Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MF611847
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 379060
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:24719 original size:22 final size:19
Alignment explanation
Indices: 24693--24757 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 19
24683 GTAATTAAGT
24693 AAGTAAGTAAAAATGACTAGAA
1 AAGTAAGTAAAAATGACT---A
*
24715 AAGTAAGTAAAAATGACTT
1 AAGTAAGTAAAAATGACTA
*
24734 AAGTAAGTAAAAATGGCT-
1 AAGTAAGTAAAAATGACTA
24752 AAGTAA
1 AAGTAA
24758 AAATGGCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.15
19 17 0.41
22 18 0.44
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (19 bp):
AAGTAAGTAAAAATGACTA
Left flanking sequence: Indices 24193 -- 24692
AAGAATTTGCAGTGAAAATTCTCCCTCATCTCAATCCTAACGAACTGCCCTTCTCTCCGCTTGCT
TGGTCGAATGCTCTTTTCATTTATTCTTTGACTTGTTGAGAATATCTTCGGTCAATGGAGTCAGA
TTTAGAGGAACCCGTGATGAAAATCCAATTCTCGATTTATTGAATGATCCTTGGGTCTACGTCTC
TAGAGCTTTGGCCGATGAAGCCGGACCTTTGAACTATCAATCAGTAGCCAAATCTCTGTGATCGC
AAGTCGCTTAGTAAAGCATCTCGGTACCGCTACTCGGAAAGAAGAAAAGAAGAAAGCCTAGAAAG
ACATAGGAAAGGATTTAATGAATAGAAAAGGTTTTATAGGTGACATCTCACTCAGGAAGAGCGCA
AAGAAAGAAGCAAGAAATAGAAAGAAGGTCAAGGGCTGCCCAAAATCTTATACCAAATGGTCGAA
TGAATTTCTAAACCTATATATACAGTAAATTCAAAGTAATTAAGT
Right flanking sequence: Indices 24758 -- 25257
AAATGGCTTAGAAAAGTAAGTAAATAAAGAGTAAGTAAATGTTGCTCTACTTTATCTTGCTGGCA
TACTAGGCACGTCTTGACGTATGCTTCCACATCATCTTGCATGTGCGGCCAATAGTAGTGTGCTC
GCACCAAGCTAAGCGTCCGGGCTTCGCTCTTACCTGTCCTATCTATAAGGTGACCAGCCCAGAGG
GAGTCATGGGACTCCTTTCCAATTTATTTCCGTAAGTTCACCCATTTTGGGACAAGTACTCGATT
TCCATGGGTATATAAGACCCCTAATGCTAGCAGCTTTTGTGGAAAGATAAATCTCCCAAAACCTT
CGAGTCTTGCCCTCTTTTGCTAACTTTAACAAGTTAGTTGCAAAAGAATCATGAGTCATACCTTC
AATTACCTCTTTACTTACCTTACAAATTGCGACTCAGCATATCACTTTGTGGTGTACTCGCACTG
ATGTGAGCCAGTTCAGCTTTTCTGCTAAGTGCATCGGCGACTACG
Found at i:24772 original size:13 final size:14
Alignment explanation
Indices: 24737--24765 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24727 ATGACTTAAG
24737 TAAGTAAAAATGGC
1 TAAGTAAAAATGGC
24751 TAAGTAAAAATGGC
1 TAAGTAAAAATGGC
24765 T
1 T
24766 TAGAAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (14 bp):
TAAGTAAAAATGGC
Left flanking sequence: Indices 24237 -- 24736
CTGCCCTTCTCTCCGCTTGCTTGGTCGAATGCTCTTTTCATTTATTCTTTGACTTGTTGAGAATA
TCTTCGGTCAATGGAGTCAGATTTAGAGGAACCCGTGATGAAAATCCAATTCTCGATTTATTGAA
TGATCCTTGGGTCTACGTCTCTAGAGCTTTGGCCGATGAAGCCGGACCTTTGAACTATCAATCAG
TAGCCAAATCTCTGTGATCGCAAGTCGCTTAGTAAAGCATCTCGGTACCGCTACTCGGAAAGAAG
AAAAGAAGAAAGCCTAGAAAGACATAGGAAAGGATTTAATGAATAGAAAAGGTTTTATAGGTGAC
ATCTCACTCAGGAAGAGCGCAAAGAAAGAAGCAAGAAATAGAAAGAAGGTCAAGGGCTGCCCAAA
ATCTTATACCAAATGGTCGAATGAATTTCTAAACCTATATATACAGTAAATTCAAAGTAATTAAG
TAAGTAAGTAAAAATGACTAGAAAAGTAAGTAAAAATGACTTAAG
Right flanking sequence: Indices 24766 -- 25265
TAGAAAAGTAAGTAAATAAAGAGTAAGTAAATGTTGCTCTACTTTATCTTGCTGGCATACTAGGC
ACGTCTTGACGTATGCTTCCACATCATCTTGCATGTGCGGCCAATAGTAGTGTGCTCGCACCAAG
CTAAGCGTCCGGGCTTCGCTCTTACCTGTCCTATCTATAAGGTGACCAGCCCAGAGGGAGTCATG
GGACTCCTTTCCAATTTATTTCCGTAAGTTCACCCATTTTGGGACAAGTACTCGATTTCCATGGG
TATATAAGACCCCTAATGCTAGCAGCTTTTGTGGAAAGATAAATCTCCCAAAACCTTCGAGTCTT
GCCCTCTTTTGCTAACTTTAACAAGTTAGTTGCAAAAGAATCATGAGTCATACCTTCAATTACCT
CTTTACTTACCTTACAAATTGCGACTCAGCATATCACTTTGTGGTGTACTCGCACTGATGTGAGC
CAGTTCAGCTTTTCTGCTAAGTGCATCGGCGACTACGTTGGACTT
Found at i:27242 original size:11 final size:11
Alignment explanation
Indices: 27226--27261 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
27216 TTTTCACTTT
27226 TAGTAGAGAAG
1 TAGTAGAGAAG
27237 TAGTAGAGAAG
1 TAGTAGAGAAG
27248 TAGTAGAGAAG
1 TAGTAGAGAAG
27259 TAG
1 TAG
27262 ATATAGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.19
Consensus pattern (11 bp):
TAGTAGAGAAG
Left flanking sequence: Indices 26726 -- 27225
TTAGTTGCCTAACAGTGGCAACATAGCTCTCGGAGGATTGAAGTCCTCTCTTGAATTGCATGGCG
GACAGTTGCATAGCCGAAATGCCTCGTGATGTCTTCTCAATGCTCCTCAGTGGGATGGAATGTGT
