Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 146 of 226
Found at i:45696973 original size:18 final size:18
Alignment explanation
Indices: 45696952--45697001 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
45696942 TAGGAAAATA
45696952 TAAAAAAATA-TAAGTTAT
1 TAAAAAAATATTAAG-TAT
*
45696970 T-AAAAATTATTAAGTAT
1 TAAAAAAATATTAAGTAT
*
45696987 TATAAAAAATTTTAA
1 TA-AAAAAATATTAA
45697002 CAATTACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
TAAAAAAATATTAAGTAT
Found at i:45697007 original size:19 final size:20
Alignment explanation
Indices: 45696966--45697007 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
45696956 AAAATATAAG
* **
45696966 TTATTAAAAATTATTAAGTA
1 TTATAAAAAATTATTAACAA
45696986 TTATAAAAAATT-TTAACAA
1 TTATAAAAAATTATTAACAA
45697005 TTA
1 TTA
45697008 CTACTCCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATAAAAAATTATTAACAA
Found at i:45704047 original size:18 final size:19
Alignment explanation
Indices: 45704024--45704061 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
45704014 GGAAGCAAGC
*
45704024 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
45704042 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
45704061 A
1 A
45704062 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:45711025 original size:21 final size:21
Alignment explanation
Indices: 45711001--45711062 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 21
45710991 GACTCAAGAA
45711001 AATTTTGTCCTGATCAAAAAC
1 AATTTTGTCCTGATCAAAAAC
* * *
45711022 AA--TTG-ACTCAT-AAGAA-
1 AATTTTGTCCTGATCAAAAAC
45711038 AATTTTGTCCTGATCAAAAAC
1 AATTTTGTCCTGATCAAAAAC
45711059 AATT
1 AATT
45711063 GACTCAGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 4 0.13
18 7 0.23
19 7 0.23
20 4 0.13
21 6 0.20
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (21 bp):
AATTTTGTCCTGATCAAAAAC
Found at i:45711042 original size:37 final size:36
Alignment explanation
Indices: 45710987--45711068 Score: 148
Period size: 37 Copynumber: 2.3 Consensus size: 36
45710977 TTCCTGCCAA
45710987 AATTGACTC-AAGAAAATTTTGTCCTGATCAAAAAC
1 AATTGACTCAAAGAAAATTTTGTCCTGATCAAAAAC
45711022 AATTGACTCATAAGAAAATTTTGTCCTGATCAAAAAC
1 AATTGACTCA-AAGAAAATTTTGTCCTGATCAAAAAC
45711059 AATTGACTCA
1 AATTGACTCA
45711069 GGAATTTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 9 0.20
37 36 0.80
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (36 bp):
AATTGACTCAAAGAAAATTTTGTCCTGATCAAAAAC
Found at i:45713596 original size:67 final size:67
Alignment explanation
Indices: 45713488--45713622 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
45713478 TTTCCAATTC
* * *
45713488 AGAGAGCACACTCCCGCAAACTTCATTTCTTACAACTGGATTACCAGTCCAGGCTAAATCCCTTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
45713553 CA
66 CA
* * *
45713555 AGAGAGCACACTCTCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
45713620 CA
66 CA
45713622 A
1 A
45713623 TGACAATTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:45720378 original size:144 final size:143
Alignment explanation
Indices: 45720110--45720621 Score: 510
Period size: 144 Copynumber: 3.6 Consensus size: 143
45720100 TTAAGCTTGC
* * * * * * *
45720110 AACTCTGAAACAGCTTGCGGACCTATGCTCCTAGTTGATGTTTAAAGCTTAGCTGAGTTATGCTT
1 AACTCTGACACAGCTCGTGGACCTACGCTCCTAGTTGATGTTTAAAGGTTA-TTGAGTTATGCTC
* * * * *
45720175 ACAGCCTTTATTTATTTTTGTTAGTTGAGTTAAGCTCACAACTCCAAAAAAACTCACAAACCTAT
65 ACAACCTTCATTTATTTTAGTTAGTTGAGTTAAGCTCGCAACTCCAAAAAAACTCACAAACCTAC
45720240 GCTCCCAGCTAATA
130 GCTCCCAGCTAATA
* *
45720254 AACTCTGACACAGCTCGTGGACTTACGGTCCTAGTTGATGTTTAAAGGTTATATGAGTTATGCTC
1 AACTCTGACACAGCTCGTGGACCTACGCTCCTAGTTGATGTTTAAAGGTTAT-TGAGTTATGCTC
* * * * * *
45720319 ACAACATTCATTTATTTTAGTTAGCT-AGGTTAAGCTCGCAACTTCGAAACAACTTACAAACCTA
65 ACAACCTTCATTTATTTTAGTTAGTTGA-GTTAAGCTCGCAACTCCAAAAAAACTCACAAACCTA
*
45720383 CGCTCTCAGCTAATA
129 CGCTCCCAGCTAATA
* * * *
45720398 AACT-TCGACACAACTCATGGACCTGCGCTCCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCT
1 AACTCT-GACACAGCTCGTGGACCTACGCTCCTAGTTGATGTTTAAAGGTTA-TTGAGTTATGCT
* * ** *
45720462 CTCAACCTTCATTTATTTGAGTTAGTTGAGTTAAGCTCGCAACT---------CTGGCTAACCTA
64 CACAACCTTCATTTATTTTAGTTAGTTGAGTTAAGCTCGCAACTCCAAAAAAACTCACAAACCTA
* * *
45720518 CCCTTCCAGCTGATA
129 CGCTCCCAGCTAATA
* * * *
45720533 AACT-TCGACATAGCTCGTGGACCTACGCTACC-AGCTAATGTTTAAAGGTTAGTTGAGTTATGT
1 AACTCT-GACACAGCTCGTGGACCTACGCT-CCTAGTTGATGTTTAAAGGTTA-TTGAGTTATGC
* *
45720596 TCACAGCCTTCATTTATTTGAGTTAG
63 TCACAACCTTCATTTATTTTAGTTAG
45720622 CTGAATAGCT
Statistics
Matches: 316, Mismatches: 46, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
135 98 0.31
136 2 0.01
143 2 0.01
144 212 0.67
145 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (143 bp):
AACTCTGACACAGCTCGTGGACCTACGCTCCTAGTTGATGTTTAAAGGTTATTGAGTTATGCTCA
CAACCTTCATTTATTTTAGTTAGTTGAGTTAAGCTCGCAACTCCAAAAAAACTCACAAACCTACG
CTCCCAGCTAATA
Found at i:45720890 original size:8 final size:8
Alignment explanation
Indices: 45720877--45720902 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
45720867 GTAATCGCAA
45720877 AATGGTAT
1 AATGGTAT
45720885 AATGGTAT
1 AATGGTAT
45720893 AATGGTAT
1 AATGGTAT
45720901 AA
1 AA
45720903 CATTAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (8 bp):
AATGGTAT
Found at i:45732002 original size:21 final size:21
Alignment explanation
Indices: 45731978--45732039 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 21
45731968 GACTCAAGAA
45731978 AATTTTGTCCTGATCAAAAAC
1 AATTTTGTCCTGATCAAAAAC
* * *
45731999 AA--TTG-ACTCAT-AAGAA-
1 AATTTTGTCCTGATCAAAAAC
45732015 AATTTTGTCCTGATCAAAAAC
1 AATTTTGTCCTGATCAAAAAC
45732036 AATT
1 AATT
45732040 GACTCAGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 4 0.13
18 7 0.23
19 7 0.23
20 4 0.13
21 6 0.20
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (21 bp):
AATTTTGTCCTGATCAAAAAC
Found at i:45732019 original size:37 final size:36
Alignment explanation
Indices: 45731964--45732045 Score: 148
Period size: 37 Copynumber: 2.3 Consensus size: 36
45731954 TTCCTGCCAA
45731964 AATTGACTC-AAGAAAATTTTGTCCTGATCAAAAAC
1 AATTGACTCAAAGAAAATTTTGTCCTGATCAAAAAC
45731999 AATTGACTCATAAGAAAATTTTGTCCTGATCAAAAAC
1 AATTGACTCA-AAGAAAATTTTGTCCTGATCAAAAAC
45732036 AATTGACTCA
1 AATTGACTCA
45732046 GGAATTTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 9 0.20
37 36 0.80
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (36 bp):
AATTGACTCAAAGAAAATTTTGTCCTGATCAAAAAC
Found at i:45734571 original size:67 final size:66
Alignment explanation
Indices: 45734463--45734596 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 66
45734453 TTTCCAATTC
* *
45734463 AGAGAGCACACTCCCGCAAACTTCATTTCTTACAACTGGATTACCAGTCCAGGCTAAATCCCTTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCC-TG
45734528 CA
65 CA
* * *
45734530 AGAGAGCACACTCTCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCTGC
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCTGC
45734595 A
66 A
45734596 A
1 A
45734597 TGACAATTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 5 0.08
67 57 0.92
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCTGC
A
Found at i:45741150 original size:17 final size:17
Alignment explanation
Indices: 45741064--45741153 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
45741054 TTTTATATTT
*
45741064 AAAATATAAAAGTTATA
1 AAAATATAAAAATTATA
45741081 AAAATTACATAAAAATTATTA
1 AAAA-T--ATAAAAATTA-TA
* *
45741102 AAAATA-GAAAA-TATT
1 AAAATATAAAAATTATA
* ** *
45741117 AAAGTGCAAAAAATATA
1 AAAATATAAAAATTATA
*
45741134 AAAATATAAAATTTATA
1 AAAATATAAAAATTATA
45741151 AAA
1 AAA
45741154 TTATTATAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
15 5 0.09
16 6 0.11
17 26 0.47
18 2 0.04
20 10 0.18
21 6 0.11
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAATATAAAAATTATA
Found at i:45741222 original size:19 final size:20
Alignment explanation
Indices: 45741181--45741246 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
45741171 TATATATTAT
* * *
45741181 AAAAATAATTACAAACTACA
1 AAAAATTATTACAAAATAAA
45741201 AAAAATTATTA-AAAAT-AA
1 AAAAATTATTACAAAATAAA
* * *
45741219 AAAAATTTTATATAAAATAAT
1 AAAAATTAT-TACAAAATAAA
45741240 AAAAATT
1 AAAAATT
45741247 GTAAAAATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 15 0.39
21 8 0.21
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTATTACAAAATAAA
Found at i:45744058 original size:17 final size:16
Alignment explanation
Indices: 45744036--45744077 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
45744026 AACTTGAGCC
45744036 TTTATTTATTAATTTA
1 TTTATTTATTAATTTA
*
45744052 TTTTATTAATTAATTTA
1 -TTTATTTATTAATTTA
45744069 TTTATTTAT
1 TTTATTTAT
45744078 GAAATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTTATTAATTTA
Found at i:45746689 original size:12 final size:12
Alignment explanation
Indices: 45746672--45746696 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45746662 ACCCCATTTC
45746672 TTTTTTTTCTTT
1 TTTTTTTTCTTT
45746684 TTTTTTTTCTTT
1 TTTTTTTTCTTT
45746696 T
1 T
45746697 CTCCTCTTGG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:45749566 original size:43 final size:42
Alignment explanation
Indices: 45749522--45749681 Score: 200
Period size: 43 Copynumber: 3.8 Consensus size: 42
45749512 TGATACGTGT
*
45749522 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTGT
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTGTGA
*
45749565 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGA
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTGTGA
*
45749607 TTT-GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGA
1 TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TGTGA
