *
3423 TAATTAAAAGTATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAACTCAA
66 TAA-TAAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* * * * * *
3488 GTGATAAGGATTTTGAAGGCATGGGTGACTATAAATAGACT
129 GTAATAAGGCTTTCGAAGGTATGAGTGACTATAAATGGACT
* * * *
3529 TTTCTTGTCAATGAATGACGTTTT-CTTCACGTTTCCCATGA--TAGACACTCAAATATAATCTA
1 TTTCTTGTCAATGAATGGC-TTTTGCTTCATGTTT-CC-TGAGGTAGACATTCAATTATAATCTA
** * * * * * **
3591 TTTTAATTAAAAATCTAAACAATTCAACTTTAGATTATTTATGAGATTATAAGGCCATTTAAATG
63 TTTTAA-TAAAAATAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-G
** * * *
3656 -GTTTAAATATGGCTTTCGAACGCT-TGAGTGA-TAGTAAATAGACT
126 CGAGT-AATAAGGCTTTCGAA-GGTATGAGTGACTA-TAAATGGACT
* * * * * * * * *
3700 TTT-TATGTAAATGGATGGCTTTTGCTTCATGTTT-CTCAATGCAGATATTCAGTCATAATATAT
1 TTTCT-TGTCAATGAATGGCTTTTGCTTCATGTTTCCT-GAGGTAGACATTCAATTATAATCTAT
* * * * **
3763 TTTAACTAAAAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTCTAAAACTATGTAAAAT
64 TTTAA-TAAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
* * *
3828 GAGTAATAATGCTTTCAAAGGTA-GAAGTGACTGTAAATGGACT
127 GAGTAATAAGGCTTTCGAAGGTATG-AGTGACTATAAATGGACT
* * * *
3871 TTTCTT-TCCAATGGATGGCTTTTGCTTCATGTTTCATAAGGCAGACATTCAATTATAATCTATT
1 TTTCTTGT-CAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATT
* *
3935 TTAATAAACAACATAGAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
65 TTAATAAA-AATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * * **
4000 AGTAATAAGGCTTTCGAAGGCATGTGCGACTATAAATACACT
128 AGTAATAAGGCTTTCGAAGGTATGAGTGACTATAAATGGACT
* * * * ** * * * * * *
4042 TTTCTTGCCATTGAATGACTTTTTCTTCACATTT-CTCAAGGTAAATATTTAAATATAATTTATT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCT-GAGGTAGACATTCAATTATAATCTATT
* * ** * * *
4106 TGAACCT-TAAATGTGAAAAAATTCAATTTAAAATCAATTATAAGATTATAAAATCATTTAAAGC
65 TTAA--TAAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
* * * * * * *
4170 AAGTAATAACGTTTTTGAAGGCT-TGAATGACTATGAATGCACT
127 GAGTAATAAGGCTTTCGAAGG-TATGAGTGACTATAAATGGACT
** * * * * * * *
4213 TTTC-TACCAACGGATGGCTTTTGCATC-TCGTTTCTTGAAGTAAACATTCAATTATAATATATT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCAT-GTTTCCTGAGGTAGACATTCAATTATAATCTATT
* * * *
4276 TTAATAAAAAATTTTTAAAAAAA-TGAACTTAAAATTAATTATAAGATTATAAAACCATTTAAAG
65 TTAAT-AAAAA---TAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* ** * * *
4340 TGAGTAATAATACTTTCGAAGGTATGGGTGACTAGAAATAGACT
126 CGAGTAATAAGGCTTTCGAAGGTATGAGTGACTATAAATGGACT
* * * *** * * * * *
4384 TTTCTTATCAATGAATAGCTTTTTCTTCACACTTCTTAAGGTAGAGATTCAAATATAATCTGTTT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATTT
* *** * * *
4449 TAACAAAATATGTTCAAAAATTCAACTTAAATTCAATTATGAGATTAGAAAACTATTTAAAGCGA
66 TAATAAAA-AT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
** * *
4514 GTAATAAGATTTTCCAATGCG-AT-AGTGACTATAAATAGACT
129 GTAATAAGGCTTTCGAA-G-GTATGAGTGACTATAAATGGACT
* * * * *
4555 TTTCTTGTCATTGAATGGCTTTTG-TATCATGTTTCCTGAAGCAAACATTCAATTATAATATATT
1 TTTCTTGTCAATGAATGGCTTTTGCT-TCATGTTTCCTGAGGTAGACATTCAATTATAATCTATT
* * * * * * *
4619 TTCATGAAGAATGCAAAAAAATTCAATTTAAAATCAATTATGACATTATAAAACCTTTTAAAGCA
65 TTAAT-AAAAAT-AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * *
4684 AGTAATAAGGCTTTCGAAGGCATGGGTGATTATAAATGGACT
128 AGTAATAAGGCTTTCGAAGGTATGAGTGACTATAAATGGACT
* * * * * * * ** * *
4726 TTTGTTGTCAATGTATGACTTTTTCTCCATATTTCTTGATTTAGACATTGAATTATAATCAATTT
1 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATTT
* * * * **
4791 TAACTAAAAATATAAACAAATTCAACTTAAAATCGATTATGACATTATAAAACCATTGAAAGTAA
66 TAA-TAAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* * *
4856 GTAATAATGCTTTTGAAGGCT-TAAGGTGACTATAAATGGACT
129 GTAATAAGGCTTTCGAAGG-TATGA-GTGACTATAAATGGACT
* * * *
4898 TTTCTCT-CCAATGGATGGCTTTTGCTTCACGTTTCCTGAGGCAGACAGTT-AATTATAATCTAT
1 TTTCT-TGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACA-TTCAATTATAATCTAT
* * * ** *
4961 TTCAATCAACAATATAAAAAAATTTAACTTAAAATCAATTATGAGCGTATAAAACCATTTAAAGT
64 TTTAAT-AAAAATA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC
* *
5026 GAGCAATAAGGCTTTCGAAGGCATGAGT
127 GAGTAATAAGGCTTTCGAAGGTATGAGT
5054 TGTTGATCTC
Statistics
Matches: 2161, Mismatches: 453, Indels: 206
0.77 0.16 0.07
Matches are distributed among these distances:
165 4 0.00
166 58 0.03
167 52 0.02
168 26 0.01
169 62 0.03
170 376 0.17
171 1202 0.56
172 316 0.15
173 17 0.01
174 34 0.02
175 13 0.01
176 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (169 bp):
TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCCTGAGGTAGACATTCAATTATAATCTATTT
TAATAAAAATAAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
AATAAGGCTTTCGAAGGTATGAGTGACTATAAATGGACT
Found at i:4021 original size:513 final size:507
Alignment explanation
Indices: 28--5053 Score: 3690
Period size: 513 Copynumber: 9.9 Consensus size: 507
18 CATAAAGCAT
* * *
28 ACATTCAATTATAATATATTTTAATT-AAAATGTAAAAACATTCAA-TATAAAATCAATCATGAG
1 ACATTCAATTATAATATATTTTAATTAAAAATCTAAAAA-ATTCAACT-TTAAATCAATTATGAG
* * * * * * *
91 ATTATAAAACTATTTAAAGCAAGTAATAGGGCTTTTGAAGGCTTGAGTAATTATAAATGGACTTT
64 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTGACTATAAATAGACTTT
* ** * * *
156 TCTTGTCAATGGATGGCTTTTGCTTCACATTTC-CTAAGGTAGACATTCAAAT-ATAATCTGTTT
129 TCTTGTCAATGAATGGCTTTTGCTTCATGTTTCTC-AAGGTAGATATTC--ATCATAATATATTT
* * * * *
219 T-AGTAAAAA-ATGTAAAAAA-T---C-TAGAAATCAATTATGAGATTAGAAAACCGTTTAAAGC
191 TAACTAAAAATAT-AAAAAAATTCAACTTA-AAATCAATTATGAGATTATAAAACCATTTAAAGT
* ** * * * *
277 GAGTAATAAGGCTTTCAAAAGTTTA-AGTGACTATCAATGGACTTTTCTTACTAATGGATAGCTT
254 GAGTAATAATGCTTTC-AAAGGCTAGAGTGACTATAAATGGACTTTTCTTTCCAATGGATGGCTT
** * * * * * *
341 TTGCTTCATGTTTTCTAAGATAGATATTCAAATATAATCTATTTTAGTGAAAAATGTAAAAACAT
318 TTGCTTCATG-TTTCTAAGGCAGACATTCAATTATAATATATTTTAAT-AAAAATATAAAAAAAT
* * **
406 TCAACTTAAAATCAATTATGAGTTTATAAAACCATTTAAAGCGAGTAATATGGCTTTCG-AGGGT
381 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * *
470 TAGAATGACTATAAATGGACTTTTCTTG-CAAAATGGATGGCTTTTGCTTCATGTTTCCCAAGGT
446 T-GAGTGACTATAAATAGACTTTTCTTGTC--AATGAATGGCTTTT-CTTCACGTTT-CCATGAT
*
534 TG
506 AG
* * ** * * *
536 ACATTCAAATAT-ATCTATTTTAACCAAAAATGTAAAAAATTCAACTTAAAATTAATTATGAGAT
1 ACATTCAATTATAATATATTTTAATTAAAAATCTAAAAAATTCAACTTTAAATCAATTATGAGAT
* * * * * **
600 TATAAAACGATTTAAAGTGAGTAATAAAGCTTTCGAAGGCATGGGTGACTATAAAGGGACTTTTC
66 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTGACTATAAATAGACTTTTC
* * * * * * * * * * *
665 TTGTAAATGATTGGCTTTTTG-TTCATATGTCTCAAGATAGACATTGGATTATATTCTGTTTTAA
131 TTGTCAATGAATGGC-TTTTGCTTCATGTTTCTCAAGGTAGATATT-CATCATAATATATTTTAA
* * * ***
729 CTAAAAATGTAAAACAATTCAACTTACAATCAATTATGAGATTATAAAACCATTTAAACCAAGTA
194 CTAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
* * * * * * *
794 ATAATGCTTTCGACGGCATA-AATGACTATAAACGGACTTTTCTTTCTAATCGATGGCTTTTGTT
259 ATAATGCTTTCAAAGGC-TAGAGTGACTATAAATGGACTTTTCTTTCCAATGGATGGCTTTTGCT
* * * * * * *
858 TTACGTTTCCTAAGGCAGACATTCAATTATAATCTGTTGT-ATCCAACAATATAAAAAAATTCAC
323 TCATGTTT-CTAAGGCAGACATTCAATTATAATATATTTTAAT--AAAAATATAAAAAAATTCAA
* * * * *
922 CTTAAAATCAATTATGAGACTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCTTGAC
385 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAG
* * *
987 TGACTATAAATAGAATTTT-TT-TACTAATGGATGGCTTTTGCTTCACGTTTCC-TGAGACAG
450 TGACTATAAATAGACTTTTCTTGT-C-AATGAATGGCTTTT-CTTCACGTTTCCAT--GATAG
* * * * *
1047 ACATTCAAATATAATCTATTTTAATGAAAAATGTAAAAACATTCAACTTAAAAATCAATTATGAG
1 ACATTCAATTATAATATATTTTAATTAAAAATCTAAAAA-ATTCAACTT-TAAATCAATTATGAG
* * * * * **
1112 TTTTATAAAACTATTTAAA-CTGATTAATATA-GCTTTTGAGGGCTAAAGTGACTATAAATATGA
64 -ATTATAAAACCATTTAAAGC-GAGTAATA-AGGCTTTCGAAGGCTTGAGTGACTATAAATA-GA
* ** * *
1175 ATTTTC-T-T-AATAGAATGGCTTTTGCTATCATGTTTCTTGAGGTCGACA-T--TCA-AATATA
125 CTTTTCTTGTCAAT-GAATGGCTTTTGCT-TCATGTTTCTCAAGGTAGATATTCATCATAATATA
* * *
1233 --TTAACCAAAATAAATAAAAAAATTCAACTTAAAATCAGTTATGAGATTATAAAACCATTTAAA
188 TTTTAACTAAAA-ATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* * * * * *
1296 GTGAGTAATTAGGCTTTTAAAGGC-ATGAGTGACTATAAAGGGACTTTCCTTGT-AAAT-GATTG
252 GTGAGTAATAATGCTTTCAAAGGCTA-GAGTGACTATAAATGGACTTTTCTT-TCCAATGGA-TG
* * * * * * *
1358 ACTTTT-CGTTCATGTGTCTCAAGAG-AGACATTGAATTATATTCTGTTTTAATTAAAAATGTAA
314 GCTTTTGC-TTCATGTTTCT-AAG-GCAGACATTCAATTATAATATATTTTAA-TAAAAATATAA
* * * *
1421 AAAAATTCAACTTAAAATCAATCATGAGATTATAAAATCATTTAAAGCAAGTAATAATGCTTTCG
375 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCG
* * * * * * *
1486 ACGGCATAAATGACTATAAATGGACTTTTCTT-TCTAATCG-ATGGCTTTGCTTCATGTTT-CTT
440 AAGGCATGAGTGACTATAAATAGACTTTTCTTGTC-AAT-GAATGGCTTTTCTTCACGTTTCCAT
*
1548 GAGGTGG
503 GA--TAG
* * * * ** * * * *
1555 ACATTTAATTATAATCTATTGT-ATCCAACGATATAAAAAAATTCACCTTAAAATTAATTATGAG
1 ACATTCAATTATAATATATTTTAAT-TAAAAATCT-AAAAAATTCAACTTTAAATCAATTATGAG
* * * * * *
1619 ACTATAAAACCATTTAAAGCGAGTAAGAAGACTTTTGAAGGCTTGGGTGACTATAAATGGACTTT
64 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTGACTATAAATAGACTTT
* * * * * * * * * * * *
1684 TTTTGCCAATGAATGGCTTTT-TTTGCACGTTTTTTAAGGCAAACATTCAATTACAATATGTTTT
129 TCTTGTCAATGAATGGCTTTTGCTT-CATGTTTCTCAAGGTAGATATTC-ATCATAATATATTTT
* * * *
1748 AAC-AAAAATGTAAAAAAATTTAACTTAAACTCAATTATGAGATTATAAAACCATTTAAAGGGAG
192 AACTAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAG
* * * * * * *
1812 TAATAA-GGTATTCAAAGGCTTGAGTGATTACAAATAGACTTTTCTTGCCAATGGATGACTTTTG
257 TAATAATGCT-TTCAAAGGCTAGAGTGACTATAAATGGACTTTTCTTTCCAATGGATGGCTTTTG
* * * *
1876 CTTCATGTTTCTCGAGGCAAACATTCAATTATGATATATGTTAATCAAAAATATAAAAAAAATT-
321 CTTCATGTTTCT-AAGGCAGACATTCAATTATAATATATTTTAAT-AAAAATAT-AAAAAAATTC
* * * * * *
1940 AACTTAAAATTAATTATGAAATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTCGGAGACA-G
383 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATG
** * * * * * * * *
2004 AGGTGACTATCGATGGACTTTTCTTGCCAATGAATGACTTTTTCTTTACGTTTCTTAAGGTAA
448 A-GTGACTATAAATAGACTTTTCTTGTCAATGAATGGC-TTTTCTTCACGTTTC-CATGATAG
* * * ** * * * *
2067 ACATTCAAATATTATCTGCTTTAATCAAAAATCTAAATAAATTTAACTTAAAATCAATTATGATA
1 ACATTCAATTATAATATATTTTAATTAAAAATCTAAA-AAATTCAACTTTAAATCAATTATGAGA
** * *
2132 TTATATTACCATTTAAAGCAAGTAATAAGACCTTT------CTT--GT--C----AAT--A----
65 TTATAAAACCATTTAAAGCGAGTAATAAG-GCTTTCGAAGGCTTGAGTGACTATAAATAGACTTT
* ** * * * * *
2177 ----G---ATG-AT---TTTTGCTTCATGTTTTTTGAGGTAAACATTCAATTATAATCTATTTTT
129 TCTTGTCAATGAATGGCTTTTGCTTCATGTTTCTCAAGGTAGATATTC-ATCATAATATATTTTA
* * * * *
2231 ACATAAACAAAATGTGAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGC
193 AC-T--A-AAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT
* * * * **
2296 GAGTAATAAGGCATTCAAAGGCTTGAGTGAATATAAATGGACTTTTCTTGT-CAAT-GAAAGCTT
254 GAGTAATAATGCTTTCAAAGGCTAGAGTGACTATAAATGGACTTTTCTT-TCCAATGGATGGCTT
* * * * * *
2359 TTGCTTCATATTTCTAGAAGCAGACTTTAAATTATAATATATTTCAATCAAAAATATAAAAAAGT
318 TTGCTTCATGTTTCTA-AGGCAGACATTCAATTATAATATATTTTAAT-AAAAATATAAAAAAAT
* * *
2424 TCAACTTACAATTAATTATGAGATTATAAAACCATTTTAAA-TGAGTAATAAGGCTTTCGAAGGC
381 TCAACTTAAAATCAATTATGAGATTATAAAACCA-TTTAAAGCGAGTAATAAGGCTTTCGAAGGC
* * * * * * * * *
2488 TTGAGTGACTATAAATTGACATTACTTGCCAAT-AGATGGCTTTTGCATCAGGTTTCTA-GAAGC
445 ATGAGTGACTATAAATAGACTTTTCTTGTCAATGA-ATGGCTTTT-CTTCACGTTTCCATG-A-T
2551 AG
506 AG
* * * * * *
2553 ACATTTAATTATAATATATTTTAATAAAAAAAT-AAAAAAATTCAACTTAAAATTAATTATGATA
1 ACATTCAATTATAATATATTTTAAT-TAAAAATCTAAAAAATTCAACTTTAAATCAATTATGAGA
* * * * *
2617 TTATAAAACCATTTAAGGC-ACATAATAAGGCTTTCAAAGGCGT-AGGTGACTAT-AATAAACTT
65 TTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTCGAAGGCTTGA-GTGACTATAAATAGACTT
* * * * * * * * * *
2679 TTTTTGCCAATGAATGACTTTTTG-TTCAGGTTTC-CTAAGGCAGATAATCAACTATTATCTGTT
128 TTCTTGTCAATGAATGGC-TTTTGCTTCATGTTTCTC-AAGGTAGATATTCATC-ATAATATATT
* * * * * *
2742 TTAACTAAAAATGTAAAAACATCCAACTTAAAATTAAATATGACATTATAAAACCATTTAAAGTG
190 TTAACTAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTG
* * * *
2807 AGTAATAACGTTTTCGAAA-GCTTGAGTGACTATAAATGGACTTTTCTTGCCAATAGG-TGGCTT
255 AGTAATAATGCTTTC-AAAGGCTAGAGTGACTATAAATGGACTTTTCTTTCCAAT-GGATGGCTT
* * * *
2870 TTGCTTCATGTTTCTCAAGGTAGACATTTAATTATAATATATTTTAATCAAAATGTAAAAAAATT
318 TTGCTTCATGTTTCT-AAGGCAGACATTCAATTATAATATATTTTAATAAAAATATAAAAAAATT
* * * * *
2935 CAACTT---A-CAATCATGAGATTATAAAACTC-TTTAAAGTGAGTAATAACGCTTTTGAAGGTA
382 CAACTTAAAATCAATTATGAGATTATAAAAC-CATTTAAAGCGAGTAATAAGGCTTTCGAAGGCA
* * * * * ** *
2995 TGAGTGACTATAAATGGACTTTTTTTTTTCAATGGATGGCCTTTACTTCACGTTTACTTTGGTAG
446 TGAGTGACTATAAATAGAC-TTTTCTTGTCAATGAATGG-CTTTTCTTCACGTTT-CCATGATAG
* * * * *
3060 ACATTCAATTATAATCTGTTTTAAATAACAATATAAAAAAATTCAAC-TTAATATCAATTATGAG
1 ACATTCAATTATAATATATTTTAATTAAAAATCT-AAAAAATTCAACTTTAA-ATCAATTATGAG
* * * *
3124 ATTATAAAACTATTTAAAGAGAGTAATAAGGCTATCGAAGG-TAT-AGGTGACTATAAATGGACT
64 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCT-TGA-GTGACTATAAATAGACT
* * * * * *
3187 TTTCTTATCAATGAATGGCTTTCGTTTCATGTTTC-CTGAGGTAGATATTCAACTATAATCTATT
127 TTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCTC-AAGGTAGATATTCATC-ATAATATATT
* *
3251 TTAACTAAAAATGA-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTGAAAGC
190 TTAACTAAAAAT-ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT
* * * * * * * ** *
3315 GAGTAATAAGGCTGTCAAAGGCTTGAGTGACAACAAATAGATTTTTCTTGGCACTGGATGGCTTT
254 GAGTAATAATGCTTTCAAAGGCTAGAGTGACTATAAATGGACTTTTCTTTCCAATGGATGGCTTT
*** *
3380 TGCTTCATGTTTTCTAAAATAGACATTCAATTATAATATATTTTAATTAAAAGTATAAAAAAATT
319 TGCTTCATG-TTTCTAAGGCAGACATTCAATTATAATATATTTTAA-TAAAAATATAAAAAAATT
* ** * * * *
3445 CAACTTAAAATCAATTATGAGATTATAAAACTATTTAACTCAAGTGATAAGGATTTTGAAGGCAT
382 CAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCAT
* *
3510 GGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACGTTTTCTTCACGTTTCCCATGATAG
447 GAGTGACTATAAATAGACTTTTCTTGTCAATGAATGGC-TTTTCTTCACGTTT-CCATGATAG
* * * * * * *
3573 ACACTCAAATATAATCTATTTTAATTAAAAATCTAAACAATTCAACTTTAGATTATTTATGAGAT
1 ACATTCAATTATAATATATTTTAATTAAAAATCTAAAAAATTCAACTTTAAATCAATTATGAGAT
** ** * *
3638 TATAAGGCCATTTAAATG-GTTTAAATATGGCTTTCGAACGCTTGAGTGA-TAGTAAATAGACTT
66 TATAAAACCATTTAAA-GCGAGT-AATAAGGCTTTCGAAGGCTTGAGTGACTA-TAAATAGACTT
* * * *
3701 TT-TATGTAAATGGATGGCTTTTGCTTCATGTTTCTCAATGCAGATATTCAGTCATAATATATTT
128 TTCT-TGTCAATGAATGGCTTTTGCTTCATGTTTCTCAAGGTAGATATTCA-TCATAATATATTT
* * * * *
3765 TAACTAAAAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTCTAAAACTATGTAAAATGA
191 TAACTAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA
*
3830 GTAATAATGCTTTCAAAGG-TAGAAGTGACTGTAAATGGACTTTTCTTTCCAATGGATGGCTTTT
256 GTAATAATGCTTTCAAAGGCTAG-AGTGACTATAAATGGACTTTTCTTTCCAATGGATGGCTTTT
* * *
3894 GCTTCATGTTTCATAAGGCAGACATTCAATTATAATCTATTTTAATAAACAACATAGAAAAATTC
320 GCTTCATGTTTC-TAAGGCAGACATTCAATTATAATATATTTTAATAAA-AATATAAAAAAATTC
3959 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATG
383 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATG
* * * * * * * * * *
4024 TGCGACTATAAATACACTTTTCTTGCCATTGAATGACTTTTTCTTCACATTTCTCAAGGTAA
448 AGTGACTATAAATAGACTTTTCTTGTCAATGAATGGC-TTTTCTTCACGTTTC-CATGATAG
* * * * * * *
4086 ATATTTAAATATAATTTATTTGAACCTT--AAATGTGAAAAAATTCAA-TTTAAAATCAATTATA
1 ACATTCAATTATAATATATTTTAA--TTAAAAATCT-AAAAAATTCAACTTT-AAATCAATTATG
* * * * * * *
4148 AGATTATAAAATCATTTAAAGCAAGTAATAACGTTTTTGAAGGCTTGAATGACTATGAAT-GCAC
62 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTGACTATAAATAG-AC
** * * * * * * *
4212 TTTTC-TACCAACGGATGGCTTTTGCATC-TCGTTTCTTGAA-GTAAACATTCAATTATAATATA
126 TTTTCTTGTCAATGAATGGCTTTTGCTTCAT-GTTTC-TCAAGGTAGATATTC-ATCATAATATA
* * * *
4274 TTTTAA-TAAAAAATTTTTAAAAAAA-TGAACTTAAAATTAATTATAAGATTATAAAACCATTTA
188 TTTTAACT-AAAAA--TATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
* * * * * *
4337 AAGTGAGTAATAATACTTTCGAAGG-TATGGGTGACTAGAAATAGACTTTTCTTAT-CAATGAAT
250 AAGTGAGTAATAATGCTTTCAAAGGCTA-GAGTGACTATAAATGGACTTTTCTT-TCCAATGGAT
* * *** * * * * * * * **
4400 AGCTTTTTCTTCACACTTCTTAAGGTAGAGATTCAAATATAATCTGTTTTAACAAAATATGTTCA
313 GGCTTTTGCTTCATGTTTC-TAAGGCAGACATTCAATTATAATATATTTTAATAAAA-ATATAAA
* * * ** *
4465 AAAATTCAACTTAAATTCAATTATGAGATTAGAAAACTATTTAAAGCGAGTAATAAGATTTTCCA
376 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGA
* * * *
4530 ATGCGAT-AGTGACTATAAATAGACTTTTCTTGTCATTGAATGGCTTTTGTATCATGTTTCC-TG
441 AGGC-ATGAGTGACTATAAATAGACTTTTCTTGTCAATGAATGGCTTTTCT-TCACGTTTCCATG
4593 A-AG
504 ATAG
* * * *
4596 CAAACATTCAATTATAATATATTTTCATGAAGAATGCAAAAAAATTCAA-TTTAAAATCAATTAT
1 ---ACATTCAATTATAATATATTTTAATTAAAAAT-CTAAAAAATTCAACTTT-AAATCAATTAT
* * * * * * *
4660 GACATTATAAAACCTTTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGATTATAAATGGAC
61 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTGACTATAAATAGAC
* * * * * * ** ** * * *
4725 TTTTGTTGTCAATGTATGACTTTTTCTCCATATTTCTTGATTTAGACATTGAATTATAATCA-AT
126 TTTTCTTGTCAATGAATGGCTTTTGCTTCATGTTTCTCAAGGTAGATATT-CATCATAAT-ATAT
* * * *
4789 TTTAACTAAAAATATAAACAAATTCAACTTAAAATCGATTATGACATTATAAAACCATTGAAAGT
189 TTTAACTAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT
* ** *
4854 AAGTAATAATGCTTTTGAAGGCTTA-AGGTGACTATAAATGGACTTTTCTCTCCAATGGATGGCT
254 GAGTAATAATGCTTTCAAAGGC-TAGA-GTGACTATAAATGGACTTTTCTTTCCAATGGATGGCT
* * * * *
4918 TTTGCTTCACGTTTCCTGAGGCAGACAGTT-AATTATAATCTATTTCAATCAACAATATAAAAAA
317 TTTGCTTCATGTTT-CTAAGGCAGACA-TTCAATTATAATATATTTTAAT-AAAAATATAAAAAA
* ** * *
4982 ATTTAACTTAAAATCAATTATGAGCGTATAAAACCATTTAAAGTGAGCAATAAGGCTTTCGAAGG
379 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGG
5047 CATGAGT
444 CATGAGT
5054 TGTTGATCTC
Statistics
Matches: 3624, Mismatches: 680, Indels: 422
0.77 0.14 0.09
Matches are distributed among these distances:
482 39 0.01
483 2 0.00
484 6 0.00
485 65 0.02
486 163 0.04
487 111 0.03
488 1 0.00
489 1 0.00
490 2 0.00
492 2 0.00
494 1 0.00
497 4 0.00
499 4 0.00
503 1 0.00
505 16 0.00
506 125 0.03
507 211 0.06
508 182 0.05
509 431 0.12
510 164 0.05
511 326 0.09
512 442 0.12
513 898 0.25
514 341 0.09
515 78 0.02
516 8 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (507 bp):
ACATTCAATTATAATATATTTTAATTAAAAATCTAAAAAATTCAACTTTAAATCAATTATGAGAT
TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTGACTATAAATAGACTTTTC
TTGTCAATGAATGGCTTTTGCTTCATGTTTCTCAAGGTAGATATTCATCATAATATATTTTAACT
AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAT
AATGCTTTCAAAGGCTAGAGTGACTATAAATGGACTTTTCTTTCCAATGGATGGCTTTTGCTTCA
TGTTTCTAAGGCAGACATTCAATTATAATATATTTTAATAAAAATATAAAAAAATTCAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTA
TAAATAGACTTTTCTTGTCAATGAATGGCTTTTCTTCACGTTTCCATGATAG
Found at i:9528 original size:18 final size:19
Alignment explanation
Indices: 9489--9536 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
9479 NNNNNNNTTT
9489 AATATTATTTTATTCAAAA
1 AATATTATTTTATTCAAAA
*
9508 AATATTATTTTATT-TAAA
1 AATATTATTTTATTCAAAA
*
9526 AATATTCTTTT
1 AATATTATTTT
9537 TACCTATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATTTTATTCAAAA
Found at i:14921 original size:19 final size:19
Alignment explanation
Indices: 14885--14921 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14875 GACATAGAAT
**
14885 TAAAATAATATTTTTTTAA
1 TAAAATAATATTAGTTTAA
14904 TAAAATAATATTAGTTTA
1 TAAAATAATATTAGTTTA
14922 TTGACGATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TAAAATAATATTAGTTTAA
Found at i:15215 original size:13 final size:13
Alignment explanation
Indices: 15197--15221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15187 TAAGACACAA
15197 TTGAATTACATTG
1 TTGAATTACATTG
15210 TTGAATTACATT
1 TTGAATTACATT
15222 TGTGTGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
TTGAATTACATTG
Found at i:21727 original size:30 final size:30
Alignment explanation
Indices: 21669--21751 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
21659 GGGAGGATCT
* * *
21669 AATTGAAAAGAATAAGATGTTGAA-GGGTGG
1 AATTGAAAATAATAAAAAGTT-AAGGGGTGG
*
21699 AATTGCAAATAATAAAAAGTTAAGGGGTGG
1 AATTGAAAATAATAAAAAGTTAAGGGGTGG
* * *
21729 AGTTGAAAATTATCAAAAGTTAA
1 AATTGAAAATAATAAAAAGTTAA
21752 AGGATCAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 2 0.05
30 42 0.95
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.25
Consensus pattern (30 bp):
AATTGAAAATAATAAAAAGTTAAGGGGTGG
Found at i:24269 original size:25 final size:25
Alignment explanation
Indices: 24241--24288 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24231 ATACATGGTA
*
24241 AGGCCATGGGTTGATATACGTGGCT
1 AGGCCATGAGTTGATATACGTGGCT
* *
24266 AGGCTATGAGTTGATATGCGTGG
1 AGGCCATGAGTTGATATACGTGG
24289 TTGCGACCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.38, T:0.29
Consensus pattern (25 bp):
AGGCCATGAGTTGATATACGTGGCT
Found at i:28712 original size:16 final size:17
Alignment explanation
Indices: 28677--28718 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
28667 ATGATAGGTA
28677 AAAAAAATATTTTTAAAT
1 AAAAAAATATTTTT-AAT
*
28695 AAAATAATATTTTT-AT
1 AAAAAAATATTTTTAAT
28711 AAATAAAA
1 AAA-AAAA
28719 CATTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 13 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAAATATTTTTAAT
Found at i:28725 original size:20 final size:19
Alignment explanation
Indices: 28677--28725 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
28667 ATGATAGGTA
*
28677 AAAAAAATA-TTTTTAAAT
1 AAAACAATATTTTTTAAAT
*
28695 AAAATAATATTTTTATAAAT
1 AAAACAATATTTTT-TAAAT
*
28715 AAAACATTATT
1 AAAACAATATT
28726 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 14 0.54
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAACAATATTTTTTAAAT
Found at i:37076 original size:16 final size:17
Alignment explanation
Indices: 37041--37078 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
37031 ATTTACATCG
37041 CATTTCATCTTCACTTA
1 CATTTCATCTTCACTTA
37058 CATTTCAT-TTC-CTTTA
1 CATTTCATCTTCAC-TTA
37074 CATTT
1 CATTT
37079 TCCAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (17 bp):
CATTTCATCTTCACTTA
Found at i:41528 original size:52 final size:51
Alignment explanation