CTTCCCATTATCAACAATGATTAAGGAACTTGAATCAGCTAAGAGCATTGTACGTACCTGCCGAA
AGAATGACAGTCCCAATACCACTCGGAAGTCATCCATCGGGACAACTGTGAAGTCCATCTTTCCA
CATAATATAAGATAAGAAGAAGAGGGCTACCATATAATATAAGATAAGTTTGCACATTCACTGCC
CTTGCAATGCCTACAACAGGTCTTGCTGGAGCGTTAACGGTCTTAATGGATCCTTCGCCCTTCTC
TACTTTAATGCCCAACCTTTTAGCTTCTTCATGGTTAAGGAAGTTATGAGTAGCTCCCGTGTCTA
GCATGGCACAAGCTGCCTTGCCATCAATACTTACCTTTTCACTTT
Right flanking sequence: Indices 27262 -- 27761
ATATAGGGTTAAGGTAGGTATAGGGTTAAAGTAGGTATAAGGTTAAAGGTAAAGAAAGTTTAAAA
GACCACCTTGCTGATGAAATAAGAAAAAGAACGGGTTCATCAACTCATTTCCTTTAATTATTATT
CTAATGAGCTTGCTGATGAAATAAGAAAAAGAACTATTGGTCACAACCTTCCTACTACGATTCAT
AAGACCTTCCTACTACGAGAACTATATGGTCACAAAAAGTACAATTTTCACTTGTCACCAGCCTC
ATCTGGCTTTTCTAGCTTCACAGCGGATCCCTCACCAGATGCTTAGTCAGACCCATTCTCGTTGT
GCTTTGATAGACTACTCAGAAAGACTCTTTAGTAGAAAGATTCTCCGCTTGAACTTGAAGATCGG
TCTTCTCAAGGGAATCTTTCATGCTGTCTGAAATCCTTGTATTTGTATATCCAACCCAAGAGTGT
CCCGGAACGAGCACTAAATGAAAGGGGTGGAAGTGTACAAAACGA
Found at i:27283 original size:17 final size:17
Alignment explanation
Indices: 27258--27312 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
27248 TAGTAGAGAA
*
27258 GTAGATATAGGGTTAAG
1 GTAGGTATAGGGTTAAG
*
27275 GTAGGTATAGGGTTAAA
1 GTAGGTATAGGGTTAAG
*
27292 GTAGGTATAAGGTTAAAG
1 GTAGGTATAGGGTT-AAG
27310 GTA
1 GTA
27313 AAGAAAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
17 28 0.85
18 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
GTAGGTATAGGGTTAAG
Left flanking sequence: Indices 26758 -- 27257
GAGGATTGAAGTCCTCTCTTGAATTGCATGGCGGACAGTTGCATAGCCGAAATGCCTCGTGATGT
CTTCTCAATGCTCCTCAGTGGGATGGAATGTGTCTTCCCATTATCAACAATGATTAAGGAACTTG
AATCAGCTAAGAGCATTGTACGTACCTGCCGAAAGAATGACAGTCCCAATACCACTCGGAAGTCA
TCCATCGGGACAACTGTGAAGTCCATCTTTCCACATAATATAAGATAAGAAGAAGAGGGCTACCA
TATAATATAAGATAAGTTTGCACATTCACTGCCCTTGCAATGCCTACAACAGGTCTTGCTGGAGC
GTTAACGGTCTTAATGGATCCTTCGCCCTTCTCTACTTTAATGCCCAACCTTTTAGCTTCTTCAT
GGTTAAGGAAGTTATGAGTAGCTCCCGTGTCTAGCATGGCACAAGCTGCCTTGCCATCAATACTT
ACCTTTTCACTTTTAGTAGAGAAGTAGTAGAGAAGTAGTAGAGAA
Right flanking sequence: Indices 27313 -- 27812
AAGAAAGTTTAAAAGACCACCTTGCTGATGAAATAAGAAAAAGAACGGGTTCATCAACTCATTTC
CTTTAATTATTATTCTAATGAGCTTGCTGATGAAATAAGAAAAAGAACTATTGGTCACAACCTTC
CTACTACGATTCATAAGACCTTCCTACTACGAGAACTATATGGTCACAAAAAGTACAATTTTCAC
TTGTCACCAGCCTCATCTGGCTTTTCTAGCTTCACAGCGGATCCCTCACCAGATGCTTAGTCAGA
CCCATTCTCGTTGTGCTTTGATAGACTACTCAGAAAGACTCTTTAGTAGAAAGATTCTCCGCTTG
AACTTGAAGATCGGTCTTCTCAAGGGAATCTTTCATGCTGTCTGAAATCCTTGTATTTGTATATC
CAACCCAAGAGTGTCCCGGAACGAGCACTAAATGAAAGGGGTGGAAGTGTACAAAACGAACGAAT
GAAGTGATAGTGGCCAGCGAGTTATTGGTGGTATAGTACCTATAA
Found at i:32856 original size:7 final size:8
Alignment explanation
Indices: 32834--32858 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32824 ACTTCATCCA
32834 TACTTTTT
1 TACTTTTT
32842 TACTTTTT
1 TACTTTTT
32850 TACTTTTT
1 TACTTTTT
32858 T
1 T
32859 TGACTTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TACTTTTT
Left flanking sequence: Indices 32334 -- 32833
GGTCCCAAAGTAATCATGCGTCATTCAGAACCAAGGAAGAAAAAAAGATAGCAGCATCATGCAAC
ATCGTTTTTCAGCTATATTGTTTCGATTTCTTTTCATGTTTTTTTGATAGGTAAAGCCCTTGGTT
CGAGCCTTTTTTCTTGTGGACTGGCTGGCTGCAGTGGGTGATTTTTTATATGGAGAGATTTCCTC
TTTCCCTCGGAGACGAAAGTGGTGTCAGCTCGTCGAAGCGACCGCTTTTCGATCTCAATTTGCCT
CCGCAGCCAGATCCGGAACCTGCCCCCCCTGTGAACCTTCCTCGGAGGAGGAAGAAAGTAGTTGG
ACAACTGTATACACGAGGGAGGGTACATTAGTATGATGGGAATTTTCAACATTGACAGAAAGGAA
GGAATCCACTTTTTTAGGTGTAGCTCTACTAAAGTAGTCGGCCTAACCTTCGGTTCCCGTAACCA
AGTTTTTCTTTCTCATTCCTTATGTACTTTTTCTTACTTCATCCA
Right flanking sequence: Indices 32859 -- 33358
TGACTTCTGGCGAACCCTCTACTTCTACTTCTAACTAAAGGTGAATAGCCGGCATTGCAAGCAAA
TAGGGAGCCCCCGCCCATTTGAGCCGTTGCGAGCCGGAAAGTGTACCAGCTGTTTGAGTCGCGAA
AGGCTTCAATTCCATTCTTTTTTTTTTTTATTTATATAGAATTCTAATTTAGAATGAATTCAAAT
AAAATAATAATAATAATATTCTATATCTATCTATAAACAATAATAAAAAAACAATAGAATTATAT
AAATTAAATAAATCCATTTTTTATCCAATTGTTCATTCCTGGGAAGAGGGAGAAGCAGATAGAGC
