Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 97 of 185
Found at i:30489906 original size:21 final size:21
Alignment explanation
Indices: 30489866--30489948 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
30489856 AATCTTGAAT
*
30489866 GAAATTGAGAGAAGAA-AAAAA
1 GAAA-TGAGAGAAAAAGAAAAA
30489887 GAAATGAGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
* * * *
30489908 TAAATAAAAGAAAAAGAAAAT
1 GAAATGAGAGAAAAAGAAAAA
* *
30489929 GAGA-GTGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
30489949 AGAATTTGAG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 22 0.44
21 28 0.56
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (21 bp):
GAAATGAGAGAAAAAGAAAAA
Found at i:30497056 original size:49 final size:47
Alignment explanation
Indices: 30496848--30497333 Score: 729
Period size: 47 Copynumber: 10.2 Consensus size: 47
30496838 AATTCTAAAT
30496848 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30496895 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30496942 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30496990 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
30497039 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
30497088 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
30497135 TGCGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
30497184 TGTGATAAGGCTTAATGGTCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
30497231 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
30497278 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30497325 TGTGATAAG
1 TGTGATAAG
30497334 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
47 221 0.55
48 45 0.11
49 136 0.34
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:30497133 original size:96 final size:94
Alignment explanation
Indices: 30496848--30497333 Score: 738
Period size: 96 Copynumber: 5.1 Consensus size: 94
30496838 AATTCTAAAT
30496848 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
30496913 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
* *
30496942 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATG
30497007 GCCGATGTGATGAATGTGAAAGTGTATATATA
65 GCCGATGTGATGAATGTGAAAGTG--TATATA
30497039 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
*
30497104 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
30497135 TGCGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
* *
30497200 GGTCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * ** *
30497231 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
* * * *
30497296 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
30497325 TGTGATAAG
1 TGTGATAAG
30497334 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 26, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
94 54 0.15
95 82 0.23
96 169 0.47
97 10 0.03
98 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:30497507 original size:37 final size:37
Alignment explanation
Indices: 30497451--30497529 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30497441 TCGAGCTCTA
* * *
30497451 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30497488 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30497525 AAGAC
1 AAGAC
30497530 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30511254 original size:21 final size:22
Alignment explanation
Indices: 30511209--30511254 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
30511199 AGAGAAAAAT
*
30511209 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
30511231 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
30511252 AAA
1 AAA
30511255 GGGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:30515077 original size:21 final size:21
Alignment explanation
Indices: 30515032--30515094 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
30515022 TTTGAACCAT
* *
30515032 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
30515054 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
30515075 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
30515095 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:30519741 original size:18 final size:17
Alignment explanation
Indices: 30519661--30519740 Score: 56
Period size: 18 Copynumber: 4.5 Consensus size: 17
30519651 TTTATCATAT
*
30519661 CACTCATTTCTTTTGCA
1 CACTCATTTCTTTTTCA
*
30519678 CTCTCATTTCTTTCTTCA
1 CACTCATTTCTTT-TTCA
*
30519696 -ATCTCACTCTCTTTTTCA
1 CA-CTCA-TTTCTTTTTCA
* *
30519714 -ATTTTCTTTTCTTTTTCA
1 CA--CTCATTTCTTTTTCA
30519732 CACTCATTT
1 CACTCATTT
30519741 TTATTCCCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
17 17 0.35
18 22 0.45
19 10 0.20
ACGTcount: A:0.15, C:0.29, G:0.01, T:0.55
Consensus pattern (17 bp):
CACTCATTTCTTTTTCA
Found at i:30519806 original size:15 final size:16
Alignment explanation
Indices: 30519781--30519812 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
30519771 TATCTCACGC
30519781 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
30519797 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
30519812 T
1 T
30519813 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:30521619 original size:10 final size:10
Alignment explanation
Indices: 30521604--30521629 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30521594 AAAAAGGAAT
30521604 GCCAAGTTCG
1 GCCAAGTTCG
30521614 GCCAAGTTCG
1 GCCAAGTTCG
30521624 GCCAAG
1 GCCAAG
30521630 GTCTTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (10 bp):
GCCAAGTTCG
Found at i:30522825 original size:28 final size:28
Alignment explanation
Indices: 30522765--30522851 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
30522755 ATTATTAAAG
* *
30522765 CATGTAATAAAATTAGACACATTAATAA
1 CATGTAATAAAATAAAACACATTAATAA
* *
30522793 CATGTAATAAAATAAAACACATTTAT-G
1 CATGTAATAAAATAAAACACATTAATAA
* * *
30522820 CTATGTAAT-AATTAAAACAAATTAAAAA
1 C-ATGTAATAAAATAAAACACATTAATAA
30522848 CATG
1 CATG
30522852 CATTAAACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 17 0.35
28 31 0.65
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (28 bp):
CATGTAATAAAATAAAACACATTAATAA
Found at i:30522950 original size:20 final size:20
Alignment explanation
Indices: 30522925--30522992 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
30522915 CTAAAATAAC
30522925 GAGCTGAATTGAGCTCGAAT
1 GAGCTGAATTGAGCTCGAAT
* *
30522945 GAGCTGACTTGAACTCGAAT
1 GAGCTGAATTGAGCTCGAAT
*
30522965 GAGCTGACTTGAGCTC-AAGT
1 GAGCTGAATTGAGCTCGAA-T
30522985 GAGCTGAA
1 GAGCTGAA
30522993 CCACATGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 2 0.05
20 41 0.95
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (20 bp):
GAGCTGAATTGAGCTCGAAT
Found at i:30525855 original size:31 final size:31
Alignment explanation
Indices: 30525793--30525855 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
30525783 GCAATATAGC
* * * **
30525793 TTCTTTTTTTGTTTTTTTTTTAAATTTTGAA
1 TTCTTTCTTTCTTTCTTTTTTAAATACTGAA
*
30525824 TTCTTTCTTTCTTTCTTTTTTCAATACTGAA
1 TTCTTTCTTTCTTTCTTTTTTAAATACTGAA
30525855 T
1 T
30525856 ACAAAAAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (31 bp):
TTCTTTCTTTCTTTCTTTTTTAAATACTGAA
Found at i:30526545 original size:247 final size:247
Alignment explanation
Indices: 30526109--30526603 Score: 828
Period size: 247 Copynumber: 2.0 Consensus size: 247
30526099 GTTATGGAAT
* *
30526109 GTGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAACGTGATGGGCTCAAATCACCAAAAGGC
1 GTGATACGAGTCACAAAAGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATCACCAAAAGGC
* *
30526174 CCAATAACGAGGTCAAAGGCCAGAAAAATGCGTTCCAAACTAAATGGGACCATTTAGGAATTTGT
66 CCAATAACAAGATCAAAGGCCAGAAAAATGCGTTCCAAACTAAATGGGACCATTTAGGAATTTGT
30526239 TAGCAAGGCCTTAGAGGCGTACACGAAAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAG
131 TAGCAAGGCCTTAGAGGCGTACACGAAAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAG
* * *
30526304 AAAATCAAGAAACCGAATCTTGGCTCAATTTTACTGTTTGGAGCGATTTCAA
196 AAAATCAAGAAACCGAATCTTGGCCCAATCTTACTGTTTGGAACGATTTCAA
* *
30526356 GTGATACGAGTCACAAAAGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
1 GTGATACGAGTCACAAAAGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATCACCAAAAGGC
* * * *
30526421 CCAATAACAAGATCAAAGGCCCGACAAATGCGTTCCAAACTAAATGGGATCATTTAGGAGTTTGT
66 CCAATAACAAGATCAAAGGCCAGAAAAATGCGTTCCAAACTAAATGGGACCATTTAGGAATTTGT
* *
30526486 TAGCAAGGCCTTAGATGCGTACATGAAAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAG
131 TAGCAAGGCCTTAGAGGCGTACACGAAAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAG
* **
30526551 AAAATCAAGAAACTGAATCTTGGCCCAATCTTGTTGTTTGGAACGATTTCAA
196 AAAATCAAGAAACCGAATCTTGGCCCAATCTTACTGTTTGGAACGATTTCAA
30526603 G
1 G
30526604 AATCAAGAAA
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
247 230 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (247 bp):
GTGATACGAGTCACAAAAGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATCACCAAAAGGC
CCAATAACAAGATCAAAGGCCAGAAAAATGCGTTCCAAACTAAATGGGACCATTTAGGAATTTGT
TAGCAAGGCCTTAGAGGCGTACACGAAAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAG
AAAATCAAGAAACCGAATCTTGGCCCAATCTTACTGTTTGGAACGATTTCAA
Found at i:30528896 original size:21 final size:23
Alignment explanation
Indices: 30528851--30528897 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30528841 TCACCTGCAA
* *
30528851 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
30528874 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
30528895 TAA
1 TAA
30528898 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:30532921 original size:13 final size:14
Alignment explanation
Indices: 30532903--30532939 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
30532893 GATATCAAGT
30532903 TGAAAAAAAA-TCG
1 TGAAAAAAAATTCG
*
30532916 TGAAAAAAAATTTG
1 TGAAAAAAAATTCG
30532930 TGAAAAAAAA
1 TGAAAAAAAA
30532940 AAATTTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.65, C:0.03, G:0.14, T:0.19
Consensus pattern (14 bp):
TGAAAAAAAATTCG
Found at i:30532941 original size:18 final size:18
Alignment explanation
Indices: 30532918--30532957 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
30532908 AAAAATCGTG
30532918 AAAAAAAATTT-GTGAAA
1 AAAAAAAATTTCGTGAAA
30532935 AAAAAAAATTTCGTGAAA
1 AAAAAAAATTTCGTGAAA
30532953 AAAAA
1 AAAAA
30532958 GAAGAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (18 bp):
AAAAAAAATTTCGTGAAA
Found at i:30543861 original size:20 final size:20
Alignment explanation
Indices: 30543836--30543890 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
30543826 TGTGGTTCAA
*
30543836 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
30543856 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
30543876 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
30543891 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:30561018 original size:74 final size:75
Alignment explanation
Indices: 30560878--30561020 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
30560868 TCGTTTTAAT
* * * *
