Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 328 of 333
Found at i:106292527 original size:3 final size:3
Alignment explanation
Indices: 106292519--106292581 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
106292509 GAGCAGAAAG
* *
106292519 AGA AGA AGA AAA AGA A-A AGA AGG AGA AGAA AGAA AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AG-A AGA AGA AGA AGA
*
106292564 AGA AGAA AGA AAA AGA AG
1 AGA AG-A AGA AGA AGA AG
106292582 GGGAGGAGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 4 0.08
3 36 0.72
4 10 0.20
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:106292538 original size:14 final size:15
Alignment explanation
Indices: 106292515--106292580 Score: 57
Period size: 14 Copynumber: 4.4 Consensus size: 15
106292505 TCGGGAGCAG
*
106292515 AAAGAGAAG-AAGAA
1 AAAGAAAAGAAAGAA
*
106292529 AAAGAAAAG-AAGGA
1 AAAGAAAAGAAAGAA
*
106292543 GAAG-AAAGAAAGAA
1 AAAGAAAAGAAAGAA
106292557 GAGAAGAAGAAGAAAGAA
1 -A-AAGAA-AAGAAAGAA
106292575 AAAGAA
1 AAAGAA
106292581 GGGGAGGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 4 0.10
14 19 0.45
16 8 0.19
17 2 0.05
18 9 0.21
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAGAA
Found at i:106292561 original size:22 final size:22
Alignment explanation
Indices: 106292513--106292579 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
106292503 TTTCGGGAGC
* * *
106292513 AGAAAGAGAAGAAGAAAAAGAAA
1 AGAAGGAGAAGAA-AGAAAGAAG
106292536 AGAAGGAGAAGAAAGAAAGAAG
1 AGAAGGAGAAGAAAGAAAGAAG
*
106292558 AGAAGAAGAAGAAAGAAA-AAG
1 AGAAGGAGAAGAAAGAAAGAAG
106292579 A
1 A
106292580 AGGGGAGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.10
22 24 0.60
23 12 0.30
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
AGAAGGAGAAGAAAGAAAGAAG
Found at i:106292678 original size:22 final size:22
Alignment explanation
Indices: 106292641--106292690 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
106292631 AAAAAAAAAG
*
106292641 AGAAGGAGAAGGAGAAGAAAGAA
1 AGAA-GAGAAGAAGAAGAAAGAA
106292664 AGAAGAGAAGAAGAAGAAAGAA
1 AGAAGAGAAGAAGAAGAAAGAA
106292686 A-AAGA
1 AGAAGA
106292691 AGGGGAGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 4 0.15
22 18 0.69
23 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AGAAGAGAAGAAGAAGAAAGAA
Found at i:106292695 original size:111 final size:111
Alignment explanation
Indices: 106292536--106292865 Score: 586
Period size: 111 Copynumber: 3.0 Consensus size: 111
106292526 GAAAAAGAAA
106292536 AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
1 AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
106292601 GGAGGTCGGCACTTGAGAGAAGAAAAAAGAAAAAAAAAAGAGAAGG
66 GGAGGTCGGCACTTGAGAGAAGAAAAAAGAAAAAAAAAAGAGAAGG
106292647 AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
1 AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
106292712 GGAGGTCGGCACTTGAGAGAAGAAAAAAG-----AAAAA-A-AA-G
66 GGAGGTCGGCACTTGAGAGAAGAAAAAAGAAAAAAAAAAGAGAAGG
106292750 AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
1 AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
* *
106292815 GGAGGCCGGAACTTGAGAGAAGAAAAAAGAAAAAAAAAAGAGAAGG
66 GGAGGTCGGCACTTGAGAGAAGAAAAAAGAAAAAAAAAAGAGAAGG
106292861 AGAAG
1 AGAAG
106292866 AAGAGGGAAG
Statistics
Matches: 209, Mismatches: 2, Indels: 16
0.92 0.01 0.07
Matches are distributed among these distances:
103 93 0.44
104 2 0.01
105 1 0.00
106 5 0.02
108 5 0.02
109 1 0.00
110 2 0.01
111 100 0.48
ACGTcount: A:0.58, C:0.03, G:0.37, T:0.02
Consensus pattern (111 bp):
AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAGGAGGAGGAGAAGAA
GGAGGTCGGCACTTGAGAGAAGAAAAAAGAAAAAAAAAAGAGAAGG
Found at i:106292748 original size:9 final size:10
Alignment explanation
Indices: 106292729--106292794 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 10
106292719 GGCACTTGAG
106292729 AGAAGAAAAA
1 AGAAGAAAAA
106292739 AGAA-AAAAA
1 AGAAGAAAAA
**
106292748 AG-AG-AAGG
1 AGAAGAAAAA
106292756 AGAAGAAAGAA
1 AGAAGAAA-AA
*
106292767 AGAAGAGAAGA
1 AGAAGA-AAAA
106292778 AGAAGAAAGAA
1 AGAAGAAA-AA
106292789 A-AAGAA
1 AGAAGAA
106292795 GGGGAGGAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.11
9 9 0.20
10 13 0.30
11 15 0.34
12 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (10 bp):
AGAAGAAAAA
Found at i:106292775 original size:22 final size:21
Alignment explanation
Indices: 106292727--106292793 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
106292717 TCGGCACTTG
*
106292727 AGAGAAGAAAAAAGAAA-AAAA
1 AGAGAAG-AAGAAGAAAGAAAA
*
106292748 AGAGAAGGAGAAGAAAGAAAGA
1 AGAGAAGAAGAAGAAAGAAA-A
106292770 AGAGAAGAAGAAGAAAGAAAA
1 AGAGAAGAAGAAGAAAGAAAA
106292791 AGA
1 AGA
106292794 AGGGGAGGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 7 0.17
21 14 0.34
22 20 0.49
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AGAGAAGAAGAAGAAAGAAAA
Found at i:106292894 original size:103 final size:105
Alignment explanation
Indices: 106292521--106292896 Score: 573
Period size: 103 Copynumber: 3.5 Consensus size: 105
106292511 GCAGAAAGAG
*
106292521 AAGAAGAAAAAGAAA-AGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGG
1 AAGAA-AAAAA-AAAGAGAAGGAGAAGAAAGAAAGAAGAGAAAAAGAAGAAAGAAAAAGAAGGGG
106292585 AGGAGGAGGAGAAGAAGGAGGTCGGCACTTGAGAGAAGAAAA
64 AGGAGGAGGAGAAGAAGGAGGTCGGCACTTGAGAGAAGAAAA
106292627 AAGAAAAAAAAAAGAGAAGGAGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAA
1 AAGAAAAAAAAAAGAGAAGGAGAA-GA-AAGAAAG-AAG-AGA-AA-AAGAAGAAAGAAAAAGAA
106292692 GGGGAGGAGGAGGAGAAGAAGGAGGTCGGCACTTGAGAGAAGAAAA
60 GGGGAGGAGGAGGAGAAGAAGGAGGTCGGCACTTGAGAGAAGAAAA
*
106292738 AAG--AAAAAAAAGAGAAGGAGAAGAAAGAAAGAAGAGAAGAAGAAGAAAGAAAAAGAAGGGGAG
1 AAGAAAAAAAAAAGAGAAGGAGAAGAAAGAAAGAAGAGAAAAAGAAGAAAGAAAAAGAAGGGGAG
* *
106292801 GAGGAGGAGAAGAAGGAGGCCGGAACTTGAGAGAAGAAAA
66 GAGGAGGAGAAGAAGGAGGTCGGCACTTGAGAGAAGAAAA
** *
106292841 AAGAAAAAAAAAAGAGAAGGAGAAG-AAGAGGGAAG-GAAAAAGAAGGAAAAAAAAAG
1 AAGAAAAAAAAAAGAGAAGGAGAAGAAAGAAAGAAGAGAAAAAGAA-GAAAGAAAAAG
106292897 GTAAATTTTT
Statistics
Matches: 252, Mismatches: 8, Indels: 22
0.89 0.03 0.08
Matches are distributed among these distances:
103 73 0.29
104 22 0.09
105 38 0.15
106 10 0.04
107 14 0.06
108 5 0.02
109 22 0.09
110 1 0.00
111 67 0.27
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (105 bp):
AAGAAAAAAAAAAGAGAAGGAGAAGAAAGAAAGAAGAGAAAAAGAAGAAAGAAAAAGAAGGGGAG
GAGGAGGAGAAGAAGGAGGTCGGCACTTGAGAGAAGAAAA
Found at i:106293519 original size:152 final size:147
Alignment explanation
Indices: 106293344--106293886 Score: 571
Period size: 151 Copynumber: 3.6 Consensus size: 147
106293334 GGTGACGAGT
106293344 TTTTTACTAAAATAATATAAAAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATT
1 TTTTTACTAAAATAATAT---AAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATT
* * *
106293409 TGAAAATAAAAAAATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAACTATAAAAAAATAC
63 AGAAAAT-AAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAATATAAAAAAATAC
106293474 TTAAATAATACATTTGAAACA
127 TTAAATAATACATTTGAAACA
* * * *
106293495 GTTTTTGCTAAAATAATATAAAAAAATACGAAA-AT---AATATTA-AATTTAAAAAATAATA-T
1 -TTTTTACTAAAATAATATAAAAAAATA--AAATATGAAAATAGTATATTTTAAAAAATAAAATT
* * ** *
106293554 ACAAAAGTAAAAAATACGAATAAAGTGATAAACTCAGGGTTATTTATTTAAAAAATATAAAAAAA
63 AGAAAA-TAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTA-TT--AAAATATAAAAAAA
*
106293619 TACTTAAATAAATAATACATTTAAAACA
124 TAC-T---TAAATAATACATTTGAAACA
* * *
106293647 TTATGTATTAAAATAATATAAAGAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTAG
1 TT-TTTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTAG
* * * *
106293712 AAAATTAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAGAAAACAC
65 AAAA-TAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAAT-ATA-AAAAAATAC
*
106293777 TTAAGTAATACATTTGAAACAA
127 TTAAATAATACATTTGAAAC-A
* * * * *
106293799 TTTTTGCTAAAATAATATAAAAAAATAAAATACTTAAAA-AATATATTTGAAAAAATAATA-TAC
1 TTTTTACTAAAATAATATAAAAAAATAAAATA-TGAAAATAGTATATTTTAAAAAATAAAATTA-
* * *
106293862 GAAAGTAAAAAATATGAATAAAGTG
64 GAAAATAAAAAATACGAACAAAGTG
106293887 GTAATATATA
Statistics
Matches: 325, Mismatches: 44, Indels: 46
0.78 0.11 0.11
Matches are distributed among these distances:
145 38 0.12
146 17 0.05
147 6 0.02
148 16 0.05
149 10 0.03
150 24 0.07
151 72 0.22
152 65 0.20
153 4 0.01
154 10 0.03
155 23 0.07
156 40 0.12
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.30
Consensus pattern (147 bp):
TTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTAGA
AAATAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAATATAAAAAAATACTTAA
ATAATACATTTGAAACA
Found at i:106293829 original size:18 final size:17
Alignment explanation
Indices: 106293806--106293839 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
106293796 CAATTTTTGC
106293806 TAAAATAATATAAAAAAA
1 TAAAATAAT-TAAAAAAA
*
106293824 TAAAATACTTAAAAAA
1 TAAAATAATTAAAAAA
106293840 TATATTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAATAATTAAAAAAA
Found at i:106293865 original size:15 final size:15
Alignment explanation
Indices: 106293807--106293865 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
106293797 AATTTTTGCT
106293807 AAAATAATATA--AA
1 AAAATAATATACGAA
* *
106293820 AAAATAAAATACTTAA
1 AAAATAATATAC-GAA
**
106293836 AAAAT-ATATTTGAA
1 AAAATAATATACGAA
106293850 AAAATAATATACGAA
1 AAAATAATATACGAA
106293865 A
1 A
106293866 GTAAAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
13 10 0.29
14 7 0.20
15 11 0.31
16 7 0.20
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (15 bp):
AAAATAATATACGAA
Found at i:106293873 original size:151 final size:149
Alignment explanation
Indices: 106293344--106294313 Score: 743
Period size: 148 Copynumber: 6.6 Consensus size: 149
106293334 GGTGACGAGT
* * * *
106293344 TTTTTACTAAAATAATATAAAAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATT
1 TTTTTACTAAAATAATAT---AAAAAAATAAAATATTAAAA-AATATATTTTAAAAAATAATATA
* * **
106293409 TGAAAATAAAAAAATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAACTATA-AAAAAATA
62 CGAAAAT-AAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAAAATATAAAAAATA
*
106293473 C-TTAAATAATACATTTGAAACAG
126 CTTTAAATAATACATTTGAAACAA
* * * *
106293496 TTTTTGCTAAAATAATATAAAAAAATACGAAA-A-T-AATATTA-AATTTAAAAAATAATATAC-
1 TTTTTACTAAAATAATATAAAAAAATA--AAATATTAAAAAATATATTTTAAAAAATAATATACG
* ** *
106293556 AAAAGTAAAAAATACGAATAAAGTGATAAACTCAGGGTTATTTATTTAAAAAATATAAAAAAATA
64 AAAA-TAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTA-TTAAAAAATAT-AAAAAATA
*
106293621 CTTAAATAAATAATACATTTAAAAC-A
126 CTT---TAAATAATACATTTGAAACAA
* * * * * *
106293647 TTATGTATTAAAATAATATAAAGAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTA-
1 TT-TTTACTAAAATAATATAAAAAAATAAAATATTAAAA-AATATATTTTAAAAAATAATA-TAC
* * * *
106293711 GAAAATTAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAGAAAACA
63 GAAAA-TAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAA-AAATATAAAAAATA
*
106293776 C-TTAAGTAATACATTTGAAACAA
126 CTTTAAATAATACATTTGAAACAA
* *
106293799 TTTTTGCTAAAATAATATAAAAAAATAAAATACTTAAAAAATATATTTGAAAAAATAATATACGA
1 TTTTTACTAAAATAATATAAAAAAATAAAATA-TTAAAAAATATATTTTAAAAAATAATATACGA
* * * * *
106293864 AAGTAAAAAATATG----AA-T---AAAGT---GGTAATATA-TAAAAAATACTTAAATAATACA