AAAGGCCTCCTCCTTCCTTCCCGAAGTGAGCGAATTGCATGTAGAGATTCATAGGGGCTTATAGT
TTAATTGGTTGAAACGTACCGCTCATAACGGTGATATTGTAGGTTCGAGCCCTACTAAGCCTACC
ACCCCCGTGGGGTCGAAGAGGATTCATTCATTTTTCTTTCTTCTT
Found at i:65901 original size:18 final size:18
Alignment explanation
Indices: 65878--65914 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
65868 TATTCACTTT
65878 CTATTCTATTATGTATGG
1 CTATTCTATTATGTATGG
65896 CTATTCTATTATGTATGG
1 CTATTCTATTATGTATGG
65914 C
1 C
65915 AAGATTCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.49
Consensus pattern (18 bp):
CTATTCTATTATGTATGG
Left flanking sequence: Indices 65378 -- 65877
TTCCGTCCCATATTGATTTTCTATTTTATCAAGATTTTTATTTTCAAGGATCCTATCTATTATTT
CCTATCCTATAAACCAAACCTATTTTTTAGGAATTTTGGTACTAATGAAATTCATTCAAAGTAAA
TAGGATTAATTATCCTAAGGGGTTAGACTAAAATCAAAATAGGAGCTACTCAATTTGGACTTGTT
GGGATTTGTACCTAGCCAGTCCGCGTCCCCGATCATAATTCCCATTTGGATTTCTCTTATGTCCC
ATTAGTCCTGTAGTACCCGGGGGGCGAATACATTAACCGAAGATATTCAAATTTCTGCGTCTGCC
TGAATTGCATTAACAAAAATAAAATTATATATGTTATGTAATTCTATATCTATCCGATGTATTTT
CTTTGAAAAAGTATTTCGTGTTTGGCCCTAATAACTCCAAAATAATTGTAAATTTATGTAACACT
TAAGAGGGGAGTGTTTTATATCTTTTATTATCTTTTATTCACTTT
Right flanking sequence: Indices 65915 -- 66414
AAGATTCGATTAGCGAAATCTTGCTGAACTACACAGCTTAAACACACACACAAAATACATAAAAA
ATGAGGAAATGTTTAACGTATATGTATCCTTCTATTCTATTTTTGTGAAAATGCACCCAGAAACG
GAGCACCCTCGATTTTGAATTTGGAAATTCAAATATTTAACCCGAATAATCTAGAAATTATTTTT
CATTTTATCTTCAGAAACCTCTTTACCGATCTATAGCTATATATAGAATCTCTCTTCTATATTCT
AATTATAGAACAAAGGGATATAGATTACGATGTCTACAAACCAATGACTATTCATGATTCCATAA
TTGAATAAATTCCATACTGGTTCCAAATTAGAGGAATGTTATGGTAAAACTTCGTTTGAAACGAT
GTGGTAGAAAGCAACGTGCGACTTGAAGGACATGATCCATTGTGGATTCTTTCTTATATCCACTA
TTTTCTATTTCTATAGGAATGAAGGTGCTCTTGGCTTCGACATCC
Found at i:71481 original size:13 final size:13
Alignment explanation
Indices: 71459--71489 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
71449 ATAAAGAAAG
71459 ATAG-AATTATAT
1 ATAGAAATTATAT
71471 ATAGAAATTATAT
1 ATAGAAATTATAT
71484 ATAGAA
1 ATAGAA
71490 TAAGGCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (13 bp):
ATAGAAATTATAT
Left flanking sequence: Indices 70959 -- 71458
GCAATATTTATGCTTCGAAAGCGGTTCAAATTCAATTTGAAGAGGGATTTTCCTGCTTAGCATTA
CCCTCGTTCGCGTACACATCTACGGCCCAGTCTCTATTATACTAGACTGCATTTGACCAATACAA
AATGGAGAAAGAAAAATCGGGGTTGGAAAAGTAATTGAATCGAACAATCGAATTCACTATGACAT
CTGTCGAAGCCTTCCCGCTTCTTTCAAATAAACTCAATCTATAGGGTGGTAAAGTCAAAAAATAA
GCCTCCCTTTTGAAAGGTGTATTCCGCTCTAGTACAAGACATTTGAAAGTGGAAAGTTGGCGAAT
GAGAAAGGTCGACTGAAGAGAACGATCGGTCTAGACGAACCGAAGGAGGAGAGAAATCCACTTTC
AGATTCTACTGGGAAAGACGAAGAGCGAAAGGTTTTTATTCGTCGTATTGAAGATTTTTTCCCAT
CCGGGCATGGGAACTCCTTCCTTTTGAGTTTGCCGATAAAGAAAG
Right flanking sequence: Indices 71490 -- 71989
TAAGGCTTGCTGCTTAATTACCTGCTTTTAGTGGATAGTATGATGTCTCCTAGTCAGACGATGTT
CAAAATCGGTAATCTATTAGATAAAGGGTAGATTTTAGTTGAACTGAACCCCGGGATTTTTAATG
TAAAATCTGGATTGGTGCCCCCTTTAGTATCGAGGACCCTTGACGATTTATGCCGCTGCATCTTC
TGGTGAAAGAAGGTCTGCTATCACGGGATCTTCTGTTATCTCCCAATCTTCTGCTATCGCTTAAT
ATCCATTACTATCAGAGGTTTCATTGCCCCTTTTTGGCTTATTCTTACTCTTCTTTAGTTCGCCA
GTCTGGCTATTCTAGTATAACCCAGGGTAAGCTCGTCAACCCGATCAAGAGTTGCGCTTTTTACG
ATTAAGGAGAAGAAGCGGCACCTGTATTGACTGTCCTTCACTGAATGTGTTCCCACGGTTGAAGT
TCAATAAAGGGCTCCGAGGTCTTTCATTTAGGACTTTTTTTCTTT
Found at i:116423 original size:13 final size:13
Alignment explanation
Indices: 116405--116432 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
116395 CTTACTCCCC
116405 CATACCATATTGT
1 CATACCATATTGT
116418 CATACCATATTGT
1 CATACCATATTGT
116431 CA
1 CA
116433 AATGACAAAG
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:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (13 bp):
CATACCATATTGT
Left flanking sequence: Indices 115905 -- 116404
GGGTGACTTAGAAAACCTATATACATGGGAATACCTGTGTGAGTGGGGATTTACTGGACCACTCA
CATCACACATCAGAGAATAGTTACGGGACAAAAGCGCCTAATCATTTCATTTTCATATAGATATG
TAACTCCTTTCAATATCCTTCCAAACTGAAAGGACAAGCAATAAGTGGAGGATGTTCGCCGTACA