30560878 ACTCTTAATCTTGCATGAAATGCACAAATTTAAAAAAAATAGAGAATTTTATGGTTGTAATGCAA
1 ACTCTCAAACTTGCATGAAATACACAAATTTAAAAAAAATAGAGAATTTTATGGTTGTAATCCAA
30560943 GATAAGGGTG
66 GATAAGGGTG
* *
30560953 ACTCTCAAACTTGCATGAAATACACAAATTT-AAAAAATTAGAGACTTTTATGGTTGTAATCCAA
1 ACTCTCAAACTTGCATGAAATACACAAATTTAAAAAAAATAGAGAATTTTATGGTTGTAATCCAA
30561017 GATA
66 GATA
30561021 CGTTGACGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 34 0.55
75 28 0.45
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (75 bp):
ACTCTCAAACTTGCATGAAATACACAAATTTAAAAAAAATAGAGAATTTTATGGTTGTAATCCAA
GATAAGGGTG
Found at i:30563800 original size:24 final size:24
Alignment explanation
Indices: 30563743--30563800 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
30563733 ATAGTTACAG
* *
30563743 TTCAAATACAGAATCAAAAGCAAT
1 TTCAGATACAGAAGCAAAAGCAAT
*
30563767 TTC-GAGTACAGAAGCAAACGCAAT
1 TTCAGA-TACAGAAGCAAAAGCAAT
30563791 TTCAGATACA
1 TTCAGATACA
30563801 TATTCAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 26 0.90
25 2 0.07
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (24 bp):
TTCAGATACAGAAGCAAAAGCAAT
Found at i:30565983 original size:22 final size:21
Alignment explanation
Indices: 30565950--30565990 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
30565940 TGTTTATATA
30565950 TAAATATATATTCTTTATAAATT
1 TAAATATATA-T-TTTATAAATT
30565973 TAAAT-TATATTTTATAAA
1 TAAATATATATTTTATAAA
30565991 ATTATATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 4 0.22
23 5 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATATATATTTTATAAATT
Found at i:30565997 original size:39 final size:40
Alignment explanation
Indices: 30565913--30565997 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 40
30565903 CTTGGCATAG
*
30565913 AATTAT-TAATCTTTAAAATTTTCAAATTGTTTATATATA
1 AATTATATAATCTTTAAAATTTTCAAATTATTTATATATA
* *
30565952 AA-TATATATTCTTTATAAA-TTT-AAATTATATTTTATA-A
1 AATTATATAATCTTTA-AAATTTTCAAATTAT-TTATATATA
30565990 AATTATAT
1 AATTATAT
30565998 TGAGATGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
38 12 0.31
39 24 0.62
40 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.52
Consensus pattern (40 bp):
AATTATATAATCTTTAAAATTTTCAAATTATTTATATATA
Found at i:30566348 original size:21 final size:21
Alignment explanation
Indices: 30566322--30566362 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30566312 ATGGATAAAA
30566322 TTTAAGATTTAATATTTAGAT
1 TTTAAGATTTAATATTTAGAT
* * *
30566343 TTTAAGGTTTAGTCTTTAGA
1 TTTAAGATTTAATATTTAGA
30566363 GTCTATAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (21 bp):
TTTAAGATTTAATATTTAGAT
Found at i:30567617 original size:30 final size:30
Alignment explanation
Indices: 30567583--30567642 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30567573 ACTTAACAAG
*
30567583 CAAATGCCTCTAAAATAATAGCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
30567613 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
30567643 GAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:30567722 original size:22 final size:22
Alignment explanation
Indices: 30567674--30567722 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
30567664 ATATCCAAAC
30567674 AATAACAACAAAATAGTAACAA
1 AATAACAACAAAATAGTAACAA
* * *
30567696 CATAA-AAGCAAAATGGTAGCAA
1 AATAACAA-CAAAATAGTAACAA
30567718 AATAA
1 AATAA
30567723 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:30570462 original size:26 final size:26
Alignment explanation
Indices: 30570433--30570483 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
30570423 TATTAACAAC
*
30570433 AATAAAACATGTTTGAACCCCACATT
1 AATAAAACATGTTTCAACCCCACATT
*
30570459 AATAAAACATGTTTCAACCTCACAT
1 AATAAAACATGTTTCAACCCCACAT
30570484 GGTCCAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (26 bp):
AATAAAACATGTTTCAACCCCACATT
Found at i:30571167 original size:20 final size:21
Alignment explanation
Indices: 30571132--30571170 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30571122 TAATACATAT
*
30571132 TTAAATAATTATAATTTGATA
1 TTAAATAATAATAATTTGATA
30571153 TTAAA-AATAATAATTTGA
1 TTAAATAATAATAATTTGA
30571171 ATTTGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TTAAATAATAATAATTTGATA
Found at i:30585167 original size:14 final size:14
Alignment explanation
Indices: 30585148--30585187 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30585138 TTGATTGGCA
30585148 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
30585162 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
30585176 GAAAAATGTTTT
1 GTAAAATGTTTT
30585188 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:30585196 original size:20 final size:20
Alignment explanation
Indices: 30585171--30585210 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30585161 CGTAAAATGA
*
30585171 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
30585191 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
30585211 GTAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:30585200 original size:34 final size:35
Alignment explanation
Indices: 30585156--30585222 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30585146 CAGTAAAATG
*
30585156 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
30585190 TTTTCTGTAAAATGATTTACTGTAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
30585223 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:30585334 original size:20 final size:20
Alignment explanation
Indices: 30585309--30585347 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30585299 GTTTTTACAT
30585309 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
30585329 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
30585348 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:30585407 original size:15 final size:15
Alignment explanation
Indices: 30585378--30585430 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
30585368 TATTCCAATG
*
30585378 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
30585394 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
30585410 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
30585428 ATT
1 ATT
30585431 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:30588774 original size:25 final size:25
Alignment explanation
Indices: 30588746--30588795 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30588736 AGAAGAGAAG
* *
30588746 ATGAAGAACATAAGAAGAAAAAGGA
1 ATGAAAAACAGAAGAAGAAAAAGGA
* *
30588771 ATGAAAAACGGAAGAAGAAGAAGGA
1 ATGAAAAACAGAAGAAGAAAAAGGA
30588796 GCCTTACCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.62, C:0.04, G:0.28, T:0.06
Consensus pattern (25 bp):
ATGAAAAACAGAAGAAGAAAAAGGA
Found at i:30588881 original size:18 final size:18
Alignment explanation
Indices: 30588858--30588892 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30588848 GCAATCCAAT
30588858 GGGAAGGGAAAAGGGAAG
1 GGGAAGGGAAAAGGGAAG
*
30588876 GGGAAGGGAAAGGGGAA
1 GGGAAGGGAAAAGGGAA
30588893 AGGGTAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (18 bp):
GGGAAGGGAAAAGGGAAG
Found at i:30592891 original size:26 final size:26
Alignment explanation
Indices: 30592824--30592892 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
30592814 CATTCTGACC
* *
30592824 CACAGCTCTTGTGAGCAGGCCCATTT
1 CACAGCTCTTGTGAGTAGGCACATTT
*
30592850 CATAGCTCTTGTGAGTAGGCACATTT
1 CACAGCTCTTGTGAGTAGGCACATTT
*
30592876 CACAGCTCGTGTGAGTA
1 CACAGCTCTTGTGAGTA
30592893 ATAATGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (26 bp):
CACAGCTCTTGTGAGTAGGCACATTT
Found at i:30597005 original size:18 final size:18
Alignment explanation
Indices: 30596969--30597011 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
30596959 TAAAAGGAAT
* **
30596969 AATAATAAAATAATTTAA
1 AATAATAAAAAAAAATAA
30596987 AATAATAAAAAAAAATAA
1 AATAATAAAAAAAAATAA
*
30597005 AACAATA
1 AATAATA
30597012 TCTTCTTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAATAAAAAAAAATAA
Found at i:30598017 original size:6 final size:7
Alignment explanation
Indices: 30597998--30598024 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30597988 TAAAAAGGAT
30597998 ATAAAAA
1 ATAAAAA
30598005 ATAAAAA
1 ATAAAAA
30598012 ATAAAAA
1 ATAAAAA
30598019 ATAAAA
1 ATAAAA
30598025 TGGACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:30603285 original size:16 final size:16
Alignment explanation
Indices: 30603254--30603284 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
30603244 ATAACTATTT
30603254 CTTGTCATATAAAAAA
1 CTTGTCATATAAAAAA
30603270 CTTGT-ATATAAAAAA
1 CTTGTCATATAAAAAA
30603285 ATATTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (16 bp):
CTTGTCATATAAAAAA
Found at i:30609165 original size:43 final size:43
Alignment explanation
Indices: 30609104--30609209 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
30609094 TCACAAATGT
30609104 CGCTATAGAACATGATCTTTAAC-GATGCTTTTACTAAAAACGC
1 CGCTATAGAACATGATCTTTAACGGAT-CTTTTACTAAAAACGC
* * *
30609147 CGCTATAGAACATAATCTTTAGCGGATCTTTTACTACAAACGC
1 CGCTATAGAACATGATCTTTAACGGATCTTTTACTAAAAACGC
*
30609190 CGCTAAAGAACATGATCTTT
1 CGCTATAGAACATGATCTTT
30609210 TGCATCGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 54 0.95
44 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
CGCTATAGAACATGATCTTTAACGGATCTTTTACTAAAAACGC
Found at i:30609303 original size:43 final size:43
Alignment explanation
Indices: 30609256--30609360 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
30609246 TTCTTCATAC
*
30609256 AAGTGCCGTTAAAGATCATATTCTACAA-CAGCATTTGTAGGAA
1 AAGTGCCGTTAAAAATCATATTCTA-AAGCAGCATTTGTAGGAA
** * * * * *
30609299 AAGTGTTGTTAAATATCATGTTCTAAAGCGGCGTTTGTATGAA
1 AAGTGCCGTTAAAAATCATATTCTAAAGCAGCATTTGTAGGAA
* *
30609342 AAGCGCCGCTAAAAATCAT
1 AAGTGCCGTTAAAAATCAT
30609361 GTTTTATAGC
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 2 0.04
43 47 0.96
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (43 bp):
AAGTGCCGTTAAAAATCATATTCTAAAGCAGCATTTGTAGGAA
Found at i:30609642 original size:17 final size:18
Alignment explanation
Indices: 30609607--30609642 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30609597 CTTGAATTTT
*
30609607 TTTAAAATATATGAAATA
1 TTTAAAAAATATGAAATA
30609625 TTTAAAAAATAT-AAATA
1 TTTAAAAAATATGAAATA
30609642 T
1 T
30609643 AAAATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TTTAAAAAATATGAAATA
Found at i:30617531 original size:51 final size:50
Alignment explanation
Indices: 30617412--30617596 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
30617402 AAAGTGATGG
* * * *
30617412 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-C-GAAAGTGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-AT-GA
* * *
30617462 TCGCAGGTGTAGTACTATGTACAGGCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GA
* * * * * *
30617513 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGGTAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGA
*
30617564 TCACATGTGTAGTACTATGTGCAAGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
30617597 TGAACCGGTA