65 AAATAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAAAATA--TAAAAAATAC-
* * *
106293917 TTTGAAA-CAT--TTTTTACTAA-AA
127 TTT-AAATAATACATTTGA--AACAA
** **
106293939 -TAATA-TAAAA-AA-ATATGAAAAT--AATATT-----A-A-A-TTTAAAAAATAATATACGAA
1 TTTTTACTAAAATAATATAAAAAAATAAAATATTAAAAAATATATTTTAAAAAATAATATACGAA
* * ** *
106293990 AGTAAAAAATACGAATAAAGTGATAAAATCAGGGTTATTTATTTAAAAAATATAAAAAATACTTA
66 AATAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTA-TTAAAAAATATAAAAAATACTT-
106294055 AATAAATAATACATTTGAAAC-A
129 --TAAATAATACATTTGAAACAA
* * * * * *
106294077 TTATGTACTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCCA
1 TT-TTTACTAAAATAATATAAAAAAATAAAATATTAAAA-AATATATTTTAAAAAATAATATACG
* * *
106294142 AAAATTAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACAC
64 AAAA-TAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAA-AAATATAAAAAATAC
*
106294207 -TT--A-AGTACATTTGAAACAA
127 TTTAAATAATACATTTGAAACAA
* * * *
106294226 TTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAATAATATATTTTAAGAAATAATATACGA
1 TTTTTACTAAAATAATATAAAAAAATAAAATA-TTAAAAAATATATTTTAAAAAATAATATACGA
* *
106294291 AATTAAAAAATACGAATAAAGTG
65 AAATAAAAAATACGAACAAAGTG
106294314 GTAATATATA
Statistics
Matches: 646, Mismatches: 103, Indels: 143
0.72 0.12 0.16
Matches are distributed among these distances:
125 31 0.05
126 1 0.00
127 1 0.00
128 1 0.00
129 2 0.00
130 1 0.00
133 6 0.01
134 4 0.01
135 2 0.00
136 24 0.04
137 9 0.01
138 24 0.04
139 21 0.03
140 8 0.01
141 11 0.02
142 9 0.01
143 7 0.01
145 43 0.07
146 25 0.04
147 21 0.03
148 75 0.12
149 17 0.03
150 16 0.02
151 73 0.11
152 65 0.10
153 3 0.00
154 28 0.04
155 73 0.11
156 45 0.07
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (149 bp):
TTTTTACTAAAATAATATAAAAAAATAAAATATTAAAAAATATATTTTAAAAAATAATATACGAA
AATAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAAAATATAAAAAATACTTTA
AATAATACATTTGAAACAA
Found at i:106293907 original size:128 final size:124
Alignment explanation
Indices: 106293764--106294011 Score: 354
Period size: 128 Copynumber: 2.0 Consensus size: 124
106293754 TATTAAATTA
* * *
106293764 ATATAGAAAACACTTAAGTAATACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATA-AA
1 ATATAAAAAACACTTAAATAATACATTTGAAACAATTTTTACTAAAATAATATAAAAAAATAGAA
* *
106293828 ATACTTAAAAAATATATTTGAAAAAATAATATACGAAAGTAAAAAATATGAATAAAGTGGTAAT
66 A-A--T-AAAAATAAATTT-AAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTGGTAAT
* *
106293892 ATATAAAAAATACTTAAATAATACATTTGAAACATTTTTTACTAAAATAATATAAAAAAATATGA
1 ATATAAAAAACACTTAAATAATACATTTGAAACAATTTTTACTAAAATAATATAAAAAAATA-GA
* *
106293957 AAATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTG
65 AAATAAAAATAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTG
106294012 ATAAAATCAG
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
125 38 0.35
126 9 0.08
127 1 0.01
128 57 0.52
129 1 0.01
130 3 0.03
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.29
Consensus pattern (124 bp):
ATATAAAAAACACTTAAATAATACATTTGAAACAATTTTTACTAAAATAATATAAAAAAATAGAA
AATAAAAATAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTGGTAAT
Found at i:106293959 original size:11 final size:10
Alignment explanation
Indices: 106293934--106293985 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
106293924 CATTTTTTAC
106293934 TAAAATAATA
1 TAAAATAATA
*
106293944 TAAAAAAATA
1 TAAAATAATA
106293954 TGAAAATAATA
1 T-AAAATAATA
* *
106293965 TTAAAT-TTA
1 TAAAATAATA
*
106293974 AAAAATAATA
1 TAAAATAATA
106293984 TA
1 TA
106293986 CGAAAGTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 6 0.19
10 17 0.53
11 9 0.28
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAATAATA
Found at i:106294384 original size:430 final size:429
Alignment explanation
Indices: 106293461--106294417 Score: 1629
Period size: 427 Copynumber: 2.2 Consensus size: 429
106293451 TTTATTAAAC
* *
106293461 TATA-AAAAAATACTTAAATAATACATTTGAAACAGTTTTTGCTAAAATAATATAAAAAAATACG
1 TATATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATATG
* *
106293525 AAAATAATATTAAATTTAAAAAATAATATACAAAAGTAAAAAATACGAATAAAGTGATAAACTCA
66 AAAATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTGATAAAATCA
*
106293590 GGGTTATTTATTTAAAAAATATAAAAAAATACTTAAATAAATAATACATTTAAAACATTATGTAT
131 GGGTTATTTATTTAAAAAATATAAAAAAATACTTAAATAAATAATACATTTAAAACATTATGTAC
* *
106293655 TAAAATAATATAAAGAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTAGAAAATTAA
196 TAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCAGAAAATTAA
*
106293720 AAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAGAAAACACTTAAGTAA
261 AAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAG--A
*
106293785 TACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACTTAAAAAATATATTTGAA
324 TACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAAAAATATATTTGAA
*
106293850 AAAATAATATACGAAAGTAAAAAATATGAATAAAGTGGTAA
389 AAAATAATATACGAAAGTAAAAAATACGAATAAAGTGGTAA
*
106293891 TATATAAAAAATACTTAAATAATACATTTGAAACATTTTTTACTAAAATAATATAAAAAAATATG
1 TATATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATATG
106293956 AAAATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTGATAAAATCA
66 AAAATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTGATAAAATCA
*
106294021 GGGTTATTTATTTAAAAAATAT-AAAAAATACTTAAATAAATAATACATTTGAAACATTATGTAC
131 GGGTTATTTATTTAAAAAATATAAAAAAATACTTAAATAAATAATACATTTAAAACATTATGTAC
106294085 TAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCCA-AAAATTA
196 TAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAAT-CAGAAAATTA
106294149 AAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAG-T
260 AAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGAT
* * *
106294213 ACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAATAATATATTTTAAG
325 ACATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAAAAATATATTTGAAA
*
106294278 AAATAATATACGAAATTAAAAAATACGAATAAAGTGGTAA
390 AAATAATATACGAAAGTAAAAAATACGAATAAAGTGGTAA
* * *
106294318 TATATAAAAAACACTTAAATAATACATTTGAAACATTTTTTGCTAAAATGATATAAAAATAAAAT
1 TATATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAA-AATAT
* * *
106294383 -ATACT-ATATTATATTTTAAAAAATAATATACGAAA
65 GAAAATAATATTA-AATTTAAAAAATAATATACGAAA
106294418 ATGTTTTACT
Statistics
Matches: 500, Mismatches: 23, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
426 6 0.01
427 181 0.36
428 4 0.01
430 166 0.33
431 143 0.29
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.30
Consensus pattern (429 bp):
TATATAAAAAATACTTAAATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATATG
AAAATAATATTAAATTTAAAAAATAATATACGAAAGTAAAAAATACGAATAAAGTGATAAAATCA
GGGTTATTTATTTAAAAAATATAAAAAAATACTTAAATAAATAATACATTTAAAACATTATGTAC
TAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCAGAAAATTAA
AAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGATA
CATTTGAAACAATTTTTGCTAAAATAATATAAAAAAATAAAATACGTAAAAAATATATTTGAAAA
AATAATATACGAAAGTAAAAAATACGAATAAAGTGGTAA
Found at i:106296130 original size:30 final size:30
Alignment explanation
Indices: 106296094--106296269 Score: 280
Period size: 30 Copynumber: 5.8 Consensus size: 30
106296084 ACTTTTCTCA
*
106296094 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
106296124 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
106296154 ACTAGCCACTCTTTTTTCCACCACCAACTCC
1 ACTAGCCACAC-CTTTTCCACCACCAACTCC
*
106296185 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
106296215 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
106296245 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
106296270 CTTGTACCTA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
30 107 0.79
31 28 0.21
ACGTcount: A:0.26, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:106296177 original size:61 final size:60
Alignment explanation
Indices: 106296094--106296269 Score: 316
Period size: 61 Copynumber: 2.9 Consensus size: 60
106296084 ACTTTTCTCA
*
106296094 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
106296154 ACTAGCCACTCTTTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACTC-TTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
106296215 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
106296270 CTTGTACCTA
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
60 53 0.48
61 58 0.52
ACGTcount: A:0.26, C:0.48, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:106296850 original size:25 final size:25
Alignment explanation
Indices: 106296774--106296971 Score: 84
Period size: 25 Copynumber: 7.8 Consensus size: 25
106296764 ATATTTATTA
* *
106296774 ATATTATATTATATATATTCTTTTAAT
1 ATATTATA-TATATATATT-TTATACT
** ** *
106296801 ATATTAGGTATAT-T-TTAAATTCT
1 ATATTATATATATATATTTTATACT
*
106296824 ATATTACATATATATATTTTATACT
1 ATATTATATATATATATTTTATACT
* * * * *
106296849 ATTTTATGTATATATCTTTAATATT
1 ATATTATATATATATATTTTATACT
*
106296874 ATATTATTTATATATATATTTTTTAC-
1 ATATTA--TATATATATATTTTATACT
* * *
106296900 ATGTTATCTTATGTATATATCTTA-ACT
1 ATATTA---TATATATATATTTTATACT
* * *
106296927 ATATTATTTATGTAT-TTTTAACACT
1 ATATTATATATATATATTTT-ATACT
* *
106296952 ATATTATGTACATAT-TTTTA
1 ATATTATATATATATATTTTA
106296972 ATATTATCAC
Statistics
Matches: 126, Mismatches: 37, Indels: 19
0.69 0.20 0.10
Matches are distributed among these distances:
23 16 0.13
24 11 0.09
25 50 0.40
26 12 0.10
27 37 0.29
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
ATATTATATATATATATTTTATACT
Found at i:106296892 original size:56 final size:52
Alignment explanation
Indices: 106296831--106296937 Score: 126
Period size: 56 Copynumber: 2.0 Consensus size: 52
106296821 TCTATATTAC
* * *
106296831 ATATATATATTTT-ATACTATTTTATGTATATATCTTTAATATTATATTATTTAT
1 ATATATATTTTTTAATACTATCTTATGTATATATC-TT-A-ACTATATTATTTAT
**
106296885 ATATATATTTTTTACATGTTATCTTATGTATATATCTTAACTATATTATTTAT
1 ATATATATTTTTTA-ATACTATCTTATGTATATATCTTAACTATATTATTTAT
106296938 GTATTTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 13 0.28
54 13 0.28
55 2 0.04
56 18 0.39
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.58
Consensus pattern (52 bp):
ATATATATTTTTTAATACTATCTTATGTATATATCTTAACTATATTATTTAT
Found at i:106297147 original size:16 final size:15
Alignment explanation
Indices: 106297123--106297170 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
106297113 TATTAATTAT
*
106297123 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
106297139 TATTTTAATATTTTA
1 TATTTTAATATTTTA
106297154 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
106297170 T
1 T
106297171 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:106297158 original size:7 final size:8
Alignment explanation
Indices: 106297123--106297174 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
106297113 TATTAATTAT
*
106297123 TATTCTAA
1 TATTTTAA
*
106297131 TATTTTGA
1 TATTTTAA
106297139 TATTTTAA
1 TATTTTAA
106297147 TATTTT-A
1 TATTTTAA
106297154 TATTTTATA
1 TATTTTA-A
*
106297163 TATTTTAT
1 TATTTTAA
106297171 TATT
1 TATT
106297175 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:106298717 original size:12 final size:12
Alignment explanation
Indices: 106298700--106298735 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