CGAAGAGCCCACCAATACGTTTGGTTTCAAAATGTGAATTTCCTAAGATAGCTTGAGTTATTATT
GGATTTCTTTCTAGACTCTTTCTCAAGCGCGCCTCTTAGGCCGTGCGGTAGGCCTGTACTAACAG
TGCTAATTCGTTTTCTAGCAATAGTAATCCTGTGAGTAACCGTAGCTCACGAACATTCTATTCAC
TAAAGATTGTTTTTTTTACAGGCCAAGAAAATCTGCTTTCCCCATTTCAGGGTTTATGCGAGAGT
TCCAGTAGCGGGGTCAGGAATCCAAGGATTTTTTGCTTACTCCCC
Right flanking sequence: Indices 116433 -- 116932
AATGACAAAGTTACAGTGGTAAATAGAAGTGAGGCTCGCTCCAATTGAGTTTAATTGACGAGCGC
AGTGAAAGACTTTTTCTTTTTACAAGTCGAATTCACATAAAAGCAGGTTGGGAGTAGAACTACTC
TTAATCACCTTACCTCTACTCAAATTCCCCATCTTATGATCAAGAGAAGAGGTCACTGCTCCATT
CTCTAGCTCCTCAGGTTCCTAGGCATATCTGACTCGAAGTTCTTGACCTTTAATTACTAGCTGCC
CCTGTTATCTTCGATGCAGCTGCTCCGCGATCTACTTCTTTTTCGCTCGCTTCTTCTTTCTATCG
AAAAGAAAAATTCGGTAAGATAATCCCTTATGGGGACGGATAGTCTAGGGATGACATTGTTACAG
GGAAGTTCTGTAGCTTAACCCTAATTCTTTCAAGATGTTTCGCATGAACTCTAAATAAACCCAAT
ACTAAGCCTTTGTAACTTGATATGTCTCCACTTATGTTATGGGAA
Found at i:124796 original size:20 final size:21
Alignment explanation
Indices: 124771--124810 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
124761 ACCTGTGTGC
*
124771 AAGAGA-TTCTCAAAACAGGG
1 AAGAGAGTTCCCAAAACAGGG
124791 AAGAGAGTTTCCCAAAACAG
1 AAGAGAG-TTCCCAAAACAG
124811 CTTACAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (21 bp):
AAGAGAGTTCCCAAAACAGGG
Left flanking sequence: Indices 124271 -- 124770
CTACGTCGGAGAGATGAAAGTCTCTTTCGATTTGGATTCCAGTGGAAATGTTACGATATGCTCAG
AGATTCTAGGTATGTAATGCCTGGGATCCTTGGCACAGGCAGAAACGATTCAAACAACAAGTGGT
TGCTTGGAGGTTTCGCTGGCACTTCCTTCCTTATCCTTGTTTTGCTTGGGGTCTGGAACAACCTC
GAGCAGGGGTTGGAATTCTTATTCATACTAGGTCTGTTGATCTATATGGTAAGATTCCAAACAAG
AGTCTATCTATTATTAGTACTTTTTCTATTTCTTTTCTGTCTCCGGAGAGTTGCGTCCCTTCTGT
GCCACAAAGCGAGTTCGGGCTCGGGTAGTCAAGTCACCCTAAGTCAGTACCAGTGGATTCTACTT
GAAATCCCATACATAAGAAAAGGTTTGGAACAGTGAGTCGATAAGCGAAGACGAACTTGGCCACA
CTAAGGTCTCGATCCTCCTACCTTTGGCCAAAACTACCTGTGTGC
Right flanking sequence: Indices 124811 -- 125310
CTTACAATAGACTGATGATGAGTGGTATGAACTAAAGATATCATCCCCTTCCAACAGATCCTTCA
AAAGGGATACCTCTTGGAGCCCGCGTCTTGGATTCTTGAGAGGCTCCCATCCCTGGAACTCTTTC
ACAAACCGATGGCTCGCTTAAATCCTTTCTGAGTGACTGGCTTTAGGTCTATATGATATTTCCAA
GCGTAGGAGTCGTGACTTCGAGCCTCCACGTCTGGGGGACTCCCTTAGGATAAGTTTTTTGCTCT
TCCAATTTGACACCAAAGGAGTCATATGGTTGCCCATGAATCTAGGTACCAATTAGGATCATATT
CTAGCTAGGAAAGATGCATTGCAGCAAAGGACCGGGTAGCTTTAAAACACCTGGATATGAGTGAT
CAGACCGATGCTAGCATTTGATTTGATAACTTACCCATCTTTTCTTCCCACCAACCTGTGTTATC
TAGTGCGGTCTTGCTAAAGCTAAAGGGTTTCTCCCTCTCGACTTT
Found at i:134983 original size:24 final size:24
Alignment explanation
Indices: 134951--134999 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
134941 GGAATAATTC
*
134951 CTCACCCTCAGGAGCCCGAAGTAA
1 CTCACCCTCAGGAGCCCCAAGTAA
*
134975 CTCATCCTCAGGAGCCCCAAGTAA
1 CTCACCCTCAGGAGCCCCAAGTAA
134999 C
1 C
135000 GAATCCGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.39, G:0.18, T:0.14
Consensus pattern (24 bp):
CTCACCCTCAGGAGCCCCAAGTAA
Left flanking sequence: Indices 134451 -- 134950
GTCTTCATAGGGACTGTCAACGAAAGCCCCATTCATTAAGCAGGTTGACACAGTAAAAGAACTCT
CTTGTAGCCGCGCGAATGTATTTGCATGTCTTTCCGGGAGTCTCGCAATCCCAGCAGTTGTATCC
TTGGAAGTGACTTCTTGCAGTTCTACATTCTTCCTTTCGTATGTCTTCCAATACTTTTGAGATGA
GCTCGTCAAGGAAAAGCTATATTATCAGGCCAAATTCCGATCCGCTCCTCTTTCAGGTGGTCTTT
AGCTAGGAGCTTGAGTTCGATTCGGTAGAGAATCTCTGCACGATTCCGTTGCCTAAAGTAGAAGT
CCAGATTGAATATGAACTCTTGAGTGGCCCGTGTATGATAGTTTGTAGCATCTTGTGCCCATTGG
GGAAGAGGCAGGTCAAGGTAAAAATAACGGATTTGGACTTCTATCTCTGAGGGGTCATCATCTGA
TGGTGGTAATTCTCTTTCTGGATCAACGGCTTCAGGGAATAATTC
Right flanking sequence: Indices 135000 -- 135499
GAATCCGAATGCCTATCTCCAGCCGAATTCGTTTCATAAGACTTTTCGGAAGAAACAATTGGATA
AGAATCATAGGCTGAATGAGCAGACGAATCGACCGAGGAAAGAGATGCTTACACACTAGAACACA
ACCTAACTCTACTTCTTTTCTTTTTCCTGCAGCTATCTTTTCAACAGGTCAGTCAATATCAGTAG
TGGAAAAAGCAGACAGAGTAGTCCCCTGGTCATCAGTTAGTAGTTAAATAATCCCAGTAGTGGTC
CTCTTGCCTAGCGGAGTCAGCCCTTAATGGACAATGATAGGCAGACCAAAGATTGCACATCGCAG
TCTAAGCGTGCTTGCTTTGCGCACCGGCACAGCAGAATTGGAATCCGCTGGCAAAGCAAAGACAG
