Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 55 of 167
Found at i:17031500 original size:46 final size:45
Alignment explanation
Indices: 17031447--17031622 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
17031437 TATTTGGGCA
17031447 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
17031493 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
17031540 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
17031586 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17031623 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17031602 original size:93 final size:93
Alignment explanation
Indices: 17031443--17031614 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
17031433 GGGATATTTG
* *
17031443 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17031508 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
17031536 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17031601 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17031615 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17034586 original size:15 final size:15
Alignment explanation
Indices: 17034547--17034626 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
17034537 GTATCTTGGG
*
17034547 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
17034562 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
17034577 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
17034592 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
17034607 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
17034621 TTTCTT
1 TTTCTT
17034627 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:17034616 original size:30 final size:30
Alignment explanation
Indices: 17034538--17034625 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
17034528 CATAGTATCG
* * *
17034538 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
17034568 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
17034598 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
17034626 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:17037064 original size:46 final size:46
Alignment explanation
Indices: 17037011--17037269 Score: 297
Period size: 46 Copynumber: 5.6 Consensus size: 46
17037001 TATTTGGGCA
* *
17037011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
*** * * * * *
17037057 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTCATGGATGCGA-ACG
* * * **
17037104 TCCGAGCAT-GTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATA
1 TCCGAAC-TCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
17037150 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
* *
17037196 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
* * *
17037242 CCCGAGCTCATTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
17037270 TATGTGCAAA
Statistics
Matches: 181, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
45 1 0.01
46 147 0.81
47 32 0.18
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
Found at i:17037166 original size:93 final size:94
Alignment explanation
Indices: 17037007--17037269 Score: 338
Period size: 93 Copynumber: 2.8 Consensus size: 94
17036997 AGGATATTTG
*
17037007 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
* * * *
17037072 TTGAGTCCGAGTTCGAGAGATGTA-AC-TA
66 TTGAGTCCGAGTTC-ACACATGGATACGAA
* *
17037100 GGCATCCGAGCAT-GTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGA
1 GGCATCCGAGC-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
* *
17037164 GTTGAGTCCGAGTTCACTCATGGATGCGAA
65 GTTGAGTCCGAGTTCACACATGGATACGAA
* * * * * *
17037194 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
17037257 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
17037270 TATGTGCAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
91 1 0.01
92 69 0.46
93 75 0.50
94 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (94 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCACACATGGATACGAA
Found at i:17050912 original size:48 final size:48
Alignment explanation
Indices: 17050838--17051057 Score: 254
Period size: 48 Copynumber: 4.7 Consensus size: 48
17050828 ACATGGTAGG
* * * *
17050838 ATGCGAATGCCATATCCTAGATATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
*
17050886 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * *
17050934 ATGCCAATGCCATGTCCTAGACATGGTTTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * ** *
17050982 ATGCCAATG----G-CCCA-ACTATAGTCTTACACGAAATTACATATCA
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCA
* *
17051025 ATTCCAAAGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
17051058 CGAGATCGCA
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.01
43 29 0.20
44 1 0.01
47 1 0.01
48 112 0.76
49 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
Found at i:17051051 original size:91 final size:93
Alignment explanation
Indices: 17050846--17051057 Score: 250
Period size: 91 Copynumber: 2.3 Consensus size: 93
17050836 GGATGCGAAT
* * *
17050846 GCCATATCCTAGATATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTCCCAGACATG
1 GCCATGTCCTAGACATGGTCTTACATGGGATCACATATCAATGCCAATG-C--GTCCCAGACATA
* ** * *
17050911 GTCTTACATGGGATCACATATCGATGCCAAT
63 GTCTTACACGAAATCACATATCAATGCCAAA
* *
17050942 GCCATGTCCTAGACATGGTTTTACATGGGATCACATATCGATGCCAATG-G-CCCA-ACTATAGT
1 GCCATGTCCTAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCGTCCCAGAC-ATAGT
* *
17051004 CTTACACGAAATTACATATCAATTCCAAA
65 CTTACACGAAATCACATATCAATGCCAAA
*
17051033 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCTAGACATGGTCTTACA
17051058 CGAGATCGCA
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
90 2 0.02
91 53 0.52
92 1 0.01
96 45 0.45
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (93 bp):
GCCATGTCCTAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCGTCCCAGACATAGTC
TTACACGAAATCACATATCAATGCCAAA
Found at i:17058721 original size:40 final size:40
Alignment explanation
Indices: 17058663--17058742 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
17058653 TAATACATAG
*
17058663 AAAATATAACACGTAGTAATCTTCATAGCTTAGTAAGCTC
1 AAAATATAACACGAAGTAATCTTCATAGCTTAGTAAGCTC
17058703 AAAATATAACACGAAGTAATCTTCATAGCTTAGTAAGCTC
1 AAAATATAACACGAAGTAATCTTCATAGCTTAGTAAGCTC
17058743 GTATGTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (40 bp):
AAAATATAACACGAAGTAATCTTCATAGCTTAGTAAGCTC
Found at i:17059141 original size:77 final size:77
Alignment explanation
Indices: 17059042--17059249 Score: 310
Period size: 77 Copynumber: 2.7 Consensus size: 77
17059032 GAACTATTTC
* **
17059042 CATGGCCCGAAGCCAAAACATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCGCACCCG
1 CATGGCCAGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCGCACCCG
17059107 AAGTGCTAATAT
66 AAGTGCTAATAT
* *** * *
17059119 CATGGCCAGCAGCCAACTCATCCGATATGCATGGTATGAAGCCAAATTGGTATAACTCGTACCCG
1 CATGGCCAGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCGCACCCG
17059184 AAGTGCTAATAT
66 AAGTGCTAATAT
*
17059196 CATGGCCCA-AAGCCAACTCATCTGATATGCATGGCCCGAAGCCAAATCGGTATA
1 CATGG-CCAGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATA
17059250 TCATCTTATA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 112 0.97
78 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (77 bp):
CATGGCCAGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCGCACCCG
AAGTGCTAATAT
Found at i:17065275 original size:24 final size:25
Alignment explanation
Indices: 17065218--17065288 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
17065208 AGACTCACTG
*
17065218 CAGCTCGTATGAGCTTATCAATATAT
1 CAGCTCGTATGAGCTTA-CTATATAT
* *
17065244 CAGCTCGTATGAGCTTACTGT-TCT
1 CAGCTCGTATGAGCTTACTATATAT
17065268 CAGCTCGTCA-GAGCTTACTAT
1 CAGCTCGT-ATGAGCTTACTAT
17065289 TTCCAGCTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 20 0.50
25 3 0.08
26 17 0.43
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTATATAT
Found at i:17067921 original size:43 final size:43
Alignment explanation
Indices: 17067873--17067958 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
17067863 ATCACATGTA
** *
17067873 TCGCATCCATTATGAACTCGAACCACTCAACGAGCTCGGATGC
1 TCGCATCCACAATGAACTAGAACCACTCAACGAGCTCGGATGC
** * *
17067916 TCGCATCCACAATGAACTAGGGCCACTCAATGAGTTCGGATGC
1 TCGCATCCACAATGAACTAGAACCACTCAACGAGCTCGGATGC
