Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 49 of 335
Found at i:17613251 original size:19 final size:18
Alignment explanation
Indices: 17613223--17613268 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
17613213 AAATGTTAAT
17613223 TTTAA-TTTTTTAATATTA
1 TTTAATTTTTTTAAT-TTA
*
17613241 TTTAATATTTTTTCATTTA
1 TTTAAT-TTTTTTAATTTA
17613260 TTTAATTTT
1 TTTAATTTT
17613269 AATTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTAATTTTTTTAATTTA
Found at i:17613280 original size:17 final size:18
Alignment explanation
Indices: 17613230--17613289 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 18
17613220 AATTTTAATT
17613230 TTTTAA-TA-TTATTTAA
1 TTTTAATTATTTATTTAA
*
17613246 TATTT-TTTCATTTATTTAA
1 T-TTTAATT-ATTTATTTAA
*
17613265 TTTTAATTATTT-TTTAT
1 TTTTAATTATTTATTTAA
17613282 TTTTAATT
1 TTTTAATT
17613290 TATAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.03
17 16 0.44
18 8 0.22
19 11 0.31
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTAATTATTTATTTAA
Found at i:17614849 original size:18 final size:18
Alignment explanation
Indices: 17614826--17614861 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17614816 TGCCAGGTGC
*
17614826 ATATCCTAGCCCTTATAT
1 ATATCCTAACCCTTATAT
*
17614844 ATATCCTAACCTTTATAT
1 ATATCCTAACCCTTATAT
17614862 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (18 bp):
ATATCCTAACCCTTATAT
Found at i:17619713 original size:46 final size:46
Alignment explanation
Indices: 17619646--17619827 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
17619636 AGTGTGCTCT
*
17619646 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17619692 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
17619738 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
17619784 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
17619828 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:17624916 original size:46 final size:46
Alignment explanation
Indices: 17624849--17625030 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
17624839 AGTGTGCTCT
*
17624849 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17624895 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
17624941 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
17624987 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
17625031 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:17626623 original size:49 final size:49
Alignment explanation
Indices: 17626556--17627014 Score: 696
Period size: 49 Copynumber: 9.3 Consensus size: 49
17626546 TACATGATAG
17626556 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17626605 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17626654 TATATGTGATAAGGCCTAATGGCCGATGTATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCC--------G---ATGTGATGAATGTGAAAGTGTATA
17626714 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17626763 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
17626812 TATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17626861 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
17626908 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
17626955 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17627004 -A-ATGTGATAAG
1 TATATGTGATAAG
17627015 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 10, Indels: 28
0.91 0.02 0.07
Matches are distributed among these distances:
47 96 0.25
48 1 0.00
49 240 0.62
52 1 0.00
57 1 0.00
60 48 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:17626801 original size:207 final size:192
Alignment explanation
Indices: 17626556--17627014 Score: 688
Period size: 207 Copynumber: 2.3 Consensus size: 192
17626546 TACATGATAG
17626556 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
17626621 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTATG
66 TAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC--------
* *
17626686 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
123 G---ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCAAATGGCCAATGTGATGAATG
17626751 TGAAAGTGTATA
183 TGAAAGTG--TA
17626763 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
17626828 TAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
17626893 GAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTA
131 GAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
17626955 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
17627015 TCCCGAAGGG
Statistics
Matches: 243, Mismatches: 9, Indels: 17
0.90 0.03 0.06
Matches are distributed among these distances:
190 10 0.04
191 1 0.00
192 45 0.19
194 45 0.19
196 20 0.08
199 1 0.00
207 121 0.50
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (192 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:17626815 original size:158 final size:147
Alignment explanation
Indices: 17626556--17627014 Score: 696
Period size: 158 Copynumber: 3.1 Consensus size: 147
17626546 TACATGATAG
17626556 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
17626621 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTATG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG--T-
17626686 GCCAATGTGATGAATGTGAAAGTGTATA
128 ----A----ATGAATGTGAAAGTGTATA
17626714 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
17626779 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAAT
17626844 GAATGTGAAAGTGTATA
131 GAATGTGAAAGTGTATA
17626861 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * * * *
17626924 AAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAAT
*
17626987 GGATGTGAAAGTGTATA
131 GAATGTGAAAGTGTATA
17627004 -A-ATGTGATAAG
1 TATATGTGATAAG
17627015 TCCCGAAGGG
Statistics
Matches: 292, Mismatches: 9, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 44 0.15
145 45 0.15
147 64 0.22
151 1 0.00
156 1 0.00
158 126 0.43
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (147 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAAT
GAATGTGAAAGTGTATA
Found at i:17631659 original size:120 final size:123
Alignment explanation
Indices: 17631428--17631787 Score: 451
Period size: 120 Copynumber: 2.9 Consensus size: 123
17631418 AAACAGGAAT
* * * *
17631428 TACTGTAGAAAAAGAACATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACATTGCATCCCGC
1 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTT--TGACA-TGCATCCTGC
* * *
17631493 TTGAAACGTTTTTGACACTATTTTTTCAA-AATAGTCTTCTCAAAATTATTTTTTCAAG-AAC
63 TTGAAGCGTTTTTGACACTATTTTTT-AAGAATTGTCTTCTCAAAATTATTTTTGC-AGTAAC
*
17631554 TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGTAA-TTTTG-C-TGCATCCTGCTTG
1 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTTGACATGCATCCTGCTTG
* * *
17631616 AAGCGTTTTTAAAACTATTTTTTAAGAATTTTCTTCTCAAAATTATTTTTGCAGTAAC
66 AAGCGTTTTTGACACTATTTTTTAAGAATTGTCTTCTCAAAATTATTTTTGCAGTAAC
* * *
17631674 TACTATAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGTTGACAGTACATCCTGC
1 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAA-TTT-TTGACA-TGCATCCTGC
* * * *
17631739 TTGAAGCATTTTTGACATTATCTTTTCAGAATTGTCTTCTCAAAATTAT
63 TTGAAGCGTTTTTGACACTATTTTTTAAGAATTGTCTTCTCAAAATTAT
17631788 AGGAATAGGC
Statistics
Matches: 204, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
119 4 0.02
120 98 0.48
122 3 0.01
123 5 0.02
124 1 0.00
125 3 0.01
126 90 0.44
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (123 bp):
TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTTGACATGCATCCTGCTTG
AAGCGTTTTTGACACTATTTTTTAAGAATTGTCTTCTCAAAATTATTTTTGCAGTAAC
Found at i:17640289 original size:21 final size:21
Alignment explanation
Indices: 17640265--17640311 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17640255 TACTAATTAG
*
17640265 TAAATACTAAACTCTAAATCA
1 TAAATACTAAAATCTAAATCA
* * *
17640286 TAAACACTAAAATTTAAATCC
1 TAAATACTAAAATCTAAATCA
17640307 TAAAT
1 TAAAT
17640312 TTAAAAAAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATACTAAAATCTAAATCA
Found at i:17652408 original size:3 final size:3
Alignment explanation
Indices: 17652393--17652427 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
17652383 GTGGAATGGA
*