* * * *
45749649 TTACATGTAAGACCACATCTGGGACGTTGGCAT
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCAT
45749682 TGTACGAGTC
Statistics
Matches: 102, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
40 2 0.02
41 29 0.28
42 10 0.10
43 59 0.58
44 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTGTGA
Found at i:45749670 original size:84 final size:84
Alignment explanation
Indices: 45749526--45749681 Score: 217
Period size: 84 Copynumber: 1.9 Consensus size: 84
45749516 ACGTGTTTTC
* * * * **
45749526 GTGTAAGACCACGTCTGGGACATTGGCATCGACTTGTGTTTTCGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGACTTGTGATTACATGTAAGACCACATCTGGGACA
45749591 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
45749610 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGA-TATGTGATTACATGTAAGACCACATCTGGGA
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCGACT-TGTGATTACATGTAAGACCACATCTGGGA
*
45749673 CGTTGGCAT
64 CATTGGCAT
45749682 TGTACGAGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
83 2 0.03
84 61 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGACTTGTGATTACATGTAAGACCACATCTGGGACA
TTGGCATCGTATTTGATTT
Found at i:45749871 original size:16 final size:17
Alignment explanation
Indices: 45749842--45749873 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45749832 TGAATTGTTG
45749842 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
45749859 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
45749874 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:45756100 original size:17 final size:17
Alignment explanation
Indices: 45756069--45756116 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
45756059 ATATATAAAT
45756069 AATTAAA-TAAATTGGA
1 AATTAAATTAAATTGGA
*
45756085 AATTAAATTGAATTGGA
1 AATTAAATTAAATTGGA
45756102 AATTAAATTCAAATT
1 AATTAAATT-AAATT
45756117 TTGTAATCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.25
17 17 0.61
18 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.35
Consensus pattern (17 bp):
AATTAAATTAAATTGGA
Found at i:45756863 original size:58 final size:58
Alignment explanation
Indices: 45756801--45756914 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
45756791 TGCAATAGCT
*
45756801 ATTGATGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAACC
1 ATTGACGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAACC
*
45756859 ATTGACGCATGAATTTGGAAAGGAAATAAAGTAATTCTTATTTAATCCAAATGAAA
1 ATTGACGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAA
45756915 TCAAGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (58 bp):
ATTGACGCATGAATTTGGAAAGGAAATAAAATAATTCTTATTTAATCCAAATGAAACC
Found at i:45758639 original size:27 final size:28
Alignment explanation
Indices: 45758609--45758661 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
45758599 GTGAATACAA
*
45758609 ATAAATTTTGTTATTATAAAA-AATTAT
1 ATAAATTTTATTATTATAAAATAATTAT
*
45758636 ATAAATTTTATTTTTATAAAATAATT
1 ATAAATTTTATTATTATAAAATAATT
45758662 TAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
ATAAATTTTATTATTATAAAATAATTAT
Found at i:45758718 original size:17 final size:16
Alignment explanation
Indices: 45758696--45758770 Score: 68
Period size: 17 Copynumber: 4.8 Consensus size: 16
45758686 CATAAATAAC
45758696 ATATAAATTATTGTTTA
1 ATATAAATTATT-TTTA
* *
45758713 ATATAAAGTAATTTTA
1 ATATAAATTATTTTTA
*
45758729 A-ATAATTTAATTTTTA
1 ATATAAATT-ATTTTTA
*
45758745 ATATAAA-TAATTTTA
1 ATATAAATTATTTTTA
45758760 A-AT-AATTATTT
1 ATATAAATTATTT
45758771 ATTATATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
13 2 0.04
14 6 0.13
15 12 0.26
16 13 0.28
17 14 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATATAAATTATTTTTA
Found at i:45758743 original size:16 final size:15
Alignment explanation
Indices: 45758721--45758766 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
45758711 TAATATAAAG
45758721 TAATTTTAAATAATT
1 TAATTTTAAATAATT
*
45758736 TAATTTTTAATATAA-A
1 TAA-TTTTAA-ATAATT
45758752 TAATTTTAAATAATT
1 TAATTTTAAATAATT
45758767 ATTTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 9 0.35
17 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTTAAATAATT
Found at i:45758820 original size:13 final size:13
Alignment explanation
Indices: 45758802--45758855 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
45758792 ATTATCCTTA
* *
45758802 ATAATAATTTATT
1 ATAATAAATAATT
45758815 ATAATAAATAATT
1 ATAATAAATAATT
45758828 AT-A-AAATAATT
1 ATAATAAATAATT
45758839 A-AATAAAATAATT
1 ATAAT-AAATAATT
45758852 ATAA
1 ATAA
45758856 AATATTCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 10 0.29
12 1 0.03
13 22 0.63
14 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATAAATAATT
Found at i:45758836 original size:11 final size:11
Alignment explanation
Indices: 45758820--45758859 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
45758810 TTATTATAAT
45758820 AAATAATTATA
1 AAATAATTATA
45758831 AAATAATTAAATA
1 AAATAATT--ATA
45758844 AAATAATTATA
1 AAATAATTATA
45758855 AAATA
1 AAATA
45758860 TTCTGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 16 0.59
13 11 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATTATA
Found at i:45758847 original size:24 final size:24
Alignment explanation
Indices: 45758812--45758859 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
45758802 ATAATAATTT
45758812 ATTATAATAAATAATTATAAAATA
1 ATTATAATAAATAATTATAAAATA
45758836 ATTA-AATAAAATAATTATAAAATA
1 ATTATAAT-AAATAATTATAAAATA
45758860 TTCTGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTATAATAAATAATTATAAAATA
Found at i:45760206 original size:12 final size:12
Alignment explanation
Indices: 45760191--45760216 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45760181 ATTAATTAAT
45760191 TTACTATTATTA
1 TTACTATTATTA
45760203 TTACTATTATTA
1 TTACTATTATTA
45760215 TT
1 TT
45760217 TTCCTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTACTATTATTA
Found at i:45761679 original size:25 final size:24
Alignment explanation
Indices: 45761651--45761704 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
45761641 TTACAAAGAG
*
45761651 AAAGTCCTAATAGAATTCCTAATTT
1 AAAGTACTAATAGAATTCCTAA-TT
* * *
45761676 AAAGTATTTATAGAATTCGTAATT
1 AAAGTACTAATAGAATTCCTAATT
45761700 AAAGT
1 AAAGT
45761705 TTATAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (24 bp):
AAAGTACTAATAGAATTCCTAATT
Found at i:45761714 original size:24 final size:25
Alignment explanation
Indices: 45761662--45761714 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
45761652 AAGTCCTAAT
*
45761662 AGAATTCCTAATTTAAAGTATTTAT
1 AGAATTCCTAATTTAAAGTATTTAA
*
45761687 AGAATTCGTAA-TTAAAGT-TTATAA
1 AGAATTCCTAATTTAAAGTATT-TAA
45761711 AGAA
1 AGAA
45761715 ATAAAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 13 0.52
25 10 0.40
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (25 bp):
AGAATTCCTAATTTAAAGTATTTAA
Found at i:45762283 original size:16 final size:16
Alignment explanation
Indices: 45762250--45762283 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45762240 GACTTTTGTT
* *
45762250 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
45762266 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
45762282 AA
1 AA
45762284 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:45765110 original size:21 final size:21
Alignment explanation
Indices: 45765084--45765124 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45765074 AGACGAGCAA
* *
45765084 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
45765105 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
45765125 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:45767059 original size:16 final size:16
Alignment explanation
Indices: 45767026--45767059 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45767016 GGAGATTGTT
* *
45767026 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
45767042 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
45767058 AA
1 AA
45767060 TACAAAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:45780895 original size:16 final size:16
Alignment explanation
Indices: 45780874--45780907 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45780864 AATTATTGAA
45780874 TATATTGTAATTAATG
1 TATATTGTAATTAATG
45780890 TATATTGTAATTAATG
1 TATATTGTAATTAATG
45780906 TA
1 TA
45780908 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
TATATTGTAATTAATG
Found at i:45781200 original size:9 final size:9
Alignment explanation
Indices: 45781186--45781294 Score: 110
Period size: 9 Copynumber: 11.7 Consensus size: 9
45781176 CCTAATTTTT
45781186 TAATTTGGG
1 TAATTTGGG
*
45781195 TAATTTGGA
1 TAATTTGGG
45781204 TAATTTTCGGG
1 TAA-TTT-GGG
* *
45781215 TAATTCGGA
1 TAATTTGGG
45781224 TAATTTGGG
1 TAATTTGGG
45781233 TAATTTTCGGG
1 TAA-TTT-GGG
*
45781244 TAATTCGGG
1 TAATTTGGG
*
45781253 TAATTCGGG
1 TAATTTGGG
* *
45781262 TAAGTCGGG
1 TAATTTGGG
45781271 TAATTTGGG
1 TAATTTGGG
*
45781280 TAATTCGGG
1 TAATTTGGG
45781289 TAATTT
1 TAATTT
45781295 TTAACCAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
9 63 0.75
10 10 0.12
11 11 0.13
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.40
Consensus pattern (9 bp):
TAATTTGGG
Found at i:45781227 original size:29 final size:29
Alignment explanation
Indices: 45781186--45781295 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 29
45781176 CCTAATTTTT
*
45781186 TAATTTGGGTAATTTGGATAATTTTCGGG
1 TAATTCGGGTAATTTGGATAATTTTCGGG
* *
45781215 TAATTCGGATAATTTGGGTAATTTTCGGG
1 TAATTCGGGTAATTTGGATAATTTTCGGG
* * *
45781244 TAATTCGGGTAATTCGGGTAA--GTCGGG
1 TAATTCGGGTAATTTGGATAATTTTCGGG
* * *
45781271 TAATTTGGGTAATTCGGGTAATTTT
