Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016436.1 Corchorus olitorius cultivar O-4 contig16469, 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: 227897
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:14958 original size:24 final size:24
Alignment explanation
Indices: 14931--14976 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
14921 GTTTCAACAT
*
14931 AAACACGGGATTCATCATCAAGAC
1 AAACACAGGATTCATCATCAAGAC
14955 AAACACAGGATTCATCATCAAG
1 AAACACAGGATTCATCATCAAG
14977 CATGTGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (24 bp):
AAACACAGGATTCATCATCAAGAC
Found at i:37216 original size:31 final size:31
Alignment explanation
Indices: 37171--37231 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
37161 ATTAAGTTCC
* * *
37171 TAACTTTGCAAAATCGGCTTAAATTAGTCCT
1 TAACGTTGCAAAATCGGCTCAAATCAGTCCT
*
37202 TAACGTTGCTAAATCGGCTCAAATCAGTCC
1 TAACGTTGCAAAATCGGCTCAAATCAGTCC
37232 CTAGAGTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (31 bp):
TAACGTTGCAAAATCGGCTCAAATCAGTCCT
Found at i:43926 original size:59 final size:61
Alignment explanation
Indices: 43829--43952 Score: 216
Period size: 59 Copynumber: 2.1 Consensus size: 61
43819 TAAGTCGTGC
43829 TTCTAATCTTCATCTAGTTGAGGTTTGTACTATATTGCTTTAATCTTAA-TCTGAATCTCT
1 TTCTAATCTTCATCTAGTTGAGGTTTGTACTATATTGCTTTAATCTTAATTCTGAATCTCT
* *
43889 TTCT-ATCTTCATTTAGTTGAGGTTTGTACTATATTGCTTTAATCTTAATTCTGACTCTCT
1 TTCTAATCTTCATCTAGTTGAGGTTTGTACTATATTGCTTTAATCTTAATTCTGAATCTCT
43949 TTCT
1 TTCT
43953 CTCTACACCT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 43 0.70
60 18 0.30
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (61 bp):
TTCTAATCTTCATCTAGTTGAGGTTTGTACTATATTGCTTTAATCTTAATTCTGAATCTCT
Found at i:46657 original size:13 final size:13
Alignment explanation
Indices: 46639--46665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46629 TTAATCAAAA
46639 TTTTGAATTAATT
1 TTTTGAATTAATT
46652 TTTTGAATTAATT
1 TTTTGAATTAATT
46665 T
1 T
46666 CTAATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTGAATTAATT
Found at i:48313 original size:332 final size:330
Alignment explanation
Indices: 47149--50137 Score: 3322
Period size: 332 Copynumber: 9.1 Consensus size: 330
47139 TTTGGCTAAT
* ** * * * * * *
47149 TTTTTTGCAAAAATACTCAGTGAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCAC
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
* * * * * * *
47214 GCTTATAATATTGTTTTTCCATTTTTTTCCGAACTAATTTCTAATTAAATCGAAATAAG-TTCAG
66 GCTTCTAATATCGTTTTT-CATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCAG
* * * * *
47278 ATGCTCGGAAAAAAAAAATCCTTATATCCAATGTCGCTGAGATTTGATTCGATGAATATAGATAT
130 ATGCTC-GTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGATAT
* * * *
47343 TTCGAGAAGTCTTAGCTCCAAAAATCATGCAAAATTGAGTCGGGGCTTCGGAACGTGTTTTTAGC
194 TTCAAGGAG-CTTA-CTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGC
* *
47408 CAAAAATCGTGATGGTTAGTACACGATTTCGACTAAAATTTTGCAAAAACTGACCC-AAATTTTT
257 CAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTT
*
47472 TTTTCTCAT
322 TTTTCTCAA
* * * *
47481 TTTTTTGGTCAAAATACTCAGAAAAAATATATAATTCAATGGCAAAAAAAAGTGAAGGGTTTTTT
1 TTTTTT-GCCAAAATACTCAGAAAAAATATATAATTCAACGAC-AAAAAAATTGAAGGGTTTTTT
* ** * * * *
47546 ACGCTTTTAATATCGTTTTTCATGTTTTTTGGAATTTATTTCTAATTAAATTGAATCAAGATTCT
64 ACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCA
*
47611 GATGCTCGTAAAAACAAATCCTTAAATACAATG-TGACTGAGATTTGGTTCGATGAATATAGATA
129 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTTG-CTGAGATTTGGTTCGATGAATATAGATA
* * * * * * * * * * * *
47675 TTTCATGGAGCATTTCTGCCAAAAATAATGCAGAACTAAGTCGAGGCCCCGAAATGCG-TTTTAG
193 TTTCAAGGAGC-TTACT-CCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAG
* * *
47739 CCAAAAACCGTGATGGGTTGTTAGTACACGATTTTCGGC--------T--AAAAATTGACCTG-A
256 CCAAAAATCGTGAT--G--GTTAGTACACGA-TTTCGGCTAAAATTTTGCAAAAACTGACCCGAA
47793 AATTTTTTTTCTCAA
316 AATTTTTTTTCTCAA
* * * * * * * * * * *
47808 TTTCTTGCCATAGTACTCTGAAAAAATATATAACTCAAAGCCAAAAATATTGACGGGATTTTCAC
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
* * * *
47873 GCTTCTAATATTGTTTTTCATTTTTTTTTCCGAACTAATTTCTAATT-AAGTCGAAACAAGATTC
66 GCTTCTAATATCGTTTTTCA--TGTTTTTCCGAATTTATTTCTAATTGAA-TCGAAACAAGATTC
* * * * * *
47937 AGATGCTCGTACAAACAAATCCTTATATCCAATGTCGCTGAGATTTGCTTAGATGAATATAAATA
128 AGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGATA
* * *
48002 TTTCGAGAAGCATGTGCTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAG
193 TTTCAAGGAGC-T-TACTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAG
48067 CCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTT
256 CCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTT
*
48132 TTTTTCTCAT
321 TTTTTCTCAA
* *
48142 TTTTTTGACAAAATACTCAGAAAAAATATATAATTCATCGACAAAAAAATTGAAGGGTTTTTTAC
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
* * * *
48207 GCTTCTAATAACATTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTTAGA
66 GCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCAGA
** * * *
48272 TGCTCGTAAAAACAAATAATTAAATCCATTGTTGTTGAGATTTGGATCGATGAATATAGATATTT
131 TGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGATATTT
* *
48337 CAAGGAGTCTTCACGCCAAAAATCATGCAAAATTGAGCCGGGGTTCCGGAACGTGTTTTTAGCCA
196 CAAGGAG-CTT-ACTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCA
*
48402 AAAATCGTGATGGTTAGTACACGATTTTCGGC--------T--AAAAACTGACCCGGAAATTTTT
259 AAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTT
* *
48457 TTTTTCAT
323 TTTCTCAA
48465 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAA-TGAAGGGTTTTTTAC
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
* *
48529 ACTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTCAGA
66 GCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCAGA
* ** * * *
48594 TACTCGTAAAAACAAATAATTAAATCCATTGTTGTTGAGATTTGGATCGATGAATATAGATATTT
131 TGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGATATTT
* * * * *
48659 CAAGGAGTCATCACGCCAAAAATCAAGCAAAATTGAGCCGGGGTTCCGGAATGTGTTTTTAGCCA
196 CAAGGAG-C-TTACTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCA
* *
48724 AAAATTGTGATGGTTAGTACACGATTTCGGCTAAAA--CTGC----A---ACCCG-AAATTTTTT
259 AAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTTT
48779 TTGCTCAA
324 TT-CTCAA
* *
48787 ATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
*
48852 GCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTCAGA
66 GCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCAGA
** * * *
48917 TGCTCGTAAAAACAAATAATTAAATCCATTGTTGTTGAGATTTGGATCGATGAATATAGATATTT
131 TGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGATATTT
* *
48982 CAAGGAGTCTT-CATGCCAAAAATCATGCAAAATTGAGCCGGGGTTCTGGAACGTGTTTTTAGCC
196 CAAGGAG-CTTAC-T-CCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCC
*
49046 AAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGGAAA-TTTT
258 AAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTT
49110 TTTCTCAA
323 TTTCTCAA
* * * *
49118 TTTATTGCCACAATACTCAGAAAAAATATATAATTCAATGACGAAAAAAAGTGAAGGGTTTTTTA
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGAC-AAAAAAATTGAAGGGTTTTTTA
* * * * **
49183 CGCTTTTAATATCGTTTTTCATGTTTTTTCGAATTTATTTCTAATTAAATCGAATCAAGATTTTG
65 CGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCAG
** *
49248 ATGCTCGTAAAAACAAATCCTTAAATAAAATG-TGACTGAGATTTTGTTCGATGAATATAGATAT
130 ATGCTCGTAAAAACAAATCCTTAAATCCAATGTTG-CTGAGATTTGGTTCGATGAATATAGATAT
* * * * * * * **
49312 TTCATGGAGCCTTTCTGCCAAAAATCATGCAGAACTAAGTCGGGGC-CCCGAAATTCG-TTTTAG
194 TTCAAGGAG-CTTACT-CCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGT-GTTTTTAG
* * * *
49375 CCAAAAACCGTGATGGTTAGTACA-TATTTTCGGC--------T--AAAAATTGACCCGAAAA-C
256 CCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATT
49428 TTTTTTCTCAA
320 TTTTTTCTCAA
** * * * * * * * * * * *
49439 TTTCATGCCACAGTACTCTGAAAAAGTATATAACTCAAAGCCAAAAATATTGACAAGATTTTCAT
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGA-AGGGTTTT-TT
* * * *
49504 A--CTTCTGATATTGTTTTTCCAAT-TTTTTCCGAACTAATTTCTAATT-AAGTCGAAACAAGAT
64 ACGCTTCTAATATCGTTTTT-C-ATGTTTTTCCGAATTTATTTCTAATTGAA-TCGAAACAAGAT
* * * *
49565 TCAGATGCTCGTACAAACAAATCCTTATATCCAATGTCGCTGAGATTTGATTCGATGAATATAGA
126 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGA
* * * * *
49630 TATTTCGAGAAGCATTTGCTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCAGAATGTGTTTTT
191 TATTTCAAGGAGC--TTACTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTT
* * *
49695 AGCCAAAAATCGTGAT-GTAAAGTACACGATTTCGGCTAAAATTTTACAAAAACTTACCCGAAAA
254 AGCCAAAAATCGTGATGGT-TAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAA
* *
49759 -TGTTTTTCTCAT
318 TTTTTTTTCTCAA
49771 TTTTTTGCCAAAATACTCA-AAAATAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTT
1 TTTTTTGCCAAAATACTCAGAAAA-AATATATAATTCAACGACAAAAAAATTGAAGGG-TTTTTT
* * *
49835 ACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGATATAAGATTCA
64 ACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCA
** ** *
49900 GATGCTCGTAAAAACAAATAATTAAATCC-ATAGTTTTTGAGATTTGGATT-GATGAATATAGAG
129 GATGCTCGTAAAAACAAATCCTTAAATCCAAT-GTTGCTGAGATTTGG-TTCGATGAATATAGAT
* * * **
49963 ATCTCAAGGAGCTTCACGCCAAAAATCATGCAAAATTGAGCTGGGGCTTTGGAACGTGTTTTTAG
192 ATTTCAAGGAGCTT-ACTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAG
* *
50028 CCAAAAATCGTGA---TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCTGTAAA-TT
256 CCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTT
50089 TTTTTCGTCAA
321 TTTTTC-TCAA
*
50100 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA
1 TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAA
50138 TCGAAACAAG
Statistics
Matches: 2275, Mismatches: 288, Indels: 191
0.83 0.10 0.07
Matches are distributed among these distances:
320 26 0.01
321 208 0.09
322 326 0.14
323 319 0.14
324 12 0.01
325 41 0.02
326 32 0.01
327 157 0.07
328 70 0.03
329 38 0.02
330 8 0.00
331 157 0.07
332 539 0.24
333 195 0.09
334 129 0.06
336 12 0.01
337 6 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (330 bp):
TTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTAC
GCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTGAATCGAAACAAGATTCAGA
TGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTCGATGAATATAGATATTT
CAAGGAGCTTACTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAA
AATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTTTTT
CTCAA
Found at i:50028 original size:653 final size:652
Alignment explanation
Indices: 47147--50137 Score: 3137
Period size: 653 Copynumber: 4.6 Consensus size: 652
47137 ATTTTGGCTA
* ** * * * * * *
47147 ATTTTTTTGCAAAAATACTCAGTGAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTC
1 ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTT
* * * * *
47212 ACGCTTATAATATTGTTTTTCCATTTTTTTCCGAACTAATTTCTAATTAAATCGAAATAAG-TTC
66 ACGCTTCTAATATCGTTTTT-CATGTTTTTCCGAATTTATTTCTAATTAAATCGAAATAAGATTC
* * *
47276 AGATGCTCGGAAAAAAAAAATCCTTATATCCAATGTCGCTGAGATTTGATTCGATGAATATAGAT
130 AGATGCTC-GTAAAAACAAATCCTTAAATCCAATGTCGCTGAGATTTGATTCGATGAATATAGAT
* * *
47341 ATTTCGAGAAGTCTT-AGCTCCAAAAATCATGCAAAATTGAG-TCGGGGCTTCGGAACGTGTTTT