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
50 33 0.30
51 71 0.65
52 5 0.05
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGA
Found at i:30617843 original size:16 final size:16
Alignment explanation
Indices: 30617822--30617853 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30617812 TGATTGAAAG
*
30617822 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
30617838 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
30617854 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:30624137 original size:414 final size:414
Alignment explanation
Indices: 30623367--30624195 Score: 1649
Period size: 414 Copynumber: 2.0 Consensus size: 414
30623357 CAAAATTTGA
30623367 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
1 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
*
30623432 CAGGTTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
66 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
30623497 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
131 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
30623562 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTGACACAGAAAATCCTAGTCTGAGG
196 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTGACACAGAAAATCCTAGTCTGAGG
30623627 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
261 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
30623692 CTCTACTATAGCACCTCAAGATGCGGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
326 CTCTACTATAGCACCTCAAGATGCGGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
30623757 TTGTCGATGCATCAAACAAAGAAG
391 TTGTCGATGCATCAAACAAAGAAG
30623781 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
1 TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
30623846 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
66 CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
30623911 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
131 GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
30623976 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTGACACAGAAAATCCTAGTCTGAGG
196 CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTGACACAGAAAATCCTAGTCTGAGG
30624041 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
261 GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
30624106 CTCTACTATAGCACCTCAAGATGCGGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
326 CTCTACTATAGCACCTCAAGATGCGGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
30624171 TTGTCGATGCATCAAACAAAGAAG
391 TTGTCGATGCATCAAACAAAGAAG
30624195 T
1 T
30624196 TCCACAAATT
Statistics
Matches: 414, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 414 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (414 bp):
TGCAGCCACAACACTCTTCAATACCAAAACAACACGTTCAAGGACATTGACAGTAACCATACACT
CAGGCTTGTACTTCTAACCCATTAGCAACTCTTAACAAATTAATGCGGGAGCATATTACTCGCAC
GGAAGCTATTGTACAAGGGAATTCATCTTCTATTCGAGCATTGGAAGTGCAATTAGGAAAACTTG
CTTCAAATTTGAATACTCGACCACCAGGCTCATTACCTAGTGACACAGAAAATCCTAGTCTGAGG
GGGAAAGAACATTGTAAGGCTATCACTCTTAAGAGTGGTAAACAAATTGGCGAATCATTTATCGA
CTCTACTATAGCACCTCAAGATGCGGATGGAGTGACCACTGATAAGAAGGTTGAATTTGAATAGT
TTGTCGATGCATCAAACAAAGAAG
Found at i:30631758 original size:34 final size:33
Alignment explanation
Indices: 30631703--30631797 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
30631693 AATGATTGGT
* **
30631703 TGTCCATTGAGGTGC-CTGAACAGCCTTGTTGTTG
1 TGTCCATTGATGTGCAC-GAACAGCCTTG-TACTG
* * *
30631737 TGTCTATTGATGTGCACGAACAACCCTGTACTG
1 TGTCCATTGATGTGCACGAACAGCCTTGTACTG
* *
30631770 TGTCCATTGGTGTGCATGAACAGCCTTG
1 TGTCCATTGATGTGCACGAACAGCCTTG
30631798 AGTTGAATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 26 0.53
34 22 0.45
35 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (33 bp):
TGTCCATTGATGTGCACGAACAGCCTTGTACTG
Found at i:30633961 original size:25 final size:27
Alignment explanation
Indices: 30633909--30633961 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
30633899 ATACATTGAA
30633909 TTTTATTACCTTGATAACCACTTATAT
1 TTTTATTACCTTGATAACCACTTATAT
* *
30633936 TTTTA-TACCTTG-TGAGCACTTATAT
1 TTTTATTACCTTGATAACCACTTATAT
30633961 T
1 T
30633962 CTCCTGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 12 0.50
26 7 0.29
27 5 0.21
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (27 bp):
TTTTATTACCTTGATAACCACTTATAT
Found at i:30639288 original size:21 final size:22
Alignment explanation
Indices: 30639258--30639300 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
30639248 TTGACTTCGG
*
30639258 TGTCACGACACA-GCCTGAAGA
1 TGTCACGACACACACCTGAAGA
*
30639279 TGTCATGACACACACCTGAAGA
1 TGTCACGACACACACCTGAAGA
30639301 CATTCTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (22 bp):
TGTCACGACACACACCTGAAGA
Found at i:30641997 original size:18 final size:18
Alignment explanation
Indices: 30641949--30641997 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
30641939 ATTTGATATA
30641949 TTTTATTATT-TTATTTC
1 TTTTATTATTATTATTTC
* *
30641966 TTGTGATT-TAATTATTTC
1 TT-TTATTATTATTATTTC
30641984 TTTTATTATTATTA
1 TTTTATTATTATTA
30641998 GTTTAGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATTATTTC
Found at i:30644713 original size:27 final size:27
Alignment explanation
Indices: 30644644--30645001 Score: 343
Period size: 27 Copynumber: 13.3 Consensus size: 27
30644634 CCCCAAAATA
* *
30644644 GGTAAAATGACCAAAATACCC-C-TAAA
1 GGTAAAATGACCGAAATACCCTCAT-AG
* *
30644670 AGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
30644697 GGTAAAATAACCGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
*
30644724 GGTAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * *
30644751 GATAAAATGACCAAAATACCCTCATAT
1 GGTAAAATGACCGAAATACCCTCATAG
* * * *
30644778 GGTAGAATGACCAAAATACCTTCATAT
1 GGTAAAATGACCGAAATACCCTCATAG
** *
30644805 TATAAAATGACCGAAATACTCTCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
30644832 GGTAGAATGACCGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
*
30644859 GGTAGAATGACCGAAATACACC-CATAG
1 GGTAAAATGACCGAAATAC-CCTCATAG
* * * *
30644886 CGTAAAATGATCAAAATACCCTCATAT
1 GGTAAAATGACCGAAATACCCTCATAG
*
30644913 GGTAAAATGACTGAAATACCC-CATTAG
1 GGTAAAATGACCGAAATACCCTCA-TAG
* * * *
30644940 GGTAGAATGATCGAAAAACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
**
30644967 GGTAAAATGATTGAAATAACCCT-ATAG
1 GGTAAAATGACCGAAAT-ACCCTCATAG
*
30644994 TGTAAAAT
1 GGTAAAAT
30645002 AACTGTTATA
Statistics
Matches: 278, Mismatches: 44, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
26 26 0.09
27 242 0.87
28 10 0.04
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:30646466 original size:33 final size:33
Alignment explanation
Indices: 30646404--30646470 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
30646394 TAGTGGAAGA
* *
30646404 TTGAAAGATCCTACGGGGTATCAACTAGTTGAT
1 TTGAAAGATCCTACGAGGTACCAACTAGTTGAT
* * *
30646437 TTGAAAGATCCTACTAGGTACCGATTAGTTGAT
1 TTGAAAGATCCTACGAGGTACCAACTAGTTGAT
30646470 T
1 T
30646471 GAACAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (33 bp):
TTGAAAGATCCTACGAGGTACCAACTAGTTGAT
Found at i:30647270 original size:31 final size:29
Alignment explanation
Indices: 30647233--30647295 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
30647223 CAAAACTGTA
*
30647233 AAAAATAGACCAAAATATGCAAAATTATT-AT
1 AAAAATA-ACCAAAAT-T-CAAAATGATTCAT
*
30647264 AAAAATAACTAAAATTCAAAATGATTCAT
1 AAAAATAACCAAAATTCAAAATGATTCAT
30647293 AAA
1 AAA
30647296 TTTAGTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 9 0.31
29 6 0.21
30 7 0.24
31 7 0.24
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (29 bp):
AAAAATAACCAAAATTCAAAATGATTCAT
Found at i:30648878 original size:41 final size:41
Alignment explanation
Indices: 30648798--30648904 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
30648788 TCTGATTCAA
* * ** *
30648798 TTCATCGGCAATT-AGCCTACTAGACTTAAAGTCTGAATTAT
1 TTCATCGGC-ATTAAGCCTGCTAGACATAAAGTCCAAATTAC
* *
30648839 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCAAATTAC
1 TTCATCGGCATTAAGCCTGCTAGACATAAAGTCCAAATTAC
* *
30648880 ATCATCGGCCTTAAGCCTGCTAGAC
1 TTCATCGGCATTAAGCCTGCTAGAC
30648905 TTTAGGCCTG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (41 bp):
TTCATCGGCATTAAGCCTGCTAGACATAAAGTCCAAATTAC
Found at i:30653880 original size:18 final size:20
Alignment explanation
Indices: 30653859--30653908 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
30653849 AAAGAAAGAC
30653859 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
30653877 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
30653897 AGCAAAAAGAGA
1 AG-AAAAAGAGA
30653909 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:30659831 original size:20 final size:20
Alignment explanation
Indices: 30659806--30659845 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30659796 CATAAAATGA
*
30659806 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
* *
30659826 TTTCTGTACAATGATTTACT
1 TTTCTGGAAAATGATTTACT
30659846 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:30663847 original size:41 final size:41
Alignment explanation
Indices: 30663787--30663895 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
30663777 CCTGATTCAA
* *
30663787 TTCATCGGCAATTAA-CCTGCTAGACTTAAAGTCCGAATTAT
1 TTCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
* *
30663828 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
* * *
30663869 ATCACCGGCCTTAAGCCTACTAGACTT
1 TTCACCGGCATTAAGCCTGCTAGACTT
30663896 TAAGCCTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 5 0.09
41 53 0.91
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCCGAATTAC
Found at i:30668530 original size:18 final size:18
Alignment explanation
Indices: 30668507--30668544 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
30668497 TTTAACCATA
*
30668507 AATTTCTCTACATGTGAC
1 AATTTCCCTACATGTGAC
30668525 AATTTCCCTACATGTGAC
1 AATTTCCCTACATGTGAC
30668543 AA
1 AA
30668545 AAGTGTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (18 bp):
AATTTCCCTACATGTGAC
Found at i:30674410 original size:24 final size:24
Alignment explanation
Indices: 30674373--30674418 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30674363 TCGGCCATGT
30674373 GTGTCACATGGCCATGTGACAACCC
1 GTGTCACATGGCCATGTG-CAACCC
*
30674398 GTGTCTCA-GGCCATGTGCAAC
1 GTGTCACATGGCCATGTGCAAC
30674419 GCAAATAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (24 bp):
GTGTCACATGGCCATGTGCAACCC
Found at i:30675603 original size:13 final size:15
Alignment explanation
Indices: 30675571--30675607 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
30675561 GAAGATATTT
30675571 AAAT-AATAATTAAC
1 AAATAAATAATTAAC
30675585 AAATAAATAATT-A-
1 AAATAAATAATTAAC
30675598 AAATAAATAA
1 AAATAAATAA
30675608 ATAATGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 7 0.32
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAATAATTAAC
Found at i:30676944 original size:43 final size:43
Alignment explanation
Indices: 30676854--30677080 Score: 236