1 TAATTCGGGTAATTTGGATAATTTT
45781296 TAACCAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
27 25 0.35
29 46 0.65
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (29 bp):
TAATTCGGGTAATTTGGATAATTTTCGGG
Found at i:45781428 original size:28 final size:27
Alignment explanation
Indices: 45781387--45781464 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
45781377 ATTATTTTTA
*
45781387 AAAAAATTCGGGTCGGTTAACGGTTA-
1 AAAAATTTCGGGTCGGTTAACGGTTAC
* *
45781413 AAAAATTTGGGAGGTCGATTAATTCGGTTAC
1 AAAAATTT-CG-GGTCGGTTAA--CGGTTAC
*
45781444 AAGAATTTCGGGTCGGTTAAC
1 AAAAATTTCGGGTCGGTTAAC
45781465 CGACTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
26 7 0.17
27 2 0.05
28 9 0.22
29 9 0.22
30 7 0.17
31 7 0.17
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (27 bp):
AAAAATTTCGGGTCGGTTAACGGTTAC
Found at i:45781463 original size:29 final size:26
Alignment explanation
Indices: 45781384--45781464 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 26
45781374 TTAATTATTT
*
45781384 TTAAAAAAATTCGGGTCGGTTAACGG
1 TTAAAAAATTTCGGGTCGGTTAACGG
* *
45781410 TTAAAAAATTTGGGAGGTCGATTAATTCGG
1 TTAAAAAATTT-CG-GGTCGGTTAA--CGG
*
45781440 TTACAAGAATTTCGGGTCGGTTAAC
1 TTA-AAAAATTTCGGGTCGGTTAAC
45781465 CGACTGAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
26 10 0.23
27 2 0.05
28 9 0.20
29 9 0.20
30 7 0.16
31 7 0.16
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (26 bp):
TTAAAAAATTTCGGGTCGGTTAACGG
Found at i:45782105 original size:8 final size:8
Alignment explanation
Indices: 45782078--45782159 Score: 56
Period size: 9 Copynumber: 9.2 Consensus size: 8
45782068 AAATCAAAAT
45782078 AAATTTAA
1 AAATTTAA
*
45782086 ATAATTTTA
1 A-AATTTAA
45782095 AAATTTCAA
1 AAATTT-AA
45782104 AATATTTATAA
1 AA-A-TT-TAA
*
45782115 AAATTTCA
1 AAATTTAA
45782123 AAATTTATA
1 AAATTTA-A
* *
45782132 TATTTTAA
1 AAATTTAA
45782140 AAATTTATAA
1 AAA-TT-TAA
45782150 AAATTTAA
1 AAATTTAA
45782158 AA
1 AA
45782160 GAATACATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
8 21 0.36
9 22 0.38
10 8 0.14
11 6 0.10
12 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATTTAA
Found at i:45782152 original size:10 final size:10
Alignment explanation
Indices: 45782078--45782156 Score: 50
Period size: 10 Copynumber: 8.7 Consensus size: 10
45782068 AAATCAAAAT
45782078 AAATTTA-AA
1 AAATTTATAA
*
45782087 TAATTT-T-A
1 AAATTTATAA
45782095 AAATTTCA-AA
1 AAATTT-ATAA
*
45782105 ATATTTATAA
1 AAATTTATAA
*
45782115 AAA-TT-TCA
1 AAATTTATAA
45782123 AAATTTAT--
1 AAATTTATAA
*
45782131 ATATTT-TAA
1 AAATTTATAA
45782140 AAATTTATAA
1 AAATTTATAA
45782150 AAATTTA
1 AAATTTA
45782157 AAAGAATACA
Statistics
Matches: 53, Mismatches: 7, Indels: 19
0.67 0.09 0.24
Matches are distributed among these distances:
7 1 0.02
8 16 0.30
9 15 0.28
10 21 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATTTATAA
Found at i:45788734 original size:60 final size:60
Alignment explanation
Indices: 45788620--45788734 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
45788610 TAATTCAATG
** * * *
45788620 ATCATTTTGTAATTTTTTGAAGTTAAATGATTAAAGTGTAAACTTTCTAGTAGTTCAGCA
1 ATCATTTTGTAATTTTTTGAAGTTAAATGACCAAAGTGTAAACTTACGAATAGTTCAGCA
* *
45788680 ATCATTTTGTAACTTTTTT-AAGTTGAGTGACCAAAGTGTAAACTTACGAATAGTT
1 ATCATTTTGTAA-TTTTTTGAAGTTAAATGACCAAAGTGTAAACTTACGAATAGTT
45788735 TAATGACCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 41 0.87
61 6 0.13
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (60 bp):
ATCATTTTGTAATTTTTTGAAGTTAAATGACCAAAGTGTAAACTTACGAATAGTTCAGCA
Found at i:45798716 original size:27 final size:27
Alignment explanation
Indices: 45798676--45798927 Score: 344
Period size: 27 Copynumber: 9.3 Consensus size: 27
45798666 GTAATGAGCC
45798676 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
**
45798703 TAAAATGATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
45798730 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
45798757 TAAAATGACCGAAATACCCTCGAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
45798784 TAAAATGACTAAAATAGCCC-CAAAGGG
1 TAAAATGACCGAAATA-CCCTCGAAGGG
* * *
45798811 TAAAATGACCGAAATACCCTGGAATGA
1 TAAAATGACCGAAATACCCTCGAAGGG
*
45798838 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
45798865 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
45798892 TAAAATTATCGAAATACCCCCGAAGAG
1 TAAAATGACCGAAATACCCTCGAAGGG
45798919 TAAAATGAC
1 TAAAATGAC
45798928 TGTTATACCT
Statistics
Matches: 195, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 189 0.97
28 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:45799373 original size:28 final size:28
Alignment explanation
Indices: 45799286--45799366 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
45799276 ACTGCATTGT
45799286 ACTGTTACTGTATTGGGCTAAGGCCTAC
1 ACTGTTACTGTATTGGGCTAAGGCCTAC
*
45799314 ACTATTACTGTATTGGGCTAAGGCCTAC
1 ACTGTTACTGTATTGGGCTAAGGCCTAC
* * *
45799342 ACTGTTGCTGTATAGGGCTCAGGCC
1 ACTGTTACTGTATTGGGCTAAGGCC
45799367 CAGACTGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCTAC
Found at i:45804900 original size:9 final size:9
Alignment explanation
Indices: 45804886--45804919 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
45804876 AACTATGAAA
45804886 TAAAAAAAT
1 TAAAAAAAT
45804895 TAAAAAAAT
1 TAAAAAAAT
*
45804904 TAAAAATTAT
1 TAAAAA-AAT
45804914 TAAAAA
1 TAAAAA
45804920 TTATTCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:45810038 original size:10 final size:10
Alignment explanation
Indices: 45810008--45810038 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
45809998 ATCACAAGTC
45810008 TTGTGATATA
1 TTGTGATATA
*
45810018 GTGTGATATA
1 TTGTGATATA
45810028 TTGTGATATA
1 TTGTGATATA
45810038 T
1 T
45810039 ATATGACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (10 bp):
TTGTGATATA
Found at i:45811396 original size:9 final size:10
Alignment explanation
Indices: 45811373--45811397 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45811363 GGGAAAGTAA
45811373 AAAAAATAAT
1 AAAAAATAAT
45811383 AAAAAATAAT
1 AAAAAATAAT
45811393 AAAAA
1 AAAAA
45811398 GATGAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:45828038 original size:15 final size:17
Alignment explanation
Indices: 45828000--45828034 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45827990 TAAGCTAAGT
*
45828000 TAATAAAAAATAATATA
1 TAATTAAAAATAATATA
45828017 TAAATTAAAAATAATATA
1 T-AATTAAAAATAATATA
45828035 ATTATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATTAAAAATAATATA
Found at i:45834194 original size:14 final size:14
Alignment explanation
Indices: 45834175--45834201 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45834165 TTAAAGATGA
45834175 TTAAAAACTAAGTG
1 TTAAAAACTAAGTG
45834189 TTAAAAACTAAGT
1 TTAAAAACTAAGT
45834202 AAAAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (14 bp):
TTAAAAACTAAGTG
Found at i:45849287 original size:16 final size:15
Alignment explanation
Indices: 45849262--45849295 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
45849252 AAAGTTGATA
*
45849262 ATAATTAATATATATT
1 ATAATAAATATA-ATT
45849278 ATAATAAATATAATT
1 ATAATAAATATAATT
45849293 ATA
1 ATA
45849296 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:45857760 original size:122 final size:122
Alignment explanation
Indices: 45857543--45857786 Score: 461
Period size: 122 Copynumber: 2.0 Consensus size: 122
45857533 ATCTCTGGCA
*
45857543 CTTATCACTATTAGTGTCTTTGCTAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
45857608 ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
66 ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
45857665 CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
* *
45857730 ACTGATGTACATGTAAGATGCTTTAGTTAATGTATGTGTTTCCTTACTGCAATGTAT
66 ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
45857787 TAATATCCTC
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (122 bp):
CTTATCACTATTAGTGTCTTTGATAGAAGTGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
ACCGATGTACATGTAAGATGCTTTAGTTAATGTATATGTTTCCTTACTGCAATGTAT
Found at i:45860875 original size:24 final size:23
Alignment explanation
Indices: 45860831--45860876 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45860821 TTAAGCTTAT
*
45860831 AAATAAAAAAAAAACCTTTAAGA
1 AAATAAAAAAAAAACCATTAAGA
* *
45860854 AAATAAAATAAAAGCCAATTAAG
1 AAATAAAAAAAAAACC-ATTAAG
45860877 CCCCTGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (23 bp):
AAATAAAAAAAAAACCATTAAGA
Found at i:45861066 original size:9 final size:9
Alignment explanation
Indices: 45861054--45861131 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
45861044 AAAATAATAA
45861054 AAAAATTAT
1 AAAAATTAT
45861063 AAAAA-TAT
1 AAAAATTAT
45861071 AAAAATTAAT
1 AAAAATT-AT
*
45861081 ATAAACTTAT
1 A-AAAATTAT
*
45861091 TAAAATTAT
1 AAAAATTAT
45861100 AAAAAAGTTAT
1 -AAAAA-TTAT
*
45861111 AAATATTAT
1 AAAAATTAT
45861120 -AAAA-TAT
1 AAAAATTAT
45861127 AAAAA
1 AAAAA
45861132 ATCTAATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 3 0.05
8 15 0.26
9 17 0.30
10 13 0.23
11 9 0.16
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:45861124 original size:56 final size:55
Alignment explanation
Indices: 45861055--45861179 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 55
45861045 AAATAATAAA
* **
45861055 AAAATTATAAAA-ATATAAAAAT-TAATATAAA-CTTATTAAAATTATAAAAAAGTTAT
1 AAAATTATAAAATATA-AAAAATCTAAT-TAAATC-TAAT-AAATTATAAAAAAAATAT
45861111 AAATATTATAAAATATAAAAAATCTAATTAAATCTAATAAATTATAAAAAAAATAT
1 AAA-ATTATAAAATATAAAAAATCTAATTAAATCTAATAAATTATAAAAAAAATAT
45861167 AAAATTAATAAAA
1 AAAATT-ATAAAA
45861180 CTTAATTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