17067959 CACATATATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (43 bp):
TCGCATCCACAATGAACTAGAACCACTCAACGAGCTCGGATGC
Found at i:17076236 original size:40 final size:39
Alignment explanation
Indices: 17076181--17076266 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
17076171 NNNNNNNNNN
* * *
17076181 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCAAGTTACTATATCC-AGCTAAATC
**
17076221 CCGAAGGCATTTGTGCAAGTTGTTATATCCAGCTAAATC
1 CCGAAGGCATTTGTGCAAGTTACTATATCCAGCTAAATC
17076260 CCGAAGG
1 CCGAAGG
17076267 TACTTGGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.34
40 27 0.66
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCAAGTTACTATATCCAGCTAAATC
Found at i:17092978 original size:28 final size:28
Alignment explanation
Indices: 17092938--17092994 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
17092928 GAATCTTAAG
17092938 GAATTTACTATAATTTGTATAACTACTA
1 GAATTTACTATAATTTGTATAACTACTA
17092966 GAATTTACTATAATTTGTATAACTACTA
1 GAATTTACTATAATTTGTATAACTACTA
17092994 G
1 G
17092995 TTTGCTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (28 bp):
GAATTTACTATAATTTGTATAACTACTA
Found at i:17101186 original size:42 final size:41
Alignment explanation
Indices: 17101130--17101276 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 41
17101120 GAAATCCAAG
* *
17101130 CTCGTTGAGCGGTCCGAGTTTGTGATATTGTGAGAATCCGAA
1 CTCGTTGAGTGGTCCGAGTTTGTGATA-TGTGAGCATCCGAA
* * * *
17101172 CTTGTTGAGTGGTCCAAGTTTGCGATATATGAGGCATCC-AA
1 CTCGTTGAGTGGTCCGAGTTTGTGATATGTGA-GCATCCGAA
* ** * *
17101213 GCTCGTTGAGTGGCCCGAGTTCATTATGGATGTGAGCATCCGAG
1 -CTCGTTGAGTGGTCCGAGTTTGTGAT--ATGTGAGCATCCGAA
17101257 CTCGTTGAGTGGTCCGAGTT
1 CTCGTTGAGTGGTCCGAGTT
17101277 CATTATGGAT
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 6 0.07
42 47 0.56
43 25 0.30
44 6 0.07
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (41 bp):
CTCGTTGAGTGGTCCGAGTTTGTGATATGTGAGCATCCGAA
Found at i:17101259 original size:43 final size:43
Alignment explanation
Indices: 17101205--17101289 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
17101195 GATATATGAG
17101205 GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGTGA
1 GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGTGA
* *
17101248 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGTG
1 GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGTG
17101290 TTACATGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGCCCGAGTTCATTATGGATGTGA
Found at i:17103728 original size:13 final size:13
Alignment explanation
Indices: 17103710--17103737 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17103700 AAAATACATT
17103710 TATTAATTAAAAA
1 TATTAATTAAAAA
17103723 TATTAATTAAAAA
1 TATTAATTAAAAA
17103736 TA
1 TA
17103738 AAAAAGCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:17108696 original size:48 final size:47
Alignment explanation
Indices: 17108474--17109102 Score: 943
Period size: 47 Copynumber: 13.2 Consensus size: 47
17108464 AATTCTAAAT
*
17108474 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
17108523 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAACTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
17108570 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
17108617 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
17108664 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
17108712 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
17108760 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAATGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA-GTGTATATA
*
17108808 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
17108855 TGCGATAAGGCCTAATATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGG-CTTA-ATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
17108904 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAATGTATATATA
1 TGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAA-GTGTATATA
*
17108953 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
17109000 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * * * *
17109047 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
17109094 TGTGATAAG
1 TGTGATAAG
17109103 TCCCGAAGGG
Statistics
Matches: 532, Mismatches: 42, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
47 239 0.45
48 199 0.37
49 89 0.17
50 5 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:17108725 original size:143 final size:141
Alignment explanation
Indices: 17108474--17109102 Score: 970
Period size: 143 Copynumber: 4.4 Consensus size: 141
17108464 AATTCTAAAT
*
17108474 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
*
17108539 GGCCGATGTGATGAATGTGAAACTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGT
64 GGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGT
17108604 GAAAGTGTATATA
129 GAAAGTGTATATA
*
17108617 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCTTAATG
* * * *
17108682 GCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATGT
65 GCCGATGTGATGAATGTGAAAGTGTATATGTGCG-ATAAGGCCTAATAGCCGATGTGATGAATGT
17108747 GAAAGTGTATATA
129 GAAAGTGTATATA
*
17108760 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCTTAATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGCTTAATG
17108825 GCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATATGGCCGATGTGATGAATG
65 GCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATA--GCCGATGTGATGAATG
17108890 TGAAAGTGTATATA
128 TGAAAGTGTATATA
* *
17108904 TGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCTTAAT
1 TGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGCTTAAT
* * * *
17108969 GGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGT
64 GGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGT
17109034 GAAAGTGTATATA
129 GAAAGTGTATATA
* * ** * * * * *
17109047 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17109103 TCCCGAAGGG
Statistics
Matches: 453, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
141 25 0.06
142 82 0.18
143 197 0.43
144 46 0.10
145 103 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (141 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGA
AAGTGTATATA
Found at i:17109276 original size:37 final size:37
Alignment explanation
Indices: 17109220--17109298 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17109210 TCGAGCTCTA
* * *
17109220 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
17109257 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17109294 AAGAC
1 AAGAC
17109299 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17115032 original size:31 final size:31
Alignment explanation
Indices: 17114988--17115059 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
17114978 AAAATTGTAA
* *
17114988 TTTAAGCACTGTTATTATATATTTTTATCAT
1 TTTAATCACTGTTATTATATACTTTTATCAT
* *
17115019 TTTAATCAGTGTTATTATATACTTTTATTAT
1 TTTAATCACTGTTATTATATACTTTTATCAT
17115050 TTTAATCACT
1 TTTAATCACT
17115060 CGATGTTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.56
Consensus pattern (31 bp):
TTTAATCACTGTTATTATATACTTTTATCAT
Found at i:17116519 original size:26 final size:27
Alignment explanation
Indices: 17116472--17116528 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
17116462 AAGGCCAATC
* *
17116472 TTTCAAAGAATGCCACAGAGGCTTCCA
1 TTTCAAAGAATGCCAAAAAGGCTTCCA
* *
17116499 TTTCAAA-TATGCCAAAAAGGCTTTCA
1 TTTCAAAGAATGCCAAAAAGGCTTCCA
17116525 TTTC
1 TTTC
17116529 CTGGAGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (27 bp):
TTTCAAAGAATGCCAAAAAGGCTTCCA
Found at i:17119480 original size:38 final size:38
Alignment explanation
Indices: 17119399--17119703 Score: 427
Period size: 38 Copynumber: 8.0 Consensus size: 38
17119389 GAATCCAGTC
* * * *
17119399 ACCAGCACAAAGCCTGCAGGACTTTAAGCTCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATATT
17119439 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
*
17119477 ACCAGCA-TGAAGCCTGCGGGATTTAACCCAGATATATT
1 ACCAGCACT-AAGCCTGCGGGATTTAACCCGGATATATT
* *
17119515 CCCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
*
17119553 ACCAGCA-TGAAGCCTGCGGGATTTAACCCAGATATATT
1 ACCAGCACT-AAGCCTGCGGGATTTAACCCGGATATATT
*
17119591 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
17119629 ACCAGCA-TGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACT-AAGCCTGCGGGATTTAACCCGGATATATT
* * * *
