Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 147 of 335
Found at i:43253876 original size:43 final size:43
Alignment explanation
Indices: 43253797--43254042 Score: 386
Period size: 43 Copynumber: 5.7 Consensus size: 43
43253787 ACAAAAATTT
* *
43253797 GCGGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTA
1 GCGGCGTTT-GTGGG-AAAAGCGCCGCTAAAGGTCAAGGCTTTTA
* *
43253842 GCGGCGTTTGTGGGGAAAGCGCCGCTAGAGGTCAAGGCTTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
*
43253885 GCGGCGTTTGTGGGAAAAGCGCCGCTAGAGGTCAAGGCTTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
43253928 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
43253971 GCGGCGTTTG-GGTGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
1 GCGGCGTTTGTGG-GAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
** *
43254014 GCAACGTTTGGGGGAAAAGCGCCGCTAAA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAA
43254043 AGCCTTGACC
Statistics
Matches: 191, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
42 2 0.01
43 174 0.91
44 6 0.03
45 9 0.05
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (43 bp):
GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
Found at i:43261528 original size:2 final size:2
Alignment explanation
Indices: 43261521--43261561 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
43261511 TCGATCGGAG
43261521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43261562 GTGTACGCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43261686 original size:29 final size:29
Alignment explanation
Indices: 43261654--43261726 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
43261644 CTTCGAGCTC
*
43261654 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
43261683 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
43261712 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
43261727 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:43265665 original size:9 final size:9
Alignment explanation
Indices: 43265651--43265840 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
43265641 TATTTAAGTA
43265651 TTATGTAAG
1 TTATGTAAG
43265660 TTATGTAAG
1 TTATGTAAG
*
43265669 TTATGATATG
1 TTATG-TAAG
* * *
43265679 ATATAT-AT
1 TTATGTAAG
*
43265687 TTATGTAAA
1 TTATGTAAG
* *
43265696 TTATAT-AT
1 TTATGTAAG
*
43265704 TTATCTAAG
1 TTATGTAAG
*
43265713 TTATATAAG
1 TTATGTAAG
43265722 TTATGTAAG
1 TTATGTAAG
*
43265731 TTATGTAAA
1 TTATGTAAG
*
43265740 TTATGATATAAAA
1 TTATG---T-AAG
*
43265753 TATATTTAAG
1 T-TATGTAAG
43265763 TATTATGTAAG
1 --TTATGTAAG
43265774 TTATGTAAG
1 TTATGTAAG
* *
43265783 TTATAT-AT
1 TTATGTAAG
*
43265791 TTATCTAAG
1 TTATGTAAG
*
43265800 TTATATAAG
1 TTATGTAAG
*
43265809 TTATGTACG
1 TTATGTAAG
*
43265818 TTTTGTAAG
1 TTATGTAAG
* *
43265827 TTATATAAA
1 TTATGTAAG
43265836 TTATG
1 TTATG
43265841 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:43265733 original size:71 final size:69
Alignment explanation
Indices: 43265651--43265813 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
43265641 TATTTAAGTA
* * * *
43265651 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
43265715 ATATAAG
64 ATAT-AG
* * *
43265722 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
43265787 ATAT
66 ATAG
* *
43265791 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
43265814 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:43265789 original size:87 final size:90
Alignment explanation
Indices: 43265687--43265871 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 90
43265677 TGATATATAT
*
43265687 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
43265749 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
43265774 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
43265839 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
43265870 TT
1 TT
43265872 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 2 0.02
96 48 0.56
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:43265827 original size:114 final size:114
Alignment explanation
Indices: 43265627--43265840 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
43265617 ACTAGTTATG
* * * *
43265627 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
43265692 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
43265741 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
43265804 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
43265841 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 62 0.71
115 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:43265879 original size:87 final size:87
Alignment explanation
Indices: 43265687--43265871 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
43265677 TGATATATAT
*
43265687 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
43265752 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
43265774 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
43265837 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
43265861 TTATGTAAGTT
1 TTATGTAAGTT
43265872 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:43265965 original size:15 final size:15
Alignment explanation
Indices: 43265945--43265974 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43265935 AAGTAGTGGG
43265945 ATTAAATAATATTTA
1 ATTAAATAATATTTA
43265960 ATTAAATAATATTTA
1 ATTAAATAATATTTA
43265975 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:43266887 original size:273 final size:275
Alignment explanation
Indices: 43266128--43266945 Score: 1570
Period size: 273 Copynumber: 3.0 Consensus size: 275
43266118 TCGTAATAAA
43266128 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
*
43266193 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATG
66 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
43266258 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
131 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
43266323 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
196 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
43266388 AAATATTTAAATATT
261 AAATATTTAAATATT
43266403 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
* *
43266468 AGTTTAA-TTTTATAAGTAAATTGGAAATAGATATTCAATAGTAAATGAGCTCGATAGAACTTTT
66 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
43266532 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
131 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
43266597 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
196 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
43266662 AAATATTTAAATATT
261 AAATATTTAAATATT
*
43266677 AAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATAT-AAAAAAGAATCAT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
43266740 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
66 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
*
43266805 TTCAAGTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
131 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
43266870 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
196 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
43266935 AAATATTTAAA
261 AAATATTTAAA
43266946 ATAAGGTTGG
Statistics
Matches: 535, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
272 19 0.04
273 224 0.42
274 220 0.41
275 72 0.13
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (275 bp):
AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
AAATATTTAAATATT
Found at i:43267729 original size:183 final size:183
Alignment explanation
Indices: 43267421--43267972 Score: 1032
Period size: 183 Copynumber: 3.0 Consensus size: 183
43267411 CCTAGAACAG
43267421 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
43267486 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
43267551 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
*
43267604 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
43267669 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTTAGTTGAACCAATAGTTGCAGGAAG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
43267734 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
*
43267787 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
43267852 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* * * *
43267917 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
43267970 ATG
1 ATG
43267973 GAACTATATC
Statistics
Matches: 358, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 358 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:43270914 original size:15 final size:15
Alignment explanation
Indices: 43270894--43270941 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
43270884 GGTAAAAATT
43270894 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
43270909 TT--GGG-G-A-AAT
1 TTGGGGGAGAAGAAG
43270919 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
43270934 TTGGGGGA
1 TTGGGGGA
43270942 AATCGGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
10 4 0.15
11 1 0.04
12 4 0.15
13 4 0.15
14 1 0.04
15 12 0.46
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:43270918 original size:26 final size:27
Alignment explanation
Indices: 43270889--43270944 Score: 98
Period size: 25 Copynumber: 2.1 Consensus size: 27
43270879 ACTAGGGTAA
43270889 AAATTTTGGGGGAGAAGAAGTT-GGGG
1 AAATTTTGGGGGAGAAGAAGTTGGGGG
43270915 AAA-TTTGGGGGAGAAGAAGTTGGGGG
1 AAATTTTGGGGGAGAAGAAGTTGGGGG
43270941 AAAT
1 AAAT
43270945 CGGGGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.45, T:0.21
Consensus pattern (27 bp):
AAATTTTGGGGGAGAAGAAGTTGGGGG
Found at i:43271254 original size:28 final size:28
Alignment explanation
Indices: 43271222--43271279 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
43271212 AATCAAAACT
*
43271222 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
43271250 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
43271278 CT
1 CT
43271280 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:43271280 original size:21 final size:21
Alignment explanation
Indices: 43271256--43271299 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43271246 ATCCCTATAA
* *
43271256 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
43271277 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
43271298 CC
1 CC
43271300 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:43271537 original size:7 final size:7
Alignment explanation
Indices: 43271521--43271554 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