Period size: 43 Copynumber: 5.4 Consensus size: 43
30676844 CTCGGTGGAT
**
30676854 TCAGCACTTAGCAACCACC-TT-A-AATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTCACAA-TCAAAGATACGGGGAA
* *
30676895 TTAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTTCACAATCAAAGATACGG-GGAA
* * **
30676938 TCAGCACTTAGCAACCACCTTT-ATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTCACAATCAAAGATACGGGGAA
* * *
30676980 TCAGCACATAGCAACC-CCTTTCACAATCAAATATACGATGGAA
1 TCAGCACTTAGCAACCACCTTTCACAATCAAAGATACG-GGGAA
* * *
30677023 TCAGCACTTAGCAACCACC-TCCAGAATCAATA-ATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTCACAATCAA-AGATACGGGGAA
30677065 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
30677081 CCTCAGAGAA
Statistics
Matches: 155, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.01
41 21 0.14
42 60 0.39
43 64 0.41
44 8 0.05
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
TCAGCACTTAGCAACCACCTTTCACAATCAAAGATACGGGGAA
Found at i:30676990 original size:85 final size:85
Alignment explanation
Indices: 30676846--30677083 Score: 354
Period size: 85 Copynumber: 2.8 Consensus size: 85
30676836 ATCTGTTACT
* *
30676846 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATTAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
30676910 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
*
30676930 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
*
30676995 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGATA
* ** * * * *
30677015 CGATGGAATCAGCACTTAGCAACCACCTCCAGAA-TCAATAATTCGGGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAA
30677079 CCCCT
65 CCCCT
30677084 CAGAGAATTT
Statistics
Matches: 140, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
84 26 0.19
85 113 0.81
86 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:30676992 original size:42 final size:42
Alignment explanation
Indices: 30676854--30677080 Score: 239
Period size: 42 Copynumber: 5.4 Consensus size: 42
30676844 CTCGGTGGAT
*
30676854 TCAGCACTTAGCAACCACC-TTA-AATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* * *
30676895 TTAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * *
30676938 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
30676980 TCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACGATGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATACG-GGGAA
** * * *
30677023 TCAGCACTTAGCAACCACCTCCAGAATCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
30677065 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
30677081 CCTCAGAGAA
Statistics
Matches: 155, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.01
41 21 0.14
42 62 0.40
43 62 0.40
44 8 0.05
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:30680424 original size:41 final size:42
Alignment explanation
Indices: 30680345--30680425 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
30680335 CGTTTTCTCT
**
30680345 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
30680387 ATGCCATAG-CCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCCAACTATGGTCTTACACA-TATGCACATAT
30680426 CACACCAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 24 0.69
42 11 0.31
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:30680868 original size:24 final size:24
Alignment explanation
Indices: 30680836--30680888 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
30680826 CAACATAAAC
30680836 TTTTTTTTTAACTTATGATCATCT
1 TTTTTTTTTAACTTATGATCATCT
30680860 TTTTTTTTTAACTTATGATCATCT
1 TTTTTTTTTAACTTATGATCATCT
*
30680884 CTTTT
1 TTTTT
30680889 CATACATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTTTTTTTAACTTATGATCATCT
Found at i:30683115 original size:85 final size:85
Alignment explanation
Indices: 30682973--30683210 Score: 343
Period size: 85 Copynumber: 2.8 Consensus size: 85
30682963 ATCCATTACT
* * * * *
30682973 CGGTGGATTCAACACTTAGCAACCA-CATTAAATTCAGTGATATGAGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
30683037 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
* *
30683057 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
*
30683122 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGATA
* * * * * *
30683142 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAATTCGGGTAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
30683207 CCCT
66 CCCT
30683211 CAGGGAATCT
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 23 0.17
85 114 0.83
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:30683120 original size:42 final size:43
Alignment explanation
Indices: 30682973--30683207 Score: 225
Period size: 43 Copynumber: 5.6 Consensus size: 43
30682963 ATCCATTACT
* * * *
30682973 CGGTGGATTCAACACTTAGCAACCA-CATTA-AATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAA-TCAATGATA
* * * *
30683015 -TGAGGAATCAGCACATAGCAACC-CCTTTCACAATCAAAGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATA
* * *
30683057 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* *
30683100 CGG-GGAATCAACACATAGCAACC-CCTTTCACAATCAAAT-ATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATC-AATGATA
* * *
30683142 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
*
30683185 CGG-GTAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
30683208 CCTCAGGGAA
Statistics
Matches: 158, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
41 26 0.16
42 58 0.37
43 64 0.41
44 10 0.06
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
Found at i:30683607 original size:30 final size:30
Alignment explanation
Indices: 30683573--30683630 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30683563 TCCTTAACTC
30683573 AAACTTTTGAAAAATTACAATTTTGCCCTT
1 AAACTTTTGAAAAATTACAATTTTGCCCTT
* * * *
30683603 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGAAAAATTACAATTTTGCCC
30683631 CAAAGCTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCTT
Found at i:30688953 original size:27 final size:28
Alignment explanation
Indices: 30688919--30688978 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
30688909 CAGTATCAGT
* *
30688919 ACAGTGTGGACC-CAGCCCATTATAGTA
1 ACAGTGTGGACCTAAGCCCAATATAGTA
*
30688946 ACAGTGTGGGCCTAAGCCCAATATAGTA
1 ACAGTGTGGACCTAAGCCCAATATAGTA
*
30688974 TCAGT
1 ACAGT
30688979 ATGGTGCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGACCTAAGCCCAATATAGTA
Found at i:30689401 original size:27 final size:24
Alignment explanation
Indices: 30689371--30689570 Score: 100
Period size: 26 Copynumber: 7.7 Consensus size: 24
30689361 ACCTTTTGGG
30689371 GGTATTTCACTAATTTTACCCTACGGA
1 GGTATTTCA-TAA-TTTACCC-ACGGA
* *
30689398 GGTATTTCGGTAATTTACCCACTGA
1 GGTATTTC-ATAATTTACCCACGGA
*
30689423 GGGTATTTCGATAATTTACCCATCGAA
1 -GGTATTTC-ATAATTTACCCA-CGGA
** **
30689450 GGTATTTTGGTAATTTACCTGTC-GA
1 GGTA-TTTCATAATTTACC-CACGGA
**
30689475 GGGTATTTCAATAATTTACCCATTGA
1 -GGTATTTC-ATAATTTACCCACGGA
30689501 GGGTATTTCGATAATTTACCCATC-GA
1 -GGTATTTC-ATAATTTACCCA-CGGA
* * *
30689527 GGGTATTTCGGTAATATACCCATC-AA
1 -GGTATTTC-ATAATTTACCCA-CGGA
30689553 GGGTATTTCGATAATTTA
1 -GGTATTTC-ATAATTTA
30689571 GGCCCATTAC
Statistics
Matches: 142, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
25 8 0.06
26 118 0.83
27 16 0.11
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
GGTATTTCATAATTTACCCACGGA
Found at i:30689427 original size:26 final size:26
Alignment explanation
Indices: 30689398--30689570 Score: 231
Period size: 26 Copynumber: 6.7 Consensus size: 26
30689388 ACCCTACGGA
*
30689398 GGTATTTCGGTAATTTACCCA-CTGAG
1 GGTATTTCGATAATTTACCCATC-GAG
*
30689424 GGTATTTCGATAATTTACCCATCGAA
1 GGTATTTCGATAATTTACCCATCGAG
* * **
30689450 GGTATTTTGGTAATTTACCTGTCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
30689476 GGTATTTCAATAATTTACCCATTGAG
1 GGTATTTCGATAATTTACCCATCGAG
30689502 GGTATTTCGATAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
30689528 GGTATTTCGGTAATATACCCATCAAG
1 GGTATTTCGATAATTTACCCATCGAG
30689554 GGTATTTCGATAATTTA
1 GGTATTTCGATAATTTA
30689571 GGCCCATTAC
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 125 0.99
27 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (26 bp):
GGTATTTCGATAATTTACCCATCGAG
Found at i:30689456 original size:52 final size:52
Alignment explanation
Indices: 30689370--30689570 Score: 230
Period size: 52 Copynumber: 3.8 Consensus size: 52
30689360 TACCTTTTGG
* *
30689370 GGGTATTTC-ACTAATTTTACCC-TACGGAGGTATTTCGGTAATTTACCCA-CTGA
1 GGGTATTTCGA-TAA-TTTACCCAT-CGAAGGTATTTCGATAATTTACCCATC-GA
* * **
30689423 GGGTATTTCGATAATTTACCCATCGAAGGTATTTTGGTAATTTACCTGTCGA
1 GGGTATTTCGATAATTTACCCATCGAAGGTATTTCGATAATTTACCCATCGA
* * *
30689475 GGGTATTTCAATAATTTACCCATTGAGGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGAAGGTATTTCGATAATTTACCCATCGA
* *
30689527 GGGTATTTCGGTAATATACCCATC-AAGGGTATTTCGATAATTTA
1 GGGTATTTCGATAATTTACCCATCGAA-GGTATTTCGATAATTTA
30689571 GGCCCATTAC
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
51 1 0.01
52 112 0.88
53 14 0.11
54 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
GGGTATTTCGATAATTTACCCATCGAAGGTATTTCGATAATTTACCCATCGA
Found at i:30689482 original size:78 final size:78
Alignment explanation
Indices: 30689398--30689570 Score: 265
Period size: 78 Copynumber: 2.2 Consensus size: 78
30689388 ACCCTACGGA
* *
30689398 GGTATTTCGGTAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTTGGTAA
1 GGTATTTCGATAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTCGGTAA
* ** *
30689463 TTTACCTGTCGAG
66 TATACCCATCAAG
* * *
30689476 GGTATTTCAATAATTTACCCATTGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTCGGTAA
1 GGTATTTCGATAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTCGGTAA
30689541 TATACCCATCAAG
66 TATACCCATCAAG
30689554 GGTATTTCGATAATTTA
1 GGTATTTCGATAATTTA
30689571 GGCCCATTAC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (78 bp):
GGTATTTCGATAATTTACCCACTGAGGGTATTTCGATAATTTACCCATCGAAGGTATTTCGGTAA
TATACCCATCAAG
Found at i:30696545 original size:28 final size:28
Alignment explanation
Indices: 30696486--30696550 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
30696476 TAATCAGTAT
* *
30696486 CAGTAA-AGTGTGGACCCCAGCCCATTA
1 CAGTAACAGTGTGGACCCAAGCCCAATA
* * *
30696513 TAGTAACAGTGTGGGCCTAAGCCCAATA
1 CAGTAACAGTGTGGACCCAAGCCCAATA
*
30696541 CAGTATCAGT
1 CAGTAACAGT
30696551 ATCCTGCAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (28 bp):
CAGTAACAGTGTGGACCCAAGCCCAATA
Found at i:30696734 original size:27 final size:27
Alignment explanation
Indices: 30696711--30696762 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30696701 GATCAGTATA
30696711 TGTGGCAAAGCCACCAGTAACAGTAGT
1 TGTGGCAAAGCCACCAGTAACAGTAGT
* *
30696738 TGTGGCAGAGCCACCAGTATCAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
30696763 CTTCCTCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAGT
Found at i:30696944 original size:27 final size:27
Alignment explanation
Indices: 30696913--30696974 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