106298690 ATTCATTTGA
106298700 CATTCATGCATT
1 CATTCATGCATT
106298712 CATTCATGCATT
1 CATTCATGCATT
*
106298724 CATTCATACATT
1 CATTCATGCATT
106298736 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:106307054 original size:75 final size:72
Alignment explanation
Indices: 106306909--106307219 Score: 257
Period size: 75 Copynumber: 4.0 Consensus size: 72
106306899 ATTTCTGATT
*
106306909 TTCA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTCAGGACACGCTGAGGTGGTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTC---ACACGCTGAGGT-ATT
*
106306973 TT-AATTTATG
62 TTCAATTTCTG
* * *
106306983 TTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CTCACACGCTGAGGTATTT
106307048 TCAATTTCTGG
63 TCAATTTCT-G
** * **
106307059 TTTTCAATTTCTGTTTTTAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCT
1 --TTC-A--------TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-TCACACGCT
*
106307124 GAGGTAATTTCAATTTCTG
54 GAGGTATTTTCAATTTCTG
** * * *
106307143 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT---CTCACACGCTGAGGTATTT
106307208 TCAATTTCTG
63 TCAATTTCTG
106307218 TT
1 TT
106307220 TTTCAATTTC
Statistics
Matches: 192, Mismatches: 24, Indels: 41
0.75 0.09 0.16
Matches are distributed among these distances:
73 36 0.19
74 8 0.04
75 77 0.40
76 3 0.02
78 6 0.03
79 1 0.01
82 2 0.01
84 2 0.01
85 24 0.12
86 1 0.01
87 32 0.17
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (72 bp):
TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTCACACGCTGAGGTATTTTCA
ATTTCTG
Found at i:106307076 original size:14 final size:14
Alignment explanation
Indices: 106307045--106307075 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
106307035 CGCTGAGGTA
106307045 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
106307059 TTTTCAATTTCT-G
1 TTTTCAATTTCTGG
106307072 TTTT
1 TTTT
106307076 TAAAATCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:106307177 original size:73 final size:73
Alignment explanation
Indices: 106307060--106307427 Score: 274
Period size: 73 Copynumber: 4.8 Consensus size: 73
106307050 AATTTCTGGT
* * *
106307060 TTTCAATTTCTGTTT-T-TAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
106307123 TGAGGTAA
66 TGAGGTAA
106307131 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* **
106307195 TGCTGAGGTCT
63 CGCTGAGGTAA
* *** *** * * * * * *
106307206 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAATTAACTCATATTGCGAGAGGTGAGT
1 TTTCAATTTCTGTTTGTCAA----AAATC---AACTCATATT-GC-GAGA--G-GTGAGTTGAG-
*
106307271 TGAGCCTCAGGACACGCTGAGGTATT
53 ----CCTCAGGACACGCTGAGGTA-A
* * * * *
106307297 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGACAC
1 TTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
106307362 GCTGAGGTAA
64 GCTGAGGTAA
*
106307372 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
106307428 GGCTCACATG
Statistics
Matches: 229, Mismatches: 42, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
71 15 0.07
72 2 0.01
73 71 0.31
75 46 0.20
76 19 0.08
79 2 0.01
81 8 0.03
82 6 0.03
83 1 0.00
84 4 0.02
85 1 0.00
86 7 0.03
87 8 0.03
89 2 0.01
90 11 0.05
91 18 0.08
92 4 0.02
93 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAA
Found at i:106307224 original size:14 final size:14
Alignment explanation
Indices: 106307205--106307233 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
106307195 TGCTGAGGTC
106307205 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
106307219 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
106307233 T
1 T
106307234 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:106307444 original size:75 final size:73
Alignment explanation
Indices: 106307219--106307460 Score: 297
Period size: 76 Copynumber: 3.2 Consensus size: 73
106307209 CAATTTCTGT
* *
106307219 TTTTCAATTTCTGTTCGTAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTTGT--CAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
106307284 ACGCTGAGGTA
63 ACGCTGAGGTA
* * * * *
106307295 TTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGAC
1 -TTTTCAATTTCTGTTTGTC-AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
106307360 ACGCTGAGGTA
63 ACGCTGAGGTA
*
106307371 ATTTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTTTCAATTTCTGTTTGTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---AC
* *
106307435 ATGCTGAGGTC
63 ACGCTGAGGTA
*
106307446 TTTTCAATTTTTGTT
1 TTTTCAATTTCTGTT
106307461 CTTCAATTTC
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
72 2 0.01
73 35 0.24
75 40 0.28
76 51 0.36
77 15 0.10
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTGTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACG
CTGAGGTA
Found at i:106307591 original size:76 final size:74
Alignment explanation
Indices: 106307465--106307704 Score: 295
Period size: 76 Copynumber: 3.2 Consensus size: 74
106307455 TTTGTTCTTC
** * *
106307465 AATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTG
106307530 AGGTATTTTT
65 AGGTATTTTT
* *
106307540 AAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACATGTT
1 -AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCT
* *
106307605 GAGGTAATTTC
64 GAGGTATTTTT
* * *
106307616 AATTTCTGTTTATC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACATGC
*
106307679 TGAGGTCTTTTT
63 TGAGGTATTTTT
106307691 AATTTCTGCTTTTT
1 AATTTCTG-TTTTT
106307705 TCAATTTATA
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
72 2 0.01
73 35 0.25
75 35 0.25
76 70 0.49
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (74 bp):
AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACATGCTGA
GGTATTTTT
Found at i:106307610 original size:240 final size:240
Alignment explanation
Indices: 106307077--106307757 Score: 1141
Period size: 240 Copynumber: 2.8 Consensus size: 240
106307067 TTCTGTTTTT
* * **
106307077 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
*
106307142 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
66 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
*
106307207 TTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTT
131 TTCAATTTCTGTTTTTCAATTTCTGTTCGT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
106307272 GAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAA
195 GAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAA
*
106307318 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
106307383 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
66 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
* *
106307448 TTCAATTTTTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
131 TTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
106307513 AGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAA
196 AGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAA
* *
106307558 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACATGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
* *
106307623 GTTTATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTT
66 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
* * * *** *
106307688 TTTAATTTCTGCTTTTTTCAATTTATATT--TTTCAAAAATCAACTCATATTGCGAGATGTGAGT
131 TTCAATTTCTG--TTTTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
106307751 TGAGCCT
194 TGAGCCT
106307758 TGGGTTCACA
Statistics
Matches: 415, Mismatches: 23, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
240 250 0.60
241 152 0.37
242 13 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (240 bp):
AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
TTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAA
Found at i:106308505 original size:30 final size:30
Alignment explanation
Indices: 106308469--106308643 Score: 262
Period size: 30 Copynumber: 5.8 Consensus size: 30
106308459 ACTTTTCTCA
*
106308469 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
106308499 ACTAGCCACACC-TTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
106308528 ACTAGCCACTCTTTTTTCCACCACCAACTCC
1 ACTAGCCACAC-CTTTTCCACCACCAACTCC
*
106308559 ACTAGCCACACCTTGTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
106308589 ACTAGCCACTCTTTTTCCACCACTAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
106308619 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
106308644 CTTGTACCTA
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
29 27 0.21
30 75 0.58
31 27 0.21
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:106308552 original size:60 final size:60
Alignment explanation
Indices: 106308469--106308643 Score: 307
Period size: 60 Copynumber: 2.9 Consensus size: 60
106308459 ACTTTTCTCA
*
106308469 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTT-TCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
*
106308528 ACTAGCCACTCTTTTTTCCACCACCAACTCCACTAGCCACACCTTGTCCACCACCAACTCC
1 ACTAGCCACTC-TTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
*
106308589 ACTAGCCACTCTTTTTCCACCACTAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
106308644 CTTGTACCTA
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
59 11 0.10
60 74 0.67
61 26 0.23
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:106309170 original size:23 final size:23
Alignment explanation
Indices: 106309133--106309264 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
106309123 CCTTTTTTGT
106309133 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
106309156 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
106309178 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
106309201 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
106309228 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
106309253 TATTATTTATAT
1 TATTATATATAT
106309265 ATATATTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:106309228 original size:27 final size:27
Alignment explanation
Indices: 106309198--106309314 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 27
106309188 ATTTTAAATT
106309198 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
106309225 CTATTTTA--TGTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* **
106309250 TTATATTATTTATATATATATTTT-TA
1 CTATATTACGTATATATATATTTTATA
* * * *
106309276 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
106309302 CTATATTATGTAT
1 CTATATTACGTAT
106309315 GTATTTTTAA
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
25 25 0.37
26 20 0.29
27 23 0.34
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:106309238 original size:25 final size:25
Alignment explanation
Indices: 106309210--106309348 Score: 97
Period size: 25 Copynumber: 5.5 Consensus size: 25
106309200 ATATTACGTA
*
106309210 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
106309235 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
* * *
106309260 TATATATATATTTTTAC-ATGTTATCT
1 TATATATAT-TTTATACTATATTAT-G
*
106309286 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATG
* *
106309312 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATG
*
106309337 TACATAT-TTTTA
1 TATATATATTTTA
106309349 ATATTATCAC
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.03
24 6 0.07
25 54 0.61
26 11 0.12
27 8 0.09
28 7 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:106309260 original size:30 final size:28