17652393 GAG GAG GAA GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
17652428 AAATATGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:17655738 original size:18 final size:18
Alignment explanation
Indices: 17655717--17655814 Score: 74
Period size: 18 Copynumber: 5.4 Consensus size: 18
17655707 GAACAATTAT
17655717 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
17655735 TTATTTAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* * * *
17655753 -TATTTAGTAGCAATTAA
1 TTATTCAGTAACAGTCAA
17655770 GTTATTCAGTAACAGTCAA
1 -TTATTCAGTAACAGTCAA
** *
17655789 TTATTTGGTAACGGTCAA
1 TTATTCAGTAACAGTCAA
*
17655807 TTTTTCAG
1 TTATTCAG
17655815 AAATAATCAG
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
17 14 0.23
18 35 0.56
19 13 0.21
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:17656004 original size:6 final size:6
Alignment explanation
Indices: 17655993--17656023 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
17655983 ACAAATTCGA
17655993 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
17656024 TTCAACATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:17656055 original size:45 final size:45
Alignment explanation
Indices: 17656001--17656113 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
17655991 GAAACAGTAA
* *
17656001 CAGTAACAGTAACAGTAACAGTATTCAACATACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
17656046 C-GATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
1 CAG-TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
17656091 CAGTAACAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTAACAGTA
17656114 ACAGTAGTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 1 0.02
45 62 0.97
46 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:17656102 original size:6 final size:6
Alignment explanation
Indices: 17656091--17656119 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
17656081 AGTGCCGAAT
17656091 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
17656120 GTCGGCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:17657406 original size:24 final size:25
Alignment explanation
Indices: 17657350--17657455 Score: 171
Period size: 24 Copynumber: 4.2 Consensus size: 25
17657340 TGATACAAAT
17657350 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
17657376 TGATAAT-GGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
17657400 TGATAAT-GGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
17657424 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
17657450 TGATAA
1 TGATAA
17657456 GAATTCATGT
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 33 0.42
25 28 0.36
26 17 0.22
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:17657413 original size:49 final size:51
Alignment explanation
Indices: 17657350--17657455 Score: 182
Period size: 49 Copynumber: 2.1 Consensus size: 51
17657340 TGATACAAAT
17657350 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
17657400 TGATAAT-GGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
17657450 TGATAA
1 TGATAA
17657456 GAATTCATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
48 9 0.17
49 28 0.52
50 17 0.31
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:17658974 original size:25 final size:26
Alignment explanation
Indices: 17658932--17658984 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
17658922 AATTACTGTT
*
17658932 ATACCCCTAGTGCAAAATT-ACCGAA
1 ATACCCCTAGGGCAAAATTGACCGAA
** *
17658957 ATACCCCTAGGGTTAAATTGACCTAA
1 ATACCCCTAGGGCAAAATTGACCGAA
17658983 AT
1 AT
17658985 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (26 bp):
ATACCCCTAGGGCAAAATTGACCGAA
Found at i:17659477 original size:137 final size:137
Alignment explanation
Indices: 17659231--17659517 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
17659221 GAGTAGTCTC
17659231 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
17659296 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
17659361 ACTGTTA
131 ACTGTTA
17659368 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
17659433 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
17659498 ACTGTTA
131 ACTGTTA
**
17659505 CCTGAATGGGCTT
1 CCCAAATGGGCTT
17659518 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:17663055 original size:13 final size:14
Alignment explanation
Indices: 17663037--17663065 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17663027 AAACCCTAAA
17663037 TTTTCTTT-TTTCT
1 TTTTCTTTCTTTCT
17663050 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
17663064 TT
1 TT
17663066 CTCCCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:17663135 original size:5 final size:5
Alignment explanation
Indices: 17663125--17663156 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
17663115 TTTCTTTACT
17663125 TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TA
17663157 ACAATTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:17663288 original size:21 final size:22
Alignment explanation
Indices: 17663249--17663289 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17663239 CATACAATTG
*
17663249 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
17663271 TTAATATAA-ATTACAATAT
1 TTAAAATAATATTACAATAT
17663290 AACAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:17675106 original size:2 final size:2
Alignment explanation
Indices: 17675099--17675128 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17675089 AAAGAGGAAA
17675099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17675129 TTGCTAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17677676 original size:19 final size:21
Alignment explanation
Indices: 17677632--17677678 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
17677622 ATTGAGTGGT
17677632 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
17677653 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
17677671 GTAATTAG
1 -TAATTAG
17677679 GAAAAATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:17677837 original size:11 final size:12
Alignment explanation
Indices: 17677806--17677874 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
17677796 TCTGAGATTT
*
17677806 TTATATGTTAAA
1 TTATATATTAAA
*
17677818 ATATATATTAAA
1 TTATATATTAAA
*
17677830 TTAT-TATTATA
1 TTATATATTAAA
*
17677841 TTATGGTATATTATA
1 TTA---TATATTAAA
*
17677856 TTATATATTATA
1 TTATATATTAAA
17677868 TTATATA
1 TTATATA
17677875 AATAAGTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.18
12 29 0.59
14 1 0.02
15 10 0.20
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (12 bp):
TTATATATTAAA
Found at i:17677842 original size:5 final size:5
Alignment explanation
Indices: 17677821--17677873 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
17677811 TGTTAAAATA
* **
17677821 TATAT TAAAT TATTAT TATAT TATGG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
17677869 TATAT
1 TATAT
17677874 AAATAAGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 29 0.74
6 6 0.15
7 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:17677864 original size:12 final size:12
Alignment explanation
Indices: 17677819--17677874 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
17677809 TATGTTAAAA
*
17677819 TATATATTAAAT
1 TATATATTATAT
17677831 TAT-TATTATAT
1 TATATATTATAT
17677842 TATGGTATATTATAT
1 TA---TATATTATAT
17677857 TATATATTATAT
1 TATATATTATAT
17677869 TATATA
1 TATATA
17677875 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 9 0.23
12 19 0.49
14 1 0.03
15 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:17679197 original size:18 final size:19
Alignment explanation
Indices: 17679176--17679214 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17679166 ATATATAGAT
17679176 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
17679194 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
17679213 AT
1 AT
17679215 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:17679563 original size:39 final size:39
Alignment explanation
Indices: 17679453--17679587 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
17679443 GACCTCGAGT
* * * *
17679453 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