43271511 CCCTAAGTAT
*
43271521 TAACCTC
1 TAACCCC
43271528 TAACCCC
1 TAACCCC
43271535 TAACCCC
1 TAACCCC
43271542 TAACCCC
1 TAACCCC
43271549 TAACCC
1 TAACCC
43271555 TTAAATCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:43271574 original size:21 final size:22
Alignment explanation
Indices: 43271543--43271586 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
43271533 CCTAACCCCT
*
43271543 AACCCCTAACCCTTAAATCATA
1 AACCCCTAACCCTTAAACCATA
43271565 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
43271586 A
1 A
43271587 TACATAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:43271729 original size:41 final size:41
Alignment explanation
Indices: 43271679--43271878 Score: 298
Period size: 41 Copynumber: 4.9 Consensus size: 41
43271669 CGCTTTTGGT
43271679 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAA
1 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAA
* * *
43271720 AAAGTGCCGCTATTGCT-TCGATTTTTAGCGGCGTTTTACAA
1 AAAGCGCCGCTAATGCTCT-TATTTTTAGCGGCGTTTTACAA
*
43271761 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACCA
1 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAA
*
43271802 AAAGCGCCGCTAATGCT-TTGATTTTTAGCGGCGTTTTACCA
1 AAAGCGCCGCTAATGCTCTT-ATTTTTAGCGGCGTTTTACAA
* *
43271843 AAAGCGCCGCTATTGCTC-TGTTTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTT
43271879 TGGTAAAACG
Statistics
Matches: 146, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
40 19 0.13
41 126 0.86
42 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (41 bp):
AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAA
Found at i:43271795 original size:82 final size:82
Alignment explanation
Indices: 43271679--43271878 Score: 330
Period size: 82 Copynumber: 2.5 Consensus size: 82
43271669 CGCTTTTGGT
* *
43271679 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGTGCCGCTATTGCTTCGATTT
1 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTTCGATTT
43271744 TTAGCGGCGTTTTACAA
66 TTAGCGGCGTTTTACAA
* *
43271761 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTGATTT
1 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTTCGATTT
*
43271826 TTAGCGGCGTTTTACCA
66 TTAGCGGCGTTTTACAA
* *
43271843 AAAGCGCCGCTATTGCTC-TGTTTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTT
43271879 TGGTAAAACG
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
81 17 0.15
82 94 0.85
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (82 bp):
AAAGCGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTTCGATTT
TTAGCGGCGTTTTACAA
Found at i:43273389 original size:22 final size:22
Alignment explanation
Indices: 43273364--43273411 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
43273354 GATATCACGG
* *
43273364 CATCCACTGATCGATGTCGTGA
1 CATCCACTGACCCATGTCGTGA
*
43273386 CATCCACTGGCCCATGTCGTGA
1 CATCCACTGACCCATGTCGTGA
43273408 CATC
1 CATC
43273412 ATCCTTAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (22 bp):
CATCCACTGACCCATGTCGTGA
Found at i:43276316 original size:26 final size:26
Alignment explanation
Indices: 43276281--43276421 Score: 228
Period size: 26 Copynumber: 5.4 Consensus size: 26
43276271 TCAACCCACT
*
43276281 AACCACTATCATGGAACATTTACCTA
1 AACCATTATCATGGAACATTTACCTA
*
43276307 AACCATTATCATGGAATATTTACCTA
1 AACCATTATCATGGAACATTTACCTA
43276333 AACCATTATCATGGAACATTTACCTA
1 AACCATTATCATGGAACATTTACCTA
* *
43276359 ACCCATTATCATGGAATATTTACCTA
1 AACCATTATCATGGAACATTTACCTA
*
43276385 ATCCATTATCATGGAACATTTACCTA
1 AACCATTATCATGGAACATTTACCTA
*
43276411 ACCCATTATCA
1 AACCATTATCA
43276422 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
AACCATTATCATGGAACATTTACCTA
Found at i:43276343 original size:52 final size:52
Alignment explanation
Indices: 43276281--43276421 Score: 255
Period size: 52 Copynumber: 2.7 Consensus size: 52
43276271 TCAACCCACT
* *
43276281 AACCACTATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTA
1 AACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTA
43276333 AACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTA
1 AACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTA
*
43276385 ATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 AACCATTATCATGGAACATTTACCTAACCCATTATCA
43276422 ATTTGTATCA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (52 bp):
AACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTA
Found at i:43280056 original size:19 final size:19
Alignment explanation
Indices: 43280032--43280073 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
43280022 GCAAACTCTA
43280032 CCAATGGCAAATATTTCTC
1 CCAATGGCAAATATTTCTC
43280051 CCAATGGCAAATATTTCTC
1 CCAATGGCAAATATTTCTC
43280070 CCAA
1 CCAA
43280074 CTACCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (19 bp):
CCAATGGCAAATATTTCTC
Found at i:43285521 original size:53 final size:53
Alignment explanation
Indices: 43285436--43285642 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
43285426 TTCCTTTTTA
* * * *
43285436 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCATGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
43285489 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * * * *
43285543 TAGTTTATCAATGCAATGTCTTGACATGGTCTTACATGATTTTCTTTCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
43285598 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43285643 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 33, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 44 0.37
54 38 0.32
55 36 0.31
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:43287067 original size:86 final size:86
Alignment explanation
Indices: 43286922--43287089 Score: 327
Period size: 86 Copynumber: 2.0 Consensus size: 86
43286912 AAAGTTTTAC
*
43286922 ACAACTTTGAGTTATTGTTATTTTTCCTGAAAATAGCGAGAATTTATTTTCTAATTATAAATTAT
1 ACAACTTTGAGTTATTGTTATTTTTCCCGAAAATAGCGAGAATTTATTTTCTAATTATAAATTAT
43286987 ATTTTCCAGGATAACAAATCT
66 ATTTTCCAGGATAACAAATCT
43287008 ACAACTTTGAGTTATTGTTATTTTTCCCGAAAATAGCGAGAATTTATTTTCTAATTATAAATTAT
1 ACAACTTTGAGTTATTGTTATTTTTCCCGAAAATAGCGAGAATTTATTTTCTAATTATAAATTAT
43287073 ATTTTCCAGGATAACAA
66 ATTTTCCAGGATAACAA
43287090 TTTTACCAGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (86 bp):
ACAACTTTGAGTTATTGTTATTTTTCCCGAAAATAGCGAGAATTTATTTTCTAATTATAAATTAT
ATTTTCCAGGATAACAAATCT
Found at i:43288644 original size:60 final size:60
Alignment explanation
Indices: 43288574--43288688 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
43288564 TTTATACCTA
* * * *
43288574 CAATGTTTACACATTTTATCAATTTGATGCTAAATCT-AAAAATTCAACAAATTTAGTCTT
1 CAATGTTTACAAAATTAATC-ATTTAATGCTAAATCTAAAAAATTCAACAAATTTAGTCTT
** * *
43288634 CAATGTTTACAAAATTAATCATTTAATTTTAATTCTAAAAAATTCAATAAATTTA
1 CAATGTTTACAAAATTAATCATTTAATGCTAAATCTAAAAAATTCAACAAATTTA
43288689 ACCCTAAACG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 12 0.26
60 34 0.74
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (60 bp):
CAATGTTTACAAAATTAATCATTTAATGCTAAATCTAAAAAATTCAACAAATTTAGTCTT
Found at i:43295843 original size:11 final size:12
Alignment explanation
Indices: 43295822--43295851 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
43295812 AACGGAGCAT
43295822 CATATATTATTC
1 CATATATTATTC
43295834 CATA-ATTATTC
1 CATATATTATTC
43295845 CATATAT
1 CATATAT
43295852 ATATATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (12 bp):
CATATATTATTC
Found at i:43296216 original size:11 final size:11
Alignment explanation
Indices: 43296202--43296236 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
43296192 TGTATTTATT
*
43296202 ATATATTATAA
1 ATATATTAAAA
43296213 ATATATTAAAA
1 ATATATTAAAA
43296224 ATA-ATTAAAA
1 ATATATTAAAA
43296234 ATA
1 ATA
43296237 ATATATGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:43300089 original size:28 final size:28
Alignment explanation
Indices: 43300049--43300106 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
43300039 AAAGACAAGC
43300049 TAAAGTGGGGTGAGAGAATGGATTAACA
1 TAAAGTGGGGTGAGAGAATGGATTAACA
43300077 TAAAGTGGGGTGAGAGAATGGATTAACA
1 TAAAGTGGGGTGAGAGAATGGATTAACA
43300105 TA
1 TA
43300107 CACTTGCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.34, T:0.22
Consensus pattern (28 bp):
TAAAGTGGGGTGAGAGAATGGATTAACA
Found at i:43300155 original size:13 final size:13
Alignment explanation
Indices: 43300139--43300163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43300129 AAATGATGGA
43300139 GTTAAAATTAAAT
1 GTTAAAATTAAAT
43300152 GTTAAAATTAAA
1 GTTAAAATTAAA
43300164 ATATACAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
GTTAAAATTAAAT
Found at i:43300403 original size:19 final size:19
Alignment explanation
Indices: 43300375--43300415 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
43300365 AGGGCTATTA
43300375 TTTTTTTAGGG-TTAGGGT
1 TTTTTTTAGGGTTTAGGGT
43300393 TTTTGTTTAGGGTTTAGGGT
1 TTTT-TTTAGGGTTTAGGGT
43300413 TTT
1 TTT
43300416 AAGAAATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.10, C:0.00, G:0.32, T:0.59
Consensus pattern (19 bp):
TTTTTTTAGGGTTTAGGGT
Found at i:43303610 original size:38 final size:38
Alignment explanation
Indices: 43303567--43303644 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
43303557 AAAAATTGGA
*
43303567 GTAAGGATGAGAGTTTTAATTTATTTAGTTATACAAGG
1 GTAAGGATAAGAGTTTTAATTTATTTAGTTATACAAGG
43303605 GTAAGGATAAGAGTTTTAATTTATTTAGTTATACAAGG
1 GTAAGGATAAGAGTTTTAATTTATTTAGTTATACAAGG
43303643 GT
1 GT
43303645 GATGCAGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (38 bp):
GTAAGGATAAGAGTTTTAATTTATTTAGTTATACAAGG
Found at i:43304625 original size:10 final size:10
Alignment explanation
Indices: 43304598--43304636 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
43304588 TTAAATTCTA
43304598 AAAGATAAAT
1 AAAGATAAAT
43304608 ACAA-ATAAAT
1 A-AAGATAAAT
*
43304618 AAAGATAATT
1 AAAGATAAAT
43304628 AAAGATAAA
1 AAAGATAAA
43304637 AAAACTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:43305422 original size:99 final size:98
Alignment explanation
Indices: 43305301--43305501 Score: 285
Period size: 99 Copynumber: 2.0 Consensus size: 98
43305291 TTTAAAATTT
* * *
43305301 TTAAATTATTTATTTTGCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATAACAACCAAG
1 TTAAATTATTTATTTTGCTTAAGAATATATCGAACCTCTTGACACGAAGAGAGATAACAACCAAG
*
43305366 CACCCCACCCCGGTTACTCAGCCCAACATACTC
66 CACCCCACCCCGGTTACTCAGCCCAACACACTC
* * * * *
43305399 TTAATTTATTATATTTTTCTTAAGAATATATCGAACCTCTTGACACGAAGAGAGATGATAGCCAA