194 ATTTCAAGGAGTCTTCA-CGCCAAAAATCATGCAAAATTGAGCT-GGGGCTTCGGAACGTGTTTT
* ** * *
47404 TAGCCAAAAATCGTGATGGTTAGTACACGATTTCGACTAAAATTTTGCAAAAACTGACCCAAATT
257 TAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAA-ACTG----AAC---CCGAAA-A
* * * * *
47469 TTTTTTTCTCATTTTTTTGGTCAAAATACTCAGAAAAAATATATAATTCAATGGCAAAAAAAAGT
313 TTTTTTTCTCAATTTTTT-GCCAAAATACTCAGAAAAAATATATAATTCAACGAC-AAAAAAATT
* ** * * *
47534 GAAGGGTTTTTTACGCTTTTAATATCGTTTTTCATGTTTTTTGGAATTTATTTCTAATTAAATTG
376 GAAGGGTTTTTTAC-CTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCG
* * ** * *
47599 AATCAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATACAATG-TGACTGAGATTTGGTTCGA
440 AAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTG-CTGAGATTTGGATCGA
* * * * * * * * *
47663 TGAATATAGATATTTCATGGAGCATTTCTGCCAAAAATAATGCAGAACTAAGTCGAGGCCCCGAA
504 TGAATATAGATATTTCAAGGAGC-TTTCTGCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGA
* * *
47728 ATGCG-TTTTAGCCAAAAACCGTGATGGGTTGTTAGTACACGATTTTCGGC--------T--AAA
568 ACGTGTTTTTAGCCAAAAATCGTGAT--G--GTTAGTACACGATTTTCGGCTAAAATTTTACAAA
* * *
47782 AATTGACCTGAAATTTTTTTTCTC
629 AACTGACCCGAAAATTTTTTTCTC
* * * * * * * * * * * *
47806 AATTTCTTGCCATAGTACTCTGAAAAAATATATAACTCAAAGCCAAAAATATTGACGGGATTTTC
1 ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTT
* * * * * *
47871 ACGCTTCTAATATTGTTTTTCATTTTTTTTTCCGAACTAATTTCTAATTAAGTCGAAACAAGATT
66 ACGCTTCTAATATCGTTTTTCA--TGTTTTTCCGAATTTATTTCTAATTAAATCGAAATAAGATT
* * * * *
47936 CAGATGCTCGTACAAACAAATCCTTATATCCAATGTCGCTGAGATTTGCTTAGATGAATATAAAT
129 CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTCGCTGAGATTTGATTCGATGAATATAGAT
* * * * * *
48001 ATTTCGAGAAG-CATGT-GCTCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTT
194 ATTTCAAGGAGTC-T-TCACGCCAAAAATCATGCAAAATTGAGCTGGGGCTTCGGAACGTGTTTT
48064 TAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTG-ACCCGAAA
257 TAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGC--------T--AAAAACTGAACCCGAAA
* * *
48128 ATTTTTTTTCTCATTTTTTTGACAAAATACTCAGAAAAAATATATAATTCATCGACAAAAAAATT
312 A-TTTTTTTCTCAATTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATT
* *
48193 GAAGGGTTTTTTACGCTTCTAATAACATTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCG
376 GAAGGGTTTTTTAC-CTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCG
* * *
48258 AAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCATTGTTGTTGAGATTTGGATCGAT
440 AAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGATTTGGATCGAT
* *
48323 GAATATAGATATTTCAAGGAG-TCTTCACGCCAAAAATCATGCAAAATTGAGCCGGGGTTCCGGA
505 GAATATAGATATTTCAAGGAGCT-TTC-TGCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGA
48387 ACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTTCGGC--------T--AAAAACT
568 ACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTTCGGCTAAAATTTTACAAAAACT
* *
48442 GACCCGGAAATTTTTTTTTTC
633 GACCC-GAAAATTTTTTTCTC
48463 ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAA-TGAAGGGTTTTTT
1 ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTT
* * * *
48527 ACACTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTCA
66 ACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTAAATCGAAATAAGATTCA
* ** * * *
48592 GATACTCGTAAAAACAAATAATTAAATCCATTGTTGTTGAGATTTGGA-TCGATGAATATAGATA
131 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTCGCTGAGATTT-GATTCGATGAATATAGATA
* * * *
48656 TTTCAAGGAGTCATCACGCCAAAAATCAAGCAAAATTGAGCCGGGG-TTCCGGAATGTGTTTTTA
195 TTTCAAGGAGTCTTCACGCCAAAAATCATGCAAAATTGAGCTGGGGCTT-CGGAACGTGTTTTTA
* *
48720 GCCAAAAATTGTGATGGTTAGTACACGATTTCGGCT-AAAACTGCAACCCGAAATTTTTTTTGCT
259 GCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAAACTG-AACCCGAAAATTTTTTT-CT
* *
48784 CAAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTT
322 CAATTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTT
48849 TACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTC
387 TAC-CTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTC
* *
48914 AGATGCTCGTAAAAACAAATAATTAAATCCATTGTTGTTGAGATTTGGATCGATGAATATAGATA
451 AGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGATTTGGATCGATGAATATAGATA
* *
48979 TTTCAAGGAG-TCTTCATGCCAAAAATCATGCAAAATTGAGCCGGGGTTCTGGAACGTGTTTTTA
516 TTTCAAGGAGCT-TTC-TGCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTA
* *
49043 GCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAAATTTTGCAAAAACTGACCCGGAAAT
579 GCCAAAAATCGTGATGGTTAGTACACGATTTTCGGCTAAAATTTTACAAAAACTGACCCGAAAAT
49107 TTTTTTCTC
644 TTTTTTCTC
* * * * *
49116 AATTTATTGCCACAATACTCAGAAAAAATATATAATTCAATGACGAAAAAAAGTGAAGGGTTTTT
1 ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGAC-AAAAAAATTGAAGGGTTTTT
* *
49181 TACGCTTTTAATATCGTTTTTCATGTTTTTTCGAATTTATTTCTAATTAAATCG-AATCAAGATT
65 TACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTAAATCGAAAT-AAGATT
** **
49245 TTGATGCTCGTAAAAACAAATCCTTAAATAAAATGT-GACTGAGATTTTG-TTCGATGAATATAG
129 CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTCG-CTGAGA-TTTGATTCGATGAATATAG
* * * * * * * * **
49308 ATATTTCATGGAGCCTTTC-TGCCAAAAATCATGCAGAACTAAG-TCGGGGC-CCCGAAATTCG-
192 ATATTTCAAGGAGTC-TTCACGCCAAAAATCATGCAAAATTGAGCT-GGGGCTTCGGAACGT-GT
* * * *
49369 TTTTAGCCAAAAACCGTGATGGTTAGTACA-TATTTTCGGCTAAAAATTG-ACCCGAAAACTTTT
254 TTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGAACCCGAAAATTTTT
** * * * * * * * * * *
49432 TTCTCAATTTCATGCCACAGTACTCTGAAAAAGTATATAACTCAAAGCCAAAAATATTGACAAGA
318 TTCTCAATTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGA-AGGG
* * * * * *
49497 TTTTCATA-CTTCTGATATTGTTTTTCCAAT-TTTTTCCGAACTAATTTCTAATT-AAGTCGAAA
382 TTTT-TTACCTTCTAATATCGTTTTT-C-ATGTTTTTCCGAATTTATTTATAATTGAA-TCGAAA
* ** * *
49559 CAAGATTCAGATGCTCGTACAAACAAATCCTTATATCCAATGTCGCTGAGATTT-GATTCGATGA
443 CAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGATTTGGA-TCGATGA
* * * *
49623 ATATAGATATTTCGAGAAGCATTTGCT-CCAAAAATCATGCAAAATTGAGCCGGGGCTCCAGAAT
507 ATATAGATATTTCAAGGAGC-TTT-CTGCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAAC
* *
49687 GTGTTTTTAGCCAAAAATCGTGAT-GTAAAGTACACGA-TTTCGGCTAAAATTTTACAAAAACTT
570 GTGTTTTTAGCCAAAAATCGTGATGGT-TAGTACACGATTTTCGGCTAAAATTTTACAAAAACTG
*
49750 ACCCGAAAATGTTTTTCTC
634 ACCCGAAAATTTTTTTCTC
49769 ATTTTTTTGCCAAAATACTCA-AAAATAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTT
1 ATTTTTTTGCCAAAATACTCAGAAAA-AATATATAATTCAACGACAAAAAAATTGAAGGG-TTTT
* * *
49833 TTACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGATATAAGATT
64 TTACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTAAATCGAAATAAGATT
** ***
49898 CAGATGCTCGTAAAAACAAATAATTAAATCC-ATAGTTTTTGAGATTTGGATT-GATGAATATAG
129 CAGATGCTCGTAAAAACAAATCCTTAAATCCAAT-GTCGCTGAGATTT-GATTCGATGAATATAG
* * *
49961 AGATCTCAAGGAG-CTTCACGCCAAAAATCATGCAAAATTGAGCTGGGGCTTTGGAACGTGTTTT
192 ATATTTCAAGGAGTCTTCACGCCAAAAATCATGCAAAATTGAGCTGGGGCTTCGGAACGTGTTTT
** *
50025 TAGCCAAAAATCGTGA---TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCTGTAAA
257 TAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAA-ACTG----AAC---CC-GAAAA
*
50087 TTTTTTTCGTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA
313 TTTTTTTC-TCAATTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAA
50138 TCGAAACAAG
Statistics
Matches: 2011, Mismatches: 237, Indels: 166
0.83 0.10 0.07
Matches are distributed among these distances:
643 7 0.00
644 14 0.01
645 287 0.14
646 1 0.00
650 20 0.01
651 7 0.00
652 120 0.06
653 453 0.23
654 246 0.12
655 161 0.08
656 68 0.03
657 57 0.03
658 6 0.00
659 243 0.12
660 241 0.12
661 71 0.04
664 2 0.00
668 1 0.00
669 2 0.00
670 4 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (652 bp):
ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTT
ACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTCTAATTAAATCGAAATAAGATTCA
GATGCTCGTAAAAACAAATCCTTAAATCCAATGTCGCTGAGATTTGATTCGATGAATATAGATAT
TTCAAGGAGTCTTCACGCCAAAAATCATGCAAAATTGAGCTGGGGCTTCGGAACGTGTTTTTAGC
CAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAACCCGAAAATTTTTTTCTCAAT
TTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTACC
TTCTAATATCGTTTTTCATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTCAGATG
CTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGATTTGGATCGATGAATATAGATATTTCA
AGGAGCTTTCTGCCAAAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAA
ATCGTGATGGTTAGTACACGATTTTCGGCTAAAATTTTACAAAAACTGACCCGAAAATTTTTTTC
TC
Found at i:52146 original size:648 final size:647
Alignment explanation
Indices: 50128--55307 Score: 4344
Period size: 650 Copynumber: 7.9 Consensus size: 647
50118 AGAAAAAATA
** * * *
50128 TATAATTCAATCGAAACAAGATTC-AGATGCTCGTAAAAACAAATAATTAAATCCATTGTGGTTG
1 TATAATT-AATCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTG
* * * * * * * *
50192 AGATTTGGATCGATGAATGTAGACATTTCAAGGAG-TGTTCACGCCAAAAATCAAGCAAAATTGA
65 AGATTTGGTTCGATGAATATAGATATTTCATGGAGCTTTTC-TGCCAAAAATCATGCAAAACTGA
* * * * * *
50256 GCCTGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGTTAAA
129 GTCGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGG-----
* * * * *
50320 ATTTTGCAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATAT
189 ---CT--AAAAATTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAATAT
* *** * * * * * * *
50385 ATAATTCAATAAAGAAAAA-AGTGAAGGGTTTTTTACGCTTTTAATATCGTTTTTCAGGTTTTTT
249 ATAACTCAA-AGCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATTGTTTTTCATGTTTTTC
* * * ** **
50449 TGAATTTATTTCA-AATTAGATCGAATCAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATAA
313 CGAATTTATTT-ATAATTA-ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCC
** * * * *
50513 AATGTGATTGAGATTTTGTTCGATGAATATAGATATTTCATGGAG-CTTTTCTGCCAAAAATCAT
376 AATGTGGCTGAGATTTGGATCGATGAATATAGATATTTCATGAAGTC-TTGCT-CCAAAAATCAT
* * * * * ** * * * *
50577 GCAGAACTAAGTCGGGGC-CCCGAAATTCG-TTTTAGCCAAAAA-C----CGT-GATG-GTT-AG
439 GCAAAATTGAGCCGGGGCTCCGGAACGT-GTTTTTAGCCAAAAATCGTAACGTACACGATTTCGG
* * * * * *
50632 -TACATGATTTTCGGCTAAAAATTGACCCGAAAA-CTTTTTTCTCAATTTCTTACCACAGTACTC
503 CTA-A-AATTTT--GC-AAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTC
* * * * * * * * * * *
50695 CGAAAAACTATATAACTCAAAG-CCAAAAATGTTGACGGGATTTTCACGCTTCTTATTTTGTTTT
563 AGAAAAAATATATAATTCAATGACAAAAAAAG-TGAAGGGATTTTTACGCTTCTAATATCGTTTT
* * *
50759 TCCAT-TTTTTCCAAACTAATT
627 T-CATGTTTTTCCGAATTTATT
* * * *
50780 TCTAATTAAGTCGAAACAAGATTC-AGATGCTCGTAAAAACAAATCCTTATATCCAATGTCGCTA
1 TATAATTAA-TCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTG
* * * *
50844 AGATTTGGTTCGATGAATATAGATATTTCGA-GAAGTCTTTGCT-CGAAAAATCATGCAAAATTG
65 AGATTTGGTTCGATGAATATAGATATTTC-ATGGAG-CTTTTCTGCCAAAAATCATGCAAAACTG
* * * * * * * * *
50907 AG-CTGGGGCTCCGGAACGTGTTTTTAGTCAAAAATCGTGGTGGTTACTACACTA-CTTCGGGTA
128 AGTC-GGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTC-GG--
* * * * **
50970 AAATTTTACAAAAACTGACCCGAAATTTTTTTTTCTC-ATTTTTTGCCAAAATACTAAGAAAAAA
189 -----CT--AAAAATTGACCCGAAA-ATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAA
* * * * * * **
51034 TATATAATTCAACG-AAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCATTTTTCATGTTTT
246 TATATAACTCAAAGCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATTGTTTTTCATGTTTT
* *
51098 TCCAAATTTATTTATAATTGAATCGAAACAGGATTCAG-T--T-G-----ACAAATAATTAAAT-
311 TCCGAATTTATTTATAATT-AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATC
* * * * * * *
51153 CAATTGTTGTTGAGATTTGGATCGATGAATATAGTTATTTCAAGGAGTCTTCACGCCAAAAATCA
375 CAA-TGTGGCTGAGATTTGGATCGATGAATATAGATATTTCATGAAGTCTT-GCTCCAAAAATCA
* * * * **
51218 TGCAAAATTGAGCCGTGGTTCCAGAACGTGTTTTAAGCCAAAAAATCGTGATTGTACACGATTTC
438 TGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCC-AAAAATCGT-AACGTACACGATTTC
* * * *
51283 GGTTAAAATTTTGCAAAAATTGACCCGGAAA-TTTTTTTCTCAATTTTTTGCCACAAAACTCAGA
501 GGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGA
* * * *
51347 AAAAATATATAATTCAATGACGAAAAAAAGTGAAGGGTTTTTTACACTTTTAATATTGTTTTTCA
566 AAAAATATATAATTCAATGAC-AAAAAAAGTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCA
**
51412 TGTTTTTTTGAATTTATT
630 TGTTTTTCCGAATTTATT
* * * **
51430 TCA-AATTAAATCGAATCAAGATTCT-GATGCTAGTAAAAATAAATCCTTAAATAAAATG-TGAC
1 T-ATAATT-AATCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTG-C
* * * *
51492 TGAGATTTTGTTCGATGAATATAGATATTTCATGGAGCTTTTCTGCCAAATATCATGCAGAACTA
63 TGAGATTTGGTTCGATGAATATAGATATTTCATGGAGCTTTTCTGCCAAAAATCATGCAAAACTG
*
51557 AGTCGGGGCCCCGAAAT-TCG-TTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTTCGGCTA
128 AGTCGGGGCCCCGAAATGT-GTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGGCTA
* *
51620 AAAATTGACCCGAAAACTTTTTTCTCAATTTCTTGCC-ACATACTCTGAAAAAATATATAACTCA
192 AAAATTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAATATATAACTCA
* * *
51684 AAGCCAAAAATATTGACA-GGATTTTCAAGTTTCTAATATTGTTTTTCCAAT-TTTTTCCGAACT
257 AAGCCAAAAATATTGA-AGGGATTTTCACGCTTCTAATATTGTTTTT-C-ATGTTTTTCCGAATT
* * * ** * *
51747 AATTTCTAATTAAGTCGAAACAAGATTCAGATGCTCGTACAAACAAATCCTTATATCCAATGTCG
319 TATTTATAATTAA-TCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTGG
* * * *
51812 CTGAGATTTGGTTAGATGAATATAAATATTTCGA-GAAG-CATGTGCTCCAAAAAACATGCAAAA
383 CTGAGATTTGGATCGATGAATATAGATATTTC-ATGAAGTC-T-TGCTCCAAAAATCATGCAAAA
51875 TTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTAACGTACACGATTTCGGCTAAAAT
445 TTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTAACGTACACGATTTCGGCTAAAAT
* *
51940 TTTGCAAAAACTGACCCGAAAATTTTTTTTCTCATTTTTTTGCCAAAATACTCAGAAAAAATATA
510 TTTGCAAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATA
* *
52005 TAATTCAACGACAAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCG
575 TAATTCAATGACAAAAAAAGTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCG
52070 AATTTATT
640 AATTTATT
* ** * *
52078 TATAATTGAATCGAAACAAGATT-TAGATGCTCGCAAAAACAAATAATTAAATCCATTGTTGTTG
1 TATAATT-AATCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTG
* * * *
52142 AGATTTGGATCGATGAATATAGATATTTCAAGGAG-TCTTCTGCGCGAAAAATCATGCAAAATTG
65 AGATTTGGTTCGATGAATATAGATATTTCATGGAGCTTTTCTGC-C-AAAAATCATGCAAAACTG
* ** * * *
52206 AGCCGGGGTTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAC
128 AGTCGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGG---C
* * * *
52270 AATTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCAAAATACTCAGAAAAAATA
190 -----T--AAAAATTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAATA
* * * * * * *
52335 TATAATTCAATGACGACAAAA-AGTGAAGGGTTTTTTACGCCTT-TAATATCGTTTTTCATGTTT
248 TATAACTCAAAG-CCA-AAAATATTGAAGGGATTTTCACG-CTTCTAATATTGTTTTTCATGTTT
* * * * * **
52398 TTCTCGAATTTATTTCTATTTAAATCGAATCAACATTCTGATGCTCGTAAAAACAAAATCCTTAA
310 TTC-CGAATTTATTTATAATT-AATCGAAACAAGATTCAGATGCTCGTAAAAAC-AAATAATTAA
* * * * * *
52463 ATACAATGTGACTGAGATTTGGTTCGATGAATATAGATATTTCATGGAGCCTTTCTGCCAAAAAT
372 ATCCAATGTGGCTGAGATTTGGATCGATGAATATAGATATTTCATGAAGTCTTGCT-CCAAAAAT
* * * * * * * * *
52528 CATGCAGAACT-A--------ACCGAAAAGCG-TTTTAGCC-AAAATC----CGT-GATG-GTT-
436 CATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTAACGTACACGATTTC
* * * * * * *
52575 AG-TACATGATTTTCGGGTAAAAATTGACCCGAAAA-CTTTTTTCTCAATTTCTTGCCACAGTAC
501 GGCTA-A-AATTTT---GCAAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATAC
* * * * * * * * * *
52638 TCTGAAAAAATATATAACTCAAAGCCAAAAATATTGACGGGATTTTCACGTTTCTAATATTGTTT
561 TCAGAAAAAATATATAATTCAATGACAAAAAAAGTGAAGGGATTTTTACGCTTCTAATATCGTTT
* *
52703 TTCCAAT-TTTTTCCGAACTAATT
626 TT-C-ATGTTTTTCCGAATTTATT
* * **
52726 TCTAATTAAGTCGAAACAAGATTC-AGATGCTCGTAAAAACAAATCCTTATATCCAATGTCACTG
1 TATAATTAA-TCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTG
* * *
52790 AGATTTGGTTCGATGAATATAGATATTTCGA-GAAGTCTTTGCT-CCAAAAATCATGCAAAATTG
65 AGATTTGGTTCGATGAATATAGATATTTC-ATGGAG-CTTTTCTGCCAAAAATCATGCAAAACTG
* * * *
52853 AGTCGGGGCTCCGGAATGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTTCGGGTAA
128 AGTCGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAA
* * * * *
52918 AAGTTTGCAAAAACTAACC-AGAAATTTTTTTTTCAAATTTTTTACCAAAATACTCAGAAAAAAT
193 AA-ATTG-----AC---CCGA-AAATTTTTTTCTC-AATTTCTTGCCAAAATACTCTGAAAAAAT
* * * * * * *
52982 ATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCGTTTTTCATGTTTTT
247 ATATAACTCAAAGCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATTGTTTTTCATGTTTTT
** * *
53047 CTAAATTTATTTATAATTGAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATAATTAAATCC
312 CCGAATTTATTTATAATT-AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCC
* * * * *
53112 ATTGTTGTTGAGATTTGGATCGATGAATATAGATATTTCAACG-AGTCTT-CACGCTAAAAATCA
376 AATGTGGCTGAGATTTGGATCGATGAATATAGATATTTC-ATGAAGTCTTGCTC-C-AAAAATCA
* ** *
53175 TGCAAAATTTAGTTGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGATTAGTACACGA-
438 TGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGT-A--A--CGTACACGAT
* *
53239 TTCGGCTAAAATTTTGCAAAAACTGACACG-GAATTTTTTTTCTCAAATTTTTTGCCACAATACT
498 TTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTTTTTCTC-AATTTTTTGCCACAATACT
*
53303 CAGAAAAAATATATAATTCAATGACAAAAAAAAAGTGAA--G--TTTTACGCTTTTAATATCGTT
562 CAGAAAAAATATATAATTCAATGAC--AAAAAAAGTGAAGGGATTTTTACGCTTCTAATATCGTT
* * *
53364 TTACATGTTTTTTCAAATTTATT
625 TTTCATGTTTTTCCGAATTTATT
* * * *
53387 TCTAATTAAATCGAATCAATATTCT-GATGCTCGTAAAAACAAATCCTTAAATACAATG-TGACT
1 TATAATT-AATCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTG-CT
* ** * * * *
53450 GAGATTTGGTTCGATAAATATAGATATTTCATGTTGCCTTTCTGCCAAAAATCATACAGAACTCA
64 GAGATTTGGTTCGATGAATATAGATATTTCATGGAGCTTTTCTGCCAAAAATCATGCAAAACTGA
53515 GTCGGGGCCCCGAAATGTG-TTTTAGCCAAAAACCGTGAT-G---GTACACGATTTTCGGCTAAA
129 GTCGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAA
* * * *
53575 AATTGACCCGTAAATTTTTTTCTCAATTTCTTGCCACAGTACTCTGAAAAAATGTATAACTCAAA
194 AATTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAATATATAACTCAAA
* *
53640 GCCAAAAATATTGATGGGATTTTCACGCTTCTAATA-----TTT--T-TTTTACCGAATTTATTT
259 GCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATTGTTTTTCATGTTTTTCCGAATTTATTT
* * * * *
53697 ATAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAATAAATAATTAAATCCATTGTGGTTAAG
324 ATAATT-AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTGGCTGAG
* * * ** * * *
53762 ATTTGGATCGATGAATATAGATATTTCATGTAGCCTTTCTGCCAAAAATCATGCAGCACTAAGTC
388 ATTTGGATCGATGAATATAGATATTTCATGAAGTCTTGCT-CCAAAAATCATGCAAAATTGAGCC
* * * * * **** **
53827 GGGGAC-CCGAAATGCG-TTTTAGCCAAAAA-C----CGT-CATGGTTAATAC-ACGATTTTCGG
452 GGGG-CTCCGGAACGTGTTTTTAGCCAAAAATCGTAACGTACACGATTTCGGCTAAAATTTT--G
* ** * * * *
53883 CTAAAAATTGACCCGAAAA-CGTTTTTCTCAATTTCTTGCCACAGTTCTCTGAAAAAAATATATA
514 C-AAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAAATATATA
* * * * * * * * *
53947 ACTCAAAGCCAAAAATATTGACGGGATTTTCACGCTTCTAATATTGTTTTTCCATTTTTTTCCGA
577 ATTCAATGACAAAAAAAGTGAAGGGATTTTTACGCTTCTAATATCGTTTTT-CATGTTTTTCCGA
* *
54012 ACTAATT
641 ATTTATT
* * * *
54019 TCTAATTAAGTCGAAACAAGATTC-AGATACTCGTAAAAACAAATCCTTATATCCAATGTCGCTG
1 TATAATTAA-TCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTG
* * * * * *
54083 AGATTAGGTTCGATGAATATAGATACTTCGA-GAAGTCTTTGCT-CCAAAAATCATACAAAATTG
65 AGATTTGGTTCGATGAATATAGATATTTC-ATGGAG-CTTTTCTGCCAAAAATCATGCAAAACTG
* * * * * * * *
54146 AGCCGAGGCTCCGGAACGTGTTTTTAGCAAAAAATCGTGATGGTTAGTACACGA-TTTCAGCTAA
128 AGTCGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGGC---
* * * *
54210 AATTTTGCAAAAACTGACCCGAAAA-TTTTTTCTCAATTTTTTACCAAAATA-TTTAGAAAAAAT
190 -----T--AAAAATTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCT-GAAAAAAT
* * * * * *
54273 ATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCGTTGTTCATGTTTTT
247 ATATAACTCAAAGCCAAAAATATTGAAGGGATTTTCACGCTTCTAATA-------T--TGTTTTT
54338 CATGTTTTTCCGAATTTATTTATAATTGAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATA
303 CATGTTTTTCCGAATTTATTTATAATT-AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATA
* * * * * * * *
54403 ATTAGATCCATTGTGGTTGAGATTTGGATCGATAAATATAGATATTTCAAGGAGTCTTCACGCCA
367 ATTAAATCCAATGTGGCTGAGATTTGGATCGATGAATATAGATATTTCATGAAGTCTT-GCTCCA
* * *
54468 AAAATCATGCAAAATTGAGCCGGGGCTCCGGAACATGTTTTTAGCCAAAAATCGTGA--TGCACG
431 AAAATCATGCAAAATTGAGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTAACGTACACG
*
54531 ATTTCGGCTAAAATTTTGCAAAAACTGAACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATA
496 ATTTCGGCTAAAATTTTGCAAAAACTG-ACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATA
* * *
54596 CTCAGAAAAAATATATAATTCAATGACAAAGAGAAGTGAAGGGTTTTTTACGCTTTTAATATCGT
560 CTCAGAAAAAATATATAATTCAATGACAAA-AAAAGTGAAGGGATTTTTACGCTTCTAATATCGT
54661 TTTTCATGTTTTTCCGAATTTATT
624 TTTTCATGTTTTTCCGAATTTATT
*** * * * *
54685 TATAATTGAATCGAAACAAGATTCTA-ATGCTCGTAAAAACAAATAAATAAATCCATTATGGTTG
1 TATAATT-AATCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTG
* * * * *
54749 TGATTTGGATCGATGAATATAGATATTTCATGGAG-TCTTTCTGGCAAAAATCATGCAGAACTAA
65 AGATTTGGTTCGATGAATATAGATATTTCATGGAGCT-TTTCTGCCAAAAATCATGCAAAACTGA
*
54813 GTCGGGGCCCCGAAATGTG-TTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAA
129 GTCGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAA
* * * *
54877 AATTGACCCGAAAACTTTTTTCTCAATTTCTTGTCACAGTACTCTGAAAAAATATATAACTCAAA
194 AATTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAATATATAACTCAAA
* * * * * *
54942 GCCAAAAATATTTACGGGATTTTCACGCTTCTACTATTGTTTTTCCATTTTTTTTCCGAAGTAAT
259 GCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATTGTTTTT-CA-TGTTTTTCCGAATTTAT
* * ** * *
55007 TTCTTATTAAGTCGAAACAAGATTCAGATGCTCGTAAAAACAAATTTTTATATCCAATGTTGCTG
322 TTATAATTAA-TCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTGGCTG
* *
55072 AGATTTGGTTCGATGAATATAGATATTTCGA-GAAGTCTTTGCTCCAAAAATCATGAAAAATTGA
386 AGATTTGGATCGATGAATATAGATATTTC-ATGAAGTC-TTGCTCCAAAAATCATGCAAAATTGA
55136 GCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTA-GTACACGATTTCGGCTAAA
449 GCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGT-A-----ACGTACACGATTTCGGCTAAA
* *
55200 ATTTTGCAAAAACTGACCCGGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGGAAAAATA
508 ATTTTGCAAAAACTGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATA
*
55265 TATAATTCAATGACAAAAAAAAAGTGAAGGGTTTTTTACGCTT
573 TATAATTCAATGAC--AAAAAAAGTGAAGGGATTTTTACGCTT
55308 TTCGGCTAAA
Statistics