17119667 ACCAGCACGAAGCTTGCGGGACTTAACTCGGATATAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAT
17119704 ATCGACTGAT
Statistics
Matches: 241, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.00
38 216 0.90
39 5 0.02
40 19 0.08
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:17119528 original size:76 final size:76
Alignment explanation
Indices: 17119399--17119703 Score: 484
Period size: 76 Copynumber: 4.0 Consensus size: 76
17119389 GAATCCAGTC
** * * * * *
17119399 ACCAGCACAAAGCCTGCAGGACTTTAAGCTCGGATATAATACCAGCACTAAGCCTGCGGGATTTA
1 ACCAGCATGAAGCCTGCGGGA-TTTAA-CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTA
17119464 ACCCGGATATATT
64 ACCCGGATATATT
*
17119477 ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATTCCCAGCACGAAGCCTGCGGGATTTAAC
1 ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAAC
17119542 CCGGATATATT
66 CCGGATATATT
17119553 ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAAC
1 ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAAC
17119618 CCGGATATATT
66 CCGGATATATT
* * *
17119629 ACCAGCATGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCTTGCGGGACTTAAC
1 ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAAC
*
17119694 TCGGATATAT
66 CCGGATATAT
17119704 ATCGACTGAT
Statistics
Matches: 214, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
76 191 0.89
77 5 0.02
78 18 0.08
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (76 bp):
ACCAGCATGAAGCCTGCGGGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAAC
CCGGATATATT
Found at i:17125809 original size:28 final size:28
Alignment explanation
Indices: 17125743--17125870 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
17125733 CATGAGATTG
* * **
17125743 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
17125772 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
17125800 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
17125829 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
17125857 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
17125871 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:17125832 original size:57 final size:57
Alignment explanation
Indices: 17125743--17125870 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
17125733 CATGAGATTG
*
17125743 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
17125800 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
17125857 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
17125871 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:17145882 original size:9 final size:9
Alignment explanation
Indices: 17145864--17145900 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17145854 TATAGTTTGA
17145864 TATTCGAAT
1 TATTCGAAT
*
17145873 TATTCAAAT
1 TATTCGAAT
*
17145882 TATTCGAGT
1 TATTCGAAT
17145891 TATTCGAAT
1 TATTCGAAT
17145900 T
1 T
17145901 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:17145960 original size:9 final size:9
Alignment explanation
Indices: 17145946--17145980 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
17145936 AAAATCGAGT
17145946 TAACTCGAA
1 TAACTCGAA
*
17145955 TAACTCGAT
1 TAACTCGAA
17145964 TAACTCGAA
1 TAACTCGAA
17145973 TAACTCGA
1 TAACTCGA
17145981 TTCGTTTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (9 bp):
TAACTCGAA
Found at i:17145968 original size:18 final size:18
Alignment explanation
Indices: 17145940--17145982 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 18
17145930 TTTGAAAAAA
17145940 TCGAGTTAACTCGAATAAC
1 TCGA-TTAACTCGAATAAC
17145959 TCGATTAACTCGAATAAC
1 TCGATTAACTCGAATAAC
17145977 TCGATT
1 TCGATT
17145983 CGTTTGACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Found at i:17146403 original size:41 final size:41
Alignment explanation
Indices: 17146358--17146457 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
17146348 TAGACGGGCT
*
17146358 TGCTCACACAAGCTGTCAGTCAAGAAGTAGCTGCACAGTAC
1 TGCTCACACAAGCTGTCAGTCAAGAAGTAGCTACACAGTAC
17146399 TGCTCACACAAGCTGTCAGTCAAGAAGTAGCTACACAGTAC
1 TGCTCACACAAGCTGTCAGTCAAGAAGTAGCTACACAGTAC
*
17146440 TGCTTACACAAGCTGTCA
1 TGCTCACACAAGCTGTCA
17146458 AGTATACTCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
TGCTCACACAAGCTGTCAGTCAAGAAGTAGCTACACAGTAC
Found at i:17167274 original size:40 final size:40
Alignment explanation
Indices: 17167229--17167431 Score: 320
Period size: 40 Copynumber: 5.1 Consensus size: 40
17167219 GGGATTTAGT
*
17167229 CGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCC
17167269 CGGATATAGTAACTCGCACAAATGCCTTCG-GAACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGAG-ACTTAGCC
*
17167309 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCC
* *
17167349 CGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCC
* *
17167389 CGGATATAGTAACTTGCACAAATGCCTTC-AGATCTTAGTC
1 CGGATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAGCC
17167429 CGG
1 CGG
17167432 TTATCATTCG
Statistics
Matches: 156, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.97
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCC
Found at i:17175499 original size:40 final size:40
Alignment explanation
Indices: 17175327--17175492 Score: 280
Period size: 40 Copynumber: 4.2 Consensus size: 40
17175317 AACCCAAGTA
* * *
17175327 CCTTCGGGATTTAG-CCGGATATAGCAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
17175366 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17175406 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17175446 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
17175486 CCTTCGG
1 CCTTCGG
17175493 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:17184175 original size:50 final size:47
Alignment explanation
Indices: 17184053--17184176 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
17184043 GGTATAATGC
* * *
17184053 CGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCACGTTAAGTT
1 CGATGCCATGT-CCAAACATGGTCTTACACTAACTCCCACGTTAAGTT
**
17184101 -GATGCCATGTTCCAAACATGGTCTTACACTAACTCCCACGTATCTGTGT
1 CGATGCCATG-TCCAAACATGGTCTTACACTAACTCCCACGT-TAAGT-T
* *
17184150 CGATGCCATGTCCTAGACGTGGTCTTA
1 CGATGCCATGTCC-AAACATGGTCTTA
17184177 TACTGACACA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
47 36 0.56
48 4 0.06
49 4 0.06
50 20 0.31
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCAAACATGGTCTTACACTAACTCCCACGTTAAGTT
Found at i:17184259 original size:46 final size:46
Alignment explanation
Indices: 17184197--17184364 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
17184187 TCATGAAGTA
* *
17184197 GATGCATGTCCTAGACATGCCTTACACTGGCT-TGCATCAAGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCAAGTGGCC
* * * *
17184243 GATGCACGTCCCAGACATATCTTACACTAGCTCTCATCTCAA-T-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--TCAAGTGGCC
* *
17184289 GATGCCATGTCCCAGACATGGTCATACACTGGCTCTCAT-AATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCAA-GTGGCC
17184337 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
17184365 AGCACACAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 45 0.45
47 30 0.30
48 24 0.24
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAAGTGGCC
Found at i:17184335 original size:94 final size:92
Alignment explanation
Indices: 17184197--17184367 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
17184187 TCATGAAGTA
* *
17184197 GATGCATGTCCTAGACATGCCTTACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
1 GATGCATGTCCCAGACATGCCATACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
17184262 TCTTACACTAGCTCTCATCTCAATGTC
66 TCTTACACTAGCTCTCATCTCAATGTC
* * *
17184289 GATGCCATGTCCCAGACATGGTCATACACTGGCTCT-CAT-AATGTGGCTGATGCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GCCATACACTGGCT-TGCATCAA-GTGGCCGATGCACGTCCCAGA
*
17184352 CATGTCTTACACTAGC
62 CATATCTTACACTAGC
17184368 ACACAAACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 15 0.22
94 49 0.71
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGCCATACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
TCTTACACTAGCTCTCATCTCAATGTC
Found at i:17196352 original size:46 final size:46
Alignment explanation
Indices: 17196302--17196430 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
17196292 TGATTGAGCA
*
17196302 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
17196348 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