Indices: 41446--41549 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 51
41436 AATGCTAATG
* * *
41446 AGAGATTGTTAGTATGAGTCTTATAAGCCAATCTGTGGTTGTACAAGAATT
1 AGAGATTGTTAGTATGAGCCCTATAAGCCAATCTATGGTTGTACAAGAATT
*
41497 AGAGTATTGTTAGTATGAGCCCTATAAGCCAATCTATGGTTGTATAAGAATT
1 AGAG-ATTGTTAGTATGAGCCCTATAAGCCAATCTATGGTTGTACAAGAATT
41549 A
1 A
41550 CAATTCGAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 4 0.08
52 44 0.92
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (51 bp):
AGAGATTGTTAGTATGAGCCCTATAAGCCAATCTATGGTTGTACAAGAATT
Found at i:54513 original size:21 final size:20
Alignment explanation
Indices: 54489--54532 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
54479 ATAATTTAAG
54489 TTATTTTAG-TTTAATTTTACT
1 TTATTTT-GCTTTAA-TTTACT
54510 TTATTTTGCTTTAATTTACT
1 TTATTTTGCTTTAATTTACT
54530 TTA
1 TTA
54533 ATAATAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTTTGCTTTAATTTACT
Found at i:54515 original size:10 final size:10
Alignment explanation
Indices: 54489--54532 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
54479 ATAATTTAAG
*
54489 TTATTTTAGT
1 TTATTTTACT
54499 TTAATTTTACT
1 TT-ATTTTACT
*
54510 TTATTTTGCT
1 TTATTTTACT
*
54520 TTAATTTACT
1 TTATTTTACT
54530 TTA
1 TTA
54533 ATAATAGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.66
Consensus pattern (10 bp):
TTATTTTACT
Found at i:59265 original size:18 final size:19
Alignment explanation
Indices: 59242--59284 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
59232 AGGTAGAAAG
59242 AATATTTT-TGAATAAAAT
1 AATATTTTATGAATAAAAT
59260 AATATTTTATGAATAAAAT
1 AATATTTTATGAATAAAAT
59279 AATATT
1 AATATT
59285 AAAATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTTATGAATAAAAT
Found at i:68760 original size:68 final size:67
Alignment explanation
Indices: 68650--68803 Score: 184
Period size: 68 Copynumber: 2.3 Consensus size: 67
68640 GAATTGGGTG
* * *
68650 AATGTACCCATCTTTTCCCCTTTAGAGCCCAATATTACGGTAAGAATACCACAAGGTCTGGTTGG
1 AATGTACCCA-CTTTTCCCCGTTAGAGCCCAATATTAAGGTAAGAATACCACAAGGTCTAGTTGG
68715 GCA
65 GCA
* * * *
68718 AATGTACCCACATTTTCCCCGTTAGAG-CTAAGTGTTAAGGTAAGAATATCACATGGTCTAGTTG
1 AATGTACCCAC-TTTTCCCCGTTAGAGCCCAA-TATTAAGGTAAGAATACCACAAGGTCTAGTTG
**
68782 GGTG
64 GGCA
*
68786 AATGTACCCACCTTTCCC
1 AATGTACCCACTTTTCCC
68804 TTCCTAAAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
67 10 0.14
68 64 0.86
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (67 bp):
AATGTACCCACTTTTCCCCGTTAGAGCCCAATATTAAGGTAAGAATACCACAAGGTCTAGTTGGG
CA
Found at i:72528 original size:23 final size:23
Alignment explanation
Indices: 72484--72528 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
72474 TCAGAATTCA
* *
72484 TAAAAAATTCATTTTTATTTATT
1 TAAAAAATTCATTTTGACTTATT
72507 TAAAAAATT-ATTCTTGACTTAT
1 TAAAAAATTCATT-TTGACTTAT
72529 ATTCGACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAAAAATTCATTTTGACTTATT
Found at i:73534 original size:34 final size:34
Alignment explanation
Indices: 73491--73558 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
73481 TCTGATATAC
73491 TTATGACCCATGCCACT-GGGCTTAATTATGGTTT
1 TTATGACCCATGCCACTAGGG-TTAATTATGGTTT
*
73525 TTATGACCCATGCCACTAGGGTTAATTTTGGTTT
1 TTATGACCCATGCCACTAGGGTTAATTATGGTTT
73559 CTGTTATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (34 bp):
TTATGACCCATGCCACTAGGGTTAATTATGGTTT
Found at i:76782 original size:13 final size:13
Alignment explanation
Indices: 76764--76791 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76754 TGCATCACAA
76764 GTGCGACTTGGAT
1 GTGCGACTTGGAT
76777 GTGCGACTTGGAT
1 GTGCGACTTGGAT
76790 GT
1 GT
76792 ATGTTGATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.39, T:0.32
Consensus pattern (13 bp):
GTGCGACTTGGAT
Found at i:90272 original size:44 final size:44
Alignment explanation
Indices: 90222--90312 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
90212 AGGAAAAGAA
* *
90222 TATGCTTCTTATCAAATTGAGTGGGTACACCACTTTAAGTACTT
1 TATGCTTCTTATCAAAGTAAGTGGGTACACCACTTTAAGTACTT
* * * *
90266 TATGCTTCTTGTCAAGGTAAGTGGGTATACCACTTTAAGTGCTT
1 TATGCTTCTTATCAAAGTAAGTGGGTACACCACTTTAAGTACTT
90310 TAT
1 TAT
90313 ATGGTAAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (44 bp):
TATGCTTCTTATCAAAGTAAGTGGGTACACCACTTTAAGTACTT
Found at i:90971 original size:70 final size:69
Alignment explanation
Indices: 90897--91111 Score: 174
Period size: 68 Copynumber: 3.1 Consensus size: 69
90887 CAAAATGGGT
** *
90897 GAATGTACCCATTC-TTGTCCCTTTCTAATGCGTAGTGTAAGGGTAAGAATAGCAC-AGGATCTA
1 GAATGTACCCATTCTTTGTCCCTTTAGAAT-C-TAGTGTAAGGGTAAGAATACCACAAGG-TCTA
90960 GTT-GAGC
63 GTTAG-GC
* * * * **
90967 GAATGTATCCA-TCTTTTTCCCTTTAGAGTCTGGTGTGGGGGTAAGAATACCACAAGGTCTAGTT
1 GAATGTACCCATTCTTTGTCCCTTTAGAATCTAGTGTAAGGGTAAGAATACCACAAGGTCTAGTT
91031 AGGC
66 AGGC
* * * * * *
91035 GAATGTACCCA-TCACTT-CCCCTTTA-AAGCCTAGCGTGAGGGCAAGAATACCACAAGGTCTAG
1 GAATGTACCCATTC-TTTGTCCCTTTAGAA-TCTAGTGTAAGGGTAAGAATACCACAAGGTCTAG
*
91097 TTGGGC
64 TTAGGC
*
91103 AAATGTACC
1 GAATGTACC
91112 TACCTTTTCC
Statistics
Matches: 120, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
67 1 0.01
68 89 0.74
69 9 0.08
70 21 0.17
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (69 bp):
GAATGTACCCATTCTTTGTCCCTTTAGAATCTAGTGTAAGGGTAAGAATACCACAAGGTCTAGTT
AGGC
Found at i:91028 original size:68 final size:68
Alignment explanation
Indices: 90936--91111 Score: 203
Period size: 68 Copynumber: 2.6 Consensus size: 68
90926 GCGTAGTGTA
* * ** * * * *
90936 AGGGTAAGAATAGCAC-AGGATCTAGTTGAGCGAATGTATCCATCTTTTTCCCTTTAGAGTCTGG
1 AGGGTAAGAATACCACAAGG-TCTAGTTGAGCGAATGTACCCATCACTTCCCCTTTAAAGCCTAG
*
91000 TGTG
65 CGTG
*
91004 GGGGTAAGAATACCACAAGGTCTAGTT-AGGCGAATGTACCCATCACTTCCCCTTTAAAGCCTAG
1 AGGGTAAGAATACCACAAGGTCTAGTTGA-GCGAATGTACCCATCACTTCCCCTTTAAAGCCTAG
91068 CGTG
65 CGTG
* * *
91072 AGGGCAAGAATACCACAAGGTCTAGTTGGGCAAATGTACC
1 AGGGTAAGAATACCACAAGGTCTAGTTGAGCGAATGTACC
91112 TACCTTTTCC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
67 1 0.01
68 87 0.96
69 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (68 bp):
AGGGTAAGAATACCACAAGGTCTAGTTGAGCGAATGTACCCATCACTTCCCCTTTAAAGCCTAGC
GTG
Found at i:91149 original size:68 final size:67
Alignment explanation
Indices: 90937--91182 Score: 187
Period size: 68 Copynumber: 3.6 Consensus size: 67
90927 CGTAGTGTAA
* * * * ** * * ** *
90937 GGGTAAGAATAGCAC-AGGATCTAGTTGAGCGAATGTATCCATCTTTTTCCCTTTAGAGTCTGGT
1 GGGTAAGAATACCACAAGG-TCTAGTTGGGCAAATGTACCCATCACTTCCCCTTTAAAACCCGGT
91001 GTGG
65 GT-G
* * * ** *
91005 GGGTAAGAATACCACAAGGTCTAGTTAGGCGAATGTACCCATCACTTCCCCTTTAAAGCCTAGCG
1 GGGTAAGAATACCACAAGGTCTAGTTGGGCAAATGTACCCATCACTTCCCCTTTAAAACCCGGTG
91070 TG
66 TG
* * * *
91072 AGGGCAAGAATACCACAAGGTCTAGTTGGGCAAATGTACCTA-C-CTTTTCCTTTCCTAAAACCC
1 -GGGTAAGAATACCACAAGGTCTAGTTGGGCAAATGTACCCATCAC-TTCCCCTT--TAAAACCC
91135 GGTGTG
62 GGTGTG
* *
91141 GGGTAAGAATACCACAAAGT-TAGATTGGGTAAAT-TACCCATC
1 GGGTAAGAATACCACAAGGTCTAG-TTGGGCAAATGTACCCATC
91183 CTCCCTTTAT
Statistics
Matches: 146, Mismatches: 25, Indels: 14
0.79 0.14 0.08
Matches are distributed among these distances:
66 1 0.01
67 16 0.11
68 116 0.79
69 13 0.09
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (67 bp):
GGGTAAGAATACCACAAGGTCTAGTTGGGCAAATGTACCCATCACTTCCCCTTTAAAACCCGGTG
TG
Found at i:102951 original size:17 final size:16
Alignment explanation
Indices: 102925--102962 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
102915 AACATGTTGA
102925 CAAT-AAATATAAATT
1 CAATCAAATATAAATT
102940 CTAATCAAATATAAATT
1 C-AATCAAATATAAATT
102957 CAATCA
1 CAATCA
102963 TGTCACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 8 0.38
17 12 0.57
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (16 bp):
CAATCAAATATAAATT
Found at i:107156 original size:21 final size:22
Alignment explanation
Indices: 107132--107181 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
107122 TTTTCTTTTT
*
107132 CTTCTTTTCCCCCTTTCTC-TC
1 CTTCTTTTCCCCCTTTCCCTTC
* **
107153 CTTCCTTTCTTCCTTTCCCTTC
1 CTTCTTTTCCCCCTTTCCCTTC
107175 CTTCTTT
1 CTTCTTT
107182 CTTTTCTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (22 bp):
CTTCTTTTCCCCCTTTCCCTTC
Found at i:107182 original size:21 final size:21
Alignment explanation
Indices: 107143--107184 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
107133 TTCTTTTCCC
*
107143 CCTTTCTCTCCTTCCTTTCTT
1 CCTTTCCCTCCTTCCTTTCTT
107164 CCTTTCCCTTCCTT-CTTTCTT
1 CCTTTCCC-TCCTTCCTTTCTT
107185 TTCTTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (21 bp):
CCTTTCCCTCCTTCCTTTCTT
Found at i:108020 original size:35 final size:35
Alignment explanation
Indices: 107995--108243 Score: 279
Period size: 35 Copynumber: 7.1 Consensus size: 35
107985 TTAATTGTTT
* *
107995 AATTTAATCAATTATGCCCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAA
*
108030 AATTTAATCAATTAGGCCCAATAACTTGATTAAACA
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAA-A
* *
108066 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAA
* *
108101 AATTTAATCAATTAAGCCCAATAACTTGATTAAACA
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAA-A
* ****
108137 AATTTAATCAATTAGGCCCAATAATTTAATTGTTT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAA
* * * *
108172 AATTTAATCAATTAGACCCAATGACTTAATTACAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAA
* * * *
108207 AATTTAATGAATAAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAA
108239 AATTT
1 AATTT
108244 TAATTAAGTG
Statistics
Matches: 182, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
32 16 0.09
33 1 0.01
35 105 0.58
36 60 0.33
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAA
Found at i:108070 original size:71 final size:71
Alignment explanation
Indices: 107995--108243 Score: 328
Period size: 71 Copynumber: 3.6 Consensus size: 71
107985 TTAATTGTTT
*
107995 AATTTAATCAATTATGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
108060 TAAACA
66 TAAACA
* *
108066 AATTTAATTAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAAGCCCAATAACTTGAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
108131 TAAACA
66 TAAACA
* **** * * *
108137 AATTTAATCAATTAGGCCCAATAATTTAATTGTTTAATTTAATCAATTAGACCCAATGACTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
108202 T--ACA
66 TAAACA
* * *
108206 TAATTTAATGAATAAGG--C-ACAACTTAATTAAACAATTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTT
108244 TAATTAAGTG
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
67 14 0.09
68 1 0.01
69 3 0.02
70 14 0.09
71 124 0.79
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (71 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
TAAACA
Found at i:108176 original size:106 final size:107
Alignment explanation
Indices: 107995--108247 Score: 318
Period size: 106 Copynumber: 2.4 Consensus size: 107
107985 TTAATTGTTT
* *
107995 AATTTAATCAATTATGCCCAATAACTTAATTAAAC-AATTTAATCAATTAGGCCCAATAACTTGA
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAACAAATTTAATCAATTAGGCCCAATAACTTAA
* *
108059 TTAAACAAATTTAATTAATTAGGCCCAATAACTTAATTAAAC
66 TTAAACAAATTTAATCAATTAGACCCAATAACTTAATTAAAC
* *
108101 AATTTAATCAATTAAGCCCAATAACTTGATTAAACAAATTTAATCAATTAGGCCCAATAATTTAA
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAACAAATTTAATCAATTAGGCCCAATAACTTAA
**** * * *
108166 TT-GTTTAATTTAATCAATTAGACCCAATGACTTAATTACAT
66 TTAAACAAATTTAATCAATTAGACCCAATAACTTAATTAAAC
* * * *
108207 AATTTAATGAA-TAAG-GC-ACAACTTAATTAAACAATTTTAAT
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAACAAATTTAAT
108248 TAAGTGTTTG
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
103 21 0.16
104 1 0.01
105 4 0.03
106 73 0.57
107 29 0.23
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (107 bp):
AATTTAATCAATTAAGCCCAATAACTTAATTAAACAAATTTAATCAATTAGGCCCAATAACTTAA
TTAAACAAATTTAATCAATTAGACCCAATAACTTAATTAAAC
Found at i:112280 original size:76 final size:69
Alignment explanation
Indices: 112149--112296 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 69
112139 TGCTATCACA
** * *
112149 TAACTTTAGGAATTTCTTGTAAAGTAGGAAATTATTTCCTATGAATTTCCTAAATTAAAATACTA
1 TAACTTTAGGAATTTCTTGTAAAGTAGGAAACAATTTCCTATGAATATCCAAAATTAAAATACTA
112214 TCCT
66 TCCT
*
112218 TAACTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTTTTATGAATCATCCAAAATTAA
1 TAACTTTAGGAATTTCTTGTAAAGTAGGAAACAATTTCC------TATGAAT-ATCCAAAATTAA
*
112283 AATTCTATCCT
59 AATACTATCCT
112294 TAA
1 TAA
112297 NNNNNNNNNN
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
69 36 0.55
75 7 0.11
76 23 0.35
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (69 bp):
TAACTTTAGGAATTTCTTGTAAAGTAGGAAACAATTTCCTATGAATATCCAAAATTAAAATACTA
TCCT
Found at i:118670 original size:21 final size:20
Alignment explanation
Indices: 118640--118697 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
118630 TTTTTCCTCC
*
118640 TTTCTCCCTTTCTCTCCTTCA
1 TTTCTTCCTTTCTCTCCTT-A
* *
118661 TTTCTTCCTTTCCCTTCCTTT
1 TTTCTTCCTTTCTC-TCCTTA
118682 TTTCTTCTCTTT-TCTC
1 TTTCTTC-CTTTCTCTC
118698 TTTCTCCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 2 0.06
21 20 0.65
22 9 0.29
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTCTTCCTTTCTCTCCTTA
Found at i:119543 original size:35 final size:35
Alignment explanation
Indices: 119518--119877 Score: 347
Period size: 35 Copynumber: 10.3 Consensus size: 35
119508 TTAATTTTTT
* *
119518 AATTTAATCAATTAGACCTAATAACTTAATTAAAC
1 AATTTAATCAATTAGACCCAATAACTTAATTAAAA
* * *
119553 AATTTAATCAATTAGGCCTAATAACTTGATTAAACA
1 AATTTAATCAATTAGACCCAATAACTTAATTAAA-A
* * * ****
119589 AATTAAATTAATTAGTCCCAATAACTTAATTGTTT
1 AATTTAATCAATTAGACCCAATAACTTAATTAAAA
* *
119624 AATTTAATCAATGAGGCCCAATAACTTAATTAAAA
1 AATTTAATCAATTAGACCCAATAACTTAATTAAAA
* *
119659 AATTTAATCAATTAGGCCCAATAACTTGATTAAACA
1 AATTTAATCAATTAGACCCAATAACTTAATTAAA-A
* *
119695 AATTTAATCAATTAGACCCAATAACTTGATTAAAC
1 AATTTAATCAATTAGACCCAATAACTTAATTAAAA
* *
119730 AATTTAATGAATTA-AGCCCAATAACTTGATTAAATA
1 AATTTAATCAATTAGA-CCCAATAACTTAATTAAA-A
* **
119766 AATTTAATCAATTAGGCCCAATAAC-TAATGT--TT
1 AATTTAATCAATTAGACCCAATAACTTAAT-TAAAA
* * *
119799 AATTTAATCAATTAGACCCAATGACTTAATTACAT
1 AATTTAATCAATTAGACCCAATAACTTAATTAAAA
* * *
119834 AATTTAATGAATTAG--GC-ACAACTTAATTAAACA
1 AATTTAATCAATTAGACCCAATAACTTAATTAAA-A
*
119867 ATTTTAATCAA
1 AATTTAATCAA
119878 GTGCTTGAGA
Statistics
Matches: 273, Mismatches: 42, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
32 11 0.04
33 34 0.12
34 5 0.02
35 140 0.51
36 83 0.30
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (35 bp):
AATTTAATCAATTAGACCCAATAACTTAATTAAAA
Found at i:119612 original size:71 final size:70
Alignment explanation
Indices: 119518--119877 Score: 362
Period size: 71 Copynumber: 5.2 Consensus size: 70
119508 TTAATTTTTT
* *
119518 AATTTAATCAATTAGACCTAATAACTTAATTAAACAATTTAATCAATTAGGCCTAATAACTTGAT
1 AATTTAATCAATTAG-CCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
119583 TAAACA
65 TAAACA
* * **** * *
119589 AATTAAATTAATTAGTCCCAATAACTTAATTGTTTAATTTAATCAATGAGGCCCAATAACTTAAT
1 AATTTAATCAATTAG-CCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
119654 TAAA-A
65 TAAACA
* *
119659 AATTTAATCAATTAGGCCCAATAACTTGATTAAACAAATTTAATCAATTAGACCCAATAACTTGA
1 AATTTAATCAATTA-GCCCAATAACTTAATTAAAC-AATTTAATCAATTAGGCCCAATAACTTGA
119724 TTAAAC-
64 TTAAACA
* * *
119730 AATTTAATGAATTAAGCCCAATAACTTGATTAAATAAATTTAATCAATTAGGCCCAATAACTAAT
1 AATTTAATCAATT-AGCCCAATAACTTAATTAAA-CAATTTAATCAATTAGGCCCAATAACT--T
*
119795 G-TT----T
62 GATTAAACA
* * * * * *
119799 AATTTAATCAATTAGACCCAATGACTTAATTACATAATTTAATGAATTAGG--C-ACAACTTAAT
1 AATTTAATCAATTAG-CCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGAT
119861 TAAACA
65 TAAACA
*
119867 ATTTTAATCAA
1 AATTTAATCAA
119878 GTGCTTGAGA
Statistics
Matches: 241, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
63 1 0.00
64 2 0.01
65 5 0.02
66 1 0.00
68 27 0.11
69 27 0.11
70 27 0.11
71 146 0.61
72 3 0.01
73 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (70 bp):
AATTTAATCAATTAGCCCAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATT
AAACA
Found at i:119619 original size:106 final size:106
Alignment explanation
Indices: 119498--119877 Score: 418
Period size: 106 Copynumber: 3.6 Consensus size: 106
119488 CCTTTAGAAG
* * *
119498 CCCAATTAACTTAATTTTTTAATTTAATCAATTAGACCTAATAACTTAATTAAACAATTTAATCA
1 CCCAA-TAACTTAATTATTTAATTTAATCAATTAGACCCAATAACTTAATTAAAAAATTTAATCA
* * *
119563 ATTAGGCCTAATAACTTGATTAAACAAATTAAATTAATTAGT
65 ATTAGGCCCAATAACTTGATTAAACAAATTAAATCAATTAGA
* * *
119605 CCCAATAACTTAATTGTTTAATTTAATCAATGAGGCCCAATAACTTAATTAAAAAATTTAATCAA
1 CCCAATAACTTAATTATTTAATTTAATCAATTAGACCCAATAACTTAATTAAAAAATTTAATCAA
*
119670 TTAGGCCCAATAACTTGATTAAACAAATTTAATCAATTAGA
66 TTAGGCCCAATAACTTGATTAAACAAATTAAATCAATTAGA
* *** * *
119711 CCCAATAACTTGATTAAACAATTTAATGAATTA-AGCCCAATAACTTGATTAAATAAATTTAATC
1 CCCAATAACTTAATTATTTAATTTAATCAATTAGA-CCCAATAACTTAATTAAA-AAATTTAATC
* *
119775 AATTAGGCCCAATAACTAATG-TT----TAATTTAATCAATTAGA
64 AATTAGGCCCAATAACT--TGATTAAACAAATTAAATCAATTAGA
* ** * * * *
119815 CCCAATGACTTAATTACATAATTTAATGAATTAG--GC-ACAACTTAATTAAACAATTTTAATCA
1 CCCAATAACTTAATTATTTAATTTAATCAATTAGACCCAATAACTTAATTAAA-AAATTTAATCA
119877 A
65 A
119878 GTGCTTGAGA
Statistics
Matches: 240, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
101 23 0.10
102 1 0.00
104 45 0.19
106 135 0.56
107 32 0.13
108 2 0.01
109 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (106 bp):
CCCAATAACTTAATTATTTAATTTAATCAATTAGACCCAATAACTTAATTAAAAAATTTAATCAA
TTAGGCCCAATAACTTGATTAAACAAATTAAATCAATTAGA
Found at i:138357 original size:171 final size:170
Alignment explanation
Indices: 137889--139511 Score: 1086
Period size: 171 Copynumber: 9.5 Consensus size: 170
137879 ACACTTTAAA
* * * * * *
137889 TGGTTAATACAGATTATAATTGAATGTCTACCTCGGGAAACTTGACGAAAAAGCCATTCCA-TGG
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAAGAAAAAACCATT-CATTAG
* * * * * **
137953 T-AA-AAAAGTACATTTATAGTTACTCATGCCTTT-GAAAGCTTAATTACCCAG-TTTAAATAAT
65 TCAAGAAAAGTCCATTTATAGTTACCCAAG--TTTCAAAAGCTT-ATTACTC-GCTTTAAATGGT
* *
138014 TTTATAATCTCATAATTGATTTTACGTTGAATTTTTGTACATTTT
126 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
** * * * * *** *
138059 TTATTAAAA-AAATTATAATTGAATGTCTACCTCAAGAAAAGTAAAGTCCAAGCCATTCATT-GT
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAAGAAAAAACCATTCATTAGT
* * * *
138122 CAAGAAAAGTCCATTTATAGTTACGCATGCCTTCAAAAGCCTAATTACTCGCTTTAAATGGTTTT
66 CAAGAAAAGTCCATTTATAGTTACCCAAG-TTTCAAAAG-CTTATTACTCGCTTTAAATGGTTTT
* *
138187 ATAATCTCATAATTGATTTTAGGTAGAATTTTTTTATATTTT
129 ATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
* * ** *
138229 TGGTTAAAACAGATTATAATTGCATGCCCGCCTTAGGAAACGTGAAGAAAAAACCATTCATTAG-
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAAGAAAAAACCATTCATTAGT
* * * * * *
138293 CAGGAAAAG-CTCATTTACA-TTCACCCAAGTCTTCAAAAGCCTTTTTACTCGCATGAATTGGTT
66 CAAGAAAAGTC-CATTTATAGTT-ACCCAAGT-TTCAAAAG-CTTATTACTCGCTTTAAATGGTT
*
138356 TTATAATCTCATAATTGATTTTAGGTTGAATTGTTTTACATTTT
127 TTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
** * * * *
138400 TTATTAAAACAAATTATAATTGAATGTTTAGCTCAGGAAACGTGAAGAAAAAACTATTCATTAGT
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAAGAAAAAACCATTCATTAGT
* * * * *
138465 C-AGAAAGGTCCATTTATAG-TCCCCATACTTTTAAAAGCTTTATTACTCGCTTTAAA--GATTT
66 CAAGAAAAGTCCATTTATAGTTACCCA-AGTTTCAAAAGC-TTATTACTCGCTTTAAATGGTTTT
*
138526 A-AATCTCATAATTGATTTTAGGTTGAATTTTTTTATATTTT
129 ATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
* ** * * * *
138567 TAGTTAAAACAGATTATAATTGAATGTCTACCTTGGGAAA-GTTAAGGAAAAAGCCATTCAATGG
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAA-GAAAAAACCATTCATTAG
** * * * *
138631 T-AAGAAAAGTCCATTTATAGTTACGGATGTTATCGAAAGCTTAATTACTCGGTTTAAATGGTTG
65 TCAAGAAAAGTCCATTTATAGTTACCCAAGTT-TCAAAAGCTT-ATTACTCGCTTTAAATGGTTT
* * * *
138695 AATAATCTTATAATTAATTTTAGGTTGAATTTTTGTACATTTT
128 TATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
* * * * * * * * *
138738 TGGTTAAAACAGATTATGATTAAATGTTTACCTTAGGAAACATAAAGTAATAGCCATTCATT-GA
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAAGAAAAAACCATTCATTAG-
* * * * * ***
138802 T-ACA-AAAAGTCCATTTGTACTTACCCATGCCTTT-AAAAGCCTAATTACTCACTTTAAATANN
65 TCA-AGAAAAGTCCATTTATAGTTACCCAAG--TTTCAAAAG-CTTATTACTCGCTTTAAATGGT
******** * * *
138864 NNNNNNNNCTCATAATTAATTTTAAGTTGAATTTGTTTACA-TTT
126 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
* * * * * *
138908 TGGTTAAAACAGATTATAATTGATTGTCTTCCAT-AAGAAACATAAAGAAAAAGCCATTCATT-G
1 TGGTTAAAACAGATTATAATTGAATGTCTACC-TCAGGAAACGTGAAGAAAAAACCATTCATTAG
* * * * * * *
138971 GCAAGAAAAATACATTTCTA-TTAACCCAAGCCTTT-GAAAGCCTAATTACTCGCTTTAAATAGT
65 TCAAGAAAAGTCCATTTATAGTT-ACCCAAG--TTTCAAAAG-CTTATTACTCGCTTTAAATGGT
* * * *
139034 TTTATAATCTCATAATTGATTTTTGGTTAAAGTTTTTTACATATTA
126 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACAT-TTT
* ** * * *
139080 T-GTTAAAATAGATTATAATT-AAGTGTCTACCTTTGAAAACATGAA-AAAAAAGCTATTCATT-
1 TGGTTAAAACAGATTATAATTGAA-TGTCTACCTCAGGAAACGTGAAGAAAAAA-CCATTCATTA
* * * * * * ***************
139141 GGCAAGAAAAGTCCATTTATAGTCACCTATGGCTTCAAAAGCCTAATTACNNNNNNNNNNNNNNN
64 GTCAAGAAAAGTCCATTTATAGTTACCCA-AGTTTCAAAAG-CTTATTACTCGCTTTAAATGGTT
*
139206 NTATAATC-CAATAATTGATTTTAGGTTGAATTTTTTTACATTTT
127 TTATAATCTC-ATAATTGATTTTAGGTTGAATTTTTTTACATTTT
* * * * *
139250 TGGTTAAAACAGATTATACTTGAATGTCTACAT-TGAGAAACATGAAGAAAAACCCATTCATTAG
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAG-GAAACGTGAAGAAAAAACCATTCATTAG
* * * * ** *
139314 T-GAGAAAAGTCCGTTTATAGTCACCCTAGCCTTT-AAAAGCCTTATTACTCGAATTAAATGATT
65 TCAAGAAAAGTCCATTTATAGTTACCCAAG--TTTCAAAAG-CTTATTACTCGCTTTAAATGGTT
* * * * * *
139377 TTGTAATCCCATAATTGATTTTAGCTTGAGTTTCTTTATATTTT
127 TTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
** * * * * * *
139421 TTATTAAAACAGATTATAATTGAATGTTTGCC-CTGAGAAATGTAAAGAAAAAGCCATTCATT-G
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTCAG-GAAACGTGAAGAAAAAACCATTCATTAG