CTTGATACTTTACTTTGGTAAGGTAAGGTTAAAAAAGTGCGATGTCTTCCTTACTCTAGCAAGTA
AGTTCTAAAAACCTGACTCTAAAAAGTAAGTGAAAAATCCCTGGA
Found at i:135005 original size:24 final size:24
Alignment explanation
Indices: 134956--135005 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
134946 AATTCCTCAC
* **
134956 CCTCAGGAGCCCGAAGTAACTCAT
1 CCTCAGGAGCCCCAAGTAACGAAT
134980 CCTCAGGAGCCCCAAGTAACGAAT
1 CCTCAGGAGCCCCAAGTAACGAAT
135004 CC
1 CC
135006 GAATGCCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (24 bp):
CCTCAGGAGCCCCAAGTAACGAAT
Left flanking sequence: Indices 134456 -- 134955
CATAGGGACTGTCAACGAAAGCCCCATTCATTAAGCAGGTTGACACAGTAAAAGAACTCTCTTGT
AGCCGCGCGAATGTATTTGCATGTCTTTCCGGGAGTCTCGCAATCCCAGCAGTTGTATCCTTGGA
AGTGACTTCTTGCAGTTCTACATTCTTCCTTTCGTATGTCTTCCAATACTTTTGAGATGAGCTCG
TCAAGGAAAAGCTATATTATCAGGCCAAATTCCGATCCGCTCCTCTTTCAGGTGGTCTTTAGCTA
GGAGCTTGAGTTCGATTCGGTAGAGAATCTCTGCACGATTCCGTTGCCTAAAGTAGAAGTCCAGA
TTGAATATGAACTCTTGAGTGGCCCGTGTATGATAGTTTGTAGCATCTTGTGCCCATTGGGGAAG
AGGCAGGTCAAGGTAAAAATAACGGATTTGGACTTCTATCTCTGAGGGGTCATCATCTGATGGTG
GTAATTCTCTTTCTGGATCAACGGCTTCAGGGAATAATTCCTCAC
Right flanking sequence: Indices 135006 -- 135505
GAATGCCTATCTCCAGCCGAATTCGTTTCATAAGACTTTTCGGAAGAAACAATTGGATAAGAATC
ATAGGCTGAATGAGCAGACGAATCGACCGAGGAAAGAGATGCTTACACACTAGAACACAACCTAA
CTCTACTTCTTTTCTTTTTCCTGCAGCTATCTTTTCAACAGGTCAGTCAATATCAGTAGTGGAAA
AAGCAGACAGAGTAGTCCCCTGGTCATCAGTTAGTAGTTAAATAATCCCAGTAGTGGTCCTCTTG
CCTAGCGGAGTCAGCCCTTAATGGACAATGATAGGCAGACCAAAGATTGCACATCGCAGTCTAAG
CGTGCTTGCTTTGCGCACCGGCACAGCAGAATTGGAATCCGCTGGCAAAGCAAAGACAGCTTGAT
ACTTTACTTTGGTAAGGTAAGGTTAAAAAAGTGCGATGTCTTCCTTACTCTAGCAAGTAAGTTCT
AAAAACCTGACTCTAAAAAGTAAGTGAAAAATCCCTGGAAAACAG
Found at i:140721 original size:10 final size:10
Alignment explanation
Indices: 140706--140746 Score: 82
Period size: 10 Copynumber: 4.1 Consensus size: 10
140696 TCTTGTCGGT
140706 CTTCGTTTAA
1 CTTCGTTTAA
140716 CTTCGTTTAA
1 CTTCGTTTAA
140726 CTTCGTTTAA
1 CTTCGTTTAA
140736 CTTCGTTTAA
1 CTTCGTTTAA
140746 C
1 C
140747 GAAGTTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.49
Consensus pattern (10 bp):
CTTCGTTTAA
Left flanking sequence: Indices 140206 -- 140705
GAGCAGACATGATCAATAATTAAAAAGAGGACAAGGGATGCTTGTTCGACCTTCGGGATAAACGC
TCTTTGAATGGGTTCTTTGACAGATTGCCTTGCCGTTGCGCCCCTTGCCTTTCTTACTGGATTTC
CAGTTGATGGGGAAGGCTTGGCAAAGAAGCTTGTGTCGGAAGAGAAGTGGAAAACTAAGCTGTTC
GGGCTTAACCTGAACCTGATTGCCCTAGTAGGAGTCAGAATAAGGTTGAGGCTTGAAGACAAGCA
ACTGACATCTCGGATCTTGCCATTGCCAGGAGCATGGATGCCGAGAATGCCCTCAGTCTATGTCT
GTCTATATAGGCTTTAAGGAAAAAGGTCCGCTAGTATACGCCGGCGCGTAGCTCGTTCTATACAA
CCATTGTCTTTGCGAAGGTTCGAACGGAATGTCGGGTCTTGTCAGAGCCTAGAAACTCACTCGGA
ATCCGCTAATCAGTCTTTGAGCAGTAGTCATCAGATCTTGTCGGT
Right flanking sequence: Indices 140747 -- 141246
GAAGTTAAACCCTTGTGTGGAGCTCGACCCTAAAAGTTAACTGAGCAATTGCAAATCATGACATT
CCGGAAGCTTCTCTACCGCGCCTTTGCCGCGGGGCGGGAGTAAAGTGGAATTTTTCAACTTAGCG
CTCGTGCGGAGTCTAGTTTATCGTGTAAATGGGGATAAGGGGCCCCACTCGTAGGTACGCACGGA
ACTGCTTACTACCCGAAGGCGGAGGCAAGCCTCTTTTCCGAATCTCAAACAATTTGGATCTACCC
GCGAAAAAGCTCAACACTCTCGATTTTATGATTCTTTGATGATCCTATCTTGATCATACTCAATT
ACCTAGTTCGACAAAAGGGCTGTTTGTATACAATAATCATATTGTAGCGGGTATAGTTTAGTGGT
AAAAGTGTGATTCGTTCTATTAACCCTTTACTTTAATAGTTAAAGGGTCTTTCGGTTTTATTCAT
ATTCCGATCCAAAAATTTATTAAAAGGCTCCGCACTCCTAGCTCC
Found at i:158211 original size:2 final size:2
Alignment explanation
Indices: 158200--158231 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
158190 ACGCTGCTTC
158200 TA TA -A TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
158232 GCATAGCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Left flanking sequence: Indices 157700 -- 158199
TTCAATCAACGGATTCAAAGGCATCGGAGTCGAAAGTCTTAGTGAGAAGCCCTCTTAGGACTCTT
TCCACTCTTCTCTGAGTGCCTTCAACAGTGCTTAGGTAGCGCTCACTGCGGGATAGTCAGCTTAC
TTTTTTATTCGAGAGCGGGGAACTTCCCTTCAATAAGCTTGTTAATGCATATCTGCCCGCATATG
GAAGTAATTCCATTCTTCTAACTTAACTAATCACTGGATCAGACGATAAAGGAATGGATGGGATC
AAAAGAGCTCTCAATACGATAGAGTTATTGATGATGAAACTTGCTGTCTTTGTGAGTTGCATCCA