1 TTAAATTATT-TATTTTGCTTAAGAATATATCGAACCTCTTGACACGAAGAGAGATAACAACCAA
** *
43305464 GCACCTTACCCCGGTTACTCAGCCCAACACATTC
65 GCACCCCACCCCGGTTACTCAGCCCAACACACTC
43305498 TTAA
1 TTAA
43305502 GTATTTTAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
98 9 0.10
99 81 0.90
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (98 bp):
TTAAATTATTTATTTTGCTTAAGAATATATCGAACCTCTTGACACGAAGAGAGATAACAACCAAG
CACCCCACCCCGGTTACTCAGCCCAACACACTC
Found at i:43306354 original size:25 final size:26
Alignment explanation
Indices: 43306324--43306373 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
43306314 GGAAGAGTTT
43306324 CCTTAAGCTGG-TTTTTCATATTTTC
1 CCTTAAGCTGGTTTTTTCATATTTTC
43306349 CCTTAAGCTGGTTTTTTCATATTTT
1 CCTTAAGCTGGTTTTTTCATATTTT
43306374 TACTTCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.54
Consensus pattern (26 bp):
CCTTAAGCTGGTTTTTTCATATTTTC
Found at i:43310015 original size:50 final size:50
Alignment explanation
Indices: 43309934--43310062 Score: 170
Period size: 50 Copynumber: 2.5 Consensus size: 50
43309924 GACCATGACA
* * *
43309934 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGCGATAAGTG-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
43309985 A-AAGCGATAAGTAGTAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGCGATAAGT-GTAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
43310035 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGCGATAAGT-GTAGCTTCGGCTAC
43310063 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (50 bp):
ACAAGCGATAAGTGTAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:43310076 original size:31 final size:31
Alignment explanation
Indices: 43310038--43310186 Score: 199
Period size: 31 Copynumber: 4.8 Consensus size: 31
43310028 ACAAATGACA
* *
43310038 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
** * *
43310069 AGTGAAAAATGGTAGCTTTTGTTACCTGATT
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
* *
43310100 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
*
43310131 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
* *
43310162 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAATGGTAGCTTCGGCTAC
43310187 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAATGGTAGCTTCGGCTACCTGATC
Found at i:43310362 original size:49 final size:48
Alignment explanation
Indices: 43310204--43310391 Score: 204
Period size: 47 Copynumber: 3.9 Consensus size: 48
43310194 AAGTGACTTC
* * * *
43310204 CGTATAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTA
* * *
43310250 CTGTATAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-
1 C-GTATAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTA
* *
43310297 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTA
* * *
43310346 CGTATAAGACCATAGCTGGGCTATGACATCGATATATGAATATGTG
1 CGTATAAGACCATAGCTGGGATATGGCATCGA-ATGTG-ATATGTG
43310392 TAAGACCATA
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
46 27 0.22
47 41 0.33
48 14 0.11
49 35 0.28
50 7 0.06
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (48 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTA
Found at i:43312206 original size:24 final size:23
Alignment explanation
Indices: 43312172--43312217 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
43312162 TTAATATCCA
* *
43312172 AATAAAATAAAGTAATAATAAAT
1 AATAAAATAAAATAAAAATAAAT
43312195 AATAAAATTAAAATAAAAATAAA
1 AATAAAA-TAAAATAAAAATAAA
43312218 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
AATAAAATAAAATAAAAATAAAT
Found at i:43312238 original size:6 final size:6
Alignment explanation
Indices: 43312171--43312239 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
43312161 ATTAATATCC
* * *
43312171 AAAT-A AAAT-A AAGTAA TAATAA ATAAT-A AAATTA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA
* *
43312217 AAAGAA AAAAACA AAATAA AAAT
1 AAATAA AAATA-A AAATAA AAAT
43312240 TGGGTTACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
5 11 0.21
6 33 0.63
7 8 0.15
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:43318592 original size:2 final size:2
Alignment explanation
Indices: 43318585--43318625 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
43318575 ATAAATTTTG
43318585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43318626 CTAGAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43323276 original size:3 final size:3
Alignment explanation
Indices: 43323268--43323338 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
43323258 ATAAATTTAG
43323268 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43323316 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
43323339 TTGGCTTCTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43326166 original size:22 final size:22
Alignment explanation
Indices: 43326111--43326166 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
43326101 GCAAAATAGT
*
43326111 ACCAAAACAACACCCAAACAGC
1 ACCAAAACAGCACCCAAACAGC
*
43326133 ACCAAAACAGCACCCAAACTGC
1 ACCAAAACAGCACCCAAACAGC
* *
43326155 AGCAAAATAGCA
1 ACCAAAACAGCA
43326167 GTGAGCTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.52, C:0.36, G:0.09, T:0.04
Consensus pattern (22 bp):
ACCAAAACAGCACCCAAACAGC
Found at i:43326167 original size:11 final size:11
Alignment explanation
Indices: 43326092--43326166 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 11
43326082 AACACGACAA
*
43326092 AAAATAGCAGC
1 AAAATAGCACC
*
43326103 AAAATAGTACC
1 AAAATAGCACC
* *
43326114 AAAACAACACC
1 AAAATAGCACC
* *
43326125 CAAACAGCACC
1 AAAATAGCACC
*
43326136 AAAACAGCACCC
1 AAAATAGCA-CC
* *
43326148 AAACT-GCAGC
1 AAAATAGCACC
43326158 AAAATAGCA
1 AAAATAGCA
43326167 GTGAGCTAGG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 5 0.10
11 40 0.80
12 5 0.10
ACGTcount: A:0.53, C:0.29, G:0.11, T:0.07
Consensus pattern (11 bp):
AAAATAGCACC
Found at i:43331389 original size:15 final size:15
Alignment explanation
Indices: 43331369--43331400 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43331359 CATTTCACTA
*
43331369 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
43331384 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
43331399 TT
1 TT
43331401 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:43333041 original size:20 final size:19
Alignment explanation
Indices: 43333016--43333065 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
43333006 GAATAATATT
43333016 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
43333035 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
43333055 -T-TTAATTTAAT
1 TTATTAATTTAAT
43333066 GCTTATCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:43333057 original size:68 final size:66
Alignment explanation
Indices: 43332975--43333172 Score: 206
Period size: 68 Copynumber: 3.0 Consensus size: 66
43332965 ATTTTAATAT
43332975 TTTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTTTATTAATTTAATATTAAAGTTAT
1 TTTAATATTAAATTTAATTTAATGCTTATCT-AATAATATTTTATTAATTTAATATTAAAGTTAT
43333040 TA
65 TA
* * * * * ** *
43333042 TCTTAATATTAAATTTAATTTAATGCTTATCT-ATAAGA--TAAATATTTTATTATTTTAG-TAA
1 T-TTAATATTAAATTTAATTTAATGCTTATCTAATAATATTTTATTAATTTAATATTAAAGTTAT
*
43333103 GA
65 TA
* ** * *
43333105 TTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTAA
1 TTTAATATTAAATTTAATTTAATGCTTATC-TAAT-AATATTTTATTAATTTAATATTAAAGTTA
43333170 TTA
64 TTA
43333173 AGTTTAATTA
Statistics
Matches: 101, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
62 26 0.26
63 5 0.05
64 16 0.16
65 3 0.03
66 5 0.05
67 14 0.14
68 32 0.32
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (66 bp):
TTTAATATTAAATTTAATTTAATGCTTATCTAATAATATTTTATTAATTTAATATTAAAGTTATT
A
Found at i:43333086 original size:36 final size:34
Alignment explanation
Indices: 43332977--43333087 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 34
43332967 TTTAATATTT
43332977 TAATATTAAATTTAATTTAATGCTTATCTGAATAATA
1 TAATATTAAATTTAATTTAATGCTTATCT--ATAA-A
** * **
43333014 TTTTATT-AATTTAATATTAAAG-TTAT-TAT-CT
1 TAATATTAAATTTAAT-TTAATGCTTATCTATAAA
43333045 TAATATTAAATTTAATTTAATGCTTATCTATAAGA
1 TAATATTAAATTTAATTTAATGCTTATCTATAA-A
43333080 TAAATATT
1 T-AATATT
43333088 TTATTATTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
31 10 0.18
32 12 0.21
33 5 0.09
35 2 0.04
36 18 0.32
37 10 0.18
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (34 bp):
TAATATTAAATTTAATTTAATGCTTATCTATAAA
Found at i:43334850 original size:123 final size:125
Alignment explanation
Indices: 43334705--43334932 Score: 295
Period size: 127 Copynumber: 1.8 Consensus size: 125
43334695 TGTGGACAGA
* ** *
43334705 ATTTTAAAGGAATGTTTGATTATTTGGATAAAC-A-ATCGAAACCC-ATCACATTAGGGTACGAT
1 ATTTTAAAGGAATATTTGATTATTTAAATAAACAAGATCGAAACCCAAT-ACATTAGGGCACGAT
* * *
43334767 -TTCTCAAATTCCCAAACATCAATCATCGCTTTTGTTTTAAAGTTTAAAAAACGCAGACGAG
65 CCT-TCAAATTCCCAAACATCAAACATCGCCTTTGTTTTAAAGTTTAAAAAACGCAGACGAG
43334828 ATTTTAAAGGGAA-ATTTGATTATTTAAATAAACGAAAGATCGAAACCCAATACATTAGGGCACG
1 ATTTTAAA-GGAATATTTGATTATTTAAATAAAC--AAGATCGAAACCCAATACATTAGGGCACG
* *
43334892 ATCCTTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTA
63 ATCCTTCAAATTCCCAAACATCAAACATCGCCTTTGTTTTA
43334933 TAAAGTCTAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
123 25 0.28
124 4 0.04
126 1 0.01
127 56 0.63
128 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (125 bp):
ATTTTAAAGGAATATTTGATTATTTAAATAAACAAGATCGAAACCCAATACATTAGGGCACGATC
CTTCAAATTCCCAAACATCAAACATCGCCTTTGTTTTAAAGTTTAAAAAACGCAGACGAG
Found at i:43335488 original size:26 final size:25
Alignment explanation
Indices: 43335387--43335846 Score: 100
Period size: 26 Copynumber: 17.9 Consensus size: 25
43335377 AAATAATATA
* ***
43335387 AAAATAAATAATATA-ACAAGGTTT
1 AAAATAAATAATATATAAAAAAATT
** **
43335411 AAAATAAATAATAGGTGAAACCAATT
1 AAAATAAATAATATAT-AAAAAAATT
* * **
43335437 AAAGTAAA-AAGATATAAAAAGTTT
1 AAAATAAATAATATATAAAAAAATT
43335461 AAAAATAAATAATATATAAAAAAATT
1 -AAAATAAATAATATATAAAAAAATT
* **
43335487 AAAATAAATAATATATGAAATGATT
1 AAAATAAATAATATATAAAAAAATT
* * *
43335512 CAGAATAAACAATATATGAAAAAGATT
1 -AAAATAAATAATATAT-AAAAAAATT
* *
43335539 ----TGACATAA-ATATAAAACAATTT
1 AAAAT-AAATAATATATAAAA-AAATT
** *
43335561 GGAATAAAATAATATATAAAACAATTT
1 AAAAT-AAATAATATATAAAA-AAATT
* * * *
43335588 CAAATATATAAATATATGTAATAAATT
1 AAAATAAAT-AATATAT-AAAAAAATT
* * * **
43335615 AAAAGAAATAATACACAAAGTAA-T
1 AAAATAAATAATATATAAAAAAATT
* * *
43335639 --AATAGAATAAGACCCTTTAAAAACATATA