* * * *
139484 ACAAAAAAAGTCTATTTATAGTCACCCA
65 TCAAGAAAAGTCCATTTATAGTTACCCA
139512 TTGATAACTC
Statistics
Matches: 1142, Mismatches: 258, Indels: 105
0.76 0.17 0.07
Matches are distributed among these distances:
166 4 0.00
167 107 0.09
168 32 0.03
169 49 0.04
170 274 0.24
171 648 0.57
172 26 0.02
173 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.36
Consensus pattern (170 bp):
TGGTTAAAACAGATTATAATTGAATGTCTACCTCAGGAAACGTGAAGAAAAAACCATTCATTAGT
CAAGAAAAGTCCATTTATAGTTACCCAAGTTTCAAAAGCTTATTACTCGCTTTAAATGGTTTTAT
AATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTT
Found at i:138512 original size:341 final size:339
Alignment explanation
Indices: 137889--139512 Score: 1311
Period size: 341 Copynumber: 4.8 Consensus size: 339
137879 ACACTTTAAA
* ** * * *
137889 TGGTTAATACAGATTATAATTGAATGTCTACCTCGGGAAACTTGACGAAAAAGCCATTCCA-TGG
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATGAAGAAAAAGCCATT-CATTAG
* * * * * ** **
137953 TAA-AAAAGTACATTTATAGTT-ACTCATGCCTTTGAAAG-CTTAATTAC-C-CAGTTTAAATAA
65 CAAGAAAAGTCCATTTACA-TTCACCCAAGCCTTCAAAAGCCTT-ATTACTCGCA--TTAAATGG
* *
138013 TTTTATAATCTCATAATTGATTTTACGTTGAATTTTTGTACATTTTTTATTAAAA-AAATTATAA
126 TTTTATAATCTCATAATTGATTTTAGGTTGAATTTTT-TACATTTTTTATTAAAACAGATTATAA
* * *** *
138077 TTGAATGTCTACCTCAAGAAA-AGTAAAGTCCAAGCCATTCATTGTCAAGAAAAGTCCATTTATA
190 TTGAATGTTTACCTCAGGAAACA-TAAAGAAAAAACCATTCATTGTCAAGAAAAGTCCATTTATA
* *
138141 GTTACGCATGCCTTCAAAAGCCTAATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
254 G-TACCCATGCCTTCAAAAGCCTAATTACTCGCTTTAAAT-GATTTATAATCTCATAATTGATTT
* *
138206 TAGGTAGAATTTTTTTATATTTT
317 TAGGTTGAATTTTTTTACATTTT
* * ** * *
138229 TGGTTAAAACAGATTATAATTGCATGCCCGCCTTAGGAAACGTGAAGAAAAAACCATTCATTAGC
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATGAAGAAAAAGCCATTCATTAGC
* * * * *
138294 AGGAAAAG-CTCATTTACATTCACCCAAGTCTTCAAAAGCCTTTTTACTCGCATGAATTGGTTTT
66 AAGAAAAGTC-CATTTACATTCACCCAAGCCTTCAAAAGCCTTATTACTCGCATTAAATGGTTTT
*
138358 ATAATCTCATAATTGATTTTAGGTTGAATTGTTTTACATTTTTTATTAAAACAAATTATAATTGA
130 ATAATCTCATAATTGATTTTAGGTTGAATT-TTTTACATTTTTTATTAAAACAGATTATAATTGA
* * * * * *
138423 ATGTTTAGCTCAGGAAACGTGAAGAAAAAACTATTCATTAGTC-AGAAAGGTCCATTTATAGTCC
194 ATGTTTACCTCAGGAAACATAAAGAAAAAACCATTCATT-GTCAAGAAAAGTCCATTTATAGTAC
* * * * *
138487 CCATACTTTTAAAAGCTTTATTACTCGCTTTAAA-GATTTA-AATCTCATAATTGATTTTAGGTT
258 CCATGCCTTCAAAAGCCTAATTACTCGCTTTAAATGATTTATAATCTCATAATTGATTTTAGGTT
*
138550 GAATTTTTTTATATTTT
323 GAATTTTTTTACATTTT
* * * * * *
138567 TAGTTAAAACAGATTATAATTGAATGTCTACCTTGGGAAA-GTTAAGGAAAAAGCCATTCAATGG
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATGAA-GAAAAAGCCATTCATTAG
* * ** * * * **
138631 TAAGAAAAGTCCATTTATAGTT-ACGGATG-TTATCGAAAG-CTTAATTACTCGGTTTAAATGGT
65 CAAGAAAAGTCCATTTACA-TTCACCCAAGCCT-TCAAAAGCCTT-ATTACTCGCATTAAATGGT
** * * ** *
138693 TGAATAATCTTATAATTAATTTTAGGTTGAATTTTTGTACATTTTTGGTTAAAACAGATTATGAT
127 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTT-TACATTTTTTATTAAAACAGATTATAAT
* * * * * *
138758 TAAATGTTTACCTTAGGAAACATAAAGTAATAGCCATTCATTGAT-ACA-AAAAGTCCATTTGTA
191 TGAATGTTTACCTCAGGAAACATAAAGAAAAAACCATTCATTG-TCA-AGAAAAGTCCATTTATA
* * * ******** *
138821 CTTACCCATGCCTTTAAAAGCCTAATTACTCACTTTAAAT-ANNNNNNNNNNCTCATAATTAATT
254 -GTACCCATGCCTTCAAAAGCCTAATTACTCGCTTTAAATGA--TTTATAATCTCATAATTGATT
* *
138885 TTAAGTTGAATTTGTTTACA-TTT
316 TTAGGTTGAATTTTTTTACATTTT
* * * * * *
138908 TGGTTAAAACAGATTATAATTGATTGTCTTCCATAAGAAACATAAAGAAAAAGCCATTCATTGGC
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATGAAGAAAAAGCCATTCATTAGC
* * * ** * * *
138973 AAGAAAAATACATTT-CTATTAACCCAAGCCTTTGAAAGCCTAATTACTCGCTTTAAATAGTTTT
66 AAGAAAAGTCCATTTAC-ATTCACCCAAGCCTTCAAAAGCCTTATTACTCGCATTAAATGGTTTT
* * * * * *
139037 ATAATCTCATAATTGATTTTTGGTTAAAGTTTTTTACATATTATGTTAAAATAGATTATAATT-A
130 ATAATCTCATAATTGATTTTAGGTTGAA-TTTTTTACATTTTTTATTAAAACAGATTATAATTGA
* ** * * * *
139101 AGTGTCTACCTTTGAAAACATGAAA-AAAAAGCTATTCATTGGCAAGAAAAGTCCATTTATAGTC
194 A-TGTTTACCTCAGGAAACAT-AAAGAAAAAACCATTCATTGTCAAGAAAAGTCCATTTATAGT-
* * ***************
139165 ACCTATGGCTTCAAAAGCCTAATTACNNNNNNNNNNNNNNNNTATAATC-CAATAATTGATTTTA
256 ACCCATGCCTTCAAAAGCCTAATTAC-TCGCTTTAAATGATTTATAATCTC-ATAATTGATTTTA
139229 GGTTGAATTTTTTTACATTTT
319 GGTTGAATTTTTTTACATTTT
* * *
139250 TGGTTAAAACAGATTATACTTGAATGTCTACATT-GAGAAACATGAAGAAAAACCCATTCATTAG
1 TGGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATGAAGAAAAAGCCATTCATTAG
** * * * * * * *
139314 TGAGAAAAGTCCGTTTATAGTCACCCTAGCCTTTAAAAGCCTTATTACTCGAATTAAATGATTTT
65 CAAGAAAAGTCCATTTACATTCACCCAAGCCTTCAAAAGCCTTATTACTCGCATTAAATGGTTTT
* * * * *
139379 GTAATCCCATAATTGATTTTAGCTTGAGTTTCTTTATATTTTTTATTAAAACAGATTATAATTGA
130 ATAATCTCATAATTGATTTTAGGTTGAATTT-TTTACATTTTTTATTAAAACAGATTATAATTGA
* * ** * * * *
139444 ATGTTTGCC-CTGAGAAATGTAAAGAAAAAGCCATTCATTGACAAAAAAAGTCTATTTATAGTCA
194 ATGTTTACCTCAG-GAAACATAAAGAAAAAACCATTCATTGTCAAGAAAAGTCCATTTATAGT-A
139508 CCCAT
257 CCCAT
139513 TGATAACTCT
Statistics
Matches: 1021, Mismatches: 217, Indels: 90
0.77 0.16 0.07
Matches are distributed among these distances:
337 12 0.01
338 226 0.22
339 43 0.04
340 60 0.06
341 361 0.35
342 312 0.31
343 7 0.01
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.36
Consensus pattern (339 bp):
TGGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATGAAGAAAAAGCCATTCATTAGC
AAGAAAAGTCCATTTACATTCACCCAAGCCTTCAAAAGCCTTATTACTCGCATTAAATGGTTTTA
TAATCTCATAATTGATTTTAGGTTGAATTTTTTACATTTTTTATTAAAACAGATTATAATTGAAT
GTTTACCTCAGGAAACATAAAGAAAAAACCATTCATTGTCAAGAAAAGTCCATTTATAGTACCCA
TGCCTTCAAAAGCCTAATTACTCGCTTTAAATGATTTATAATCTCATAATTGATTTTAGGTTGAA
TTTTTTTACATTTT
Found at i:140422 original size:170 final size:170
Alignment explanation
Indices: 140059--144241 Score: 3420
Period size: 171 Copynumber: 24.4 Consensus size: 170
140049 NNNNNNNNNN
* * *
140059 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTGTACATTTTTGGTTAAAACATATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTT-TACATTTTTTGTTAAAACAGATTATAAT
* * * * *
140124 TGAATGTCTACC-TCAGGAAATAT-AAAGTAAAAGCCATTTATTGGTAAGAAAAGTCCATTTATA
65 TGAATGTCTACCTTGA-GAAATCTGAAA-AAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* * * *
140187 CTTCCCCATGCCTCCAAAAG-CTTAATTACTCGCTTTAAATAGT
128 GTTACCCATGCCTTCAAAAGCCTT-ATTACTCGCTTTAAATGGT
* *
140230 TTTATAATCTCATAATTGATTTTAAGTTGAATTTATTTACATTTTTTGTTAAAATAGATTATTAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTTACATTTTTTGTTAAAACAGATTATAAT
* * * * *
140295 TAAATGTCTACCTTGGGAAATCT-AAAAAAAAGCCATTCATTAGCAAGTAAAGTTCATTTATAGT
65 TGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGT
* * *
140359 TACCCATTCCTTCAAAAGCCTAATTACTCGCTTTAAATAGT
130 TACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * *
140400 TTTATAATCTCGTAAATGATTTT-GGATAGAATGTTTTTA-A-ATTTTGCTTAAAACAGATTATA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAAT-TTTTTACATTTTTTG-TTAAAACAGATTATA
** * * * * *
140462 ATTGAATGTCTACCTCAAGAAATATGAAGAAAAAGTCATTCATTAGCAAGAAAGGTCCATTTATA
63 ATTGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* * * ** * ** *
140527 GTCACCAACGCCTTTGAAAGCCTTGTTACTCAATTTAAATAGT
128 GTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * **
140570 TTTATAATCTCATAATTGATTTTAAGATT-AATGTTTTTATACTTTTCATTAAAACAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAAT-TTTTTACATTTTTTGTTAAAACAGATTATAA
* * * * * ** *
140634 TTGAATGCCTACATTGAGAAATGTGAAGAAACAGCCATTCATTGATAAGGAAAGTCCATTTATAG
64 TTGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAG
* * * * *
140699 TCACTCATGCCTTTAATAA-CCTAATTACTCACTTTAAATGGT
129 TTACCCATGCCTTCAA-AAGCCTTATTACTCGCTTTAAATGGT
* * *
140741 TTTATAATCTCATAATTGATTTTAGGTTGAATTGTTTATA-TTTTTGATTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTG-TTAAAACAGATTATAAT
* ** * *
140805 TGAATGTCTACCTTGAGAAATATGAGGAAAAAGCCATTCATTGGTAAGAAAAGTCCATGTATA-T
65 TGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGT
** * * * * * *
140869 TAACTTAAGCCTTCGAAAGCTTTCTTACGCACTTTAAATGGT
130 T-ACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * *
140911 TTTATAATCTCATAATTGATTTT-AGCTTAAATTTTTTTACATTTTTTATTAACACAAATTATAA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAA
* * * * *
140975 TTGAATATCTGCCTT-AGGAAA-CAT-AAAGAAAAAGGC-TATCGTTGGTAAGAAAAGTCCATTT
64 TTGAATGTCTACCTTGA-GAAATC-TGAAA-AAAAAGCCAT-TCATTGGCAAGAAAAGTCCATTT
* * *
141036 ATAGTCACCCATGCCTTTGAAAA-CCTTATTACTCGCGTTAAATGGT
125 ATAGTTACCCATGCC-TTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * *
141082 TTTATAATTTGATAATTGATTTTAAGTTAAATTGTTTTACATTTTCTGTGT-AAACATATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATT-TTTTACATTTTTTGT-TAAAACAGATTATAA
* *
141146 TTGAATGTCTACCTTGAGAAA-CTTGAAGAAAAAGCCATTCATTGGCAAGAAAAGACCATTTATA
64 TTGAATGTCTACCTTGAGAAATC-TGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* *
141210 GTAACCCATGCCTTTGAAAA-CCTTATTACTCGCTTTAAATGGT
128 GTTACCCATGCC-TTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * * * *
141253 TTTATAATCTGATAATTGATTTTCACTTGAAATATTTT-CCTTTTTTGTTCAAACAGTTTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTG-AATTTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * * * * * *
141317 TGAATGTCTGCCTAGAGAAACCTAAAAAAAAAAGTCATTCATTGGTAAGTAAAGTCTATTTATAG
65 TGAATGTCTACCTTGAGAAATCT-GAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAG
* * * * *
141382 TTACCAATACCTTCAAAAGCCTAATTACTCACTTTATATGGT
129 TTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* *** * *
141424 TTTATAATCTCATAATTGATTTTAAGTTTAATATTTTTTTGTTTTTTGTTAAAATAGATTAAAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * * *
141489 TGAATG-CTTGCCTTGA-AAAACATGAAAAAAAAAGTCC-TTGATTGGAAAGAAAAGTCTATTTA
65 TGAATGTC-TACCTTGAGAAATC-TG-AAAAAAAAG-CCATTCATTGGCAAGAAAAGTCCATTTA
** * * * *
141551 TAGCAACCCAAGCCTTCGAAAGCCTTAATACGCGCTTTAAATGGT
126 TAGTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * ** * * * *
141596 TTTATAATCTCATAAATGATTTTAAGTTAAATTTTTTTGTATTTTTGGTGAAAATAGATTATAAC
1 TTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAAT
* * ***
141661 TGAATGTCTACCTTGGGAAA-CATGAAAAAAAAGGC-TATCATTCATAAGAAAAG-CCTATTTAT
65 TGAATGTCTACCTTGAGAAATC-TGAAAAAAAAGCCAT-TCATTGGCAAGAAAAGTCC-ATTTAT
* * * ** * * *
141723 AGTCACCCATACCTTTAAAAGCCAAATTACCCAC-TTAAATAGT
127 AGTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
** ** * *
141766 TTTATAATCTCATAATTGATTTTTGGTTGAACTGCTTTATATTTTTAGTTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * * * * *
141831 TAAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAG-AAAGTCCATTTATAGC
65 TGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGT
* ** * * * *
141895 AACAAAAGCCTTCGAAAGCCTTATTACACGCTTTAAATAGT
130 TACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * * * * *
141936 TTTGTAATCTCATAATTGATTTGAGGTAGAGTTTCTTTACA-TTATTGATTAACATAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTTACATTTTTTG-TTAAAACAGATTATAA
* ** * * * *
142000 TTGAATGTATACCTT-AGGAAA-CATGAAGTAAAAG-GATATAATT-GTAAGAAAAGTCTATTTA
64 TTGAATGTCTACCTTGA-GAAATC-TGAAAAAAAAGCCAT-TCATTGGCAAGAAAAGTCCATTTA
* * * * * * * *
142061 TAGTCACTCATACCTTTAAAAGCTTTCTTGCTCGCTTTAAATAGT
126 TAGTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * *
142106 TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTAAATTTTTAG-TGAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * * * *
142170 TGAATGTCTATCTT-AGGATATGTGAAGAAAAAGGC-TATCATTAGCAAGAAAAGTCCATTTATA
65 TGAATGTCTACCTTGA-GAAATCTGAAAAAAAAGCCAT-TCATTGGCAAGAAAAGTCCATTTATA
** * *
142233 G-T-CTCCATGCCTTTGAAAGCATTATTACTCGCTTTAAATAGT
128 GTTAC-CCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * **
142275 TTTATAATCTAATAATTGATTTTAAGTTGAATTTCTTACA-TTTTT-TTAAAATGGATTATAATT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTGTTAAAACAGATTATAATT
* * * * *
142338 GAATGTTTACCTTGAGAAATCTGAAGAAAAAA-CAATTCATTAGCAAGAAAAGTCTATTTATAGC
66 GAATGTCTACCTTGAGAAATCTGAA-AAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGT
* * * * * *
142402 TATCCATGCCTTCGAAAGCCTAATTACTAGCTTTTAATGAT
130 TACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * *
142443 TTTATCATCTCATAATTAATTTCAAGTTGAATTTTTTTACATTTTTTGTTAAAATAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAAT
** * * * *
142508 CAAATGTCCACCTTGAGAAA-CAT-AAAGATAAATCCATTCAATGGCAAGAAAAGTCCATTTATA
65 TGAATGTCTACCTTGAGAAATC-TGAAA-AAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* * ** * * *
142571 GTGACCCATGGCTTTGAAAGCCTAATAACTCGCTTTAAATTG-
128 GTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* *
142613 TTTATAATCTCATAATTGATTTTAAGTTGAATTCTTTTACA-TTTTTGATGAAAACAGATTGTAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATT-TTTTACATTTTTTG-TTAAAACAGATTATAA
* * * * * * * * * *
142677 TTGAATATTTAACTCGAGAAATGTGAACAGAAGGCTA-TCATTGGCAAGAAAAGTCCATTTGTA-
64 TTGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAG
* ** *
142740 TT-CGTCCATACCTTTGAAAGCCTTATTACTCGCTTTAAATGAT
129 TTAC--CCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * * * *
142783 TTTATAATCTCGTAATTCATTGTAAGTTTAATTTTTTTATATTTTTTGTTTAAACAGATTTTAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * * * * *
142848 TAAATGTCTGCC-TCAGAAAACGTGAAGAAAAAGTCATTCATTGGCAAGAAAAGTTCATTTATAG
65 TGAATGTCTACCTTGAGAAATC-TGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAG
* ** * *
142912 TCACCCATGCCTTTGAAAGTCTTATTGCTCGCTTTAAATGGT
129 TTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * *
142954 TTTAAAATCTAATAATTGATTTTAAGTTGAATTTTTTTTCCTTTTTTGTTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * *
143019 TGAATGTCTACTTTAAGAAATC-CAAAGAAAAAGCCATTCATTGGCAAGTAAAGTCCATTTATAG
65 TGAATGTCTACCTTGAGAAATCTGAAA-AAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAG
* * *
143083 TTACCCATGCCTTCAATAGCCTAATTACTCACTTTAAATGGT
129 TTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* ** * * * *
143125 TTTATTATCTCATAATTGATTTTGTGTTTAATGTTTATACATTTTTTGTTAAAATAGATTAAAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTACATTTTTTGTTAAAACAGATTATAAT
* * * * * * *
143190 TGAATGCCTACCTT-AGAAAACATGATAAACAAAGCCATTGATTGGAAAGAAAATTCCATTTCTA
65 TGAATGTCTACCTTGAGAAATC-TGA-AAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* * * *
143254 GTTACCGAAGCCTTCGAAAGCCTTATTACTCGCTTTGAATGGT
128 GTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * *
143297 TTCATAATCTCATAATTGATTTTAGGTTGAATGTTTTTAAATTTTTTATGAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTACATTTTTTGTTAAAACAGATTATAAT
* * *
143362 TGAATGTCTGCCTT-AGGAAA-CATGAAAAAAAAGGCGTTCATTGGCAAGAAAAGTCCATTTATA
65 TGAATGTCTACCTTGA-GAAATC-TGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* *
143425 GTCACCCATGCCTTTAAAAGCCTTATTACTCGCTTTAAATGGT
128 GTTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * *
143468 TTTATAATCTGATAATTGATTTTAAGTTTAATTTGTTTACATTTTTTGTTAAAATAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTTACATTTTTTGTTAAAACAGATTATAAT
* * * * ** *** *
143533 TGAATATCTACCTAGAGAAATGTGAAGAAAAAGTTATTCATTATTAAGAAAAGTTATTCATTGGC
65 TGAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAG---TCCATT---
* * *** * * *
143598 AAGAAAAGTCTATTTATAGCAAC-CCAAGCCTTCGAAAGCCTTATTACACGTTTTAAATGGT
124 ---TATAGT-TACCCAT-GC--CTTC-A-------AAAGCCTTATTACTCGCTTTAAATGGT
* * * * * *
143659 TTTATAATCTGATCATTGATTTTAAGTTGAATTTTTTTCTTTTTTTGTTAAAACAGATTACAGTT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTGTTAAAACAGATTATAATT
* * * * * * * * * *
143724 TATTGTCTACC-TCAGGAAA-CGTGAAGAAAAGGTCATTTATTAGCAATAAAAATCCATTTATAG
66 GAATGTCTACCTTGA-GAAATC-TGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAG
* * **
143787 TTACCCATACTTTTGAAAGCCTTATTACTCGCTTTAAATGGT
129 TTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* *
143829 TTTATAATCTGATAATTGATTTTAAGTTGAATTTTTTTC-TTATTTTGTTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATT-TTTTGTTAAAACAGATTATAAT
* * * * * * * * * *
143893 TAAATATATACCTTG-GAAAACCCGAAGAAAGAA-CCATTTATTGGGAAGTAAAGTCTATTTATA
65 TGAATGTCTACCTTGAG-AAATCTGAA-AAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATA
* * * * *
143956 GTCACCCATGCCTTCGAAAG-CTTAATTACTAGGTTTGAATGGT
128 GTTACCCATGCCTTCAAAAGCCTT-ATTACTCGCTTTAAATGGT
* * * * * * * * *
143999 TTTATAATCTCATAATTCATTGTAGGTCGAATTTTTGTACATTTCTGGCTAAAACAAATTGTAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTT-TACATTTTTTGTTAAAACAGATTATAAT
* * * * * *
144064 TGAATGTCTATC-TCATGAAA-C-GTAAAGTAAAAGCTATTCGTTTGCAAGAAAAGTCCATTTAT
65 TGAATGTCTACCTTGA-GAAATCTG-AAA-AAAAAGCCATTCATTGGCAAGAAAAGTCCATTTAT
* ** *
144126 -GCTTACCCATGCCTTCAAAAGCCTAATTACTTTCTTTAAACGGT
127 AG-TTACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * ** * *
144170 TTTATAATCTCATAATTGATTTTAGGCTAAATGTTTTTACATTTTAGGTTAAAACATATTATTAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTACATTTTTTGTTAAAACAGATTATAAT
144235 TGAATGT
65 TGAATGT
144242 TTGCCTTAGG
Statistics
Matches: 3240, Mismatches: 635, Indels: 274
0.78 0.15 0.07
Matches are distributed among these distances:
167 64 0.02
168 80 0.02
169 279 0.09
170 1008 0.31
171 1290 0.40
172 356 0.11
173 13 0.00
174 5 0.00
179 1 0.00
180 8 0.00
181 7 0.00
182 2 0.00
184 2 0.00
187 5 0.00
189 1 0.00
190 62 0.02
191 57 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (170 bp):
TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTGTTAAAACAGATTATAATT
GAATGTCTACCTTGAGAAATCTGAAAAAAAAGCCATTCATTGGCAAGAAAAGTCCATTTATAGTT
ACCCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
Found at i:141948 original size:340 final size:343
Alignment explanation
Indices: 140059--152269 Score: 6401
Period size: 341 Copynumber: 35.5 Consensus size: 343
140049 NNNNNNNNNN
* * * *
140059 TTTATAATCTCATAATTGATTTTAGGTTGAATT-TTTGTACATTTTTGGTTAAAACATATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTT-TATATTTTTTGTTAAAACAGATTATAA
* * * * * * **
140123 TTGAATGTCTACC-TCAGGAAATATAAAGTAAAAGCCATTTATTGGTAAGAAAAGTCCATTTATA
65 TTGAATGTCTACCTTGA-AAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATA
** * * *
140187 -CTTCCCCATGCCTCCAAAAG-CTTAATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGAT
129 GC-AACCCATGCCTTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* * * * * *
140250 TTTAAGTTGAATTTATTTACATTTTTTGTTAAAATAGATTATTATTAAATGTCTACCTTGGGAAA
192 TTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAA
* * * * * * *
140315 TC-T-AAAAAAAA-GCCATTCATTAGCAAGTAAAGTTCATTTATAGTTACCCATTCCTTCAAAAG
257 -CATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAG
* *
140377 CCTAATTACTCGCTTTAAATAGT
321 CCTAATTACTCACTTTAAATGGT
* * * * **
140400 TTTATAATCTCGTAAATGATTTT-GGATAGAA-TGTTTT-TAAATTTTGCTTAAAACAGATTATA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAATTGTTTTATATTTTTTG-TTAAAACAGATTATA
* *
140462 ATTGAATGTCTACC-TCAAGAAATATGAAGAAAAAGTCATTCATT-AGCAAGAAAGGTCCATTTA
64 ATTGAATGTCTACCTTGAA-AAATATGAAGAAAAAGTCATTCATTGA-CAAGAAAAGTCCATTTA
* * * * ** *
140525 TAGTC-ACCAACGCCTTTGAAAGCCTTGTTACTCAATTTAAATAGTTTTATAATCTCATAATTGA
127 TAG-CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGA
* * * * * *
140589 TTTTAAGATT-AATGTTTTTATACTTTTCATTAAAACAGATTATAATTGAATGCCTACATTGAGA
191 TTTTAAG-TTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGA
** * * * ** * *
140653 AATGTGAAGAAACA-GCCATTCATTGATAAGGAAAGTCCATTTATAGTCACTCATGCCTTTAATA
255 AACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAA-A
140717 A-CCTAATTACTCACTTTAAATGGT
319 AGCCTAATTACTCACTTTAAATGGT
*
140741 TTTATAATCTCATAATTGATTTTAGGTTGAATTG-TTTATA-TTTTTGATTAAAACAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTG-TTAAAACAGATTATAA
* * * ** * *
140804 TTGAATGTCTACCTTGAGAAATATGAGGAAAAAGCCATTCATTGGTAAGAAAAGTCCATGTATAT
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
* ** * * * * *
140869 TAACTTAAGCCTTCGAAAGCTTTCTTACGCACTTTAAATGGTTTTATAATCTCATAATTGATTTT
130 CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* * * * *
140934 -AGCTTAAATTTTTTTACATTTTTTATTAACACAAATTATAATTGAATATCTGCCTT-AGGAAAC
195 AAG-TTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGA-GAAAC
* *
140997 AT-AAAGAAAAAGGCTA-TCGTTGGTAAGAAAAGTCCATTTATAGTCACCCATGCCTTTGAAAA-
258 ATGAAA-AAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTT-AAAAG
* * *
141059 CCTTATTACTCGCGTTAAATGGT
321 CCTAATTACTCACTTTAAATGGT
* * * * * *
141082 TTTATAATTTGATAATTGATTTTAAGTTAAATTGTTTTACATTTTCTGTGT-AAACATATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGT-TAAAACAGATTATAA
* * * *
141146 TTGAATGTCTACCTTGAGAAACT-TGAAGAAAAAGCCATTCATTGGCAAGAAAAGACCATTTATA
65 TTGAATGTCTACCTTGA-AAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATA
* * * *
141210 GTAACCCATGCCTTTGAAAACCTTATTACTCGCTTTAAATGGTTTTATAATCTGATAATTGATTT
129 GCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * * * * * * * * *
141275 TCACTTGAAATATTTT-CCTTTTTTGTTCAAACAGTTTATAATTGAATGTCTGCCTAGAGAAACC
194 TAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACA
* * * * * * * * *
141339 TAAAAAAAAAAG-TCATTCATTGGTAAGTAAAGTCTATTTATAGTTACCAATACCTTCAAAAGCC
259 TGAAAAAAAAGGCT-ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCC
*
141403 TAATTACTCACTTTATATGGT
323 TAATTACTCACTTTAAATGGT
* * * * *
141424 TTTATAATCTCATAATTGATTTTAAGTTTAATAT-TTTTTTGTTTTTTGTTAAAATAGATTAAAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAAT-TGTTTTATATTTTTTGTTAAAACAGATTATAA
* * * * * *
141488 TTGAATG-CTTGCCTTGAAAAACATGAAAAAAAAAGTCCTTGATTGGA-AAGAAAAGTCTATTTA
65 TTGAATGTC-TACCTTGAAAAATATG-AAGAAAAAGTCATTCATT-GACAAGAAAAGTCCATTTA
* * * *
141551 TAGCAACCCAAGCCTTCGAAAGCCTTAATACGCGCTTTAAATGGTTTTATAATCTCATAAATGAT
127 TAGCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* ** ** * * * *
141616 TTTAAGTTAAATTTTTTTGTATTTTTGGTGAAAATAGATTATAACTGAATGTCTACCTTGGGAAA
192 TTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAA
*** *
141681 CATGAAAAAAAAGGCTA-TCATTCATAAGAAAAG-CCTATTTATAGTCACCCATACCTTTAAAAG
257 CATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCC-ATTTATAGTCACCCATGCCTTTAAAAG
* * *
141744 CCAAATTACCCAC-TTAAATAGT
321 CCTAATTACTCACTTTAAATGGT