17679494 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
17679532 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
17679571 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
17679588 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:17679731 original size:18 final size:19
Alignment explanation
Indices: 17679710--17679750 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17679700 AATGAAATGA
17679710 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
17679728 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
17679747 GAAA
1 GAAA
17679751 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:17684776 original size:2 final size:2
Alignment explanation
Indices: 17684769--17684802 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
17684759 ACAATAATAC
* *
17684769 TA TA TA TA AA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17684803 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17685173 original size:3 final size:3
Alignment explanation
Indices: 17685160--17685245 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
17685150 GAGGGCATAT
17685160 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
17685204 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17685246 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17685184 original size:12 final size:12
Alignment explanation
Indices: 17685160--17685242 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
17685150 GAGGGCATAT
17685160 ATAATAT-AATA
1 ATAATATAAATA
17685171 ATAATATAAATA
1 ATAATATAAATA
17685183 ATAATATATACATGA
1 ATAATATA-A-AT-A
17685198 GA-AATA-ATAATA
1 -ATAATATA-AATA
17685210 ATAATATAAATA
1 ATAATATAAATA
* *
17685222 ATAGTAAAAATA
1 ATAATATAAATA
*
17685234 ATAAAATAA
1 ATAATATAA
17685243 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:17685204 original size:21 final size:18
Alignment explanation
Indices: 17685165--17685245 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
17685155 CATATATAAT
*
17685165 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
17685183 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
17685204 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
17685222 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
17685239 ATAATAA
1 ATAATAA
17685246 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:17685233 original size:27 final size:27
Alignment explanation
Indices: 17685160--17685246 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
17685150 GAGGGCATAT
* *
17685160 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
17685186 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
17685210 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
17685237 A-AATAATAAA
1 ATAAT-ATAAA
17685247 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:17685602 original size:22 final size:20
Alignment explanation
Indices: 17685578--17685618 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
17685568 CTTCTTTCCA
17685578 AAAAAACAAAAAAACACCTCC
1 AAAAAACAAAAAAA-ACCTCC
17685599 AAAAAACAAAAAAAACCTCC
1 AAAAAACAAAAAAAACCTCC
17685619 TCCAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAAACAAAAAAAACCTCC
Found at i:17685611 original size:23 final size:22
Alignment explanation
Indices: 17685574--17685625 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
17685564 TAACCTTCTT
*
17685574 TCCAAAAAAACAAAAAAACACC
1 TCCAAAAAAAAAAAAAAACACC
* *
17685596 TCCAAAAAACAAAAAAAACCTCC
1 TCCAAAAAA-AAAAAAAAACACC
17685619 TCCAAAA
1 TCCAAAA
17685626 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (22 bp):
TCCAAAAAAAAAAAAAAACACC
Found at i:17685644 original size:23 final size:21
Alignment explanation
Indices: 17685580--17685648 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
17685570 TCTTTCCAAA
**
17685580 AAAACAAAAAAACACCTCC-AA
1 AAAACAAAAAAA-ACCTCCTCC
17685601 AAAACAAAAAAAACCTCCTCC
1 AAAACAAAAAAAACCTCCTCC
* *
17685622 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AAACCTCCTCC
17685645 AAAA
1 AAAA
17685649 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.15
21 20 0.49
22 2 0.05
23 13 0.32
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (21 bp):
AAAACAAAAAAAACCTCCTCC
Found at i:17685815 original size:4 final size:4
Alignment explanation
Indices: 17685806--17685832 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17685796 GGCCAAGGTT
17685806 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
17685833 TTTTGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:17686109 original size:19 final size:21
Alignment explanation
Indices: 17686065--17686110 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
17686055 ATTGAGTGGT
17686065 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
17686086 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
17686104 GTAATTA
1 -TAATTA
17686111 AGAAAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 1 0.05
21 6 0.27
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:17686275 original size:5 final size:5
Alignment explanation
Indices: 17686254--17686306 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
17686244 TGTTAAAATA
* **
17686254 TATAT TAAAT TATTAT TATAT TATGG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
17686302 TATAT
1 TATAT
17686307 AAATAAGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 29 0.74
6 6 0.15
7 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:17686297 original size:12 final size:12
Alignment explanation
Indices: 17686252--17686307 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
17686242 TGTGTTAAAA
*
17686252 TATATATTAAAT
1 TATATATTATAT
17686264 TAT-TATTATAT
1 TATATATTATAT
17686275 TATGGTATATTATAT
1 TA---TATATTATAT
17686290 TATATATTATAT
1 TATATATTATAT
17686302 TATATA
1 TATATA
17686308 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 9 0.23
12 19 0.49
14 1 0.03
15 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:17687633 original size:18 final size:19
Alignment explanation
Indices: 17687612--17687650 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17687602 ATATATAGAT
17687612 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
17687630 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
17687649 AT
1 AT
17687651 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:17687999 original size:39 final size:39
Alignment explanation
Indices: 17687889--17688023 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
17687879 GACCTCGAGT
* * * *
17687889 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
17687930 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
17687968 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
17688007 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
17688024 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:17688167 original size:18 final size:19
Alignment explanation
Indices: 17688146--17688186 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17688136 AATGAAATGA
17688146 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
17688164 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
17688183 GAAA
1 GAAA
17688187 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:17701535 original size:38 final size:40
Alignment explanation
Indices: 17701481--17701693 Score: 223
Period size: 46 Copynumber: 4.9 Consensus size: 40
17701471 TCTGATATGA
17701481 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
17701521 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
17701559 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ------AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
**
17701610 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
17701651 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
17701694 ATGACAGAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 32
0.81 0.02 0.17
Matches are distributed among these distances:
38 37 0.25
39 1 0.01
40 1 0.01
41 5 0.03
44 2 0.01
45 1 0.01
46 101 0.67
51 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:17701589 original size:46 final size:46