GAATCAGTGTATCACCTCTTCTGGGATTCTTCCTACAGTAAAGTCGTTTGGTCTATCTTGCTTTA
AAATGGGTTGATTTAGACTCCCACTCGAAACTGGCAGAAAAGAATTCATTGCACAAATCCCTTAA
AACTATAGTAGCGGCTAGCTCACTAAGAGATAGAGACGCTGCTTC
Right flanking sequence: Indices 158232 -- 158731
GCATAGCCCTTTTTCTGATATTGAGATTACGTCAAGTAATCATTCCTATTCTTCTGGTTCCGAAG
AAACCTAAGCGATTCCTTCTCAACCTGGGCGATGCTACCCCGAGAAGTGCTCCTCGACAGATTCC
ATCTACGCTCCTGGGATCGAGCTAATCTTTCTTTCGCTTGTAAGAAGCATTATGCTTTGTCTACC
AATTCCTTCCAGAGTTCTTACAGGAGAGCCTTAACTCCAGCTGAAAGATGAGACGAGACTCTTAT
TCTCCTCCCGCCCATATACCACACGATACCAGACAAAAATTTTATAATTATAAAAGAGCTTTCTC
ACGTCCATCTATCAGTGTTATTTCCTCCAGCTCCCGCTAAAGCTATTGTAGCAGCTCCGGCCTTT
GCCTCATCTAAGGGGGTTTAGAAAGAGTAAAGTTACTAGTTATGCCTGCCCGGCAGTGAAAAAGC
AATCGATCGTACGACCCCTTCAAAGATGTATCTATCTATATTTTC
Found at i:240131 original size:13 final size:13
Alignment explanation
Indices: 240113--240137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
240103 CGTTCGTGCC
240113 AGCAAGAAAACGG
1 AGCAAGAAAACGG
240126 AGCAAGAAAACG
1 AGCAAGAAAACG
240138 TATGTGCGGC
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:0.56, C:0.16, G:0.28, T:0.00
Consensus pattern (13 bp):
AGCAAGAAAACGG
Left flanking sequence: Indices 239613 -- 240112
ATCCCTAAAGAGATGCCTAAAGGGCACAAAACCAAAACAGGGGTTAAAGATGGCACGGTTTCCGC
TTTCCCGGTTTGATCAGGTGGCAGCTGTCGGGGTACTGGTAACTAGCTTTGGTGCCTCTCTCTTC
TTCTCTAACGGCTGTCGGCCTGCGTGGTCTTGAATAGTGGTTCCTCGGTTGCCTGAAGGTCTCTT
TGAGGTTTAAAGGGGCTGGCTACAGGCGGTATTCGTCTTTGGCTAAGGAAAAGAAAACCTCAATA
TAACCGACACTGGTATAGGCACGTTTTGGTGGCCTTCTCGCCTTTCTAGGCCTCTCCTCTTAATA
GGGTGAGTTACACTTATTAGTATGAGCCTGCCCTGCCTGCTCGTTAGCTGTAGGCTTGAACCCCT
AACCCGTCTAAGGCCCTGTCTAAGGCAAGGTCCTTGCTTGTTGGCTGGCTTTCTATCGTTAGCGC
AGGAGGAAGATTGCTGACGGATTCCTTCTTCTTCTCGTTCGTGCC
Right flanking sequence: Indices 240138 -- 240637
TATGTGCGGCTAACGCACCACGTGCGTAGCTGCTCGAGCGAAGCGAGAGGAGAAGTCGAACGAAC
TGGTAATATAATAGAATACATAACGCGCTGGAGATAAATCAACCAGAAATCCTTAAGCTCAAGCT
CCAGTTCAGTGAGCAAAGAAGAAAGCAGGTATGAAATCATTCTAAGCGAAAGGAGCGGTGGAAGC
AGTGGCTAAGCTTCGATAATGTCTAATTTCCTTCTTAATAAGGCCGGCCTACCTTGATATGAGGG
TATGAAGTATCTCGACCAGAGGGAGAGGGTATGGAGTTATCTGAATATGCTTTAGCTGTAACAGC
GGGAGTAGAAAAGCAGCTGTAATTCTTTGGTTTGGAAAAGGCCGATTCTCAGCCCATGGGTATTC
GAAAAGGCCTTAGTTGCCCGGTTAGTAAATGTCCCCCCACTCTCCTGGGGTTCAATAAGAAGGAT
TTCTCCCCGGAAGTAACTGAACTTGAGCTAGGGAAAGATTAAGAC
Found at i:253936 original size:13 final size:13
Alignment explanation
Indices: 253918--253944 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
253908 ACTAATATAT
253918 ATAGACCTAATAA
1 ATAGACCTAATAA
253931 ATAGACCTAATAA
1 ATAGACCTAATAA
253944 A
1 A
253945 GTAATACTCA
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:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ATAGACCTAATAA
Left flanking sequence: Indices 253418 -- 253917
TCCACTTTAGGAAGCAATATTGATGATTAATGAAACCCTACGGGTTTTCAAGCATAAATCCCGGG
AAAAGACCCACTTGTAGGTGCCATGAGACGAGACGGGATAGAGCCTGAGACCCCGATGTCAGTAA
AGAAAAACTACCGTTTTTCATTCCTCATTAAATGACTAATTCTACCTTCTCCTACTTCTCCAACT
TCTGCTTCTGCGGATTCCGCTTACCCTGAAACTGATTCTGAAACTTCATCAAATACTGCAACTGA
TTCTGTCCATGAAACTGATTCCTATTCAACTGATTCCGAAACTGATTCGGCAACAGAAACTTCTT
CTACTGATGCTGATGCTGCTTCTTCTGCTGATTCTTCTCCTACAATCGGCTCCGGTCCGGAGGAA
GGCACAAACGATAGTAAGTCAGTTGCTAGTAAGTCTCTGTCTTAGTAGTTCGGTGCCCTTCGCGA
GACCCTGTAGAGCGAAAAAGACATCAATCATACCTACTAATATAT
Right flanking sequence: Indices 253945 -- 254444
GTAATACTCACAGATCGAAAGACGGCAGCGCTTGGGAGATGCTAAGGTAGGGTTACGTTTTATGG
TAGGGTATGGTTCGAGATATTGCTAAATTAAGTACATGAATTTTCTTATTTCACCGGAGGGGAGG
AGAGTGAAGGGACACCTGATCTTGATCTGATTAGTAGTAAAGTCGCTAAGGCCCTAGACTAATAA
TTGTTCTCGGCTGCCCTACACTAATAAGGCAAGGAAGAAGGGCCTTAGGCCAACGACGGGGGATA
GGGCCAACGACTGGTTACGGGATAGGGACTGAATAGCTACTGACTGATGGACCGATGGGTTCCGG
AAGGTTGGCTGGCAAGGATGGTTGGCGAAGAAGATCTAAGGTCTGCTGAGGGCGTAGAATAGAAG
GTGGGCTCGAATTGGCTCGAAGGTTGGGGGGAAAGGGGTTGGTGTGGTCTCACTCAAAGAAGCAG
CCGAGCCAGAGCCTTTAGTTGATGTCTTTTCGGTAGCAGTCCCAA