55 3 0.05
56 28 0.46
57 22 0.36
58 8 0.13
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (55 bp):
AAAATTATAAAATATAAAAAATCTAATTAAATCTAATAAATTATAAAAAAAATAT
Found at i:45861142 original size:29 final size:28
Alignment explanation
Indices: 45861058--45861161 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 28
45861048 TAATAAAAAA
45861058 ATTATAAAA-ATATAAAAATTAATATAAACTT
1 ATTATAAAATATA-AAAAATTAAT-TAAA--T
*
45861089 ATTA-AAATTATAAAAAAGTT-A-TAAAT
1 ATTATAAAATATAAAAAA-TTAATTAAAT
45861115 ATTATAAAATATAAAAAATCTAATTAAAT
1 ATTATAAAATATAAAAAAT-TAATTAAAT
* * *
45861144 CTAATAAATTATAAAAAA
1 ATTATAAAATATAAAAAA
45861162 AATATAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
26 6 0.10
27 13 0.21
28 5 0.08
29 20 0.32
30 9 0.15
31 9 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTATAAAATATAAAAAATTAATTAAAT
Found at i:45861169 original size:27 final size:26
Alignment explanation
Indices: 45861068--45861178 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 26
45861058 ATTATAAAAA
* *
45861068 TATAAAAATTAATATAAACTTATTAAAAT
1 TATAAAAA-AAATATAAA-TTAAT-AAAT
** * *
45861097 TATAAAAAAGTTATAAATATTATAAAA
1 TATAAAAAAAATATAAAT-TAATAAAT
45861124 TATAAAAAATCTAAT-TAAATCTAATAAAT
1 TATAAAAAA---AATATAAAT-TAATAAAT
45861153 TATAAAAAAAATATAAAATTAATAAA
1 TATAAAAAAAATAT-AAATTAATAAA
45861179 ACTTAATTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
26 3 0.05
27 21 0.32
28 12 0.18
29 28 0.43
30 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (26 bp):
TATAAAAAAAATATAAATTAATAAAT
Found at i:45861184 original size:10 final size:9
Alignment explanation
Indices: 45861055--45861191 Score: 61
Period size: 10 Copynumber: 14.6 Consensus size: 9
45861045 AAATAATAAA
45861055 AAAATT-AT
1 AAAATTAAT
*
45861063 AAAAAT-AT
1 AAAATTAAT
45861071 AAAAATTAAT
1 -AAAATTAAT
*
45861081 ATAAACTTATT
1 A-AAA-TTAAT
*
45861092 AAAATTATAA
1 AAAATTA-AT
45861102 AAAAGTT-AT
1 AAAA-TTAAT
45861111 AAATATT-AT
1 AAA-ATTAAT
45861120 AAAATATAA-
1 AAAAT-TAAT
45861129 AAAATCTAAT
1 AAAAT-TAAT
*
45861139 TAAATCTAAT
1 AAAAT-TAAT
* *
45861149 AAATTATAAA
1 AAAAT-TAAT
*
45861159 AAAAAT-AT
1 AAAATTAAT
45861167 AAAATTAAT
1 AAAATTAAT
45861176 AAAACTTAATT
1 AAAA-TTAA-T
45861187 AAAAT
1 AAAAT
45861192 ATTTAAAATT
Statistics
Matches: 100, Mismatches: 16, Indels: 24
0.71 0.11 0.17
Matches are distributed among these distances:
8 15 0.15
9 36 0.36
10 37 0.37
11 12 0.12
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTAAT
Found at i:45861960 original size:16 final size:15
Alignment explanation
Indices: 45861941--45861984 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
45861931 AAACAATTAG
*
45861941 TTAATTAATTAAAGTT
1 TTAATTAACT-AAGTT
45861957 TTAATTAACTAAGTT
1 TTAATTAACTAAGTT
*
45861972 TAAATTTAACTAA
1 TTAA-TTAACTAA
45861985 TTATATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (15 bp):
TTAATTAACTAAGTT
Found at i:45862955 original size:15 final size:15
Alignment explanation
Indices: 45862935--45862966 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45862925 TTACTTTAGA
45862935 TTTTTTTATTGAATG
1 TTTTTTTATTGAATG
*
45862950 TTTTTTTGTTGAATG
1 TTTTTTTATTGAATG
45862965 TT
1 TT
45862967 CTTTAAGCTT
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:0.00, G:0.16, T:0.69
Consensus pattern (15 bp):
TTTTTTTATTGAATG
Found at i:45865265 original size:87 final size:87
Alignment explanation
Indices: 45865174--45865347 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
45865164 ATGCAGAGTA
45865174 AGTTTTTTTATTTGATTTTGAATTAACATATATACGTGAATTACATTGGTGTTTTGTTTATGCCA
1 AGTTTTTTTATTTGATTTTGAATTAACATATATACGTGAATTACATTGGTGTTTTGTTTATGCCA
45865239 AAATTATAAATACACGTGCTTG
66 AAATTATAAATACACGTGCTTG
45865261 AGTTTTTTTATTTGATTTTGAATTAACATATATACGTGAATTACATTGGTGTTTTGTTTATGCCA
1 AGTTTTTTTATTTGATTTTGAATTAACATATATACGTGAATTACATTGGTGTTTTGTTTATGCCA
*
45865326 AAATTATAAATACATGTGCTTG
66 AAATTATAAATACACGTGCTTG
45865348 TTAATTATTT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (87 bp):
AGTTTTTTTATTTGATTTTGAATTAACATATATACGTGAATTACATTGGTGTTTTGTTTATGCCA
AAATTATAAATACACGTGCTTG
Found at i:45866604 original size:61 final size:61
Alignment explanation
Indices: 45866480--45866605 Score: 193
Period size: 61 Copynumber: 2.1 Consensus size: 61
45866470 TCCATCTCAA
*
45866480 TTCGCAAGCTCTTTGTTTGCTACTCGCATGCAACCCTTGGAGACTATTCGTATTGCACCAG
1 TTCGCAAGCTCTTTGTTTGCTACTCGCATGCAACCCTTGGAGACTATTCGCATTGCACCAG
* *
45866541 TTCGCAAGCTCTTTGTTTG-TACCTCGCATGCAACCCTTGGAGACTGTTCGCACTT-CACTAG
1 TTCGCAAGCTCTTTGTTTGCTA-CTCGCATGCAACCCTTGGAGACTATTCGCA-TTGCACCAG
45866602 TTCG
1 TTCG
45866606 TAGCTCTATC
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
60 2 0.03
61 56 0.93
62 2 0.03
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (61 bp):
TTCGCAAGCTCTTTGTTTGCTACTCGCATGCAACCCTTGGAGACTATTCGCATTGCACCAG
Found at i:45874774 original size:19 final size:20
Alignment explanation
Indices: 45874750--45874801 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
45874740 AATATTGATA
*
45874750 TTAATAAT-AATTTATTATT
1 TTAATAATAAATTGATTATT
*
45874769 TTAATATTAAATTGATTATT
1 TTAATAATAAATTGATTATT
*
45874789 TTAATATTAAATT
1 TTAATAATAAATT
45874802 TAATTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATAAATTGATTATT
Found at i:45874781 original size:20 final size:20
Alignment explanation
Indices: 45874758--45874803 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
45874748 TATTAATAAT
45874758 AATTTATTATTTTAATATTA
1 AATTTATTATTTTAATATTA
*
45874778 AATTGATTATTTTAATATTA
1 AATTTATTATTTTAATATTA
45874798 AATTTA
1 AATTTA
45874804 ATTTAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
AATTTATTATTTTAATATTA
Found at i:45877987 original size:14 final size:14
Alignment explanation
Indices: 45877968--45877994 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45877958 ATTAGTACAG
45877968 TTTATTAGTTAAAA
1 TTTATTAGTTAAAA
45877982 TTTATTAGTTAAA
1 TTTATTAGTTAAA
45877995 GTCTCCCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTATTAGTTAAAA
Found at i:45879194 original size:50 final size:50
Alignment explanation
Indices: 45879074--45879260 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 50
45879064 TCTTGTACTA
* * ** *
45879074 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCCTATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * *
45879124 CC-ATGCCATGTCCCAAACATGGTCTTACGA-GGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATAGGTG
* * * *
45879173 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTATCATAATCTCAATGATT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTG
*
45879229 CCAATTCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
45879261 AGATCTCTTT
Statistics
Matches: 112, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 40 0.36
50 38 0.34
53 1 0.01
56 33 0.29
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
Found at i:45893049 original size:20 final size:20
Alignment explanation
Indices: 45893011--45893048 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45893001 TTAATTTCTG
**
45893011 TGTTTTGTTTTCTTATTTTA
1 TGTTTTGTTTAATTATTTTA
45893031 TGTTTTGTTTAATT-TTTT
1 TGTTTTGTTTAATTATTTT
45893049 TTTTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (20 bp):
TGTTTTGTTTAATTATTTTA
Found at i:45893672 original size:18 final size:18
Alignment explanation
Indices: 45893627--45893673 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
45893617 GTTAAAACAA
45893627 AGTGAGTGGAACAAAAGCAT
1 AGTGAGT-G-ACAAAAGCAT
*
45893647 AGTTAGTGACAAAAGCAT
1 AGTGAGTGACAAAAGCAT
*
45893665 TGTGAGTGA
1 AGTGAGTGA
45893674 AAGAGTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.71
19 1 0.04
20 6 0.25
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (18 bp):
AGTGAGTGACAAAAGCAT
Found at i:45902319 original size:20 final size:20
Alignment explanation
Indices: 45902285--45902345 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
45902275 TCTTAACAAT
45902285 AATTC-TAAAAA-AAATAAA
1 AATTCTTAAAAATAAATAAA
**
45902303 AATTCTTAAAAATAAATATG
1 AATTCTTAAAAATAAATAAA
*
45902323 AATTCTTAAAAAT-ATTAAA
1 AATTCTTAAAAATAAATAAA
45902342 AATT
1 AATT
45902346 ATGTTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 5 0.14
19 13 0.36
20 18 0.50
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTCTTAAAAATAAATAAA
Found at i:45904230 original size:113 final size:113
Alignment explanation
Indices: 45903934--45904238 Score: 346
Period size: 113 Copynumber: 2.7 Consensus size: 113
45903924 GCGGTATTTT
* * * * * *
45903934 TAGCGGCACTTTTTTAAAAATGCCGCTATAGGTTGACCATTAGCGA-TGCTTTTTGAAAAATGCT
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACT-C-TTTTGAAAAATGCT
* *
45903998 GCAAAAAAA-TTAAGCACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCAT
64 GCAAAAAAATTTAAGCACAA--CCGTCGTTTTATGTTGAGCTTCAATGGCAG
* * * * * * *
45904049 TAGCGGCGCTTTTTGAAAAACGTCACTATAGATCGAGCATTAGCAACGCATTTTGTAAAACGCCG
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACTC-TTTTGAAAAATGCTG
*
45904114 CAAAAAAATTTAAGCACAA-CGTCGTTTTATGTTGAGCTTTAATGGCAG
65 CAAAAAAATTTAAGCACAACCGTCGTTTTATGTTGAGCTTCAATGGCAG
* * * *
45904162 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAGTGACTCTTTATCAAAAATGTTG
1 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACTCTTT-TGAAAAATGCTG
45904227 CAAAAAATATTT
65 CAAAAAA-ATTT
45904239 TTTCTGTCTA
Statistics
Matches: 158, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
112 3 0.02
113 83 0.53
114 4 0.03
115 58 0.37
116 10 0.06
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (113 bp):
TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGACTCTTTTGAAAAATGCTGC
AAAAAAATTTAAGCACAACCGTCGTTTTATGTTGAGCTTCAATGGCAG