Alignment explanation
Indices: 17701522--17701737 Score: 306
Period size: 46 Copynumber: 4.7 Consensus size: 46
17701512 GGCAACCTGA
17701522 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
17701568 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
17701614 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
17701660 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
17701706 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
17701738 TCATGTCAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 154 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:17701716 original size:138 final size:130
Alignment explanation
Indices: 17701472--17701737 Score: 370
Period size: 138 Copynumber: 2.0 Consensus size: 130
17701462 AGTGTGCTCT
*
17701472 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
17701537 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
**
17701602 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
17701667 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
17701732 ATGGCA
123 ATGGCA
17701738 TCATGTCAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
130 47 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.57
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:17703803 original size:36 final size:30
Alignment explanation
Indices: 17703730--17703792 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
17703720 GCTCCTATAA
17703730 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
17703760 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
17703790 TTG
1 TTG
17703793 TAGCAGGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (30 bp):
TTGGTGAATACAATATCAATATTCTAAATT
Found at i:17704430 original size:26 final size:27
Alignment explanation
Indices: 17704401--17704460 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
17704391 TATATATTTA
*
17704401 AATATT-TTTAATAAAA-ATAAAAAAAT
1 AATATTATTTAA-AAAACAAAAAAAAAT
17704427 AATATTTTATTTAAAAAACAAAAAAAAAT
1 AATA--TTATTTAAAAAACAAAAAAAAAT
17704456 AATAT
1 AATAT
17704461 AAAATAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 4 0.14
27 1 0.03
28 6 0.21
29 18 0.62
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
AATATTATTTAAAAAACAAAAAAAAAT
Found at i:17706184 original size:2 final size:2
Alignment explanation
Indices: 17706177--17706222 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
17706167 CAAAATCAGG
17706177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17706219 AT AT
1 AT AT
17706223 CTAAATATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17715134 original size:30 final size:30
Alignment explanation
Indices: 17715098--17715159 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
17715088 AATATTTACT
17715098 TGTATGATCTTCATCAAGCAATGATGAATC
1 TGTATGATCTTCATCAAGCAATGATGAATC
*
17715128 TGTATGATCTTCATCAGGCAATGATGAATC
1 TGTATGATCTTCATCAAGCAATGATGAATC
17715158 TG
1 TG
17715160 CTTTGAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (30 bp):
TGTATGATCTTCATCAAGCAATGATGAATC
Found at i:17718224 original size:54 final size:54
Alignment explanation
Indices: 17718159--17718267 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
17718149 CAATTGGAGT
17718159 AAGCTTCTAAACCTGGTTGGTTTTTACCTCCAATAATTAATAGGAAGACCAATA
1 AAGCTTCTAAACCTGGTTGGTTTTTACCTCCAATAATTAATAGGAAGACCAATA
17718213 AAGCTTCTAAACCTGGTTGGTTTTTACCTCCAATAATTAATAGGAAGACCAATA
1 AAGCTTCTAAACCTGGTTGGTTTTTACCTCCAATAATTAATAGGAAGACCAATA
17718267 A
1 A
17718268 TTGTGTCTGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
AAGCTTCTAAACCTGGTTGGTTTTTACCTCCAATAATTAATAGGAAGACCAATA
Found at i:17719789 original size:76 final size:76
Alignment explanation
Indices: 17719663--17719805 Score: 277
Period size: 76 Copynumber: 1.9 Consensus size: 76
17719653 GCAAAAGTTA
*
17719663 CACCTGTTGAAAAGTCAATTAAGGGGTGTTGAAAAGTCAAAAATGGAAGGTGCAATTGGCACCGA
1 CACCTGTTGAAAAGTCAATTAAGGGGTGTTGAAAAGTCAAAAATGGAAGGTGCAATTGGCACAGA
17719728 AATGGAAGGTG
66 AATGGAAGGTG
17719739 CACCTGTTGAAAAGTCAATTAAGGGGTGTTGAAAAGTCAAAAATGGAAGGTGCAATTGGCACAGA
1 CACCTGTTGAAAAGTCAATTAAGGGGTGTTGAAAAGTCAAAAATGGAAGGTGCAATTGGCACAGA
17719804 AA
66 AA
17719806 GAAAAAGTGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (76 bp):
CACCTGTTGAAAAGTCAATTAAGGGGTGTTGAAAAGTCAAAAATGGAAGGTGCAATTGGCACAGA
AATGGAAGGTG
Found at i:17720879 original size:25 final size:25
Alignment explanation
Indices: 17720836--17720902 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
17720826 GTTATAGTGA
* *
17720836 TACATTTTTTTAATATAATCAACATTT
1 TACATTTTTTTAGTA-ATTCAA-ATTT
* *
17720863 TACATTTTTTTAGTAATTTAATTTT
1 TACATTTTTTTAGTAATTCAAATTT
17720888 TACTATTTTTTTAGT
1 TAC-ATTTTTTTAGT
17720903 TAAATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.17
26 15 0.43
27 14 0.40
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TACATTTTTTTAGTAATTCAAATTT
Found at i:17720895 original size:26 final size:27
Alignment explanation
Indices: 17720860--17720912 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
17720850 ATAATCAACA
17720860 TTTTACATTTTTTTAG-T-AATTTAAT
1 TTTTACATTTTTTTAGTTAAATTTAAT
17720885 TTTTACTATTTTTTTAGTTAAATTTAAT
1 TTTTAC-ATTTTTTTAGTTAAATTTAAT
17720913 CATTAATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 10 0.40
27 1 0.04
28 8 0.32
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTACATTTTTTTAGTTAAATTTAAT
Found at i:17721600 original size:2 final size:2
Alignment explanation
Indices: 17721593--17721618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17721583 ATTGTAGAAC
17721593 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17721619 GCATAGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17729742 original size:19 final size:18
Alignment explanation
Indices: 17729703--17729744 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17729693 TATATTTTTT
*
17729703 AAAATATTAATTATTATA
1 AAAATATTAATTATGATA
*
17729721 AAAATTATTAA-TATGATG
1 AAAA-TATTAATTATGATA
17729739 AAAATA
1 AAAATA
17729745 ATTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATATTAATTATGATA
Found at i:17730407 original size:16 final size:16
Alignment explanation
Indices: 17730383--17730416 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17730373 ATTAAGTAAA
17730383 AATAAATAAATTTTAT
1 AATAAATAAATTTTAT
* *
17730399 AATATATAACTTTTAT
1 AATAAATAAATTTTAT
17730415 AA
1 AA
17730417 ATAAGCTTTT
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:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATAAATTTTAT
Found at i:17730427 original size:14 final size:13
Alignment explanation
Indices: 17730384--17730432 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
17730374 TTAAGTAAAA
*
17730384 ATAAATAAATTTT
1 ATAAATAACTTTT
17730397 ATAATATATAACTTTT
1 AT-A-A-ATAACTTTT
17730413 ATAAATAAGCTTTT
1 ATAAATAA-CTTTT
17730427 ATAAAT
1 ATAAAT
17730433 TGTCCAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 6 0.19
14 13 0.42
15 2 0.06
16 10 0.32
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (13 bp):
ATAAATAACTTTT
Found at i:17731813 original size:53 final size:53
Alignment explanation
Indices: 17731732--17731882 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
17731722 CTTACACGGT
* *
17731732 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
17731787 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
17731840 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
17731883 GCACACTCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:17739284 original size:53 final size:53
Alignment explanation
Indices: 17739203--17739353 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
17739193 CTTACACGGT
* *
17739203 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
17739258 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
17739311 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
17739354 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:17743224 original size:148 final size:148
Alignment explanation
Indices: 17742956--17743250 Score: 572
Period size: 148 Copynumber: 2.0 Consensus size: 148
17742946 CATCAATCTC
* *