Alignment explanation
Indices: 106309207--106309299 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 28
106309197 TCTATATTAC
* * *
106309207 GTATATATATATT-TTATACTATTTTAT
1 GTATATATCTTTTATTATATTATTTTAT
106309234 GTATATATCTTTAATATTATATTA-TTTAT
1 GTATATATCTTT--TATTATATTATTTTAT
* * * *
106309263 ATATATAT-TTTTA-CATGTTATCTTAT
1 GTATATATCTTTTATTATATTATTTTAT
106309289 GTATATATCTT
1 GTATATATCTT
106309300 AACTATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.09
26 13 0.25
27 12 0.23
28 3 0.06
29 13 0.25
30 7 0.13
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (28 bp):
GTATATATCTTTTATTATATTATTTTAT
Found at i:106309534 original size:24 final size:24
Alignment explanation
Indices: 106309502--106309561 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
106309492 TAATTATTAT
*
106309502 TATTCTAATATTTTGATATTTT-GA
1 TATTTTAATATTTT-ATATTTTAGA
*
106309526 TATTTTAATATTTTATATTTTATA
1 TATTTTAATATTTTATATTTTAGA
*
106309550 TATTTTATTATT
1 TATTTTAATATT
106309562 CACATCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (24 bp):
TATTTTAATATTTTATATTTTAGA
Found at i:106309545 original size:7 final size:8
Alignment explanation
Indices: 106309509--106309550 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
106309499 TATTATTCTA
106309509 ATATTTTG
1 ATATTTTG
106309517 ATATTTTG
1 ATATTTTG
*
106309525 ATATTTTA
1 ATATTTTG
106309533 ATATTTT-
1 ATATTTTG
106309540 ATATTTT-
1 ATATTTTG
106309547 ATAT
1 ATAT
106309551 ATTTTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 11 0.33
8 22 0.67
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (8 bp):
ATATTTTG
Found at i:106309552 original size:16 final size:16
Alignment explanation
Indices: 106309509--106309557 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
106309499 TATTATTCTA
*
106309509 ATATTTTGATAT-TTTG
1 ATATTTT-ATATATTTT
106309525 ATATTTTA-ATATTTT
1 ATATTTTATATATTTT
106309540 ATATTTTATATATTTT
1 ATATTTTATATATTTT
106309556 AT
1 AT
106309558 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 2 0.07
15 12 0.40
16 16 0.53
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATATTTTATATATTTT
Found at i:106314078 original size:29 final size:27
Alignment explanation
Indices: 106314027--106314141 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 27
106314017 AGTATGACTG
* *
106314027 TGAAAGTGATTGGGCCTAGTGGGCCATA
1 TGAATGTGATT-GGCCTAATGGGCCATA
106314055 TGAATGTGATTTGGTCCTAATGGGCCATA
1 TGAATGTGA-TTGG-CCTAATGGGCCATA
*
106314084 TGAATGTGAATTGAGCCTAATAGGCCATA
1 TGAATGTG-ATTG-GCCTAATGGGCCATA
* * * *
106314113 TGAACGAGATTGGGCCTAGTAGGCCATA
1 TGAATGTGATT-GGCCTAATGGGCCATA
106314141 T
1 T
106314142 ACATGTATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (27 bp):
TGAATGTGATTGGCCTAATGGGCCATA
Found at i:106327047 original size:103 final size:104
Alignment explanation
Indices: 106326803--106327068 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
106326793 GTTGTACATA
** *
106326803 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
106326868 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
106326907 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
106326971 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
106327010 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
106327069 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:106328329 original size:14 final size:14
Alignment explanation
Indices: 106328310--106328337 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
106328300 CTGAGGTCTT
106328310 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
106328324 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
106328338 GTAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:106328455 original size:76 final size:74
Alignment explanation
Indices: 106328343--106328570 Score: 307
Period size: 76 Copynumber: 3.0 Consensus size: 74
106328333 TGTTCGTAAA
106328343 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AAT
106328408 TTCTGTTTTTC
64 TTCTGTTTTTC
* * *
106328419 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAATT
*
106328484 TCTGTTTGTC
65 TCTGTTTTTC
* * * *
106328494 --AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAA
*
106328557 TTTCTGCTTTTC
63 TTTCTGTTTTTC
106328569 AA
1 AA
106328571 TTTCTGTTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
72 2 0.02
73 35 0.26
75 39 0.29
76 57 0.43
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTT
CTGTTTTTC
Found at i:106328572 original size:14 final size:15
Alignment explanation
Indices: 106328547--106328588 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
106328537 ACATGCTGAG
*
106328547 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
106328562 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
106328576 GTTTTTTCAATTT
1 GTCTTTTCAATTT
106328589 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:106328584 original size:15 final size:14
Alignment explanation
Indices: 106328550--106328599 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
106328540 TGCTGAGGTC
106328550 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
106328563 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
106328577 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
106328592 TTTTTCAA
1 TTTTTCAA
106328600 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:106329383 original size:30 final size:30
Alignment explanation
Indices: 106329347--106329491 Score: 236
Period size: 30 Copynumber: 4.8 Consensus size: 30
106329337 ACTTTTCTCA
106329347 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
106329377 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
106329407 ATTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
106329437 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
106329467 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
106329492 CTTGTACCTA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 105 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:106329442 original size:60 final size:60
Alignment explanation
Indices: 106329347--106329491 Score: 263
Period size: 60 Copynumber: 2.4 Consensus size: 60
106329337 ACTTTTCTCA
*
106329347 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCC
*
106329407 ATTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCC
*
106329467 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
106329492 CTTGTACCTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCC
Found at i:106330099 original size:25 final size:25
Alignment explanation
Indices: 106329982--106330189 Score: 139
Period size: 25 Copynumber: 8.5 Consensus size: 25
106329972 TTGTTATTAT
*
106329982 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATACTATATTATGTA
* *
106330006 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
106330028 TATATTTTAAATTCTATATTACGTA
1 TATATTTTTAATACTATATTATGTA
*
106330053 TATATATTTT-ATACTATTTTATGTA
1 TATAT-TTTTAATACTATATTATGTA
* * *
106330078 TATATCTTTAATATTATATTATTTA
1 TATATTTTTAATACTATATTATGTA
* ** *
106330103 TATTTTTTTTACATGTTATCTTATGTA
1 TA-TATTTTTA-ATACTATATTATGTA
*
106330130 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
* *
106330152 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
106330177 CATATTTTTAATA
1 TATATTTTTAATA
106330190 TTATCACGTA
Statistics
Matches: 142, Mismatches: 29, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.01
22 28 0.20
23 12 0.08
24 13 0.09
25 63 0.44
26 10 0.07
27 14 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:106330148 original size:27 final size:25
Alignment explanation
Indices: 106330070--106330156 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 25
106330060 TTTATACTAT
106330070 TTTATGTATATATCTTTA-ATATTA
1 TTTATGTATATATCTTTACATATTA
* * * *
106330094 TATTATTTATATTTTTTTTACATGTTA
1 T-TTATGTATA-TATCTTTACATATTA
*
106330121 TCTTATGTATATATCTTAACTATATTA
1 T-TTATGTATATATCTTTAC-ATATTA
*
106330148 TGTATGTAT
1 TTTATGTAT
106330157 TTTTAACACT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.02
25 8 0.17
26 19 0.40
27 20 0.42
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (25 bp):
TTTATGTATATATCTTTACATATTA
Found at i:106330369 original size:16 final size:15
Alignment explanation
Indices: 106330345--106330392 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
106330335 TTATTATTAT
*
106330345 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
106330361 TATTTTAATATTTTA
1 TATTTTAATATTTTA
106330376 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
106330392 T
1 T
106330393 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:106330372 original size:24 final size:25
Alignment explanation
Indices: 106330336--106330397 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
106330326 TAATTATTAT
106330336 TATTATTATTATTCTAATATTTT-GA
1 TATT-TTATTATTCTAATATTTTAGA
* * *
106330361 TATTTTAATATT-TTATATTTTATA
1 TATTTTATTATTCTAATATTTTAGA
106330385 TATTTTATTATTC
1 TATTTTATTATTC
106330398 ACATCATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 8 0.26
24 19 0.61
25 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (25 bp):
TATTTTATTATTCTAATATTTTAGA
Found at i:106330380 original size:7 final size:8
Alignment explanation
Indices: 106330345--106330396 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
106330335 TTATTATTAT
*
106330345 TATTCTAA
1 TATTTTAA
*
106330353 TATTTTGA
1 TATTTTAA
106330361 TATTTTAA
1 TATTTTAA
106330369 TATTTT-A
1 TATTTTAA
106330376 TATTTTATA
1 TATTTTA-A
*
106330385 TATTTTAT
1 TATTTTAA
106330393 TATT
1 TATT
106330397 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:106331908 original size:16 final size:16
Alignment explanation
Indices: 106331887--106331921 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
106331877 ATCCAAGTTG
106331887 TACAAAATAGTTTCAA
1 TACAAAATAGTTTCAA
106331903 TACAAAATAGTTTCAA
1 TACAAAATAGTTTCAA
106331919 TAC
1 TAC
106331922 TATGTTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (16 bp):
TACAAAATAGTTTCAA
Found at i:106335086 original size:31 final size:31
Alignment explanation
Indices: 106335048--106335120 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
106335038 TTAATAGTCC
*
106335048 AATGACTTAAATAAAAACTTTTGAATAATTT
1 AATGACTTAAATAAAAACTTTCGAATAATTT
* *
106335079 CATGACTTAAATAAAAACTTTCGAATTATTT
1 AATGACTTAAATAAAAACTTTCGAATAATTT
106335110 AATGAC-TAAAT
1 AATGACTTAAAT
106335121 TGTAACTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCGAATAATTT
Found at i:106342860 original size:21 final size:22
Alignment explanation
Indices: 106342831--106342877 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
106342821 CAGAAGGAGT
*
106342831 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
106342853 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
106342874 GAGT
1 GAGT
106342878 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:106347221 original size:3 final size:3
Alignment explanation
Indices: 106347215--106347239 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
106347205 TGCTCCTCAG
106347215 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
106347240 ACAATCTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:106352844 original size:17 final size:19