30696903 TTCATCTCCT
*
30696913 AGGGGTATAACAGTCAT-TCTACCCTTC
1 AGGGGTATAACAGTAATGT-TACCCTTC
* **
30696940 GGGGGTATTTCAGTAATGTTACCCTTC
1 AGGGGTATAACAGTAATGTTACCCTTC
30696967 AGGGGTAT
1 AGGGGTAT
30696975 TTTGGTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (27 bp):
AGGGGTATAACAGTAATGTTACCCTTC
Found at i:30696998 original size:26 final size:26
Alignment explanation
Indices: 30696969--30697220 Score: 344
Period size: 26 Copynumber: 9.7 Consensus size: 26
30696959 TACCCTTCAG
* * *
30696969 GGGTATTTTGGTAATATACCCATTGA
1 GGGTATTTTGATAATTTACCCATCGA
*
30696995 GGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTGATAATTTACCCATCGA
* * *
30697021 GGTTATTTTGGTAATTTACCCATTGA
1 GGGTATTTTGATAATTTACCCATCGA
* *
30697047 AGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTTGATAATTTACCCATCGA
*
30697073 GGGTATTTTGATAATTTGCCCATCGA
1 GGGTATTTTGATAATTTACCCATCGA
*
30697099 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTTGATAATTTACCCATCGA
*
30697125 GGGTATTTT-AGTAATTTACCTATCGA
1 GGGTATTTTGA-TAATTTACCCATCGA
*
30697151 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTTGATAATTTACCCATCGA
*
30697177 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTTGATAATTTACCCATCGA
* *
30697203 GTGTATTTCGATAATTTA
1 GGGTATTTTGATAATTTA
30697221 GGCCCGTTAC
Statistics
Matches: 205, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
25 1 0.00
26 203 0.99
27 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGATAATTTACCCATCGA
Found at i:30697035 original size:52 final size:52
Alignment explanation
Indices: 30696932--30697220 Score: 384
Period size: 52 Copynumber: 5.5 Consensus size: 52
30696922 ACAGTCATTC
* * * *
30696932 TACCCTTCGGGGGTATTTC-AGTAATGTTACCCTTC-AGGGGTATTTTGGTAATA
1 TACCCATCGAGGGTATTTCGA-TAAT-TTACCCATCGA-GGGTATTTTGGTAATT
* * * *
30696985 TACCCATTGAGGGTATTTTGGTAATTTACCCATCGAGGTTATTTTGGTAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
* * *
30697037 TACCCATTGAAGGTATTTCGATAATTTACCCATCGAGGGTATTTTGATAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
* *
30697089 TGCCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTAGTAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
* * *
30697141 TACCTATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
*
30697193 TACCCATCGAGTGTATTTCGATAATTTA
1 TACCCATCGAGGGTATTTCGATAATTTA
30697221 GGCCCGTTAC
Statistics
Matches: 209, Mismatches: 25, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
52 189 0.90
53 20 0.10
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (52 bp):
TACCCATCGAGGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATT
Found at i:30706283 original size:33 final size:34
Alignment explanation
Indices: 30706246--30706310 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
30706236 TGTAATGTGG
*
30706246 TGGTGGTGTGGTGGTGCTAAGGT-GGTTGAATAT
1 TGGTGATGTGGTGGTGCTAAGGTAGGTTGAATAT
*
30706279 TGGTGATGTGGTGGTTCTAAGGTAGGTTGAAT
1 TGGTGATGTGGTGGTGCTAAGGTAGGTTGAAT
30706311 GGTGGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.17, C:0.03, G:0.43, T:0.37
Consensus pattern (34 bp):
TGGTGATGTGGTGGTGCTAAGGTAGGTTGAATAT
Found at i:30707385 original size:27 final size:27
Alignment explanation
Indices: 30707355--30707406 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
30707345 GTTCAGTATA
* *
30707355 TGTGGCAAAGCCACCAGTAACAGTAGT
1 TGTGCCAAAGCAACCAGTAACAGTAGT
* *
30707382 TGTGCCAGAGCAACCAGTATCAGTA
1 TGTGCCAAAGCAACCAGTAACAGTA
30707407 CTTCCTCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
TGTGCCAAAGCAACCAGTAACAGTAGT
Found at i:30708808 original size:10 final size:10
Alignment explanation
Indices: 30708793--30708820 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30708783 AAACGGCACA
30708793 CACACTCCCC
1 CACACTCCCC
30708803 CACACTCCCC
1 CACACTCCCC
30708813 CACACTCC
1 CACACTCC
30708821 AACTTCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.68, G:0.00, T:0.11
Consensus pattern (10 bp):
CACACTCCCC
Found at i:30710976 original size:951 final size:951
Alignment explanation
Indices: 30709131--30711036 Score: 3120
Period size: 951 Copynumber: 2.0 Consensus size: 951
30709121 AAATTCTGCA
*
30709131 AAAGCCAAGACTTGAACCCAAGCTTCTCAAACACTTGCAAACACACCTAAAACACCTAGCCATTA
1 AAAGCCAAGACTTGAACCCAAGCTTCTCAAACACTCGCAAACACACCTAAAACACCTAGCCATTA
* *
30709196 AAGCATATAAGCAATTAGTGTGAAAATATGCAGAAATTAAAAACTTGAATATTTGGGGCGTTACA
66 AAGCATACAAGCAATTAGTGTGAAAACATGCAGAAATTAAAAACTTGAATATTTGGGGCGTTACA
*
30709261 ATTCTACCCCCTTAACGAAATTTCAGCCTCGAAATTTACCTGATCAGAAAAGGTGAGGGTATTAT
131 ATTCTACCCCCTTAACGAAATTTCAGCCTCGAAATTTACCTGATCAGAAAAGATGAGGGTATTAT
* * *
30709326 TGTCGTATCGCCTCTTCGGGTTCCCACGTGGCTTCCTCTGTACTGTGATTATGCCAAAGCACATT
196 TATCGTATCGCCTCTTCGGGTTCCCACGTGGCTTCCTCTGAACTGAGATTATGCCAAAGCACATT
*
30709391 GACTATAGGAATAAACTTCTTCCTTAGTACCTTAACCTCGCGATCCAATATCTGTACTAGTTTTT
261 GACTATAGGAATAAACTTCTTCCTTAGTACCTTAACCTCGCGATCAAATATCTGTACTAGTTTTT
* * *
30709456 CCTCGAAGGTCAAATCTGGCCTAACTTTGATTTCCTCCATTAGAACAACGTGTGACGGATTAGAG
326 CCTCAAAGGTCAAATCTGGCCTAACTTTGATTTCCTCCACTAGAACAACGTGTGACGGATCAGAG
*
30709521 CGATAACGTCTTAACATGGAAAAGTGAAACACATCATGAATTCGGTCTAATTCTAGAGGCAACTC
391 CGATAACGCCTTAACATGGAAAAGTGAAACACATCATGAATTCGGTCTAATTCTAGAGGCAACTC
* * * *
30709586 AAGTTGGTAAGCGATCGGTCCCATATGCTTCAGTATACGGTAAGGCCCAATAAACCTAAGGCTAA
456 AAGTTAGTAAGCGACCGGTCCCACATGCTTCAGTATACAGTAAGGCCCAATAAACCTAAGGCTAA
* *
30709651 GCTTACCCTTCTGTCCAAACCTCAATATTTTTTTCCAAGTAGAAACCATGAGAAAAAAATATCCT
521 GCTTACCCTTCTGTCCAAACCTCAATATTTTTTTCCAAGGAGAAACCATGAGAAAAAAATATCCC
30709716 CACAGAGTACTCAATCTCTGGGCGCTTCAGATCCGCATAAGACTTCTATCTATCAGACGCTTCCT
586 CACAGAGTACTCAATCTCTGGGCGCTTCAGATCCGCATAAGACTTCTATCTATCAGACGCTTCCT
* *
30709781 TCAACCGGCCTTGAATCACTTTTACCTTTTCTTCGGTATCAAAAACGAATTCTTGCCCCAAAACT
651 TCAACCGGACTCGAATCACTTTTACCTTTTCTTCGGTATCAAAAACGAATTCTTGCCCCAAAACT
* *
30709846 CATCGTTCGCCCAATTCAGTCCAACAGGTAAGGGTACGACACCTACGACCATACAATGCCTCGTA
716 AACCGTTCGCCCAATTCAGTCCAACAGGTAAGGGTACGACACCTACGACCATACAATGCCTCGTA
* *
30709911 CGGTGCCATTTGAATACTAGACTGATAGGTGTTATTATACGTAAACTCTACCAGTGGCAAATAGT
781 CGGTGCCATTTGAATACTAGACTGATAGATGTTATTATACGCAAACTCTACCAGTGGCAAATAGT
* *
30709976 CTTCCCAGCTACCTCAGAAATCAATGACACAACCTCTCAACACGTCCTCCAGTATCTGAAGCATC
846 CTTCCCAGCTACCTCAGAAATCAATGACACAACCTCTCAACACGTCCTCCAGCATCTGAAGCACC
*
30710041 CTCTCTGACTATCTATCTGTCTGAGGATGGAACGTAGTACT
911 CTCTCTGACTATCTATCTGTCTGAGGATGGAACGCAGTACT
* * *
30710082 AAAGCCAATACTTGAACCCAGGCTTCTCAGACACTCGCAAACACACCTAAAACACCTAGCCATTA
1 AAAGCCAAGACTTGAACCCAAGCTTCTCAAACACTCGCAAACACACCTAAAACACCTAGCCATTA
* *
30710147 AATCATACAAGCAATTAGTGTGAAAACATGCAGAAATTAAAAACTTGACTATTTGGGGCGTTACA
66 AAGCATACAAGCAATTAGTGTGAAAACATGCAGAAATTAAAAACTTGAATATTTGGGGCGTTACA
*
30710212 ATTCTACCCCCTTAACGAAATTTCAGCCTCGAAATTTACCTGATCAGAAAAGATGAGGGTATTGT
131 ATTCTACCCCCTTAACGAAATTTCAGCCTCGAAATTTACCTGATCAGAAAAGATGAGGGTATTAT
* *
30710277 TATC-TCATCGCCTCTTCGGGTTCTCACGTGGCTTCCTCTGAACTGAGATTATGCCAAAGCACTT
196 TATCGT-ATCGCCTCTTCGGGTTCCCACGTGGCTTCCTCTGAACTGAGATTATGCCAAAGCACAT
*
30710341 TGACTATAGGAATAAACTTTTTCCTTAGTACCTTAACCTCGCGATCAAATATCTGTACTAGTTTT
260 TGACTATAGGAATAAACTTCTTCCTTAGTACCTTAACCTCGCGATCAAATATCTGTACTAGTTTT
* **
30710406 TCCTCAAAGGTCAAATCTGGCCTAACTTTGATTTCCTCCACTAGAACAATGTGTGTGGGATCAGA
325 TCCTCAAAGGTCAAATCTGGCCTAACTTTGATTTCCTCCACTAGAACAACGTGTGACGGATCAGA
* * * *
30710471 GCGATAACGCCTTGACATGGAAAATTGAAACACATCTTGAATTCGGTCTAATTCTAGAGGCTACT
390 GCGATAACGCCTTAACATGGAAAAGTGAAACACATCATGAATTCGGTCTAATTCTAGAGGCAACT
* ** *
30710536 CAAGTTAGTAAGCGACCGGTCCCACATGCTTCAGTCTACAGTAAGGCCCAATAAATGTAGGGCTA
455 CAAGTTAGTAAGCGACCGGTCCCACATGCTTCAGTATACAGTAAGGCCCAATAAACCTAAGGCTA
* * *
30710601 AGCTTACCTTTCTGTCCAAACCTTAGTATTTTTTTTCCAAGGAGAAACCATGAGAAAAAAA-ATC
520 AGCTTACCCTTCTGTCCAAACCTCAATA-TTTTTTTCCAAGGAGAAACCATGAGAAAAAAATAT-
* * *
30710665 CCCCACAGAGTACTCAATCTCTGGGCGCTTCAGATCCGCATAAGACTTCTGTCTATGAGATGCTT
583 CCCCACAGAGTACTCAATCTCTGGGCGCTTCAGATCCGCATAAGACTTCTATCTATCAGACGCTT
* * *
30710730 CCTTCAACTGGACTCGAATCAC-TTTACCTTTTCTTCGGTATCAGAAACTAATTCTTGCCCCAAA
648 CCTTCAACCGGACTCGAATCACTTTTACCTTTTCTTCGGTATCAAAAACGAATTCTTGCCCCAAA
* *
30710794 ACTAACCGTTCGCCCAATTTAGTCCGACAGGTAAGGGTACGACACCTACGACCATACAATGCCTC
713 ACTAACCGTTCGCCCAATTCAGTCCAACAGGTAAGGGTACGACACCTACGACCATACAATGCCTC
* * *
30710859 GTACGGTGCCATTTGAATACTAGACTGATAGATGTTATTATATC-CAAACTTTGCCAGTGGCAAC
778 GTACGGTGCCATTTGAATACTAGACTGATAGATGTTATTATA-CGCAAACTCTACCAGTGGCAAA
* * * * *
30710923 TAGTCTTCCTAGTTGCCTC-GAAAATCAATGACACAACTTCTCAACATGTCCTCCAGCATCTGAA
842 TAGTCTTCCCAGCTACCTCAG-AAATCAATGACACAACCTCTCAACACGTCCTCCAGCATCTGAA
* *
30710987 GCACCCTCTTTGACTATCTATCTGTCTGAGGATGGAATGCAGTACT
906 GCACCCTCTCTGACTATCTATCTGTCTGAGGATGGAACGCAGTACT
30711033 AAAG
1 AAAG
30711037 TCTAGTCTTG
Statistics
Matches: 882, Mismatches: 68, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
950 2 0.00
951 768 0.87
952 112 0.13
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (951 bp):
AAAGCCAAGACTTGAACCCAAGCTTCTCAAACACTCGCAAACACACCTAAAACACCTAGCCATTA
AAGCATACAAGCAATTAGTGTGAAAACATGCAGAAATTAAAAACTTGAATATTTGGGGCGTTACA
ATTCTACCCCCTTAACGAAATTTCAGCCTCGAAATTTACCTGATCAGAAAAGATGAGGGTATTAT
TATCGTATCGCCTCTTCGGGTTCCCACGTGGCTTCCTCTGAACTGAGATTATGCCAAAGCACATT
GACTATAGGAATAAACTTCTTCCTTAGTACCTTAACCTCGCGATCAAATATCTGTACTAGTTTTT
CCTCAAAGGTCAAATCTGGCCTAACTTTGATTTCCTCCACTAGAACAACGTGTGACGGATCAGAG
CGATAACGCCTTAACATGGAAAAGTGAAACACATCATGAATTCGGTCTAATTCTAGAGGCAACTC
AAGTTAGTAAGCGACCGGTCCCACATGCTTCAGTATACAGTAAGGCCCAATAAACCTAAGGCTAA
GCTTACCCTTCTGTCCAAACCTCAATATTTTTTTCCAAGGAGAAACCATGAGAAAAAAATATCCC
CACAGAGTACTCAATCTCTGGGCGCTTCAGATCCGCATAAGACTTCTATCTATCAGACGCTTCCT
TCAACCGGACTCGAATCACTTTTACCTTTTCTTCGGTATCAAAAACGAATTCTTGCCCCAAAACT
AACCGTTCGCCCAATTCAGTCCAACAGGTAAGGGTACGACACCTACGACCATACAATGCCTCGTA
CGGTGCCATTTGAATACTAGACTGATAGATGTTATTATACGCAAACTCTACCAGTGGCAAATAGT
CTTCCCAGCTACCTCAGAAATCAATGACACAACCTCTCAACACGTCCTCCAGCATCTGAAGCACC
CTCTCTGACTATCTATCTGTCTGAGGATGGAACGCAGTACT
Found at i:30715892 original size:131 final size:131
Alignment explanation
Indices: 30715658--30715920 Score: 517
Period size: 131 Copynumber: 2.0 Consensus size: 131
30715648 GAATGGTGAT
*
30715658 AGTATGCAACCCACCCAAATCCAGCCAAACACACCACCCGTACCAACCCTACACACCATGTGGGG
1 AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGTACCAACCCTACACACCATGTGGGG
30715723 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAGTTCAGTATATGTGG
66 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAGTTCAGTATATGTGG
30715788 C
131 C
30715789 AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGTACCAACCCTACACACCATGTGGGG
1 AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGTACCAACCCTACACACCATGTGGGG
30715854 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAGTTCAGTATATGTGG
66 ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAGTTCAGTATATGTGG
30715919 C
131 C
30715920 A
1 A
30715921 AAGCCACCAG
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.32, C:0.38, G:0.15, T:0.15
Consensus pattern (131 bp):