1 AAAATA-AATAATA---TATAAAAA-A-ATT
**
43335668 AAAGAGTTTAAAATAA-ATAATATAAAAGTTT
1 AAA-A---T-AAATAATAT-ATA-AAAAAATT
* ***
43335699 AAAATAAATAATATA-ACAAGGTTT
1 AAAATAAATAATATATAAAAAAATT
** **
43335723 AAAATAAATAATAGGTGAAACCAATT
1 AAAATAAATAATATAT-AAAAAAATT
* * **
43335749 AAAGTAAA-AAGATATAAAAAGTTT
1 AAAATAAATAATATATAAAAAAATT
43335773 AAAAATAAATAATATATAAAAAAATT
1 -AAAATAAATAATATATAAAAAAATT
* **
43335799 AAAATAAATAATATATGAAATGATT
1 AAAATAAATAATATATAAAAAAATT
* * *
43335824 CAGAATAAACAATATATGAAAAA
1 -AAAATAAATAATATATAAAAAA
43335847 GATTTGACAT
Statistics
Matches: 313, Mismatches: 86, Indels: 72
0.66 0.18 0.15
Matches are distributed among these distances:
21 4 0.01
22 11 0.04
23 10 0.03
24 43 0.14
25 71 0.23
26 104 0.33
27 45 0.14
28 3 0.01
30 1 0.00
31 6 0.02
32 3 0.01
33 4 0.01
34 1 0.00
35 6 0.02
36 1 0.00
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (25 bp):
AAAATAAATAATATATAAAAAAATT
Found at i:43335489 original size:50 final size:51
Alignment explanation
Indices: 43335387--43335494 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 51
43335377 AAATAATATA
* * * **
43335387 AAAATAAATA-ATATAACAAGGTTTAAAATAAATAATAGGTGAAACCAATT
1 AAAATAAAAAGATATAACAAAGTTTAAAATAAATAATAGATGAAAAAAATT
* *
43335437 AAAGTAAAAAGATATAA-AAAGTTTAAAAATAAATAATATAT-AAAAAAATT
1 AAAATAAAAAGATATAACAAAGTTT-AAAATAAATAATAGATGAAAAAAATT
43335487 AAAATAAA
1 AAAATAAA
43335495 TAATATATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
50 28 0.58
51 20 0.42
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (51 bp):
AAAATAAAAAGATATAACAAAGTTTAAAATAAATAATAGATGAAAAAAATT
Found at i:43335593 original size:27 final size:26
Alignment explanation
Indices: 43335543--43335603 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
43335533 AAGATTTGAC
**
43335543 ATAAATATAAAACAATTTGGAATAAA
1 ATAAATATAAAACAATTTCAAATAAA
*
43335569 ATAATATATAAAACAATTTCAAAT-AT
1 ATAA-ATATAAAACAATTTCAAATAAA
43335595 ATAAATATA
1 ATAAATATA
43335604 TGTAATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 9 0.29
27 17 0.55
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (26 bp):
ATAAATATAAAACAATTTCAAATAAA
Found at i:43335690 original size:24 final size:23
Alignment explanation
Indices: 43335663--43335813 Score: 137
Period size: 24 Copynumber: 6.2 Consensus size: 23
43335653 CTTTAAAAAC
43335663 ATATAAAAGAGTTTAAAATAAATA
1 ATATAAAA-AGTTTAAAATAAATA
43335687 ATAT-AAAAGTTTAAAATAAATA
1 ATATAAAAAGTTTAAAATAAATA
*
43335709 ATATAACAAGGTTTAAAATAAATA
1 ATATAA-AAAGTTTAAAATAAATA
* *
43335733 ATAGGTGAAACCAA--TTAAAGTAAAAA
1 ATA--T-AAA--AAGTTTAAAATAAATA
43335759 GATATAAAAAGTTTAAAAATAAATAA
1 -ATATAAAAAGTTT-AAAATAAAT-A
**
43335785 TATATAAAAAAATTAAAATAAATA
1 -ATATAAAAAGTTTAAAATAAATA
43335809 ATATA
1 ATATA
43335814 TGAAATGATT
Statistics
Matches: 106, Mismatches: 9, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
22 21 0.20
23 9 0.08
24 29 0.27
25 17 0.16
26 24 0.23
27 5 0.05
28 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (23 bp):
ATATAAAAAGTTTAAAATAAATA
Found at i:43335816 original size:312 final size:313
Alignment explanation
Indices: 43335387--43336022 Score: 1247
Period size: 312 Copynumber: 2.0 Consensus size: 313
43335377 AAATAATATA
43335387 AAAATAAATAATATAACAAGGTTTAAAATAAATAATAGGTGAAACCAATTAAAGTAAAAAGATAT
1 AAAATAAATAATATAACAAGGTTTAAAATAAATAATAGGTGAAACCAATTAAAGTAAAAAGATAT
43335452 AAAAAGTTTAAAAATAAATAATATATAAAAAAATTAAAATAAATAATATATGAAATGATTCAGAA
66 AAAAAGTTTAAAAATAAATAATATATAAAAAAATTAAAATAAATAATATATGAAATGATTCAGAA
43335517 TAAACAATATATGAAAAAGATTTGACATAAATATAAAACAATTTGGAATAAAATAATATATAAAA
131 TAAACAATATATGAAAAAGATTTGACATAAATATAAAACAATTTGGAATAAAATAATATATAAAA
*
43335582 CAATTTCAAATATATAAATATATGTAATAAATTAAAAGAAATAATACACAAAGTAATAATAGAAT
196 CAATTTCAAATACATAAATATATGTAATAAATTAAAAGAAATAATACACAAAGTAATAATAGAAT
43335647 AAGACCCTTTAAAAACATATAAAAGAGTTTAAAATAAATAATATAAAAG-TTT
261 AAGACCCTTTAAAAACATATAAAAGAGTTTAAAATAAATAATATAAAAGTTTT
43335699 AAAATAAATAATATAACAAGGTTTAAAATAAATAATAGGTGAAACCAATTAAAGTAAAAAGATAT
1 AAAATAAATAATATAACAAGGTTTAAAATAAATAATAGGTGAAACCAATTAAAGTAAAAAGATAT
43335764 AAAAAGTTTAAAAATAAATAATATATAAAAAAATTAAAATAAATAATATATGAAATGATTCAGAA
66 AAAAAGTTTAAAAATAAATAATATATAAAAAAATTAAAATAAATAATATATGAAATGATTCAGAA
43335829 TAAACAATATATGAAAAAGATTTGACATAAATATAAAACAATTTGGAATAAAATAATATATAAAA
131 TAAACAATATATGAAAAAGATTTGACATAAATATAAAACAATTTGGAATAAAATAATATATAAAA
43335894 CAATTTCAAATACATAAATATATGTAATAAATTAAAAGAAATAATACACAAAGTAATAATAGAAT
196 CAATTTCAAATACATAAATATATGTAATAAATTAAAAGAAATAATACACAAAGTAATAATAGAAT
43335959 AAGACCCTTTAAAAACATATAAAAGAGTTTAAAATAAATAATATAAAAGTTTT
261 AAGACCCTTTAAAAACATATAAAAGAGTTTAAAATAAATAATATAAAAGTTTT
*
43336012 AAAATGAATAA
1 AAAATAAATAA
43336023 CATATAAAAC
Statistics
Matches: 321, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
312 308 0.96
313 13 0.04
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.27
Consensus pattern (313 bp):
AAAATAAATAATATAACAAGGTTTAAAATAAATAATAGGTGAAACCAATTAAAGTAAAAAGATAT
AAAAAGTTTAAAAATAAATAATATATAAAAAAATTAAAATAAATAATATATGAAATGATTCAGAA
TAAACAATATATGAAAAAGATTTGACATAAATATAAAACAATTTGGAATAAAATAATATATAAAA
CAATTTCAAATACATAAATATATGTAATAAATTAAAAGAAATAATACACAAAGTAATAATAGAAT
AAGACCCTTTAAAAACATATAAAAGAGTTTAAAATAAATAATATAAAAGTTTT
Found at i:43335839 original size:75 final size:72
Alignment explanation
Indices: 43335678--43335818 Score: 176
Period size: 76 Copynumber: 1.9 Consensus size: 72
43335668 AAAGAGTTTA
* * *** *
43335678 AAATAAATAATAT-AAAAGTTTAAAATAAATAATATAACAAGGTTTAAAATAAATAATAGGTGAA
1 AAATAAAAAATATAAAAAGTTTAAAATAAATAATATAAAAAAAATTAAAATAAATAATAGATGAA
43335742 ACCAATT
66 ACCAATT
*
43335749 AAAGTAAAAAGATATAAAAAGTTTAAAAATAAATAATATATAAAAAAATTAAAATAAATAATATA
1 AAA-TAAAAA-ATATAAAAAGTTT-AAAATAAATAATATA-AAAAAAATTAAAATAAATAATAGA
43335814 TGAAA
62 TGAAA
43335819 TGATTCAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.05
72 5 0.09
73 4 0.07
74 8 0.14
75 15 0.26
76 23 0.40
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (72 bp):
AAATAAAAAATATAAAAAGTTTAAAATAAATAATATAAAAAAAATTAAAATAAATAATAGATGAA
ACCAATT
Found at i:43335905 original size:27 final size:26
Alignment explanation
Indices: 43335855--43335915 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
43335845 AAGATTTGAC
**
43335855 ATAAATATAAAACAATTTGGAATAAA
1 ATAAATATAAAACAATTTCAAATAAA
*
43335881 ATAATATATAAAACAATTTCAAAT-AC
1 ATAA-ATATAAAACAATTTCAAATAAA
43335907 ATAAATATA
1 ATAAATATA
43335916 TGTAATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 9 0.29
27 17 0.55
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAAATATAAAACAATTTCAAATAAA
Found at i:43336016 original size:23 final size:26
Alignment explanation
Indices: 43335968--43336031 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
43335958 TAAGACCCTT
43335968 TAAA-AACATATAAAAGAGTTTAAAA
1 TAAATAACATATAAAAGAGTTTAAAA
*
43335993 TAAAT-A-ATATAAAAG-TTTTAAAA
1 TAAATAACATATAAAAGAGTTTAAAA
*
43336016 TGAATAACATATAAAA
1 TAAATAACATATAAAA
43336032 CAACATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 11 0.32
24 10 0.29
25 13 0.38
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (26 bp):
TAAATAACATATAAAAGAGTTTAAAA
Found at i:43336038 original size:12 final size:12
Alignment explanation
Indices: 43336021--43336058 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
43336011 TAAAATGAAT
43336021 AACATATAAAAC
1 AACATATAAAAC
43336033 AACATATAAAAC
1 AACATATAAAAC
43336045 AACATATAAAAC
1 AACATATAAAAC
43336057 AA
1 AA
43336059 TTTAAACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (12 bp):
AACATATAAAAC
Found at i:43336262 original size:24 final size:26
Alignment explanation
Indices: 43336224--43336277 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
43336214 ATAATATATC
*
43336224 TAAATAACATATAAAA-A-TTTTAAA
1 TAAATAACATATAAAATAGTTTAAAA
* *
43336248 TAAATAATATGTAAAATAGTTTAAAA
1 TAAATAACATATAAAATAGTTTAAAA
43336274 TAAA
1 TAAA
43336278 AGGTATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 1 0.04
26 10 0.40
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
TAAATAACATATAAAATAGTTTAAAA
Found at i:43338222 original size:44 final size:44
Alignment explanation
Indices: 43338116--43338755 Score: 255
Period size: 44 Copynumber: 14.2 Consensus size: 44
43338106 TTGTAGCTTG
* * * *
43338116 ATCTGCTCCATTGCAACTTCAAGGAGATAAGATCTTCTATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTAACTTCA
* *
43338161 GTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* * ** **
43338205 A-CTTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTGGCTTCA
1 ATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* ** * * **
43338249 ATCTACTCCACTATAACTTCAGGGAGATAAGATTCACCATAGTAAGTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG----A-C-TTGTAACTTCA
* * * * * * *
43338299 ATC--CAACCTACTGCAACTTCAGAGG-TATAGGATTTATAGCTTTA
1 ATCTGC-TCC-ACTGCAACTTCAG-GGAGATAAGACTTGTAACTTCA
* * * * * *
43338343 ATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCA
* * * * *
43338388 GTCTGTTCCACTGTAACTTCAGGTG-TATAAGACTCGTAACTTCA
1 ATCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGTAACTTCA
* ** * ** * *
43338432 A-CTTGCCCCACTGCAAAGATAAGGTTTG-TAA-TC-TGTAGCTTCA
1 ATC-TGCTCCACTGC-AACTTCAGG-GAGATAAGACTTGTAACTTCA
* * * * **
43338475 ATCTGCCCCACTGCAACTTTAGAGAGATAAGA-TTCACTATTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT--GTAACTTCA
* * * * *
43338520 GTCTACTCTACT-AAACTTCAGGGAGATAAGACTTGTAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* **
43338563 ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATCTGTAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A-----A-CTTCA
* * * **
43338614 ATCTGC-CCTACTGCAACTTTAAGGAGATAAGA-TTCACTATTTTCA
1 ATCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTT--GTAACTTCA
* * * *
43338659 GTCTGCTCTACTGCAGCTTCAGGGAGATAAGACTTGTAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* * * * *
43338703 ACCTGCTTCACTGCAACTTTAGGGAGATACGA-TTTTAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* *
43338746 ACCTGTTCCA
1 ATCTGCTCCA
43338756 TTGCCGTTTC
Statistics
Matches: 435, Mismatches: 121, Indels: 80
0.68 0.19 0.13
Matches are distributed among these distances:
41 1 0.00
42 8 0.02
43 56 0.13
44 182 0.42
45 118 0.27
46 6 0.01
48 1 0.00
49 2 0.00
50 28 0.06
51 32 0.07
52 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
Found at i:43338619 original size:139 final size:139
Alignment explanation