Alignment explanation
Indices: 106352822--106352857 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
106352812 GATGTAATTT
106352822 AAAATGAA-ATT-TAAAAA
1 AAAATGAATATTGTAAAAA
106352839 AAAATGAATATTGTAAAAA
1 AAAATGAATATTGTAAAAA
106352858 TATTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (19 bp):
AAAATGAATATTGTAAAAA
Found at i:106357890 original size:5 final size:5
Alignment explanation
Indices: 106357882--106357910 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
106357872 TTAATTTATG
106357882 ATAAC ATAAC ATAAC ATAAC ATAAC ATAA
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAA
106357911 ACAAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAC
Found at i:106358142 original size:37 final size:37
Alignment explanation
Indices: 106358089--106358161 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
106358079 ACTAGAAATG
*
106358089 ATCAAATTATAATAAAGAGATTAAATTCGTAAAAAAA
1 ATCAAATTATAATAAAGAGAATAAATTCGTAAAAAAA
* * * *
106358126 ATCAAATTATAGTAAAGGGAATAAATTTGTGAAAAA
1 ATCAAATTATAATAAAGAGAATAAATTCGTAAAAAA
106358162 TGTATAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.27
Consensus pattern (37 bp):
ATCAAATTATAATAAAGAGAATAAATTCGTAAAAAAA
Found at i:106361584 original size:16 final size:16
Alignment explanation
Indices: 106361563--106361594 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
106361553 AACGCACAGC
106361563 GCATCCGAACTAAAAT
1 GCATCCGAACTAAAAT
106361579 GCATCCGAACTAAAAT
1 GCATCCGAACTAAAAT
106361595 AAAACCGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (16 bp):
GCATCCGAACTAAAAT
Found at i:106364684 original size:47 final size:48
Alignment explanation
Indices: 106364562--106364697 Score: 141
Period size: 47 Copynumber: 2.9 Consensus size: 48
106364552 AGAACAAGAG
* **
106364562 GGGAACATTCTTAATCAGTTGGCAACTAATTTATGAACATGAGGGTAA
1 GGGAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAAGTAA
* * * * * *
106364610 GGGAACATCACTACTCGGTTGGCAACTAATTT-TGAGCTTGAAAGT-A
1 GGGAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAAGTAA
* * *
106364656 GGGAAACATTGTTAATCAGTTGGAAACTAATTTAGGAACATG
1 GGG-AACATTATTAATCAGTTGGCAACTAATTTATGAACATG
106364698 TGACTTATCT
Statistics
Matches: 68, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
46 4 0.06
47 32 0.47
48 32 0.47
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (48 bp):
GGGAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAAGTAA
Found at i:106373780 original size:12 final size:12
Alignment explanation
Indices: 106373763--106373788 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
106373753 ATTCCCTTCT
106373763 CCAAACTAATAC
1 CCAAACTAATAC
106373775 CCAAACTAATAC
1 CCAAACTAATAC
106373787 CC
1 CC
106373789 TGATCAATTC
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:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (12 bp):
CCAAACTAATAC
Found at i:106375749 original size:31 final size:31
Alignment explanation
Indices: 106375714--106375783 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
106375704 ATTACAAAAT
*
106375714 AGTTATTAAATTATTTAAAAAATTTCATTTA
1 AGTTATTAAACTATTTAAAAAATTTCATTTA
** ** *
106375745 AGTTATTAAACTATTTGGAAGTTTTTATTTA
1 AGTTATTAAACTATTTAAAAAATTTCATTTA
106375776 AGTTATTA
1 AGTTATTA
106375784 TGTTATTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (31 bp):
AGTTATTAAACTATTTAAAAAATTTCATTTA
Found at i:106381882 original size:21 final size:21
Alignment explanation
Indices: 106381856--106381896 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106381846 ATCTGCTCAA
* *
106381856 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
106381877 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
106381897 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:106387848 original size:30 final size:31
Alignment explanation
Indices: 106387784--106387851 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
106387774 TTTAGGTTCT
* * *
106387784 TTAAAAGTTGGAGAGAAATTTTTTAGGCCTC
1 TTAAAAGTTGGAGAAAAAATTTTAAGGCCTC
106387815 TTAAAAGTTGGTA-AAAAAATTTTAAGGCC-C
1 TTAAAAGTTGG-AGAAAAAATTTTAAGGCCTC
106387845 TTAAAAG
1 TTAAAAG
106387852 CTAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 8 0.24
31 24 0.73
32 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (31 bp):
TTAAAAGTTGGAGAAAAAATTTTAAGGCCTC
Found at i:106387936 original size:30 final size:31
Alignment explanation
Indices: 106387901--106387963 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
106387891 TTTTTTACTT
*
106387901 TTAAAAGTT-AAAAAAAATATTTTGTACCCC
1 TTAAAAGTTGAAAAAAAATATTTTGAACCCC
*
106387931 TTAAAAGTTGAAAAATAATATTTTGAACCCC
1 TTAAAAGTTGAAAAAAAATATTTTGAACCCC
106387962 TT
1 TT
106387964 TCAGCCTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (31 bp):
TTAAAAGTTGAAAAAAAATATTTTGAACCCC
Found at i:106391205 original size:2 final size:2
Alignment explanation
Indices: 106391198--106391242 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
106391188 TTTATCGCTT
*
106391198 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
106391240 TC T
1 TC T
106391243 GTAACAGCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:106393314 original size:39 final size:39
Alignment explanation
Indices: 106393268--106393403 Score: 209
Period size: 39 Copynumber: 3.5 Consensus size: 39
106393258 ACTCTGATGA
*
106393268 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
106393307 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
** *
106393346 GCTTCAGTTAGCCTTCCAGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
106393385 GCTTCAGCTAGACTTCGGG
1 GCTTCAGTTAGCCTTCGGG
106393404 TTTCAAATCA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:106394247 original size:4 final size:4
Alignment explanation
Indices: 106394231--106394287 Score: 60
Period size: 4 Copynumber: 13.8 Consensus size: 4
106394221 ATTACACTCT
* * * *
106394231 CTCC CTCC TTCC CTCC CTCT CTCC CTCG CTCC CTCG CTCC CTCGCC CTCC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CT--CC CTCC
106394281 CTCC CTC
1 CTCC CTC
106394288 TCTCTCTCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
4 39 0.91
6 4 0.09
ACGTcount: A:0.00, C:0.67, G:0.05, T:0.28
Consensus pattern (4 bp):
CTCC
Found at i:106394254 original size:8 final size:8
Alignment explanation
Indices: 106394243--106394323 Score: 67
Period size: 8 Copynumber: 10.4 Consensus size: 8
106394233 CCCTCCTTCC
106394243 CTCCCTCT
1 CTCCCTCT
*
106394251 CTCCCTCG
1 CTCCCTCT
*
106394259 CTCCCTCG
1 CTCCCTCT
106394267 CT-CC-CT
1 CTCCCTCT
* *
106394273 CGCCCTCC
1 CTCCCTCT
106394281 CTCCCTCT
1 CTCCCTCT
*
106394289 CTCTCTCT
1 CTCCCTCT
* *
106394297 CTCTCTAT
1 CTCCCTCT
*
106394305 CTCTCTCT
1 CTCCCTCT
*
106394313 CTCTCTCT
1 CTCCCTCT
106394321 CTC
1 CTC
106394324 TCTCCTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
6 2 0.03
7 4 0.06
8 56 0.90
ACGTcount: A:0.01, C:0.58, G:0.04, T:0.37
Consensus pattern (8 bp):
CTCCCTCT
Found at i:106394292 original size:2 final size:2
Alignment explanation
Indices: 106394285--106394327 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
106394275 CCCTCCCTCC
*
106394285 CT CT CT CT CT CT CT CT CT AT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
106394327 C
1 C
106394328 CTATTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:106395926 original size:3 final size:3
Alignment explanation
Indices: 106395918--106396457 Score: 158
Period size: 3 Copynumber: 178.3 Consensus size: 3
106395908 TTAAAAATGT
* * * * * *
106395918 TAA TAA TAA TAA TAA TAG TAA TAA TAG CAA TAA TTA TAA T-A TAT TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
106395965 TAA TAAA TAA TAA -AA GGAA TCAA -AA TAA TAG TAA TAA TAA GAA TAT
1 TAA T-AA TAA TAA TAA -TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** *
106396011 TAA CAA TAG TAA TAA TAA CGA TAA T-A TAAA TAC TAA TATA TACA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A T-AA
* * ** * * *
106396059 AAA TAA TAA TAA TAG TTG TAA TCA TAA CAA TACA TTAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA
** * * * * *** *
106396106 TATA TGT TAA TAA CAA TAA TCA TAA TATG TAA -AA AAA GGGG GAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA -TAA TAA TAA
* * * * ** * *
106396153 TAA TAG T-A TAG TAA GAA TAA TAA TAC T-A TGT TAA TAA GAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
106396199 TAG TAG TAA TAA TAA TAA GGTAA GAA TAA TAA TGA TAA T-A TAA CAA
1 TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
106396245 TGA TAG TAA T-A TAA CAA TAA -AA -AA TAA TAG TAA TGAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *** ** * *
106396287 TAC TAA CGG TAA TAA TAA TAA TAA TGT TGA CAA TAGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
106396333 TAA TAA GGT-A TAA TAA TAA TAG TAA TAAA CAA AAA TAG TAA TAA TAA
1 TAA TAA --TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * ** * *
106396380 TAA TGAA -AG TAG TGGA -AA TAA TAA TAG TAA T-A TAA TGG TAG GAA
1 TAA T-AA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
106396424 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
106396458 GGCAAAATAG
Statistics
Matches: 382, Mismatches: 120, Indels: 70
0.67 0.21 0.12
Matches are distributed among these distances:
2 27 0.07
3 317 0.83
4 31 0.08
5 7 0.02
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:106396172 original size:20 final size:20
Alignment explanation
Indices: 106396147--106396216 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
106396137 AAAAAAGGGG
106396147 GAATAATAATAGTATAGTAA
1 GAATAATAATAGTATAGTAA
*
106396167 GAATAATAATACTAT-GTTAA
1 GAATAATAATAGTATAG-TAA
* *
106396187 TAAGAATAATAGTAGTAGTAA
1 GAATAATAATAGTA-TAGTAA
*
106396208 TAATAATAA
1 GAATAATAA
106396217 GGTAAGAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.67
21 12 0.29
22 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.13, T:0.31
Consensus pattern (20 bp):
GAATAATAATAGTATAGTAA
Found at i:106397482 original size:22 final size:23
Alignment explanation
Indices: 106397430--106397490 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
106397420 TTTTTCTCTT
106397430 TTTGATTGTTAGTTTGGGCTGGGG
1 TTTGATT-TTAGTTTGGGCTGGGG
* * * *
106397454 CTAGATTTTAG-TTGGGTTTGGG
1 TTTGATTTTAGTTTGGGCTGGGG
106397476 TTTGA-TTT-GTTTGGG
1 TTTGATTTTAGTTTGGG
106397491 TTAGGGCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.03
21 8 0.27
22 12 0.40
23 4 0.13
24 5 0.17
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.49
Consensus pattern (23 bp):
TTTGATTTTAGTTTGGGCTGGGG
Found at i:106397700 original size:41 final size:41
Alignment explanation
Indices: 106397654--106397778 Score: 223
Period size: 41 Copynumber: 3.0 Consensus size: 41
106397644 ACCAAAATAC
*
106397654 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCGT
1 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
* *
106397695 TTGAAGTAAACCAAAATAGATAGGATTTCAAGACTTTTCAT
1 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
106397736 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
1 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
106397777 TT
1 TT
106397779 TAGTGCCTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (41 bp):
TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