17742956 AACAACAACCATGAATTAACAAAGTGCTGACTTCATTCCAAGTTAATTATAAACCTAGAGTCAAT
1 AACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAAT
17743021 AACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCCC
66 AACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCCC
17743086 AGCAACTAAAATTTGTGT
131 AGCAACTAAAATTTGTGT
17743104 AACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAAT
1 AACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAAT
17743169 AACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCCC
66 AACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCCC
17743234 AGCAACTAAAATTTGTG
131 AGCAACTAAAATTTGTG
17743251 AAAGATATAA
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (148 bp):
AACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAAT
AACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCCC
AGCAACTAAAATTTGTGT
Found at i:17752773 original size:90 final size:90
Alignment explanation
Indices: 17752610--17752959 Score: 598
Period size: 90 Copynumber: 4.0 Consensus size: 90
17752600 ATTATATAAC
17752610 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTTGTGTGT
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTA-TTTGTGTGT
17752675 CATG-TTTTTGAGAATGTGAATAAGT
65 CATGTTTTTTGAGAATGTGAATAAGT
17752700 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
17752765 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
17752790 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
17752855 ATGTTTTTT--G-A---G---AA--
66 ATGTTTTTTGAGAATGTGAATAAGT
*
17752869 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATCTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
17752934 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
17752959 T
1 T
17752960 ATCAACTTAT
Statistics
Matches: 247, Mismatches: 1, Indels: 24
0.91 0.00 0.09
Matches are distributed among these distances:
79 73 0.30
81 3 0.01
82 1 0.00
84 1 0.00
85 1 0.00
87 1 0.00
88 3 0.01
89 13 0.05
90 151 0.61
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.50
Consensus pattern (90 bp):
TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
ATGTTTTTTGAGAATGTGAATAAGT
Found at i:17752921 original size:79 final size:79
Alignment explanation
Indices: 17752790--17752948 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
17752780 GTGAATAAGT
*
17752790 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATCTGTGTGTC
17752855 ATGTTTTTTGAGAA
66 ATGTTTTTTGAGAA
17752869 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATCTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATCTGTGTGTC
17752934 ATGTTTTTTGAGAA
66 ATGTTTTTTGAGAA
17752948 T
1 T
17752949 GTGAATAAGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.18, C:0.19, G:0.11, T:0.52
Consensus pattern (79 bp):
TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATCTGTGTGTC
ATGTTTTTTGAGAA
Found at i:17754422 original size:13 final size:13
Alignment explanation
Indices: 17754404--17754435 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17754394 GGTTGATATT
17754404 TCTTGTTTTAGGG
1 TCTTGTTTTAGGG
17754417 TCTTGTTTTAGGG
1 TCTTGTTTTAGGG
*
17754430 TGTTGT
1 TCTTGT
17754436 CATTTCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.31, T:0.56
Consensus pattern (13 bp):
TCTTGTTTTAGGG
Found at i:17756344 original size:12 final size:11
Alignment explanation
Indices: 17756325--17756358 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
17756315 GCTTTAAATT
17756325 AAAAAAAGAAA
1 AAAAAAAGAAA
17756336 AAGAAAAAGAAA
1 AA-AAAAAGAAA
17756348 AAAAGAAAGAA
1 AAAA-AAAGAA
17756359 TGCAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:17768113 original size:11 final size:11
Alignment explanation
Indices: 17768097--17768122 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17768087 TTTCATTACT
17768097 TTATGTTATTA
1 TTATGTTATTA
17768108 TTATGTTATTA
1 TTATGTTATTA
17768119 TTAT
1 TTAT
17768123 TATTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTATGTTATTA
Found at i:17768124 original size:17 final size:17
Alignment explanation
Indices: 17768102--17768172 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
17768092 TTACTTTATG
17768102 TTATTATTATGTTATTA
1 TTATTATTATGTTATTA
*
17768119 TTATTATTATATTATTA
1 TTATTATTATGTTATTA
*
17768136 TCATTATTA--TTATTA
1 TTATTATTATGTTATTA
*
17768151 TTACTAGTATATGTT-TTA
1 TTATTA-T-TATGTTATTA
17768169 TTAT
1 TTAT
17768173 ATGTGTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 10 0.22
16 1 0.02
17 26 0.58
18 6 0.13
19 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (17 bp):
TTATTATTATGTTATTA
Found at i:17768172 original size:3 final size:3
Alignment explanation
Indices: 17768102--17768153 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
17768092 TTACTTTATG
* *
17768102 TTA TTA TTA -TG TTA TTA TTA TTA TTA -TA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17768148 TTA TTA
1 TTA TTA
17768154 CTAGTATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:17769405 original size:23 final size:23
Alignment explanation
Indices: 17769323--17769409 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
17769313 CCTGATCAGC
*
17769323 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
17769345 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
17769365 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
17769388 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
17769410 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:17772104 original size:17 final size:17
Alignment explanation
Indices: 17772073--17772118 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
17772063 TATGTATGCC
*
17772073 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
17772091 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
17772108 ATTGT-TATTTT
1 A-TGTATATTTT
17772119 CTATCGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:17776342 original size:18 final size:18
Alignment explanation
Indices: 17776319--17776357 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17776309 ATTTTATAAT
* * *
17776319 ATTTTTACTTATTTTTTA
1 ATTTTTAATAATTTTTCA
17776337 ATTTTTAATAATTTTTCA
1 ATTTTTAATAATTTTTCA
17776355 ATT
1 ATT
17776358 GAATTGGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAATAATTTTTCA
Found at i:17777345 original size:9 final size:9
Alignment explanation
Indices: 17777331--17777355 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17777321 TTCTTATATT
17777331 TTTTTTTAC
1 TTTTTTTAC
17777340 TTTTTTTAC
1 TTTTTTTAC
17777349 TTTTTTT
1 TTTTTTT
17777356 CTTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:17777443 original size:36 final size:37
Alignment explanation
Indices: 17777371--17777444 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
17777361 ATTTTGTCTC
*
17777371 TTTCTTAGATTTTTTTCTTTTTTAAGTTTCATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAGTTTCATATTAT
17777408 TTTCTTA-ATTTATTTTGCTTATTTAA-TTT-ATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTCATATTAT
17777444 T
1 T
17777445 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.68
Consensus pattern (37 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTCATATTAT
Found at i:17777458 original size:23 final size:22
Alignment explanation
Indices: 17777432--17777499 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
17777422 TTGCTTATTT
*
17777432 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
17777455 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
* *
17777477 TATTTTATAATATTTTTTTAAAA
1 -AATTTATAATATTATTTTAAAA
17777500 TTTTAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 8 0.22
23 25 0.68
24 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:17777500 original size:23 final size:23
Alignment explanation
Indices: 17777447--17777527 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 23
17777437 ATATTATTAA
* * *
17777447 TTTTAAAA-AATTTGTAATATAT
1 TTTTAAAATATTTTATAATATTT
*
17777469 ATTTAAAATATTTTATAATATTT
1 TTTTAAAATATTTTATAATATTT
* *
17777492 TTTTAAAAT-TTTAATTATCA-TT
1 TTTTAAAATATTTTATAAT-ATTT
*
17777514 TTTAAAAATATTTT
1 TTTTAAAATATTTT
17777528 TTAACTTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