** * * *
141766 TTTATAATCTCATAATTGATTTTTGGTTGAACTGCTTTATATTTTTAGTTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
*
141831 TAAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAG-AAAGTCCATTTATAGC
66 TGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAGC
** * * * * *
141895 AACAAAAGCCTTCGAAAGCCTTATTACACGCTTTAAATAGTTTTGTAATCTCATAATTGATTTGA
131 AACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA
* * * * * * * * *
141960 GGTAGAGTTTCTTTACATTATTGATTAACATAGATTATAATTGAATGTATACCTT-AGGAAACAT
196 AGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGA-GAAACAT
** * * * * * * * *
142024 GAAGTAAAAGGATA-TAATT-GTAAGAAAAGTCTATTTATAGTCACTCATACCTTTAAAAGCTTT
260 GAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCCTA
* * * *
142087 CTTGCTCGCTTTAAATAGT
325 ATTACTCACTTTAAATGGT
* * * * *
142106 TTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTAAATTTTTAG-TGAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * * * *
142170 TGAATGTCTATCTT-AGGATATGTGAAGAAAAAGGC-TATCATT-AGCAAGAAAAGTCCATTTAT
66 TGAATGTCTACCTTGA-AAAATATGAAGAAAAAGTCAT-TCATTGA-CAAGAAAAGTCCATTTAT
* * * * *
142232 AGTC--TCCATGCCTTTGAAAGCATTATTACTCGCTTTAAATAGTTTTATAATCTAATAATTGAT
128 AG-CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* ** *
142295 TTTAAGTTGAA-TTTCTTACA-TTTTT-TTAAAATGGATTATAATTGAATGTTTACCTTGAGAAA
192 TTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAA
* * * * **
142357 TC-TGAAGAAAAAA--CAATTCATTAGCAAGAAAAGTCTATTTATAG-CTATCCATGCCTTCGAA
257 -CATGAA-AAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTC-ACCCATGCCTTTAAA
* *
142418 AGCCTAATTACT-AGCTTTTAATGAT
319 AGCCTAATTACTCA-CTTTAAATGGT
* * * * * *
142443 TTTATCATCTCATAATTAATTTCAAGTTGAATTTTTTTACATTTTTTGTTAAAATAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
** * * * * * * *
142508 CAAATGTCCACCTTGAGAAACATAAAGATAAA-TCCATTCAATGGCAAGAAAAGTCCATTTATAG
66 TGAATGTCTACCTTGAAAAATATGAAGAAAAAGT-CATTCATTGACAAGAAAAGTCCATTTATAG
** * * * * *
142572 TGACCCATGGCTTTGAAAGCCTAATAACTCGCTTTAAATTG-TTTATAATCTCATAATTGATTTT
130 CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* * * * * * * * **
142636 AAGTTGAATTCTTTTACATTTTTGATGAAAACAGATTGTAATTGAATATTTAACTCGAGAAATGT
195 AAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACAT
* * * * ** * * *
142701 G-AACAGAAGGCTA-TCATTGGCAAGAAAAGTCCATTTGTATTCGTCCATACCTTTGAAAGCCTT
260 GAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCCTA
* *
142764 ATTACTCGCTTTAAATGAT
325 ATTACTCACTTTAAATGGT
* * * * * * *
142783 TTTATAATCTCGTAATTCATTGTAAGTTTAATTTTTTTATATTTTTTGTTTAAACAGATTTTAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * * ** * *
142848 TAAATGTCTGCC-TCAGAAAACGTGAAGAAAAAGTCATTCATTGGCAAGAAAAGTTCATTTATAG
66 TGAATGTCTACCTTGA-AAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
* * * * *
142912 TC-ACCCATGCCTTTGAAAGTCTTATTGCTCGCTTTAAATGGTTTTAAAATCTAATAATTGATTT
130 -CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * * *
142976 TAAGTTGAATTTTTTTTCCTTTTTTGTTAAAACAGATTATAATTGAATGTCTACTTTAAGAAATC
194 TAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAA--
* * * * * *
143041 CA--AAGAAAAA-GCCATTCATTGGCAAGTAAAGTCCATTTATAGTTACCCATGCCTTCAATAGC
257 CATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGC
143103 CTAATTACTCACTTTAAATGGT
322 CTAATTACTCACTTTAAATGGT
* ** * * * *
143125 TTTATTATCTCATAATTGATTTTGTGTTTAA-TGTTTATACATTTTTTGTTAAAATAGATTAAAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTT-TATATTTTTTGTTAAAACAGATTATAA
* * * * *
143189 TTGAATGCCTACCTTAGAAAACATGAT-AA-ACAAAGCCATTGATTGGA-AAGAAAATTCCATTT
65 TTGAATGTCTACCTT-GAAAA-AT-ATGAAGAAAAAGTCATTCATT-GACAAGAAAAGTCCATTT
* ** * * * *
143251 CTAGTTACCGAAGCCTTCGAAAGCCTTATTACTCGCTTTGAATGGTTTCATAATCTCATAATTGA
126 ATAGCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGA
* * * * *
143316 TTTTAGGTTGAATGTTTTTAAATTTTTTATGAAAACAGATTATAATTGAATGTCTGCCTT-AGGA
191 TTTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGA-GA
*
143380 AACATGAAAAAAAAGGC-GTTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAA
255 AACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAA
* *
143444 GCCTTATTACTCGCTTTAAATGGT
320 GCCTAATTACTCACTTTAAATGGT
* * * *
143468 TTTATAATCTGATAATTGATTTTAAGTTTAATT-TGTTTACATTTTTTGTTAAAATAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGT-TTTATATTTTTTGTTAAAACAGATTATAA
* * * * *
143532 TTGAATATCTACCTAGAGAAATGTGAAGAAAAAGTTATTCATTATTAAGAAAAGTTATTCATTGG
65 TTGAATGTCTACC--------T-T---GAAAAA--TA-TGA--A--GA-AAAAGTCATTCATTGA
* * * *
143597 CAAGAAAAGTCTATTTATAGCAACCCAAGCCTTCGAAAGCCTTATTACACGTTTTAAATGGTTTT
110 CAAGAAAAGTCCATTTATAGCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * * * *
143662 ATAATCTGATCATTGATTTTAAGTTGAATTTTTTT-CTTTTTTTGTTAAAACAGATTACAGTTTA
175 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGA
* * * * * * * *
143726 TTGTCTACC-TCAGGAAACGTG-AAGAAAAGG-TCATTTATTAGCAATAAAAATCCATTTATAGT
240 ATGTCTACCTTGA-GAAACATGAAAAAAAAGGCT-ATTCATTGGCAAGAAAAGTCCATTTATAGT
* * * * * *
143788 TACCCATACTTTTGAAAGCCTTATTACTCGCTTTAAATGGT
303 CACCCATGCCTTTAAAAGCCTAATTACTCACTTTAAATGGT
* *
143829 TTTATAATCTGATAATTGATTTTAAGTTGAATT-TTTT-TCTTATTTTGTTAAAACAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATT-TTTTGTTAAAACAGATTATAA
* * * * *** * * ** * *
143892 TTAAATATATACCTTGGAAAACCCGAAGAAAGAA-CCATTTATTGGGAAGTAAAGTCTATTTATA
65 TTGAATGTCTACCTTGAAAAATATGAAGAAA-AAGTCATTCATTGACAAGAAAAGTCCATTTATA
* * * *
143956 GTC-ACCCATGCCTTCGAAAG-CTTAATTACTAGGTTTGAATGGTTTTATAATCTCATAATTCAT
129 G-CAACCCATGCCTTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* * * * * *** * * * *
144019 TGTAGGTCGAATTTTTGTACATTTCTGGCTAAAACAAATTGTAATTGAATGTCTATC-TCATGAA
192 TTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGA-GAA
* * * * * *
144083 ACGT-AAAGTAAAA-GCTATTCGTTTGCAAGAAAAGTCCATTTAT-GCTTACCCATGCCTTCAAA
256 ACATGAAA-AAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAG-TCACCCATGCCTTTAAA
** *
144145 AGCCTAATTACTTTCTTTAAACGGT
319 AGCCTAATTACTCACTTTAAATGGT
* * * * ** * *
144170 TTTATAATCTCATAATTGATTTTAGGCT-AAATGTTTTTACATTTTAGGTTAAAACATATTATTA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTG-TTTTATATTTTTTGTTAAAACAGATTATAA
* * * ** * * * * *** * *
144234 TTGAATGTTTGCCTT-AGGAAACGTGAAGAAAATACCTTATT-ACTCAC-TCTACA-T-GATTTT
65 TTGAATGTCTACCTTGA-AAAATATGAAGAAAA-A-GTCATTCATTGACAAGAAAAGTCCA-TTT
* ** ** ** * ** * * * **
144294 ATA--ATCTGAT-AATT-GATTTTAAG---TAGAATTTTC-TTACAT-TTTTTCTTAA-AACA-A
126 ATAGCAACCCATGCCTTCGA----AAGCCTTATTACTCGCTTTAAATGGTTTT-ATAATCTCATA
* * *** ****** * * ** * *
144348 ATT-A---TAA-TTGAGTGTCTACCACAGGAAACATAAAGAAAAAGCCATTCATTGGTAAGAAAA
186 ATTGATTTTAAGTTGAAT-TTTTTTACATTTTTTAT-TA-AAACAG--ATT-A-TAAT-TG-AAT
* * * * * ***** ** * * *** **
144408 GTC--CTTTTATTGCCACCAACGCTTTTGAAAGTTTTATT-ACTCGCTTTCAATGGT---TTTAT
242 GTCTACCTTGA--G-AAAC-ATG-AAAAAAAAG-GCTATTCATTGGC-AAGAAAAGTCCATTTAT
* * ** * * * * *
144467 AATCTCATAATTTG-ATTT-TAAG-TTGAATT--T--CTTTACAT-TT
300 AGTCAC-CCA--TGCCTTTAAAAGCCT-AATTACTCACTTTAAATGGT
* * * * * * * **** *** *
144507 TTTGTTAGAACAAATTATAATTCAATGTCTACGTTAGGAAACATGAAGAAAAAGTCATTCAATGA
1 TTT-ATA-ATC---TCATAATT-GAT-TTTAAGTT--G--A-AT--TGTTTTA-T-ATTTTTTGT
* * * * * *
144572 TAAGAAAAGTCCATCTAGTCACCCAGGCTTTTAAAAGTCTAATTACTCGCTTTAAATAATTTTAT
50 TAA-AACAG---AT-TA-T-A---A-----TTGAATGTC----TA--C-CTTGAAA-AATATGA-
*** * ** * * ** * * *** *
144637 A-ATCTCA-TAATTCATT-TTAGGTTAAAATTTTTTATATTTTTAGTTAAAAGA-G-ATT--ATA
91 AGA-AAAAGTCATTCATTGACAAG--AAAA----GTCCATTTATAG-CAACCCATGCCTTCGA-A
* * ** *** * ** * **** **
144695 A--TTTAGTGT-CT-GCCTTGAGAAAAGTGAAGAAAAAGTCATTCATTAGCAAGAAAAG-TCCA-
147 AGCCTTA-T-TACTCG-CTTTA-AATGGT-TTTATAATCTCA-TAATT-G-ATTTTAAGTTGAAT
* ** ** * ** ** * * ** *
144754 -TTTATAGCA-ACTCAAGCCTTCGAAAGCCTTATTACGTGCTTTAAGTTGTTTTATAATCTGATA
204 TTTTTTA-CATTTTTTA---TT--AAA-ACAGATTA--TAATTGAA--TG-TCTA-CCT-TGAGA
** * *** ***** ** ** * * *** *
144817 ATTGATTTTCAGTTGAATTTTTTACCTTTTTTGTTAA-AACAG---A-TTATAATTCAATGTATA
255 A---A-CATGA-AAAAAAAGGCTA--TTCATTGGCAAGAAAAGTCCATTTAT-AGTC-ACCCATG
** *** * * *
144877 CC-TTAGGAAA-CCTAAAGAAAAAGCCTTTCATTGGCA
311 CCTTTA--AAAGCCTAATTACTCA--CTTTAAATGG-T
** * * * ** *
144913 AGTA-AAGTC-CATTTATAGTTACCCATACCTTCAAAAGCCTAATTAATCATTTTAAATGGCTTT
1 TTTATAA-TCTCA--TA-A-TT---GAT---TT--TAAG--T--TGAATTGTTTTATAT---TTT
* * ** * * * *
144976 ATTATCTCATAATTGATTTTAGGTTTAATGTTTGCACTCTTTTTGTTAAAACAGATTAAAATTGA
46 -TTGT-T-AAAACAGATTATA-ATTGAATGTCT--AC-C---TTG---AAA-A-A-T---A-TGA
* ** *
145041 ATGTCTACCTTGGAAAACGTAAAAAAAAACTATTGATTTTCAAGAAAAGTCCATTTCTAGTCAA-
91 A-G---A------AAAA-GT---------C-ATTCATTGACAAGAAAAGTCCATTTATAG-CAAC
* * * * * * * *
145105 TCAAGACTTCAAAAGGCTTATTACTCGCTTTGAATGGTTTTATAATCTCATAATTAATTTTAGGT
134 CCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGT
* ** * ** *
145170 TAAATTTTTTTA-ATTTTTTAGCGAAAACAAATTATAATTGAATGT-TTGCTTCAGCAAACAT-A
199 TGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAG-AAACATGA
* * * * * *
145232 AGGAAAAAGG-AATTCATTGGTAAAAAAAGTCCATTTATAGTCACCCATG-CTTTCAAAAACCTT
262 A-AAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTT-AAAAGCCTA
* *
145295 GTTACTCGCTTTAAAT-G-
325 ATTACTCACTTTAAATGGT
* * * *
145312 -----------ATAATTGATTTTTAGTTTAATTTTTTTACATTTTTT-TTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
** * * * *
145365 TGAATGTCTACCTTTG-AAAACCTGAAGAAAAAGCCATTCATTGGCAAGTGAAA-TCTATTTATA
66 TGAATGTCTACC-TTGAAAAATATGAAGAAAAAGTCATTCATTGACAAG-AAAAGTCCATTTATA
** * * * ** * *
145428 GTTACCCATGCCTTCAAAAGCCTAATTACTCACTTTAAATAATTTTATTACCTCATAATTGATTT
129 GCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * ** * * * * * *
145493 TAGGGTGAATGTTTGCACATTTTTTATTAAAACATATTAAAATTGATTGTCTGCCTTAAAAAACA
194 TAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACA
** * * * ** *
145558 TGAAAAAAAAATC-ATTGATTGGCAAGAAAAGTCCATTTTTAGTCACCCAAGCCTTCGAAATCCT
259 TGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCCT
* ** *
145622 TATTACTTGCTTTGAATGGT
324 AATTACTCACTTTAAATGGT
* * * * * * * *
145642 TTTACAATCTCATAATTGATTTTAGGTT-AAATGTTCTAAAATTTTTGGTAAAAACAGATTGTAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTT-TTATATTTTTTGTTAAAACAGATTATAA
* * * * * * ** * *
145706 TTGATTGTTTACCCTGAGAAATGTAAAGAAAAAACCATTCGTT-AGGAAGAAAAGTCCATTTATA
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGA-CAAGAAAAGTCCATTTATA
* * * * *
145770 GTC-ACCCAAG-CTATTGAAAGCCTTATTACTCGCTTTAAATGATTTTATAATTTGATAATTGAT
129 G-CAACCCATGCCT-TCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* * *
145833 TTTAAGTTTAATTTTTTTACATTTTTTTATTAAAATAGATTATAATTGATTGTCTACCTTG-GAA
192 TTTAAGTTGAATTTTTTTACA-TTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAG-A
* * * *
145897 AACATGAAAAAAAAAGG-TATTTATTAGCAAGAAAAGTCCATTTATATTCGCCCATGCCTTTGAA
255 AACATG-AAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTT-AA
* ** *
145961 AA-CCTTATTACTTGCTTTAAATGAT
318 AAGCCTAATTACTCACTTTAAATGGT
* * * * * * *
145986 TTTATAGTCTGATAATTTATTTCAAGTTTAATTTTTTTACATATTTTTGTTAAAACAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATAT-TTTTTGTTAAAACAGATTATAA
* *
146051 -T---TG---A--TTG-----TTTGAAGAAAAAGTCATTCATTGACAAGAAAAGTCTATTTATAG
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
* * * * * * * *
146102 TC-ACTCATGTCTT-TAAATGCCTAATTATTCGCTTTAAGTGGTTTCATAATCTCATAATTAATT
130 -CAACCCATGCCTTCGAAA-GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT
* * * * * * ** * * *
146165 TTAGGTTGAATTGTTTTAACATTTTTGACTAAAACAAATTATAATTGAATGTTTGTCGTAAGAGA
193 TTAAGTTGAATT-TTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAA
* * * * * *
146230 CGT-AAAGAAAAA-GCTATTCATTGGCAAG-AAAGTTCATTCATAGTTACCCATGCCTTCAAAAT
257 CATGAAA-AAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAG
** * *
146292 CCTAATTACTCGTTTTAAATAGC
321 CCTAATTACTCACTTTAAATGGT
* * *
146315 TTTATAATCTCATAATTGATTTT-AGATTGATTTGTTTTACATTTTTTATTAAAACAGATTATAA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAA
* * * ** * *
146379 TTAAATGTATACCTAGTGAAACATA--AAGAAAAAG-CGA-TCATTGGTAAGAAAAGTCTATCTA
65 TTGAATGTCTACCT--TGAAAAATATGAAGAAAAAGTC-ATTCATTGACAAGAAAAGTCCATTTA
** * * * * *
146440 TAGTTACCCATGCCTTCAAAATCCTAATTACTCACTTTAAATGATTTTATAATCTCATAATTGAT
127 TAGCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* ** * * * * * *
146505 TTTAGGTTGAATTTTTTTACATTTTTGGTAAAAACATATTATAATT-AGATGTTTGCCCTAAGAA
192 TTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGA-ATGTCTACCTTGAGAA
* * * * *
146569 ACAT-AAAGAAAAA-GCTATTCATTGGCAAGAAAAGTCGATTTATAGTTACCTAAGCCTTTGAAA
256 ACATGAAA-AAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAA
* * * *
146632 GCCTTATTGCTTACTTTAAATGGA
320 GCCTAATTACTCACTTTAAATGGT
* ** * * * * *
146656 TTTATAATCTCATAATTAAAGTTAAGTTGAATTTTTTTATATTTTTAGTGAAAATAAATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * ** ** * *
146721 TGAATGTTTATCTTGGGAAACGTAAAGAAAAAGGC-TATCATT-AGCAAGAAAAGTCCATTTATA
66 TGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCAT-TCATTGA-CAAGAAAAGTCCATTTATA
*** * * *
146784 GTC-AGTTATGCCTTTGAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTGATAATTGATT
129 G-CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT
** * * * * * *
146848 TTGGGTTGAGTTTTTTTATATTTTTTGTTAAAATAGATTATAATTGAATGTTTTCCTTGAGAAAC
193 TTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAAC
* * * * * *
146913 ATGAAGAAAAAATG--ATTCATTAGTAAGAAAAGTCCATTTATAGTTACTCATGCCTTCAAAAGC
258 ATGAA-AAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGC
* *
146976 ATAATTACTCGCTTTAAATGGT
322 CTAATTACTCACTTTAAATGGT
* * * **
146998 TTTATAATCTCATAATTAATTTTATGTTAAATTGTTTTACT-TTTTTTGTTAAAACAGATTATTC
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTA-TATTTTTTGTTAAAACAGATTATAA
* ** * * * * * * *
147062 TTGATTGTCTACCTTGGGAAATGTGAAGAAAAAGCCAATCATTTATAACAAAAG-CTCAATTATA
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTC-CATTTATA
** * * ** *
147126 GTTACTCATGTCTTTAAAAG-CTTAATTACTTGCTTTAAATGGTTTTATAATCTCATAATTGATT
129 GCAACCCATGCCTTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT
* * * * **
147190 TT-AGATTGATTTTTTTTTTACA-TTTTTAGTTAAAACAGATTGTAATTGAATGTTTGCCTAAAG
193 TTAAG-TTGA--ATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAG
* * * * * * * *
147253 AAAC-TTAAAGAAAAA-ACCATTCATTGGCAAGAAAAGT-CATTTATATTTATCCATGCATTCAA
254 AAACATGAAA-AAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAA
*
147315 AATCCTAATTACTCACTTTAAATGGT
318 AAGCCTAATTACTCACTTTAAATGGT
* * * * * *
147341 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTATATTATTAGTTAAAATAGACTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * * **
147406 T-AGATGTCTGCCTTAGGAAACATA--AAGAAAAAG-CTATTCATTGGCAAGAAAAGTTTATTTA
66 TGA-ATGTCTACCTT--GAAAAATATGAAGAAAAAGTC-ATTCATTGACAAGAAAAGTCCATTTA
* * * * ** * * * *
147467 TTA--TAGCTAAGCCTTTTAAAGCCTTATTGA-T-TCTTTAAATGGTATTATAATCTTATAATTA
127 -TAGCAACCCATGCCTTCGAAAGCCTTATT-ACTCGCTTTAAATGGTTTTATAATCTCATAATTG
* * * * *
147528 ATTTTAAGTTGAGTTTTTTTACA-TTTTTAGTGAAAATAGATTATAATTGAATGTCTGCCTTTA-
190 ATTTTAAGTTGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAG
* * * * * *
147591 AAACAAGAAGAAAAAGGCTA-TCATTAGCAAGAAAAGTCTATTTATAGTCACTCATACCTTTAAA
254 AAACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAA
*
147655 AGGCTAATTACTCACTTTAAATGGT
319 AGCCTAATTACTCACTTTAAATGGT
* * * * * ** * *
147680 TTTATAATCTCATAATTGATTTCATGTTAAATTGTCTTACATTTTTTACTAAAATAAATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * *
147745 TGAATGTCTATCTT-AGAAAATGTGAAGAAAAAGTCATTCATTGACAAGTAAAA-TCTATTTATA
66 TGAATGTCTACCTTGA-AAAATATGAAGAAAAAGTCATTCATTGACAAG-AAAAGTCCATTTATA
***** ** * * * * *
147808 ATTGTCCATGCCTTTAAAAGCCTAATTACTCACTTTAAACGGTTTTACAATCTCAGAATTGATTT
129 GCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * * * * * *
147873 TAGGTTGAATGTTTGTACA-TTTTTAGTTAAAAAAGATTAAAATTAAACGTCTACCTTAAGAAAC
194 TAAGTTGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAAC
* * * * * *
147937 ATG-AAAAAAA-G--AGTTGA-TGGTAAGAAAAGTCCATTTCTAGCCACACAAGCCTTCT-AAAG
258 ATGAAAAAAAAGGCTA-TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTT-TAAAAG
* * * *
147996 CTTTATTACTCACTTTGAATAGT
321 CCTAATTACTCACTTTAAATGGT
* * * * * * * * * * *
148019 TTTATTATCTCATGATTGATTGTAGGTTGAATTTTTTTAAAATTTTGGTGACAACTGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * ** * *
148084 TGAATGTTTTCCCCAGAAAACT-TGAAGAAAAAGACATTCATT-AGCAAGAAAAGTCCATTTATA
66 TGAATG-TCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGA-CAAGAAAAGTCCATTTATA
* * ** *
148147 GTC-ACCCATGCC-T-GTAAGAGTCTTATTACTCACTTTAAATAATTTTATAATCTGATAATTGA
129 G-CAACCCATGCCTTCG-AA-AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGA
* * * * *
148209 TTTTAAGTTTAAGTTTTTTATATTTTTT-TGTAAAACAGATTATAATTGATTGTCTAGCTTG-GA
191 TTTTAAGTTGAATTTTTTTACATTTTTTAT-TAAAACAGATTATAATTGAATGTCTACCTTGAGA
* * * * * *
148272 AA-ACGTAAAGAAAAA-GCCATTCATTGACAAGAAAAGTCCATTTATAATCACTCTTGCCTTTAA
255 AACATG-AAA-AAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAA
* **
148335 AAGCCTAATTACTCACTTTAACTTAT
318 AAGCCTAATTACTCACTTTAAATGGT
* * * * * *
148361 TTTATAATCTCATAATTGATTTTATGTTAAATTGTTTTA-CTTTTTTATTAAAATAGATTATAGT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * * * * * *
148425 TGATTGTATAACCTAG-GAAACATGAAGAAACAAGACAATT-ACTGACAAGAAAAGTCCATTTAT
66 TGAATGTCT-ACCTTGAAAAATATGAAGAAA-AAGTC-ATTCATTGACAAGAAAAGTCCATTTAT
** * * ** *
148488 AGTTATCTATGCCTTTAAAAG-CTTAATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGAT
128 AGCAACCCATGCCTTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* * ** * * * * *
148552 CTTAGGTAAAATTGTTTTAACATTTTTAACTAAAGCAAATTATAATTGAATGTCTACCTT-AGGA
192 TTTAAGTTGAATT-TTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGA-GA
* * * * ** * * **
148616 AACATGAAGAAAGAGG-AATTCATCGGCAAG-AAAGTTTATTTATAGTTACCCATACCTTCGAAA
255 AACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAA
* *
148679 TCCTAATTACTCACTTTAAATGAT
320 GCCTAATTACTCACTTTAAATGGT
* * * * * *
148703 TTTATAATCTCATAATTGATTTTACA-ATCAATTTTTTTACATTTTGTTGTTAAAATATATTATA
1 TTTATAATCTCATAATTGATTTTA-AGTTGAATTGTTTTATATTTT-TTGTTAAAACAGATTATA
* * * * * * **
148767 ATTGATTATCTACCCTGAAAAACAT-AAAATAAAAGATCA-TCATTGATAAGAAAAGTTTATTTA
64 ATTGAATGTCTACCTTGAAAAATATGAAGA-AAAAG-TCATTCATTGACAAGAAAAGTCCATTTA
* * ** * *
148830 TAGTC-ATCCATGTCTTTAAAAACCTAATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGA
127 TAG-CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGA
* * * * * * * * * * *
148894 TTTTATGTTAAACTGTTTTAGATTTTTTGTTAAAATAGATTATACTTGATTGTCTACCCTGGGAA
191 TTTTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAA
* * * * * * *
148959 ACGT-AAAGAAAAGGCTAGTCATTGGCAAGAAAAGTCCATTTACT-GTTACTCATTCCTTCAAAA
256 ACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTA-TAGTCACCCATGCCTTTAAAA
* *
149022 GCCTAATTACTCGCTTTAAATGAT
320 GCCTAATTACTCACTTTAAATGGT
* * * * *
149046 TTTATAATCTCATAATTGATTTTAGGTTGAATTGTTTTACA-TTTTTGTTCAAAGAAATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * *
149110 TGATTGTCTACCCT-AGAAAATATGAAGAAAAAGGT-ATTCATTGGC-AGAAAAAGTCCATTTAT
66 TGAATGTCTACCTTGA-AAAATATGAAGAAAAA-GTCATTCATTGACAAG-AAAAGTCCATTTAT
* * ** * *
149172 AGTC-ACCCGTACCTTTAAAAGCCTAATTGCTCG-TGTTAAATGGTTTTATAATCTCATAATTGA
128 AG-CAACCCATGCCTTCGAAAGCCTTATTACTCGCT-TTAAATGGTTTTATAATCTCATAATTGA
* * * * * * * *
149235 TTTTATA-TTAAATTGTTTTACCTTTTTTGTTAAAACAGATTATACTTGATTGTTTGCCTT-AGG
191 TTTTA-AGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGA-G
* * * * *
149298 AAACATG-AAAAAAAGGCCA-TCATTGACAAGAAAAGTCTATTTATAGTTACCCATGCCTTCAAA
254 AAACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAA
*
149361 AGCTTAATTACTCACTTTAAATGGT
319 AGCCTAATTACTCACTTTAAATGGT
* * * *
149386 TTTATAATCTCATAATTGATTTT-AGCTTGAATAT-TTTTA-ACATTTTTGACTAAAGCAAATTA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAAT-TGTTTTATA-TTTTTTG-TTAAAACAGATTA
* ** * * *
149448 TAATTGAACGTCTACCTTAGAAAACGA-GAAGGAAAAGTCATTCATTGACAA-AAAACTTCATTT
62 TAATTGAATGTCTACCTT-GAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTT
** * ** *
149511 ATAGTTACCTATGCCTTC-AAAATCTTAATTACTCGCTTTAAATGGTTTTATAATCTCATAGTTG
126 ATAGCAACCCATGCCTTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTG
* * * *
149575 ATTTTACGTTGAATTTTTTTACA-TTTTTAGTTAAAATAGATTATAATTGAATGTCTGCC-TAAG
190 ATTTTAAGTTGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGA-
* * *
149638 GAAACATGAAGAAAAA-GCTATTCATTGGCAAGAAAAGTCCATTTATAGTTACCCATGCCTTCAA
253 GAAACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAA
* *
149702 AAACATAATTACTCACTTTAAATGGT
318 AAGCCTAATTACTCACTTTAAATGGT
* * * * * *
149728 TTTGCT-ATCTGATAATTGATTTTAGGGTGAA-TGTTTATATATTTTTAGTTAAAACATATTATA
1 TTT-ATAATCTCATAATTGATTTTAAGTTGAATTGTTT-TATATTTTTTGTTAAAACAGATTATA
* * * * ** * * * * **
149791 ATCGAATGTTTGCC-TCAGGAA-ATGTAAAAAAAAGCCATTCATGGGCACA-AAAAGTTGATTTA
64 ATTGAATGTCTACCTTGAAAAATATG-AAGAAAAAGTCATTCATTGACA-AGAAAAGTCCATTTA
** * * *
149853 TAGTTACCCAAGCCTTTGAAAGCCTTATTACT--C--------GTTTTATAATCTCATAATTAAT
127 TAGCAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAT
* * * * * * * * * *
149908 TTTAGGCTGAATGTTTTTGCA--TTTTAGTGAAAACATATTGTAATTGAATGTCTAGCTCGAAAA
192 TTTAAGTTGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAA
* * * * * *
149971 ATATGAAGAAAAAGGCTA-TCACTAGCAAGAAAAGTCCATTTATATTCACCAATGCCTTTAAAAG
256 ACATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAG
* ** * *
150035 CCTTATTACTTGCATCAAATGGT
321 CCTAATTACTCACTTTAAATGGT
* * * * * *
150058 TTTATAATCTGATAATTGATTTTAAGTTAAATTTTTTTACATTTTCTGTTAAAACACATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * * * * *
150123 TGAATGTCTACCTTGAGAAACATGAAG-AAAAGCCATTCATTGGCAAGGAAAGTCCATTTATAGT
66 TGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAGC
* * * * * *
150187 TACCCATGCCTT-TACAAGCCTAATTACTCGCTTTAAATAGTTTTATAATCCCATAATTGATTCT
131 AACCCATGCCTTCGA-AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* * ** * * * *
150251 AAGTTAAATTTTTTTATATTTTTGGTGAAAACAGATTATAATTGAGTGTTTGCCTT-AGAAACAT
195 AAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACAT
* * * *
150315 GAAAAAAAAGGCTA-CCATTAGCAAGAAAAGTGCATTTATAGTCACCCATACCTTTGAAAA-CCT
260 GAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTT-AAAAGCCT
*
150378 TATTACT-AGCTTTAAATGGT
324 AATTACTCA-CTTTAAATGGT
* * * ** *
150398 TTTACAATTTGATAATTGATTTTAAGTTGAATTGTTTTACCTTTTTTGTTCAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
* * ** * * * *
150463 TGAATGTTTACCTCT-AGAAACGTGAAGAAAAAGCCCTTCATTGGCAAGTAAAGTCCATTTATAG
66 TGAATGTCTACCT-TGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
** * * * * * * * *
150527 TTATCCATACCTTCAAAAACCTAATTACTCGCTTTCAATGCTTTTATAATCTCATAATTGATTCT
130 CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* * * * *
150592 AAGCTGAATTTTTTTACA-TTTTTAGTTAAAACAGATTATAAATGAATGTCTGCCTTGAAAAATA
195 AAGTTGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACA
* * * * * * ** * **
150656 TGAAGAAAAA-GCCATTGATTAGG-AGGAAAAGTCCATTTCTGGTCACTTAAGCCTTCGAAAGCC
259 TGAAAAAAAAGGCTATTCATT-GGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCC
* ** *
150719 TTATTACTTGCTTTGAATGGT
323 TAATTACTCACTTTAAATGGT
* * * *
150740 TTTATAATCTCATAATTGATTTT-AGATTAAATTGTTTTACATTTTTTGTGAAAACACATTATAA
1 TTTATAATCTCATAATTGATTTTAAG-TTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAA
* * * * * * * *
150804 TTGATTATTTGCCTTGAGAAATGTGAAGAAAAAAG-CATTCATTGGCAAAAAAAGTCCATTTATA
65 TTGAATGTCTACCTTGAAAAATATGAAG-AAAAAGTCATTCATTGACAAGAAAAGTCCATTTATA
* * * * *
150868 GTC-ACCCATGCCTTTGAAAACCTTATTACTTGCTTTAAATAGTTTTATAATCTTATAATTGATT
129 G-CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT
* * ** * * * *
150932 TTAAGCTGAATTTCTTTACATTTTTTGCTAAAATAGGTTATAATT-AATGTCTA-TTTCAAGAAA
193 TTAAGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTT-GAGAAA
* ** * * * * * * * * *
150995 CTTGAGGAAAAAGTC-ATTCAATAGTAA-ACAAAGTCCATTTGT-GTTTACGCACGCCTTTGAAA
257 CATGAAAAAAAAGGCTATTCATTGGCAAGA-AAAGTCCATTTATAG-TCACCCATGCCTTTAAAA
* * *
151057 GCTTAATTACTCAGTTTAAATAGT
320 GCCTAATTACTCACTTTAAATGGT
* * * * *
151081 TTTATAATCTTATAATTGATTTTAAGTTGAATT-TTTATACATATTTGGTTAAAACAGATTATCA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTT-TATATTTTTTGTTAAAACAGATTATAA
* ** * * * **
151145 TTGAATGTCTACTTTGAAAAACGTGAAGAGAAAGCCATTCACTGGTAAGAAAAGTCCATTTATAG
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
** ** * * *
151210 TTACCCATGCCTTC-AAAATCTCAATTACTCGCTTTAAATGATTTTATAATCTCATAATTAATTT
130 CAACCCATGCCTTCGAAAGCCT-TATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* * *
151274 T-AGTTTGAATTTTTTTACATTTTTTGTTAAAACACATTATAATTGGATGTCTACCTT-AGAAA-
194 TAAG-TTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAAC
* ** * * * * * * *
151336 ACGTAACGAAAA-GCCATTCATTGGCAAGAAAAGTCGATTTATAGTTACCTAAGTCTTTGAAAGC
258 ATG-AAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGC
* * **
151400 CTTATTGCTC-CATTTAAATAAT
322 CTAATTACTCAC-TTTAAATGGT
* * * * * * * *
151422 TTTATAATCTAATAATTGATTTTAGGTTGAATCT-CTGTACATTTTTAGTTAAAACATATTAAAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAAT-TGTTTTATATTTTTTGTTAAAACAGATTATAA
* * * * * ** * * * * *
151486 TTGAATGTCTGCCTTGGAAAACATGAAAAAAAAGCCATAGATTGGCAACAAAAGTTCTTTTCTAG
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
** * * * * * * * *
151551 TC-ACTTAAGCCTTCAAAAGCCTTATTGCTCACCTTGAATAGTTTTATAATCTCATAATTGATTC
130 -CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * * * *
151615 TAAGTTGAATTTTCTTTACGTTTTTTATGAAAATAGATTATAATTGGATGCCTACCTTGGGAAAC
194 TAAGTTGAATTTT-TTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAAC
* * * * *
151680 ATG--AAAAAAGGGTA-TCATTAGCAAGAAAAGTCAATTTATATTCACCCATGCCTTTGAAAGCC
258 ATGAAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCC
* * *
151742 TTATTACTCGCTTTTAATGGT
323 TAATTACTCACTTTAAATGGT
* * * * *
151763 TTTATAATCTGATAATTGATTTTAAGTTAAATTTTTTTACATTTTTTATTAAAACAGATTATAAT
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
** * ** * * *
151828 AAAATGTCTA-CTTCGAGAAACGTTAAGAAAAAG-CATTCATTGACAAGTAAAGTCTATTTATAG
66 TGAATGTCTACCTT-GAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAG
** * * *
151891 TTACCCATGCCTTCAAAAGCCTAATTACTCGCTTTAAATGGTTTTATTATCTCATAATTGATTTT
130 CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* ** * * * * * * * *
151956 AGGTTGAAAGTTTGTACA-TTTCTAGTTAAAACATATTAAAATTGAATTTCTACATCGGGAAACA
195 AAGTTGAATTTTTTTACATTTTTTA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACA
* * * * * * * * *
152020 TGAAGAAAAA-GCCATTGATTAGG-AGGAAAAGTTCATTTCTAGTCACCCAAGCCTTCAAAAGTC
259 TGAAAAAAAAGGCTATTCATT-GGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCC
* * *
152083 TTATTACTCGCTTTGAATGGT
323 TAATTACTCACTTTAAATGGT
* * * * * * *
152104 TTTAGAATATCATAATTGATTTTAGGTTGAA-TGTTTTTGTATTTTTTGTGAAACCATATTATAA
1 TTTATAATCTCATAATTGATTTTAAGTTGAATTG-TTTTATATTTTTTGTTAAAACAGATTATAA
* * ** * * * * *
152168 TTGATTGTCTACCTCGGGAAACATGAAGAAAAAGAT-ATTTATTGGCAAAAAAAGTCTATTTATA
65 TTGAATGTCTACCTTGAAAAATATGAAGAAAAAG-TCATTCATTGACAAGAAAAGTCCATTTATA
*
152232 GTC-ACCCATGCCTTTGAAAGCCTTATTACTCGCTTTAA
129 G-CAACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAA
152270 NNNNNNNNNN
Statistics
Matches: 9169, Mismatches: 2066, Indels: 1269
0.73 0.17 0.10
Matches are distributed among these distances:
327 1 0.00
328 189 0.02
329 103 0.01
330 235 0.03
331 183 0.02
332 18 0.00
333 4 0.00
334 1 0.00
335 9 0.00
336 50 0.01
337 121 0.01
338 165 0.02
339 672 0.07
340 1237 0.13
341 2383 0.26
342 1871 0.20
343 910 0.10
344 278 0.03
345 37 0.00
348 6 0.00
349 5 0.00
350 1 0.00
351 3 0.00
352 3 0.00
353 9 0.00
354 11 0.00
355 3 0.00
356 3 0.00
357 2 0.00
358 3 0.00
359 3 0.00
360 47 0.01
361 135 0.01
362 96 0.01
363 3 0.00
365 8 0.00
366 9 0.00
367 1 0.00
368 7 0.00
369 2 0.00
370 3 0.00
372 1 0.00
373 12 0.00
374 5 0.00
375 7 0.00
376 7 0.00
377 5 0.00
379 2 0.00
380 3 0.00
381 2 0.00
382 10 0.00
383 4 0.00
384 4 0.00
385 8 0.00
386 3 0.00
387 2 0.00
388 3 0.00
389 1 0.00
391 6 0.00
392 3 0.00
393 10 0.00
394 7 0.00
395 3 0.00
396 5 0.00
397 15 0.00
398 14 0.00
399 9 0.00
400 3 0.00
401 10 0.00
402 12 0.00
403 7 0.00
404 23 0.00
405 11 0.00
406 10 0.00
407 3 0.00
408 4 0.00
409 7 0.00
410 8 0.00
411 2 0.00
412 3 0.00
414 7 0.00
416 6 0.00
417 3 0.00
419 3 0.00
420 4 0.00
421 18 0.00
422 13 0.00
423 7 0.00
424 7 0.00
425 8 0.00
426 6 0.00
427 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (343 bp):
TTTATAATCTCATAATTGATTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAACAGATTATAAT
TGAATGTCTACCTTGAAAAATATGAAGAAAAAGTCATTCATTGACAAGAAAAGTCCATTTATAGC
AACCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA
AGTTGAATTTTTTTACATTTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACATG
AAAAAAAAGGCTATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTTAAAAGCCTAA
TTACTCACTTTAAATGGT
Found at i:143619 original size:20 final size:20
Alignment explanation
Indices: 143561--143611 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
143551 AATGTGAAGA
**
143561 AAAAGTTATTCATTATTAAG
1 AAAAGTTATTCATTAGCAAG
*
143581 AAAAGTTATTCATTGGCAAG
1 AAAAGTTATTCATTAGCAAG
143601 AAAAGTCTATT
1 AAAAGT-TATT
143612 TATAGCAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (20 bp):
AAAAGTTATTCATTAGCAAG
Found at i:144257 original size:171 final size:170
Alignment explanation
Indices: 143578--144265 Score: 417
Period size: 170 Copynumber: 4.0 Consensus size: 170
143568 ATTCATTATT
* * * * * * *
143578 AAGAAAAGTTATTCATTGGCAAGAAAAGTCTATTTATAG-CAACCCAAGCCTTCGAAAGCCTTAT
1 AAGAAAAGCTATTCGTTTGCAAGAAAAGTCCATTTATAGTC-ACCCATGCCTTCAAAAGCCTAAT
* * * * * * * ** * * * *
143642 TAC-ACGTTTTAAATGGTTTTATAATCTGATCATTGATTTTAAGTTGAATTTTT-TTCTTTTTTT
65 TACTA-GCTTTAAACGGTTTTATAATCTCATAATTCATTGTAGGTCAAATTTTTGTACATTTCTG
* * * * * * *
143705 GTTAAAACAGATTACAGTTTATTGTCTACCTCAGGAAACGTG
129 GCTAAAACAAATTATAATTGAATGTCTACCTCAGGAAACGTA
* ** * * * * * * ** *
143747 AAGAAAAGGTCATTTATTAGCAATAAAAATCCATTTATAGTTACCCATACTTTTGAAAGCCTTAT
1 AAGAAAAGCT-ATTCGTTTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTAAT
* * * * * * ** *
143812 TACTCGCTTTAAATGGTTTTATAATCTGATAATTGATTTTAAGTTGAATTTTT-TTCTTATTT-T
65 TACTAGCTTTAAACGGTTTTATAATCTCATAATTCATTGTAGGTCAAATTTTTGTAC--ATTTCT
* * * * * * ***
143875 -GTTAAAACAGATTATAATTAAATATATACCT-TGGAAAACCCG
128 GGCTAAAACAAATTATAATTGAATGTCTACCTCAGG-AAACGTA
* * ** * * * * * *
143917 AAGAAAGAACCATTTATTGGGAAGTAAAGTCTATTTATAGTCACCCATGCCTTCGAAAGCTTAAT
1 AAGAAA-AGCTATTCGTTTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTAAT
* * * *
143982 TACTAGGTTTGAATGGTTTTATAATCTCATAATTCATTGTAGGTCGAATTTTTGTACATTTCTGG
65 TACTAGCTTTAAACGGTTTTATAATCTCATAATTCATTGTAGGTCAAATTTTTGTACATTTCTGG
* * *
144047 CTAAAACAAATTGTAATTGAATGTCTATCTCATGAAACGTA
130 CTAAAACAAATTATAATTGAATGTCTACCTCAGGAAACGTA
*
144088 AAGTAAAAGCTATTCGTTTGCAAGAAAAGTCCATTTAT-GCTTACCCATGCCTTCAAAAGCCTAA
1 AAG-AAAAGCTATTCGTTTGCAAGAAAAGTCCATTTATAG-TCACCCATGCCTTCAAAAGCCTAA
** * *
144152 TTACTTTCTTTAAACGGTTTTATAATCTCATAATTGATTTTAGG-CTAAATGTTTT-TACATTT-
64 TTACTAGCTTTAAACGGTTTTATAATCTCATAATTCATTGTAGGTC-AAAT-TTTTGTACATTTC
* * * * * * *
144214 TAGGTTAAAACATATTATTATTGAATGTTTGCCTTAGGAAACGTG
127 T-GGCTAAAACAAATTATAATTGAATGTCTACCTCAGGAAACGTA
144259 AAGAAAA
1 AAGAAAA
144266 TACCTTATTA
Statistics
Matches: 414, Mismatches: 89, Indels: 31
0.78 0.17 0.06
Matches are distributed among these distances:
169 15 0.04
170 226 0.55
171 162 0.39
172 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (170 bp):
AAGAAAAGCTATTCGTTTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTAATT
ACTAGCTTTAAACGGTTTTATAATCTCATAATTCATTGTAGGTCAAATTTTTGTACATTTCTGGC
TAAAACAAATTATAATTGAATGTCTACCTCAGGAAACGTA
Found at i:144374 original size:121 final size:121
Alignment explanation
Indices: 144169--144386 Score: 278
Period size: 121 Copynumber: 1.8 Consensus size: 121
144159 CTTTAAACGG
* * * *
144169 TTTTATAATCTCATAATTGATTTTAGGCTAAATGTTTTTACATTTTAGGTTAAAACATATTATTA
1 TTTTATAATCTCATAATTGATTTTAAGCTAAATGTTTTTACATTTTAGCTTAAAACAAATTATAA
* * ** * *
144234 TTGAATGTTTGCCTTAGGAAACGTGAAGAAAATACCTTATTACTCACTCTACATGA
66 TTGAATGTCTACCACAGGAAACATAAAGAAAATACCTTATTACTCACTCTACATGA
* **
144290 TTTTATAATCTGATAATTGATTTTAAG-TAGAAT-TTTCTTACATTTTTTCTTAAAACAAATTAT
1 TTTTATAATCTCATAATTGATTTTAAGCTA-AATGTTT-TTACATTTTAGCTTAAAACAAATTAT
*
144353 AATTGAGTGTCTACCACAGGAAACATAAAGAAAA
64 AATTGAATGTCTACCACAGGAAACATAAAGAAAA
144387 AGCCATTCAT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
120 5 0.06
121 76 0.94
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (121 bp):
TTTTATAATCTCATAATTGATTTTAAGCTAAATGTTTTTACATTTTAGCTTAAAACAAATTATAA
TTGAATGTCTACCACAGGAAACATAAAGAAAATACCTTATTACTCACTCTACATGA
Found at i:144616 original size:462 final size:462
Alignment explanation
Indices: 143806--144727 Score: 1006
Period size: 462 Copynumber: 2.0 Consensus size: 462
143796 CTTTTGAAAG
* * * * *
143806 CCTTATTACTCGCTTTAAATGGTTTTATAATCTGATAATTGATTTTAAGTTGAATTTTTTTCTTA
1 CCTTATTACTCACTCTAAATGATTTTATAATCTGATAATTGATTTTAAGTAGAATTTTTTACTTA
* * ** * * *
143871 TTTTGTTAAAACAGATTATAATTAAATATATACCTTGGAAAACCCGAAGAAAGAACCATTTATTG
66 TTTTCTTAAAACAAATTATAATTAAATATATACCCAGGAAAACACAAAGAAAGAACCATTCATTG
* * * * * *
143936 GGAAGTAAAGTCTATTTATAGTCACCCATGCCTTCGAAAGCTTAATTACTAGGTTTGAATGGTTT
131 GGAAGAAAAGTCTATTTATAGCCACCAACGCCTTCGAAAGCTTAATTACTAGCTTTCAATGGTTT
* * *
144001 TATAATCTCATAATTCATTGTAGGTCGAATTTTTGTACATTTCTGGCTAAAACAAATTGTAATTG
196 TATAATCTCATAATTCATTGTAAGTCGAATTTTTGTACATTTCTGGCTAAAACAAATTATAATTC
* * * ** * *
144066 AATGTCTATCTCATGAAACGTAAAGTAAAAGCTATTCGTTTGCAAGAAAAGTCCATTTATGCTTA
261 AATGTCTATCTCAGGAAACATAAAGAAAAAGCTATTCGAATGCAAGAAAAGTCCATCTATGCTCA
* ** ** *
144131 CCCATGCCTTCAAAAGCCTAATTACTTTCTTTAAACGGTTTTATAATCTCATAATTGATTTTAGG
326 CCCAGGCCTTCAAAAGCCTAATTACTCGCTTTAAACAATTTTATAATCTCATAATTCATTTTAGG
* * * *
144196 CT-AAATGTTTTTACA-TTTTAGGTTAAAACATATTATTATTGAATGTTTGCCTT-AGGAAACGT
391 CTAAAAT-TTTTTACATTTTTA-GTTAAAACAGATTATAATTGAATGTCTGCCTTGA-GAAAAGT
144258 GAAGAAAATA
453 GAAGAAAATA
*
144268 CCTTATTACTCACTCTACATGATTTTATAATCTGATAATTGATTTTAAGTAGAATTTTCTTACAT
1 CCTTATTACTCACTCTAAATGATTTTATAATCTGATAATTGATTTTAAGTAGAATTTT-TTAC-T
* * * * *
144333 T-TTTTCTTAAAACAAATTATAATTGAGTGTCTACCACAGG-AAACATAAAGAAA-AAGCCATTC
64 TATTTTCTTAAAACAAATTATAATTAAATATATACC-CAGGAAAACACAAAGAAAGAA-CCATTC
* * * * * * *
144395 ATTGGTAAGAAAAGTCCT-TTTATTGCCACCAACGCTTTTGAAAGTTTTATTACTCGCTTTCAAT
127 ATTGGGAAGAAAAGT-CTATTTATAGCCACCAACGCCTTCGAAAGCTTAATTACTAGCTTTCAAT
* * * * * * *
144459 GGTTTTATAATCTCATAATTTGATTTTAAGTTGAATTTCTT-TACATTTTTTGTTAGAACAAATT
191 GGTTTTATAATCTCATAA-TTCATTGTAAGTCGAATTT-TTGTACATTTCTGGCTAAAACAAATT
* * *
144523 ATAATTCAATGTCTA-CGTTAGGAAACATGAAGAAAAAG-TCATTC-AATGATAAGAAAAGTCCA
254 ATAATTCAATGTCTATC-TCAGGAAACATAAAGAAAAAGCT-ATTCGAATG-CAAGAAAAGTCCA
* * * *
144585 TCTA-G-TCACCCAGGCTTTTAAAAGTCTAATTACTCGCTTTAAATAATTTTATAATCTCATAAT
316 TCTATGCTCACCCAGGCCTTCAAAAGCCTAATTACTCGCTTTAAACAATTTTATAATCTCATAAT
* * * * *
144648 TCATTTTAGGTTAAAATTTTTTATATTTTTAGTTAAAAGAGATTATAATTTAGTGTCTGCCTTGA
381 TCATTTTAGGCTAAAATTTTTTACATTTTTAGTTAAAACAGATTATAATTGAATGTCTGCCTTGA
144713 GAAAAGTGAAGAAAA
446 GAAAAGTGAAGAAAA
144728 AGTCATTCAT
Statistics
Matches: 377, Mismatches: 70, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
462 160 0.42
463 127 0.34
464 88 0.23
465 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (462 bp):
CCTTATTACTCACTCTAAATGATTTTATAATCTGATAATTGATTTTAAGTAGAATTTTTTACTTA
TTTTCTTAAAACAAATTATAATTAAATATATACCCAGGAAAACACAAAGAAAGAACCATTCATTG
GGAAGAAAAGTCTATTTATAGCCACCAACGCCTTCGAAAGCTTAATTACTAGCTTTCAATGGTTT
TATAATCTCATAATTCATTGTAAGTCGAATTTTTGTACATTTCTGGCTAAAACAAATTATAATTC
AATGTCTATCTCAGGAAACATAAAGAAAAAGCTATTCGAATGCAAGAAAAGTCCATCTATGCTCA
CCCAGGCCTTCAAAAGCCTAATTACTCGCTTTAAACAATTTTATAATCTCATAATTCATTTTAGG
CTAAAATTTTTTACATTTTTAGTTAAAACAGATTATAATTGAATGTCTGCCTTGAGAAAAGTGAA
GAAAATA
Found at i:144755 original size:21 final size:19
Alignment explanation
Indices: 144725--144763 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
144715 AAAGTGAAGA
144725 AAAAGTCATTCATTAGCAAG
1 AAAAGTCATTCA-TAGCAAG
*
144745 AAAAGTCCATTTATAGCAA
1 AAAAGT-CATTCATAGCAA
144764 CTCAAGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
AAAAGTCATTCATAGCAAG
Found at i:144897 original size:170 final size:169
Alignment explanation
Indices: 144268--152269 Score: 5817
Period size: 171 Copynumber: 47.1 Consensus size: 169
144258 GAAGAAAATA
* * * * * *
144268 CCTTATTACTCACTCTACATGATTTTATAATCTGATAATTGATTTTAAGTAGAATTTTCTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAATTTT-TTACAT
* * * **
144333 TTTTTCTTAAAACAAATTATAATTGAGTGTCTACCACAGGAAACATAAAGAAAAAGCCATTCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * * * * * * **
144398 GGTAAGAAAAGTCCTTTTATTGCCACCAACGCTTTTGAAAG
129 GGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
** *
144439 TTTTATTACTCGCTTTCAATGGTTTTATAATCTCATAATTTGATTTTAAGTTGAATTTCTTTACA
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAA-TTGATTTT-AGTTGAATTT-TTTACA
* * * * * * *
144504 TTTTTTGTTAGAACAAATTATAATTCAATGTCTACGTTAGGAAACATGAAGAAAAAGTCATTCAA
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
** * * * *
144569 TGATAAGAAAAGTCCA--TCTAG-TCACCCAGGCTTTTAAAAG
128 TGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * ** * * *
144609 TCTAATTACTCGCTTTAAATAATTTTATAATCTCATAATTCATTTTAGGTTAAAATTTTTTATAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTT-GAATTTTTTACAT
* * * * * * *
144674 TTTTAGTTAAAAGAGATTATAATTTAGTGTCTGCCTT-GAGAAA-AGTGAAGAAAAAGTCATTCA
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACA-TAAAGAAAAAGCCATTCA
* * * * *
144737 TTAGCAAGAAAAGTCCATTTATAGCAACTCAAGCCTTCGAAAG
127 TTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * *
144780 CCTTATTACGT-GCTTTAAGTTGTTTTATAATCTGATAATTGATTTTCAGTTGAATTTTTTACCT
1 CCTTATTAC-TCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAATTTTTTACAT
* * * *
144844 TTTTTGTTAAAACAGATTATAATTCAATGTATACCTTAGGAAACCTAAAGAAAAAGCCTTTCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * *
144909 GGCAAGTAAAGTCCATTTATAGTTACCCATACCTTCAAAAG
129 GGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * ** * * * * *
144950 CCTAATTAATCATTTTAAATGGCTTTATTATCTCATAATTGATTTTAGGTTTAA-TGTTTGCACT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATTTTTTACA-T
* * * * *
145014 CTTTTTGTTAAAACAGATTAAAATTGAATGTCTACCTT-GGAAAACGTAAA-AAAAAACTATTGA
64 -TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGG-AAACATAAAGAAAAAGCCATTCA
** * ** * *
145077 TTTTCAAGAAAAGTCCATTTCTAG-TCAATCAAGACTTCAAAAG
127 TTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * *
145120 GCTTATTACTCGCTTTGAATGGTTTTATAATCTCATAATTAATTTTAGGTTAAATTTTTTTA-AT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACAT
** * ** * * **
145184 TTTTTAGCGAAAACAAATTATAATTGAATGT-TTGCTTCAGCAAACATAAGGAAAAAGGAATTCA
64 TTTTT-GTTAAAACAGATTATAATTGAATGTCTACCTT-AGGAAACATAAAGAAAAAGCCATTCA
* * * *
145248 TTGGTAAAAAAAGTCCATTTATAG-TCACCCATGCTTTCAAAAA
127 TTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * *
145291 CCTTGTTACTCGCTTTAAAT-G----ATAA--T--TGA-T--TTTTAGTTTAATTTTTTTACATT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAGTTGAA-TTTTTTACATT
* * * *
145344 TTTT-TTAAAACAGATTATAATTGAATGTCTACCTTTGAAAACCTGAAGAAAAAGCCATTCATTG
65 TTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATTG
* * *
145408 GCAAGTGAAA-TCTATTTATAGTTACCCATGCCTTCAAAAG
130 GCAAG-AAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * ** * * * **
145448 CCTAATTACTCACTTTAAATAATTTTATTACCTCATAATTGATTTTAGGGTGAATGTTTGCACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACAT
* * * * * ** ** *
145513 TTTTTATTAAAACATATTAAAATTGATTGTCTGCCTTAAAAAACATGAAA-AAAAAATCATTGAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACAT-AAAGAAAAAGCCATTCAT
* * * *
145577 TGGCAAGAAAAGTCCATTTTTAG-TCACCCAAGCCTTCGAAAT
128 TGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * * * *
145619 CCTTATTACTTGCTTTGAATGGTTTTACAATCTCATAATTGATTTTAGGTTAAATGTTCTAAAAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACAT
* * * * * * ** * *
145684 TTTTGGTAAAAACAGATTGTAATTGATTGTTTACCCT-GAGAAATGTAAAGAAAAAACCATTCGT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGAAAAAGCCATTCAT
* **
145748 TAGG-AAGAAAAGTCCATTTATAG-TCACCCAAG-CTATTGAAAG
128 T-GGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCT-TCAAAAG
* * * *
145790 CCTTATTACTCGCTTTAAATGATTTTATAATTTGATAATTGATTTTAAGTTTAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAA-TTTTTTACA-
* * * * ** *
145855 TTTTTTATTAAAATAGATTATAATTGATTGTCTACCTT-GGAAAACATGAAAAAAAAAGGTATTT
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGG-AAACAT-AAAGAAAAAGCCATTC
* * * *
145919 ATTAGCAAGAAAAGTCCATTTATA-TTCGCCCATGCCTTTGAAAA-
126 ATTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCC-TTCAAAAG
* * * * * * *
145963 CCTTATTACTTGCTTTAAATGATTTTATAGTCTGATAATTTATTTCAAGTTTAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTT-TAGTTGAA-TTTTTTACAT
* *
146028 ATTTTTGTTAAAACAGATTATAATTG-AT-TGT---TT--G-------AAGAAAAAGTCATTCAT
64 -TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
* * * * * *
146079 TGACAAGAAAAGTCTATTTATAG-TCACTCATGTCTTTAAATG
128 TGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * *
146121 CCTAATTATTCGCTTTAAGTGGTTTCATAATCTCATAATTAATTTTAGGTTGAATTGTTTTAACA
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTT-ACA
* * * ** * * * * *
146186 -TTTTTGACTAAAACAAATTATAATTGAATGTTTGTCGTAAGAGACGTAAAGAAAAAGCTATTCA
63 TTTTTTG-TTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCA
* * * *
146250 TTGGCAAG-AAAGTTCATTCATAGTTACCCATGCCTTCAAAAT
127 TTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * *
146292 CCTAATTACTCGTTTTAAATAGCTTTATAATCTCATAATTGATTTTAGATTGATTTGTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAG-TTGAATT-TTTTACAT
* * * *
146357 TTTTTATTAAAACAGATTATAATTAAATGTATACC-TAGTGAAACATAAAGAAAAAGCGA-TCAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGAAAAAGCCATTCAT
* * * * *
146420 TGGTAAGAAAAGTCTATCTATAGTTACCCATGCCTTCAAAAT
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * *
146462 CCTAATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACAT
* * * * * * * *
146527 TTTTGGTAAAAACATATTATAATT-AGATGTTTGCCCTAAGAAACATAAAGAAAAAGCTATTCAT
64 TTTTTGTTAAAACAGATTATAATTGA-ATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
* * * * **
146591 TGGCAAGAAAAGTCGATTTATAGTTACCTAAGCCTTTGAAAG
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* ** * * * * *
146633 CCTTATTGCTTACTTTAAATGGATTTATAATCTCATAATTAAAGTTAAGTTGAATTTTTTTATAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATT-GATTTTAGTTGAA-TTTTTTACAT
* * * * * * * * *
146698 TTTTAGTGAAAATAAATTATAATTGAATGTTTATCTTGGGAAACGTAAAGAAAAAGGC-TATCAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCAT-TCAT
* *** **
146762 TAGCAAGAAAAGTCCATTTATAG-TCAGTTATGCCTTTGAAAG
128 TGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * *
146804 CCTTATTACTCGCTTTAAATAGTTTTATAATCTGATAATTGATTTTGGGTTGAGTTTTTTTATAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGA-ATTTTTTACAT
* * * * ***
146869 TTTTTGTTAAAATAGATTATAATTGAATGTTTTCCTT-GAGAAACATGAAGAAAAAATGATTCAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGAAAAAGCCATTCAT
* * * *
146933 TAGTAAGAAAAGTCCATTTATAGTTACTCATGCCTTCAAAAG
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * *
146975 CATAATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTATGTTAAATTGTTTTACTT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTTACAT
** * * ** * *
147040 TTTTTGTTAAAACAGATTATTCTTGATTGTCTACCTTGGGAAATGTGAAGAAAAAGCCAATCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
*** * * * * * *
147105 TATAACAAAAG-CTCAATTATAGTTACTCATGTCTTTAAAAG
129 GGCAAGAAAAGTC-CATTTATAGCTACCCATGCCTTCAAAAG
* *
147146 -CTTAATTACTTGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAGATTGATTTTTTTTTTA
1 CCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAG-TTGA---ATTTTTTA
* * * * * * * *
147210 CATTTTTAGTTAAAACAGATTGTAATTGAATGTTTGCCTAAAGAAACTTAAAGAAAAAACCATTC