Found at i:263586 original size:26 final size:27
Alignment explanation
Indices: 263549--263600 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
263539 TTTGTTGCGA
*
263549 AAGATGGAATAAGTAAT-CTGCAATGG
1 AAGATGGAATAACTAATGCTGCAATGG
* *
263575 AAGATGGGATAACTAATGCTGGAATG
1 AAGATGGAATAACTAATGCTGCAATG
263601 AATAAGTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (27 bp):
AAGATGGAATAACTAATGCTGCAATGG
Left flanking sequence: Indices 263049 -- 263548
TTCTTTTTGATACCGCCTTTTTGGCTATTCTCGTAAATAAGCATTTCTTGGAAGCGAGGATCAAC
CCCTCTTTGTTGGTGTCTAAAATCCCGCACTTTTAGTATTCTTTCGACGATCTATCCGATTTCTA
AGTGAACCTAGTCTTATGCCTAAGACATGAAGGTAAAGTCGTAGATGACGCCTACTTCCTTTCGA
ATGCTTTCGAATGAGACTTGAACCAGAATCGTTTTCTAAGAAAGAAGGGGCTTTAGCCAATAAAG
CATGCTATAGCTTCAGGGGCGATCGATTTAGTAGGGGTGGATCGAGGCGCTTTTTAGCGGACAGC
ATAAATGTAATACGGTGACCAAAAAGAGACAAGAAAACGAGGTCGAAAATGGTAGGTAGGTATTA
CATCACCGGGAACAAGATTCTTTCACACGAATTCGGAACTTGGCTCGATCATCAAAAAAAGTCAT
CGTTGCCGTTTTACGCTTTTTTGGCATGTTCTCTTTTTGTTGCGA
Right flanking sequence: Indices 263601 -- 264100
AATAAGTTTCTATATATAACCTCTAAACCCACTTTCCTTGCGTCAGTGTCCTTATACACTCGCCC
TATTCTTTTTGAAATAGATCTGGGCGGAAATGTCTTATTATATCTTATATCTAAGATATACATCT
TTGAGCAAGAAATCCCCATTTGAATGATTTACAATCGATATCATTACTCATACTGAAACTGAAAA
AGTCGTCTTTTTTAAGATCCAAGAAATTCCAGTACCTAGATAAAACTTTTGAATCTTCTTTCGCC
CTTTTAATTGACATAGACCCCCGCCCTCTAATAAAATGAGGATGCTACATTGGGACTTAGTCGGG
ATAGCTCAGCTGGTAGAGCAGAGGACTGAAAATCCTCGTGTCACCAGTTCCAATCAGGTTCCTGG
CACATGATTAATTTGGATGAGTCTCTCTTGAATAAATTAATTGATATGAATCGACATCCCTATTC
ATTTTGAGTTTGGATCATAACACATACTTTTATCCATCTCGCCGA
Found at i:271046 original size:29 final size:29
Alignment explanation
Indices: 270992--271051 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
270982 CCAATTTATT
* *
270992 TTATTATTAATATTAATAATATTAATTAA
1 TTATTATTAATATAAATAATAATAATTAA
*
271021 TTATTATTGAT-TAAATAATAAATAATTAA
1 TTATTATTAATATAAATAAT-AATAATTAA
271050 TT
1 TT
271052 TTAAATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TTATTATTAATATAAATAATAATAATTAA
Left flanking sequence: Indices 270492 -- 270991
AAGAACTCAATAGAATATAGAATAAGGATATACAAACAAGAACCAATCCTAACGAAAAGGCCGAA
AAAATGGGATTGGGAAGTAATACTACTCCTAGACCTCCTAAGATCAGACCCGATCCCAGAAAGAC
TAAAATAAAATCATGCATTGGCCCGGGTAAATCCATAAAATCCAAATCTCAATATTTCATGATTT
TATTGACCTGACCAGGAAAAAAGAAGTAACTCCATTTTTTTTTTGTTTATGATACTTCTTAACTT
AAACGTAATTAAATAAATAAAATTGGAACAGATGCGGGCGGGTTGATATATATAGTGTTATTAGC
CCTAATCATTCAATATCTGGAAAATTGTTTGAAAATATATATATTACTCTAATATAAATAGAAAA
TCTAAATATAGAAATACATTTTTCATCAAAATGAAATGACAAGTTTAAACAACTTTTTCAAAGCC
TTATTTTGAGAGATGCAACCTAATTTCATTTATTTCCAATTTATT
Right flanking sequence: Indices 271052 -- 271551
TTAAATTGAATTGTTAATTGGGGATTTTTTTGAATTGAGAGGTTTAAGTTTAACTATTTTATATT
TTATTTCTATTGGAGGCGAATTCGAAATTGTGCGAATTGTGTAATCATCAATTACTGACGTTGGT
AACCGACCCAAAGCAATTTGATTAGAATTAAATTCGTGACGATCATAACTTGAAAGTTCATATTC
TTCAGTCATTGATAAACAATTTGTTGGACAATACTCAACGCAATTACCACAAAATATACAGATTA
AAAAAAAAATACTGTAATTAAACAATCGTTTCTTTCGAATATCACTTTCCAATTTCCAATCTACA
ACAGGTGGATCTATAGGACATACACGAACGCATACTTCACAAGCAATGCATTTATCAAATTCAAA
GTGAATTCGGCCCCGGAAACGTTCCGACGTAATTAGTTTTTCGTAGGGATATTGAATAGTTATAG
GTAAACGATTCGCGTGAGACAGGGTAATCGCGAAACCTTGACCGA
Found at i:279552 original size:23 final size:21
Alignment explanation
Indices: 279510--279577 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
279500 ACTTCCTTTC
279510 TTTTTGTCCAAGTCACTTCTT
1 TTTTTGTCCAAGTCACTTCTT
**
279531 TTTTTGTCCAAGTTGCTT-TT
1 TTTTTGTCCAAGTCACTTCTT
* * *
279551 CTTTTTGTCTAACTCACTTCCT
1 -TTTTTGTCCAAGTCACTTCTT
279573 TTTTT
1 TTTTT
279578 CTGTGTGAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTTTGTCCAAGTCACTTCTT
Left flanking sequence: Indices 279010 -- 279509
CCAAAAAGAGTGGTATTTGCTAGCAACAACATAATGGAGGCAGTCAATCAATACAGATTGATCCG
AAATCAGATTCAAATCCCATATAGTACCTCTGGGTACATAAGAAATGTATTGAATCGATTCTTTT
TAATGAATAGATCCGATCGCAACTTCGAATATGGAATTCAAAGGGATCAAATAGGAAAGGATACT
CTTAATCATAGAACTATAATGAAATATAGGATCAACCAACATTTATCGAATTTGAAAAAGAGTCA