22 24 0.51
23 23 0.49
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTAAAATATTTTATAATATTT
Found at i:17777809 original size:18 final size:18
Alignment explanation
Indices: 17777786--17777832 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
17777776 GTGACTATTA
17777786 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
17777804 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
17777820 ATATA-TTAAATAT
1 ATAAATTTAAATAT
17777833 TATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:17777832 original size:11 final size:11
Alignment explanation
Indices: 17777816--17777858 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
17777806 AAATTTTAAA
17777816 AAATATATATT
1 AAATATATATT
17777827 AAATAT-TATT
1 AAATATATATT
** *
17777837 TTATAAATATT
1 AAATATATATT
17777848 AAATATATATT
1 AAATATATATT
17777859 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATATATATT
Found at i:17778132 original size:35 final size:35
Alignment explanation
Indices: 17778075--17778141 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
17778065 ATTTTAAAAT
*
17778075 TTTTTTAAAAATTTTGTCTTTTTCCTTTTTTTTAC
1 TTTTTTAAAAATTTTGTCTTTTTCCTTGTTTTTAC
* * *
17778110 TTTTTTGAAATTTTATGT-TTTTTTCTTGTTTT
1 TTTTTTAAAAATTT-TGTCTTTTTCCTTGTTTT
17778142 ATTTTGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.89
36 3 0.11
ACGTcount: A:0.15, C:0.07, G:0.06, T:0.72
Consensus pattern (35 bp):
TTTTTTAAAAATTTTGTCTTTTTCCTTGTTTTTAC
Found at i:17778239 original size:21 final size:21
Alignment explanation
Indices: 17778200--17778243 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17778190 ATTTAAAATG
17778200 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
17778222 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
17778242 TT
1 TT
17778244 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:17778378 original size:12 final size:12
Alignment explanation
Indices: 17778357--17778401 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
17778347 TGACTATTAA
*
17778357 TAAATTTAAATT
1 TAAATATAAATT
17778369 TAAATATAAATT
1 TAAATATAAATT
* *
17778381 TAAAAATATATAT
1 TAAATATAAAT-T
17778394 TAAATATA
1 TAAATATA
17778402 TTTTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATATAAATT
Found at i:17778393 original size:18 final size:18
Alignment explanation
Indices: 17778356--17778398 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17778346 ATGACTATTA
**
17778356 ATAAATTTAAATTTAAAT
1 ATAAATTTAAAAATAAAT
*
17778374 ATAAATTTAAAAATATAT
1 ATAAATTTAAAAATAAAT
17778392 ATTAAAT
1 A-TAAAT
17778399 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATTTAAAAATAAAT
Found at i:17779900 original size:21 final size:22
Alignment explanation
Indices: 17779874--17779932 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
17779864 GTTTTAAGAA
*
17779874 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
17779895 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
17779917 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
17779933 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:17779947 original size:26 final size:24
Alignment explanation
Indices: 17779903--17779952 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
17779893 ATTTGTTTTA
*
17779903 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
17779927 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
17779953 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:17781960 original size:30 final size:30
Alignment explanation
Indices: 17781924--17782046 Score: 183
Period size: 30 Copynumber: 4.1 Consensus size: 30
17781914 GTCCCAGAGC
*
17781924 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
17781954 AGTTCATATCACTCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
17781984 AGTTCTTATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
17782014 AGTTCATATCACCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
17782044 AGT
1 AGT
17782047 CCATTTGACC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:17785527 original size:14 final size:13
Alignment explanation
Indices: 17785494--17785534 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
17785484 CTTGAAATGC
17785494 ATTTTTTA-AAA-
1 ATTTTTTATAAAT
*
17785505 ATATTTTATAATAT
1 ATTTTTTATAA-AT
17785519 ATTTTTTATAAAT
1 ATTTTTTATAAAT
17785532 ATT
1 ATT
17785535 AAAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTTATAAAT
Found at i:17785540 original size:23 final size:24
Alignment explanation
Indices: 17785494--17785546 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
17785484 CTTGAAATGC
*
17785494 ATTTTTTAAAAATATTTTATAATAT
1 ATTTTTTAAAAATA-TTTAAAATAT
*
17785519 ATTTTTTATAAATA-TTAAAATAT
1 ATTTTTTAAAAATATTTAAAATAT
17785542 ATTTT
1 ATTTT
17785547 CAAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 13 0.50
25 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTTAAAAATATTTAAAATAT
Found at i:17785571 original size:31 final size:32
Alignment explanation
Indices: 17785517--17785586 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
17785507 ATTTTATAAT
*
17785517 ATATTTTTTATAAATATTAAAATATATTTTCA
1 ATATTATTTATAAATATTAAAATATATTTTCA
*
17785549 A-ATTATTTATTAAATATT-AAATATATTTTTA
1 ATATTATTTA-TAAATATTAAAATATATTTTCA
17785580 ATATTAT
1 ATATTAT
17785587 AAAACATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (32 bp):
ATATTATTTATAAATATTAAAATATATTTTCA
Found at i:17785584 original size:18 final size:19
Alignment explanation
Indices: 17785548--17785585 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17785538 ATATATTTTC
17785548 AAATTATTTATTAAATATT
1 AAATTATTTATTAAATATT
17785567 AAATATATTT-TT-AATATT
1 AAAT-TATTTATTAAATATT
17785585 A
1 A
17785586 TAAAACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTATTAAATATT
Found at i:17785605 original size:29 final size:29
Alignment explanation
Indices: 17785565--17785642 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
17785555 TTATTAAATA
*
17785565 TTAAATAT-ATTTTTAATATTATAAAACAT
1 TTAAA-ATGATTTTAAATATTATAAAACAT
* * ** *
17785594 TTAAAATGATTTAAAATATTTTTTAATAT
1 TTAAAATGATTTTAAATATTATAAAACAT
*
17785623 TTTAAATGATTTTAAATATT
1 TTAAAATGATTTTAAATATT
17785643 TTTTAAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TTAAAATGATTTTAAATATTATAAAACAT
Found at i:17785607 original size:10 final size:9
Alignment explanation
Indices: 17785523--17785643 Score: 55
Period size: 10 Copynumber: 12.3 Consensus size: 9
17785513 TAATATATTT
17785523 TTTATAAATA
1 TTTA-AAATA
*
17785533 TTAAAATATA
1 TTTAAA-ATA
*
17785543 TTTTCAAATTA
1 -TTT-AAAATA
17785554 TTTATTAAATA
1 TTTA--AAATA
17785565 -TTAAATATA
1 TTTAAA-ATA
**
17785574 TTTTTAATA
1 TTTAAAATA
*
17785583 TTATAAAACA
1 TT-TAAAATA
17785593 TTTAAAATGA
1 TTTAAAAT-A
17785603 TTTAAAATA
1 TTTAAAATA
**
17785612 TTTTTTAATA
1 -TTTAAAATA
*
17785622 TTTTAAATGA
1 TTTAAAAT-A
*
17785632 TTTTAAATA
1 TTTAAAATA
17785641 TTT
1 TTT
17785644 TTTAAATTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
8 2 0.02
9 28 0.32
10 46 0.53
11 8 0.09
12 3 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (9 bp):
TTTAAAATA
Found at i:17785625 original size:9 final size:9
Alignment explanation
Indices: 17785558--17785644 Score: 59
Period size: 10 Copynumber: 9.2 Consensus size: 9
17785548 AAATTATTTA
17785558 TTAAATA-T
1 TTAAATATT
*
17785566 TAAATATATT
1 TTAA-ATATT
*
17785576 TTTAATATT
1 TTAAATATT
* *
17785585 ATAAAACATT
1 -TTAAATATT
*
17785595 TAAAATGATT
1 TTAAAT-ATT
*
17785605 TAAAATATTT
1 TTAAATA-TT
*
17785615 TTTAATATT
1 TTAAATATT
17785624 TTAAATGATT
1 TTAAAT-ATT
17785634 TTAAATATT
1 TTAAATATT
17785643 TT
1 TT
17785645 TTAAATTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
8 3 0.05
9 26 0.41
10 34 0.54
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (9 bp):
TTAAATATT
Found at i:17785644 original size:19 final size:18
Alignment explanation
Indices: 17785558--17785644 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 18
17785548 AAATTATTTA
*
17785558 TTAAATA-TTAAATATATT
1 TTAAATATTTTAA-ATATT
* * *
17785576 TTTAATATTATAAAACATT
1 TTAAATATT-TTAAATATT
* *