17196394 -CTTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17196431 GAGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 75 0.99
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:17202458 original size:45 final size:44
Alignment explanation
Indices: 17202409--17202565 Score: 157
Period size: 41 Copynumber: 3.6 Consensus size: 44
17202399 TGTGTTCTCG
*
17202409 TGTAAGACCACGTCTGGGACATTGGCAAT-GATATTTGTGATTACG
1 TGTAAGACCACGTCTGGGACATTGGC-ATCGATA-TTGTGATTACA
* *
17202454 TGTAAGACCATGTCTGGGACATCGGCATCG-TATT-TGATT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTGTGATTACA
* * *
17202495 TGTAAGACC-CTGTCTGGGATAGTGGCATCGATA-TGAGA-TAGCA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTGTGATTA-CA
**
17202538 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
17202566 TGTTTGATAT
Statistics
Matches: 95, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
41 28 0.29
42 9 0.09
43 28 0.29
44 5 0.05
45 25 0.26
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTGTGATTACA
Found at i:17205823 original size:79 final size:80
Alignment explanation
Indices: 17205720--17205904 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 80
17205710 GCTACTCATT
* *
17205720 CAAAGGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCC
* *
17205783 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
17205800 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 -CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
17205864 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
17205880 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
17205905 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 2 0.02
79 61 0.67
80 25 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:17205904 original size:40 final size:40
Alignment explanation
Indices: 17205720--17205904 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
17205710 GCTACTCATT
* * *
17205720 CAAAGGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
17205760 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
17205800 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
17205839 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
17205880 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17205905 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:17213383 original size:47 final size:47
Alignment explanation
Indices: 17213329--17213522 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
17213319 TTAGGATTTT
** * *
17213329 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
17213376 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
17213423 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
17213470 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17213517 ATGTGA
1 ATGTGA
17213523 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:17213837 original size:37 final size:37
Alignment explanation
Indices: 17213729--17213837 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
17213719 GGAAATATAT
*
17213729 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
17213766 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
17213803 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
17213838 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:17221405 original size:56 final size:56
Alignment explanation
Indices: 17221319--17221454 Score: 254
Period size: 56 Copynumber: 2.4 Consensus size: 56
17221309 ACCATGGCAT
*
17221319 TGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
1 TGATATATGTGTGCGAGTAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTC
17221375 TGATATATGTGTGCGAGTAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTC
1 TGATATATGTGTGCGAGTAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTC
*
17221431 CGATATATGTGTGCGAGTAAGACC
1 TGATATATGTGTGCGAGTAAGACC
17221455 CTGTCTGGGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (56 bp):
TGATATATGTGTGCGAGTAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTC
Found at i:17224629 original size:30 final size:30
Alignment explanation
Indices: 17224582--17224641 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17224572 TTCTCGAGCC
17224582 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
17224612 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
17224642 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:17224853 original size:19 final size:19
Alignment explanation
Indices: 17224831--17224888 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
17224821 AATTTAAGTA
17224831 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
17224850 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
17224867 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
17224885 ATAT
1 ATAT
17224889 CAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:17225292 original size:49 final size:50
Alignment explanation
Indices: 17225215--17225465 Score: 238
Period size: 49 Copynumber: 5.0 Consensus size: 50
17225205 CAAATGAGCT
* * * *
17225215 ATTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCGACTACGTGCACCAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * *
17225265 ATTGTT-GGTCGCATGTGTAGTAATAAGTGCAGGCTACTATGTGTACCTG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * * * *
17225314 ATTACTTCGATCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTATCAA
1 ATT-GTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * *
17225365 ATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
** * * * *
17225415 ATAATT-GGTCGCATGTGTAGTACTAAATGCAGCCTACTTA-GCGTACCAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTAC-TACGTGTACCAG
17225464 AT
1 AT
17225466 AGCTTCAGCT
Statistics
Matches: 162, Mismatches: 36, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 74 0.46
50 52 0.32
51 36 0.22
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
Found at i:17230564 original size:19 final size:19
Alignment explanation
Indices: 17230542--17230599 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
17230532 AATTTAAGTA
17230542 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
17230561 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
17230578 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
17230596 ATAT
1 ATAT
17230600 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:17230584 original size:35 final size:35
Alignment explanation
Indices: 17230545--17230611 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
17230535 TTAAGTAATA
*
17230545 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
17230580 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
17230612 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:17245974 original size:18 final size:17
Alignment explanation
Indices: 17245951--17245988 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
17245941 ATTCTTATGA
17245951 ATTTTATTATGTAATTTT
1 ATTTTATTAT-TAATTTT
*
17245969 ATTTTATTATTATTTTT
1 ATTTTATTATTAATTTT
17245986 ATT
1 ATT
17245989 CAAATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTATTATTAATTTT
Found at i:17247710 original size:8 final size:8
Alignment explanation
Indices: 17247697--17247744 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
17247687 AATGAGTTTA
17247697 CTATTTTG
1 CTATTTTG
*
17247705 CTATTTTA
1 CTATTTTG
17247713 CTATTTTG
1 CTATTTTG
17247721 CTATTTTG
1 CTATTTTG
* *
17247729 -TACTTTA
1 CTATTTTG
17247736 CTATTTTG
1 CTATTTTG
17247744 C
1 C
17247745 AAAATGATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 5 0.15
8 28 0.85
ACGTcount: A:0.17, C:0.15, G:0.08, T:0.60
Consensus pattern (8 bp):
CTATTTTG
Found at i:17247712 original size:16 final size:16
Alignment explanation
Indices: 17247693--17247727 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
17247683 ATCAAATGAG
17247693 TTTACTATTTTGCTAT
1 TTTACTATTTTGCTAT
17247709 TTTACTATTTTGCTAT
1 TTTACTATTTTGCTAT
17247725 TTT
1 TTT
17247728 GTACTTTACT
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:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTACTATTTTGCTAT
Found at i:17247739 original size:23 final size:24
Alignment explanation
Indices: 17247697--17247744 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
17247687 AATGAGTTTA
*
17247697 CTATTTTGCTATTTTACTATTTTG
1 CTATTTTGCTACTTTACTATTTTG