GAAGAAATGGTTCGATCCCCTTATTTGGATTTCTCGAACCGAGAGATCCATGAATCGGAATCCTG
ATGCATATAGATACAAATGGTCCAGTCCAATGGGAGCAAGAATTTCCAGGAACATTTCGTTTCTG
AGCAGAAGAGCCGCCTTCAAGTAATGTTTGATCGATTACGTATTAATCAATATTCGATTGATTGG
TCTGAGGTTATCGACAAAAAAGATTTGTCTAAGCCACTTCCTTTC
Right flanking sequence: Indices 279578 -- 280077
CTGTGTGAGTTTCGGGAATATCCCCTTTCATAGGTCCGAGATGATCTACATCTATGAATTGAAAG
GTCCGAATGATCAACTCTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATTGTTCATTTGAAA
AAATGGAAACCCTTCTTATTGGATGATCATGATACTTCCCAAAAATATAAATTCTTGATCAATGG
AGGAACAATATCACCATTTTTGTTCAATAAGATACCAAAGTGGATGATTGACTCATTCCATACTA
GAAATAATCGCAGGAAATCCTTTGATAACACGGATTCCTATTTCTCAATGATATTCCACGATCAA
GACAATTGGCTGAATCCCGTGAAACCATTTCATAGAAGTTCATTGATATCTTCTTTTTATAAAGC
AAATCGACTTCGATTCTTGAATAATCCACATCACTTCTGCTTCTATTGGAACACAAGATTCCCCT
TTTCTGTGGAAAAGGCCCGTATCAATAATTATGATTTTACGTATG
Found at i:346115 original size:15 final size:16
Alignment explanation
Indices: 346089--346124 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
346079 CACTACCTTA
346089 TACTAGTAAAATGGCG
1 TACTAGTAAAATGGCG
346105 TACTA-TAAAATGGCG
1 TACTAGTAAAATGGCG
346120 TACTA
1 TACTA
346125 AAGGTGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (16 bp):
TACTAGTAAAATGGCG
Left flanking sequence: Indices 345589 -- 346088
GCCCAAGCCTTCTCGAGCCCTTTTTTTTTGAGTCAGATAATGCCCTAGGCCTTCGATGAGCCTTC
CCCATGGTTTAAAGAGCTTGCCCTAGCGCCGAACCCTTTTCGGCCTAACGAGGGCTTTTTTTTCT
TCCTCTGCATTTTTAGGATGATATAGAATTTCGATCTGACAGTGACACGTGTATAAATATAAGCG
GTCAAACCATCTCCCCATCTCAAGGTAACCGCCTACGGCCCCTCTGCTGTCTCGTCGACCTTTCC
CTTCGATGATTCGTTCAAACAAAATGTCATGCTTCGTGCTTCGCACCCCTCGCATTTTCAGTGGA
TTCTTCCCAACTTCGAGAGTGAAATTGATCCGACTAACCAAGCAACGGTTAGTTGTGCGGTAGCG
TAAAGGGTGCGATAGTAATAGGAGAAAGACTAAGAAAAGTCTTTCCGGGTTATGCCATAAAGACG
CATTAAGCTCCTTGATCGCTTAGAGCCCCTCGATACACTACCTTA
Right flanking sequence: Indices 346125 -- 346624
AAGGTGCTCTCCTTACGTCAGTTAACAAAGTAAGGGAGATTTGGATACCAAACTGGACTGGACAA
CTAACCAATTCTGTCTCGCATTCTCTTTTTCAAAGACTTCCTTCGTGAATGGAATCTCCCAACTT
GTGTAAGTCGAAATCCGTTACCTATAAAAAAAGTATAAGATCGAGCTACGAAGTTGGTTGGCCAT
GTATTGATACCGCATTTAGTGTACTTGAATCGCGGGCAAGTGCCTTCCACTCGAACTCCAACTGA
TAGAAGTTCTTGCTCGGGAAAAAATATCTGTTTTACCTGCCCATGAATCGTAGCGTAGATCTTTC
TTCTCCTTAGGTCTCTAGCTTGATCATCTCTTAGCATTCCATGATCGGTCCGTATGTCCTTCTTT
AGGAGTTGAGCAGCCCTCTTCGCGGGTATAGGCCCTGGCCCAATTTCACAAGCACAGCAAATAGC
CAATTCCGCCCCATGTATTCAATTATAAAATTCTCCTGGTTTGCA
Found at i:347751 original size:20 final size:20
Alignment explanation
Indices: 347726--347765 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
347716 GATAGCCCAT
*
347726 TTATACAGAATGGTAAAGGG
1 TTATACAGAATGGCAAAGGG
347746 TTATACAGAATGGCAAAGGG
1 TTATACAGAATGGCAAAGGG
347766 GACCTCTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (20 bp):
TTATACAGAATGGCAAAGGG
Left flanking sequence: Indices 347226 -- 347725
CTTTATCTTCGTATTAGCCCTTATTCGGCGATTCAAACCCGAAATCCAATACAGAAGGGAATGCA
AGCAGTGAGGTTACCCCTTAGGGCGGATGAAAGAGGATTCCCGGACTTGAAACTGGCAAAAGCTC
TTATTTGTCATTCCCGCTCAATTTTCTAAATTGAGTAGGGCAAATTCTCAAGCCTTCGAGCCTTC
TTTTCTTTTGATTGGTAGAGTAGCCTATAACTCTTGAAGAACCGGAAAGAGGAGATGAGGGACCA
CTTCGAGGATTCCTCCCCCAAAGCGGTAATTAATTACTAGTTAACTTAACAAAGTGAAATCTACA
ATTTTTTGACAAACAAGATGTTGCGGAGACAGGATTGGAACCCGTGACCTCAAGGTTATGAGCCT
TGCGAGCTACCAAACTGCTCTACCCCGCGATGAAGAGAAGAACTGAAAACTAATAGATAACCAAG
TTCTGTATAACCCTTTACCATATCTGTACAAATAGGATAGCCCAT
Right flanking sequence: Indices 347766 -- 348265
GACCTCTACGATCACCGACCCTAGAATTGAAATCAAGAGTTAATCCTTACCAACTCGATCTTGTT
GCTCCTGGCAACAAACATGCATCAACCATTTCACGAAGTATATGTCCGGATAGTCCAAAGTCTCG
ATAATTAGCTCTCGGCCGTCCAGTCGCAAAACAACGTCGATGAAGGCGTGTAGCTGCGCTATTCC
GTGGTGGGGATTGTAACTTTCTATAAATTTCCCATTTCTCACTCAATGACGGAACTTTGCTTATT
TCTTTTTTTTGAGGATTGACGAATCAAATGATATTTCTGTTCTAATTTATTCCTCTTCTTCTCCC
GCTGAATCAAACCTTTCCTTGCCATAATGGTTCAGTTCCAATTAGTATCCATGATACAAGTCGAA
TCCTAGATGTAGAAATATAAGAAGGTGGCCCTCTATCTATCGAAAGAAATGATCTTTTCGCGGAT
ACAAGACATCCAAAAAAGAATTCCAAATTTAACCAACCGACGTAG
Done.