AGTATGCAAACCACCCAAATCCAGCCAAACACACCACCCGTACCAACCCTACACACCATGTGGGG
ACAAAGTCGACCCACCCAGCCCACACACCAATATTGCACCTTAGCTGCCAGTTCAGTATATGTGG
C
Found at i:30716164 original size:26 final size:26
Alignment explanation
Indices: 30716135--30716370 Score: 199
Period size: 26 Copynumber: 9.1 Consensus size: 26
30716125 ACAGTCATTC
* *
30716135 TACCCTTCGGGGGTATTTCAATAATT
1 TACCCATCGAGGGTATTTCAATAATT
** *
30716161 TACCC-TTTAGGGGTATTTCGATAATT
1 TACCCATCGA-GGGTATTTCAATAATT
* * * *
30716187 TACCCATTGAAGGTATTTTAGTAATT
1 TACCCATCGAGGGTATTTCAATAATT
* ***
30716213 TACCCATCGAGGGAATTTTGCTAATT
1 TACCCATCGAGGGTATTTCAATAATT
* *
30716239 TACCCATCGAGGATATTAT-AGTAATT
1 TACCCATCGAGGGTATT-TCAATAATT
* *
30716265 TACCCATTGAGGGTATTT-AGGTAATT
1 TACCCATCGAGGGTATTTCA-ATAATT
* **
30716291 TACCCATCGAGGATATTTCGGTAATT
1 TACCCATCGAGGGTATTTCAATAATT
* * * *
30716317 TAACCATCAAAGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCAATAATT
*
30716343 TTCCCATCGAGGGTATTTCAATAATT
1 TACCCATCGAGGGTATTTCAATAATT
30716369 TA
1 TA
30716371 GGCCTATTAT
Statistics
Matches: 171, Mismatches: 34, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
25 3 0.02
26 164 0.96
27 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCAATAATT
Found at i:30716202 original size:52 final size:52
Alignment explanation
Indices: 30716146--30716370 Score: 226
Period size: 52 Copynumber: 4.3 Consensus size: 52
30716136 ACCCTTCGGG
* * *
30716146 GGTATTTCAATAATTTACCCTTTAG-GGGTATTTCGATAATTTACCCATTGAA
1 GGTATTTCAGTAATTTACCCATTAGAGGGTATTTCGATAATTTACCCATCG-A
* * * * *
30716198 GGTATTTTAGTAATTTACCCA-TCGAGGGAATTTTGCTAATTTACCCATCGA
1 GGTATTTCAGTAATTTACCCATTAGAGGGTATTTCGATAATTTACCCATCGA
* *
30716249 GGATATTAT-AGTAATTTACCCATT-GAGGGTATTTAGGTAATTTACCCATCGA
1 GG-TATT-TCAGTAATTTACCCATTAGAGGGTATTTCGATAATTTACCCATCGA
* * * * *
30716301 GGATATTTCGGTAATTTAACCATCA-AAGGTATTTCGATAATTTTCCCATCGA
1 GG-TATTTCAGTAATTTACCCATTAGAGGGTATTTCGATAATTTACCCATCGA
*
30716353 GGGTATTTCAATAATTTA
1 -GGTATTTCAGTAATTTA
30716371 GGCCTATTAT
Statistics
Matches: 146, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
51 6 0.04
52 136 0.93
53 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (52 bp):
GGTATTTCAGTAATTTACCCATTAGAGGGTATTTCGATAATTTACCCATCGA
Found at i:30716342 original size:78 final size:76
Alignment explanation
Indices: 30716172--30716370 Score: 240
Period size: 78 Copynumber: 2.6 Consensus size: 76
30716162 ACCCTTTAGG
* *
30716172 GGTATTTCGATAATTTACCCATTGAAGGTATTTTAGTAATTTACCCATCGAGGGAATTTTGCTAA
1 GGTATTTCGATAATTTACCCATTGAGGGTA-TTTAGTAATTTACCCATCGAGGGAATTTCGCTAA
* *
30716237 TTTACCCATCGA
65 TTTAACCATCAA
* *
30716249 GGATATTATAG-TAATTTACCCATTGAGGGTATTTAGGTAATTTACCCATCGA-GGATATTTCGG
1 GG-TATT-TCGATAATTTACCCATTGAGGGTATTTA-GTAATTTACCCATCGAGGGA-ATTTCGC
30716312 TAATTTAACCATCAAA
62 TAATTTAACCATC-AA
* * *
30716328 GGTATTTCGATAATTTTCCCATCGAGGGTATTTCAATAATTTA
1 GGTATTTCGATAATTTACCCATTGAGGGTATTT-AGTAATTTA
30716371 GGCCTATTAT
Statistics
Matches: 105, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
77 11 0.10
78 88 0.84
79 6 0.06
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (76 bp):
GGTATTTCGATAATTTACCCATTGAGGGTATTTAGTAATTTACCCATCGAGGGAATTTCGCTAAT
TTAACCATCAA
Found at i:30724712 original size:28 final size:28
Alignment explanation
Indices: 30724672--30724727 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
30724662 CCATTGCCAC
*
30724672 ATCACTTAGTCTTTTTCTTTCTTAAGAA
1 ATCACTTAGTCTTTTTCTTTCTAAAGAA
30724700 ATCACTTAGTCTTTTTCTTTCTAAAGAA
1 ATCACTTAGTCTTTTTCTTTCTAAAGAA
30724728 GTATTTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (28 bp):
ATCACTTAGTCTTTTTCTTTCTAAAGAA
Found at i:30728508 original size:859 final size:859
Alignment explanation
Indices: 30726850--30728566 Score: 3380
Period size: 859 Copynumber: 2.0 Consensus size: 859
30726840 TAACTTTAAA
*
30726850 TGTACCTCCATAATTGTTGTATAATTCAATATCTCCATAAGAATAAACTTGGTAAATGGTATAGG
1 TGTACCTCCATAATTGTTGTATAATTCAATATCTCCATAAGAATAAACTCGGTAAATGGTATAGG
*
30726915 GTCCTTTCCATCGGGATTTTAGCTTCCCAGGAAATAACTTCAGCCTTGAATTAAACAACAACACC
66 GTCCTTTCCATCGAGATTTTAGCTTCCCAGGAAATAACTTCAGCCTTGAATTAAACAACAACACC
*
30726980 TTCTGGCATTCTTTAAACTCGCAAAGTTGTATATGAGTATCATGCCATCTCTTTGATCATTCTTT
131 TTCTGGCATTCTTTAAACTCGCAAAGTTGTATATGAGTATCATGCCACCTCTTTGATCATTCTTT
30727045 GCATATTTTAGCATTCTCATAGGAAAATAACCTCAGCTCTTCCAACTCATCAAGTTGTAACATCC
196 GCATATTTTAGCATTCTCATAGGAAAATAACCTCAGCTCTTCCAACTCATCAAGTTGTAACATCC
30727110 TTTCTCACCGACTTGCTTAAGATCAAAGTTCAACTGCTTCAAAGCCCAGTGAGCTTTATTCTCCA
261 TTTCTCACCGACTTGCTTAAGATCAAAGTTCAACTGCTTCAAAGCCCAGTGAGCTTTATTCTCCA
30727175 ATTCTAATGGCAAATGACATGCCTTTCCAAAGACTAACCGATAAGGAGTCCCTAATGGAGTCTTA
326 ATTCTAATGGCAAATGACATGCCTTTCCAAAGACTAACCGATAAGGAGTCCCTAATGGAGTCTTA
*
30727240 AATGTTGTTTGATAGGCCCATAATGCATCTTCGAGCCTTCGAGTCCAATCTTTTCTGCTAGGGCG
391 AATGCTGTTTGATAGGCCCATAATGCATCTTCGAGCCTTCGAGTCCAATCTTTTCTGCTAGGGCG
*
30727305 TACTATTTTTTTAAGGATACCTTTGATTTTACGGTTCACTCTTTCAACTTGCCCATTGGATTGGG
456 TACTATTTTTTTAAGGATACCTTTGATTTCACGGTTCACTCTTTCAACTTGCCCATTGGATTGGG
30727370 GGTGATAACCAGTAGCAATATTGTGCCTTACATCATATTTTTCAAGCAACCACTTAAGTCATTTG
521 GGTGATAACCAGTAGCAATATTGTGCCTTACATCATATTTTTCAAGCAACCACTTAAGTCATTTG
30727435 TTCACAAAGTTAGACCCTTCATCATTAATAATAGCTCTTGGTGTCCCAAATCGTGTAAACACATG
586 TTCACAAAGTTAGACCCTTCATCATTAATAATAGCTCTTGGTGTCCCAAATCGTGTAAACACATG
30727500 TTTATGTAAAAATCGCATGACTACCTTAGCATCATTTGTAGGGTATGCTTCAGCTTCAACCCACT
651 TTTATGTAAAAATCGCATGACTACCTTAGCATCATTTGTAGGGTATGCTTCAGCTTCAACCCACT
30727565 TGGATACATAGTCCACAGCAACTAAGATGTATTTTTTCCCATACGAAGAAGGAAACAGGCCTAAG
716 TGGATACATAGTCCACAGCAACTAAGATGTATTTTTTCCCATACGAAGAAGGAAACAGGCCTAAG
30727630 AAGTCAATGCCCCATACATCGAATAATTCAATCTCCAAAATATTTTTTAAGGGCATCTCATTCGT
781 AAGTCAATGCCCCATACATCGAATAATTCAATCTCCAAAATATTTTTTAAGGGCATCTCATTCGT
30727695 CCTTGATATATTTT
846 CCTTGATATATTTT
30727709 TGTACCTCCATAATTGTTGTATAATTCAATATCTCCATAAGAATAAACTCGGTAAATGGTATAGG
1 TGTACCTCCATAATTGTTGTATAATTCAATATCTCCATAAGAATAAACTCGGTAAATGGTATAGG
30727774 GTCCTTTCCATCGAGATTTTAGCTTCCCAGGAAATAACTTCAGCCTTGAATTAAACAACAACACC
66 GTCCTTTCCATCGAGATTTTAGCTTCCCAGGAAATAACTTCAGCCTTGAATTAAACAACAACACC
30727839 TTCTGGCATTCTTTAAACTCGCAAAGTTGTATATGAGTATCATGCCACCTCTTTGATCATTCTTT
131 TTCTGGCATTCTTTAAACTCGCAAAGTTGTATATGAGTATCATGCCACCTCTTTGATCATTCTTT
30727904 GCATATTTTAGCATTCTCATAGGAAAATAACCTCAGCTCTTCCAACTCATCAAGTTGTAACATCC
196 GCATATTTTAGCATTCTCATAGGAAAATAACCTCAGCTCTTCCAACTCATCAAGTTGTAACATCC
*
30727969 TTTCTCACCGACTTGCTTAAGATCAAAGTTCAACTGCTTGAAAGCCCAGTGAGCTTTATTCTCCA
261 TTTCTCACCGACTTGCTTAAGATCAAAGTTCAACTGCTTCAAAGCCCAGTGAGCTTTATTCTCCA
30728034 ATTCTAATGGCAAATGACATGCCTTTCCAAAGACTAACCGATAAGGAGTCCCTAATGGAGTCTTA
326 ATTCTAATGGCAAATGACATGCCTTTCCAAAGACTAACCGATAAGGAGTCCCTAATGGAGTCTTA
30728099 AATGCTGTTTGATAGGCCCATAATGCATCTTCGAGCCTTCGAGTCCAATCTTTTCTGCTAGGGCG
391 AATGCTGTTTGATAGGCCCATAATGCATCTTCGAGCCTTCGAGTCCAATCTTTTCTGCTAGGGCG
30728164 TACTATTTTTTTAAGGATACCTTTGATTTCACGGTTCACTCTTTCAACTTGCCCATTGGATTGGG
456 TACTATTTTTTTAAGGATACCTTTGATTTCACGGTTCACTCTTTCAACTTGCCCATTGGATTGGG
30728229 GGTGATAACCAGTAGCAATATTGTGCCTTACATCATATTTTTCAAGCAACCACTTAAGTCATTTG
521 GGTGATAACCAGTAGCAATATTGTGCCTTACATCATATTTTTCAAGCAACCACTTAAGTCATTTG
30728294 TTCACAAAGTTAGACCCTTCATCATTAATAATAGCTCTTGGTGTCCCAAATCGTGTAAACACATG
586 TTCACAAAGTTAGACCCTTCATCATTAATAATAGCTCTTGGTGTCCCAAATCGTGTAAACACATG
30728359 TTTATGTAAAAATCGCATGACTACCTTAGCATCATTTGTAGGGTATGCTTCAGCTTCAACCCACT
651 TTTATGTAAAAATCGCATGACTACCTTAGCATCATTTGTAGGGTATGCTTCAGCTTCAACCCACT
30728424 TGGATACATAGTCCACAGCAACTAAGATGTATTTTTTCCCATACGAAGAAGGAAACAGGCCTAAG
716 TGGATACATAGTCCACAGCAACTAAGATGTATTTTTTCCCATACGAAGAAGGAAACAGGCCTAAG
30728489 AAGTCAATGCCCCATACATCGAATAATTCAATCTCCAAAATATTTTTTAAGGGCATCTCATTCGT
781 AAGTCAATGCCCCATACATCGAATAATTCAATCTCCAAAATATTTTTTAAGGGCATCTCATTCGT
30728554 CCTTGATATATTT
846 CCTTGATATATTT
30728567 CCAGTTCTTT
Statistics
Matches: 852, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
859 852 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (859 bp):
TGTACCTCCATAATTGTTGTATAATTCAATATCTCCATAAGAATAAACTCGGTAAATGGTATAGG
GTCCTTTCCATCGAGATTTTAGCTTCCCAGGAAATAACTTCAGCCTTGAATTAAACAACAACACC
TTCTGGCATTCTTTAAACTCGCAAAGTTGTATATGAGTATCATGCCACCTCTTTGATCATTCTTT
GCATATTTTAGCATTCTCATAGGAAAATAACCTCAGCTCTTCCAACTCATCAAGTTGTAACATCC
TTTCTCACCGACTTGCTTAAGATCAAAGTTCAACTGCTTCAAAGCCCAGTGAGCTTTATTCTCCA
ATTCTAATGGCAAATGACATGCCTTTCCAAAGACTAACCGATAAGGAGTCCCTAATGGAGTCTTA
AATGCTGTTTGATAGGCCCATAATGCATCTTCGAGCCTTCGAGTCCAATCTTTTCTGCTAGGGCG
TACTATTTTTTTAAGGATACCTTTGATTTCACGGTTCACTCTTTCAACTTGCCCATTGGATTGGG
GGTGATAACCAGTAGCAATATTGTGCCTTACATCATATTTTTCAAGCAACCACTTAAGTCATTTG
TTCACAAAGTTAGACCCTTCATCATTAATAATAGCTCTTGGTGTCCCAAATCGTGTAAACACATG
TTTATGTAAAAATCGCATGACTACCTTAGCATCATTTGTAGGGTATGCTTCAGCTTCAACCCACT
TGGATACATAGTCCACAGCAACTAAGATGTATTTTTTCCCATACGAAGAAGGAAACAGGCCTAAG
AAGTCAATGCCCCATACATCGAATAATTCAATCTCCAAAATATTTTTTAAGGGCATCTCATTCGT
CCTTGATATATTTT
Found at i:30733958 original size:23 final size:23
Alignment explanation
Indices: 30733899--30734240 Score: 215
Period size: 23 Copynumber: 14.8 Consensus size: 23
30733889 CGCATATATA
* *
30733899 TATAACCAAAATTGGACAGCATT
1 TATATCCAAAATTGGACAGCATG
* *
30733922 TATACACCAAAATTTGACAGCATG
1 TATA-TCCAAAATTGGACAGCATG
*
30733946 TATATCCAAAATTGGACAGCATT
1 TATATCCAAAATTGGACAGCATG
* *
30733969 TAT-TCACCAAAATTGGGCAGCATA
1 TATAT--CCAAAATTGGACAGCATG
* *
30733993 TATATACC-AATTTGGACAGAACT-
1 TATAT-CCAAAATTGGACAGCA-TG
*
30734016 TATA-CACAAAATTTGACAGCATG
1 TATATC-CAAAATTGGACAGCATG
* *
30734039 TATATACAAAATTGGACAGCATT
1 TATATCCAAAATTGGACAGCATG
* *
30734062 TAT-TCACCAAAATTGGGCAGCATA
1 TATAT--CCAAAATTGGACAGCATG
*
30734086 TATATACC-AATTTGGACAGCACT-
1 TATAT-CCAAAATTGGACAGCA-TG
*
30734109 TATA-CACAAAATTTGACAGCATG
1 TATATC-CAAAATTGGACAGCATG
* * *
30734132 CATATACAAAATTGGACAGCATT
1 TATATCCAAAATTGGACAGCATG
* * *
30734155 TAT-TCACCAAGATTGGGCAGCATA
1 TATAT--CCAAAATTGGACAGCATG
*
30734179 TATATACC-AATTTGGACAGCACT-
1 TATAT-CCAAAATTGGACAGCA-TG
* * *
30734202 TATA--CACAATTTGACAGCACG
1 TATATCCAAAATTGGACAGCATG
*
30734223 TATATACAAAATTGGACA
1 TATATCCAAAATTGGACA
30734241 ACATTTATTC
Statistics
Matches: 253, Mismatches: 41, Indels: 50
0.74 0.12 0.15
Matches are distributed among these distances:
20 1 0.00
21 16 0.06
22 7 0.03
23 139 0.55
24 87 0.34
25 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (23 bp):
TATATCCAAAATTGGACAGCATG
Found at i:30734049 original size:93 final size:93
Alignment explanation
Indices: 30733894--30734283 Score: 658
Period size: 93 Copynumber: 4.2 Consensus size: 93
30733884 TGAGCCGCAT
* * *
30733894 ATATATATAACCAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATGTATATCCAAAATT
1 ATATATAT-ACC-AATTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAAATT
30733959 GGACAGCATTTATTCACCAAAATTGGGCAGC
63 GGACAGCATTTATTCACCAAAATTGGGCAGC
*
30733990 ATATATATACCAATTTGGACAGAACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
30734055 CAGCATTTATTCACCAAAATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