17247721 CTATTTTG-TACTTTACTATTTTG
1 CTATTTTGCTACTTTACTATTTTG
17247744 C
1 C
17247745 AAAATGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.17, C:0.15, G:0.08, T:0.60
Consensus pattern (24 bp):
CTATTTTGCTACTTTACTATTTTG
Found at i:17248533 original size:46 final size:46
Alignment explanation
Indices: 17248398--17248621 Score: 172
Period size: 46 Copynumber: 4.8 Consensus size: 46
17248388 CATTTGTGAG
* *** *
17248398 AGCTAGTGTAAGACCATGCCTGGGACATGGCATCGATATTGAGACGAGT
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA-T
*
17248447 -GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCTCGAGACG-T
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAT
* * *
17248491 AAGCTAGTGTAAGACATGTCTGGGACATGCGTTGG-CTACGAGATGAT
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAT
* * * *
17248538 AG-TCAGTGTAAGACCATGTCTGGGATATGGCTTCGG-CTTGAGA-TAT
1 AGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAT
* *
17248584 GAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
17248622 ACCTTACCCC
Statistics
Matches: 146, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 62 0.42
47 61 0.42
48 19 0.13
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAT
Found at i:17248581 original size:47 final size:48
Alignment explanation
Indices: 17248397--17248621 Score: 164
Period size: 47 Copynumber: 4.8 Consensus size: 48
17248387 TCATTTGTGA
* * * * * *
17248397 GAGCTAGTGTAAGACCATGCCTGGGACATGGCATC-GATATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCTTCGGCTA-CGAGA-TAT
* * * * **
17248445 GTGCTAGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCT-CGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCTTCGG-CTACGAGATAT
* *
17248491 AAGCTAGTGTAAGA-CATGTCTGGGACAT-GCGTT-GGCTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGC-TTCGGCTACGAGAT-AT
* * *
17248538 -AGTCAGTGTAAGACCATGTCTGGGATATGGCTTCGGCT-TGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCTTCGGCTACGAGATAT
* *
17248584 GAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCTTCGGC
17248622 ACCTTACCCC
Statistics
Matches: 146, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.01
46 56 0.38
47 68 0.47
48 20 0.14
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCTTCGGCTACGAGATAT
Found at i:17254188 original size:13 final size:13
Alignment explanation
Indices: 17254170--17254195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17254160 GAGGAGAGAA
17254170 AAGTCAAGAAGTG
1 AAGTCAAGAAGTG
17254183 AAGTCAAGAAGTG
1 AAGTCAAGAAGTG
17254196 CTCCATTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (13 bp):
AAGTCAAGAAGTG
Found at i:17259035 original size:46 final size:46
Alignment explanation
Indices: 17258937--17259152 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 46
17258927 TGTGAGAGCT
* *
17258937 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACG-AGTACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGACGTAG--CC
* *
17258985 AGTGTAAGA-CGTGTCCGGGACAT-GCATCGGCCTTGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGACGT-AGCC
* * * * *
17259031 AGTGTAAGA-CATGTCTGTGACAT-GCATTGGCTACGAGATGCTAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGACG-TAGCC
* * * **
17259077 AGTGTAAGACCATGTTTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGT-AGCC
* *
17259124 AGTGTAAGACCGTGTCTGGGACACGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
17259153 TGGCAGCTTA
Statistics
Matches: 137, Mismatches: 24, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 60 0.44
47 58 0.42
48 17 0.12
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGTAGCC
Found at i:17264391 original size:28 final size:29
Alignment explanation
Indices: 17264354--17264427 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
17264344 AAGTCTACAT
* *
17264354 ACATGCATATGGCCCATTAGGC-CCAATC
1 ACATTCATATGGCCCATTAGGCTCAAATC
** *
17264382 TTATTCATATGGCCCATTAGGCTTAAATC
1 ACATTCATATGGCCCATTAGGCTCAAATC
17264411 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
17264428 CTGGCCTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCTCAAATC
Found at i:17264439 original size:29 final size:29
Alignment explanation
Indices: 17264354--17264444 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
17264344 AAGTCTACAT
* *
17264354 ACATGCATATGGCCCATTAGGCC-CAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
** *
17264382 TTATTCATATGGCCCATTAGGCTTAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
*
17264411 ACATTCATATGGCCCATCT-GGCCTGAATC
1 ACATTCATATGGCCCAT-TAGGCCTAAATC
17264440 A-ATTC
1 ACATTC
17264445 CAACACATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.44
29 28 0.54
30 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCTAAATC
Found at i:17264692 original size:16 final size:16
Alignment explanation
Indices: 17264667--17264697 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17264657 AACTTTCAGT
17264667 TTTTCAGCATTTTGAC
1 TTTTCAGCATTTTGAC
*
17264683 TTTTCGGCATTTTGA
1 TTTTCAGCATTTTGA
17264698 GATTTACCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTTCAGCATTTTGAC
Found at i:17267588 original size:28 final size:27
Alignment explanation
Indices: 17267524--17267703 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
17267514 ATATTAAGTC
* *
17267524 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
17267551 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
17267579 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
17267606 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
17267634 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
17267662 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
17267689 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17267704 GCACAATTTA
Statistics
Matches: 143, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
27 66 0.46
28 76 0.53
29 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17267608 original size:55 final size:55
Alignment explanation
Indices: 17267524--17267703 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
17267514 ATATTAAGTC
* * *
17267524 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
17267579 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* *
17267634 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
17267689 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17267704 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:17267663 original size:83 final size:82
Alignment explanation
Indices: 17267524--17267703 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
17267514 ATATTAAGTC
* * *
17267524 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
17267589 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
17267606 CGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
17267671 AGTGCTACATATTCAATT
65 AGTGCTACATAGTCAACT
17267689 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17267704 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:17275781 original size:29 final size:29
Alignment explanation
Indices: 17275718--17275785 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
17275708 TAATCAACCG
17275718 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
17275747 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17275776 CGCACACTTA
1 CGCACACTTA
17275786 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17275897 original size:174 final size:174
Alignment explanation
Indices: 17275607--17275934 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
17275597 AACTCAAGGT
* *
17275607 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
17275672 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
17275737 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
17275781 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17275846 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
17275911 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
17275935 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17275945 original size:29 final size:29
Alignment explanation
Indices: 17275887--17275965 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
17275877 CTTAATAATC
17275887 AACCGCGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGTACTTTA
*
17275917 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC--TTTA
* * *
17275946 ATCCCGCGCACTTAGCGCCA