Found at i:45904570 original size:7 final size:7
Alignment explanation
Indices: 45904531--45904654 Score: 74
Period size: 7 Copynumber: 17.4 Consensus size: 7
45904521 TTAATTATCA
*
45904531 TTATAGT
1 TTATGGT
*
45904538 TTAAGGT
1 TTATGGT
*
45904545 TTATGAT
1 TTATGGT
*
45904552 TTAGGGT
1 TTATGGT
*
45904559 ATATGGT
1 TTATGGT
45904566 TTATGGT
1 TTATGGT
*
45904573 TTAAGGT
1 TTATGGT
45904580 TTA-GAAGT
1 TTATG--GT
45904588 TACTAT--T
1 T--TATGGT
**
45904595 TTAAAGT
1 TTATGGT
*
45904602 TTATGGA
1 TTATGGT
45904609 TTATGGGT
1 TTAT-GGT
* *
45904617 TTAGGGA
1 TTATGGT
*
45904624 TTATGGA
1 TTATGGT
45904631 TTATGGT
1 TTATGGT
45904638 TTATGGT
1 TTATGGT
45904645 TTATGGT
1 TTATGGT
45904652 TTA
1 TTA
45904655 AGGGTTGGGG
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 77 0.86
8 8 0.09
10 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:45904619 original size:22 final size:22
Alignment explanation
Indices: 45904594--45904660 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
45904584 AAGTTACTAT
*
45904594 TTTAAAGTTTATGGATTATGGG
1 TTTAAGGTTTATGGATTATGGG
* *
45904616 TTTAGGGATTATGGATTAT-GG
1 TTTAAGGTTTATGGATTATGGG
* * *
45904637 TTTATGGTTTATGGTTTAAGGG
1 TTTAAGGTTTATGGATTATGGG
45904659 TT
1 TT
45904661 GGGGCTTAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTATGGATTATGGG
Found at i:45904624 original size:15 final size:15
Alignment explanation
Indices: 45904600--45904629 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45904590 CTATTTTAAA
*
45904600 GTTTATGGATTATGG
1 GTTTAGGGATTATGG
45904615 GTTTAGGGATTATGG
1 GTTTAGGGATTATGG
45904630 ATTATGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GTTTAGGGATTATGG
Found at i:45904964 original size:13 final size:13
Alignment explanation
Indices: 45904946--45904970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45904936 CATTTTATAT
45904946 ATTTAAATATTAG
1 ATTTAAATATTAG
45904959 ATTTAAATATTA
1 ATTTAAATATTA
45904971 TTTATCATAG
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTAAATATTAG
Found at i:45905075 original size:43 final size:43
Alignment explanation
Indices: 45905012--45905252 Score: 324
Period size: 43 Copynumber: 5.6 Consensus size: 43
45905002 AATATTTTTT
*
45905012 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
45905055 TAAAGGTCATGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
45905098 TAAAGGTCTTGTTCTATAGCGGCGTTTTTGGGGAAAA-TGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGT-GGGAAAAGCGCCGC
* * * *
45905141 TAAATGTCTTATTCTATAGCGGCGCTTG-GGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
45905183 TAAAAGTCATGTTCTATAGCAGCATTTGTAGAAAAAGTGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
45905226 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
45905253 TTATATATAA
Statistics
Matches: 172, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
41 7 0.04
42 27 0.16
43 131 0.76
44 7 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:45905224 original size:85 final size:86
Alignment explanation
Indices: 45905012--45905249 Score: 327
Period size: 85 Copynumber: 2.8 Consensus size: 86
45905002 AATATTTTTT
* *
45905012 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
* *
45905077 TGTTTGTGGGAAAAGCGCCGC
66 CGCTTGTGGGAAAAGCGCCGC
* * * * *
45905098 TAAAGGTCTTGTTCTATAGCGGCGTTTTTGGGGAAAA-TGCCGCTAAATGTCTTATTCTATAGCG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGT-GGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCG
45905162 GCGCTTG-GGGAAAAGCGCCGC
65 GCGCTTGTGGGAAAAGCGCCGC
* * * * *
45905183 TAAAAGTCATGTTCTATAGCAGCATTTGTAGAAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
45905248 CG
66 CG
45905250 TTTTTATATA
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 5 0.04
85 65 0.50
86 54 0.41
87 7 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGG
CGCTTGTGGGAAAAGCGCCGC
Found at i:45906502 original size:154 final size:153
Alignment explanation
Indices: 45906221--45906683 Score: 718
Period size: 154 Copynumber: 3.0 Consensus size: 153
45906211 TGGTTTTGAC
* * * *
45906221 ATTAACCAGAAGTGTTCAATCAAAAAATTCTCTAAACTATTATGCGCATAAATAACAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAAC-TTTA
** * *
45906286 CAAATTTTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATTAATATTAGAAAAATGA
65 CAAAAATTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
45906351 ATTGTCTTAGTTGCATGATCCGAA
130 ATTGTCTTAGTTGCATGATCTGAA
45906375 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTCA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTT-A
*
45906440 CAAAAGTTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
65 CAAAAATTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
45906505 ATTATCTTAGTTGCATGATCTG--
130 ATTGTCTTAGTTGCATGATCTGAA
45906527 A-TAA-CAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTATA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTT-TA
* *** *
45906590 AAAAAAAAATTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAGTGA
65 CAAAAATTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGA
*
45906655 ATTGTCTTAATTGCATGATCTGAA
130 ATTGTCTTAGTTGCATGATCTGAA
45906679 ATTAA
1 ATTAA
45906684 TTATTTAAAC
Statistics
Matches: 286, Mismatches: 18, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
150 136 0.48
151 4 0.01
152 2 0.01
153 6 0.02
154 138 0.48
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (153 bp):
ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATAACAAACTTTAC
AAAAATTTTTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGAA
TTGTCTTAGTTGCATGATCTGAA
Found at i:45906731 original size:150 final size:150
Alignment explanation
Indices: 45906295--45906677 Score: 489
Period size: 150 Copynumber: 2.5 Consensus size: 150
45906285 ACAAATTTTT
* * *
45906295 TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATTAATATTAGAAAAATGAATTGTCTTA
1 TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGAATTATCTTA
* * * * * * * *
45906360 GTTGCATGATCCGAAATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATA
66 ATTGCATGATCTG--A-TAA-CAGAGGCATTCAAACAATAATTTCGCTAAACGATCAGGCGCATA
* ****
45906425 AATAACAAACTT-TCACAAAAGTTT
127 AATAACAAACTTAT-AAAAAAAAAA
45906449 TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGAATTATCTTA
1 TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGAATTATCTTA
* * * * * * *
45906514 GTTGCATGATCTGATAACAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCGCATAAATA
66 ATTGCATGATCTGATAACAGAGGCATTCAAACAATAATTTCGCTAAACGATCAGGCGCATAAATA
45906579 ACAAACTTATAAAAAAAAAA
131 ACAAACTTATAAAAAAAAAA
* *
45906599 TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAGTGAATTGTCTTA
1 TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGAATTATCTTA
45906664 ATTGCATGATCTGA
66 ATTGCATGATCTGA
45906678 AATTAATTAT
Statistics
Matches: 216, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
150 137 0.63
151 4 0.02
152 1 0.00
154 74 0.34
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (150 bp):
TTCAAACTCAATCAATAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATGAATTATCTTA
ATTGCATGATCTGATAACAGAGGCATTCAAACAATAATTTCGCTAAACGATCAGGCGCATAAATA
ACAAACTTATAAAAAAAAAA
Found at i:45909360 original size:12 final size:12
Alignment explanation
Indices: 45909343--45909369 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45909333 TAAAAAAATA
45909343 AATAATAATAAC
1 AATAATAATAAC
45909355 AATAATAATAAC
1 AATAATAATAAC
45909367 AAT
1 AAT
45909370 CATACCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:45913442 original size:17 final size:17
Alignment explanation
Indices: 45913420--45913452 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45913410 ATAAAAACTC
45913420 AATAAATAA-ATTTATTT
1 AATAAA-AAGATTTATTT
45913437 AATAAAAAGATTTATT
1 AATAAAAAGATTTATT
45913453 AGACTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAAAAGATTTATTT
Found at i:45914036 original size:14 final size:14
Alignment explanation
Indices: 45914017--45914044 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45914007 ATATTGTTGG
45914017 AAAATCAAATACTA
1 AAAATCAAATACTA
45914031 AAAATCAAATACTA
1 AAAATCAAATACTA
45914045 TTTGTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATCAAATACTA
Found at i:45914680 original size:14 final size:14
Alignment explanation
Indices: 45914661--45914695 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
45914651 AACTTTGATG
45914661 ATTTTAATTTCACC
1 ATTTTAATTTCACC
*
45914675 ATTTTAATTTCATC
1 ATTTTAATTTCACC
45914689 ATTTTAA
1 ATTTTAA
45914696 AGACAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTAATTTCACC
Found at i:45920417 original size:344 final size:344
Alignment explanation
Indices: 45919790--45920477 Score: 1376
Period size: 344 Copynumber: 2.0 Consensus size: 344
45919780 TGTTTGACAT
45919790 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
1 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
45919855 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
66 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
45919920 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
131 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
45919985 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
196 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
45920050 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
261 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
45920115 TAATTAGCAGAACGTGTCA
326 TAATTAGCAGAACGTGTCA
45920134 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
1 AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
45920199 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
66 AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