Indices: 43338335--43338731 Score: 508
Period size: 139 Copynumber: 2.9 Consensus size: 139
43338325 ATAGGATTTA
* * * ** * * *
43338335 TAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAGTCTGTTCCACT
1 TAGCTTCAATCTGCCCTACTGCAACTTTAGAGAGATAAGATTCACTATTTTCAGTCTGCTCTACT
* * * * * *
43338400 GTAACTTCAGGTG-TATAAGACTCGTAACTTCAACTTGCCCCACTGC-A---A---AGATAAGGT
66 GAAACTTCAGG-GAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTAGGGAGATAAGGT
43338457 TTGTAATCTG
130 TTGTAATCTG
* *
43338467 TAGCTTCAATCTGCCCCACTGCAACTTTAGAGAGATAAGATTCACTATTTTCAGTCTACTCTACT
1 TAGCTTCAATCTGCCCTACTGCAACTTTAGAGAGATAAGATTCACTATTTTCAGTCTGCTCTACT
43338532 -AAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGT
66 GAAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTT-AGGGAGATAAGGT
*
43338596 TTGTGATCTG
130 TTGTAATCTG
43338606 TAGCTTCAATCTGCCCTACTGCAACTTTA-AGGAGATAAGATTCACTATTTTCAGTCTGCTCTAC
1 TAGCTTCAATCTGCCCTACTGCAACTTTAGA-GAGATAAGATTCACTATTTTCAGTCTGCTCTAC
* * *
43338670 TGCAGCTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTTCACTGCAACTTTAGGGAGATA
65 TGAAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAAC-TTAGGGAGATA
43338732 CGATTTTAAC
Statistics
Matches: 231, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
130 1 0.00
131 37 0.16
132 56 0.24
136 1 0.00
138 1 0.00
139 79 0.34
140 54 0.23
141 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (139 bp):
TAGCTTCAATCTGCCCTACTGCAACTTTAGAGAGATAAGATTCACTATTTTCAGTCTGCTCTACT
GAAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTAGGGAGATAAGGTT
TGTAATCTG
Found at i:43338875 original size:88 final size:88
Alignment explanation
Indices: 43338783--43339213 Score: 517
Period size: 88 Copynumber: 4.9 Consensus size: 88
43338773 TAAGGTGTAA
* * ** * *
43338783 TGGCTTCAATCTGCTCCAATATCATTTCAGGGAGAAGAGATCTGTAGCTTCGATCTACTCCACTG
1 TGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTG
* *
43338848 AAACTTCAAGGGGATACGGATCG
66 AAACTTCAAGGAGATACTGATCG
* * *
43338871 TGGCTTCAGGCCGTTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTA
1 TGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTG
* *
43338936 AAACTTCAAGGAGATA-TGAACTA
66 AAACTTCAAGGAGATACTGATC-G
* * * *
43338959 TGGCTTCAAGCCGCTCCAACGCCATTTCAGGTAGAAGAGATTTGTAGCTTCGATATACTCCACTG
1 TGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTG
* ** *
43339024 GAACTTCAAGGAGATACAAATTG
66 AAACTTCAAGGAGATACTGATCG
* * * * * * * * *
43339047 TAGCTTCGAGCCTCTCCAGTGGCATTTTAGGGAGAAGAGATTTATAGCTTTGATCTACTCTGCTG
1 TGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTG
* * *
43339112 GAACTTTAAGGAGAT-CTGCT-G
66 AAACTTCAAGGAGATACTGATCG
* *
43339133 TGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTG
1 TGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTG
43339198 AAACTTCAAGGAGATA
66 AAACTTCAAGGAGATA
43339214 TGAATTGTTG
Statistics
Matches: 286, Mismatches: 54, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
86 70 0.24
87 5 0.02
88 210 0.73
89 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (88 bp):
TGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTG
AAACTTCAAGGAGATACTGATCG
Found at i:43339513 original size:131 final size:131
Alignment explanation
Indices: 43339241--43339514 Score: 372
Period size: 131 Copynumber: 2.1 Consensus size: 131
43339231 CCTGCTTCAT
* * * * * *
43339241 TACTGCTTAGAGAGATAGGATGGTGGCTTAAATCTGCTCTACTACGGCTTAGGGAGACAAGATTT
1 TACTGCTTAGGGAGATAAGATGGTGGCATAAATCTGCTCCACTACGGCTTAGGAAGACAAGATTC
** ** *
43339306 GTTGTCTTCGATCTGTTCCACTGCAACTTCAAGGAGACAAGATCTACAATCTTCGGCCTACTCTG
66 GCCGTCTTCGATCTGTTCCACTGCAACTTCAAGGAGACAAGATCTACAATCTTCAACCTACTCTC
43339371 C
131 C
* *
43339372 TACTGCTTAGGGAGATAAGATGGTGGCATAAATCTGCTCCACTATGGTTTAGGAAGACAAGATTC
1 TACTGCTTAGGGAGATAAGATGGTGGCATAAATCTGCTCCACTACGGCTTAGGAAGACAAGATTC
* * *
43339437 GCCGTCTTCGATCTGTTCTACTGTAACTTC-AGAGAGACAAGATCTACAATCTTCAACCTATTAC
66 GCCGTCTTCGATCTGTTCCACTGCAACTTCAAG-GAGACAAGATCTACAATCTTCAACCTACT-C
43339501 -CC
129 TCC
43339503 TACTGCTTAGGG
1 TACTGCTTAGGG
43339515 GGTTAAGGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
130 2 0.02
131 122 0.98
132 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (131 bp):
TACTGCTTAGGGAGATAAGATGGTGGCATAAATCTGCTCCACTACGGCTTAGGAAGACAAGATTC
GCCGTCTTCGATCTGTTCCACTGCAACTTCAAGGAGACAAGATCTACAATCTTCAACCTACTCTC
C
Found at i:43339813 original size:64 final size:64
Alignment explanation
Indices: 43339712--43339835 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
43339702 GTATCTATGT
* *
43339712 TTATGCCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGTTGTGATGC
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATGC
* *
43339776 TTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
43339836 TTATGAATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATGC
Found at i:43340448 original size:92 final size:92
Alignment explanation
Indices: 43340291--43340474 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
43340281 ATTTGTCGAG
* *
43340291 GTTGTATCACCGACGAAATATCTTGCCTTTTCATTTAACTGGTACTTTTGACAGAAAATCCAAAG
1 GTTGTATCACCGACGAAATATCTTGCCTTTTCATTTAACTGATACCTTTGACAGAAAATCCAAAG
43340356 AGATAGTCACAACTTAGAATCCTCTTT
66 AGATAGTCACAACTTAGAATCCTCTTT
43340383 GTTGTATCACCGACGAAATATCTTGCCTTTTCATTTAACTGATACCTTTGACAGAAAATCCAAAG
1 GTTGTATCACCGACGAAATATCTTGCCTTTTCATTTAACTGATACCTTTGACAGAAAATCCAAAG
43340448 AGATAGTCACAACTTAGAATCCTCTTT
66 AGATAGTCACAACTTAGAATCCTCTTT
43340475 CTCAAACATT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (92 bp):
GTTGTATCACCGACGAAATATCTTGCCTTTTCATTTAACTGATACCTTTGACAGAAAATCCAAAG
AGATAGTCACAACTTAGAATCCTCTTT
Found at i:43341094 original size:49 final size:49
Alignment explanation
Indices: 43341040--43341134 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
43341030 TCTCCTTTGG
* * **
43341040 TCTCAA-ACCGTCATTTGTAGGTTTTTGCCTTAGCCTCTCCCTTTTTTTT
1 TCTCAATA-CGTCATTTGCAAGTTTTCACCTTAGCCTCTCCCTTTTTTTT
* *
43341089 TCTCAATACGTCCTTTGCAAGTTTTCACCTTGGCCTCTCCCTTTTT
1 TCTCAATACGTCATTTGCAAGTTTTCACCTTAGCCTCTCCCTTTTT
43341135 AAGTAGAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 38 0.97
50 1 0.03
ACGTcount: A:0.13, C:0.29, G:0.12, T:0.46
Consensus pattern (49 bp):
TCTCAATACGTCATTTGCAAGTTTTCACCTTAGCCTCTCCCTTTTTTTT
Found at i:43346296 original size:126 final size:126
Alignment explanation
Indices: 43346148--43346378 Score: 292
Period size: 126 Copynumber: 1.8 Consensus size: 126
43346138 TGTGGACGGA
* ** *
43346148 ATTTTAAAGGAATGTTTGATTATTTGGATAAACAGAAA-ATCGAAACCC-ATCACATTAGGGTAC
1 ATTTTAAAGGAATATTTGATTATTTAAATAAAC-GAAAGATCGAAACCCAAT-ACATTAGGGCAC
* * *
43346211 GATTTCC-CAAA-TTCTCAAACATCAATCATCGCTTTTGTTTTAAAGTTTAAAAAACGCGAGGAG
64 GA-TCCCTCAAATTTCT-AAACATCAAACATCGCCTTTGTTTTAAAGTTTAAAAAACGCGAGGAG
* *
43346274 ATTTTAAAGGGAA-ATTTGATTATTTAAATAAACGAAAGATCGAAGCCCAATACGTTAGGGCACG
1 ATTTTAAA-GGAATATTTGATTATTTAAATAAACGAAAGATCGAAACCCAATACATTAGGGCACG
*
43346338 ATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTTA
65 ATCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTA
43346379 TAAAGTCTAC
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
125 7 0.08
126 73 0.81
127 10 0.11
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (126 bp):
ATTTTAAAGGAATATTTGATTATTTAAATAAACGAAAGATCGAAACCCAATACATTAGGGCACGA
TCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTAAAGTTTAAAAAACGCGAGGAG
Found at i:43346930 original size:25 final size:25
Alignment explanation
Indices: 43346852--43346976 Score: 99
Period size: 25 Copynumber: 5.0 Consensus size: 25
43346842 TATAACAGGT
** **
43346852 TTAAAATAAATAATAGGTGAAACCAA
1 TTAAAATAAATAATATAT-AAAAAAA
* * **
43346878 TTAAAGTAAA-AAGATATAAAAAGT
1 TTAAAATAAATAATATATAAAAAAA
43346902 TTAAAATAAATAATATATAAAAAAA
1 TTAAAATAAATAATATATAAAAAAA
* **
43346927 TTAAAATAAATAATATATGAAATGA
1 TTAAAATAAATAATATATAAAAAAA
* * *
43346952 TTCAGAATAAACAATATATGAAAAA
1 TT-AAAATAAATAATATATAAAAAA
43346977 GATTTGACAT
Statistics
Matches: 78, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 12 0.15
25 39 0.50
26 27 0.35
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.26
Consensus pattern (25 bp):
TTAAAATAAATAATATATAAAAAAA
Found at i:43347035 original size:27 final size:26
Alignment explanation
Indices: 43346985--43347045 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
43346975 AAGATTTGAC
* **
43346985 ATAAATATAAAATAATTTGGAATAAA
1 ATAAATATAAAACAATTTCAAATAAA
*
43347011 ATAATATATAAAACAATTTCAAAT-AC
1 ATAA-ATATAAAACAATTTCAAATAAA
43347037 ATAAATATA
1 ATAAATATA
43347046 TGTAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.17
26 9 0.30
27 16 0.53
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (26 bp):
ATAAATATAAAACAATTTCAAATAAA
Found at i:43347364 original size:24 final size:25
Alignment explanation
Indices: 43347305--43347378 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
43347295 TTAAAGCGAT
* * **
43347305 TAACATATAGAATAATATATCTAAA
1 TAACATATAAAATAATTTAAATAAA
*
43347330 TAACATATAAAA-ATTTTAAATAAA
1 TAACATATAAAATAATTTAAATAAA
* *
43347354 TAATATGTAAAATAATTTAAATAAA
1 TAACATATAAAATAATTTAAATAAA
43347379 AGGTATCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 18 0.45
25 22 0.55
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (25 bp):
TAACATATAAAATAATTTAAATAAA
Found at i:43347378 original size:25 final size:24
Alignment explanation
Indices: 43347326--43347378 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
43347316 ATAATATATC
*
43347326 TAAATAACATATAAAAATTTTAAA
1 TAAATAACATATAAAAAATTTAAA
* *
43347350 TAAATAATATGTAAAATAATTTAAA
1 TAAATAACATATAAAA-AATTTAAA
43347375 TAAA
1 TAAA
43347379 AGGTATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAACATATAAAAAATTTAAA
Found at i:43348260 original size:16 final size:16
Alignment explanation
Indices: 43348241--43348286 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
43348231 AAAAAAATAA
43348241 AAATAAA-AAGAAGATG
1 AAATAAACAAGAA-ATG
43348257 AAATAGAACAA-AAATG
1 AAATA-AACAAGAAATG
43348273 AAATAAACAAGAAA
1 AAATAAACAAGAAA
43348287 CTTAGATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.19
16 16 0.59
17 4 0.15
18 2 0.07
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (16 bp):
AAATAAACAAGAAATG
Found at i:43348319 original size:19 final size:19
Alignment explanation
Indices: 43348292--43348335 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
43348282 AGAAACTTAG
43348292 ATCCAAAAGAAAAGATTGA
1 ATCCAAAAGAAAAGATTGA
*
43348311 ATCCGAAAGAAAAGATTGAA