*
30734083 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGCATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
*
30734148 CAGCATTTATTCACCAAGATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
*
30734176 ATATATATACCAATTTGGACAGCACTTATACAC--AATTTGACAGCACGTATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
* *
30734239 CAACATTTATTCACCAAAATTGGGTAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
30734267 ATATATATACCAATTTG
1 ATATATATACCAATTTG
30734284 AGCAGCATTT
Statistics
Matches: 282, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
91 70 0.25
93 183 0.65
94 18 0.06
95 3 0.01
96 8 0.03
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (93 bp):
ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
CAGCATTTATTCACCAAAATTGGGCAGC
Found at i:30734276 original size:47 final size:47
Alignment explanation
Indices: 30733894--30734293 Score: 425
Period size: 47 Copynumber: 8.6 Consensus size: 47
30733884 TGAGCCGCAT
* *
30733894 ATATATATAACCAAAATTGGACAGCATTTATACACCAAAATTTGACAGC
1 ATATATAT-A-CAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
* * *
30733943 ATGTATATCCAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
* * * * * *
30733990 ATATATATACCAATTTGGACAGAACTTATACA-CAAAATTTGACAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
* *
30734036 ATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
* * * * *
30734083 ATATATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
** * *
30734129 ATGCATATACAAAATTGGACAGCATTTATTCACCAAGATTGGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
* * * * *
30734176 ATATATATACCAATTTGGACAGCACTTA-T-A-CACAATTTGACAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
** * **
30734220 ACGTATATACAAAATTGGACAACATTTATTCACCAAAATTGGGTAGC
1 ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
* *
30734267 ATATATATAC-CAATTTGAGCAGCATTT
1 ATATATATACAAAATTGGA-CAGCATTT
30734294 TAGCATAAAA
Statistics
Matches: 283, Mismatches: 62, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
44 32 0.11
45 2 0.01
46 84 0.30
47 158 0.56
49 7 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (47 bp):
ATATATATACAAAATTGGACAGCATTTATTCACCAAAATTGGACAGC
Found at i:30734290 original size:23 final size:22
Alignment explanation
Indices: 30733894--30734291 Score: 130
Period size: 23 Copynumber: 17.1 Consensus size: 22
30733884 TGAGCCGCAT
*
30733894 ATATATATAACCAAAATTGGACAGC
1 ATATATAT-ACC-AATTTGG-CAGC
* * *
30733919 ATTTATACACCAAAATTTGACAGC
1 ATATATATACC--AATTTGGCAGC
* *
30733943 ATGTATAT-CCAAAATTGGACAGC
1 ATATATATACC-AATTTGG-CAGC
* *
30733966 ATTTAT-TCACCAAAATTGGGCAGC
1 ATATATAT-ACC--AATTTGGCAGC
*
30733990 ATATATATACCAATTTGGACAGA
1 ATATATATACCAATTTGG-CAGC
* * *
30734013 ACT-TATACACAAAATTTGACAGC
1 A-TATATATAC-CAATTTGGCAGC
* * *
30734036 ATGTATATACAAAATTGGACAGC
1 ATATATATACCAATTTGG-CAGC
* *
30734059 ATTTAT-TCACCAAAATTGGGCAGC
1 ATATATAT-ACC--AATTTGGCAGC
30734083 ATATATATACCAATTTGGACAGC
1 ATATATATACCAATTTGG-CAGC
* * *
30734106 ACT-TATACACAAAATTTGACAGC
1 A-TATATATAC-CAATTTGGCAGC
** * *
30734129 ATGCATATACAAAATTGGACAGC
1 ATATATATACCAATTTGG-CAGC
* *
30734152 ATTTAT-TCACCAAGATTGGGCAGC
1 ATATATAT-ACC-A-ATTTGGCAGC
30734176 ATATATATACCAATTTGGACAGC
1 ATATATATACCAATTTGG-CAGC
* *
30734199 A-CT-TATACACAATTTGACAGC
1 ATATATATAC-CAATTTGGCAGC
** * * *
30734220 ACGTATATACAAAATTGGACAAC
1 ATATATATACCAATTTGG-CAGC
* * *
30734243 ATTTAT-TCACCAAAATTGGGTAGC
1 ATATATAT-ACC--AATTTGGCAGC
30734267 ATATATATACCAATTTGAGCAGC
1 ATATATATACCAATTTG-GCAGC
30734290 AT
1 AT
30734292 TTTAGCATAA
Statistics
Matches: 281, Mismatches: 58, Indels: 70
0.69 0.14 0.17
Matches are distributed among these distances:
21 10 0.04
22 60 0.21
23 99 0.35
24 76 0.27
25 36 0.13
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (22 bp):
ATATATATACCAATTTGGCAGC
Found at i:30735058 original size:28 final size:28
Alignment explanation
Indices: 30735018--30735142 Score: 178
Period size: 28 Copynumber: 4.5 Consensus size: 28
30735008 TTTAAAAAGT
** * *
30735018 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
30735046 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
30735074 TCGCAAACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
30735102 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
30735130 TTGCACACTTAGT
1 TCGCACACTTAGT
30735143 ATCGAAAGTC
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:30748895 original size:27 final size:26
Alignment explanation
Indices: 30748864--30749041 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
30748854 TAAATTGTAC
30748864 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
30748891 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30748917 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30748945 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
30748973 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
30749000 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30749027 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30749042 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:30748980 original size:82 final size:81
Alignment explanation
Indices: 30748865--30749020 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30748855 AAATTGTACA
* * *
30748865 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30748929 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30748946 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30749011 TGCGAGTTGA
65 TGCGAATTGA
30749021 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30749032 original size:82 final size:81
Alignment explanation
Indices: 30748861--30749041 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30748851 GATTAAATTG
* * *
30748861 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30748926 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30748942 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30749006 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30749024 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30749042 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30749052 original size:27 final size:27
Alignment explanation
Indices: 30748946--30749052 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
30748936 TGACCATGCG
* * *
30748946 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
30748974 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
30749001 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
30749028 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
30749053 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:30757000 original size:27 final size:27
Alignment explanation
Indices: 30756965--30757143 Score: 175
Period size: 27 Copynumber: 6.6 Consensus size: 27
30756955 TTAAATTGTA
30756965 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
30756992 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
30757019 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
30757046 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * * *
30757074 TAGCACTAGGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
30757101 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
30757128 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
30757144 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 105 0.82
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:30757081 original size:82 final size:81
Alignment explanation
Indices: 30756967--30757122 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
30756957 AAATTGTATA
* *
30756967 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30757031 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
30757048 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAGGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30757113 TGCGAGTTGA
65 TGCGAATTGA
30757123 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30757134 original size:82 final size:81
Alignment explanation
Indices: 30756963--30757143 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
30756953 GATTAAATTG
* *
30756963 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30757028 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * * ** *
30757044 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAGGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30757108 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
30757126 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
30757144 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30757154 original size:27 final size:27
Alignment explanation
Indices: 30757101--30757154 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30757091 TTTGATTACG
* * *
30757101 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
30757128 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
30757155 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:30759580 original size:12 final size:13
Alignment explanation
Indices: 30759558--30759586 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30759548 TGAGTATAGT
30759558 AAAATATTTTAAA
1 AAAATATTTTAAA
30759571 AAAATA-TTTAAA
1 AAAATATTTTAAA
30759583 AAAA
1 AAAA
30759587 AGAGATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATATTTTAAA
Found at i:30759587 original size:13 final size:13
Alignment explanation
Indices: 30759558--30759587 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30759548 TGAGTATAGT
*
30759558 AAAATATTTTAAA
1 AAAATATTTAAAA
30759571 AAAATATTTAAAA
1 AAAATATTTAAAA
30759584 AAAA
1 AAAA
30759588 GAGATATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATATTTAAAA
Found at i:30760360 original size:30 final size:30
Alignment explanation
Indices: 30760306--30760365 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30760296 GCGTTTTAGT
*
30760306 AAAACCGGACCATTCCCATTATTTTTTTTA
1 AAAACCGGACCATTCCCATAATTTTTTTTA
* * *
30760336 AAAAGCGGCCCATTTCCATAATTTTTTTTA
1 AAAACCGGACCATTCCCATAATTTTTTTTA
30760366 GAAATGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (30 bp):
AAAACCGGACCATTCCCATAATTTTTTTTA
Found at i:30762629 original size:24 final size:24
Alignment explanation
Indices: 30762588--30762672 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
30762578 GAAGATGGAA
* * *
30762588 ATGAAGACGAAAATGAGGGTAGAG
1 ATGAAGATGAAGACGAGGGTAGAG
*
30762612 ATGAAGATGAAGACGAGGG-ACTAG
1 ATGAAGATGAAGACGAGGGTA-GAG
* * *
30762636 ATGAAGATGAATAC-AGGGATCGGG
1 ATGAAGATGAAGACGAGGG-TAGAG
*
30762660 GTGAAGATGAAGA
1 ATGAAGATGAAGA
30762673 AGATGAAGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 5 0.10
24 43 0.90
ACGTcount: A:0.42, C:0.06, G:0.38, T:0.14
Consensus pattern (24 bp):
ATGAAGATGAAGACGAGGGTAGAG
Found at i:30768112 original size:10 final size:10
Alignment explanation
Indices: 30768097--30768121 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30768087 GGAAATTCCA
30768097 TTAGGTTATT
1 TTAGGTTATT
30768107 TTAGGTTATT
1 TTAGGTTATT
30768117 TTAGG
1 TTAGG