Matches: 3699, Mismatches: 590, Indels: 473
0.78 0.12 0.10
Matches are distributed among these distances:
626 9 0.00
627 13 0.00
628 20 0.01
629 39 0.01
630 2 0.00
631 22 0.01
632 127 0.03
633 25 0.01
634 1 0.00
636 7 0.00
637 23 0.01
638 136 0.04
639 40 0.01
640 60 0.02
641 41 0.01
642 79 0.02
643 18 0.00
644 15 0.00
645 144 0.04
646 131 0.04
647 234 0.06
648 343 0.09
649 203 0.05
650 446 0.12
651 95 0.03
652 230 0.06
653 22 0.01
654 12 0.00
655 11 0.00
656 104 0.03
657 124 0.03
658 6 0.00
659 40 0.01
660 61 0.02
661 203 0.05
662 236 0.06
663 36 0.01
664 41 0.01
665 44 0.01
666 181 0.05
667 67 0.02
668 8 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (647 bp):
TATAATTAATCGAAACAAGATTCTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTTGCTGA
GATTTGGTTCGATGAATATAGATATTTCATGGAGCTTTTCTGCCAAAAATCATGCAAAACTGAGT
CGGGGCCCCGAAATGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTCGGCTAAAAA
TTGACCCGAAAATTTTTTTCTCAATTTCTTGCCAAAATACTCTGAAAAAATATATAACTCAAAGC
CAAAAATATTGAAGGGATTTTCACGCTTCTAATATTGTTTTTCATGTTTTTCCGAATTTATTTAT
AATTAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCAATGTGGCTGAGATT
TGGATCGATGAATATAGATATTTCATGAAGTCTTGCTCCAAAAATCATGCAAAATTGAGCCGGGG
CTCCGGAACGTGTTTTTAGCCAAAAATCGTAACGTACACGATTTCGGCTAAAATTTTGCAAAAAC
TGACCCGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGA
CAAAAAAAGTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATTTATT
Found at i:52372 original size:333 final size:331
Alignment explanation
Indices: 50130--55307 Score: 4778
Period size: 321 Copynumber: 15.9 Consensus size: 331
50120 AAAAAATATA
* * * *
50130 TAATTCAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAAATCCATTGTGGTTGAGA
1 TAATT-AATCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * * * *
50195 TTTGGATCGATGAATGTAGACATTTCAAGGAGTGTTC-ACGCCAAAAATCAAGCAAAATTGAGCC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
* *
50259 TGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGTTAAAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
*
50324 TGCAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
195 TGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
** * * * * **
50389 TTCAATA-AAGAAAAAAGTGAAGGGTTTTTTACGCTTTTAATATCGTTTTTCAGGTTTTTTTGAA
260 TTCAA-AGACCAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGAA
50453 TTTATTTC
324 TTTATTTC
* * ** ** *
50461 AAATTAGATCGAATCAAGATTCT-GATGCTCGTAAAAACAAATCCTTAAATAAAATG-TGATTGA
1 TAATTA-ATCGAAACAAGATT-TAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTG-CTGA
* * * * * *
50524 GATTTTGTTCGATGAATATAGATATTTCATGGAG-CTT-TTCTGCCAAAAATCATGCAGAACTAA
63 GATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGC-GCCAAAAATCATGCAAAATTGA
* * ** * *
50587 GTCGGGGC-CCCGAAATTCG-TTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTTCGGC---
127 GCCGGGGCTCCGGAACGT-GTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAA
* * * * * * * *
50647 -----T--AAAAATTGACCCGAAAACTTTTTTCTCAATTTCTTACCACAGTACTCCGAAAAACTA
190 AATTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATA
* * * * * * *
50705 TATAACTCAAAG-CCAAAAATGTTGACGGGATTTTCACGCTTCTTATTTTGTTTTTCCAT-TTTT
255 TATAATTCAAAGACCAAAAA-ATTGAAGGGATTTTTACGCTTCTAATATCGTTTTT-CATGTTTT
* * *
50768 TCCAAACTAATTTC
318 TCCGAATTTATTTC
* ** * * *
50782 TAATTAAGTCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTCGCTAAGA
1 TAATTAA-TCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * * *
50847 TTTGGTTCGATGAATATAGATATTTCGAGAAGTCTT-TGCTCGAAAAATCATGCAAAATTGAGCT
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
* * * * * *
50911 GGGGCTCCGGAACGTGTTTTTAGTCAAAAATCGTGGTGGTTACTACACTACTTCGGGTAAAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
* * *
50976 TACAAAAACTGACCC-GAAATTTTTTTTTCTC-ATTTTTTGCCAAAATACTAAGAAAAAATATAT
195 TGCAAAAACTGACCCGGAAA--TTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
* * * * *
51039 AATTCAACGA-AAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCATTTTTCATGTTTTTCCAA
258 AATTCAAAGACCAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGA
*
51103 ATTTATTTA
323 ATTTATTTC
* * *
51112 TAATTGAATCGAAACAGGATTCAG-T--T-G-----ACAAATAATTAAAT-CAATTGTTGTTGAG
1 TAATT-AATCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAA-TGTTGCTGAG
* * *
51167 ATTTGGATCGATGAATATAGTTATTTCAAGGAGTCTTC-ACGCCAAAAATCATGCAAAATTGAGC
64 ATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGC
* * * * *
51231 CGTGGTTCCAGAACGTGTTTTAAGCCAAAAAATCGTGA---TT-GTACACGATTTCGGTTAAAAT
129 CGGGGCTCCGGAACGTGTTTTTAGCC-AAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAAT
* *
51292 TTTGCAAAAATTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAAAACTCAGAAAAAATATAT
193 TTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
* * * * * * * **
51357 AATTCAATGACGAAAAAAAGTGAAGGGTTTTTTACACTTTTAATATTGTTTTTCATGTTTTTTTG
258 AATTCAAAGAC-CAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCG
51422 AATTTATTTC
322 AATTTATTTC
* * * * ** **
51432 AAATTAAATCGAATCAAGATTCT-GATGCTAGTAAAAATAAATCCTTAAATAAAATG-TGACTGA
1 TAATT-AATCGAAACAAGATT-TAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTG-CTGA
* * * * * * *
51495 GATTTTGTTCGATGAATATAGATATTTCATGGAG-CTT-TTCTGCCAAATATCATGCAGAACTAA
63 GATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGC-GCCAAAAATCATGCAAAATTGA
* * ** * *
51558 GTCGGGGC-CCCGAAATTCG-TTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTTCGGC---
127 GCCGGGGCTCCGGAACGT-GTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAA
* * * * *
51618 -----T--AAAAATTGACCCGAAAACTTTTTTCTCAATTTCTTGCCAC-ATACTCTGAAAAAATA
190 AATTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATA
* * * * *
51675 TATAACTCAAAG-CCAAAAATATTGACA-GGATTTTCAAGTTTCTAATATTGTTTTTCCAAT-TT
255 TATAATTCAAAGACCAAAAA-ATTGA-AGGGATTTTTACGCTTCTAATATCGTTTTT-C-ATGTT
* *
51737 TTTCCGAACTAATTTC
316 TTTCCGAATTTATTTC
* * ** * *
51753 TAATTAAGTCGAAACAAGATTCAGATGCTCGTACAAACAAATCCTTATATCCAATGTCGCTGAGA
1 TAATTAA-TCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * * * * * *
51818 TTTGGTTAGATGAATATAAATATTTCGAGAAG-CATGTGCTCCAAAAAACATGCAAAATTGAGCC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
51882 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGT-A-----ACGTACACGATTTCGGCTAAAATT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTA-GTACACGATTTCGGCTAAAATT
* * *
51941 TTGCAAAAACTGACCCGAAAATTTTTTTTCTCATTTTTTTGCCAAAATACTCAGAAAAAATATAT
194 TTGCAAAAACTGACCCGGAAA-TTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
* *
52006 AATTCAACGACAAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGA
258 AATTCAAAGACCAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGA
*
52071 ATTTATTTA
323 ATTTATTTC
* * *
52080 TAATTGAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATAATTAAATCCATTGTTGTTGAGA
1 TAATT-AATCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* *
52145 TTTGGATCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCGAAAAATCATGCAAAATTGAGCC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
* *
52210 GGGGTTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTACAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
*
52275 TGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCAAAATACTCAGAAAAAATATATAA
195 TGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
* * * *
52340 TTCAATGACGACAAAAAGTGAAGGGTTTTTTACGCCTT-TAATATCGTTTTTCATGTTTTTCTCG
260 TTCAAAGACCA-AAAAATTGAAGGGATTTTTACG-CTTCTAATATCGTTTTTCATGTTTTTC-CG
52404 AATTTATTTC
322 AATTTATTTC
* * * ** *
52414 TATTTAAATCGAATCAACATTCT-GATGCTCGTAAAAACAAAATCCTTAAATACAATG-TGACTG
1 TAATT-AATCGAAACAAGATT-TAGATGCTCGTAAAAAC-AAATAATTAAATCCAATGTTG-CTG
* * * *
52477 AGATTTGGTTCGATGAATATAGATATTTCATGGAGCCTT-T-CTGCCAAAAATCATGCAGAACT-
62 AGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGC-GCCAAAAATCATGCAAAATTG
* * * * *
52539 A--------ACCGAAAAGCG-TTTTAGCC-AAAATCCGTGATGGTTAGTACATGATTTTCGG---
126 AGCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAAT-CGTGATGGTTAGTACACGA-TTTCGGCTA
* * * * * * *
52591 -------GTAAAAATTGACCCGAAAACTTTTTTCTCAATTTCTTGCCACAGTACTCTGAAAAAAT
189 AAATTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAAT
* * * * *
52649 ATATAACTCAAAG-CCAAAAATATTGACGGGATTTTCACGTTTCTAATATTGTTTTTCCAAT-TT
254 ATATAATTCAAAGACCAAAAA-ATTGAAGGGATTTTTACGCTTCTAATATCGTTTTT-C-ATGTT
* *
52712 TTTCCGAACTAATTTC
316 TTTCCGAATTTATTTC
* ** * **
52728 TAATTAAGTCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTCACTGAGA
1 TAATTAA-TCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * *
52793 TTTGGTTCGATGAATATAGATATTTCGAGAAGTCTT-TGCTCCAAAAATCATGCAAAATTGAGTC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
* * *
52857 GGGGCTCCGGAATGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTTCGGGTAAAAGT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAAATT
* * * * *
52922 TTGCAAAAACT-AACCAGAAATTTTTTTTTCAAATTTTTTACCAAAATACTCAGAAAAAATATAT
194 TTGCAAAAACTGACCCGGAAATTTTTTTCTC-AATTTTTTGCCACAATACTCAGAAAAAATATAT
* * * **
52986 AATTCAACGACAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCTAA
258 AATTCAAAGACCAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGA
*
53051 ATTTATTTA
323 ATTTATTTC
* * *
53060 TAATTGAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATAATTAAATCCATTGTTGTTGAGA
1 TAATT-AATCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * * * **
53125 TTTGGATCGATGAATATAGATATTTCAACGAGTCTTC-ACGCTAAAAATCATGCAAAATTTAGTT
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
*
53189 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGATTAGTACACGA-TTCGGCTAAAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
* *
53253 TGCAAAAACTGACACGGAATTTTTTTTCTCAAATTTTTTGCCACAATACTCAGAAAAAATATATA
195 TGCAAAAACTGACCCGGAAATTTTTTTCTC-AATTTTTTGCCACAATACTCAGAAAAAATATATA
* * * * * * * *
53318 ATTCAATGA-CAAAAAA--AAAGTGAAGTTTTACGCTTTTAATATCGTTTTACATGTTTTTTCAA
259 ATTCAAAGACCAAAAAATTGAAG-GGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGA
53380 ATTTATTTC
323 ATTTATTTC
* * ** *
53389 TAATTAAATCGAATCAATATTCT-GATGCTCGTAAAAACAAATCCTTAAATACAATG-TGACTGA
1 TAATT-AATCGAAACAAGATT-TAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTG-CTGA
* * ** * * * * *
53452 GATTTGGTTCGATAAATATAGATATTTCATGTTGCCTT-T-CTGCCAAAAATCATACAGAACTCA
63 GATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGC-GCCAAAAATCATGCAAAATTGA
* * * * *
53515 GTCGGGGCCCCGAAATGTG-TTTTAGCCAAAAACCGTGAT-G---GTACACGATTTTCGGC----
127 GCCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAA
* * * * * *
53571 ----T--AAAAATTGACCCGTAAATTTTTTTCTCAATTTCTTGCCACAGTACTCTGAAAAAATGT
191 ATTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATAT
* * * *
53630 ATAACTCAAAG-CCAAAAATATTGATGGGATTTTCACGCTTCTAATA-----TTT--T-TTTTAC
256 ATAATTCAAAGACCAAAAA-ATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTC
*
53686 CGAATTTATTTA
320 CGAATTTATTTC
* * * * *
53698 TAATTAAATCGAAACAAGATTCT-GATGCTCGTAAAAATAAATAATTAAATCCATTGTGGTTAAG
1 TAATT-AATCGAAACAAGATT-TAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAG
* * * * ** * *
53762 ATTTGGATCGATGAATATAGATATTTCATGTAGCCTT-T-CTGCCAAAAATCATGCAGCACTAAG