1 ATCCAAAAGAAAAGATTG-A
43348331 ATCCA
1 ATCCA
43348336 CTTTCTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.16
Consensus pattern (19 bp):
ATCCAAAAGAAAAGATTGA
Found at i:43348815 original size:2 final size:2
Alignment explanation
Indices: 43348808--43348841 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
43348798 TATAATTGTA
*
43348808 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43348842 GAGATGATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43350560 original size:25 final size:26
Alignment explanation
Indices: 43350523--43350574 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
43350513 TCAAACATGC
43350523 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
43350549 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
43350574 A
1 A
43350575 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:43352159 original size:26 final size:26
Alignment explanation
Indices: 43352058--43352165 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
43352048 CATGAAATTC
43352058 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
43352083 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
43352109 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
43352135 TTATCATGGAACATTTACCTAACCT-
1 TTATCATGAAACATTTACCTAACCTA
43352160 TTATCA
1 TTATCA
43352166 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 30 0.38
26 50 0.62
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:43355230 original size:38 final size:37
Alignment explanation
Indices: 43355143--43355250 Score: 112
Period size: 38 Copynumber: 2.9 Consensus size: 37
43355133 ATAATCACGT
* *
43355143 GCACAAATGCCTTC-GGTCTTAGCCCGGATAGAAAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCC-GATATAAAACTA
* **
43355181 GCACGAATGCCTTCGGGCCTTAGCCCGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGATATAAAACTA
*
43355219 GCACAATTGCCTTCGGGTCTTAACCC-ATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGATATAA
43355251 TTTCCAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 7 0.12
38 42 0.71
39 10 0.17
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGATATAAAACTA
Found at i:43356110 original size:17 final size:19
Alignment explanation
Indices: 43356087--43356131 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
43356077 AAGAAGCATG
43356087 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43356105 -ATCATGC-CAAGTATGAC
1 AATCATGCTCAAGAATGAC
43356122 AATCATGCTC
1 AATCATGCTC
43356132 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 7 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43363118 original size:40 final size:40
Alignment explanation
Indices: 43363073--43363239 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
43363063 CGGAATATAA
43363073 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43363113 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43363153 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43363193 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43363232 CCGGATAT
1 CCGGATAT
43363240 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43363223 original size:80 final size:79
Alignment explanation
Indices: 43363089--43363239 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
43363079 ATAATCACGT
*
43363089 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
43363154 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
43363169 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
43363232 CCGGATAT
64 CCGGATAT
43363240 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:43364088 original size:17 final size:19
Alignment explanation
Indices: 43364065--43364110 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43364055 AAGAAGCATG
43364065 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43364083 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43364101 AATCATGCTC
1 AATCATGCTC
43364111 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43374460 original size:21 final size:21
Alignment explanation
Indices: 43374436--43374476 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43374426 CCATATGGGT
* *
43374436 TGAACGGCAGCTCATAAGAGC
1 TGAACGGAAACTCATAAGAGC
43374457 TGAACGGAAACTCATAAGAG
1 TGAACGGAAACTCATAAGAG
43374477 TTAAACAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.15
Consensus pattern (21 bp):
TGAACGGAAACTCATAAGAGC
Found at i:43374491 original size:21 final size:21
Alignment explanation
Indices: 43374444--43374528 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
43374434 GTTGAACGGC
* *
43374444 AGCTCATAAGAGCTGAACGGA
1 AGCTCATAAGAGCTAAACAGA
* *
43374465 AACTCATAAGAGTTAAACAGA
1 AGCTCATAAGAGCTAAACAGA
* * *
43374486 AGCTCAAAAGAGTTAAACAAA
1 AGCTCATAAGAGCTAAACAGA
*
43374507 AGCTCATGAGAGCTAAACAGA
1 AGCTCATAAGAGCTAAACAGA
43374528 A
1 A
43374529 AGTAAACACA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.15
Consensus pattern (21 bp):
AGCTCATAAGAGCTAAACAGA
Found at i:43376801 original size:49 final size:50
Alignment explanation
Indices: 43376736--43376865 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
43376726 TCTATCAAGT
* *
43376736 CGATGCCATGTTCCAGATATGGTCTTACAC-AGACTATCA-AAAT-TGAGGC
1 CGATGCCATGTCCCAGATATGGTCTTACACTAG-CTATCACAAATCCG-GGC
* * * * *
43376785 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCCAGATATGGTCTTACACTAGCTATCACAAATCCGGGC
*
43376835 CGATGCCATGTCCTAGATATGGTCTTACACT
1 CGATGCCATGTCCCAGATATGGTCTTACACT
43376866 GGCACCTCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 32 0.47
50 35 0.51
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGATATGGTCTTACACTAGCTATCACAAATCCGGGC
Found at i:43376857 original size:50 final size:48
Alignment explanation
Indices: 43376736--43376895 Score: 139
Period size: 49 Copynumber: 3.3 Consensus size: 48
43376726 TCTATCAAGT
* * * *
43376736 CGATGCCATGTTCCAGATATGGTCTTACAC-AGACTATCA-AAATTGAGGC
1 CGATGCCATG-TCCAGATATGGTCTTACACTAG-CTCTCACATATCG-TGC
* *
43376785 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGT-CCAGATATGGTCTTACACTAGCTCTCACATAT-CGTGC
* * *
43376835 CGATGCCATGTCCTAGATATGGTCTTACACTGGCAC-CTC-TATTCGTGC
1 CGATGCCATGTCC-AGATATGGTCTTACACTAGCTCTCACATA-TCGTGC
*
43376883 CGATGCAATGTCC
1 CGATGCCATGTCC
43376896 CAGACATGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
48 20 0.22
49 36 0.39
50 36 0.39
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCAGATATGGTCTTACACTAGCTCTCACATATCGTGC
Found at i:43376894 original size:48 final size:50
Alignment explanation
Indices: 43376783--43376903 Score: 156
Period size: 50 Copynumber: 2.5 Consensus size: 50
43376773 CAAAATTGAG
* *
43376783 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACATATCCGT
* * * * *
43376833 GCCGATGCCATGTCCTAGATATGGTCTTACACTGGCAC-CTC-TATTCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACATATCCGT
*
43376881 GCCGATGCAATGTCCCAGACATG
1 GCCGATGCCATGTCCCAGACATG
43376904 TTTTACATTG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 26 0.43
49 2 0.03
50 33 0.54
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACATATCCGT
Found at i:43378606 original size:2 final size:2
Alignment explanation
Indices: 43378599--43378627 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43378589 GCAACAAAAC
43378599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43378628 AAGGGTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43378885 original size:2 final size:2
Alignment explanation
Indices: 43378878--43378916 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
43378868 TGATCACATA
43378878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43378917 AGTTGAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43380133 original size:21 final size:22
Alignment explanation
Indices: 43380097--43380138 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
43380087 ATTGAGGAAA
43380097 AAATAAAAATAAAAAA-AACTG
1 AAATAAAAATAAAAAATAACTG
* *
43380118 AAATAAAATTATAAAATAACT
1 AAATAAAAATAAAAAATAACT
43380139 ACCACTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAAAAATAAAAAATAACTG
Found at i:43386593 original size:20 final size:21
Alignment explanation
Indices: 43386568--43386607 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43386558 CTCTTAAAAC
*
43386568 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
43386588 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
43386608 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:43388029 original size:146 final size:147
Alignment explanation
Indices: 43387753--43388270 Score: 532
Period size: 146 Copynumber: 3.6 Consensus size: 147
43387743 AAACATAGGG
* * * ** *
43387753 TATA-GTGCCGATGCCATGTCCCAGACATGATCTTACACTGG-ATCATCCAT-CAAGTCGATGCA
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCA-CCTCTATACGTGTCGATGCC
** ** * * * *
43387815 ATGTTTCGGACATGGTCTTACACTGACTATCGAAATCGAGGTCGACGCCATGTCCCAGACATGGT
65 ATGTCCCAAACATGGTCTTACACTGACTATCGAAATCGAGGCCGACGCCATATACCAGACATGCT
* *
43387880 CTTACATTAGCTTTCACA
130 CTTACACTAGCTCTCACA
* *
43387898 TATCCGTGCTGATGCCATG-CCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCA
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCA
* *
43387962 TGTCCCATACATGGTCTTACATTGACTATCGAAATCGAGGCCGACGCCATATACCAGACATGCTC
66 TGTCCCAAACATGGTCTTACACTGACTATCGAAATCGAGGCCGACGCCATATACCAGACATGCTC
43388027 TTACACTAGCTCTCACA
131 TTACACTAGCTCTCACA
**
43388044 TATATATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCA
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCA
* ** * * * *
43388109 TGTCCTAAACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCAATG-CATGTCCCAGACATG-T
66 TGTCCCAAACATGGTCTTACACTGACTATCGAAATCG-AGGCCGACGCCATATACCAGACATGCT
* *
43388168 CTTACACT-GGT-TTACA
130 CTTACACTAGCTCTCACA
* * * * *
43388184 TCTCAAG-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA-A--TGCCAAT
1 TAT-ACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-C-TCT-ATACGTGTCGAT
43388243 GCCATGTCCCAAACATGGTCTTACACTG
62 GCCATGTCCCAAACATGGTCTTACACTG
43388271 GCTCTCATAA
Statistics
Matches: 323, Mismatches: 41, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
138 46 0.14
139 15 0.05
140 17 0.05
141 4 0.01
142 9 0.03
143 13 0.04
144 9 0.03
145 31 0.10
146 111 0.34
147 68 0.21
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (147 bp):
TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCA
TGTCCCAAACATGGTCTTACACTGACTATCGAAATCGAGGCCGACGCCATATACCAGACATGCTC
TTACACTAGCTCTCACA