Found at i:106398228 original size:22 final size:22
Alignment explanation
Indices: 106398195--106398261 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
106398185 TGCATTATTG
*
106398195 AACAGAGAGCACTAAAGTGCTA
1 AACAAAGAGCACTAAAGTGCTA
* *
106398217 TACAAAGAGCAC-AAATATGCTA
1 AACAAAGAGCACTAAA-GTGCTA
* * *
106398239 AACAGAGAGTACTAATGTGCTA
1 AACAAAGAGCACTAAAGTGCTA
106398261 A
1 A
106398262 TAATCGGAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (22 bp):
AACAAAGAGCACTAAAGTGCTA
Found at i:106398607 original size:21 final size:21
Alignment explanation
Indices: 106398582--106398629 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
106398572 TTTTAATCTA
106398582 TTTACAAATTTAAATATATAT
1 TTTACAAATTTAAATATATAT
**
106398603 TTTACATTTTTAAATATATAT
1 TTTACAAATTTAAATATATAT
106398624 TTTACA
1 TTTACA
106398630 TTTCTAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTACAAATTTAAATATATAT
Found at i:106398630 original size:21 final size:21
Alignment explanation
Indices: 106398590--106398632 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
106398580 TATTTACAAA
106398590 TTTAAATATATATTTTACATT
1 TTTAAATATATATTTTACATT
106398611 TTTAAATATATATTTTACATT
1 TTTAAATATATATTTTACATT
106398632 T
1 T
106398633 CTAGTCTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATATATTTTACATT
Found at i:106401842 original size:10 final size:10
Alignment explanation
Indices: 106401829--106401858 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
106401819 TATTCAACAA
106401829 TGAAAACTTT
1 TGAAAACTTT
106401839 TGAAAACTTT
1 TGAAAACTTT
106401849 TGAAAACTTT
1 TGAAAACTTT
106401859 AATAGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (10 bp):
TGAAAACTTT
Found at i:106411280 original size:23 final size:24
Alignment explanation
Indices: 106411250--106411295 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
106411240 TTTCGGGAGC
106411250 AGAAGGAGAAG-AAGAAAAAGAAA
1 AGAAGGAGAAGAAAGAAAAAGAAA
106411273 AGAAGGAGAAGAAAGAAAAAGAA
1 AGAAGGAGAAGAAAGAAAAAGAA
106411296 GGGGAGGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AGAAGGAGAAGAAAGAAAAAGAAA
Found at i:106412022 original size:148 final size:147
Alignment explanation
Indices: 106411847--106412378 Score: 619
Period size: 150 Copynumber: 3.6 Consensus size: 147
106411837 TGCTGACGAG
* **
106411847 TTTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTTG
1 TTTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATACG
106411912 AAAATAAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTATAAAAAATACTTA
66 AAAAT-AAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTATAAAAAATACTTA
106411977 AATAATACATTTGAAACA
130 AATAATACATTTGAAACA
* * * *
106411995 TTTTTTGCTAAAATAATAT----AAA-AAAATACGAAAATAATATTAAATTTAAAAAATAATATA
1 TTTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAATA-T-ATTTTAAAAAATAAAATA
* * * * ** * *
106412055 CGAAAGTAAAAAATACAAATAAAGTGATAAAATCAGGGTTATTTATTTAAAAAATATAAAAAAAT
64 CGAAAATAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTA-TT--AAATTAT-AAAAAAT
106412120 ACTTAAATAAATAATACATTTGAAACA
125 AC-T---TAAATAATACATTTGAAACA
* * * * *
106412147 TTATGTACTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCCA
1 TTTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATACG
*
106412212 AAAATTAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACAC
66 AAAA-TAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAA-T--TATAAAAAATAC
*
106412277 TTAAGTAATACATTTGAAACA
127 TTAAATAATACATTTGAAACA
* * * * *
106412298 ATTTTTGCTAAAATAATAT-AAAAAATAAAATA-CATAAATAATATATTTTAAGAAATAATATAC
1 TTTTTTACTAAAATAATATAAAAAAATAAAATATGA-AAATAATATATTTTAAAAAATAAAATAC
*
106412361 GAAAGTAAAAAATACGAA
65 GAAAATAAAAAATACGAA
106412379 TAAAGTGGTA
Statistics
Matches: 320, Mismatches: 44, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
143 15 0.05
144 36 0.11
145 22 0.07
147 6 0.02
148 27 0.08
149 15 0.05
150 40 0.12
151 34 0.11
152 36 0.11
153 3 0.01
154 1 0.00
155 29 0.09
156 40 0.12
157 16 0.05
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (147 bp):
TTTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATACG
AAAATAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTATAAAAAATACTTAA
ATAATACATTTGAAACA
Found at i:106412174 original size:152 final size:146
Alignment explanation
Indices: 106411848--106412385 Score: 550
Period size: 156 Copynumber: 3.6 Consensus size: 146
106411838 GCTGACGAGT
* * * * **
106411848 TTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTTGA
1 TTTTTGCTAAAATAATAT-AAAAAATAAAACAT--AAATAATATATTTTAAAAAATAATATACGA
* * * * * *
106411913 AAATAAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAAT---TATAAAAAATACT
63 AAGT-AAAAAATACGAATAAAGTGACAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACT
106411975 TAAATAATACATTTGAAACA
127 TAAATAATACATTTGAAACA
* *
106411995 TTTTTTGCTAAAATAATAT-AAAAA-AATACGA-AAATAATATTAAATTTAAAAAATAATATACG
1 -TTTTTGCTAAAATAATATAAAAAATAAAAC-ATAAATAATA-T-ATTTTAAAAAATAATATACG
* * *
106412057 AAAGTAAAAAATACAAATAAAGTGATAAAATCAGGGTTATTTATTTAAA-AAATATAAAAAAATA
62 AAAGTAAAAAATACGAATAAAGTGACAAAATCAGGGTTATTTA-TTAAATAAATAT-AAAAAACA
106412121 CTTAAATAAATAATACATTTGAAACA
125 C-T---TAAATAATACATTTGAAACA
* * * * *
106412147 TTATGTACTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCCA
1 TT-TTTGCTAAAATAATATAAA-AAATAAAACAT--AAATAATATATTTTAAAAAATAATATAC-
* * * * * * *
106412212 AAAATTAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACAC
61 GAAAGTAAAAAATACGAATAAAGTGACAAAATCAGGGTTATTTATTAAATAAATATAAAAAACAC
*
106412277 TTAAGTAATACATTTGAAACAA
126 TTAAATAATACATTTGAAAC-A
*
106412299 TTTTTGCTAAAATAATATAAAAAATAAAATACATAAATAATATATTTTAAGAAATAATATACGAA
1 TTTTTGCTAAAATAATATAAAAAAT-AAA-ACATAAATAATATATTTTAAAAAATAATATACGAA
106412364 AGTAAAAAATACGAATAAAGTG
64 AGTAAAAAATACGAATAAAGTG
106412386 GTAATATATA
Statistics
Matches: 323, Mismatches: 43, Indels: 47
0.78 0.10 0.11
Matches are distributed among these distances:
143 7 0.02
144 33 0.10
145 28 0.09
146 6 0.02
147 3 0.01
148 26 0.08
149 22 0.07
150 29 0.09
151 40 0.12
152 40 0.12
153 2 0.01
154 5 0.02
155 32 0.10
156 42 0.13
157 8 0.02
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (146 bp):
TTTTTGCTAAAATAATATAAAAAATAAAACATAAATAATATATTTTAAAAAATAATATACGAAAG
TAAAAAATACGAATAAAGTGACAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAA
TAATACATTTGAAACA
Found at i:106414804 original size:17 final size:17
Alignment explanation
Indices: 106414784--106414822 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
106414774 AATACATTAC
106414784 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
106414801 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
106414818 AACAT
1 AACAT
106414823 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:106418950 original size:21 final size:20
Alignment explanation
Indices: 106418919--106418957 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
106418909 TTCTTTTTTC
*
106418919 CTTCTCTTTCTTTTTCTTGT
1 CTTCTCTTTCTTTCTCTTGT
106418939 CTTCTCCTTTCTTTCTCTT
1 CTTCT-CTTTCTTTCTCTT
106418958 TATTTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (20 bp):
CTTCTCTTTCTTTCTCTTGT
Found at i:106418952 original size:25 final size:26
Alignment explanation
Indices: 106418917--106418972 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
106418907 CCTTCTTTTT
* *
106418917 TCCTTCTCTTTCTTTTTCTTGTCTTC
1 TCCTTCTCTTTCTCTTTATTGTCTTC
*
106418943 TCCTT-TCTTTCTCTTTATTTTCTTC
1 TCCTTCTCTTTCTCTTTATTGTCTTC
106418968 TCCTT
1 TCCTT
106418973 GTTGCTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (26 bp):
TCCTTCTCTTTCTCTTTATTGTCTTC
Found at i:106421228 original size:18 final size:18
Alignment explanation
Indices: 106421184--106421227 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
106421174 AAAACAGAAG
106421184 TAACTTAAAACGAAAAAA
1 TAACTTAAAACGAAAAAA
106421202 T-ACTTAAAACGAAAAAA
1 TAACTTAAAACGAAAAAA
106421219 TAAC-TAAAA
1 TAACTTAAAA
106421228 ATCAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (18 bp):
TAACTTAAAACGAAAAAA
Found at i:106421515 original size:16 final size:16
Alignment explanation
Indices: 106421482--106421515 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106421472 ACTCTTTGTT
* *
106421482 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
106421498 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
106421514 AA
1 AA
106421516 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:106424341 original size:21 final size:21
Alignment explanation
Indices: 106424315--106424355 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106424305 AGACGAGCAA
* *
106424315 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
106424336 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
106424356 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:106426294 original size:16 final size:16
Alignment explanation
Indices: 106426261--106426294 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106426251 GGAGATTGTT
* *
106426261 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
106426277 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
106426293 AA
1 AA
106426295 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:106427333 original size:60 final size:61
Alignment explanation
Indices: 106427231--106427359 Score: 242
Period size: 60 Copynumber: 2.1 Consensus size: 61
106427221 TTAATTATGT
*
106427231 AACTTAATAGAATTTATTAAAAATGTATCTCTAGATACAATACTAATATCAACTAAATTAA
1 AACTCAATAGAATTTATTAAAAATGTATCTCTAGATACAATACTAATATCAACTAAATTAA
106427292 AACTCAAT-GAATTTATTAAAAATGTATCTCTAGATACAATACTAATATCAACTAAATTAA
1 AACTCAATAGAATTTATTAAAAATGTATCTCTAGATACAATACTAATATCAACTAAATTAA
106427352 AACTCAAT
1 AACTCAAT
106427360 CGATAACTAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
60 60 0.90
61 7 0.10
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (61 bp):
AACTCAATAGAATTTATTAAAAATGTATCTCTAGATACAATACTAATATCAACTAAATTAA
Found at i:106432779 original size:21 final size:20
Alignment explanation
Indices: 106432755--106432793 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
106432745 TTATGCCACA
106432755 TCAGTAATCTTATCCTGAATC
1 TCAG-AATCTTATCCTGAATC
* *
106432776 TCAGGATTTTATCCTGAA
1 TCAGAATCTTATCCTGAA
106432794 AAAAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (20 bp):
TCAGAATCTTATCCTGAATC
Found at i:106433730 original size:20 final size:20
Alignment explanation
Indices: 106433700--106433749 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
106433690 AAGCGGCTTA
* *
106433700 TTTTAATATATTTTTA-AAT
1 TTTTAAAATATATTTATAAT
106433719 TATTTAAAATATATTTATAAT
1 T-TTTAAAATATATTTATAAT
*
106433740 TTATAAAATA
1 TTTTAAAATA
106433750 AATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATATATTTATAAT
Found at i:106435246 original size:56 final size:55
Alignment explanation
Indices: 106435186--106435294 Score: 137
Period size: 56 Copynumber: 2.0 Consensus size: 55
106435176 TTTTATACTA
* * * * * * *
106435186 TTTGGTACTTAAGTTTGATTTTAATGTTTAATTTGGTCCCTGAGTGTTTTTTTTAG
1 TTTGGTACCTAAGTTTGACTTCAATATTCAAATTGGTACCTGAGT-TTTTTTTTAG
*
106435242 TTTGGTACCTAAGTTTTACTTCAATATTCAAATTGGTACCTGAGTTTTTTTTT
1 TTTGGTACCTAAGTTTGACTTCAATATTCAAATTGGTACCTGAGTTTTTTTTT