1 AACCCGCACACTTAGTGCCA
17275966 ATCTCATGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.03
29 30 0.75
30 4 0.10
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGTACTTTA
Found at i:17277252 original size:51 final size:50
Alignment explanation
Indices: 17277176--17277276 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
17277166 TCAATTCACG
17277176 GCAACAAGGGGGTATGGATGAGACCATATTATTTTTTTTTTCATCACCCTT
1 GCAACAAGGGGGTATGGATGAGACCATATTA-TTTTTTTTTCATCACCCTT
17277227 GCAACAAGGGGGTATGGATGAGACCATATTATTTTTTTTTCATCACCCTT
1 GCAACAAGGGGGTATGGATGAGACCATATTATTTTTTTTTCATCACCCTT
17277277 CCTTTCATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 19 0.38
51 31 0.62
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (50 bp):
GCAACAAGGGGGTATGGATGAGACCATATTATTTTTTTTTCATCACCCTT
Found at i:17285260 original size:35 final size:35
Alignment explanation
Indices: 17285221--17285292 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
17285211 CATCTCTGGA
*
17285221 GCTTGGAAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGAAAATATGG-AAGGAGATCTTCAAAGATAT
* *
17285256 GCTTGGCAAATATGGAGGGAGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAGGAGATCTTCAAAGATAT
17285291 GC
1 GC
17285293 GATCTTAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:17290525 original size:35 final size:35
Alignment explanation
Indices: 17290486--17290557 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
17290476 CATCTCCGGA
*
17290486 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
17290521 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
17290556 GC
1 GC
17290558 GATCTTAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:17292244 original size:25 final size:25
Alignment explanation
Indices: 17292205--17292396 Score: 145
Period size: 25 Copynumber: 7.7 Consensus size: 25
17292195 ATGATAATAC
* *
17292205 GATCGGCATAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCAATAACA
* * *
17292230 GATCAGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
* * *
17292255 TATCGGCACAAAGCCGTCGATAACA
1 GATCGGCACAAAGCCATCAATAACA
* * *
17292280 GATCGACACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
*
17292305 TATCGGCACAAAGCCATCAAT-A-A
1 GATCGGCACAAAGCCATCAATAACA
* * * *
17292328 GATACTGACACGAAGCCTTCAATAGCA
1 GAT-C-GGCACAAAGCCATCAATAACA
* * * *
17292355 TATCGGCACAAAGTCTTCAATAGCA
1 GATCGGCACAAAGCCATCAATAACA
* * *
17292380 TATTGACACAAAGCCAT
1 GATCGGCACAAAGCCAT
17292397 AATCAGAATA
Statistics
Matches: 129, Mismatches: 34, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
23 3 0.02
24 1 0.01
25 121 0.94
26 1 0.01
27 3 0.02
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (25 bp):
GATCGGCACAAAGCCATCAATAACA
Found at i:17292281 original size:50 final size:50
Alignment explanation
Indices: 17292206--17292367 Score: 215
Period size: 50 Copynumber: 3.2 Consensus size: 50
17292196 TGATAATACG
*
17292206 ATCGGCATAAAGCCATCGATAACAGATC-AGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGA-CACATAGCCATCAATATCAT
*
17292256 ATCGGCACAAAGCCGTCGATAACAGATCGACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
* * *
17292306 ATCGGCACAAAGCCATCAAT-A-AGATACTGACACGA-AGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCGATAACAGAT-C-GACAC-ATAGCCATCAATATCAT
17292356 ATCGGCACAAAG
1 ATCGGCACAAAG
17292368 TCTTCAATAG
Statistics
Matches: 102, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
48 4 0.04
49 2 0.02
50 94 0.92
51 2 0.02
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.18
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
Found at i:17292344 original size:75 final size:75
Alignment explanation
Indices: 17292205--17292396 Score: 170
Period size: 75 Copynumber: 2.6 Consensus size: 75
17292195 ATGATAATAC
* * * * * * * *
17292205 GATCGGCATAAAGCCATCGATAACAGATCAGCACATAGCCATCAATATCATATCGGCACAAAGCC
1 GATCGACACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATAACATATCGACACAAAGCC
*
17292270 GTCGATAACA
66 GTCAATAACA
* * * *
17292280 GATCGACACATAGCCATCAATATCATATCGGCACAAAGCCATCAATAAGATA-CTGACACGAAGC
1 GATCGACACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATAACATATC-GACACAAAGC
* *
17292344 CTTCAATAGCA
65 CGTCAATAACA
* * * * * * *
17292355 TATCGGCACAAAGTCTTCAATAGCATATTGACACAAAGCCAT
1 GATCGACACAAAGCCATCAATAACATATCGGCACAAAGCCAT
17292397 AATCAGAATA
Statistics
Matches: 93, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
74 1 0.01
75 92 0.99
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (75 bp):
GATCGACACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATAACATATCGACACAAAGCC
GTCAATAACA
Found at i:17292375 original size:50 final size:49
Alignment explanation
Indices: 17292206--17292396 Score: 176
Period size: 50 Copynumber: 3.8 Consensus size: 49
17292196 TGATAATACG
* * *
17292206 ATCGGCATAAAGCCATCGATAACAGAT-CAG-CACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAAT-A-AGATACTGACACA-AGCCATCAATATCAT
* *
17292256 ATCGGCACAAAGCCGTCGATAACAGAT-C-GACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAAT-A-AGATACTGACACA-AGCCATCAATATCAT
* *
17292306 ATCGGCACAAAGCCATCAATAAGATACTGACACGAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAAGATACTGACAC-AAGCCATCAATATCAT
* * *
17292356 ATCGGCACAAAGTCTTCAAT-AGCATATTGACACAAAGCCAT
1 ATCGGCACAAAGCCATCAATAAG-ATACTGACAC-AAGCCAT
17292397 AATCAGAATA
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
48 4 0.03
49 5 0.04
50 115 0.92
51 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.19
Consensus pattern (49 bp):
ATCGGCACAAAGCCATCAATAAGATACTGACACAAGCCATCAATATCAT
Found at i:17292648 original size:25 final size:25
Alignment explanation
Indices: 17292616--17292688 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
17292606 GGGTATATTG
17292616 GTCATTTT-CCTAATAGGGGTAAAAC
1 GTCATTTTACCT-ATAGGGGTAAAAC
* * *
17292641 GTCATTTTACCCTACAGGCGTAAAAT
1 GTCATTTTA-CCTATAGGGGTAAAAC
17292667 GTCATTTTACCCTATAGGGGTA
1 GTCATTTTA-CCTATAGGGGTA
17292689 TTTCGGTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 8 0.20
26 30 0.73
27 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
GTCATTTTACCTATAGGGGTAAAAC
Found at i:17292701 original size:26 final size:26
Alignment explanation
Indices: 17292672--17292805 Score: 144
Period size: 26 Copynumber: 5.1 Consensus size: 26
17292662 AAAATGTCAT
*
17292672 TTTACCCTATAGGGGTATTTCGGTAA
1 TTTACCCTACAGGGGTATTTCGGTAA
* *
17292698 TTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTACAGGGGTATTTCGGTAA
* *
17292724 TTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTACAGGGGTATTTCGGTAA
** **
17292750 TTTACAGTACAAAGGTATTTCGGTAA
1 TTTACCCTACAGGGGTATTTCGGTAA
**
17292776 CTTTA-CAAATCAGGGGTATTTCGGTAA
1 -TTTACCCTA-CAGGGGTATTTCGGTAA
17292803 TTT
1 TTT
17292806 TACAAACCGG
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
26 73 0.79
27 19 0.21
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (26 bp):
TTTACCCTACAGGGGTATTTCGGTAA
Found at i:17292702 original size:52 final size:52
Alignment explanation
Indices: 17292646--17292754 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 52
17292636 AAAACGTCAT
* * *
17292646 TTTACCCTACAGGCGTAAAATG-TCATTTTACCCTATAGGGGTATTTCGGTAA
1 TTTACCCTACAGGCGTAAAATGAT-AATTTACCCTACAGGGGTATTTCGATAA
* *** *
17292698 TTTACCCTACAGGGGTATTTTGATAATTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTACAGGCGTAAAATGATAATTTACCCTACAGGGGTATTTCGATAA
17292750 TTTAC
1 TTTAC
17292755 AGTACAAAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
TTTACCCTACAGGCGTAAAATGATAATTTACCCTACAGGGGTATTTCGATAA
Found at i:17296494 original size:28 final size:26
Alignment explanation
Indices: 17296422--17296494 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 26
17296412 TTAGTTTACC
*
17296422 AAATTACTGAAATATCC-CCAGTTGTA
1 AAATTACT-AAATATCCTCCAGTTATA
* * *
17296448 AAATTACCAAAGTACCCTCCGGTTTATA
1 AAATTACTAAA-TATCCTCCAG-TTATA
17296476 AAATTATCTAAATATCCTC
1 AAATTA-CTAAATATCCTC
17296495 GATTTGTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.08
26 11 0.30
27 3 0.08
28 16 0.43
29 4 0.11
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACTAAATATCCTCCAGTTATA
Found at i:17296586 original size:80 final size:80
Alignment explanation
Indices: 17296443--17296658 Score: 240
Period size: 80 Copynumber: 2.7 Consensus size: 80
17296433 ATATCCCCAG
* * * * * * * *