17785595 TAAAATGATTTAAAATATTT
1 TTAAAT-ATTTTAAATA-TT
*
17785615 TTTAATATTTTAAATGATT
1 TTAAATATTTTAAAT-ATT
17785634 TTAAATATTTT
1 TTAAATATTTT
17785645 TTAAATTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
18 6 0.11
19 35 0.64
20 14 0.25
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (18 bp):
TTAAATATTTTAAATATT
Found at i:17785645 original size:10 final size:10
Alignment explanation
Indices: 17785503--17785650 Score: 51
Period size: 10 Copynumber: 14.4 Consensus size: 10
17785493 CATTTTTTAA
17785503 AAATATTTTAT
1 AAATATTTT-T
17785514 AATATATTTTTT
1 AA-ATA-TTTTT
* *
17785526 ATAA-ATATTA
1 A-AATATTTTT
17785536 AAATATATTTT
1 AAATAT-TTTT
17785547 CAAATTATTTATT
1 -AAA-TATTT-TT
17785560 AAATA---TT
1 AAATATTTTT
17785567 AAATATATTTT
1 AAATAT-TTTT
* * *
17785578 TAATATTATA
1 AAATATTTTT
* *
17785588 AAACA-TTTA
1 AAATATTTTT
*
17785597 AAATGA-TTTA
1 AAAT-ATTTTT
17785607 AAATATTTTT
1 AAATATTTTT
*
17785617 TAATA-TTTT
1 AAATATTTTT
17785626 AAATGA-TTTT
1 AAAT-ATTTTT
17785636 AAATATTTTTT
1 AAATA-TTTTT
17785647 AAAT
1 AAAT
17785651 TTTACATAGA
Statistics
Matches: 106, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
7 7 0.07
9 17 0.16
10 36 0.34
11 22 0.21
12 14 0.13
13 10 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (10 bp):
AAATATTTTT
Found at i:17785672 original size:29 final size:29
Alignment explanation
Indices: 17785592--17785654 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
17785582 ATTATAAAAC
* *
17785592 ATTTAAAATGATTTAAAATATTTTTTAAT
1 ATTTTAAATGATTTTAAATATTTTTTAAT
17785621 ATTTTAAATGATTTTAAATATTTTTTAA-
1 ATTTTAAATGATTTTAAATATTTTTTAAT
17785649 ATTTTA
1 ATTTTA
17785655 CATAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTAAATGATTTTAAATATTTTTTAAT
Found at i:17786442 original size:22 final size:24
Alignment explanation
Indices: 17786407--17786500 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 24
17786397 ATAAAGTTAA
17786407 AAAATATTTTTAAAAATAATAAT-T
1 AAAATA-TTTTAAAAATAATAATAT
*
17786431 AAAA-ATTTT-AAAA-AATATTAT
1 AAAATATTTTAAAAATAATAATAT
*
17786452 AAAATATTTTAAATAT-AT-AT-T
1 AAAATATTTTAAAAATAATAATAT
* *
17786473 ACAAATTTTTTAAAATTAATAATAT
1 A-AAATATTTTAAAAATAATAATAT
17786498 AAA
1 AAA
17786501 TTAAATAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
20 5 0.09
21 11 0.20
22 22 0.39
23 8 0.14
24 8 0.14
25 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAATATTTTAAAAATAATAATAT
Found at i:17786501 original size:23 final size:22
Alignment explanation
Indices: 17786412--17786502 Score: 71
Period size: 23 Copynumber: 4.1 Consensus size: 22
17786402 GTTAAAAAAT
*
17786412 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
** *
17786433 AAATTTTAAAA-AATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
* * *
17786455 ATATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
17786477 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
17786500 ATT
1 ATT
17786503 AAATAAGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.09
21 12 0.22
22 17 0.31
23 19 0.35
24 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:17786535 original size:18 final size:18
Alignment explanation
Indices: 17786485--17786536 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
17786475 AAATTTTTTA
*
17786485 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
17786503 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
17786521 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
17786537 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:17786616 original size:17 final size:17
Alignment explanation
Indices: 17786596--17786636 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
17786586 ATTAAAAAGT
*
17786596 TAAAAAAGTAAAATAAA
1 TAAAAAAGTAAAAAAAA
17786613 TAAAAAAGTAAAAAAAA
1 TAAAAAAGTAAAAAAAA
17786630 TAAAAAA
1 TAAAAAA
17786637 CTGACAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
TAAAAAAGTAAAAAAAA
Found at i:17786620 original size:26 final size:25
Alignment explanation
Indices: 17786580--17786636 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
17786570 AAAATATAAG
* * *
17786580 AAAAAAATTAAAAAGTTAAAAAAGT
1 AAAAAAATAAAAAAGTAAAAAAAAT
17786605 AAAATAAATAAAAAAGTAAAAAAAAT
1 AAAA-AAATAAAAAAGTAAAAAAAAT
17786631 AAAAAA
1 AAAAAA
17786637 CTGACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAAAAATAAAAAAGTAAAAAAAAT
Found at i:17786628 original size:9 final size:9
Alignment explanation
Indices: 17786589--17786636 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
17786579 GAAAAAAATT
*
17786589 AAAAAGTTA
1 AAAAAGTAA
17786598 AAAAAGTAA
1 AAAAAGTAA
17786607 AATAAA-T-A
1 AA-AAAGTAA
17786615 AAAAAGTAA
1 AAAAAGTAA
*
17786624 AAAAAATAA
1 AAAAAGTAA
17786633 AAAA
1 AAAA
17786637 CTGACAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 3 0.09
8 4 0.12
9 24 0.71
10 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (9 bp):
AAAAAGTAA
Found at i:17786634 original size:8 final size:8
Alignment explanation
Indices: 17786580--17786636 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
17786570 AAAATATAAG
17786580 AAAAAAATT
1 AAAAAAA-T
**
17786589 AAAAAGTT
1 AAAAAAAT
*
17786597 AAAAAAGT
1 AAAAAAAT
17786605 AAAATAAAT
1 AAAA-AAAT
*
17786614 AAAAAAGT
1 AAAAAAAT
17786622 AAAAAAAAT
1 -AAAAAAAT
17786631 AAAAAA
1 AAAAAA
17786637 CTGACAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
8 20 0.51
9 19 0.49
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (8 bp):
AAAAAAAT
Found at i:17786907 original size:25 final size:25
Alignment explanation
Indices: 17786857--17786911 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
17786847 CTTTTTACTG
*
17786857 TAAAAAATAGATTATTTTGTACATAAT
1 TAAAAAATAAATTATTTTG-A-ATAAT
17786884 TAAAAAGATAAATTATTTTG-ATAAT
1 TAAAAA-ATAAATTATTTTGAATAAT
17786909 TAA
1 TAA
17786912 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 8 0.31
27 6 0.23
28 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (25 bp):
TAAAAAATAAATTATTTTGAATAAT
Found at i:17795944 original size:2 final size:2
Alignment explanation
Indices: 17795932--17795960 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17795922 AACGCTACAT
17795932 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
17795961 AGCAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17802690 original size:41 final size:41
Alignment explanation
Indices: 17802633--17802764 Score: 246
Period size: 41 Copynumber: 3.2 Consensus size: 41
17802623 ATACGCATAG
17802633 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
17802674 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
*
17802715 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGT
1 TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
17802756 TATACATTT
1 TATA-ATTT
17802765 CTAACTTTAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 85 0.96
42 4 0.04
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (41 bp):
TATAATTTTACTTTCCTAACTTTAGTTTGAGAATGTCAGGA
Found at i:17808205 original size:10 final size:9
Alignment explanation
Indices: 17808180--17808212 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
17808170 ATTTTTTTTA
17808180 TTTAAATTT
1 TTTAAATTT
17808189 TTTAAATTT
1 TTTAAATTT
*
17808198 TTTAAA-AT
1 TTTAAATTT
17808206 TTTAAAT
1 TTTAAAT
17808213 CTGTAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTAAATTT
Found at i:17814218 original size:16 final size:19
Alignment explanation
Indices: 17814187--17814226 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
17814177 TTACGAGTAG
17814187 GTTTTTGTATGTTATTT-T
1 GTTTTTGTATGTTATTTCT
17814205 GTTTTTG-A-GTTATTTCT
1 GTTTTTGTATGTTATTTCT
17814222 GTTTT
1 GTTTT
17814227 AGAACTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 7 0.33
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (19 bp):
GTTTTTGTATGTTATTTCT
Found at i:17821627 original size:3 final size:3
Alignment explanation
Indices: 17821619--17821669 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
17821609 TACCCCACAA
17821619 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17821666 AAG A
1 AAG A