45920264 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
131 ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
45920329 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
196 GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
45920394 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
261 AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
45920459 TAATTAGCAGAACGTGTCA
326 TAATTAGCAGAACGTGTCA
45920478 GGCGGATTAT
Statistics
Matches: 344, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
344 344 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (344 bp):
AATTTGAAATGGGATGTATTAAGGGTAAATAGGTGGTATGATATGATTAAGATAGTGAGATGATT
AAATGATTGTTTATTTTATGAATGATAACGAAATGTTGAATTAAGTGAATTGAAATGTTATATGA
ATGAATTAATATATAGTATGATAAATGTTGAACTCACCTTTTTAATATGTGATTTGCCATGATAG
GCAAACTTTATCAAGCTAAGTAACATGTAGTGTATAATTATAACTGAGGTAAGTTATTTGGTTTT
AATACTTGTGAACTTACTAATCAACTGTAATGCTTACTCTCTTGTTTCATTTTTCCTTGTAGTGT
TAATTAGCAGAACGTGTCA
Found at i:45925196 original size:92 final size:91
Alignment explanation
Indices: 45925039--45925215 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 91
45925029 TTGTGAAGGC
*
45925039 TAATTAATAAACTTTATAAACTAATCAAAATTTCATAATTTAACTTAGGTCAATATCCTATGTCT
1 TAATTAATAAACTTTATAAACTAATCAAAATTTCATAATTTAACTTAGATCAATATCCTATGTCT
45925104 CAAGATTTACAATATATCAATTCACAA
66 CAAGA-TTACAATATATCAATTCACAA
* * * *
45925131 TAATTAATCAACTTTATAAACTCAT-AGACATTTCATAATTTAATTTAGATCAATATCCTATGTC
1 TAATTAATAAACTTTATAAACTAATCA-AAATTTCATAATTTAACTTAGATCAATATCCTATGTC
45925195 TCAAGATTACAATATATCAAT
65 TCAAGATTACAATATATCAAT
45925216 CTAAAGTACT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
91 16 0.20
92 63 0.80
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (91 bp):
TAATTAATAAACTTTATAAACTAATCAAAATTTCATAATTTAACTTAGATCAATATCCTATGTCT
CAAGATTACAATATATCAATTCACAA
Found at i:45943307 original size:45 final size:45
Alignment explanation
Indices: 45943116--45943291 Score: 192
Period size: 45 Copynumber: 3.9 Consensus size: 45
45943106 TATAATGGGC
* * * *
45943116 TCATACATGCGGATTCATAGAAAAAGATTCATAGACATGGCAGAT
1 TCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGAT
* * * * *
45943161 TCATACAAGTGAACTCATAGAAAATTATTCATATATATAGCAGAT
1 TCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGAT
* *** * * *
45943206 TCATATATGCAAATTCATAGAAAATGATTCACATATATGG-TGAAC
1 TCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAG-AT
45943251 TCATACATGTGGATTCATAGAAAATGATTCATATATATGGC
1 TCATACATGTGGATTCATAGAAAATGATTCATATATATGGC
45943292 GGACTTGTAC
Statistics
Matches: 105, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
44 1 0.01
45 104 0.99
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (45 bp):
TCATACATGTGGATTCATAGAAAATGATTCATATATATGGCAGAT
Found at i:45943318 original size:45 final size:45
Alignment explanation
Indices: 45943224--45943319 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
45943214 GCAAATTCAT
* * *
45943224 AGAAAATGATTCACATATATGGTGAACTCATACATGTGGATTCAT
1 AGAAAATGATTCACATATATGGCGAACTCATACATGTGGACTCAG
* * ** *
45943269 AGAAAATGATTCATATATATGGCGGACTTGTACATGTGGGCTCAG
1 AGAAAATGATTCACATATATGGCGAACTCATACATGTGGACTCAG
45943314 AGAAAA
1 AGAAAA
45943320 AACTTCATGG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (45 bp):
AGAAAATGATTCACATATATGGCGAACTCATACATGTGGACTCAG
Found at i:45943778 original size:14 final size:13
Alignment explanation
Indices: 45943755--45943784 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
45943745 ATATTTATTA
45943755 AACTAATTAAATT
1 AACTAATTAAATT
45943768 AACTAACTTAAATT
1 AACTAA-TTAAATT
45943782 AAC
1 AAC
45943785 CCAATGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
AACTAATTAAATT
Found at i:45945094 original size:16 final size:17
Alignment explanation
Indices: 45945063--45945103 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
45945053 AAGCAAAACA
45945063 AAAACAAAACAAAAATAG
1 AAAACAAAAC-AAAATAG
*
45945081 AAAACAAAAC-AAATTG
1 AAAACAAAACAAAATAG
45945097 AAAACAA
1 AAAACAA
45945104 GAAATAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
18 10 0.45
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAACAAAACAAAATAG
Found at i:45957543 original size:18 final size:19
Alignment explanation
Indices: 45957520--45957558 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
45957510 TTATTATTTA
*
45957520 ATTTGAA-TAATTGTTTCT
1 ATTTGAAGTAAATGTTTCT
45957538 ATTTGAAGTTAAATGTTTCT
1 ATTTGAAG-TAAATGTTTCT
45957558 A
1 A
45957559 ATTGTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
ATTTGAAGTAAATGTTTCT
Found at i:45960761 original size:31 final size:31
Alignment explanation
Indices: 45960725--45960783 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
45960715 AAGGTAGATA
45960725 AAAAATTAAAAATAAAAATATTTAATTAACT
1 AAAAATTAAAAATAAAAATATTTAATTAACT
*
45960756 AAAAATTCAAAATAAAAATATTTAATTA
1 AAAAATTAAAAATAAAAATATTTAATTA
45960784 TGTACAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (31 bp):
AAAAATTAAAAATAAAAATATTTAATTAACT
Found at i:45961154 original size:14 final size:13
Alignment explanation
Indices: 45961131--45961165 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
45961121 ATATTTATTA
45961131 AACTAATTAAATT
1 AACTAATTAAATT
45961144 AACTAACTTAAATT
1 AACTAA-TTAAATT
45961158 AACCTAAT
1 AA-CTAAT
45961166 GGAATTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 10 0.50
15 4 0.20
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
AACTAATTAAATT
Found at i:45963755 original size:28 final size:27
Alignment explanation
Indices: 45963692--45963843 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
45963682 ATATTAAGTC
* * *
45963692 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
45963719 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
45963747 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
45963774 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
45963802 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
45963829 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45963844 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:45963776 original size:55 final size:55
Alignment explanation
Indices: 45963692--45963843 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
45963682 ATATTAAGTC
* * *
45963692 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45963747 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45963802 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
45963844 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45971762 original size:28 final size:27
Alignment explanation
Indices: 45971699--45971850 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
45971689 ATATTAAGTC
* * *
45971699 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
45971726 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
45971754 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
45971781 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
45971809 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
45971836 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45971851 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:45971783 original size:55 final size:55
Alignment explanation
Indices: 45971699--45971850 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
45971689 ATATTAAGTC
* * *
45971699 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45971754 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45971809 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
45971851 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45995206 original size:18 final size:18
Alignment explanation
Indices: 45995183--45995236 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
45995173 TTCTAAGAAG
45995183 CACTTTTGGGACAAAAAC
1 CACTTTTGGGACAAAAAC
*
45995201 CACTTTTGGGATAAAAAC
1 CACTTTTGGGACAAAAAC
*
45995219 CACTTTTGAGACAAAAAC
1 CACTTTTGGGACAAAAAC
45995237 ATTCCTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (18 bp):
CACTTTTGGGACAAAAAC
Found at i:45997843 original size:53 final size:51
Alignment explanation
Indices: 45997815--45997919 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 51
45997805 GACTTGAAGT
*
45997815 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAATGGTTGTTTTGTAGCATAA
1 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAAT-GATGTTTTGTAGCATAA
*
45997867 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAATGGTTGTTTTGTAGCATAA
1 GATTGTTTTTAAAGATCTTAAATTTGTTTTAAAT-GATGTTTTGTAGCATAA
45997919 G
1 G
45997920 TGTTTTATGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.50
Consensus pattern (51 bp):
GATTGTTTTTAAAGATCTTAAATTTGTTTTAAATGATGTTTTGTAGCATAA
Found at i:46003345 original size:23 final size:23
Alignment explanation
Indices: 46003305--46003653 Score: 439
Period size: 23 Copynumber: 15.0 Consensus size: 23
46003295 TGGATTGCTC
* * *
46003305 TTATACATCAAATCGGACATCAT
1 TTATACACCAAATTGGACAGCAT
* *
46003328 TTATACACCCAATTGGACAGTAT
1 TTATACACCAAATTGGACAGCAT
* *
46003351 ATATATATACCAAATTGGACAACAT
1 -T-TATACACCAAATTGGACAGCAT
46003376 TTATACACCAAATTGGACAGCATT
1 TTATACACCAAATTGGACAGCA-T
* * *
46003400 TTATACATCAAATTGAATAGCAT
1 TTATACACCAAATTGGACAGCAT
*
46003423 ATATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46003446 TTATACACCAAATTGGGCAACAT
1 TTATACACCAAATTGGACAGCAT
* * *
46003469 ATATATACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
46003492 TTATACACCAAAATTGGACAGCAT
1 TTATACACC-AAATTGGACAGCAT
46003516 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
*
46003539 ATATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
*
46003562 TTATACACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