Found at i:43388121 original size:48 final size:49
Alignment explanation
Indices: 43387753--43388315 Score: 317
Period size: 48 Copynumber: 11.8 Consensus size: 49
43387743 AAACATAGGG
*
43387753 TATA-GTGCCGATGCCATGTCCCAGACATGATCTTACACTGG-A-TCATC
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTC-TC
* * * ** * *
43387800 CATCAAGT--CGATGCAATGTTTCGGACATGGTCTTACACT-G-ACTATC
1 TAT-ACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* * * * * * * ** *
43387846 GAAATCGAGGTCGACGCCATGTCCCAGACATGGTCTTACATTAGCTTTCAC
1 TATA-CG-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* *
43387897 ATATCCGTGCTGATGCCATG-CCCAGACATGGTCTTACACTGGCAC-CTC
1 -TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* * * *
43387945 TATACGTGTCGATGCCATGTCCCATACATGGTCTTACA-TTG-ACTATC
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* * * * * * * * * *
43387992 GAAATCGAGGCCGACGCCATATACCAGACATGCTCTTACACTAGCTCTCAC
1 TATA-CG-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
**
43388043 ATATATATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-CTC
1 -TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* * * * *
43388092 TATACGTGTCGATGCCATGTCCTAAACATGGTCTTACACTGACAC-ATC
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* *
43388140 --T-CGTAGCCAATG-CATGTCCCAGACAT-GTCTTACACTGGTTTACATCTC
1 TATACGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CAC-TCTC
*
43388188 -A-A-G-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC
1 TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTC-TC
* *
43388232 TCA-A--TGCCAATGCCATGTCCCAAACATGGTCTTACACTGG--CTCTC
1 T-ATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
* * *
43388277 -ATAATGTGGCCAATG-CATGTCCCAGGCAT-GTCTTACACT
1 TAT-ACGT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
43388316 AGCATACAAA
Statistics
Matches: 396, Mismatches: 85, Indels: 71
0.72 0.15 0.13
Matches are distributed among these distances:
43 3 0.01
44 14 0.04
45 19 0.05
46 69 0.17
47 77 0.19
48 85 0.21
49 75 0.19
50 44 0.11
51 7 0.02
52 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
TATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCTC
Found at i:43388188 original size:147 final size:135
Alignment explanation
Indices: 43387908--43388318 Score: 379
Period size: 147 Copynumber: 2.9 Consensus size: 135
43387898 TATCCGTGCT
*
43387908 GATGCCATG-CCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCATGTCCCATAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCATGTCCCAAAC
* ** * * * *
43387972 ATGGTCTTACATTGACTATCGAAATCG-AGGCCGACGCCATATACCAGACATGCTCTTACACTAG
66 ATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCAATG-CATGTCCCAGACATG-TCTTACACTAG
*
43388036 CTCTCACATATATATGCC
125 CTCT--C----A-AGGCC
*
43388054 GATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCATGTCCTAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCATGTCCCAAAC
*
43388119 ATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGTTTACA
66 ATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACACTAG----C-
43388184 TCTCAAGGCC
126 TCTCAAGGCC
* * *
43388194 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA-A--TGCCAATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC-C-TCT-ATACGTGTCGATGCCATGTCCCA
* * * * *
43388254 AACATGGTCTTACACTGGCTC-TCATAATGTGGCCAATGCATGTCCCAGGCATGTCTTACACTAG
63 AACATGGTCTTACACTGACACATC-T--CGTAGCCAATGCATGTCCCAGACATGTCTTACACTAG
43388318 C
125 C
43388319 ATACAAAGAA
Statistics
Matches: 231, Mismatches: 21, Indels: 36
0.80 0.07 0.12
Matches are distributed among these distances:
136 1 0.00
137 2 0.01
138 49 0.21
139 15 0.06
140 45 0.19
141 2 0.01
142 10 0.04
143 13 0.06
144 9 0.04
145 3 0.01
146 11 0.05
147 71 0.31
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (135 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGTCGATGCCATGTCCCAAAC
ATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCA
AGGCC
Found at i:43388293 original size:94 final size:95
Alignment explanation
Indices: 43387861--43388315 Score: 323
Period size: 97 Copynumber: 4.8 Consensus size: 95
43387851 CGAGGTCGAC
* * * * * *
43387861 GCCATGTCCCAGACATGGTCTTACATTAGCTTTCACATATCCG-TGCTGATGCCATG-CCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-CGAGGCCGATGCCATGTCCCAGAC
* * * *
43387924 ATGGTCTTACACTGGCAC-CTCTATACGTGTCGAT
64 AT-GTCTTACACTGGCTCTCTC-ATA-ATGCCAAT
* * * * * * *
43387958 GCCATGTCCCATACATGGTCTTACATTGACTATCGA-AATCGAGGCCGACGCCATATACCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAATCGAGGCCGATGCCATGTCCCAGACA
* * *
43388022 TGCTCTTACACTAGCTCTCACATATATATGCCGAT
65 TG-TCTTACACTGGCTCTCTC--ATA-ATGCCAAT
* * * * *
43388057 GCCATGTCCCAGACATGGTCTTACACTGGCACCTC-T-ATACG-TGTCGATGCCATGTCCTAAAC
1 GCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAAT-CGAGGCCGATGCCATGTCCCAGAC
* * *
43388119 ATGGTCTTACACTGACACATCTCGT-A-GCCAAT
64 AT-GTCTTACACTGGCTC-TCTCATAATGCCAAT
* * *
43388151 G-CATGTCCCAGACAT-GTCTTACACTGG-TTTACAT-CTCAAGGCCGATG-CATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCGAGGCCGATGCCATGTCCCAGACA
43388211 TGTCTTACACTGGCTCTCGTC-TCAATGCCAAT
65 TGTCTTACACTGGCTCTC-TCAT-AATGCCAAT
* * * *
43388243 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG-CATGTCCCAGGCAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGAGGCCGATGCCATGTCCCAGACAT
43388306 GTCTTACACT
66 GTCTTACACT
43388316 AGCATACAAA
Statistics
Matches: 286, Mismatches: 50, Indels: 47
0.75 0.13 0.12
Matches are distributed among these distances:
89 3 0.01
90 16 0.06
91 15 0.05
92 27 0.09
93 27 0.09
94 51 0.18
95 6 0.02
96 12 0.04
97 52 0.18
98 32 0.11
99 43 0.15
100 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGAGGCCGATGCCATGTCCCAGACAT
GTCTTACACTGGCTCTCTCATAATGCCAAT
Found at i:43388687 original size:30 final size:30
Alignment explanation
Indices: 43388653--43388709 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
43388643 TCATAATTGG
* * *
43388653 ACAAAATTACCATTTTGCCCTTAGACTTTC
1 ACAAAATGACCATTTTACCCCTAGACTTTC
43388683 ACAAAATGACCATTTTACCCCTAGACT
1 ACAAAATGACCATTTTACCCCTAGACT
43388710 CGAAAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.32
Consensus pattern (30 bp):
ACAAAATGACCATTTTACCCCTAGACTTTC
Found at i:43389335 original size:20 final size:20
Alignment explanation
Indices: 43389310--43389351 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
43389300 TTTAACATCC
43389310 TTAGCTATCAAAAGAGGACT
1 TTAGCTATCAAAAGAGGACT
*
43389330 TTAGCTATCAAAATAGGACT
1 TTAGCTATCAAAAGAGGACT
43389350 TT
1 TT
43389352 GCACTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (20 bp):
TTAGCTATCAAAAGAGGACT
Found at i:43393137 original size:55 final size:55
Alignment explanation
Indices: 43392992--43393201 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 55
43392982 GTATCCTTTT
* * **
43392992 GAAACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
43393046 G-AACTCACCAATGTCATGCCTTGGA-ATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAAACTTACCAATGCCATGCCTT-GACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
43393100 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-T-TA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* **
43393153 GAAACCTTACCAATTTCCATGCCTTGGTATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43393202 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 46 0.36
54 13 0.10
55 66 0.51
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (55 bp):
GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:43400889 original size:55 final size:53
Alignment explanation
Indices: 43400755--43400941 Score: 197
Period size: 55 Copynumber: 3.5 Consensus size: 53
43400745 GTCATCTCTC
*
43400755 GACATGGTCTTACATGGTATCCTTGCC-TTATGAA-CTCACTAATGCCATGCCTT
1 GACATGGTCTTACATGGTATCCTTGCCTTTA-GAACCTTAC-AATGCCATGCCTT
* *
43400808 -AGCATGGTCTTACATGGGA-CCTTTGCCTTCTAGAACCTTATCAATGCCATGTCTT
1 GA-CATGGTCTTACATGGTATCC-TTGCCTT-TAGAACCTTA-CAATGCCATGCCTT
*
43400863 GACATGGTCTTACA-GGATATCCTTGCC-TTAGAAACCTTACCAATTTCCATGCCTT
1 GACATGGTCTTACATGG-TATCCTTGCCTTTAG-AACCTTA-CAA-TGCCATGCCTT
*
43400918 GGCATGGTCTTACATGGTATCCTT
1 GACATGGTCTTACATGGTATCCTT
43400942 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
52 3 0.03
53 24 0.21
54 17 0.15
55 64 0.56
56 6 0.05
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (53 bp):
GACATGGTCTTACATGGTATCCTTGCCTTTAGAACCTTACAATGCCATGCCTT
Found at i:43405615 original size:332 final size:332
Alignment explanation
Indices: 43405009--43405670 Score: 1270
Period size: 332 Copynumber: 2.0 Consensus size: 332
43404999 GGTCTCCGGC
43405009 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
43405074 TTTCAATATATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATATATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
*
43405139 TTCTTCCAAACTAATTCCATATTTTCATTTCATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
*
43405204 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCCAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
43405269 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTAGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTAGAAATTCTATCAATTTAACGCCTAATTATT
43405334 CAATTCT
326 CAATTCT
43405341 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
*
43405406 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATATATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
43405471 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
43405536 TCATCATAAATTCCCAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCCAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
* * *
43405601 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACTCCTAATTCTT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTAGAAATTCTATCAATTTAACGCCTAATTATT
43405666 CAATT
326 CAATT
43405671 TATTCAACAT
Statistics
Matches: 324, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
332 324 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (332 bp):
TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
TTTCAATATATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
TCATCATAAATTCCCAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
ATTTTACAATTCAATCCCTTTTTCACTAGTAACTAGAAATTCTATCAATTTAACGCCTAATTATT
CAATTCT
Found at i:43405979 original size:34 final size:33
Alignment explanation
Indices: 43405909--43405978 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
43405899 TTTCTTTTAT
43405909 TTATTTGTTTTAATTATAATAATATAATATAATA