106435295 CTCAATTGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
55 8 0.18
56 37 0.82
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.53
Consensus pattern (55 bp):
TTTGGTACCTAAGTTTGACTTCAATATTCAAATTGGTACCTGAGTTTTTTTTTAG
Found at i:106438448 original size:54 final size:53
Alignment explanation
Indices: 106438387--106438558 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 53
106438377 CCATAGCAAC
* * *
106438387 AAGTGATAAGTGATATCCGTATAAGACTATAGCTGGGATATGGCATCAGAAAA
1 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* **
106438440 CAAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* *
106438494 AAGTGATATAAGTG--ATCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAA
1 AAGTG--ATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
106438547 AAGTGATAAGTG
1 AAGTGATAAGTG
106438559 CTCCCATGTC
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
51 7 0.07
53 45 0.42
54 47 0.44
55 7 0.07
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.26
Consensus pattern (53 bp):
AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
Found at i:106438521 original size:53 final size:54
Alignment explanation
Indices: 106438392--106438554 Score: 206
Period size: 53 Copynumber: 3.0 Consensus size: 54
106438382 GCAACAAGTG
* * *
106438392 ATAAGTGATATCCGTATAAGACTATAGCTGGGATATGGCATCAGAAAACAAGTG--
1 ATAAGTGA-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA-AAGTGAT
* **
106438446 ATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTAAAGTGAT
1 ATAAGTGA-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT
* *
106438501 ATAAGTG-ATCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAAAAGTGAT
1 ATAAGTGAATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT
106438554 A
1 A
106438555 AGTGCTCCCA
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
53 48 0.49
54 42 0.43
55 7 0.07
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (54 bp):
ATAAGTGAATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT
Found at i:106446147 original size:53 final size:51
Alignment explanation
Indices: 106445996--106446186 Score: 211
Period size: 53 Copynumber: 3.6 Consensus size: 51
106445986 CCATAGCAAC
* *
106445996 AAGTGATAAGTGATATCTGTATAAGACCATAGTTGGGCTATGGCATCGAAAAA
1 AAGTGATAAGTG--ATCCGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
* * **
106446049 CAAGTGATAAGTGATTTTTCGTATAAGACCATAGTTGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGA---TCCGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
* *
106446104 AAGTGGTATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAA
1 AAGT-G-ATAAGTGATCCGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
* *
106446157 AAGTGATAAGTGCTCTCGTGTAAGACCATA
1 AAGTGATAAGTGATC-CGTATAAGACCATA
106446187 TCCGGAATAT
Statistics
Matches: 118, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
51 9 0.08
52 15 0.13
53 37 0.31
54 16 0.14
55 33 0.28
56 8 0.07
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGTGATAAGTGATCCGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
Found at i:106448140 original size:13 final size:13
Alignment explanation
Indices: 106448122--106448146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106448112 TACTTGTACC
106448122 AAAAAAATAAAAG
1 AAAAAAATAAAAG
106448135 AAAAAAATAAAA
1 AAAAAAATAAAA
106448147 TTAATAATTA
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:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:106450338 original size:18 final size:16
Alignment explanation
Indices: 106450307--106450353 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
106450297 AGATAATCAT
106450307 AACCCAAAATTTATCCTA
1 AACCCAAAA-TTATCC-A
*
106450325 AACCCTAAAATTATTCA
1 AACCC-AAAATTATCCA
106450342 AACCCAAAATTA
1 AACCCAAAATTA
106450354 ATCTTATCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 10 0.37
19 4 0.15
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
AACCCAAAATTATCCA
Found at i:106458529 original size:21 final size:21
Alignment explanation
Indices: 106458503--106458543 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106458493 AGACGAGCAA
* *
106458503 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
106458524 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
106458544 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:106470615 original size:4 final size:4
Alignment explanation
Indices: 106470606--106470660 Score: 78
Period size: 4 Copynumber: 14.0 Consensus size: 4
106470596 AAAAGCAGGA
*
106470606 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -GAG AAAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAAG AAAG
106470654 -AAG AAAG
1 AAAG AAAG
106470661 GGAAAATTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 5 0.11
4 39 0.85
5 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:106470673 original size:20 final size:20
Alignment explanation
Indices: 106470604--106470666 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
106470594 CGAAAAGCAG
106470604 GAAAAGAAAGAAAGAAA-GA
1 GAAAAGAAAGAAAGAAAGGA
*
106470623 AAGAAAGAAAGAAAGAAAGGA
1 GA-AAAGAAAGAAAGAAAGGA
106470644 GAAAAGAAAG-AAGAAAGG-
1 GAAAAGAAAGAAAGAAAGGA
106470662 GAAAA
1 GAAAA
106470667 TTGAAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
20 23 0.57
21 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAGAAAGAAAGGA
Found at i:106472212 original size:12 final size:12
Alignment explanation
Indices: 106472195--106472219 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106472185 GCCGACTACT
106472195 GTTACTGTTACC
1 GTTACTGTTACC
106472207 GTTACTGTTACC
1 GTTACTGTTACC
106472219 G
1 G
106472220 ATTCGGATTT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:106472276 original size:46 final size:46
Alignment explanation
Indices: 106472199--106472314 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 46
106472189 ACTACTGTTA
* *
106472199 CTGT-TACCGTTACTGTTACCGATTCGGATTTGTT-CGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTG-TTCGAATTTGTTCCGATGAGGTACT
106472245 CTGTGTACCGTACTGTTACTGTTCCGAATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTT-CGAATTTGTTCCGATGAGGTACT
* * *
106472292 CTGTGTAACGTATTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
106472315 ACTGTTACTG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 2 0.03
46 23 0.37
47 37 0.60
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (46 bp):
CTGTGTACCGTACTGTTACTGTTCGAATTTGTTCCGATGAGGTACT
Found at i:106472464 original size:18 final size:18
Alignment explanation
Indices: 106472443--106472633 Score: 158
Period size: 18 Copynumber: 10.6 Consensus size: 18
106472433 TAACTGATTA
106472443 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
106472461 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
106472479 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
106472497 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
106472515 TTACTGAATAATTTA-TCA
1 TTACTGAATAATTGACT-G
* *
106472533 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
106472551 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
106472569 CTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
106472588 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
106472605 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
106472623 TTACTGGATAA
1 TTACTGAATAA
106472634 CCGATCAATT
Statistics
Matches: 140, Mismatches: 23, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
17 20 0.14
18 103 0.74
19 17 0.12
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:106472722 original size:18 final size:18
Alignment explanation
Indices: 106472671--106472726 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
106472661 TGGTTATTAT
* *
106472671 TGAATAATTCATTGTTAC
1 TGAATAAATAATTGTTAC
* * * *
106472689 CGAATAAGTGACTGTTAC
1 TGAATAAATAATTGTTAC
106472707 TGAATAAATAATTGTT-C
1 TGAATAAATAATTGTTAC
106472724 TGA
1 TGA
106472727 TTGTTAATGA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TGAATAAATAATTGTTAC
Found at i:106475372 original size:35 final size:36
Alignment explanation
Indices: 106475333--106475470 Score: 128
Period size: 35 Copynumber: 3.9 Consensus size: 36
106475323 CCATGGTTGT
106475333 TCCATGGAAAAG-TGTGAAATGTAGGTATGGTATCA
1 TCCATGGAAAAGTTGTGAAATGTAGGTATGGTATCA
**
106475368 TCCAT--ACTGAGTTGTGAAATGTAGGTATGGTATCA
1 TCCATGGA-AAAGTTGTGAAATGTAGGTATGGTATCA
* *
106475403 TCCATACGG---AGTTGTGATATGTAGGTATGGAATCA
1 TCCAT--GGAAAAGTTGTGAAATGTAGGTATGGTATCA
*** *
106475438 TCCATACTAAA-TTGTGATATGTAGGTATGGTAT
1 TCCATGGAAAAGTTGTGAAATGTAGGTATGGTAT
106475471 TATCAAATCC
Statistics
Matches: 87, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
33 1 0.01
34 2 0.02
35 83 0.95
36 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.33
Consensus pattern (36 bp):
TCCATGGAAAAGTTGTGAAATGTAGGTATGGTATCA
Found at i:106475430 original size:30 final size:33
Alignment explanation
Indices: 106475353--106475470 Score: 137
Period size: 35 Copynumber: 3.4 Consensus size: 33
106475343 AGTGTGAAAT
*
106475353 GTAGGTATGGTATCATCCATACTGAGTTGTGAAA
1 GTAGGTATGGTATCATCCATACGGAGTTGTG-AA
106475387 TGTAGGTATGGTATCATCCATACGGAGTTGTGATA
1 -GTAGGTATGGTATCATCCATACGGAGTTGTGA-A
* ** *
106475422 TGTAGGTATGGAATCATCCATACTAAATTGTGATA
1 -GTAGGTATGGTATCATCCATACGGAGTTGTGA-A
106475457 TGTAGGTATGGTAT
1 -GTAGGTATGGTAT
106475471 TATCAAATCC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
34 1 0.01
35 75 0.99
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (33 bp):
GTAGGTATGGTATCATCCATACGGAGTTGTGAA
Found at i:106475535 original size:75 final size:75
Alignment explanation
Indices: 106475348--106475550 Score: 220
Period size: 75 Copynumber: 2.8 Consensus size: 75
106475338 GGAAAAGTGT
*
106475348 GAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAATGTAGGTATGG---TATC--ATCCAT
1 GAAATGTAGGTATGGAATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCAAATCCAT
**
106475408 ACGGAGTTGT
66 ACGGAGTTAA
* * * *
106475418 GATATGTAGGTATGGAATCATCCATACTAAATTGTGATATGTAGGTATGGTATTATCAAATCCAT
1 GAAATGTAGGTATGGAATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCAAATCCAT
*
106475483 ACTGAGTTAA
66 ACGGAGTTAA
* *** * * * *
106475493 GAAATGTAGGTATGGCATTGCCCATACCGAGTTGTAAAATGTAAGTATCGTATT-TCAA
1 GAAATGTAGGTATGGAATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCAA
106475551 TGAGGAAAAC
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
70 45 0.42
73 4 0.04
74 4 0.04
75 55 0.51
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (75 bp):
GAAATGTAGGTATGGAATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCAAATCCAT
ACGGAGTTAA
Found at i:106475535 original size:110 final size:105
Alignment explanation
Indices: 106475345--106475540 Score: 248
Period size: 110 Copynumber: 1.8 Consensus size: 105
106475335 CATGGAAAAG
** * *
106475345 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATCATCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACCCATAC
* * * *
106475410 GGAGTTGTGATATGTAGGTATGGAATCATCCATACTAAAT
66 CGAGTTGTAAAATGTAAGTATGGAATCATCCATACTAAAT
* **
106475450 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTGCC
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
106475515 CATACCGAGTTGTAAAATGTAAGTAT