**
46003585 TTATACACCAAATTGGGTAGCAT
1 TTATACACCAAATTGGACAGCAT
* * *
46003608 ATATATACCAAATTGGACCA-AAT
1 TTATACACCAAATTGGA-CAGCAT
46003631 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
46003654 ATATCCACTA
Statistics
Matches: 279, Mismatches: 41, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
22 2 0.01
23 214 0.77
24 45 0.16
25 18 0.06
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (23 bp):
TTATACACCAAATTGGACAGCAT
Found at i:46003520 original size:116 final size:115
Alignment explanation
Indices: 46003306--46003657 Score: 499
Period size: 116 Copynumber: 3.0 Consensus size: 115
46003296 GGATTGCTCT
* * * * *
46003306 TATACATCAAATCGGACATCATTTATACACCCAATTGGACAGTATATATATATACCAAATTGGAC
1 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACA--ACATATATATACCAAATTGGAC
* * *
46003371 AACATTTATACACCAAATTGGACAGCATTTTATACATCAAATTGAATAGCATA
64 AACATTTATACACCAAATTGGACAGCA-TTTATACACCAAATTGGACAGCATA
*
46003424 TATACACCAAATTGGACAGCATTTATACACCAAATTGGGCAACATATATATACCAAATTGGACAA
1 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
46003489 CATTTATACACCAAAATTGGACAGCATTTATACACCAAATTGGACAGCATA
66 CATTTATACACC-AAATTGGACAGCATTTATACACCAAATTGGACAGCATA
* * ** *
46003540 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATTTATACACCAAATTGGGTAG
1 TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
* * *
46003605 CATATATATACCAAATTGGACCA-AATTTATACACCAAATTGGACAGCATA
66 CATTTATACACCAAATTGGA-CAGCATTTATACACCAAATTGGACAGCATA
46003655 TAT
1 TAT
46003658 CCACTAATTC
Statistics
Matches: 214, Mismatches: 18, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
115 37 0.17
116 128 0.60
117 13 0.06
118 36 0.17
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (115 bp):
TATACACCAAATTGGACAGCATTTATACACCAAATTGGACAACATATATATACCAAATTGGACAA
CATTTATACACCAAATTGGACAGCATTTATACACCAAATTGGACAGCATA
Found at i:46012094 original size:23 final size:23
Alignment explanation
Indices: 46012055--46012414 Score: 404
Period size: 23 Copynumber: 15.6 Consensus size: 23
46012045 TGGACAACTC
* * *
46012055 TTATACATC-AATCGGACAGTAT
1 TTATACACCAAATTGGACAGCAT
* *
46012077 TTATACACCCAATTGGACAGTAT
1 TTATACACCAAATTGGACAGCAT
* *
46012100 ACATATATACCAAATTGGACAGCATT
1 --TTATACACCAAATTGGACAGCA-T
* *
46012126 TTATACACCAAATTGAACAACAT
1 TTATACACCAAATTGGACAGCAT
* *
46012149 ATATATACCAAATTGGACAGCATT
1 TTATACACCAAATTGGACAGCA-T
*
46012173 TTATACACCAAATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* * *
46012196 ATATACACCAAATTAGACAGTAT
1 TTATACACCAAATTGGACAGCAT
*
46012219 TTATACACCAAATTGGGCAGCA-
1 TTATACACCAAATTGGACAGCAT
* *
46012241 -TATATACCAAATTGGACAACAT
1 TTATACACCAAATTGGACAGCAT
46012263 TTATACACCAAAATTGGACAGCAT
1 TTATACACC-AAATTGGACAGCAT
46012287 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46012310 ATATACACCAAATTGGACAGGAT
1 TTATACACCAAATTGGACAGCAT
*
46012333 TTATACACC-AATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* * * *
46012355 ATATATACCAAATTAGACAACAT
1 TTATACACCAAATTGGACAGCAT
46012378 TTATACACCAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46012401 ATATACACTAAATT
1 TTATACACCAAATT
46012415 CACTTGAATC
Statistics
Matches: 283, Mismatches: 46, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
21 18 0.06
22 26 0.09
23 160 0.57
24 60 0.21
25 18 0.06
26 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (23 bp):
TTATACACCAAATTGGACAGCAT
Found at i:46012264 original size:91 final size:90
Alignment explanation
Indices: 46012068--46012414 Score: 406
Period size: 91 Copynumber: 3.8 Consensus size: 90
46012058 TACATCAATC
* * * * *
46012068 GGACAGTATTTATACACCCAATTGGACAGTATACATATATACCAAATTGGACAGCATTTTATACA
1 GGACAGCATTTATACACCAAATTGGACAGCAT--ATATACACCAAATTGGACAGCA-TATATACA
* *
46012133 CCAAATTGAACAACATATATATACCAAATT
63 CCAAATTGGACAGC--ATATATACCAAATT
* * * *
46012163 GGACAGCATTTTATACACCAAATTGGGCAGCATATATACACCAAATTAGACAGTATTTATACACC
1 GGACAGCA-TTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATACACC
*
46012228 AAATTGGGCAGCATATATACCAAATT
65 AAATTGGACAGCATATATACCAAATT
* *
46012254 GGACAACATTTATACACCAAAATTGGACAGCATTTATACACCAAATTGGACAGCATATATACACC
1 GGACAGCATTTATACACC-AAATTGGACAGCATATATACACCAAATTGGACAGCATATATACACC
* * *
46012319 AAATTGGACAGGATTTATACACCAATT
65 AAATTGGACAGCATATATAC-CAAATT
* * * * * * *
46012346 GGGCAGCATATATATACCAAATTAGACAACATTTATACACCAAATTGGACAGCATATATACACTA
1 GGACAGCATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATACACCA
46012411 AATT
66 AATT
46012415 CACTTGAATC
Statistics
Matches: 222, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
90 10 0.05
91 127 0.57
92 19 0.09
93 19 0.09
94 19 0.09
95 7 0.03
96 21 0.09
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (90 bp):
GGACAGCATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATACACCA
AATTGGACAGCATATATACCAAATT
Found at i:46012290 original size:114 final size:113
Alignment explanation
Indices: 46012055--46012414 Score: 463
Period size: 114 Copynumber: 3.1 Consensus size: 113
46012045 TGGACAACTC
* * * * * * * *
46012055 TTATACATC-AATCGGACAGTATTTATACACCCAATTGGACAGTATACATATATACCAAATTGGA
1 TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGTAT--TTATACACCAAATTGGG
* * * *
46012119 CAGCATTTTATACACCAAATTGAACAACATATATATACCAAATTGGACAGCATT
64 CAGCA---TATATACCAAATTGGACAACATTTATACACCAAATTGGACAGCA-T
* *
46012173 TTATACACCAAATTGGGCAGCATATATACACCAAATTAGACAGTATTTATACACCAAATTGGGCA
1 TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGTATTTATACACCAAATTGGGCA
46012238 GCATATATACCAAATTGGACAACATTTATACACCAAAATTGGACAGCAT
66 GCATATATACCAAATTGGACAACATTTATACACC-AAATTGGACAGCAT
*
46012287 TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGGATTTATACACC-AATTGGGCA
1 TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGTATTTATACACCAAATTGGGCA
*
46012351 GCATATATATACCAAATTAGACAACATTTATACACCAAATTGGACAGCAT
66 GC--ATATATACCAAATTGGACAACATTTATACACCAAATTGGACAGCAT
* *
46012401 ATATACACTAAATT
1 TTATACACCAAATT
46012415 CACTTGAATC
Statistics
Matches: 218, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
113 11 0.05
114 106 0.49
115 44 0.20
117 19 0.09
118 8 0.04
119 30 0.14
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (113 bp):
TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGTATTTATACACCAAATTGGGCA
GCATATATACCAAATTGGACAACATTTATACACCAAATTGGACAGCAT
Found at i:46021334 original size:9 final size:9
Alignment explanation
Indices: 46021299--46021362 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
46021289 TTGAAAAGTC
46021299 AATAATATT
1 AATAATATT
* *
46021308 AATTATTTT
1 AATAATATT
*
46021317 AATTA-ATT
1 AATAATATT
46021325 AATAATATT
1 AATAATATT
*
46021334 AAAAAATATT
1 -AATAATATT
46021344 AA-AATAATT
1 AATAAT-ATT
*
46021353 AATAACATT
1 AATAATATT
46021362 A
1 A
46021363 TAAAAATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 9 0.20
9 26 0.58
10 10 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATAATATT
Found at i:46021401 original size:30 final size:29
Alignment explanation
Indices: 46021365--46021421 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
46021355 TAACATTATA
46021365 AAAATATAA-ATATCAAATTATATTAAAATT
1 AAAATATAAGA-AT-AAATTATATTAAAATT
*
46021395 AAAATATAAGAATTAATTATATTAAAA
1 AAAATATAAGAATAAATTATATTAAAA
46021422 AAATCAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 13 0.52
30 11 0.44
31 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATATAAGAATAAATTATATTAAAATT
Found at i:46021413 original size:24 final size:24
Alignment explanation
Indices: 46021363--46021421 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
46021353 AATAACATTA
* *
46021363 TAAAAATATAAATATCAAATTATAT
1 TAAAATTA-AAATATAAAATTATAT
46021388 TAAAATTAAAATATAAGAATTA-AT
1 TAAAATTAAAATATAA-AATTATAT
*
46021412 T-ATATTAAAA
1 TAAAATTAAAA
46021422 AAATCAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATTAAAATATAAAATTATAT
Found at i:46024262 original size:16 final size:16
Alignment explanation
Indices: 46024238--46024344 Score: 61
Period size: 16 Copynumber: 6.7 Consensus size: 16
46024228 GGTAATTTGT
*
46024238 TATGTGAACCCCCATG
1 TATGCGAACCCCCATG
*
46024254 TATGCGAACCCCCATA
1 TATGCGAACCCCCATG
* ***
46024270 TATGTGAACCATTATG
1 TATGCGAACCCCCATG
* * *
46024286 TATGCGAATCTCCTTG
1 TATGCGAACCCCCATG
* ** *
46024302 TATGCTAACCCTTAGG
1 TATGCGAACCCCCATG
* **
46024318 TATGTGAACCCTTATG
1 TATGCGAACCCCCATG
*
46024334 AATGCGAACCC
1 TATGCGAACCC
46024345 TAGGTGAACT
Statistics
Matches: 66, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 66 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (16 bp):
TATGCGAACCCCCATG
Found at i:46024573 original size:76 final size:75
Alignment explanation
Indices: 46024433--46024679 Score: 347
Period size: 76 Copynumber: 3.3 Consensus size: 75
46024423 TATAAGTGAA
* *
46024433 TATGCGAACCCTACATATTATGCGAACCCATATACAAACTCTTATATGATTTAATATGCGATCTC
1 TATGCGAACCCTACATATTATGCGAACCCATATGCAAAC-CTTATATGATTTAGTATGCGATCTC
46024498 TTACCATATAT
65 TTACCATATAT
** * * * *
46024509 TATTTGAATCCTACATATTATGTGAACCCATATGCAAACCATTATATGATTTAGTATACAATCTC
1 TATGCGAACCCTACATATTATGCGAACCCATATGCAAACC-TTATATGATTTAGTATGCGATCTC
46024574 TTA-C-TATA-
65 TTACCATATAT
* *
46024582 TATGCGAACCCTACATATTATGCCAACCCATATGCAAACCTTATATGATTTAGTATGTGATCTCT
1 TATGCGAACCCTACATATTATGCGAACCCATATGCAAACCTTATATGATTTAGTATGCGATCTCT
*
46024647 TACTATATAT
66 TACCATATAT
*
46024657 TATGCGAACCCTATATATTATGC
1 TATGCGAACCCTACATATTATGC
46024680 AGACCCTATA
Statistics
Matches: 149, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
72 24 0.16
73 35 0.23
74 8 0.05
75 24 0.16
76 58 0.39
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.36
Consensus pattern (75 bp):