17296443 TTGTAAAATTACCAAAGTACCCTCCGGTTTATAAAATTATCTAAATATCCTCGATTTGTAAATTA
1 TTGTAAAATTACTAAAATACCCT-CGATTTGTAAAATTACCAAAATACCCTCGATTTGAAAATTA
* * *
17296508 CCGAAATGCCGTCAA-
65 CCAAAATACCCTCAAT
17296523 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTC-AGTTTGCAAAATT
1 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TTTG-AAAATT
*
17296587 ACTAAAATACCCTCAAT
64 ACCAAAATACCCTCAAT
* * * *
17296604 TTGTAAAATTACT-GAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTT
17296659 ATAGAATTAT
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 27 0.23
80 74 0.64
81 14 0.12
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGAAAATTAC
CAAAATACCCTCAAT
Found at i:17296667 original size:80 final size:80
Alignment explanation
Indices: 17296414--17296653 Score: 209
Period size: 80 Copynumber: 3.0 Consensus size: 80
17296404 AGAATACTTT
* * * * * ** *
17296414 AGTTTACCAAATTACTGAAATATCCC-CAGTTGTAAAATTACCAAAGTACCCTCCGGTTTATAAA
1 AGTTTACAAAATTACTAAAATA-CCCTCAATTGTAAAATTACTAAAATACCCT-CGACTTGTAAA
* * * *
17296478 ATTATCTAAATATCCTC
64 ATTACCAAAATACCCCC
** ** * * *
17296495 -GATTT-GTAAATTACCGAAATGCCGTCAATTGTAAAATTACTAAAATACCCTCGATTTGTAAAA
1 AG-TTTACAAAATTACTAAAATACCCTCAATTGTAAAATTACTAAAATACCCTCGACTTGTAAAA
*
17296558 TTACCAAAATACCCTC
65 TTACCAAAATACCCCC
* *
17296574 AGTTTGCAAAATTACTAAAATACCCTCAATTTGTAAAATTACT-GAATACCCTCGACTTGTAAAA
1 AGTTTACAAAATTACTAAAATACCCTCAA-TTGTAAAATTACTAAAATACCCTCGACTTGTAAAA
*
17296638 TTACCAAAGTACCCCC
65 TTACCAAAATACCCCC
17296654 GATTTATAGA
Statistics
Matches: 131, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
79 28 0.21
80 87 0.66
81 16 0.12
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (80 bp):
AGTTTACAAAATTACTAAAATACCCTCAATTGTAAAATTACTAAAATACCCTCGACTTGTAAAAT
TACCAAAATACCCCC
Found at i:17296704 original size:27 final size:27
Alignment explanation
Indices: 17296422--17296705 Score: 210
Period size: 27 Copynumber: 10.6 Consensus size: 27
17296412 TTAGTTTACC
*
17296422 AAATTACTGAAATATCCC-C-AGTTGTA
1 AAATTACTGAAATA-CCCTCGATTTGTA
* * *
17296448 AAATTAC-CAAAGTACCCTCCGGTTTATA
1 AAATTACTGAAA-TACCCT-CGATTTGTA
*
17296476 AAATTATCT-AAATATCCTCGATTTGT-
1 AAATTA-CTGAAATACCCTCGATTTGTA
* * * *
17296502 AAATTACCGAAATGCCGTC-AATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
17296528 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
17296555 AAATTACCAAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* *
17296582 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
17296609 AAATTACTG-AATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
17296635 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *** **
17296662 GAATTA-TCGTTTTACCCTCGATTTACA
1 AAATTACT-GAAATACCCTCGATTTGTA
17296689 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
17296706 CTGTAGGGTA
Statistics
Matches: 203, Mismatches: 39, Indels: 31
0.74 0.14 0.11
Matches are distributed among these distances:
25 12 0.06
26 62 0.31
27 108 0.53
28 17 0.08
29 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:17296720 original size:27 final size:27
Alignment explanation
Indices: 17296690--17297025 Score: 403
Period size: 27 Copynumber: 12.6 Consensus size: 27
17296680 CGATTTACAA
*
17296690 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17296717 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17296744 AAATACCGAAATA---CTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17296768 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17296795 AAATACCGAAATACGCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17296822 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17296849 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17296876 AAATACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17296903 AAATACCGAAATACCCCTG-AGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17296929 AACTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17296956 AAATGCCGAAATACCTCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17296983 AATTACTGACATACCCCT-AAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17297009 AATTACCGAAATACCCC
1 AATTACCGAAATACCCC
17297026 GAAATACTTC
Statistics
Matches: 262, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
24 22 0.08
26 45 0.17
27 195 0.74
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17296755 original size:54 final size:54
Alignment explanation
Indices: 17296697--17297159 Score: 483
Period size: 54 Copynumber: 8.5 Consensus size: 54
17296687 CAAAATTACT
17296697 GAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCTTGTAGGGTAGAAATACC
*
17296751 GAAATA---CTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
* * * * * *
17296802 GAAATACGCCTATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
* * * *
17296856 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
* *
17296910 GAAATACCCCTG-AGGGTAGAACTACTGAAATACCCTTGTAGGGTAGAAATGCC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
* * * * * *
17296963 GAAATACCTCTATAGGGTAGAATTACTGACATACCCCT-AAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
* * * *
17297016 GAAATACCCCGAAATACTTCTGTAGGGTAGAATTACTAAAATAACCC-TGTAAGATAGAATTACC
1 GAAATA--CC------C--CTGTAGGGTAGAATTACTGAAAT-ACCCTTGTAGGGTAGAAATACC
* * * *
17297080 GAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCTTGTAGGGTAGAAATACC
* * *
17297134 GAGATACCCTTGTAGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
17297160 CATTTTGCCC
Statistics
Matches: 344, Mismatches: 45, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
51 49 0.14
53 70 0.20
54 177 0.51
55 2 0.01
56 1 0.00
62 2 0.01
63 21 0.06
64 22 0.06
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
Found at i:17296872 original size:81 final size:81
Alignment explanation
Indices: 17296690--17297160 Score: 487
Period size: 81 Copynumber: 5.8 Consensus size: 81
17296680 CGATTTACAA
* * * * *
17296690 AATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAA-TACCGAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTA-AAATTACCGAA
17296754 ATA---CTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
*
17296768 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACGCC-TATAGGGTAAAATTACTGAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATAC-CCTTATAGGGTAAAATTACCGAA
17296832 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
*
17296849 AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAA-TACCGAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTA-AAATTACCGAA
17296913 ATACCCCTG-AGGGTAG
65 ATACCCCTGTAGGGTAG
* * * * * *
17296929 AACTACTGAAATACCCTTGTAGGGTAGAAATGCCGAAATA-CCTCTATAGGGTAGAATTACTGAC
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT-TATAGGGTAAAATTACCGAA
*
17296993 ATACCCCT-AAGGGTAG
65 ATACCCCTGTAGGGTAG
* ** *
17297009 AATTACCGAAATACCCCGAAATACTTCTGTAGGGTAGAATTACTAAAATAACCCTGTA-A-GATA
1 AATTACCGAAATA--CC------C-T-TGTAGGGTAGAAATACCGAAAT-ACCCT-TATAGGGTA
* *
17297072 GAATTACCGAAATACCCTTGTAGGGTAG
54 AAATTACCGAAATACCCCTGTAGGGTAG
* * * * * *
17297100 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTAGGGTAAAATTACC
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAAAATTACC
17297161 ATTTTGCCCC
Statistics
Matches: 332, Mismatches: 36, Indels: 47
0.80 0.09 0.11
Matches are distributed among these distances:
77 3 0.01
78 54 0.16
79 8 0.02
80 91 0.27
81 104 0.31
82 5 0.02
83 1 0.00
88 1 0.00
89 3 0.01
90 37 0.11
91 20 0.06
92 5 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAAAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:17296970 original size:80 final size:81
Alignment explanation
Indices: 17296690--17297156 Score: 474
Period size: 80 Copynumber: 5.7 Consensus size: 81
17296680 CGATTTACAA
* * * *
17296690 AATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATACCGAAA
17296755 TA---CTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* *
17296768 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACGCC-TATAGGGTA-AAATTACTGA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATAC-CCTTATAGGGTAGAAA-TACCGA
17296831 AATACCCCTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
17296849 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATACCGAA
1 AATTACT-GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATACCGAA
17296913 ATACCCCTG-AGGGTAG
65 ATACCCCTGTAGGGTAG
* * * * *