64 ATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGC-GCCAAAAATCATGCAAAATTGAG
* * * * * * *
53825 TCGGGGAC-CCGAAATGCG-TTTTAGCCAAAAACCGTCATGGTTAATACACGATTTTCGGC----
128 CCGGGG-CTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAA
* * ** * * * *
53884 ----T--AAAAATTGACCCGAAAACGTTTTTCTCAATTTCTTGCCACAGTTCTCTGAAAAAAATA
191 ATTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAAATA
* * * * *
53943 TATAACTCAAAG-CCAAAAATATTGACGGGATTTTCACGCTTCTAATATTGTTTTTCCATTTTTT
255 TATAATTCAAAGACCAAAAA-ATTGAAGGGATTTTTACGCTTCTAATATCGTTTTT-CATGTTTT
* *
54007 TCCGAACTAATTTC
318 TCCGAATTTATTTC
* * ** * *
54021 TAATTAAGTCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTATATCCAATGTCGCTGAGA
1 TAATTAA-TCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * * * *
54086 TTAGGTTCGATGAATATAGATACTTCGAGAAGTCTT-TGCTCCAAAAATCATACAAAATTGAGCC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
* * *
54150 GAGGCTCCGGAACGTGTTTTTAGCAAAAAATCGTGATGGTTAGTACACGATTTCAGCTAAAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
* * * * *
54215 TGCAAAAACTGACCC-GAAAATTTTTTCTCAATTTTTTACCAAAATATTTAGAAAAAATATATAA
195 TGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA
* * *
54279 TTCAACGACAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCGTTGTTCATGTTTTTCATGTT
260 TTCAAAGACCAAAAAATTGAAGGGATTTTTACGCTTCTAATA-------TC--GTTTTTCATGTT
*
54344 TTTCCGAATTTATTTA
316 TTTCCGAATTTATTTC
* * * * *
54360 TAATTGAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATAATTAGATCCATTGTGGTTGAGA
1 TAATT-AATCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * *
54425 TTTGGATCGATAAATATAGATATTTCAAGGAGTCTTC-ACGCCAAAAATCATGCAAAATTGAGCC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
*
54489 GGGGCTCCGGAACATGTTTTTAGCCAAAAATCGTGA----T-G--CACGATTTCGGCTAAAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
*
54547 TGCAAAAACTGAACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
195 TGCAAAAACTGACCCGG-AAA-TTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATAT
* * * *
54612 AATTCAATGA-CAAAGAGAAGTGAAGGGTTTTTTACGCTTTTAATATCGTTTTTCATGTTTTTCC
258 AATTCAAAGACCAAA-A-AATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCC
*
54676 GAATTTATTTA
321 GAATTTATTTC
* * * * * *
54687 TAATTGAATCGAAACAAGATTCTA-ATGCTCGTAAAAACAAATAAATAAATCCATTATGGTTGTG
1 TAATT-AATCGAAACAAGATT-TAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAG
* * * * *
54751 ATTTGGATCGATGAATATAGATATTTCATGGAGTCTTTCTG-G-CAAAAATCATGCAGAACTAAG
64 ATTTGGTTCGATGAATATAGATATTTCAAGGAGTC-TTCTGCGCCAAAAATCATGCAAAATTGAG
* * * * * *
54814 TCGGGGCCCCGAAATGTG-TTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTTCGGC-----
128 CCGGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGA-TTTCGGCTAAAA
* * * * * * *
54873 ---T--AAAAATTGACCCGAAAACTTTTTTCTCAATTTCTTGTCACAGTACTCTGAAAAAATATA
192 TTTTGCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATA
* * * * * * *
54933 TAACTCAAAG-CCAAAAATATTTACGGGATTTTCACGCTTCTACTATTGTTTTTCCATTTTTTTT
257 TAATTCAAAGACCAAAAA-ATTGAAGGGATTTTTACGCTTCTAATATCGTTTTT-CA-TGTTTTT
* *
54997 CCGAAGTAATTTC
319 CCGAATTTATTTC
* * ** *
55010 TTATTAAGTCGAAACAAGATTCAGATGCTCGTAAAAACAAATTTTTATATCCAATGTTGCTGAGA
1 TAATTAA-TCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGA
* * * *
55075 TTTGGTTCGATGAATATAGATATTTCGAGAAGTCTT-TGCTCCAAAAATCATGAAAAATTGAGCC
65 TTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCC
55139 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
130 GGGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
*
55204 TGCAAAAACTGACCCGGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGGAAAAATATATA
195 TGCAAAAACTGACCCGGAAA-TTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATA
* * * *
55269 ATTCAATGACAAAAAAAAAGTGAAGGGTTTTTTACGCTT
259 ATTCAAAGAC--CAAAAAATTGAAGGGATTTTTACGCTT
55308 TTCGGCTAAA
Statistics
Matches: 3977, Mismatches: 641, Indels: 453
0.78 0.13 0.09
Matches are distributed among these distances:
309 157 0.04
310 4 0.00
312 2 0.00
313 141 0.04
314 123 0.03
315 110 0.03
316 34 0.01
317 33 0.01
318 73 0.02
319 14 0.00
320 112 0.03
321 473 0.12
322 182 0.05
323 305 0.08
324 114 0.03
325 13 0.00
326 43 0.01
327 276 0.07
328 165 0.04
329 238 0.06
330 141 0.04
331 268 0.07
332 315 0.08
333 192 0.05
334 130 0.03
335 103 0.03
336 42 0.01
337 5 0.00
338 1 0.00
339 160 0.04
340 8 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (331 bp):
TAATTAATCGAAACAAGATTTAGATGCTCGTAAAAACAAATAATTAAATCCAATGTTGCTGAGAT
TTGGTTCGATGAATATAGATATTTCAAGGAGTCTTCTGCGCCAAAAATCATGCAAAATTGAGCCG
GGGCTCCGGAACGTGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTT
GCAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAAT
TCAAAGACCAAAAAATTGAAGGGATTTTTACGCTTCTAATATCGTTTTTCATGTTTTTCCGAATT
TATTTC
Found at i:57692 original size:2 final size:2
Alignment explanation
Indices: 57685--57716 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57675 AATTCGACGA
57685 AT AT AT AT AT 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
57717 TATTACACTG
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):
AT
Found at i:64370 original size:20 final size:20
Alignment explanation
Indices: 64345--64384 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64335 TTATGGTGGG
64345 TGAGTCTACCAACAGGGACA
1 TGAGTCTACCAACAGGGACA
64365 TGAGTCTACCAACAGGGACA
1 TGAGTCTACCAACAGGGACA
64385 GCTGTATACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
TGAGTCTACCAACAGGGACA
Found at i:66438 original size:53 final size:53
Alignment explanation
Indices: 66358--66462 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
66348 CATCTGGTAT
* * *
66358 CCAAGGCTTTGCCCTGATTAATTCGGATTCGACCCGTGTCGTGCACATGGTTC
1 CCAAGGCTTTGCCCCGATTAATCCGGATTCGACCCGCGTCGTGCACATGGTTC
* * *
66411 CCAAGGCTTTGCCCCGATTAATCCGGATTTGACCGGCGTCGTGCACCTGGTT
1 CCAAGGCTTTGCCCCGATTAATCCGGATTCGACCCGCGTCGTGCACATGGTT
66463 ATGGTGGGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.29
Consensus pattern (53 bp):
CCAAGGCTTTGCCCCGATTAATCCGGATTCGACCCGCGTCGTGCACATGGTTC
Found at i:84495 original size:6 final size:6
Alignment explanation
Indices: 84484--84511 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
84474 GGTGTGATTG
84484 AATCGA AATCGA AATCGA AATCGA AATC
1 AATCGA AATCGA AATCGA AATCGA AATC
84512 TGCAGGGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (6 bp):
AATCGA
Found at i:97092 original size:46 final size:46
Alignment explanation
Indices: 96991--97082 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
96981 TTTTGAACTT
96991 TTACATGTTAAGGTAATTTAAAATCTACTAAGCTATCATGGAGATA
1 TTACATGTTAAGGTAATTTAAAATCTACTAAGCTATCATGGAGATA
*
97037 TTACATGTTAAGGTAATTTAAAATCTACTAAGCTATTATGGAGATA
1 TTACATGTTAAGGTAATTTAAAATCTACTAAGCTATCATGGAGATA
97083 GATTCTGTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (46 bp):
TTACATGTTAAGGTAATTTAAAATCTACTAAGCTATCATGGAGATA
Found at i:104602 original size:39 final size:39
Alignment explanation
Indices: 104559--104636 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
104549 AGGAATAATC
* *
104559 CCGCACCACACGATTATCCAGCTCAATCTTAACTAGAGA
1 CCGCACCACACGAATATCCAACTCAATCTTAACTAGAGA
*
104598 CCGCACCACACGAATATCCAACTCAATCTTAGCTAGAGA
1 CCGCACCACACGAATATCCAACTCAATCTTAACTAGAGA
104637 ATGTGTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.19
Consensus pattern (39 bp):
CCGCACCACACGAATATCCAACTCAATCTTAACTAGAGA
Found at i:104743 original size:12 final size:12
Alignment explanation
Indices: 104728--104752 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104718 ACAAATAAAT
104728 TACAAAGAAAAC
1 TACAAAGAAAAC
104740 TACAAAGAAAAC
1 TACAAAGAAAAC
104752 T
1 T
104753 CACATTCCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (12 bp):
TACAAAGAAAAC
Found at i:104968 original size:20 final size:21
Alignment explanation
Indices: 104931--104969 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
104921 ATATATATAA
*
104931 AAAAATAATTATTCAATTATT
1 AAAAATAATAATTCAATTATT
*
104952 AAAAA-AATAATTGAATTA
1 AAAAATAATAATTCAATTA
104970 AATATGTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAAATAATAATTCAATTATT
Found at i:105778 original size:21 final size:20
Alignment explanation
Indices: 105754--105793 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
105744 TTTAGTGGGG
105754 ATTTTCCTTTTCGTTGTTCTT
1 ATTTTCCTTTTCGTT-TTCTT
**
105775 ATTTTTTTTTTCGTTTTCT
1 ATTTTCCTTTTCGTTTTCT
105794 GTTTGGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.72
Consensus pattern (20 bp):
ATTTTCCTTTTCGTTTTCTT
Found at i:115358 original size:26 final size:26
Alignment explanation
Indices: 115294--115352 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
115284 GTCCACAGTT
115294 AAAAAAAAGATAATTCTAGAAAAGAA
1 AAAAAAAAGATAATTCTAGAAAAGAA
115320 AAAAAAAAGATAATTCTAGAAAAGAA
1 AAAAAAAAGATAATTCTAGAAAAGAA
115346 AAAAAAA
1 AAAAAAA
115353 GTATAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAAAAAAGATAATTCTAGAAAAGAA
Found at i:115364 original size:25 final size:26
Alignment explanation
Indices: 115294--115366 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
115284 GTCCACAGTT
**
115294 AAAAAAAAGATAATTCTAGAAAAGAA
1 AAAAAAAAGATAATAATAGAAAAGAA
**
115320 AAAAAAAAGATAATTCTAGAAAAG-A
1 AAAAAAAAGATAATAATAGAAAAGAA
115345 AAAAAAAAGTATAA-AATAGAAA
1 AAAAAAAAG-ATAATAATAGAAA
115367 TTAATCCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 16 0.36
26 28 0.64
ACGTcount: A:0.71, C:0.03, G:0.11, T:0.15
Consensus pattern (26 bp):
AAAAAAAAGATAATAATAGAAAAGAA
Found at i:119627 original size:1 final size:1
Alignment explanation
Indices: 119621--119647 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
119611 ATTCATATAT
119621 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
119648 CTTCAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:125172 original size:1 final size:1
Alignment explanation
Indices: 125166--125195 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
125156 ACAAAATTTT
125166 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
125196 TGTTTCTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:130321 original size:135 final size:130
Alignment explanation
Indices: 130146--130413 Score: 356
Period size: 135 Copynumber: 2.0 Consensus size: 130
130136 ACAGTCCGAA
* * *
130146 AAATTGATCCGAAATTTGGTTTCTCATGATGTCTTCTTATATGGCTGGTCCAACAGACTGATCTC
1 AAATTGACCCGAAATTTGGTCTCTCATGATGTCTTCTTATATGGCTGGTCCAACAGACTGATCAC
* * *
130211 ACCACTACTTAAGTGGAATTTTGCTATATATATAACATGGGATAACTAGTCATGACACGTCATGG
66 ACCACTACTTAAGTGGAATTTTGC----TATATAACATGAGACAACTAGCCATGACACGTCATGG
130276 GGGAC
127 GGG-C
* * * * * **
130281 AAATTGACCCGAAATTTGGTCTCTCGTGATTTGTTTTTATATGGTTGGTCCAGTAGACTGATCAC
1 AAATTGACCCGAAATTTGGTCTCTCATGATGTCTTCTTATATGGCTGGTCCAACAGACTGATCAC
* *
130346 ACCACTACTTAAGTGTAGTTTTGCTATATAACATGAGACAACTAGCCATGACACGTCATGGGGGC
66 ACCACTACTTAAGTGGAATTTTGCTATATAACATGAGACAACTAGCCATGACACGTCATGGGGGC
130411 AAA
1 AAA
130414 ATTCAGATCA
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
130 4 0.03
131 37 0.31
135 77 0.65
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (130 bp):
AAATTGACCCGAAATTTGGTCTCTCATGATGTCTTCTTATATGGCTGGTCCAACAGACTGATCAC