1 TTATTTGTTTTAA-TATAATAATATAATATAATA
43405943 TTATTT-TTTTAA-ATAATAAGTA-AATAT-ATA
1 TTATTTGTTTTAATATAATAA-TATAATATAATA
43405973 TGTATT
1 T-TATT
43405979 ACAAATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
30 4 0.12
31 16 0.47
32 2 0.06
33 6 0.18
34 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (33 bp):
TTATTTGTTTTAATATAATAATATAATATAATA
Found at i:43406153 original size:97 final size:97
Alignment explanation
Indices: 43406039--43406220 Score: 355
Period size: 97 Copynumber: 1.9 Consensus size: 97
43406029 ATTGTTAAAT
43406039 TTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCCATTCTATATTTAAGCTTTCACACTTT
1 TTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCCATTCTATATTTAAGCTTTCACACTTT
43406104 ATTCAATTTTCTTAATTCACAAAAATTTACAA
66 ATTCAATTTTCTTAATTCACAAAAATTTACAA
*
43406136 TTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCTATTCTATATTTAAGCTTTCACACTTT
1 TTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCCATTCTATATTTAAGCTTTCACACTTT
43406201 ATTCAATTTTCTTAATTCAC
66 ATTCAATTTTCTTAATTCAC
43406221 GGAAATGGTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.53
Consensus pattern (97 bp):
TTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCCATTCTATATTTAAGCTTTCACACTTT
ATTCAATTTTCTTAATTCACAAAAATTTACAA
Found at i:43409372 original size:25 final size:23
Alignment explanation
Indices: 43409335--43409380 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
43409325 TTTGTTTTAA
*
43409335 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
43409358 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
43409381 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:43410265 original size:2 final size:2
Alignment explanation
Indices: 43410258--43410291 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
43410248 AAGCCTTGTT
43410258 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43410292 AAGGTTACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43411834 original size:42 final size:42
Alignment explanation
Indices: 43411770--43411849 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
43411760 CAGTGGTTTT
*
43411770 CACACGGCTTGGCACACGCCCGTGTGCCTGGCCCATGTCTTCC
1 CACACGGCTTCGCACACGCCCGTGT-CCTGGCCCATGTCTTCC
* *
43411813 CACACGGCTTCG-ACACGCCCGTGTCTTGGCCCGTGTC
1 CACACGGCTTCGCACACGCCCGTGTCCTGGCCCATGTC
43411850 CAAAAATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 11 0.32
42 12 0.35
43 11 0.32
ACGTcount: A:0.11, C:0.41, G:0.26, T:0.21
Consensus pattern (42 bp):
CACACGGCTTCGCACACGCCCGTGTCCTGGCCCATGTCTTCC
Found at i:43412882 original size:47 final size:46
Alignment explanation
Indices: 43412776--43412930 Score: 120
Period size: 47 Copynumber: 3.3 Consensus size: 46
43412766 TGGGTAAGGT
* * * * * *
43412776 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATC-TCAA
1 GCCGATG-CATGTCCCATACAT-GTCTTACACTAACTTACATCTTGAG
* *
43412823 GTCGATGCCATGTCCCA-AGCATAGTTTTACACTAAC-TATCATCTTGTA-
1 GCCGATG-CATGTCCCATA-CAT-GTCTTACACTAACTTA-CATCTTG-AG
* **
43412871 GCCGATGCATGTCACATACATGTCTTACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCATACATGTCTTACACTAACTTACATCTTGAG
43412917 GCCGATGCATGTCC
1 GCCGATGCATGTCC
43412931 TAGATGTAAC
Statistics
Matches: 88, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
45 1 0.01
46 32 0.36
47 46 0.52
48 8 0.09
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCATACATGTCTTACACTAACTTACATCTTGAG
Found at i:43413639 original size:27 final size:28
Alignment explanation
Indices: 43413609--43413665 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
43413599 ATTTTTGATG
43413609 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
43413636 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
43413665 A
1 A
43413666 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:43417180 original size:46 final size:46
Alignment explanation
Indices: 43417113--43417328 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
43417103 GGCAACCTGA
43417113 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
43417159 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
43417205 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
43417251 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
43417297 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
43417329 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:43417308 original size:138 final size:130
Alignment explanation
Indices: 43417063--43417328 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
43417053 AGTGTGCTCT
*
43417063 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
43417128 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
43417193 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
43417258 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
43417323 ATGGCA
123 ATGGCA
43417329 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:43424391 original size:27 final size:28
Alignment explanation
Indices: 43424361--43424417 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
43424351 ATTTTTGATG
43424361 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
43424388 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
43424417 A
1 A
43424418 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:43425912 original size:9 final size:9
Alignment explanation
Indices: 43425900--43425936 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
43425890 AATATTGATT
43425900 AAGTTCTGA
1 AAGTTCTGA
43425909 AAGTTCTGA
1 AAGTTCTGA
43425918 AAGTTCTGA
1 AAGTTCTGA
43425927 AAGTTCTGA
1 AAGTTCTGA
43425936 A
1 A
43425937 TGGGTTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (9 bp):
AAGTTCTGA
Found at i:43426623 original size:30 final size:30
Alignment explanation
Indices: 43426582--43426640 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
43426572 GGATTTACAT
* *
43426582 CCTTAGTAAAATGACCATTTTGGCCCTAGA
1 CCTTAGCAAAATGACCATTTTGCCCCTAGA
43426612 CCTTAGCAAAATGACCATTTTGCCCCTAG
1 CCTTAGCAAAATGACCATTTTGCCCCTAG
43426641 GCTCGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
CCTTAGCAAAATGACCATTTTGCCCCTAGA
Found at i:43426976 original size:12 final size:12
Alignment explanation
Indices: 43426959--43426983 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43426949 CAAAAATGTA
43426959 AAAATCATCAAG
1 AAAATCATCAAG
43426971 AAAATCATCAAG
1 AAAATCATCAAG
43426983 A
1 A
43426984 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:43434300 original size:25 final size:25
Alignment explanation
Indices: 43434266--43434331 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 25
43434256 CAGGCGTGAC
43434266 TTATTTTTTTAATAATATAATT-TAT
1 TTATTTTTTTAATAATATAATTAT-T
*
43434291 TTATTTTTTT-A-AATATTATTATT
1 TTATTTTTTTAATAATATAATTATT
43434314 TTATTATATTTTAATAAT
1 TTATT-T-TTTTAATAAT
43434332 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
23 14 0.40
24 3 0.09
25 14 0.40
26 1 0.03
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTTTTTTAATAATATAATTATT
Found at i:43434305 original size:26 final size:26
Alignment explanation
Indices: 43434266--43434325 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
43434256 CAGGCGTGAC
43434266 TTATTTTTTTAATAATA-TAATTTAT
1 TTATTTTTTTAATAATATTAATTTAT
* *
43434291 TTATTTTTTTAAATATTATTATTTTAT
1 TTATTTTTTT-AATAATATTAATTTAT
43434318 TATATTTT
1 T-TATTTT
43434326 AATAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 10 0.33
26 6 0.20
27 8 0.27
28 6 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTATTTTTTTAATAATATTAATTTAT
Found at i:43434941 original size:22 final size:20
Alignment explanation
Indices: 43434889--43434932 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
43434879 AAGTTGAACG
*
43434889 GAAAGAAGAAGATAGGAGAA
1 GAAAAAAGAAGATAGGAGAA
43434909 GAAAAAA-AAGATAGGAGAA
1 GAAAAAAGAAGATAGGAGAA
43434928 GAAAA
1 GAAAA
43434933 CAAGGAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.05
Consensus pattern (20 bp):
GAAAAAAGAAGATAGGAGAA
Found at i:43438623 original size:12 final size:12
Alignment explanation
Indices: 43438582--43438648 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
43438572 CCTGAGTGTA
43438582 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
43438594 GC-CGCCGCTCTG
1 GCTC-CGGCTCTG
* *
43438606 GGTCCGGCACTG
1 GCTCCGGCTCTG
*
43438618 CCTCCGGCTCTG
1 GCTCCGGCTCTG
*
43438630 GCTCTGGCTCTG
1 GCTCCGGCTCTG
43438642 GCTCCGG
1 GCTCCGG
43438649 AGCTAGTGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.01, C:0.42, G:0.34, T:0.22
Consensus pattern (12 bp):
GCTCCGGCTCTG
Found at i:43440275 original size:11 final size:11
Alignment explanation
Indices: 43440261--43440288 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43440251 ACATTATATC
43440261 AAAATTACATT
1 AAAATTACATT
43440272 AAAATTACATT
1 AAAATTACATT
43440283 AAAATT
1 AAAATT
43440289 TCTTACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACATT
Found at i:43441352 original size:3 final size:3
Alignment explanation
Indices: 43441346--43441414 Score: 77
Period size: 3 Copynumber: 22.7 Consensus size: 3
43441336 ACTAACATTT
* * * *
43441346 TTC TTC TTTC TCC TCC TTC TCC TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
43441392 TTC TTC TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC T-TC TT
43441415 TGCTGCTGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 49 0.86
4 6 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:43441583 original size:27 final size:27
Alignment explanation
Indices: 43441545--43441608 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
43441535 CTGCAGGGGA
43441545 GTCGCGCCTCTGCAGCAGGAGCGACTG
1 GTCGCGCCTCTGCAGCAGGAGCGACTG
43441572 GTCGCGCCTCTGCAGCAGGAGCGACTG
1 GTCGCGCCTCTGCAGCAGGAGCGACTG
43441599 GTCGCGCCTC
1 GTCGCGCCTC
43441609 CGGGTCTGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.12, C:0.36, G:0.36, T:0.16
Consensus pattern (27 bp):
GTCGCGCCTCTGCAGCAGGAGCGACTG
Found at i:43441706 original size:26 final size:27
Alignment explanation
Indices: 43441666--43441723 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
43441656 AAAAATTATT
43441666 AAAATATAATAAAATAATAATATTTAAA
1 AAAATATAATAAAATAATAATA-TTAAA
* *
43441694 AAAATA-AAT-AAATTATATTATTAAA
1 AAAATATAATAAAATAATAATATTAAA
43441719 AAAAT
1 AAAAT
43441724 GGGTCGCGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 10 0.36
26 9 0.32
27 3 0.11
28 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATATAATAAAATAATAATATTAAA
Done.