61 CATTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTC
** * * *
147275 ATTGGCAAGAAAAGT-CATTTATATTTATCCATGCATTCAAAAT
126 ATTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * *
147318 CCTAATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTATAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACAT
* * * * * *
147383 TATTAGTTAAAATAGACTATAATT-AGATGTCTGCCTTAGGAAACATAAAGAAAAAGCTATTCAT
64 TTTTTGTTAAAACAGATTATAATTGA-ATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
** * * * **
147447 TGGCAAGAAAAGTTTATTTATTA--TAGCTAAGCCTTTTAAAG
128 TGGCAAGAAAAGTCCATTTA-TAGCTACCCATGCCTTCAAAAG
* * * * *
147488 CCTTATTGA-T-TCTTTAAATGGTATTATAATCTTATAATTAATTTTAAGTTGAGTTTTTTTACA
1 CCTTATT-ACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGA-ATTTTTTACA
* * * * *
147551 TTTTTAGTGAAAATAGATTATAATTGAATGTCTGCCTTTA--AAACA-AGAAGAAAAAGGC-TAT
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACC-TTAGGAAACATA-AAGAAAAAGCCAT-T
* * * * *
147612 CATTAGCAAGAAAAGTCTATTTATAG-TCACTCATACCTTTAAAAG
125 CATTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * * *
147657 GCTAATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTCATGTTAAATTGTCTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTTACAT
** * * * * ** * *
147722 TTTTTACTAAAATAAATTATAATTGAATGTCTATCTTAGAAAATGTGAAGAAAAAGTCATTCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * ** ** *
147787 GACAAGTAAAA-TCTATTTATAATTGTCCATGCCTTTAAAAG
129 GGCAAG-AAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * * *
147828 CCTAATTACTCACTTTAAACGGTTTTACAATCTCAGAATTGATTTTAGGTTGAATGTTTGTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACAT
* * * * * * * *
147893 TTTTAGTTAAAAAAGATTAAAATTAAACGTCTACCTTAAGAAACATGAA-AAAAAG--AGTTGA-
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCA-TTCAT
* * * * * *
147954 TGGTAAGAAAAGTCCATTTCTAGCCACACAAGCCTTCTAAAG
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * * * * * *
147996 CTTTATTACTCACTTTGAATAGTTTTATTATCTCATGATTGATTGTAGGTTGAATTTTTTTAAAA
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACAT
* * * * * * ** * * * *
148061 TTTTGGTGACAACTGATTATAATTGAATGTTTTCCCCAGAAAACTTGAAGAAAAAGACATTCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* *
148126 AGCAAGAAAAGTCCATTTATAG-TCACCCATGCCTGT-AAGAG
129 GGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCT-TCAAAAG
* * ** * * *
148167 TCTTATTACTCACTTTAAATAATTTTATAATCTGATAATTGATTTTAAGTTTAAGTTTTTTATAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAA-TTTTTTACAT
* * *
148232 TTTTT-TGTAAAACAGATTATAATTGATTGTCTAGCTT-GGAAAACGTAAAGAAAAAGCCATTCA
64 TTTTTGT-TAAAACAGATTATAATTGAATGTCTACCTTAGG-AAACATAAAGAAAAAGCCATTCA
* * * * *
148295 TTGACAAGAAAAGTCCATTTATA-ATCACTCTTGCCTTTAAAAG
127 TTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * ** *
148338 CCTAATTACTCACTTTAACTTATTTTATAATCTCATAATTGATTTTATGTTAAATTGTTTTAC-T
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTTACAT
* * * * * * *
148402 TTTTTATTAAAATAGATTATAGTTGATTGTATAACC-TAGGAAACATGAAGAAACAAGACAATT-
64 TTTTTGTTAAAACAGATTATAATTGAATGTCT-ACCTTAGGAAACATAAAGAAA-AAG-CCATTC
* * * * * *
148465 ACTGACAAGAAAAGTCCATTTATAGTTATCTATGCCTTTAAAAG
126 ATTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * **
148509 -CTTAATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATCTTAGGTAAAATTGTTTTAAC
1 CCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTT-AC
*** * * * * **
148573 ATTTTTAACTAAAGCAAATTATAATTGAATGTCTACCTTAGGAAACATGAAGAAAGAGGAATTCA
62 ATTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCA
* ** * * * *
148638 TCGGCAAG-AAAGTTTATTTATAGTTACCCATACCTTCGAAAT
127 TTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * ** *
148680 CCTAATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTACAATCAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACAT
* * * * * * *
148745 TTTGTTGTTAAAATATATTATAATTGATTATCTACCCT-GAAAAACATAAA-ATAAAAGATCA-T
64 TTT-TTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGA-AAAAG-CCATT
** ** * * * *
148807 CATTGATAAGAAAAGTTTATTTATAG-TCATCCATGTCTTTAAAAA
125 CATTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * *
148852 CCTAATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTATGTTAAACTGTTTTAGAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACAT
* * * * * * * * *
148917 TTTTTGTTAAAATAGATTATACTTGATTGTCTACCCTGGGAAACGTAAAGAAAAGGCTAGTCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * *
148982 GGCAAGAAAAGTCCATTTACT-GTTACTCATTCCTTCAAAAG
129 GGCAAGAAAAGTCCATTTA-TAGCTACCCATGCCTTCAAAAG
* *
149023 CCTAATTACTCGCTTTAAATGATTTTATAATCTCATAATTGATTTTAGGTTGAATTGTTTTACA-
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTTACAT
* * * * * * * * **
149087 TTTTTGTTCAAAGAAATTATAATTGATTGTCTACCCTAGAAAATATGAAGAAAAAGGTATTCATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * *
149152 GGC-AGAAAAAGTCCATTTATAG-TCACCCGTACCTTTAAAAG
129 GGCAAG-AAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * *
149193 CCTAATTGCTCG-TGTTAAATGGTTTTATAATCTCATAATTGATTTTATATTAAATTGTTTTACC
1 CCTTATTACTCGCT-TTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAATT-TTTTACA
* * * * *
149257 TTTTTTGTTAAAACAGATTATACTTGATTGTTTGCCTTAGGAAACATGAAA-AAAAGGCCA-TCA
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACAT-AAAGAAAAAGCCATTCA
* * *
149320 TTGACAAGAAAAGTCTATTTATAGTTACCCATGCCTTCAAAAG
127 TTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
*
149363 -CTTAATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGCTTGAATATTTTTAAC
1 CCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAG-TTGAAT-TTTTT-AC
* * * * * * * *
149427 A-TTTTTGACTAAAGCAAATTATAATTGAACGTCTACCTTAGAAAACGA-GAAGGAAAAGTCATT
62 ATTTTTTG-TTAAAACAGATTATAATTGAATGTCTACCTTAGGAAAC-ATAAAGAAAAAGCCATT
* * * * *
149490 CATTGACAA-AAAACTTCATTTATAGTTACCTATGCCTTCAAAA-
125 CATTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* *
149533 TCTTAATTACTCGCTTTAAATGGTTTTATAATCTCATAGTTGATTTTACGTTGAATTTTTTTACA
1 CCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAA-TTTTTTACA
* * * * * *
149598 TTTTTAGTTAAAATAGATTATAATTGAATGTCTGCCTAAGGAAACATGAAGAAAAAGCTATTCAT
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
* *
149663 TGGCAAGAAAAGTCCATTTATAGTTACCCATGCCTTCAAAAA
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * * * * *
149705 CATAATTACTCACTTTAAATGGTTTTGCT-ATCTGATAATTGATTTTAGGGTGAATGTTTATATA
1 CCTTATTACTCGCTTTAAATGGTTTT-ATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACA
* * * * * * **
149769 TTTTTAGTTAAAACATATTATAATCGAATGTTTGCCTCAGGAAATGTAAA-AAAAAGCCATTCAT
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
* ** * * **
149833 GGGCACA-AAAAGTTGATTTATAGTTACCCAAGCCTTTGAAAG
128 TGGCA-AGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * *
149875 CCTTATTACT--C--------GTTTTATAATCTCATAATTAATTTTAGGCTGAATGTTTTTGCA-
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACAT
* * * * * * * *
149929 TTTTAGTGAAAACATATTGTAATTGAATGTCTAGC-T-CGAAAAATATGAAGAAAAAGGC-TATC
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATA--AAGAAAAAGCCAT-TC
* * * * *
149991 ACTAGCAAGAAAAGTCCATTTATA-TTCACCAATGCCTTTAAAAG
126 ATTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * *
150035 CCTTATTACTTGCATCAAATGGTTTTATAATCTGATAATTGATTTTAAGTTAAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAA-TTTTTTACAT
* * *
150100 TTTCTGTTAAAACACATTATAATTGAATGTCTACCTT-GAGAAACATGAAG-AAAAGCCATTCAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGAAAAAGCCATTCAT
* * * *
150163 TGGCAAGGAAAGTCCATTTATAGTTACCCATGCCTTTACAAG
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * * *
150205 CCTAATTACTCGCTTTAAATAGTTTTATAATCCCATAATTGATTCTAAGTTAAATTTTTTTATAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT-TTAGTTGAA-TTTTTTACAT
* * * * * * *
150270 TTTTGGTGAAAACAGATTATAATTGAGTGTTTGCCTTA-GAAACATGAAA-AAAAAGGC-TACCA
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACAT-AAAGAAAAAGCCAT-TCA
* * * *
150332 TTAGCAAGAAAAGTGCATTTATAG-TCACCCATACCTTTGAAAA-
127 TTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCC-TTCAAAAG
* * * * *
150375 CCTTATTACTAGCTTTAAATGGTTTTACAATTTGATAATTGATTTTAAGTTGAATTGTTTTACCT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAATT-TTTTACAT
* * * * *
150440 TTTTTGTTCAAACAGATTATAATTGAATGTTTACCTCTA-GAAACGTGAAGAAAAAGCCCTTCAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCT-TAGGAAACATAAAGAAAAAGCCATTCAT
* * * * *
150504 TGGCAAGTAAAGTCCATTTATAGTTATCCATACCTTCAAAAA
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * * *
150546 CCTAATTACTCGCTTTCAATGCTTTTATAATCTCATAATTGATTCTAAGCTGAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT-TTAGTTGAA-TTTTTTACAT
* * * * *
150611 TTTTAGTTAAAACAGATTATAAATGAATGTCTGCCTT--GAAAAATATGAAGAAAAAGCCATTGA
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATA--AAGAAAAAGCCATTCA
* * * ** * *
150674 TTAGG-AGGAAAAGTCCATTTCT-GGTCACTTAAGCCTTCGAAAG
127 TT-GGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * *
150717 CCTTATTACTTGCTTTGAATGGTTTTATAATCTCATAATTGATTTTAGATTAAATTGTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAG-TTGAATT-TTTTACAT
* * * * * * ** *
150782 TTTTTGTGAAAACACATTATAATTGATTATTTGCCTT-GAGAAATGTGAAGAAAAAAG-CATTCA
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAG-AAAAAGCCATTCA
* *
150845 TTGGCAAAAAAAGTCCATTTATAG-TCACCCATGCCTTTGAAAA-
127 TTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCC-TTCAAAAG
* * * *
150888 CCTTATTACTTGCTTTAAATAGTTTTATAATCTTATAATTGATTTTAAGCTGAATTTCTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAATTT-TTTACAT
* * * * * * * * * *
150953 TTTTTGCTAAAATAGGTTATAATT-AATGTCTA-TTTCAAGAAACTTGAGGAAAAAGTCATTCAA
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTT-AGGAAACATAAAGAAAAAGCCATTCAT
* * * * * * **
151016 TAGTAA-ACAAAGTCCATTTGT-GTTTACGCACGCCTTTGAAAG
128 TGGCAAGA-AAAGTCCATTTATAG-CTACCCATGCCTTCAAAAG
* *
151058 -CTTAATTACTCAG-TTTAAATAGTTTTATAATCTTATAATTGATTTTAAGTTGAATTTTTATAC
1 CCTT-ATTACTC-GCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAATTTTT-TAC
* * * * * * * *
151121 ATATTTGGTTAAAACAGATTATCATTGAATGTCTA-CTTTGAAAAACGTGAAGAGAAAGCCATTC
62 ATTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGAAAAAGCCATTC
* * *
151185 ACTGGTAAGAAAAGTCCATTTATAGTTACCCATGCCTTCAAAA-
126 ATTGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * *
151228 TCTCAATTACTCGCTTTAAATGATTTTATAATCTCATAATTAATTTTAGTTTGAATTTTTTTACA
1 CCT-TATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAG-TTGAA-TTTTTTACA
* * * * *
151293 TTTTTTGTTAAAACACATTATAATTGGATGTCTACCTTAGAAAACGTAACG-AAAAGCCATTCAT
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
* * * * * **
151357 TGGCAAGAAAAGTCGATTTATAGTTACCTAAGTCTTTGAAAG
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* ** * * *
151399 CCTTATTGCTC-CATTTAAATAATTTTATAATCTAATAATTGATTTTAGGTTGAATCTCTGTACA
1 CCTTATTACTCGC-TTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACA
* * * * **
151463 TTTTTAGTTAAAACATATTAAAATTGAATGTCTGCCTT-GGAAAACATGAAA-AAAAAGCCATAG
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGG-AAACAT-AAAGAAAAAGCCATTC
* * * * ** *
151526 ATTGGCAACAAAAGTTCTTTTCTAG-TCACTTAAGCCTTCAAAAG
126 ATTGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * * * *
151570 CCTTATTGCTCACCTTGAATAGTTTTATAATCTCATAATTGATTCTAAGTTGAATTTTCTTTACG
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATT-TTAGTTGAA-TTT-TTTACA
* * * * * * * * **
151635 TTTTTTATGAAAATAGATTATAATTGGATGCCTACCTTGGGAAACATGAA-AAAAGGGTA-TCAT
63 TTTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCAT
* * * **
151698 TAGCAAGAAAAGTCAATTTATA-TTCACCCATGCCTTTGAAAG
128 TGGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * *
151740 CCTTATTACTCGCTTTTAATGGTTTTATAATCTGATAATTGATTTTAAGTTAAATTTTTTTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-AGTTGAA-TTTTTTACAT
* ** * * *
151805 TTTTTATTAAAACAGATTATAATAAAATGTCTA-CTTCGAGAAACGTTAAGAAAAAG-CATTCAT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAG-GAAACATAAAGAAAAAGCCATTCAT
* * * *
151868 TGACAAGTAAAGTCTATTTATAGTTACCCATGCCTTCAAAAG
128 TGGCAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
* * * *
151910 CCTAATTACTCGCTTTAAATGGTTTTATTATCTCATAATTGATTTTAGGTTGAAAGTTTGTACAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTG-AATTTTTTACAT
* * * * * * ** * *
151975 TTCTAGTTAAAACATATTAAAATTGAATTTCTACATCGGGAAACATGAAGAAAAAGCCATTGATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * * *
152040 AGG-AGGAAAAGTTCATTTCTAG-TCACCCAAGCCTTCAAAAG
129 -GGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
* * * * **
152081 TCTTATTACTCGCTTTGAATGGTTTTAGAATATCATAATTGATTTTAGGTTGAATGTTTTTGTAT
1 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-GTTGAAT-TTTTTACAT
* * * * ** * ** *
152146 TTTTTGTGAAACCATATTATAATTGATTGTCTACCTCGGGAAACATGAAGAAAAAGATATTTATT
64 TTTTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATT
* * **
152211 GGCAAAAAAAGTCTATTTATAG-TCACCCATGCCTTTGAAAG
129 GGCAAGAAAAGTCCATTTATAGCT-ACCCATGCCTTCAAAAG
152252 CCTTATTACTCGCTTTAA
1 CCTTATTACTCGCTTTAA
152270 NNNNNNNNNN
Statistics
Matches: 6285, Mismatches: 1239, Indels: 614
0.77 0.15 0.08
Matches are distributed among these distances:
157 108 0.02
158 123 0.02
159 53 0.01
160 86 0.01
161 1 0.00
162 6 0.00
163 1 0.00
164 2 0.00
165 1 0.00
166 6 0.00
167 10 0.00
168 157 0.02
169 317 0.05
170 1859 0.30
171 2850 0.45
172 455 0.07
173 242 0.04
174 7 0.00
175 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (169 bp):
CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAGTTGAATTTTTTACATTT
TTTGTTAAAACAGATTATAATTGAATGTCTACCTTAGGAAACATAAAGAAAAAGCCATTCATTGG
CAAGAAAAGTCCATTTATAGCTACCCATGCCTTCAAAAG
Found at i:155449 original size:31 final size:32
Alignment explanation
Indices: 155397--155457 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
155387 GTCTTTTGAT
* *
155397 TTTATGTTAACTTTCTTCATTATTTTTTCAAA
1 TTTATGTGAACTTTCTTCATTATTTATTCAAA
*
155429 TTTATGTGAA-TTTTTTCATTATTTATTCA
1 TTTATGTGAACTTTCTTCATTATTTATTCA
155458 CCAAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.61
Consensus pattern (32 bp):
TTTATGTGAACTTTCTTCATTATTTATTCAAA
Found at i:159895 original size:5 final size:5
Alignment explanation
Indices: 159885--159910 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
159875 AGTTATCAAG
159885 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
159911 CCCTTACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:167005 original size:39 final size:39
Alignment explanation
Indices: 166941--167032 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
166931 ATCATTGGAT
* *
166941 TTGTTCTCTACTGGATCCCTATCATGGTTTTCTAATGTA
1 TTGTTCTTTGCTGGATCCCTATCATGGTTTTCTAATGTA
* * *
166980 TTTTTCTTTGCTGGATCTCTATCATGGTTTTCTGATGTA
1 TTGTTCTTTGCTGGATCCCTATCATGGTTTTCTAATGTA
167019 TTGTTCTTTGCTGG
1 TTGTTCTTTGCTGG
167033 GAGCTTCCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.13, C:0.17, G:0.18, T:0.51
Consensus pattern (39 bp):
TTGTTCTTTGCTGGATCCCTATCATGGTTTTCTAATGTA
Found at i:171705 original size:36 final size:36
Alignment explanation
Indices: 171658--171754 Score: 167
Period size: 36 Copynumber: 2.7 Consensus size: 36
171648 TTAATTGTTT
* *
171658 AATTTAATCAATGAGGCCCAATAACTTAATTAAACA
1 AATTTAATCAATTAGGCTCAATAACTTAATTAAACA
*
171694 AATTTAATCAATTAGGCTCAATAACTTGATTAAACA
1 AATTTAATCAATTAGGCTCAATAACTTAATTAAACA
171730 AATTTAATCAATTAGGCTCAATAAC
1 AATTTAATCAATTAGGCTCAATAAC
171755 NNNNNNNNNN
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.31
Consensus pattern (36 bp):
AATTTAATCAATTAGGCTCAATAACTTAATTAAACA
Found at i:174027 original size:34 final size:34
Alignment explanation
Indices: 173984--174055 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
173974 TGGACCTGTC
173984 AACTTGTTTGCATCAAGTATGCTTCTAAGTTACA
1 AACTTGTTTGCATCAAGTATGCTTCTAAGTTACA
174018 AACTTGTTTGCATCAAGTATGCTTCTAAGTTACA
1 AACTTGTTTGCATCAAGTATGCTTCTAAGTTACA
174052 AACT
1 AACT
174056 AGTCGCCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (34 bp):
AACTTGTTTGCATCAAGTATGCTTCTAAGTTACA
Found at i:186064 original size:47 final size:47
Alignment explanation
Indices: 185983--186552 Score: 408
Period size: 47 Copynumber: 12.3 Consensus size: 47
185973 GGCAGGGTTT
* * * *
185983 AGAGTTTGGCGACATGCCATGGAGGAAATTTGTGACACTCCAAAGTTC
1 AGAGTTT-GTGACATGCCATGGAGGGAATCTGTGACACTCCAGAGTTC
* *
186031 AGAGTTTGTGACATGCCATGGAGAGAATCTGTGACACTCTAGAGTTC
1 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACTCCAGAGTTC
* * *
186078 ATAGTTTGTGACATGACATGGAGGGAATCTGTGACACGT-TAGAGTTC
1 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACAC-TCCAGAGTTC
* *** *
186125 AGAG-TT-TGACACTG-CATGGATGGAATCTGTGACACGGTAGTA-TTT
1 AGAGTTTGTGACA-TGCCATGGAGGGAATCTGTGACACTCCAG-AGTTC
** * * *
186170 AGAGTTTGTGACACACCATGGAGGGAATCTGTGACACACCAGTGTTT
1 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACTCCAGAGTTC
* * *
186217 AGAGTTTGTGACACGGCATGGAGGGAATCTGTGACA-TGCCAGAGTTT
1 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACT-CCAGAGTTC
* ** *
186264 AGAG-TTG-GACACAG-CATGGAGGGAATCTGTGACACGACAGGGTTC
1 AGAGTTTGTGACA-TGCCATGGAGGGAATCTGTGACACTCCAGAGTTC
* * *
186309 ATG-GTTTATGACACGCCATGGAGGGAATCTGTGACACGT-CAGTGTTC
1 A-GAGTTTGTGACATGCCATGGAGGGAATCTGTGACAC-TCCAGAGTTC
* * * * * *
186356 AAAGTTAGTGACA--CAAACT-TA-GAAATCTATGACACGT-CAGAGTTC
1 AGAGTTTGTGACATGC-CA-TGGAGGGAATCTGTGACAC-TCCAGAGTTC
* * ** *
186401 AGAG-TT-TGACACTG-CATGGATGGAATATGTGACACGACAGTA-TTT
1 AGAGTTTGTGACA-TGCCATGGAGGGAATCTGTGACACTCCAG-AGTTC
* * * *
186446 AGAGTTTGTGACACGCCATAGAGGGAATCTGTGACA-TGGCAGGGTTC
1 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACT-CCAGAGTTC
* * * * * *
186493 AGGGTTTGTGACATGCCATGGAAGGAATCTGTGAGACGCTAGTGTTC
1 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACTCCAGAGTTC
*
186540 AGAGTTGGTGACA
1 AGAGTTTGTGACA
186553 CAGTAGCGAA
Statistics
Matches: 421, Mismatches: 69, Indels: 65
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.01
44 3 0.01
45 111 0.26
46 21 0.05
47 272 0.65
48 8 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (47 bp):
AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACTCCAGAGTTC
Found at i:186157 original size:139 final size:138
Alignment explanation
Indices: 186028--186545 Score: 578
Period size: 139 Copynumber: 3.7 Consensus size: 138
186018 CACTCCAAAG
* * * *
186028 TTCAGAGTTTGTGACATGCCATGGAGAGAATCTGTGACACTCTAGAGTTCATAGTTTGTGACATG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTC-AGTGTTCAGAGTTTGTGACATG
**
186093 ACATGGAGGGAATCTGTGACACGTTAGAGTTCAGAGTTTGACACTGCATGGATGGAATCTGTGAC
65 ACATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACTGCATGGATGGAATCTGTGAC
**
186158 ACGGTAGTA
130 ACGACAGTA
* * * * *
186167 TTTAGAGTTTGTGACACACCATGGAGGGAATCTGTGACACACCAGTGTTTAGAGTTTGTGACACG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-TCAGTGTTCAGAGTTTGTGACATG
* * * * * *
186232 GCATGGAGGGAATCTGTGACATGCCAGAGTTTAGAGTTGGACACAGCATGGAGGGAATCTGTGAC
65 ACATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACTGCATGGATGGAATCTGTGAC
**
186297 ACGACAGGG
130 ACGACAGTA
* * *
186306 TTCATG-GTTTATGACACGCCATGGAGGGAATCTGTGACACGTCAGTGTTCAAAGTTAGTGACA-
1 TTCA-GAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-TCAGTGTTCAGAGTTTGTGACAT
* * * * * * *
186369 CAAACT-TA-GAAATCTATGACACGTCAGAGTTCAGAGTTTGACACTGCATGGATGGAATATGTG
64 GACA-TGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACTGCATGGATGGAATCTGTG
186432 ACACGACAGTA
128 ACACGACAGTA
* * * *
186443 TTTAGAGTTTGTGACACGCCATAGAGGGAATCTGTGACA-TGGCAGGGTTCAGGGTTTGTGACAT
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACT--CAGTGTTCAGAGTTTGTGACAT
* * * * *
186507 GCCATGGAAGGAATCTGTGAGACGCTAGTGTTCAGAGTT
64 GACATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTT
186546 GGTGACACAG
Statistics
Matches: 309, Mismatches: 61, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
135 1 0.00
136 1 0.00
137 107 0.35
138 4 0.01
139 194 0.63
140 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (138 bp):
TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCAGTGTTCAGAGTTTGTGACATGA
CATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACTGCATGGATGGAATCTGTGACA
CGACAGTA
Found at i:186182 original size:92 final size:94
Alignment explanation
Indices: 186000--186554 Score: 493
Period size: 92 Copynumber: 6.0 Consensus size: 94
185990 GGCGACATGC
* * * *
186000 CATGGAGGAAATTTGTGACAC-TCCAAAGTTCAGAGTTTGTGACA-TGCCATGGAGAGAATCTGT
1 CATGGAGGGAATCTGTGACACGT-CAGAGTTCAGAGTTTGTGACACTGCCATGGAGGGAATCTGT
* * * *
186063 GACACTCTAG-AGTTCATAGTTTGTGACATGA
65 GACACGCTAGTA-TTTAGAGTTTGTGACA-CA
* *
186094 CATGGAGGGAATCTGTGACACGTTAGAGTTCAGAG-TT-TGACACTG-CATGGATGGAATCTGTG
1 CATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTTTGTGACACTGCCATGGAGGGAATCTGTG
*
186156 ACACGGTAGTATTTAGAGTTTGTGACACA
66 ACACGCTAGTATTTAGAGTTTGTGACACA
** * * *
186185 CCATGGAGGGAATCTGTGACACACCAGTGTTTAGAGTTTGTGACAC-GGCATGGAGGGAATCTGT
1 -CATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTTTGTGACACTGCCATGGAGGGAATCTGT
* *
186249 GACATGCCAG-AGTTTAGAG-TTG-GACACA
65 GACACGCTAGTA-TTTAGAGTTTGTGACACA
* * *
186277 GCATGGAGGGAATCTGTGACACGACAGGGTTCATG-GTTTATGACAC-GCCATGGAGGGAATCTG
1 -CATGGAGGGAATCTGTGACACGTCAGAGTTCA-GAGTTTGTGACACTGCCATGGAGGGAATCTG
* * * *
186340 TGACACG-TCAGTGTTCAAAGTTAGTGACACA
64 TGACACGCT-AGTATTTAGAGTTTGTGACACA
* * * * * *
186371 AACT-TA-GAAATCTATGACACGTCAGAGTTCAGAG-TT-TGACACTG-CATGGATGGAATATGT
1 CA-TGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTTTGTGACACTGCCATGGAGGGAATCTGT
*
186431 GACACGAC-AGTATTTAGAGTTTGTGACACGC
65 GACACG-CTAGTATTTAGAGTTTGTGACAC-A
* * * * * *
186462 CATAGAGGGAATCTGTGACATGGCAGGGTTCAGGGTTTGTGACA-TGCCATGGAAGGAATCTGTG
1 CATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTTTGTGACACTGCCATGGAGGGAATCTGTG
* * * *
186526 AGACGCTAGTGTTCAGAGTTGGTGACACA
66 ACACGCTAGTATTTAGAGTTTGTGACACA
186555 GTAGCGAAAG
Statistics
Matches: 375, Mismatches: 61, Indels: 51
0.77 0.13 0.10
Matches are distributed among these distances:
90 44 0.12
91 7 0.02
92 188 0.50
93 22 0.06
94 113 0.30
95 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (94 bp):
CATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTTTGTGACACTGCCATGGAGGGAATCTGTG
ACACGCTAGTATTTAGAGTTTGTGACACA
Found at i:186206 original size:23 final size:23
Alignment explanation
Indices: 186176--186252 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
186166 ATTTAGAGTT
186176 TGTGACACACCATGGAGGGAATC
1 TGTGACACACCATGGAGGGAATC
**** * *
186199 TGTGACACACCAGTGTTTAGAGTT
1 TGTGACACACCA-TGGAGGGAATC
**
186223 TGTGACACGGCATGGAGGGAATC
1 TGTGACACACCATGGAGGGAATC
186246 TGTGACA
1 TGTGACA
186253 TGCCAGAGTT
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
23 24 0.62
24 15 0.38
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (23 bp):
TGTGACACACCATGGAGGGAATC
Found at i:187344 original size:63 final size:63
Alignment explanation
Indices: 187235--187355 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
187225 AACCACAACA
* * * * *
187235 TGATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAGAGAGTTAAGCGACC
1 TGATGACAATGGTGCTCAACAAAGAGTTAACAGAGCTCATACAGTTCACAGAGCTAAGCGACC
* * * *
187298 TGATGACAATGGTGCTTAACAAAGAGTTAACAGAGTTGATATAGTTCACAGAGCTAAG
1 TGATGACAATGGTGCTCAACAAAGAGTTAACAGAGCTCATACAGTTCACAGAGCTAAG
187356 AGAGAAAGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (63 bp):
TGATGACAATGGTGCTCAACAAAGAGTTAACAGAGCTCATACAGTTCACAGAGCTAAGCGACC
Found at i:191371 original size:2 final size:2
Alignment explanation
Indices: 191354--191387 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
191344 TTTCAATTTA
* *
191354 AT AT GT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
191388 GTGTGAGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:197338 original size:2 final size:2
Alignment explanation
Indices: 197333--197357 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
197323 GTTTGTGCGA
197333 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
197358 CCTTGTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:215936 original size:3 final size:3
Alignment explanation
Indices: 215928--215989 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
215918 TTTTCTTATG
*
215928 TTA TTA TTA TTTA TTA TTA TT- TT- TTA -AA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
215971 TTT TTA TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
215990 CTTTTTCCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 9 0.18
3 39 0.76
4 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:215994 original size:11 final size:10
Alignment explanation
Indices: 215931--215995 Score: 69
Period size: 10 Copynumber: 6.1 Consensus size: 10
215921 TCTTATGTTA
*
215931 TTATTATTTA
1 TTATTATTTT
215941 TTATTATTTT
1 TTATTATTTT
215951 TTAAATTATTATT
1 TT--ATTATT-TT
215964 ATTATTA-TTT
1 -TTATTATTTT
215974 TTATTATTTT
1 TTATTATTTT
215984 TTATTACTTTT
1 TTATTA-TTTT
215995 T
1 T
215996 CCTTTAATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 6 0.12
10 22 0.46
11 6 0.12
12 10 0.21
13 2 0.04
14 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTATTTT
Found at i:216247 original size:10 final size:10
Alignment explanation
Indices: 216232--216441 Score: 86
Period size: 10 Copynumber: 21.1 Consensus size: 10
216222 CAACCCTCTC
216232 TTCTCTTTCT
1 TTCTCTTTCT
*
216242 TTCTCTTTTTT
1 TTCTC-TTTCT
*
216253 TTTTCTTCTTCT
1 TTCTC-T-TTCT
216265 TTCTCTTTC-
1 TTCTCTTTCT
***
216274 CGAT-TTTCT
1 TTCTCTTTCT
216283 TTCTCTTTC-
1 TTCTCTTTCT
216292 TTCT-TTT-T
1 TTCTCTTTCT
*
216300 TTCTCTTT-A
1 TTCTCTTTCT
*
216309 TTCTTCCTTCTT
1 TTC-TCTTTC-T
*
216321 TTCTTTTTCT
1 TTCTCTTTCT
216331 TTCTTCTTTC-
1 TTC-TCTTTCT
*
216341 TTCTGTCTTCTT
1 TTCTCT-TTC-T
* *
216353 TTTTCTTTAT
1 TTCTCTTTCT
*
216363 TTCTCTTTCC
1 TTCTCTTTCT
**
216373 GGC-C-TTCT
1 TTCTCTTTCT
216381 TTCTCCTTTC-
1 TTCT-CTTTCT
216391 TTCT-TTT-T
1 TTCTCTTTCT
216399 TTCTCTTTC-
1 TTCTCTTTCT
*
216408 TTCTTCCTTCCT
1 TTC-T-CTTTCT
216420 TTCTCTTTCT
1 TTCTCTTTCT
216430 TTCTTCTTTCT
1 TTC-TCTTTCT
216441 T
1 T
216442 CGCAAGCCTC
Statistics
Matches: 147, Mismatches: 30, Indels: 45
0.66 0.14 0.20
Matches are distributed among these distances:
8 22 0.15
9 21 0.14
10 49 0.33
11 38 0.26
12 17 0.12
ACGTcount: A:0.01, C:0.28, G:0.02, T:0.69
Consensus pattern (10 bp):
TTCTCTTTCT
Found at i:216257 original size:17 final size:18
Alignment explanation
Indices: 216237--216440 Score: 60
Period size: 17 Copynumber: 10.5 Consensus size: 18
216227 CTCTCTTCTC
216237 TTTCTTTCTCTTT-TTTT
1 TTTCTTTCTCTTTCTTTT
216254 TTTC-TTCTTCTTTCTCTTTCCGAT
1 TTTCTTTC-TC-TT-TCTTT----T
216278 TTTCTTTCTCTTTCTTCTT
1 TTTCTTTCTCTTTCTT-TT
*
216297 TTT-TTCTCTTTATTCTTCCTTCT
1 TTTCTT-TCTCT-TTC-T--TT-T
*
216320 TTTCTTTTTCTTTCTTCTT
1 TTTCTTTCTCTTTCTT-TT
* *
216339 TCTTCTGTCTTCTTT-TTTC
1 T-TTCTTTC-TCTTTCTTTT
* ****
216358 TTTATTTCTCTTTCCGGC
1 TTTCTTTCTCTTTCTTTT
* *
216376 CTTCTTTCTCCTTTCTTCT
1 TTTCTTTCT-CTTTCTTTT
216395 TTT-TTTCTCTTTCTTCTT
1 TTTCTTTCTCTTTCTT-TT
*
216413 CCTTCCTTTCTCTTTC-TTT
1 --TTTCTTTCTCTTTCTTTT
*
216432 CTTCTTTCT
1 TTTCTTTCT
216441 TCGCAAGCCT
Statistics
Matches: 139, Mismatches: 22, Indels: 52
0.65 0.10 0.24
Matches are distributed among these distances:
16 3 0.02
17 25 0.18
18 23 0.17
19 23 0.17
20 17 0.12
21 17 0.12
22 8 0.06
23 11 0.08
24 9 0.06
25 3 0.02
ACGTcount: A:0.01, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTCTTTT
Found at i:216313 original size:7 final size:7
Alignment explanation
Indices: 216238--216442 Score: 85
Period size: 7 Copynumber: 31.4 Consensus size: 7
216228 TCTCTTCTCT
216238 TTCTTTC
1 TTCTTTC
216245 -TCTTT-
1 TTCTTTC
216250 TT-TTT-
1 TTCTTTC
216255 TTC-TTC
1 TTCTTTC
216261 TTCTTTC
1 TTCTTTC
216268 -TCTTTC
1 TTCTTTC
*
216274 --CGATT-
1 TTC-TTTC
216279 TTCTTTC
1 TTCTTTC
216286 -TCTTTC
1 TTCTTTC
216292 TTC-TT-
1 TTCTTTC
216297 TT-TTTC
1 TTCTTTC
*
216303 -TCTTTA
1 TTCTTTC
*
216309 TTCTTCC
1 TTCTTTC
216316 TTC-TT-
1 TTCTTTC
216321 TTCTTT-
1 TTCTTTC
216327 TTCTTTC
1 TTCTTTC
216334 TTCTTTC
1 TTCTTTC
*
216341 TTCTGTC
1 TTCTTTC
*
216348 TTCTTTT
1 TTCTTTC
*
216355 TTCTTTAT
1 TTCTTT-C
216363 TTCTCTT-
1 TTCT-TTC
* ***
216370 TCCGGCC
1 TTCTTTC
216377 TTCTTTC
1 TTCTTTC
*
216384 TCCTTTC
1 TTCTTTC
216391 TTC-TT-
1 TTCTTTC
216396 TT-TTTC
1 TTCTTTC
216402 -TCTTTC
1 TTCTTTC
*
216408 TTCTTCC
1 TTCTTTC
216415 TTCCTTTCTC
1 TT-C-TT-TC
216425 TTTCTTTC
1 -TTCTTTC
216433 TTCTTTC
1 TTCTTTC
216440 TTC
1 TTC
216443 GCAAGCCTCT
Statistics
Matches: 151, Mismatches: 21, Indels: 52
0.67 0.09 0.23
Matches are distributed among these distances:
5 21 0.14
6 45 0.30
7 67 0.44
8 8 0.05
9 6 0.04
10 2 0.01
11 2 0.01
ACGTcount: A:0.01, C:0.28, G:0.02, T:0.69
Consensus pattern (7 bp):
TTCTTTC
Found at i:216401 original size:11 final size:11
Alignment explanation
Indices: 216386--216441 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
216376 CTTCTTTCTC
216386 CTTTCTTCTTT
1 CTTTCTTCTTT
*
216397 TTTTC-TCTTT
1 CTTTCTTCTTT
*
216407 C-TTCTTCCTTC
1 CTTTCTT-CTTT
216418 CTTTC-TCTTT
1 CTTTCTTCTTT
216428 CTTTCTTCTTT
1 CTTTCTTCTTT
216439 CTT
1 CTT
216442 CGCAAGCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 3 0.08
10 14 0.38
11 17 0.46
12 3 0.08
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTCTTCTTT
Found at i:216409 original size:57 final size:56
Alignment explanation
Indices: 216321--216428 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 56
216311 CTTCCTTCTT
* * * * *
216321 TTCTTTTTCTTTCTTCTTTCTTCTGTCTTCTTTTTTCTTTATTTCTCTTTCCGGCC
1 TTCTTTTCCTTTCTTCTTTCTTCTCTCTTCTTCTTCCTTCATTTCTCTTTCCGGCC
* *
216377 TTCTTTCTCCTTTCTTCTTT-TTTTCTCTTTCTTCTTCCTTCCTTTCTCTTTC
1 TTCTTT-TCCTTTCTTCTTTCTTCTCTC-TTCTTCTTCCTTCATTTCTCTTTC
216429 TTTCTTCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
56 11 0.26
57 32 0.74
ACGTcount: A:0.01, C:0.30, G:0.03, T:0.67
Consensus pattern (56 bp):
TTCTTTTCCTTTCTTCTTTCTTCTCTCTTCTTCTTCCTTCATTTCTCTTTCCGGCC
Found at i:216412 original size:99 final size:98
Alignment explanation
Indices: 216264--216442 Score: 295
Period size: 99 Copynumber: 1.8 Consensus size: 98
216254 TTTCTTCTTC
** * *
216264 TTTCTCTTTCCGATTTTCTTTCTCTTTCTTCTTTTTTTCTCTTTATTCTTCCTTCTTTTCTTTTT
1 TTTCTCTTTCCGACCTTCTTTCTCTTTCTTCTTTTTTTCTCTTTATTCTTCCTTCCTTTCTCTTT
216329 CTTTCTTCTTTCTTCTGTCTTCTTTTTTCTTTA
66 CTTTCTTCTTTCTTCTGTCTTCTTTTTTCTTTA
* *
216362 TTTCTCTTTCCGGCCTTCTTTCTCCTTTCTTCTTTTTTTCTCTTTCTTCTTCCTTCCTTTCTCTT
1 TTTCTCTTTCCGACCTTCTTTCT-CTTTCTTCTTTTTTTCTCTTTATTCTTCCTTCCTTTCTCTT
216427 TCTTTCTTCTTTCTTC
65 TCTTTCTTCTTTCTTC
216443 GCAAGCCTCT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
98 20 0.27
99 54 0.73
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (98 bp):
TTTCTCTTTCCGACCTTCTTTCTCTTTCTTCTTTTTTTCTCTTTATTCTTCCTTCCTTTCTCTTT
CTTTCTTCTTTCTTCTGTCTTCTTTTTTCTTTA
Found at i:216432 original size:42 final size:40
Alignment explanation
Indices: 216277--216438 Score: 117
Period size: 42 Copynumber: 4.1 Consensus size: 40
216267 CTCTTTCCGA
*
216277 TTTTCTTTCTCTTTCTTCTT-TT-TTTCTCTTT-ATTCTTCC
1 TTTT-TTTCTCTTTCTTCTTCTTCTTTCTCTTTCTTTCTT-C
* * * *
216316 TTCTTTTCTTTTTCTTTCTTCTT-TCTTCTGTCTTCTTTTTTC
1 TTTTTTTCTCTTTC-TTCTTCTTCT-TTCTCT-TTCTTTCTTC
* **
216358 TTTATTTCTCTTTC--CGGCCTTCTTTCTC---CTTTCTTC
1 TTTTTTTCTCTTTCTTC-TTCTTCTTTCTCTTTCTTTCTTC
216394 TTTTTTTCTCTTTCTTCTTCCTTCCTTTCTCTTTCTTTCTTC
1 TTTTTTTCTCTTTCTTCTT-CTT-CTTTCTCTTTCTTTCTTC
216436 TTT
1 TTT
216439 CTTCGCAAGC
Statistics
Matches: 94, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
36 20 0.21
38 13 0.14
39 16 0.17
40 10 0.11
41 6 0.06
42 25 0.27
43 4 0.04
ACGTcount: A:0.01, C:0.28, G:0.02, T:0.69
Consensus pattern (40 bp):
TTTTTTTCTCTTTCTTCTTCTTCTTTCTCTTTCTTTCTTC
Found at i:216439 original size:32 final size:32
Alignment explanation
Indices: 216287--216442 Score: 117
Period size: 32 Copynumber: 4.8 Consensus size: 32
216277 TTTTCTTTCT
*
216287 CTTTCTTCTTT-TTT-TCTCTTTATTCTTCCTTC
1 CTTTC-TCTTTCTTTCT-TCTTTCTTCTTCCTTC
* *
216319 TTTTCTTTTTCTTTCTTCTTTCTTCTGT-CTTC
1 CTTTCTCTTTCTTTCTTCTTTCTTCT-TCCTTC
* * * *
216351 TTTTTTCTTTATTTC-TCTTTCCGGCCTTCTTTC-TC
1 CTTTCTCTTTCTTTCTTCTTT-----CTTCTTCCTTC
*
216386 CTTTCTTCTTTTTTTC-TCTTTCTTCTTCCTTC
1 CTTTC-TCTTTCTTTCTTCTTTCTTCTTCCTTC
216418 CTTTCTCTTTCTTTCTTCTTTCTTC
1 CTTTCTCTTTCTTTCTTCTTTCTTC
216443 GCAAGCCTCT
Statistics
Matches: 101, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
31 25 0.25
32 48 0.48
33 2 0.02
35 6 0.06
36 20 0.20
ACGTcount: A:0.01, C:0.29, G:0.02, T:0.68
Consensus pattern (32 bp):
CTTTCTCTTTCTTTCTTCTTTCTTCTTCCTTC
Found at i:216868 original size:17 final size:17
Alignment explanation
Indices: 216846--216879 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
216836 TTTTGGACAA
216846 TCAGAAAAGGGATTCAT
1 TCAGAAAAGGGATTCAT
216863 TCAGAAAAGGGATTCAT
1 TCAGAAAAGGGATTCAT
216880 GCTTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
TCAGAAAAGGGATTCAT
Found at i:217028 original size:7 final size:7
Alignment explanation
Indices: 217018--217049 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
217008 TGCTTTCAGC
217018 TTTTT-T
1 TTTTTGT
217024 TTTTTGT
1 TTTTTGT
217031 TTTTTGT
1 TTTTTGT
217038 TTTTTGT
1 TTTTTGT
217045 TTTTT
1 TTTTT
217050 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (7 bp):
TTTTTGT
Found at i:217302 original size:58 final size:59
Alignment explanation
Indices: 217210--217392 Score: 201
Period size: 58 Copynumber: 3.1 Consensus size: 59
217200 TTAGACCTAT
* * * * *
217210 CTCGACGTATCTTAAAATAGGTTTGATTTTAAAATTAAAATTCTTA-AGCTTGATCTAGG
1 CTCGACCTATCCTAAAATAGGTTTGACTTAAAAATTAAAATTTTTAGA-CTTGATCTAGG
* * *
217269 CTCG-CCTA-CCTCAACATAGGTTTGACTTAAAAATTAGAATTTTTAGATTTGATCTAGG
1 CTCGACCTATCCT-AAAATAGGTTTGACTTAAAAATTAAAATTTTTAGACTTGATCTAGG
* * * * *
217327 CTCGACCTATCCTAAAATAGGTTCGACTCAAAAAATTGAAATTTTTAGACTTGATCCAAG
1 CTCGACCTATCCTAAAATAGGTTTGACT-TAAAAATTAAAATTTTTAGACTTGATCTAGG
217387 CTCGAC
1 CTCGAC
217393 TTAAAAAATT
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
57 2 0.02
58 45 0.44
59 22 0.21
60 34 0.33
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (59 bp):
CTCGACCTATCCTAAAATAGGTTTGACTTAAAAATTAAAATTTTTAGACTTGATCTAGG
Found at i:217372 original size:60 final size:59
Alignment explanation
Indices: 217240--217392 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 59
217230 GTTTGATTTT
* * * * *
217240 AAAATTAAAATTCTTA-AGCTTGATCTAGGCTCG-CCTACCTCAACATAGGTTTGACTTA
1 AAAATTAGAATTTTTAGA-CTTGATCTAGGCTCGACCTACCTCAAAATAGGTTCGACTAA
*
217298 AAAATTAGAATTTTTAGATTTGATCTAGGCTCGACCTATCCT-AAAATAGGTTCGACTCAA
1 AAAATTAGAATTTTTAGACTTGATCTAGGCTCGACCTA-CCTCAAAATAGGTTCGACT-AA
* *
217358 AAAATT-GAAATTTTTAGACTTGATCCAAGCTCGAC
1 AAAATTAG-AATTTTTAGACTTGATCTAGGCTCGAC
217393 TTAAAAAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
58 28 0.35
59 19 0.23
60 34 0.42
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (59 bp):
AAAATTAGAATTTTTAGACTTGATCTAGGCTCGACCTACCTCAAAATAGGTTCGACTAA
Found at i:217403 original size:39 final size:39
Alignment explanation
Indices: 217349--217434 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
217339 TAAAATAGGT
* **
217349 TCGACTCAAAAAATTGAAATTTTTAGACTTGATCCAAGC
1 TCGACTTAAAAAATTGAAATTCCTAGACTTGATCCAAGC
* *
217388 TCGACTTAAAAAATTGAAATTCCTAGACTTGATCTAGGC
1 TCGACTTAAAAAATTGAAATTCCTAGACTTGATCCAAGC
217427 TCGACTTA
1 TCGACTTA
217435 TATCAAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (39 bp):
TCGACTTAAAAAATTGAAATTCCTAGACTTGATCCAAGC
Found at i:218450 original size:20 final size:21
Alignment explanation
Indices: 218417--218458 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
218407 AAGTGATTAA
218417 TTTAAGTTATTTTAGTTAAAT
1 TTTAAGTTATTTTAGTTAAAT
* *
218438 TTTAGGTTA-TTTATTTAAAT
1 TTTAAGTTATTTTAGTTAAAT
218458 T
1 T
218459 ACTTTAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTAAGTTATTTTAGTTAAAT
Found at i:233640 original size:37 final size:37
Alignment explanation
Indices: 233599--233675 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
233589 GACAAACAAA
* *
233599 AAAGCGTCTGAAAAGCAGCCGAAAGTGCAACAGTGCT
1 AAAGCGTCTGAAAAGCAACCGAAAGCGCAACAGTGCT
*
233636 AAAGCGTCTGAAAAGCAACCGGAAGCGCAACAGTGCT
1 AAAGCGTCTGAAAAGCAACCGAAAGCGCAACAGTGCT
233673 AAA
1 AAA
233676 ACGCACTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (37 bp):
AAAGCGTCTGAAAAGCAACCGAAAGCGCAACAGTGCT
Found at i:234966 original size:11 final size:11
Alignment explanation
Indices: 234950--234998 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
234940 AATGTCAAAA
234950 GTAAATGAAAT
1 GTAAATGAAAT
234961 GTAAATGAAAAT
1 GTAAATG-AAAT
*
234973 G-AAATGAAAA
1 GTAAATGAAAT
*
234983 GAAAATGAAAT
1 GTAAATGAAAT
234994 GTAAA
1 GTAAA
234999 AGGGATAGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 4 0.12
11 24 0.73
12 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.20
Consensus pattern (11 bp):
GTAAATGAAAT
Found at i:234972 original size:6 final size:6
Alignment explanation
Indices: 234952--234992 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
234942 TGTCAAAAGT
*
234952 AAATG- AAATGT AAATGA AAATG- AAATGA AAA-GA AAATGA AA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AA
234993 TGTAAAAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAATGA
Found at i:234977 original size:5 final size:5
Alignment explanation
Indices: 234952--234994 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
234942 TGTCAAAAGT
*
234952 AAATG AAATG TAAATG AAAATG AAATG AAAAG AAAATG AAATG
1 AAATG AAATG -AAATG -AAATG AAATG AAATG -AAATG AAATG
234995 TAAAAGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 19 0.58
6 14 0.42
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:238958 original size:29 final size:29
Alignment explanation
Indices: 238909--238987 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 29
238899 TTCAAGCGTA
*
238909 CATGTTG-AAAAAAAATGTTATTACAAGT
1 CATGTTGAAAAAAAAATATTATTACAAGT
*
238937 CATGTTGAAAAAAAAATATTATTACAATT
1 CATGTTGAAAAAAAAATATTATTACAAGT
*
238966 CATGTTGAAAAGAAAATTATTA
1 CATGTTGAAAA-AAAAATATTA
238988 CACACCATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 7 0.15
29 30 0.65
30 9 0.20
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.33
Consensus pattern (29 bp):
CATGTTGAAAAAAAAATATTATTACAAGT
Found at i:244182 original size:2 final size:2
Alignment explanation
Indices: 244175--244209 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
244165 TTCTTTCCCA
244175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
244210 AAACAAGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:244890 original size:29 final size:29
Alignment explanation
Indices: 244858--244913 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
244848 AAGAAAAAAA
244858 ATTAA-AATAAAAAGTTTAAAATTTTAATT
1 ATTAATAATAAAAAGTTT-AAATTTTAATT
* *
244887 ATTAATGATAAAAAGTTTATATTTTAA
1 ATTAATAATAAAAAGTTTAAATTTTAA
244914 GTTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (29 bp):
ATTAATAATAAAAAGTTTAAATTTTAATT
Found at i:244913 original size:22 final size:22
Alignment explanation
Indices: 244875--244942 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
244865 TAAAAAGTTT
*
244875 AAAATTTTA-ATTATTAATGATA
1 AAAAATTTATATT-TTAATGATA
* *
244897 AAAAGTTTATATTTTAA-GTTA
1 AAAAATTTATATTTTAATGATA
*
244918 AAAAATATTAATATTTTAATCATA
1 AAAAAT-TT-ATATTTTAATGATA
244942 A
1 A
244943 CAATGATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 8 0.22
22 14 0.38
23 12 0.32
24 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (22 bp):
AAAAATTTATATTTTAATGATA
Found at i:247900 original size:13 final size:14
Alignment explanation
Indices: 247875--247904 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
247865 TTCTATTACT
247875 TTTATTATTATTTA
1 TTTATTATTATTTA
247889 TTTATT-TTATTTA
1 TTTATTATTATTTA
247902 TTT
1 TTT
247905 TAACTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:255011 original size:236 final size:237
Alignment explanation
Indices: 254555--255041 Score: 906
Period size: 236 Copynumber: 2.1 Consensus size: 237
254545 AATATCTTTT
*
254555 TTCTTTTTTCCATTTTATAATTTTTTAAAGGACAAAAGAAATAGAAGAAAAGAATTTTTTGTTTT
1 TTCTTTTTTCCATTTTATAATTTTTTAAAAGACAAAAGAAATAGAAGAAAAGAATTTTTTGTTTT
*
254620 CTTTTTCTTGCCTTTTTTTTTGTTTGAAAAGACATCACTTAAAGAAAAGAACTCTTTTTTTTGTT
66 CTTTTCCTTGCCTTTTTTTTTGTTTGAAAAGACATCACTTAAAGAAAAGAACTCTTTTTTTTGTT
254685 TTTTTTTCAATACATTTTTTATCTTTTCGAACTAACCCAAATGCCATTAAGGGTGAAATAGTCAA
131 TTTTTTTCAATACATTTTTTATCTTTTCGAACTAACCCAAATGCCATTAAGGGTGAAATAGTCAA
*
254750 CATTAATGTCGATATTGGCATAGTCATCCACTTTACAGTTCA
196 CATTAATGTCGATATTGGCATAGTCATCAACTTTACAGTTCA
254792 TTCTTTTTTCCATTTTATAATTTTTTAAAAGACAAAAGAAATAGAAGAAAAGAATTTTTTGTTTT
1 TTCTTTTTTCCATTTTATAATTTTTTAAAAGACAAAAGAAATAGAAGAAAAGAATTTTTTGTTTT
254857 CTTTTCCTTGCCTTTTTTTTTTGTTTGAAAAGACATCACTTAAAGAAAAGAACTC-TTTTTTTG-
66 CTTTTCCTTGCC-TTTTTTTTTGTTTGAAAAGACATCACTTAAAGAAAAGAACTCTTTTTTTTGT
254920 TTTTTTTTCAATACATTTTTTATCTTTTCGAACTAACCCAAATGCCATTAAGGGTGAAATAGTCA
130 TTTTTTTTCAATACATTTTTTATCTTTTCGAACTAACCCAAATGCCATTAAGGGTGAAATAGTCA
254985 ACATTAATGTCGATATTGGCATAGTCATCAACTTTACAGTTCA
195 ACATTAATGTCGATATTGGCATAGTCATCAACTTTACAGTTCA
* *
255028 TTCTATTGTCCATT
1 TTCTTTTTTCCATT
255042 ATTTTCATAA
Statistics
Matches: 244, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
236 119 0.49
237 83 0.34
238 42 0.17
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (237 bp):
TTCTTTTTTCCATTTTATAATTTTTTAAAAGACAAAAGAAATAGAAGAAAAGAATTTTTTGTTTT
CTTTTCCTTGCCTTTTTTTTTGTTTGAAAAGACATCACTTAAAGAAAAGAACTCTTTTTTTTGTT
TTTTTTTCAATACATTTTTTATCTTTTCGAACTAACCCAAATGCCATTAAGGGTGAAATAGTCAA
CATTAATGTCGATATTGGCATAGTCATCAACTTTACAGTTCA
Found at i:257620 original size:9 final size:9
Alignment explanation
Indices: 257580--257668 Score: 65
Period size: 9 Copynumber: 9.4 Consensus size: 9
257570 GACTAATTTT
257580 TTTTTA-TA
1 TTTTTATTA
*
257588 TTTTCTATATC
1 TTTT-TAT-TA
257599 TTCTTTATATA
1 TT-TTTAT-TA
*
257610 TTTTTACTA
1 TTTTTATTA
257619 TTTTTATTA
1 TTTTTATTA
*
257628 CTTTTATTA
1 TTTTTATTA
*
257637 TTATTATTA
1 TTTTTATTA
257646 TTATTTATT-
1 TT-TTTATTA
*
257655 TTTCTACTTA
1 TTTTTA-TTA
257665 TTTT
1 TTTT
257669 AACTTCTTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 7 0.11
9 33 0.52
10 12 0.19
11 10 0.16
12 2 0.03
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATTA
Found at i:262254 original size:60 final size:60
Alignment explanation
Indices: 262169--262290 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
262159 AAAATAATTT
* * * * **
262169 GAATGTGAATTTGCTATCATGTAGTATGTATA-ATATTTTATTTCTTGATTTATTAAATCA
1 GAATATGAATTTCCTACCATATAGTATGTA-ACATATTTTATCCCTTGATTTATTAAATCA
* *
262229 GAATATGAATTTCCTACCATATAGTATTTAACATATTTTGTCCCTTGATTTATTAAATCA
1 GAATATGAATTTCCTACCATATAGTATGTAACATATTTTATCCCTTGATTTATTAAATCA
262289 GA
1 GA
262291 TTAAGCATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.02
60 52 0.98
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (60 bp):
GAATATGAATTTCCTACCATATAGTATGTAACATATTTTATCCCTTGATTTATTAAATCA
Found at i:265501 original size:19 final size:19
Alignment explanation
Indices: 265455--265492 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
265445 TTTTCATATT
*
265455 TAATTAATTTGATAATACA
1 TAATTAAATTGATAATACA
*
265474 TAATAAAATTGA-AATACA
1 TAATTAAATTGATAATACA
265492 T
1 T
265493 CTATTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
TAATTAAATTGATAATACA
Found at i:267519 original size:16 final size:14
Alignment explanation
Indices: 267500--267615 Score: 73
Period size: 16 Copynumber: 8.2 Consensus size: 14
267490 AAATTATAAA
267500 TAAAATATTAATATTT
1 TAAAATATTAATA--T
*
267516 TAAAACATTAATGAT
1 TAAAATATTAAT-AT
*
267531 TAAATTA-TAA-A-
1 TAAAATATTAATAT
267542 TAAAATATTAATATTT
1 TAAAATATTAATA--T
*
267558 TAAAACATTAATGAT
1 TAAAATATTAAT-AT
*
267573 TAAATTA-TAA-A-
1 TAAAATATTAATAT
267584 TAAAATATTAATAT
1 TAAAATATTAATAT
* *
267598 TTAAATAATTATTAT