ACCACTACTTAAGTGGAATTTTGCTATATAACATGAGACAACTAGCCATGACACGTCATGGGGGC
Found at i:142113 original size:183 final size:183
Alignment explanation
Indices: 141804--142170 Score: 601
Period size: 183 Copynumber: 2.0 Consensus size: 183
141794 AAAGTATTTT
* *
141804 CTGACTATGGTGGGGAGAAGTATCCCTCCTTAAGGAGTTCTAATGCCAATGAAGCTTCACCAAGG
1 CTGACTATGGTAGGGAGAAGTATCCCTCCTTAAGGAATTCTAATGCCAATGAAGCTTCACCAAGG
* * *
141869 ACTCGGCCTCAGAAAGAGGACTCAGATTACTGGGAAAGTAATCAGCAGTCCCGGCTGGCGGCACA
66 ACTCAGCCTCAGAAACAGGACTCAGATCACTGGGAAAGTAATCAGCAGTCCCGGCTGGCGGCACA
141934 AGCAACTACTAAGCTGGTTTCAGAGACCAAAAAGTCTTCATTTGATGGACCTC
131 AGCAACTACTAAGCTGGTTTCAGAGACCAAAAAGTCTTCATTTGATGGACCTC
* * *
141987 CTGACTATGGTAGGGAGAAGTATTCCTCTTTAAGGAATTCTAATGCCGATGAAGC-TCAACCAAG
1 CTGACTATGGTAGGGAGAAGTATCCCTCCTTAAGGAATTCTAATGCCAATGAAGCTTC-ACCAAG
* *
142051 GAGTCAGCCTCAGAAACAGGACTCAGATCACTGGGAAAGTAATCAGCAGTCCCGGTTGGCGGCAC
65 GACTCAGCCTCAGAAACAGGACTCAGATCACTGGGAAAGTAATCAGCAGTCCCGGCTGGCGGCAC
* **
142116 GAGCAACTACTAAGCTGGTTTCAGAGATTAAAAAGTCTTCATTTGATGGACCTC
130 AAGCAACTACTAAGCTGGTTTCAGAGACCAAAAAGTCTTCATTTGATGGACCTC
142170 C
1 C
142171 AGTGTCCTCA
Statistics
Matches: 170, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 2 0.01
183 168 0.99
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (183 bp):
CTGACTATGGTAGGGAGAAGTATCCCTCCTTAAGGAATTCTAATGCCAATGAAGCTTCACCAAGG
ACTCAGCCTCAGAAACAGGACTCAGATCACTGGGAAAGTAATCAGCAGTCCCGGCTGGCGGCACA
AGCAACTACTAAGCTGGTTTCAGAGACCAAAAAGTCTTCATTTGATGGACCTC
Found at i:167576 original size:48 final size:48
Alignment explanation
Indices: 167505--167652 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 48
167495 CAACTTACTC
* * *
167505 CAAAAGATGGGTTT-GGTTCCAGCAGACGACTCGGAGACCACCGGAGAA
1 CAAAAGATGGGTTTGGGTT-CAGCAGACAACTCAGAAACCACCGGAGAA
*
167553 CAAAAGATGGGTTTGGGTTCAGCAGACAACTCAGAAACCACCGGGGAA
1 CAAAAGATGGGTTTGGGTTCAGCAGACAACTCAGAAACCACCGGAGAA
* * * * *
167601 CAAAAGATGGGTTTGGTTTCAGAAGACAAGTCA-AAGACCACTGGGGAA
1 CAAAAGATGGGTTTGGGTTCAGCAGACAACTCAGAA-ACCACCGGAGAA
167649 CAAA
1 CAAA
167653 GTTTCAGGTC
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.02
48 84 0.93
49 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.16
Consensus pattern (48 bp):
CAAAAGATGGGTTTGGGTTCAGCAGACAACTCAGAAACCACCGGAGAA
Found at i:174200 original size:41 final size:41
Alignment explanation
Indices: 174143--174225 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
174133 GATTGTTGTC
174143 TTGGCCCAAAGCACCAACGGCCCATTGGGTATCCACTGTGG
1 TTGGCCCAAAGCACCAACGGCCCATTGGGTATCCACTGTGG
174184 TTGGCCCAAAGCACCAACGGCCCATTGGGTATCCACTGTGG
1 TTGGCCCAAAGCACCAACGGCCCATTGGGTATCCACTGTGG
174225 T
1 T
174226 CTAATTTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (41 bp):
TTGGCCCAAAGCACCAACGGCCCATTGGGTATCCACTGTGG
Found at i:175109 original size:9 final size:9
Alignment explanation
Indices: 175095--175124 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
175085 AATTAAATAG
175095 TAATCAAAT
1 TAATCAAAT
175104 TAATCAAAT
1 TAATCAAAT
*
175113 TAATAAAAT
1 TAATCAAAT
175122 TAA
1 TAA
175125 ATATTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (9 bp):
TAATCAAAT
Found at i:198002 original size:36 final size:36
Alignment explanation
Indices: 197958--198028 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
197948 TTGATGGTTG
197958 ACTAACAGATTCCATTAAATCCCATAAAATTTGCTA
1 ACTAACAGATTCCATTAAATCCCATAAAATTTGCTA
*
197994 ACTAACAGATTCCGTTAAATCCCATAAAATTTGCT
1 ACTAACAGATTCCATTAAATCCCATAAAATTTGCT
198029 GATGTGACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (36 bp):
ACTAACAGATTCCATTAAATCCCATAAAATTTGCTA
Found at i:200085 original size:19 final size:19
Alignment explanation
Indices: 200061--200101 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
200051 CAAAGAAATA
200061 ATAGACTTTGCCGCCTCCG
1 ATAGACTTTGCCGCCTCCG
200080 ATAGACTTTGCCGCCTCCG
1 ATAGACTTTGCCGCCTCCG
200099 ATA
1 ATA
200102 ACACAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (19 bp):
ATAGACTTTGCCGCCTCCG
Found at i:200170 original size:16 final size:17
Alignment explanation
Indices: 200149--200180 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
200139 TTTTTTTCCC
200149 TTTATTTAT-ATAATTA
1 TTTATTTATAATAATTA
200165 TTTATTTATAATAATT
1 TTTATTTATAATAATT
200181 TTGTTTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTTATAATAATTA
Found at i:201690 original size:24 final size:24
Alignment explanation
Indices: 201663--201712 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
201653 TATCATAGTA
201663 TTCTTCTAATACTATATCTTGGTG
1 TTCTTCTAATACTATATCTTGGTG
201687 TTCTTCTAATACTATATCTTGGTG
1 TTCTTCTAATACTATATCTTGGTG
201711 TT
1 TT
201713 ACTGAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (24 bp):
TTCTTCTAATACTATATCTTGGTG
Found at i:208767 original size:99 final size:99
Alignment explanation
Indices: 208595--208783 Score: 360
Period size: 99 Copynumber: 1.9 Consensus size: 99
208585 CTGGAACATG
*
208595 GGATCTTACATTTGTTTTTACTTTCTGATTCTGTTTTATTATGTTCTCCTTTCTTGTTAATAAAT
1 GGATCTTACATTTGTTTTTACTTTCTGATTCCGTTTTATTATGTTCTCCTTTCTTGTTAATAAAT
*
208660 TTCGATGACAATGCATTTTACACTTCTACTTTTA
66 TTCAATGACAATGCATTTTACACTTCTACTTTTA
208694 GGATCTTACATTTGTTTTTACTTTCTGATTCCGTTTTATTATGTTCTCCTTTCTTGTTAATAAAT
1 GGATCTTACATTTGTTTTTACTTTCTGATTCCGTTTTATTATGTTCTCCTTTCTTGTTAATAAAT
208759 TTCAATGACAATGCATTTTACACTT
66 TTCAATGACAATGCATTTTACACTT
208784 AATAATAATA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (99 bp):
GGATCTTACATTTGTTTTTACTTTCTGATTCCGTTTTATTATGTTCTCCTTTCTTGTTAATAAAT
TTCAATGACAATGCATTTTACACTTCTACTTTTA
Found at i:210824 original size:50 final size:50
Alignment explanation
Indices: 210766--210940 Score: 296
Period size: 50 Copynumber: 3.5 Consensus size: 50
210756 TTGTGTGTCG
*
210766 TGTCTTCTCGTGTAGCTTCGTGTCTGGCCTCACCTCACTGCGGAGGCCTC
1 TGTCTTCTCGTGTAGCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCCTC
*
210816 TGTCTTCTCGTGTAGCTTCGTGTCTGGCCTCGCCTCTCTGCGGAGGCCTC
1 TGTCTTCTCGTGTAGCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCCTC
* *
210866 TGTCTTCTTGTGTAGCTTTGTGTCTGGCCTCGCCTCACTGCGGAGGCCTC
1 TGTCTTCTCGTGTAGCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCCTC
* *
210916 TGTCTTCTCGTGTACCTTCCTGTCT
1 TGTCTTCTCGTGTAGCTTCGTGTCT
210941 TCGCGTGTTC
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 116 1.00
ACGTcount: A:0.06, C:0.33, G:0.26, T:0.36
Consensus pattern (50 bp):
TGTCTTCTCGTGTAGCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCCTC
Found at i:211642 original size:12 final size:12
Alignment explanation
Indices: 211625--211651 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
211615 CTCTTCTACC
211625 TGAGATTTGGAA
1 TGAGATTTGGAA
211637 TGAGATTTGGAA
1 TGAGATTTGGAA
211649 TGA
1 TGA
211652 TGAAGAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (12 bp):
TGAGATTTGGAA
Found at i:211999 original size:61 final size:61
Alignment explanation
Indices: 211904--212025 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
211894 CAAATGCTCG
*
211904 TAAAATTAAATCTTTAAATCCAAGGTGGCTGAGATATGGGATAATGAATATAGATAAATCA
1 TAAAATTAAATCCTTAAATCCAAGGTGGCTGAGATATGGGATAATGAATATAGATAAATCA
* * *
211965 TAAAATTAAATCCTTAAATCTAAGGTGGCTGAGATTTGGGATGATGAATATAGATAAATCA
1 TAAAATTAAATCCTTAAATCCAAGGTGGCTGAGATATGGGATAATGAATATAGATAAATCA
212026 ATGAGTCTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (61 bp):
TAAAATTAAATCCTTAAATCCAAGGTGGCTGAGATATGGGATAATGAATATAGATAAATCA
Found at i:212574 original size:330 final size:332
Alignment explanation
Indices: 211965--215339 Score: 4275
Period size: 330 Copynumber: 10.1 Consensus size: 332
211955 AGATAAATCA
* * * *
211965 TAAAATTAAATCCTTAAATCTAAGGTGGCTGAGATTTGGGATGATGAATATAGATAAATCAATGA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * *
212030 GTCTTAGG-GCCATAAATCATGCAAAACTGAGCCGGGACCCCGGAACGTGTTTTCAGCCAAGAAT
66 GTCTT-GGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
212094 CGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
130 CGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * * * *
212159 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAATGCCAAAAATATTGATGGCCTTTCCC
195 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCC
*
212224 CTCTTCTAATATCA-TTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCA
260 CGCTTCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCA
212288 AATGCTCG
325 AATGCTCG
* * *
212296 TAAAATCAAATCCTTAAATCCAATGTGGCTGAGATTTGGGATGATGAATATAGATATTTCAATTA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * ** *
212361 CTCTTGGCGCAAAAAATTATGCAAAACTGAGTTGGGGCCCTGGAACGCGTTTTCAGCCAAGAATC
66 GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
* * *
212426 ATGAT-CTTAGTACACGATTTCGGAAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAA
131 GTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAA
* * *
212490 TTTTTAACCGCAATACTCGTAAAAAATATATAATTTAACGCCAAAAATATTGCAA-GACTTT-CC
196 TTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTG-AAGGGCTTTGCC
*
212553 CTTCTTCTAATATCA-TTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
260 C-GCTTCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
212617 AAATGCTCG
324 AAATGCTCG
* *
212626 TAAAATCAAATCCTTAAATCTAACGTGGCTGAGATTTGGAATGATGAATA-AGGATAATTCAATG
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATA-GATAATTCAATG
* *
212690 AGTCTTGGCGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAACAAT
65 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* *
212755 CGTGATGGTTAGTACACGATATT-GGCGAAAATTTTGCAAAAATTTACCCGAAAGATTTTTCCTC
130 CGTGATGGTTAGTACACGAT-TTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC
* *
212819 AATTTTTTACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAATAGATTGAAGGG-TATT-
194 AATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCT-TTG
* * * *
212882 CCACGCTTCTAATATAATTTTTTTTAAATTTTTCTGAATTAATTTCCAATTAAATCCAAACATGA
258 CC-CGCTTCTAATATCATTTTTTTT-AATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGA
*
212947 TTTAAATGCTCG
321 TTCAAATGCTCG
* * * * *
212959 CAAAATCAAATCCTTAAAACCAACGTGGCTGATATTTTGAATGATGAATA-AGGATAATTCAATG
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATA-GATAATTCAATG
* * *
213023 AGTCTTGACGCCAAAAATTACGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCGAA-AA
65 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCC-AAGAA
* * * *
213087 TCGTGAT-G---GTACACGATGTCGGCAATAATTTTGCAAAAATTGACCTGAGAGATTTTTCCTC
129 TCGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC
* * * * ***
213148 AATTTTTAAACCGCAAAACTCGTATAAAAT-TATAATTCAACCCGCAAAACTAG-TATAAAATAC
194 AATTTTT-AACCGCAATACTCGTAAAAAATATATAATTCAACGC-CAAAA--AGAT-TGAAGGGC
*** * * * **
213211 ATAATTCAAAGCCAAAAATAT-TAA-AGCGCTTTGCACGCTTCTAATATCATTTTT-TTAATGTT
254 -T--TT----GCC--CGCT-TCTAATATC-ATTT------TT-T--T-TAATTTTTCCGAA---T
* *
213273 TCCGAATTAATTTCTGATTAAATCGAAACATGATTCAAATGCTTG
295 T---A----ATTTCCGATTAAATCGAAACATGATTCAAATGCTCG
* * * * * *
213318 TAAAATTAAATCCTTAATTCCAAGGTTGCTGAGATTCGAGATGATGAATATAGATAATTCAATGA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * ** *
213383 GTCTTGGGGCCAAAAATCATGCAAAACTGATCAGGGGCCATGGAACGCGTTTTCAACCAAGAATC