30768122 GTATAGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (10 bp):
TTAGGTTATT
Found at i:30772103 original size:23 final size:24
Alignment explanation
Indices: 30772064--30772111 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
30772054 TTTATTTGAT
30772064 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAA-AAATTAA
*
30772089 AATAT-TTTTGA-ATAAAAGTTAA
1 AATATGTTTTGATATAAAAATTAA
30772111 A
1 A
30772112 GTTGAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 6 0.27
25 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AATATGTTTTGATATAAAAATTAA
Found at i:30776850 original size:136 final size:137
Alignment explanation
Indices: 30776539--30777095 Score: 773
Period size: 138 Copynumber: 4.1 Consensus size: 137
30776529 TAGAAAAAAG
* *
30776539 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGGCCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* *
30776604 TATAATTGCTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAA-T
66 TATAACTGATTATATTAATAAATTCGGT-AAATATATACAATTAATATTTTGTATGAATCAAATT
30776668 CTATATATT
130 C-ATATATT
* * * * * *
30776677 AATTATATTCTTCCCAAAAGAAAATTAATTTCTATGTCTTTAATATTTTCACTGAAATTAATCAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* *
30776742 TATAACTGATTATATTAATAAATTCGGT-AATATATATAATTAATATTTTTTATGAATCAAATTC
66 TATAACTGATTATATTAATAAATTCGGTAAATATATACAATTAATATTTTGTATGAATCAAATTC
30776806 ATATATT
131 ATATATT
* * *
30776813 AATTATATTTTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTATTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
** * * * *
30776878 TATGTCT-ATTTATATTATTAAATTAGGTAAAATATATATAATTAATATTTT-TATGAATCACAT
66 TATAACTGA-TTATATTAATAAATTCGGT-AAATATATACAATTAATATTTTGTATGAATCAAAT
*
30776941 TCAGATATT
129 TCATATATT
* *
30776950 AATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGA-TCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACT-GAAATTAATTA
* * * *
30777014 ATATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTATTATTTTGTATGAATCAAAT
65 ATATAACTGATTATATTAATAAATTCGGT-AAATATATACAATTAATATTTTGTATGAATCAAAT
30777079 TCATATATT
129 TCATATATT
30777088 AATTATAT
1 AATTATAT
30777096 CTATGTTCTC
Statistics
Matches: 370, Mismatches: 42, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
135 1 0.00
136 117 0.32
137 121 0.33
138 131 0.35
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAACTGATTATATTAATAAATTCGGTAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:30778453 original size:14 final size:15
Alignment explanation
Indices: 30778424--30778455 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30778414 AGGTTTGGGT
30778424 AGAAATATTGAAGGG
1 AGAAATATTGAAGGG
30778439 AGAAATATT-AAGGG
1 AGAAATATTGAAGGG
30778453 AGA
1 AGA
30778456 TTGTAAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (15 bp):
AGAAATATTGAAGGG
Found at i:30780362 original size:12 final size:12
Alignment explanation
Indices: 30780345--30780372 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30780335 TTAACATGTT
30780345 ACCTCATTAAAA
1 ACCTCATTAAAA
30780357 ACCTCATTAAAA
1 ACCTCATTAAAA
30780369 ACCT
1 ACCT
30780373 TACTAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (12 bp):
ACCTCATTAAAA
Found at i:30785667 original size:32 final size:32
Alignment explanation
Indices: 30785495--30785666 Score: 204
Period size: 32 Copynumber: 5.4 Consensus size: 32
30785485 GAATGGCTAC
* * *
30785495 AAGCCATAAGT-ATAGTAATATGATTGGCACA
1 AAGCCATCAGTAATGGTAATATGATCGGCACA
* * * *
30785526 AAGCCATCAGTAGTAGTGATATGATCGACACA
1 AAGCCATCAGTAATGGTAATATGATCGGCACA
* *
30785558 CAA-CCATCAGTAATGGTAATATGATTGACACA
1 -AAGCCATCAGTAATGGTAATATGATCGGCACA
*
30785590 AAGCCATCAGTAATGATAATATGATCGGCACA
1 AAGCCATCAGTAATGGTAATATGATCGGCACA
* *
30785622 AAGCCATCAGTAACGGTAATATTATCGGCACA
1 AAGCCATCAGTAATGGTAATATGATCGGCACA
*
30785654 AAGCCATTAGTAA
1 AAGCCATCAGTAA
30785667 CATCCCAGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
31 12 0.10
32 108 0.89
33 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATGGTAATATGATCGGCACA
Found at i:30785706 original size:26 final size:26
Alignment explanation
Indices: 30785676--30785747 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
30785666 ACATCCCAGT
*
30785676 AAAGCTACCAGCAATAGTATCACAGC
1 AAAGCTGCCAGCAATAGTATCACAGC
* *
30785702 AAAGCTGCCAGCAACAGTATCGCAGC
1 AAAGCTGCCAGCAATAGTATCACAGC
*
30785728 AAAGCTGCCAGTAATAGTAT
1 AAAGCTGCCAGCAATAGTAT
30785748 ATGTGGCCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (26 bp):
AAAGCTGCCAGCAATAGTATCACAGC
Found at i:30785765 original size:27 final size:27
Alignment explanation
Indices: 30785735--30785794 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 27
30785725 AGCAAAGCTG
30785735 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAATAGTGAT-TGTGG-CAGAGCCA
30785762 CCAGTAATAGTGATTGTGGCAGAGCCA
1 CCAGTAATAGTGATTGTGGCAGAGCCA
30785789 CCAGTA
1 CCAGTA
30785795 CAAAACTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.06
27 27 0.87
28 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
CCAGTAATAGTGATTGTGGCAGAGCCA
Found at i:30786012 original size:53 final size:54
Alignment explanation
Indices: 30785942--30786085 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 54
30785932 GGGAAAAATA
*
30785942 GTCA-TTTACCCTCCAGGGGCATTAC-GATCATTTTACCCTACA-AGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACAG-TCATTTTACCCTACAGAGGCATTACG
* * * *
30785994 GTCATTTTACCCTACAGGGGAATTACAGTCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTACAGAGGCATTACG
* * * * *
30786048 GTCATTTTGCCTTACAAGGGCATTACAGTTATTATACC
1 GTCATTTTACCCTACAGGGGCATTACAGTCATTTTACC
30786086 TATTTTAGGG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 4 0.05
53 33 0.42
54 41 0.53
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTACAGAGGCATTACG
Found at i:30786026 original size:27 final size:27
Alignment explanation
Indices: 30785941--30786085 Score: 152
Period size: 27 Copynumber: 5.4 Consensus size: 27
30785931 GGGGAAAAAT
*
30785941 AGTCA-TTTACCCTCCAGGGGCATTAC
1 AGTCATTTTACCCTACAGGGGCATTAC
*
30785967 -GATCATTTTACCCTACA-AGGCATTAC
1 AG-TCATTTTACCCTACAGGGGCATTAC
* *
30785993 GGTCATTTTACCCTACAGGGGAATTAC
1 AGTCATTTTACCCTACAGGGGCATTAC
* *
30786020 AGTCATTTTACCCTATAGGGGCATTAT
1 AGTCATTTTACCCTACAGGGGCATTAC
* * * *
30786047 GGTCATTTTGCCTTACAAGGGCATTAC
1 AGTCATTTTACCCTACAGGGGCATTAC
* *
30786074 AGTTATTATACC
1 AGTCATTTTACC
30786086 TATTTTAGGG
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 26 0.27
27 70 0.72
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (27 bp):
AGTCATTTTACCCTACAGGGGCATTAC
Found at i:30792263 original size:39 final size:40
Alignment explanation
Indices: 30792009--30792271 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
30791999 TTGAATGCTG
* * * * * *
30792009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30792049 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30792089 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30792129 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
30792169 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
30792209 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30792248 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30792272 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.17
40 157 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30800218 original size:39 final size:40
Alignment explanation
Indices: 30799964--30800226 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
30799954 TTGAATGCTG
* * * * * *
30799964 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30800004 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30800044 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30800084 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
30800124 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
30800164 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30800203 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30800227 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.17
40 157 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30802479 original size:3 final size:3
Alignment explanation
Indices: 30802471--30802539 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
30802461 TATTTTTTAG
* * * *
30802471 ATT ATT ATT ATT ATC ATT ATT ATT ACT ATT ATT ACT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
30802519 ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
30802540 TTGTTTTATT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:30803760 original size:23 final size:23
Alignment explanation
Indices: 30803734--30803782 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
30803724 TCTTCTGCCT
*
30803734 TTTCTATCTTTCTTTTT-CTTTCA
1 TTTCTATC-TTCTTTTTACTTTAA
*
30803757 TTTCTTTCTTCTTTTTACTTTAA
1 TTTCTATCTTCTTTTTACTTTAA
30803780 TTT
1 TTT
30803783 GCATGCCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTCTATCTTCTTTTTACTTTAA
Found at i:30822555 original size:21 final size:18
Alignment explanation
Indices: 30822517--30822562 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 18
30822507 TTTATGCAGT
30822517 AATAGTATTTTAATTTTATA
1 AATA-TATTTTAATTTTA-A
30822537 ACATATATTTTATATTTTAA
1 A-ATATATTTTA-ATTTTAA
30822557 AATATA
1 AATATA
30822563 ATTATCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
AATATATTTTAATTTTAA
Found at i:30826795 original size:24 final size:24
Alignment explanation
Indices: 30826762--30826815 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
30826752 CATCAGAAGA
30826762 GGCACACAAAATGAGAGATATCGTG
1 GGCA-ACAAAATGAGAGATATCGTG
* *
30826787 GGCAACAAAATGTGAGATATTGTG
1 GGCAACAAAATGAGAGATATCGTG
*
30826811 AGCAA
1 GGCAA
30826816 TAAATAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.19
Consensus pattern (24 bp):
GGCAACAAAATGAGAGATATCGTG
Found at i:30829540 original size:31 final size:29
Alignment explanation
Indices: 30829502--30829578 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
30829492 TTAATGGCTC
* * *
30829502 AGTGACTAAAATGTTACAATATGATAACGTA
1 AGTGACTAAAATGTAAC-ATATCA-AACATA
* *
30829533 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATATCAAACATA
*
30829562 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
30829579 TTAAGATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 20 0.51
30 4 0.10
31 15 0.38
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATATCAAACATA
Found at i:30836874 original size:24 final size:25
Alignment explanation
Indices: 30836821--30836888 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
30836811 TAACACATTA
30836821 AATAAATA-AAAA-ATATAAAATTTC
1 AATAAATATAAAATATATAAAA-TTC
30836845 AATAAATATAAAATATATAAAA-T-
1 AATAAATATAAAATATATAAAATTC
*
30836868 AATTAAATATTAAATAT-TAAA
1 AA-TAAATATAAAATATATAAA
30836889 TTAAAATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 6 0.15
24 22 0.55
25 4 0.10
26 8 0.20
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAAATATAAAATATATAAAATTC
Done.