TATGCGAACCCTACATATTATGCGAACCCATATGCAAACCTTATATGATTTAGTATGCGATCTCT
TACCATATAT
Found at i:46024672 original size:18 final size:18
Alignment explanation
Indices: 46024649--46024708 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
46024639 TGATCTCTTA
46024649 CTATATATTATGCGAACC
1 CTATATATTATGCGAACC
46024667 CTATATATTATGC-AGACC
1 CTATATATTATGCGA-ACC
* *
46024685 CTATATTTTATGTGAACC
1 CTATATATTATGCGAACC
46024703 CTATAT
1 CTATAT
46024709 GAATTAGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.03
18 36 0.95
19 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (18 bp):
CTATATATTATGCGAACC
Found at i:46024871 original size:25 final size:25
Alignment explanation
Indices: 46024834--46024882 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
46024824 TGCATGAAGA
*
46024834 AACTGTGTATGTGTAATTGATATGG
1 AACTCTGTATGTGTAATTGATATGG
*
46024859 AACTCTGTGTGTGTAATTGATATG
1 AACTCTGTATGTGTAATTGATATG
46024883 TGTAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (25 bp):
AACTCTGTATGTGTAATTGATATGG
Found at i:46024886 original size:13 final size:13
Alignment explanation
Indices: 46024841--46024889 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
46024831 AGAAACTGTG
46024841 TATGTGTAATTGA
1 TATGTGTAATTGA
46024854 TATG-G-AACTCTG-
1 TATGTGTAA-T-TGA
*
46024866 TGTGTGTAATTGA
1 TATGTGTAATTGA
46024879 TATGTGTAATT
1 TATGTGTAATT
46024890 TTGGAGTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.07
12 7 0.24
13 18 0.62
14 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (13 bp):
TATGTGTAATTGA
Found at i:46031714 original size:62 final size:59
Alignment explanation
Indices: 46031608--46031724 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
46031598 ATCAATTTAA
* * * *
46031608 TATTAAATTAATATAATATTTACTAAAATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAAATAATAGAATATTTACTAAAATAAACATTAAATTAAATTTAATATTAAATTT
*
46031667 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTA-AA-ATAAACATTAAATTAAATTTAATATTAA
46031725 TATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 19 0.38
60 3 0.06
61 2 0.04
62 26 0.52
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTACTAAAATAAACATTAAATTAAATTTAATATTAAATTT
Found at i:46031788 original size:37 final size:35
Alignment explanation
Indices: 46031742--46031810 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
46031732 ACTTTAATAG
46031742 TAAATTAATAAAATACT-ATTAAAATAAGTATTAAAT
1 TAAATTAATAAAATA-TAATTAAAATAA-TATTAAAT
**
46031778 TAAATTTAATATTATATAATTAAAATAATATTA
1 TAAA-TTAATAAAATATAATTAAAATAATATTA
46031811 TTTTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 10 0.34
37 19 0.66
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (35 bp):
TAAATTAATAAAATATAATTAAAATAATATTAAAT
Found at i:46033361 original size:15 final size:15
Alignment explanation
Indices: 46033341--46033372 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
46033331 TATACATGCA
46033341 AAATATCAAAGACAT
1 AAATATCAAAGACAT
46033356 AAATATCAAAGACAT
1 AAATATCAAAGACAT
46033371 AA
1 AA
46033373 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATCAAAGACAT
Found at i:46038612 original size:12 final size:12
Alignment explanation
Indices: 46038595--46038619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46038585 TTTAAGTTGA
46038595 TTTATTTAATTT
1 TTTATTTAATTT
46038607 TTTATTTAATTT
1 TTTATTTAATTT
46038619 T
1 T
46038620 ATTTTAACTC
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTAATTT
Found at i:46045828 original size:19 final size:19
Alignment explanation
Indices: 46045804--46045857 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
46045794 CTTGAAAAAG
*
46045804 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
46045823 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
46045842 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46045858 AGATAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:46045883 original size:22 final size:22
Alignment explanation
Indices: 46045804--46045880 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
46045794 CTTGAAAAAG
*
46045804 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAA
46045823 GATATGCAATCTT---AGATAA
1 GATATGCAATCTTAGAAGATAA
46045842 GATATGCAATCTTAGAAGATAA
1 GATATGCAATCTTAGAAGATAA
* *
46045864 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
46045881 GATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 31 0.61
22 8 0.16
23 12 0.24
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAA
Found at i:46046752 original size:24 final size:24
Alignment explanation
Indices: 46046721--46046970 Score: 148
Period size: 24 Copynumber: 10.7 Consensus size: 24
46046711 GTGTATTGTA
*
46046721 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
46046745 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
46046768 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
46046790 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
46046815 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
46046838 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
46046860 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
46046884 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
46046907 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
46046929 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
46046953 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
46046971 ATCCAATTCA
Statistics
Matches: 171, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.08
23 46 0.27
24 77 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:46046801 original size:70 final size:69
Alignment explanation
Indices: 46046719--46046886 Score: 180
Period size: 70 Copynumber: 2.4 Consensus size: 69
46046709 AAGTGTATTG
* * ** *
46046719 TATATTATTATTTTAGATTTATCATGTTTTAT-TATTTGTAATTTATCAATATTATTATTTTAAA
1 TATACTATTATTTTAGATTTATCATG-TATATCTATTTCAAATTTATCAATAATA-T-TTTTAAA
*
46046783 TTCATTG
63 TTCATTA
* *
46046790 T-TAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATT
1 TAT-ACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATT
*
46046853 TATTA
65 CATTA
* *
46046858 TATACTATTATTTTGGATTTATCACGTAT
1 TATACTATTATTTTAGATTTATCATGTAT
46046887 GATTATTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
68 15 0.19
69 26 0.32
70 38 0.47
71 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (69 bp):
TATACTATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTC
ATTA
Found at i:46046904 original size:69 final size:68
Alignment explanation
Indices: 46046680--46046961 Score: 206
Period size: 69 Copynumber: 4.1 Consensus size: 68
46046670 TTATACTTAT
* * * * * *
46046680 TATTA-TTA-AATTAATCATTAATATTATCTAAGTGTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTAGAATTTATCATTAATATT-TTTAAATTTATTATATACTATTATTTTAGATTTATCA
*
46046743 TGTTT
65 TG-TA
* * * * *
46046748 TATTATTT-GTAATTTATCAATATTATTATTTTAAATTCATTGT-TAAC-ATTATTTTAAATTTA
1 TATTATTTAG-AATTTATCATTAATA-T-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTA
46046810 TCATGTA
62 TCATGTA
*
46046817 TATCTATTTCA-AATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATC
1 TAT-TATTT-AGAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATC
*
46046881 ACGTA
64 ATGTA
* * * * * *
46046886 TGATTATTCTAGAA-TTATCATCAAAATTTTTAAATTT-TATATGTATTATTATTTCAAATTTAT
1 T-ATTATT-TAGAATTTATCATTAATATTTTTAAATTTAT-TATATACTATTATTTTAGATTTAT
*
46046949 --TATA
63 CATGTA
46046953 TATTATTTA
1 TATTATTTA
46046962 TTGTAAATTA
Statistics
Matches: 173, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
65 2 0.01
66 6 0.03
67 3 0.02
68 21 0.12
69 73 0.42
70 55 0.32
71 12 0.07
72 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
TATTATTTAGAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTAGATTTATCAT
GTA
Found at i:46047046 original size:23 final size:23
Alignment explanation
Indices: 46047019--46047063 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
46047009 AATTGTACAT
*
46047019 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
46047042 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
46047064 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:46054361 original size:17 final size:17
Alignment explanation
Indices: 46054292--46054371 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 17
46054282 CGAGAACTTC
46054292 AAAAGAAAAGA-AAATA
1 AAAAGAAAAGAGAAATA
** *
46054308 AAAA-TCAAGAGAAAGA
1 AAAAGAAAAGAGAAATA
** * *
46054324 AAAA-ATGAGAGAGA-G
1 AAAAGAAAAGAGAAATA
46054339 AAAAGAAAAGAGAAATA
1 AAAAGAAAAGAGAAATA
*
46054356 AAAAGAGAAGAGAAAT
1 AAAAGAAAAGAGAAAT
46054372 GAGATTGTTG
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
15 8 0.17
16 25 0.52
17 15 0.31
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAGAGAAATA
Found at i:46054372 original size:42 final size:42
Alignment explanation
Indices: 46054295--46054375 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
46054285 GAACTTCAAA
* * *
46054295 AGAAAAGAAAATAAAAATCAAGAGAAAGAAAAAATGAGAGAG
1 AGAAAAGAAAAGAAAAATAAAAAGAAAGAAAAAATGAGAGAG
* *
46054337 AGAAAAGAAAAGAGAAATAAAAAGAGAAG-AGAAATGAGA
1 AGAAAAGAAAAGAAAAATAAAAAGA-AAGAAAAAATGAGA
46054376 TTGTTGTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.69, C:0.01, G:0.23, T:0.06
Consensus pattern (42 bp):
AGAAAAGAAAAGAAAAATAAAAAGAAAGAAAAAATGAGAGAG
Found at i:46062018 original size:6 final size:7
Alignment explanation
Indices: 46062003--46062027 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46061993 ATTTTGATTA
46062003 TTTTATT
1 TTTTATT
46062010 TTTTATT
1 TTTTATT
46062017 TTTTATT
1 TTTTATT
46062024 TTTT
1 TTTT
46062028 CTCTCTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Done.