1 TAAAAT-ATTAATAT
267613 TAA
1 TAA
267616 TATTTTAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 23
0.70 0.10 0.21
Matches are distributed among these distances:
11 12 0.15
12 8 0.10
13 2 0.03
14 11 0.14
15 21 0.27
16 22 0.28
17 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
TAAAATATTAATAT
Found at i:267535 original size:42 final size:42
Alignment explanation
Indices: 267489--267628 Score: 223
Period size: 42 Copynumber: 3.4 Consensus size: 42
267479 TTATAAAAAA
267489 TAAATTATAAATAAAATATTAATATTTTAAAACATTAATGAT
1 TAAATTATAAATAAAATATTAATATTTTAAAACATTAATGAT
267531 TAAATTATAAATAAAATATTAATATTTTAAAACATTAATGAT
1 TAAATTATAAATAAAATATTAATATTTTAAAACATTAATGAT
*
267573 TAAATTATAAATAAAATATTAATA-TTTAAATA-ATT-ATTAT
1 TAAATTATAAATAAAATATTAATATTTTAAA-ACATTAATGAT
*
267613 TAATATTTTAAATAAA
1 TAA-ATTATAAATAAA
267629 TTATGAATTA
Statistics
Matches: 94, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
40 7 0.07
41 20 0.21
42 67 0.71
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (42 bp):
TAAATTATAAATAAAATATTAATATTTTAAAACATTAATGAT
Found at i:267543 original size:84 final size:83
Alignment explanation
Indices: 267445--267628 Score: 205
Period size: 84 Copynumber: 2.2 Consensus size: 83
267435 AATTTATATT
* **
267445 TTAAATTTAAAAATAAAAATTATTAACATTTT-AATTA-TAAAAAATAAATTATAAATAAAATAT
1 TTAAA-TTATAAATAAAAA-TATTAACATTTTAAAACATTAAAAAATAAATTATAAATAAAATAT
267508 TAATATTTTAAA-ACATTAATGA
64 TAATA-TTTAAATA-ATT-ATGA
* ** *
267530 TTAAATTATAAAT-AAAATATTAATATTTTAAAACATTAATGATTAAATTATAAATAAAATATTA
1 TTAAATTATAAATAAAAATATTAACATTTTAAAACATTAAAAAATAAATTATAAATAAAATATTA
*
267594 ATATTTAAATAATTATTA
66 ATATTTAAATAATTATGA
*
267612 TTAATATTTTAAATAAA
1 TTAA-ATTATAAATAAA
267629 TTATGAATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
82 18 0.21
83 24 0.28
84 38 0.45
85 5 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (83 bp):
TTAAATTATAAATAAAAATATTAACATTTTAAAACATTAAAAAATAAATTATAAATAAAATATTA
ATATTTAAATAATTATGA
Found at i:274951 original size:29 final size:29
Alignment explanation
Indices: 274906--274993 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
274896 CACTTTAAAT
*
274906 TAGGGTGTACTATCAATAGAAACAAGAAC
1 TAGGGTGTACTACCAATAGAAACAAGAAC
274935 TAGGGTGTACTACCAATAGAAACAAGAAC
1 TAGGGTGTACTACCAATAGAAACAAGAAC
*
274964 TAGGGTGCACTACCAATAGAAACAAGAAC
1 TAGGGTGTACTACCAATAGAAACAAGAAC
274993 T
1 T
274994 CTAGCTTCTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.18
Consensus pattern (29 bp):
TAGGGTGTACTACCAATAGAAACAAGAAC
Found at i:282920 original size:6 final size:6
Alignment explanation
Indices: 282909--282938 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
282899 AAGTACAATT
282909 ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC
1 ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC
282939 GTATGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCTAC
Found at i:284591 original size:23 final size:22
Alignment explanation
Indices: 284550--284680 Score: 140
Period size: 23 Copynumber: 5.9 Consensus size: 22
284540 AACATTTTTA
* *
284550 TTGAACATGGCATGTAACATGTT
1 TTGAACATAGCGTGTAACAT-TT
* *
284573 GTGAACATAGCGTGCAACAATTT
1 TTGAACATAGCGTGTAAC-ATTT
* *
284596 TTGAAC-TTGCGTGAAACATTT
1 TTGAACATAGCGTGTAACATTT
*
284617 TTGAACATGGCGTGTAACATTTT
1 TTGAACATAGCGTGTAACA-TTT
*
284640 TTGAACACAGCGTGTAACATTT
1 TTGAACATAGCGTGTAACATTT
284662 TTGAACAT-GACGTGTAACA
1 TTGAACATAG-CGTGTAACA
284681 ATATGACTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
21 11 0.12
22 38 0.41
23 41 0.45
24 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (22 bp):
TTGAACATAGCGTGTAACATTT
Found at i:284668 original size:45 final size:44
Alignment explanation
Indices: 284562--284682 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 44
284552 GAACATGGCA
* * * **
284562 TGTAACATGTTGTGAACATAGCGTGCAACAATTTTTGAACTTGCG
1 TGTAACAT-TTTTGAACATGGCGTGTAACAATTTTTGAACCAGCG
* *
284607 TGAAACATTTTTGAACATGGCGTGTAACATTTTTTGAACACAGCG
1 TGTAACATTTTTGAACATGGCGTGTAACAATTTTTGAAC-CAGCG
*
284652 TGTAACATTTTTGAACATGACGTGTAACAAT
1 TGTAACATTTTTGAACATGGCGTGTAACAAT
284683 ATGACTAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 27 0.42
45 38 0.58
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (44 bp):
TGTAACATTTTTGAACATGGCGTGTAACAATTTTTGAACCAGCG
Found at i:288383 original size:13 final size:14
Alignment explanation
Indices: 288346--288386 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
288336 TAGTTTAATG
288346 AAAAGAAAGACAAAA
1 AAAAGAAAGA-AAAA
*
288361 ATAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
288375 AAAAG-AAGAAAA
1 AAAAGAAAGAAAA
288387 GAAATTCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.29
14 8 0.33
15 9 0.38
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:288803 original size:76 final size:76
Alignment explanation
Indices: 288668--288974 Score: 339
Period size: 76 Copynumber: 4.0 Consensus size: 76
288658 ACATCAACCA
* * * *
288668 CACGCTCC-AATTGTTAGATGTCGATGATATCTTGTGGTGACACGCAGAGTGGTTATAGTATTAT
1 CACGC-CCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAGTGGTTGTAGTATTAT
288732 AAGGTGACACGC
65 AAGGTGACACGC
* * * * *
288744 CATGTCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGGGTGGTTGTAGTAATATC
1 CACGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAGTGGTTGTAGTATTATA
* * *
288809 GGGTGATATGC
66 AGGTGACACGC
* * *
288820 CACGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGAAACACTGAGTGGTCGTGGTATTA-A
1 CACGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAGTGGTTGTAGTATTATA
* *
288884 GGGGTGACACAC
66 -AGGTGACACGC
* * * * * * * *
288896 CACGCCCCAATTGTTAGATATCAATCACATTTTGTTGTGACACATTGAGTGATTGTAGTATTATA
1 CACGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAGTGGTTGTAGTATTATA
* *
288961 AGGTTACATGC
66 AGGTGACACGC
288972 CAC
1 CAC
288975 CCTTACTTTT
Statistics
Matches: 190, Mismatches: 38, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
75 2 0.01
76 187 0.98
77 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (76 bp):
CACGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAGTGGTTGTAGTATTATA
AGGTGACACGC
Found at i:293215 original size:31 final size:31
Alignment explanation
Indices: 293180--293284 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
293170 GAAACAAAAA
* *
293180 AAAATGTTGTTATACGCTATGCATACCAACT
1 AAAATGTTGTTACACGCTATGCATACCAAAT
* * * *
293211 AAAATGTTATTACACGTTATGCTTACCAAGT
1 AAAATGTTGTTACACGCTATGCATACCAAAT
* *
293242 AAAATGTTCTTACACGCTA-ACTATACCAAAT
1 AAAATGTTGTTACACGCTATGC-ATACCAAAT
*
293273 CAAATGTTGTTA
1 AAAATGTTGTTA
293285 TACACTAAGT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 1 0.02
31 60 0.98
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (31 bp):
AAAATGTTGTTACACGCTATGCATACCAAAT
Found at i:299099 original size:87 final size:87
Alignment explanation
Indices: 298993--299164 Score: 229
Period size: 87 Copynumber: 2.0 Consensus size: 87
298983 CATGACATGC
* * *
298993 CAACCATGTTGTGTTGTGACACACCAATCACTATAATTGCTATCTCATTACACAAACTGCCCTAA
1 CAACCATGTTGTGTCGTGACACACCAATCACTATAATTACTAACTCATTACACAAACTGCCCTAA
* *
299058 AATACAC-AATGTGGTGACACAT
66 AACAC-CTAATGTGATGACACAT
* ** * * *
299080 CAACTATGTTGTGTCGTGACATGCGAATCACTATAATTACTAACTCGTTACACGAACTGCCCTAA
1 CAACCATGTTGTGTCGTGACACACCAATCACTATAATTACTAACTCATTACACAAACTGCCCTAA
299145 AACACCTAATGTGATGACAC
66 AACACCTAATGTGATGACAC
299165 GCTAAAAACC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 1 0.01
87 72 0.99
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (87 bp):
CAACCATGTTGTGTCGTGACACACCAATCACTATAATTACTAACTCATTACACAAACTGCCCTAA
AACACCTAATGTGATGACACAT
Found at i:299754 original size:23 final size:22
Alignment explanation
Indices: 299728--299832 Score: 111
Period size: 23 Copynumber: 4.6 Consensus size: 22
299718 CATATTCAAG
*
299728 CCATGCCGTGTCACAGTTTCTCA
1 CCATGCCGTGTCACAGATT-TCA
*
299751 CCATGTCGTGTCACAGATTCTCA
1 CCATGCCGTGTCACAGATT-TCA
* *
299774 CCATTCCGTCTCACATGATTTCA
1 CCATGCCGTGTCACA-GATTTCA
* *
299797 ACATGCCATGTCACAGATTTTCA
1 CCATGCCGTGTCACAGA-TTTCA
*
299820 CCATGCCATGTCA
1 CCATGCCGTGTCA
299833 TACATTCACG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
22 2 0.03
23 64 0.91
24 4 0.06
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.30
Consensus pattern (22 bp):
CCATGCCGTGTCACAGATTTCA
Found at i:300094 original size:23 final size:23
Alignment explanation
Indices: 299972--300139 Score: 89
Period size: 23 Copynumber: 7.4 Consensus size: 23
299962 CCATGTCACA
* *
299972 GTCGCGTCATATATGCTCACCAT
1 GTCGTGTCATATATTCTCACCAT
* *
299995 G-CTGTCTCATATATTCTCACCAC
1 GTC-GTGTCATATATTCTCACCAT
* * *
300018 GGCATGTCACATATTCAT-ACCAT
1 GTCGTGTCATATATTC-TCACCAT
* * *
300041 GACATGTCACAT-TT-TCA-CAT
1 GTCGTGTCATATATTCTCACCAT
*
300061 -TCGCGTTTCATATATTCTCACCAT
1 GT--CGTGTCATATATTCTCACCAT
* * *
300085 GTCGTCTCATATATTC-CTTCCAA
1 GTCGTGTCATATATTCTC-ACCAT
* * *
300108 GTTGTGTCACATATTCTCACCTT
1 GTCGTGTCATATATTCTCACCAT
300131 GTCGTGTCA
1 GTCGTGTCA
300140 CAAACTCTAA
Statistics
Matches: 110, Mismatches: 23, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
20 4 0.04
21 8 0.07
22 6 0.05
23 85 0.77
24 6 0.05
25 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (23 bp):
GTCGTGTCATATATTCTCACCAT
Found at i:300268 original size:23 final size:23
Alignment explanation
Indices: 300194--300251 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
300184 ACCATAACGG
300194 GTCACACATTCCTAGTATGCCGT
1 GTCACACATTCCTAGTATGCCGT
300217 GTCACACATTCCTAGTATGCCGT
1 GTCACACATTCCTAGTATGCCGT
300240 GTCACACATTCC
1 GTCACACATTCC
300252 CACCATGGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.29
Consensus pattern (23 bp):
GTCACACATTCCTAGTATGCCGT
Found at i:310569 original size:30 final size:30
Alignment explanation
Indices: 310533--310600 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
310523 TTCTTATATT
310533 TTTTTATATTTTTATTTTAAAT-TAAATAAA
1 TTTTTATATTTTTATTTT-AATGTAAATAAA
*
310563 TTTTTATATTTTTATTTTGATGTAAATAAA
1 TTTTTATATTTTTATTTTAATGTAAATAAA
310593 TTTTTATA
1 TTTTTATA
310601 ACTGAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTTATATTTTTATTTTAATGTAAATAAA
Found at i:312903 original size:38 final size:38
Alignment explanation
Indices: 312861--312983 Score: 104
Period size: 38 Copynumber: 3.1 Consensus size: 38
312851 TATTTATCTC
312861 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
1 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
* * ** * * * ** *
312899 TCAAATATTAGCTATTGGTCATCCA-ATTTATCTCTAAACAAA
1 TCAAA-A-TA-AT-TTAGAGAT-AATATTTATATTTTGACCAA
312941 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
1 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
312979 TCAAA
1 TCAAA
312984 TATTAGCTAT
Statistics
Matches: 59, Mismatches: 20, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
37 1 0.02
38 27 0.46
39 2 0.03
40 4 0.07
41 2 0.03
42 22 0.37
43 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (38 bp):
TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
Found at i:312929 original size:42 final size:42
Alignment explanation
Indices: 312882--313009 Score: 104
Period size: 42 Copynumber: 3.1 Consensus size: 42
312872 TAGAGATAAT
*
312882 ATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCCA
1 ATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCAA
* * ** * * * **
312924 ATTTATCTCTAAACAAATCAAA-A-TA-AT-TTAGAGAT-AA
1 ATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCAA
* *
312961 TATTTATATTTTGACCAATCAAATATTAGCTATTGGTCTTCTA
1 -ATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCAA
313004 ATTTAT
1 ATTTAT
313010 CTCTAAATAA
Statistics
Matches: 59, Mismatches: 21, Indels: 12
0.64 0.23 0.13
Matches are distributed among these distances:
37 1 0.02
38 22 0.37
39 2 0.03
40 4 0.07
41 2 0.03
42 27 0.46
43 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (42 bp):
ATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCAA
Found at i:312947 original size:80 final size:80
Alignment explanation
Indices: 312861--313096 Score: 332
Period size: 80 Copynumber: 2.9 Consensus size: 80
312851 TATTTATCTC
*
312861 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCCAAT
1 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCTAAT
312926 TTATCTCTAAACAAA
66 TTATCTCTAAACAAA
*
312941 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAATCAAATATTAGCTATTGGTCTTCTAAT
1 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCTAAT
*
313006 TTATCTCTAAATAAA
66 TTATCTCTAAACAAA
* * * * ** *
313021 TCAAAATAATTT-GAAGATAATCTTCATATTTTTGAGCAATTAAA-ATTTAATTATTGGTCATTT
1 TCAAAATAATTTAG-AGATAATATTTATA-TTTTGACCAATCAAATA-TTAGCTATTGGTCATCT
*
313084 AAATTATCTCTAA
63 AATTTATCTCTAA
313097 TAATTATACT
Statistics
Matches: 141, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 1 0.01
80 102 0.72
81 38 0.27
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (80 bp):
TCAAAATAATTTAGAGATAATATTTATATTTTGACCAATCAAATATTAGCTATTGGTCATCTAAT
TTATCTCTAAACAAA
Found at i:334475 original size:38 final size:38
Alignment explanation
Indices: 334433--334555 Score: 95
Period size: 38 Copynumber: 3.1 Consensus size: 38
334423 TATTTATCTC
*
334433 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAG
1 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
* ** * * * ** *
334471 TCAAATATTAGCTATTAGTCATCCA-ATTTATCTCTAAACAAA
1 TCAAA-A-TA-AT-TTAGAGAT-AATATTTATATTTTGACCAA
*
334513 TCCAAATAATTTAGAGATAATATTTATATTTTGACCAA
1 TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
334551 TCAAA
1 TCAAA
334556 TATTAGCTAT
Statistics
Matches: 58, Mismatches: 21, Indels: 12
0.64 0.23 0.13
Matches are distributed among these distances:
37 1 0.02
38 27 0.47
39 2 0.03
40 4 0.07
41 2 0.03
42 21 0.36
43 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.37
Consensus pattern (38 bp):
TCAAAATAATTTAGAGATAATATTTATATTTTGACCAA
Found at i:337612 original size:19 final size:19
Alignment explanation
Indices: 337585--337627 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
337575 AATAAAACAA
* * *
337585 TATGTGATAGATTTAATTT
1 TATGCGATAGATTAAATGT
*
337604 TATGCGATATATTAAATGT
1 TATGCGATAGATTAAATGT
337623 TATGC
1 TATGC
337628 CTGCTAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
TATGCGATAGATTAAATGT
Found at i:340819 original size:13 final size:14
Alignment explanation
Indices: 340793--340834 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
340783 TTAAATTTTT
340793 TTAA-TTTATATTA
1 TTAATTTTATATTA
340806 TTAATTTTAT-TTA
1 TTAATTTTATATTA
**
340819 TTTTTTTTATATTA
1 TTAATTTTATATTA
340833 TT
1 TT
340835 TGTTCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTAATTTTATATTA
Found at i:341278 original size:20 final size:22
Alignment explanation
Indices: 341241--341280 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
341231 TATTTAATTA
341241 TTTATATTTTATGTATTATAGT
1 TTTATATTTTATGTATTATAGT
341263 TTTATA-TTTA-GTATTATA
1 TTTATATTTTATGTATTATA
341281 AATTCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTATATTTTATGTATTATAGT
Found at i:342235 original size:15 final size:15
Alignment explanation
Indices: 342215--342246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
342205 TAATGTTATA
342215 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
342230 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
342245 AT
1 AT
342247 AATATAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:342394 original size:27 final size:26
Alignment explanation
Indices: 342331--342401 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 26
342321 AAATTAAAAT
*
342331 ATATAATATAAA-AAAATATATTAGA
1 ATATAATATAAATAAAATATATAAGA
*
342356 AGA-AATGA-AAATAAAATATATAAGA
1 ATATAAT-ATAAATAAAATATATAAGA
*
342381 TTATAATAATAAATGAAAATA
1 ATATAAT-ATAAAT-AAAATA
342402 AAATATATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 6 0.17
25 16 0.44
26 4 0.11
27 4 0.11
28 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (26 bp):
ATATAATATAAATAAAATATATAAGA
Found at i:342456 original size:54 final size:54
Alignment explanation
Indices: 342398--342568 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 54
342388 AATAAATGAA
* * *
342398 AATAAAATATATGATGTTAAAAATGTATTTAAGATATGATATTATATAAAAATTAAT
1 AATAAAATATATGATATTAAAAATATATTTAAGAGATGATATTATATAAAAA-T--T
* * * * * *
342455 AATAAAAAATATAAAT-ATATTAAAAATAAAATATAAAAGATTATAATA-ATAAATAA-A
1 AAT--AAAATAT--ATGATATTAAAAAT-ATATTTAAGAGATGATATTATATAAA-AATT
342512 AAT-AAA-ATATGATATTAAAAATATATTTAAGAGATGATATTATATAAAAATT
1 AATAAAATATATGATATTAAAAATATATTTAAGAGATGATATTATATAAAAATT
342564 AATAA
1 AATAA
342569 TAAAAAATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
51 19 0.21
52 19 0.21
53 3 0.03
54 3 0.03
57 6 0.07
59 7 0.08
60 15 0.17
61 17 0.19
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (54 bp):
AATAAAATATATGATATTAAAAATATATTTAAGAGATGATATTATATAAAAATT
Found at i:342466 original size:22 final size:23
Alignment explanation
Indices: 342441--342513 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 23
342431 ATATGATATT
342441 ATATAAAA-ATTAATAATAAAAA
1 ATATAAAAGATTAATAATAAAAA
* *
342463 ATATAAATATATTAA-AA-ATAAA
1 ATATAAA-AGATTAATAATAAAAA
*
342485 ATATAAAAGATT-ATAATAATAA
1 ATATAAAAGATTAATAATAAAAA
342507 ATA-AAAA
1 ATATAAAA
342514 TAAAATATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 1 0.02
21 10 0.23
22 24 0.56
23 3 0.07
24 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (23 bp):
ATATAAAAGATTAATAATAAAAA
Found at i:342479 original size:16 final size:13
Alignment explanation
Indices: 342441--342518 Score: 52
Period size: 15 Copynumber: 5.6 Consensus size: 13
342431 ATATGATATT
342441 ATATAAAAATTAATA
1 ATATAAAAA-TAA-A
*
342456 ATAAAAAATATAAA
1 ATATAAAA-ATAAA
342470 TATATTAAAAATAAA
1 -ATA-TAAAAATAAA
*
342485 ATATAAAAGATTATA
1 ATATAAAA-A-TAAA
*
342500 ATA-ATAAATAAA
1 ATATAAAAATAAA
342512 A-ATAAAA
1 ATATAAAA
342519 TATGATATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
11 1 0.02
12 7 0.14
13 6 0.12
14 8 0.16
15 24 0.47
16 5 0.10
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:342552 original size:112 final size:114
Alignment explanation
Indices: 342363--342590 Score: 397
Period size: 112 Copynumber: 2.0 Consensus size: 114
342353 AGAAGAAATG
* * * *
342363 AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGATGTTAAAAATGTATTT
1 AAAATAAAATATAAAAGATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTT
*
342428 AAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
66 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
342477 AAAATAAAATATAAAAGATTATAATAATAAATAAAAAT-AAA-ATATGATATTAAAAATATATTT
1 AAAATAAAATATAAAAGATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTT
342540 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
66 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
342589 AA
1 AA
342591 CTTGTATTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 70 0.64
113 3 0.03
114 36 0.33
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (114 bp):
AAAATAAAATATAAAAGATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTT
AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
Found at i:354130 original size:7 final size:7
Alignment explanation
Indices: 354118--354149 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
354108 CAACCAAAGA
354118 AATTCAG
1 AATTCAG
354125 AATTCAG
1 AATTCAG
*
354132 AATTCAA
1 AATTCAG
354139 AATTCAG
1 AATTCAG
354146 AATT
1 AATT
354150 TAGAGTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (7 bp):
AATTCAG
Found at i:357739 original size:15 final size:15
Alignment explanation
Indices: 357719--357750 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
357709 CAAGATGAAA
357719 ATATAATTTTTATTG
1 ATATAATTTTTATTG
357734 ATATAATTTTTATTG
1 ATATAATTTTTATTG
357749 AT
1 AT
357751 TTTGAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
ATATAATTTTTATTG
Found at i:357980 original size:17 final size:17
Alignment explanation
Indices: 357966--357999 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
357956 CTATTTTTCT
357966 TGTGATCTTGCTTTTTA
1 TGTGATCTTGCTTTTTA
*
357983 CTGTTATCTTGCTTTTT
1 -TGTGATCTTGCTTTTT
358000 GTCTGTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.15, G:0.15, T:0.62
Consensus pattern (17 bp):
TGTGATCTTGCTTTTTA
Found at i:363426 original size:16 final size:17
Alignment explanation
Indices: 363396--363429 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
363386 AGGTATTGTT
*
363396 GTTTCTGAATTTTTTGG
1 GTTTCTGAATATTTTGG
363413 GTTT-TGAATATTTTGG
1 GTTTCTGAATATTTTGG
363429 G
1 G
363430 ATTGAGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.15, C:0.03, G:0.26, T:0.56
Consensus pattern (17 bp):
GTTTCTGAATATTTTGG
Found at i:365288 original size:2 final size:2
Alignment explanation
Indices: 365283--365314 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
365273 TGTGGGTGTG
365283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
365315 AATTTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:366950 original size:19 final size:19
Alignment explanation
Indices: 366926--366985 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
366916 GGCTAGAGAC
366926 AATTTTGAA-ATAAAATAAT
1 AATTTTGAATA-AAAATAAT
*
366945 AATTTTTGCATAAAAATAAT
1 AA-TTTTGAATAAAAATAAT
*
366965 AATTTTTGCATAAAAATAAT
1 AA-TTTTGAATAAAAATAAT
366985 A
1 A
366986 TTAAAATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 2 0.05
20 35 0.92
21 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
AATTTTGAATAAAAATAAT
Found at i:366960 original size:20 final size:20
Alignment explanation
Indices: 366937--366985 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
366927 ATTTTGAAAT
366937 AAAATAATAATTTTTGCATA
1 AAAATAATAATTTTTGCATA
366957 AAAATAATAATTTTTGCATA
1 AAAATAATAATTTTTGCATA
366977 AAAATAATA
1 AAAATAATA
366986 TTAAAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
AAAATAATAATTTTTGCATA
Done.