17821670 GAACTGAGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17830535 original size:51 final size:51
Alignment explanation
Indices: 17830459--17830570 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
17830449 CTCAAACTTA
* *
17830459 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* *
17830510 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAACTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
*
17830561 CTTTATATTT
1 CTTCATATTT
17830571 TATCTGGATA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:17838345 original size:18 final size:20
Alignment explanation
Indices: 17838303--17838339 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17838293 ATATTTTATG
*
17838303 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
17838322 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
17838340 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:17840491 original size:46 final size:46
Alignment explanation
Indices: 17840439--17840757 Score: 381
Period size: 46 Copynumber: 7.0 Consensus size: 46
17840429 AGTGTGCTCT
*
17840439 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
17840485 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17840531 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17840576 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
17840622 ATGACGGGAAATAAATAAGACCATGGCTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ***
17840668 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
17840714 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
17840758 TCATGTCAAA
Statistics
Matches: 251, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
45 45 0.18
46 206 0.82
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:17840687 original size:137 final size:138
Alignment explanation
Indices: 17840439--17840762 Score: 382
Period size: 137 Copynumber: 2.4 Consensus size: 138
17840429 AGTGTGCTCT
* * * * ***
17840439 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACCTGATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAG
* * * * * ***
17840504 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGCTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGGTTGAAAGATACC
17840569 ATGGC-AC
131 ATGGCAAC
* * *
17840576 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAG
* *
17840641 ACCATGGCTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACC
66 ACCATGGCTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGGTTGAAAGATACC
17840706 ATGGCAAC
131 ATGGCAAC
* * * * * * *
17840714 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
17840763 TCAAAGATAA
Statistics
Matches: 157, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
137 116 0.74
138 41 0.26
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAG
ACCATGGCTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:17841567 original size:19 final size:21
Alignment explanation
Indices: 17841543--17841595 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17841533 TCCTTTGTAT
17841543 TATTATACATATA-C-ATATA
1 TATTATACATATATCAATATA
*
17841562 TATTATA-ATAAAATCAATATA
1 TATTATACAT-ATATCAATATA
*
17841583 TTTTATACATATA
1 TATTATACATATA
17841596 ATGGCTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 1 0.04
21 13 0.48
22 2 0.07
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTATACATATATCAATATA
Found at i:17843161 original size:131 final size:132
Alignment explanation
Indices: 17842894--17843506 Score: 526
Period size: 131 Copynumber: 4.7 Consensus size: 132
17842884 GGTAATTCGT
* * * * * ** *
17842894 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTT
1 GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTC
* * * * *
17842959 AGAATTTCACCCATGTCTTTTAAAAATCCCTT-AAACGAAGGCGATGTGT-GATATTTGGCAATT
66 AGAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAGGCAATGT-TCGATGTTTGGCAATT
17843022 CAC-
130 C-CG
* * * *
17843025 AGAATCGTGCCCTAACGTGCTGGGTTACAATTTCTCGTTCGCTTAAAATAATCAAATATCCCTTC
1 GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTC
* * ** *
17843090 AAAATTTCACTCGTGTCTTCTAAAAATCCTTTAAAACGAAGGCAATACTC-AGTGTTTGACAA-T
66 AGAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAGGCAATGTTCGA-TGTTTGGCAATT
17843153 CCG
130 CCG
* *** ** * * *
17843156 GGAATCATGCCCTATCGTGCTGGGTTATGATTTCTCGTTTGCTCGAAACAATCAAATATTCCTTT
1 GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTC
** * * *
17843221 AGGTTTTCACTCATGT-TTATTAAAAA-CCTTTCAAAACGAAGGTAATGTTCGATGTTTGGCGAT
66 AGAATTTCACTCATGTCTT-CTAAAAATCCTTT-AAAACGAAGGCAATGTTCGATGTTTGGCAAT
*
17843284 T-TG
129 TCCG
* * ** * * * * * *
17843287 AGAATCGTGCCCTGTCGTGCTGGGTTGCGCTTTTTCATTTGTCCT-AAACAATCGAAGATCCCTT
1 GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTG-CTTAAAATAATCAAATATCCCTT
* * * * * * *
17843351 CGGAATTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCGACGTTTGGCAATT
65 CAGAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATT
*
17843416 CGG
130 CCG
* * * * * *
17843419 GGAATAGTGCCCTATCGTGTTGGGTTGCAATTTCCCATTTG-TTCAAGATAATCAAATATCTCTT
1 GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTT-AAAATAATCAAATATCCCTT
* *
17843483 CAGAATTTCACTCGTGTTTTCTAA
65 CAGAATTTCACTCATGTCTTCTAA
17843507 GGCGATGTGT
Statistics
Matches: 385, Mismatches: 83, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
130 9 0.02
131 277 0.72
132 99 0.26
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (132 bp):
GGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTC
AGAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC
CG
Found at i:17845009 original size:53 final size:53
Alignment explanation
Indices: 17844853--17845018 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
17844843 GACGAAAAAT
* **
17844853 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
17844905 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
17844958 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
17845012 TATGTGA
1 -ATGTGA
17845019 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:17852502 original size:53 final size:53
Alignment explanation
Indices: 17852366--17852511 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
17852356 TGTGCCTGTT
**
17852366 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
17852419 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
17852472 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
17852512 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:17863758 original size:15 final size:16
Alignment explanation
Indices: 17863738--17863767 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17863728 AAAAATTGCC
17863738 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
17863753 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
17863768 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:17869337 original size:53 final size:53
Alignment explanation
Indices: 17869256--17869457 Score: 206
Period size: 53 Copynumber: 4.0 Consensus size: 53
17869246 GACGAAAAAT
*
17869256 ATGTGATAAGTGTG-C-CCGTTTAAGACCATGGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATGGCTGGGCTATGGCATCGGTGCA
* * **
17869308 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGCCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATGGCTGGGCTATGGCATCGGTGCA
* * * *
17869361 ATGTGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTC-G-GC-
1 ATGTGATAATGTGACTCCGTATAAGACCATGGCTGGGCTATGGCATCGGTGCA
* * ** *
17869411 A--TGAT-ATGTGA-ACCGTGTAAGACCATGGCAAGGCTATGGCTTCGGTG
1 ATGTGATAATGTGACTCCGTATAAGACCATGGCTGGGCTATGGCATCGGTG
17869458 TGTGATGCGT
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
46 26 0.20
47 7 0.06
48 5 0.04
50 1 0.01
51 4 0.03
52 11 0.09
53 73 0.57
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATGGCTGGGCTATGGCATCGGTGCA
Found at i:17874038 original size:17 final size:19
Alignment explanation
Indices: 17874004--17874041 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
17873994 AAACCTTGAA
17874004 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
17874023 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
17874040 TT
1 TT
17874042 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Done.