61 CATACCGAGTTGTAAAATGTAAGTAT
106475541 CGTATTTCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
105 17 0.23
108 4 0.05
110 54 0.72
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (105 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACCCATAC
CGAGTTGTAAAATGTAAGTATGGAATCATCCATACTAAAT
Found at i:106478980 original size:14 final size:14
Alignment explanation
Indices: 106478961--106478988 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
106478951 GTGCTGCAGT
106478961 GTTCTCAAAATAGA
1 GTTCTCAAAATAGA
106478975 GTTCTCAAAATAGA
1 GTTCTCAAAATAGA
106478989 CCTTAGATCT
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
GTTCTCAAAATAGA
Found at i:106482967 original size:40 final size:35
Alignment explanation
Indices: 106482877--106483002 Score: 144
Period size: 35 Copynumber: 3.6 Consensus size: 35
106482867 CATGGAAAAG
* **
106482877 TGTGAAATGTAGGTATGGTATCATCCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATCATCCATACGGAGT
*
106482912 TGTGAAATGTAGGTATGGTATCATCCATACGGAGT
1 TGTGAAAAGTAGGTATGGTATCATCCATACGGAGT
* * * ** *
106482947 TGTGATATGTAAGTATGGTATCATCCATACTAAAT
1 TGTGAAAAGTAGGTATGGTATCATCCATACGGAGT
* *
106482982 TGTGATATGTAGGTATGGTAT
1 TGTGAAAAGTAGGTATGGTAT
106483003 TATCAAATCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (35 bp):
TGTGAAAAGTAGGTATGGTATCATCCATACGGAGT
Found at i:106483032 original size:75 final size:70
Alignment explanation
Indices: 106482880--106483039 Score: 194
Period size: 70 Copynumber: 2.2 Consensus size: 70
106482870 GGAAAAGTGT
* * *
106482880 GAAATGTAGGTATGGTATCATCCATATTGAGTTGTGAAATGTAGGTATGGTATCATCCATACGGA
1 GAAATGTAGGTATGGTATCATCCATACTAAATTGTGAAATGTAGGTATGGTATCATCCATACGGA
**
106482945 GTTGT
66 GTTAA
* * *
106482950 GATATGTAAGTATGGTATCATCCATACTAAATTGTGATATGTAGGTATGGTATTATCAAATCCAT
1 GAAATGTAGGTATGGTATCATCCATACTAAATTGTGAAATGTAGGTATGG---TATC--ATCCAT
*
106483015 ACTGAGTTAA
61 ACGGAGTTAA
106483025 GAAATGTAGGTATGG
1 GAAATGTAGGTATGG
106483040 CATTGCCCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
70 44 0.59
73 4 0.05
75 26 0.35
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.34
Consensus pattern (70 bp):
GAAATGTAGGTATGGTATCATCCATACTAAATTGTGAAATGTAGGTATGGTATCATCCATACGGA
GTTAA
Found at i:106483057 original size:110 final size:105
Alignment explanation
Indices: 106482877--106483077 Score: 249
Period size: 110 Copynumber: 1.9 Consensus size: 105
106482867 CATGGAAAAG
* ** * *
106482877 TGTGAAATGTAGGTATGGTATCATCCATATTGAGTTGTGAAATGTAGGTATGGTATCATCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACCCATAC
* * * *
106482942 GGAGTTGTGATATGTAAGTATGGTATCATCCATACTAAAT
66 CGAGTTGTAAAATGTAAGTATCGTATCATCCATACTAAAT
* **
106482982 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTGCC
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
106483047 CATACCGAGTTGTAAAATGTAAGTATCGTAT
61 CATACCGAGTTGTAAAATGTAAGTATCGTAT
106483078 TTCAATGAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
105 17 0.22
108 4 0.05
110 58 0.73
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (105 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACCCATAC
CGAGTTGTAAAATGTAAGTATCGTATCATCCATACTAAAT
Found at i:106484941 original size:29 final size:28
Alignment explanation
Indices: 106484909--106484977 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
106484899 ACTGAATCTA
*
106484909 AAATTTAAAATCTGAAAAATAAAAAGACT
1 AAATTTAAAATAT-AAAAATAAAAAGACT
*
106484938 AAATTTTTAAAA-ATAAAAATATAAAGACT
1 AAA--TTTAAAATATAAAAATAAAAAGACT
*
106484967 AAATTTTAAAT
1 AAATTTAAAAT
106484978 TTACGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 6 0.18
29 20 0.59
30 1 0.03
31 7 0.21
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (28 bp):
AAATTTAAAATATAAAAATAAAAAGACT
Found at i:106485235 original size:138 final size:138
Alignment explanation
Indices: 106484987--106485268 Score: 564
Period size: 138 Copynumber: 2.0 Consensus size: 138
106484977 TTTACGAAAA
106484987 ATATATAAACTTACAACATATTTCAACATTTACTTTTCAATTATTGGCAGGACCACACGTGGCAG
1 ATATATAAACTTACAACATATTTCAACATTTACTTTTCAATTATTGGCAGGACCACACGTGGCAG
106485052 TGACAGAAGAGAAAAGTTGAAATTATGCATATGTATACCTATGGCTAGAGAGGGCTCTTTTTCTT
66 TGACAGAAGAGAAAAGTTGAAATTATGCATATGTATACCTATGGCTAGAGAGGGCTCTTTTTCTT
106485117 TTGGCAAT
131 TTGGCAAT
106485125 ATATATAAACTTACAACATATTTCAACATTTACTTTTCAATTATTGGCAGGACCACACGTGGCAG
1 ATATATAAACTTACAACATATTTCAACATTTACTTTTCAATTATTGGCAGGACCACACGTGGCAG
106485190 TGACAGAAGAGAAAAGTTGAAATTATGCATATGTATACCTATGGCTAGAGAGGGCTCTTTTTCTT
66 TGACAGAAGAGAAAAGTTGAAATTATGCATATGTATACCTATGGCTAGAGAGGGCTCTTTTTCTT
106485255 TTGGCAAT
131 TTGGCAAT
106485263 ATATAT
1 ATATAT
106485269 GAATTTCTTA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 144 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (138 bp):
ATATATAAACTTACAACATATTTCAACATTTACTTTTCAATTATTGGCAGGACCACACGTGGCAG
TGACAGAAGAGAAAAGTTGAAATTATGCATATGTATACCTATGGCTAGAGAGGGCTCTTTTTCTT
TTGGCAAT
Found at i:106488454 original size:14 final size:14
Alignment explanation
Indices: 106488431--106488466 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
106488421 GTATAATATC
*
106488431 TAAAAAAATAACAA
1 TAAAATAATAACAA
106488445 TAAAATAATAACAA
1 TAAAATAATAACAA
*
106488459 TATAATAA
1 TAAAATAA
106488467 CGAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAATAATAACAA
Found at i:106489790 original size:31 final size:31
Alignment explanation
Indices: 106489747--106489812 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
106489737 TTAGACCATG
*
106489747 AACTTGGTAATTATTCTC-ATATTGTGA-CTTA
1 AACTAGGTAATTATTC-CGATATTG-GAGCTTA
106489778 AACTAGGTAATTATTCCGATATTGGAGCTTA
1 AACTAGGTAATTATTCCGATATTGGAGCTTA
106489809 AACT
1 AACT
106489813 TTTTTTGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (31 bp):
AACTAGGTAATTATTCCGATATTGGAGCTTA
Found at i:106500449 original size:20 final size:19
Alignment explanation
Indices: 106500413--106500452 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
106500403 AATAGTTTCA
106500413 AAAAATATATTACTAATAT
1 AAAAATATATTACTAATAT
106500432 AAAAATATTATATA-TAATAT
1 AAAAATA-TAT-TACTAATAT
106500452 A
1 A
106500453 TTTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 10 0.53
21 2 0.11
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATATATTACTAATAT
Found at i:106511573 original size:381 final size:381
Alignment explanation
Indices: 106510870--106511758 Score: 1616
Period size: 381 Copynumber: 2.3 Consensus size: 381
106510860 AGAAAGCTTG
*
106510870 AGGACAGAATGAAGATGGCTGACGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
*
106510935 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
**
106511000 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATTGACCAAGCTACCA
131 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
106511065 TGATTGAAGAAACAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
196 TGATTGAAGAAACAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
106511130 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
261 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
*
106511195 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAATCTTA
326 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA
*
106511251 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACCGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
106511316 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
** *
106511381 ACAACTTGCAGAATCAGCGGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
131 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
* * * *
106511446 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGGAACTGAAGTTGAAAAGTCAGAGGAAGCT
196 TGATTGAAGAAACAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
* *
106511511 TGCACTGAACTTCGCCAGAGGCTTCTGGAGGAGGAGCAGTGTGCTGCTGCTATTGAACAAAAGCT
261 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
* *
106511576 TGAAGATATGGTGGAGAATGACTTTTTGAAGACACAGGAGGAGCTGTCTAAACTTG
326 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA
*
106511632 AGGACAGAATGAAGATGGCTGAAGATGACCTAAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
106511697 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
106511759 TGCTCTTCTA
Statistics
Matches: 489, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
381 489 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (381 bp):
AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
TGATTGAAGAAACAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA
Found at i:106514337 original size:222 final size:221
Alignment explanation
Indices: 106514055--106514616 Score: 827
Period size: 222 Copynumber: 2.5 Consensus size: 221
106514045 GTCCACTTAA
*
106514055 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCCTTGATGGTTTAAAGAAAGAAATGACT
1 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCC-TGATGGTTTAAAGAAAGAAATGATT
* * *
106514120 TTTACAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCGGGAAAGTGAGTTGTCTTT
65 TTTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTT
* ** * * *
106514185 TCTCCAAGAAAAAGTTGAAGAAGCACAGGTTGAGCAAAGAATGTTGAAGAAAGAGAACTGTCTAC
130 TCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTAC
* * *
106514250 TTCTCCAGGATTTGGAGGAGCAGAAAG
195 TTCTCCAGAATTTGGACGAGAAGAAAG
* *
106514277 CTGACTCTGGGAAAAAGCTTGCCAATGCTTATTCTGTCGCTGATGGTTTAAAGAAAGAAATGATT
1 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTGATGGTTTAAAGAAAGAAATGATT
* *
106514342 TTTGCAAAATTAGATGCATACTTGAAAGGGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTT
65 TTTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTT
** *
106514407 TCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGTTAAGAAAGATGAAGAAAGAAAACTGTCTGC
130 TCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTAC
*
106514472 TTCTCCAGAATTTGGACGAGAAGGAAG
195 TTCTCCAGAATTTGGACGAGAAGAAAG
* * * * * *
106514499 CAGACACCGGAAAAAAGCTTACCAATGCTTATGCTGTCATTGATGGTTTAAAGAAAGAAATAATT
1 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTGATGGTTTAAAGAAAGAAATGATT
* * *
106514564 TTTGCAAAAGTAGATGCATTTTTGAAAGAGCAGCTATTGGAGGAGCAGGAAAG
65 TTTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAG
106514617 GATATCAAAG
Statistics
Matches: 304, Mismatches: 35, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
222 303 1.00
223 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (221 bp):
CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCCTGATGGTTTAAAGAAAGAAATGATTT
TTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTTT
CTACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTACT
TCTCCAGAATTTGGACGAGAAGAAAG
Found at i:106527476 original size:33 final size:31
Alignment explanation
Indices: 106527430--106527515 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
106527420 CTGTTTGATC
*
106527430 CACTTATTT-TTAATATTTGGTACATGAACTTAA
1 CACTT-TTTCTTAAT-TTT-GTACATAAACTTAA
* * *
106527463 CACTTTTTCTTAATTTTGTACTTAAATTTGA
1 CACTTTTTCTTAATTTTGTACATAAACTTAA
* * *
106527494 CAGTTTTTCTTAAGTTGGTACA
1 CACTTTTTCTTAATTTTGTACA
106527516 ATTTGGTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 28 0.64
32 6 0.14
33 10 0.23
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (31 bp):
CACTTTTTCTTAATTTTGTACATAAACTTAA
Done.