66 GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
* * * * * * *
213448 ATGATGGTCAGTATACGATTTCGGCAAAAATTTGGCAAAAATTGACACGAAAGAATTTTCCCCAA
131 GTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAA
* * * * *
213513 TTTTAAAACGCAATACACGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTGCAC
196 TTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCCC
* * * * *
213578 ACTTCTAATATCATTCTCTTTTT-ACTTTTCCGATTTAATTTCCGATTAAATTGAAATATGATTC
261 GCTTCTAATATCATT-T-TTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
213642 AAATGCTCG
324 AAATGCTCG
* * * * *
213651 TAGAATCAAATCCTTAAATACAACGTGGCTGGGATTTGGAATGAGGAATA-AGGATAATTCAATG
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATA-GATAATTCAATG
* * *
213715 AGTATTGGCGCCAAAAATCATGCAAAACTGAGCCGTGGCCCCGGAACGCGTTTTCAGCCAAAAAT
65 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* * *
213780 CGTGATGGTTATTACACGATTTTGGCAAAAATTTTGCAAAAATTGACCCGAATGATTTTTCCTCA
130 CGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * * *
213845 ATTTTTAACCGCAGTAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGATTT-CC
195 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCC
* *
213909 ACGCTTCTAAAATCA-TTTTTTT-ATTTTTCCGAATTAATTTCCGATTAAATCGAAACGTGATTC
260 -CGCTTCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
213972 AAATGCTCG
324 AAATGCTCG
* *
213981 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTAGAATGATGAATA-AGGATAATTCAATG
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATA-GATAATTCAATG
* * *
214045 AGTCTTGGCGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAATAAT
65 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* * *
214110 CGTGATGGTTAGTACACG-TTATCGGCGAAAATTTTGCAAAAATTTACCCAAAAGATTTTTCCTC
130 CGTGATGGTTAGTACACGATT-TCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC
* *
214174 AATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACACCAAAGAGATTGAAGGGCTTTGC
194 AATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGC
* ** * *
214239 ACGCTTCTAATATCATTTTTTTTTAATTTTTCTTAATTGATTTCCGATTTAATCGAAACATGATT
259 CCGCTTCTAATATCA-TTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATT
214304 CAAATGCTCG
323 CAAATGCTCG
* * * * * *
214314 TAAAATAAAATTCTTAAATCCAATGTGGCTAAGATTTGGGATGATGAATATAGATAAATCAACGA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * * * *
214379 GTCTTGGGGCCAAAAATTATGCAAAACTGAGTCGAGGCCTCAGAACGCGTTTTCAG-C---AATC
66 GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
* * * * * *
214440 GTGATGGTTAGTATACGACTTT-GTCAAAAAATTTACAAAATTTGATCCGAAAGATTTTTCCTCA
131 GTGATGGTTAGTACACGA-TTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * *
214504 ATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCA
195 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCC
* *
214569 CGCTCCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCTGATTAAATCGAAACATGATTCA
260 CGCTTCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCA
214634 AATGCTCG
325 AATGCTCG
* * *
214642 TAAAATCAAATCCTTAAATCCAATGTGGCTGAGATTTGGGATGATGAATATAGATATTTCAATTA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * * *
214707 GTCTTGGCG-CAACGAATCATGCAAAACTGAGCTGGGGCCCTGGAACGCGTTTTTAGCCAAAAAT
66 GTCTTGGCGCCAA-AAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* * * *
214771 CGTGATGGTTAGTACACAATTTCAGCAAAAATTTTGTAAAAATTGACCCGAAAGATTTTTCATCA
130 CGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * * *
214836 ATTTTTAATCGCAATACTCGTAAAAAATATATAATTCAACACCAAAAAGAATGAAGGGCTTTGCA
195 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCC
* *
214901 CGCTTCTAATATCATTTTTTTTTATTTTTCCGAATTAATTTCTGATTAAATCGAAACATGATTCA
260 CGCTTCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCA
214966 AATGCTCG
325 AATGCTCG
* * *
214974 TAAAATCAAATCCTTAAATCCAAGGTGACTGAGATTTGGGATGATGAATATAGATAAATCAATGA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * *
215039 GTCTTGGGGCCATAAATCATGCAAAACTGAGCCGGGACCCAGGAACGCGTTTTCAGCCAAGAATC
66 GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
* *
215104 GTGATGGTTAGTACACGATTTCAGCAAAAATTTTGCAAAAATTGATCCGAAAGATTTTTCCTCAA
131 GTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAA
*
215169 TTTTTAACCGCAATAGTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCAC
196 TTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGC-C
* * *
215234 C-CTTCTAATATCATTTTTTTTTTATTTTT-CGAATTAATTTACGATTAAATCGAAACATGATTT
260 CGCTTCTAATATCA-TTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
*
215297 AAATGCTCA
324 AAATGCTCG
* * *
215306 TAAATTTAAATCCTTAAATCCAAGGTGGCTGAGA
1 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGA
215340 ACCTAAAATG
Statistics
Matches: 2653, Mismatches: 311, Indels: 159
0.85 0.10 0.05
Matches are distributed among these distances:
327 3 0.00
328 155 0.06
329 199 0.08
330 626 0.24
331 241 0.09
332 528 0.20
333 599 0.23
334 4 0.00
335 3 0.00
337 1 0.00
340 5 0.00
341 8 0.00
342 6 0.00
343 2 0.00
344 1 0.00
346 1 0.00
347 5 0.00
348 1 0.00
349 3 0.00
350 8 0.00
351 8 0.00
352 5 0.00
353 2 0.00
355 1 0.00
357 2 0.00
358 2 0.00
359 141 0.05
360 7 0.00
361 1 0.00
362 23 0.01
363 62 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (332 bp):
TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
GTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAA
TTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCCC
GCTTCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCAA
ATGCTCG
Found at i:213193 original size:31 final size:32
Alignment explanation
Indices: 213158--213219 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
213148 AATTTTTAAA
* *
213158 CCGCAAAACTCGTATAAAAT-TATAATTCAAC
1 CCGCAAAACTAGTATAAAATACATAATTCAAC
213189 CCGCAAAACTAGTATAAAATACATAATTCAA
1 CCGCAAAACTAGTATAAAATACATAATTCAA
213220 AGCCAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (32 bp):
CCGCAAAACTAGTATAAAATACATAATTCAAC
Found at i:214786 original size:661 final size:658
Alignment explanation
Indices: 211965--215339 Score: 4366
Period size: 663 Copynumber: 5.1 Consensus size: 658
211955 AGATAAATCA
* * *
211965 TAAAATTAAATCCTTAAATCTAAGGTGGCTGAGATTTGGGATGATGAATATAGATAAATCAATGA
1 TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * *
212030 GTCTTAGG-GCCATAAATCATGCAAAACTGAGCCGGGACCCCGGAACGTGTTTTCAGCCAAGAAT
66 GTCTT-GGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
212094 CGTGATGGTTAGTACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
130 CGTGATGGTTAGTACACG-TTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * * * * *
212159 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAATGCCAAAAATATTGATGGCCTTTCCC
194 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCA
*
212224 CTCTTCTAATATCA--TTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
259 CGCTTCTAATATCATTTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
*
212287 AAATGCTCGTAAAATCAAATCCTTAAATCCAATGTGGCTGAGATTTGGGATGATGAATATAGATA
324 AAATGCTCGTAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATA
* * * * **
212352 TTTCAATTACTCTTGGCGCAAAAAATTATGCAAAACTGAGTTGGGGCCCTGGAACGCGTTTTCAG
389 ATTCAATGAGTCTTGGCGCCAAAAATTATGCAAAACTGAGCCGGGGCCC-GGAACGCGTTTTCAG
* * *
212417 CCAAGAATCATGAT-CTTAGTACACGATTTCGGAAAAAATTTTGCAAAAATTGACCCGAAAGATT
453 CC-A-AATCGTGATGGTTAGTACACGATTT--GCAAAAATTTTGCAAAAATTGACCCGAAAGATT
* * * *
212481 TTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATATAATTTAACGCCAAAAATATTGCAA-
514 TTTCCTCAATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTG-AAG
* * *
212545 GACTTT-CCCTTCTTCTAATATCATTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAA
578 GGCTTTGCAC-GCTTCTAATATCATTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAA
212609 CATGATTCAAATGCTCG
642 CATGATTCAAATGCTCG
* * *
212626 TAAAATCAAATCCTTAAATCTAACGTGGCTGAGATTTGGAATGATGAATA-AGGATAATTCAATG
1 TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGATTTGGGATGATGAATATA-GATAATTCAATG
* *
212690 AGTCTTGGCGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAACAAT
65 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* *
212755 CGTGATGGTTAGTACACGATATT-GGCGAAAATTTTGCAAAAATTTACCCGAAAGATTTTTCCTC
130 CGTGATGGTTAGTACACG-T-TTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC
* * *
212819 AATTTTTTACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAATAGATTGAAGGG-TATTC
193 AATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCT-TTG
* * * * *
212883 CACGCTTCTAATATAATTTTTTTTAAATTTTTCTGAATTAATTTCCAATTAAATCCAAACATGAT
257 CACGCTTCTAATATCATTTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGAT
* * * * * *
212948 TTAAATGCTCGCAAAATCAAATCCTTAAAACCAACGTGGCTGATATTTTGAATGATGAATA-AGG
322 TCAAATGCTCGTAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATA-G
* *
213012 ATAATTCAATGAGTCTTGACGCCAAAAATTACGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTT
386 ATAATTCAATGAGTCTTGGCGCCAAAAATTATGCAAAACTGAGCCGGGG-CCCGGAACGCGTTTT
* * * *
213077 CAGCCGAAAATCGTGAT-G---GTACACGATGTCGGCAATAATTTTGCAAAAATTGACCTGAGAG
450 CAGCC--AAATCGTGATGGTTAGTACACGAT-T-TGCAAAAATTTTGCAAAAATTGACCCGAAAG
* *
213138 ATTTTTCCTCAATTTTTAAACCGCAAAACTCGTATAAAATTATAATTCAACCCGCAAAACTAGTA
511 ATTTTTCCTCAATTTTT-AACCGC---A-----AT---A--GT-CTT--------AAAA--A--A
* * * *
213203 TAAAATACATAATTCAAAGCCAAAAATATTAAAGCGCTTTGCACGCTTCTAATATCATTTTTTTA
549 T---AT--ATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCACGCTTCTAATATCATTTTTTTA
* * *
213268 ATGTTTCCGAATTAATTTCTGATTAAATCGAAACATGATTCAAATGCTTG
609 ATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCAAATGCTCG
* * * * *
213318 TAAAATTAAATCCTTAATTCCAAGGTTGCTGAGATTCGAGATGATGAATATAGATAATTCAATGA
1 TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * ** *
213383 GTCTTGGGGCCAAAAATCATGCAAAACTGATCAGGGGCCATGGAACGCGTTTTCAACCAAGAATC
66 GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
* * * * * * *
213448 ATGATGGTCAGTATACGATTTCGGCAAAAATTTGGCAAAAATTGACACGAAAGAATTTTCCCCAA
131 GTGATGGTTAGTACACG-TTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAA
* * * *
213513 TTTTAAAACGCAATACACGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTGCAC
195 TTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCAC
* * * * * *
213578 ACTTCTAATATCATTCTCTTTTT-ACTTTTCCGATTTAATTTCCGATTAAATTGAAATATGATTC
260 GCTTCTAATATCATT-TTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
* * * * *
213642 AAATGCTCGTAGAATCAAATCCTTAAATACAACGTGGCTGGGATTTGGAATGAGGAATA-AGGAT
324 AAATGCTCGTAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATA-GAT
* * *
213706 AATTCAATGAGTATTGGCGCCAAAAATCATGCAAAACTGAGCCGTGGCCCCGGAACGCGTTTTCA
388 AATTCAATGAGTCTTGGCGCCAAAAATTATGCAAAACTGAGCCG-GGGCCCGGAACGCGTTTTCA
* *
213771 GCCAAAAATCGTGATGGTTATTACACGATTTTGGCAAAAATTTTGCAAAAATTGACCCGAATGAT
452 GCC--AAATCGTGATGGTTAGTACACGA-TTT-GCAAAAATTTTGCAAAAATTGACCCGAAAGAT
*
213836 TTTTCCTCAATTTTTAACCGCAGTAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAG
513 TTTTCCTCAATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAG
* * *
213901 GGATTTCCACGCTTCTAAAATCATTTTTTT-ATTTTTCCGAATTAATTTCCGATTAAATCGAAAC
578 GGCTTTGCACGCTTCTAATATCATTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAAC
*
213965 GTGATTCAAATGCTCG
643 ATGATTCAAATGCTCG
* * *
213981 TAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTAGAATGATGAATA-AGGATAATTCAATG
1 TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGATTTGGGATGATGAATATA-GATAATTCAATG
* * *
214045 AGTCTTGGCGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAATAAT
65 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* * *
214110 CGTGATGGTTAGTACACGTTATCGGCGAAAATTTTGCAAAAATTTACCCAAAAGATTTTTCCTCA
130 CGTGATGGTTAGTACACGTT-TCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* *
214175 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACACCAAAGAGATTGAAGGGCTTTGCA
194 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCA
** * *
214240 CGCTTCTAATATCATTTTTTTTTAATTTTTCTTAATTGATTTCCGATTTAATCGAAACATGATTC
259 CGCTTCTAATATCATTTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
* * * *
214305 AAATGCTCGTAAAATAAAATTCTTAAATCCAATGTGGCTAAGATTTGGGATGATGAATATAGATA
324 AAATGCTCGTAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATA
* * * * * *
214370 AATCAACGAGTCTTGGGGCCAAAAATTATGCAAAACTGAGTCGAGGCCTCAGAACGCGTTTTCAG
389 ATTCAATGAGTCTTGGCGCCAAAAATTATGCAAAACTGAGCCGGGGCC-CGGAACGCGTTTTCAG
* * * * *
214435 -C-AATCGTGATGGTTAGTATACGACTTTGTCAAAAAATTTACAAAATTTGATCCGAAAGATTTT
453 CCAAATCGTGATGGTTAGTACACGA-TTTG-CAAAAATTTTGCAAAAATTGACCCGAAAGATTTT
214498 TCCTCAATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGC
516 TCCTCAATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGC
* *
214563 TTTGCACGCTCCTAATATCATTTTTTTTAATTTTTCCGAATTAATTTCTGATTAAATCGAAACAT
581 TTTGCACGCTTCTAATATCA-TTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACAT
214628 GATTCAAATGCTCG
645 GATTCAAATGCTCG
* * *
214642 TAAAATCAAATCCTTAAATCCAATGTGGCTGAGATTTGGGATGATGAATATAGATATTTCAATTA
1 TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
* * * * *
214707 GTCTTGGCG-CAACGAATCATGCAAAACTGAGCTGGGGCCCTGGAACGCGTTTTTAGCCAAAAAT
66 GTCTTGGCGCCAA-AAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAAT
* * * *
214771 CGTGATGGTTAGTACACAATTTCAGCAAAAATTTTGTAAAAATTGACCCGAAAGATTTTTCATCA
130 CGTGATGGTTAGTACAC-GTTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * *
214836 ATTTTTAATCGCAATACTCGTAAAAAATATATAATTCAACACCAAAAAGAATGAAGGGCTTTGCA
194 ATTTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCA
*
214901 CGCTTCTAATATCATTTTTTTTT-ATTTTTCCGAATTAATTTCTGATTAAATCGAAACATGATTC
259 CGCTTCTAATATCATTTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTC
* *
214965 AAATGCTCGTAAAATCAAATCCTTAAATCCAAGGTGACTGAGATTTGGGATGATGAATATAGATA
324 AAATGCTCGTAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATA
* * * * *
215030 AATCAATGAGTCTTGGGGCCATAAATCATGCAAAACTGAGCCGGGACCCAGGAACGCGTTTTCAG
389 ATTCAATGAGTCTTGGCGCCAAAAATTATGCAAAACTGAGCCGGGGCCC-GGAACGCGTTTTCAG
*
215095 CCAAGAATCGTGATGGTTAGTACACGATTTCAGCAAAAATTTTGCAAAAATTGATCCGAAAGATT
453 CC-A-AATCGTGATGGTTAGTACACGATTT--GCAAAAATTTTGCAAAAATTGACCCGAAAGATT
*
215160 TTTCCTCAATTTTTAACCGCAATAGTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
514 TTTCCTCAATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
* * *
215225 GCTTTGCACCCTTCTAATATCATTTTTTTTTTATTTTT-CGAATTAATTTACGATTAAATCGAAA
579 GCTTTGCACGCTTCTAATATCA--TTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAA
* *
215289 CATGATTTAAATGCTCA
642 CATGATTCAAATGCTCG
* *
215306 TAAATTTAAATCCTTAAATCCAAGGTGGCTGAGA
1 TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGA
215340 ACCTAAAATG
Statistics
Matches: 2375, Mismatches: 264, Indels: 147
0.85 0.09 0.05
Matches are distributed among these distances:
658 1 0.00
659 133 0.06
660 218 0.09
661 552 0.23
662 19 0.01
663 588 0.25
664 260 0.11
665 15 0.01
666 2 0.00
669 4 0.00
671 1 0.00
672 1 0.00
673 4 0.00
674 1 0.00
675 1 0.00
681 2 0.00
682 1 0.00
683 4 0.00
684 1 0.00
685 1 0.00
687 3 0.00
690 2 0.00
691 4 0.00
692 487 0.21
693 12 0.01
695 6 0.00
696 51 0.02
697 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (658 bp):
TAAAATCAAATCCTTAAATCCAAGGTGGCTGAGATTTGGGATGATGAATATAGATAATTCAATGA
GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTCAGCCAAGAATC
GTGATGGTTAGTACACGTTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAAT
TTTTAACCGCAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGCACG
CTTCTAATATCATTTTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCAA
ATGCTCGTAAAATCAAATCCTTAAATCCAACGTGGCTGAGATTTGGGATGATGAATATAGATAAT
TCAATGAGTCTTGGCGCCAAAAATTATGCAAAACTGAGCCGGGGCCCGGAACGCGTTTTCAGCCA
AATCGTGATGGTTAGTACACGATTTGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC
AATTTTTAACCGCAATAGTCTTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTGC
ACGCTTCTAATATCATTTTTTTAATTTTTCCGAATTAATTTCCGATTAAATCGAAACATGATTCA
AATGCTCG
Found at i:215754 original size:142 final size:140
Alignment explanation
Indices: 215341--215866 Score: 598
Period size: 142 Copynumber: 3.7 Consensus size: 140
215331 TGGCTGAGAA
* ** * *
215341 CCTAAAATGGGCCATAATTTGGTGGTTAAATATTATTTTTGGTACAATTTGGGCTAAAATTCTGA
1 CCTAAAATGGGCCAAAATTT-GT-GTTAAATATTATAATTGGTACAATTTGGGCCAAAATTCAGA
* * * * *
215406 ATGGGCTTGCTTTGTTTTAAAATGTCTTAAAATTAATCATTTTTACATTGGGCCTCATTGTTAAT
64 ATGGGCCTGCTTTGTTCTAAAATGTCTAAAAATTAATCATTTTTACATTAGGCCTCACTGTTAAT
* *
215471 TCTTATAGCGGG
129 TCTTACATCGGG
* *
215483 CCTAAAATGGGCCATAATTTGTTGTT---TGA--GTAATTGGTACAATTTGGGCCAAAATTCAGA
1 CCTAAAATGGGCCAAAATTTG-TGTTAAAT-ATTATAATTGGTACAATTTGGGCCAAAATTCAGA
** * * * *
215543 ATGGGCCTGCTTTTGTTCTAAAAAAATGT-AAAATTAATCATTTCTACATTCGACCTCACTGTTA
64 ATGGGCCTGC-TTTGTTCT-AAAATGTCTAAAAATTAATCATTTTTACATTAGGCCTCACTGTTA
*
215607 TTTCTTACATCGGG
127 ATTCTTACATCGGG
* *
215621 CCTAAAATGGGCCAAAAATTTATGGTTAGATATTATAATTGGTACAATTTGGGCCAAAATTCAGA
1 CCTAAAATGGGCC-AAAATTTGT-GTTAAATATTATAATTGGTACAATTTGGGCCAAAATTCAGA
* *
215686 ATGGACCTGCTTTGTTCTAAAATGTCTAAAAATTAATCATTTTTACATTAGGCTTCACTGTTAAT
64 ATGGGCCTGCTTTGTTCTAAAATGTCTAAAAATTAATCATTTTTACATTAGGCCTCACTGTTAAT
* *
215751 TCTTGCATTGGG
129 TCTTACATCGGG
** * * * *
215763 CCTAAAATGGGCCAAAAATGGGTGTTAAATATCATATTTGGTTCAATTTGGGCCAAAATTCGGAA
1 CCTAAAATGGGCC-AAAATTTGTGTTAAATATTATAATTGGTACAATTTGGGCCAAAATTCAGAA
*
215828 TGGGTCTTGCTTTGTTCTAAAATGTCATAAAAA-TAATCA
65 TGGG-CCTGCTTTGTTCTAAAATGTC-TAAAAATTAATCA
215867 AACAACAAAT
Statistics
Matches: 329, Mismatches: 41, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
137 35 0.11
138 64 0.19
139 16 0.05
141 51 0.16
142 118 0.36
143 45 0.14
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (140 bp):
CCTAAAATGGGCCAAAATTTGTGTTAAATATTATAATTGGTACAATTTGGGCCAAAATTCAGAAT
GGGCCTGCTTTGTTCTAAAATGTCTAAAAATTAATCATTTTTACATTAGGCCTCACTGTTAATTC
TTACATCGGG
Found at i:217408 original size:20 final size:20
Alignment explanation
Indices: 217377--217627 Score: 218
Period size: 20 Copynumber: 12.4 Consensus size: 20
217367 CGCGGCACAA
* *
217377 TCACATTTAACTTTCCCAAT
1 TCACATTGAACTTTCCTAAT
* * *
217397 TGACATTGAACTTGCCTTGAT
1 TCACATTGAACTTTCC-TAAT
* *
217418 TCACATTCAACTTTCCCAAT
1 TCACATTGAACTTTCCTAAT
* * *
217438 TGACATTGAACTTGCCTTGAT
1 TCACATTGAACTTTCC-TAAT
* *
217459 TCACATTCAAATTTTCC-AAT
1 TCACATT-GAACTTTCCTAAT
* * *
217479 TGACATTGAACTTGCCTTGAT
1 TCACATTGAACTTTCC-TAAT
*
217500 TCACATTCAACTTTCC-AAT
1 TCACATTGAACTTTCCTAAT
* *
217519 TCACATTGAACTTGCCTTAT
1 TCACATTGAACTTTCCTAAT
* *
217539 TCACATTCAACTTTCCTATT
1 TCACATTGAACTTTCCTAAT
* *
217559 TCACATTGAACTTGCCTTAT
1 TCACATTGAACTTTCCTAAT
* *
217579 TCACATTCAACTTTCCCAAT
1 TCACATTGAACTTTCCTAAT
*
217599 TCACATTGAACTTGCCTTAAT
1 TCACATTGAACTTTCC-TAAT
217620 TCACATTG
1 TCACATTG
217628 GCCCTCAATG
Statistics
Matches: 177, Mismatches: 47, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
19 22 0.12
20 100 0.56
21 49 0.28
22 6 0.03
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (20 bp):
TCACATTGAACTTTCCTAAT
Found at i:217526 original size:40 final size:41
Alignment explanation
Indices: 217377--217626 Score: 398
Period size: 41 Copynumber: 6.2 Consensus size: 41
217367 CGCGGCACAA
* *
217377 TCACATTTAACTTTCCCAATTGACATTGAACTTGCCTTGAT
1 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
*
217418 TCACATTCAACTTTCCCAATTGACATTGAACTTGCCTTGAT
1 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
* * *
217459 TCACATTCAAATTTTCCAATTGACATTGAACTTGCCTTGAT
1 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
217500 TCACATTCAACTTT-CCAATTCACATTGAACTTGCCTT-AT
1 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
* *
217539 TCACATTCAACTTTCCTATTTCACATTGAACTTGCCTT-AT
1 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
*
217579 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTAAT
1 TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
217620 TCACATT
1 TCACATT
217627 GGCCCTCAAT
Statistics
Matches: 198, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.08
40 81 0.41
41 101 0.51
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (41 bp):
TCACATTCAACTTTCCCAATTCACATTGAACTTGCCTTGAT
Found at i:217935 original size:129 final size:124
Alignment explanation
Indices: 217706--217938 Score: 313
Period size: 129 Copynumber: 1.8 Consensus size: 124
217696 AACCCTTGCT
** * ** *
217706 GCCACAAGGATATGCTCAGCTCCAATGGGGAGACAACTGCAGAGGAGAAGAAACGTTATCCAGAA
1 GCCACAAGGATAAACTCAGCTCCAATGGGGAGACAACTGCAGACGAGAAGAAACACTATCAAGAA
* * *
217771 ACCATCAAAACAGAAAAAGTAAACTCACAGCAAGCAAATTTGAAGGCAATCCTAGCTGC
66 ACCATCAAAACAGAAAAAGGAAAATCACAGAAAGCAAATTTGAAGGCAATCCTAGCTGC
*
217830 GCCACAGGGATAAACTCAGCTCCAATGGGGAGAACAACTAACTGCAGACGAGAAGAAACACTATC
1 GCCACAAGGATAAACTCAGCTCCAATGGGGAG----AC-AACTGCAGACGAGAAGAAACACTATC
* *
217895 AAGAAACCATCAGAGCAGAAAAAGGAAAATCACAGAAAGCAAAT
61 AAGAAACCATCAAAACAGAAAAAGGAAAATCACAGAAAGCAAAT
217939 CTATGCAATG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
124 29 0.32
128 2 0.02
129 61 0.66
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.12
Consensus pattern (124 bp):
GCCACAAGGATAAACTCAGCTCCAATGGGGAGACAACTGCAGACGAGAAGAAACACTATCAAGAA
ACCATCAAAACAGAAAAAGGAAAATCACAGAAAGCAAATTTGAAGGCAATCCTAGCTGC
Found at i:218451 original size:42 final size:43
Alignment explanation
Indices: 218389--218494 Score: 169
Period size: 42 Copynumber: 2.5 Consensus size: 43
218379 ACAGCTACAT
*
218389 GAGTGAGAAGAGATGCGATATAACCAAAATAGTCTTGATGC-G
1 GAGTGAGAAGAGATGCGATATAACCAAAACAGTCTTGATGCGG
*
218431 GAGTGAGAAGAGATGTGATATAACCAAAACAGTCTTGATGCGG
1 GAGTGAGAAGAGATGCGATATAACCAAAACAGTCTTGATGCGG
* *
218474 GAATGAGAAGAGATACGATAT
1 GAGTGAGAAGAGATGCGATAT
218495 CTATAATGCC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 39 0.67
43 19 0.33
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (43 bp):
GAGTGAGAAGAGATGCGATATAACCAAAACAGTCTTGATGCGG
Found at i:220875 original size:33 final size:33
Alignment explanation
Indices: 220833--220895 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
220823 TAAGTAGCTG
**
220833 TCAAGGTAAAGTTAGTTAAACAGACTAAAAGCA
1 TCAAGGTAAAGTTAGGCAAACAGACTAAAAGCA
*
220866 TCAAGGTAAAGTTAGGCAAACTGACTAAAA
1 TCAAGGTAAAGTTAGGCAAACAGACTAAAA
220896 AACAAGATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.21
Consensus pattern (33 bp):
TCAAGGTAAAGTTAGGCAAACAGACTAAAAGCA
Done.