17296929 AACTACTGAAATACCCTTGTAGGGTAGAAATGCCGAAATA-CCTCTATAGGGTAGAATTACTGAC
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCT-TATAGGGTAGAAATACCGAA
*
17296993 ATACCCCT-AAGGGTAG
65 ATACCCCTGTAGGGTAG
* * ** *
17297009 AATTACCGAAATACCCCGAAATACTTCTGTAGGGTAGAATTACTAAAATAACCCTGTA-A-GATA
1 AATTACTGAAATA--CC------C-T-TGTAGGGTAGAAATACCGAAAT-ACCCT-TATAGGGTA
* *
17297072 GAATTACCGAAATACCCTTGTAGGGTAG
54 GAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
17297100 AAATA-TCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTAGGGTA-AAAT
1 AATTACT-GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAAT
17297157 TACCATTTTG
Statistics
Matches: 328, Mismatches: 34, Indels: 52
0.79 0.08 0.13
Matches are distributed among these distances:
77 3 0.01
78 54 0.16
79 6 0.02
80 97 0.30
81 97 0.30
82 5 0.02
83 1 0.00
88 1 0.00
89 3 0.01
90 37 0.11
91 19 0.06
92 5 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATACCGAAA
TACCCCTGTAGGGTAG
Found at i:17297065 original size:27 final size:26
Alignment explanation
Indices: 17297024--17297160 Score: 148
Period size: 27 Copynumber: 5.1 Consensus size: 26
17297014 CCGAAATACC
*
17297024 CCGAAATACTTCTGTAGGGTAGAATTA
1 CCGAAATAC-CCTGTAGGGTAGAATTA
** * *
17297051 CTAAAATAACCCTGTAAGATAGAATTA
1 CCGAAAT-ACCCTGTAGGGTAGAATTA
*
17297078 CCGAAATACCCTTGTAGGGTAGAAATA
1 CCGAAATACCC-TGTAGGGTAGAATTA
*
17297105 TCGAAATACCCCTGTAGGGTAGAATTA
1 CCGAAATA-CCCTGTAGGGTAGAATTA
* *
17297132 CCGAGATACCCTTGTAGGGTAAAATTA
1 CCGAAATACCC-TGTAGGGTAGAATTA
17297159 CC
1 CC
17297161 ATTTTGCCCC
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.08
27 79 0.87
28 5 0.05
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (26 bp):
CCGAAATACCCTGTAGGGTAGAATTA
Found at i:17297323 original size:16 final size:16
Alignment explanation
Indices: 17297302--17297332 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17297292 CAAATATGGG
*
17297302 CATGACATTTTGCATA
1 CATGACATGTTGCATA
17297318 CATGACATGTTGCAT
1 CATGACATGTTGCAT
17297333 GGGTTCGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:17297846 original size:26 final size:26
Alignment explanation
Indices: 17297810--17297889 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
17297800 ATTCTGTTAA
* *
17297810 GTGGCTTTGCCACATTATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
* *
17297836 GTGGCTCTGCCATAATATTTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
17297863 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
17297889 G
1 G
17297890 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:17297870 original size:27 final size:26
Alignment explanation
Indices: 17297817--17297889 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
17297807 TAAGTGGCTT
* *
17297817 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
* *
17297843 TGCCATAATATTTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
17297870 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
17297890 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.40
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:17304093 original size:41 final size:42
Alignment explanation
Indices: 17303970--17304133 Score: 125
Period size: 41 Copynumber: 3.9 Consensus size: 42
17303960 TTACCATACC
** * * * * *
17303970 AATGCCACGTCCCAGATATAGTCTTACATGAGATCTCGTATC
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATA
* * * * * * * *
17304012 GATGCTAATAGCCTAGCTATTGTCTTACACGAAATTTCATATC
1 AATGC-CATATCCCAGATATGGTCTTACACGAAATCTCATATA
* * *
17304055 AATGTCAT-TCCCAGATATGGTCTTCCACGAAGTCTCATATA
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATA
*
17304096 AATGCCATATCCCAGATATGATCTTACAC-ATAATCTCA
1 AATGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
17304134 GTGACCCTAA
Statistics
Matches: 92, Mismatches: 27, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
41 33 0.36
42 30 0.33
43 29 0.32
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (42 bp):
AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATA
Found at i:17320399 original size:27 final size:27
Alignment explanation
Indices: 17320369--17320478 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
17320359 TATAAACATA
17320369 TATCACAT-AGGGCCAAAACAGTCATTT
1 TATCACATAAGGG-CAAAACAGTCATTT
** *
17320396 TATCAGTTAGGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
* *
17320423 TACCACATAAGGGAAAAATC-GTCATTT
1 TATCACATAAGGGCAAAA-CAGTCATTT
*
17320450 TAACACATAAGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
17320477 TA
1 TA
17320479 CCTTACAGAG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 65 0.93
28 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
TATCACATAAGGGCAAAACAGTCATTT
Found at i:17320913 original size:73 final size:73
Alignment explanation
Indices: 17320790--17321154 Score: 667
Period size: 73 Copynumber: 5.0 Consensus size: 73
17320780 TGGGCCTACG
** * * * *
17320790 TGGCCCAGTATCTTTTTGGCTCATGGAAACACCCATGGCCATCTCATTGACCACACGGTCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
17320855 TTGTTACA
66 TTGTTACA
17320863 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
17320928 TTGTTACA
66 TTGTTACA
17320936 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
17321001 TTGTTACA
66 TTGTTACA
17321009 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
17321074 TTGTTACA
66 TTGTTACA
*
17321082 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGACCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
17321147 TTGTTACA
66 TTGTTACA
17321155 CGACTTGCCA
Statistics
Matches: 285, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 285 1.00
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.28
Consensus pattern (73 bp):
TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
TTGTTACA
Found at i:17321224 original size:8 final size:8
Alignment explanation
Indices: 17321211--17321267 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
17321201 CACTTTTTGA
17321211 CTTTTCAG
1 CTTTTCAG
* *
17321219 CCTTTCGG
1 CTTTTCAG
* *
17321227 TTTTTCAT
1 CTTTTCAG
17321235 CTTTTCAG
1 CTTTTCAG
*
17321243 CCTTTCAG
1 CTTTTCAG
*
17321251 CTTTTTAG
1 CTTTTCAG
17321259 CTTTTCAG
1 CTTTTCAG
17321267 C
1 C
17321268 CTTTGTAGTT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.11, C:0.26, G:0.12, T:0.51
Consensus pattern (8 bp):
CTTTTCAG
Found at i:17321238 original size:24 final size:24
Alignment explanation
Indices: 17321203--17321271 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
17321193 CGTCAACCCA
17321203 CTTTTT-GACTTTTCAGCCTTTC-G
1 CTTTTTAG-CTTTTCAGCCTTTCAG
* *
17321226 GTTTTTCATCTTTTCAGCCTTTCAG
1 CTTTTT-AGCTTTTCAGCCTTTCAG
17321251 CTTTTTAGCTTTTCAGCCTTT
1 CTTTTTAGCTTTTCAGCCTTT
17321272 GTAGTTTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 5 0.13
24 28 0.72
25 6 0.15
ACGTcount: A:0.10, C:0.25, G:0.12, T:0.54
Consensus pattern (24 bp):
CTTTTTAGCTTTTCAGCCTTTCAG
Found at i:17322200 original size:10 final size:10
Alignment explanation
Indices: 17322185--17322210 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17322175 CGGCTAACAA
17322185 CAAACTTATT
1 CAAACTTATT
17322195 CAAACTTATT
1 CAAACTTATT
17322205 CAAACT
1 CAAACT
17322211 CTTGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAACTTATT
Found at i:17336326 original size:20 final size:21
Alignment explanation
Indices: 17336278--17336326 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
17336268 GTGTGGCCCA
* *
17336278 CATGGCCAATTTTAGCCCCAC
1 CATGGCCCATTTTAGCCACAC
*
17336299 C-TGACCCATTTTAG-CACAC
1 CATGGCCCATTTTAGCCACAC
17336318 CATGGCCCA
1 CATGGCCCA
17336327 AATCGACCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.22
20 17 0.74
21 1 0.04
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.22
Consensus pattern (21 bp):
CATGGCCCATTTTAGCCACAC
Found at i:17337976 original size:48 final size:47
Alignment explanation
Indices: 17337859--17338065 Score: 181
Period size: 46 Copynumber: 4.4 Consensus size: 47
17337849 TATGTGTGCT
* * * *
17337859 AGTGGAAGACATGTCTGGGACATGCATCAGCC---ACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-TAT-TAAGCC
* * *
17337905 ACTGTAAGTCATG-CTAGGACATGCATCGGCCTTGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATA-TTAAGCC
* * * * ** *
17337952 AGTATAAGACATGTCTGGGACATGCATTGGCATTGAGACA-TGGGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTAAGCC
* *
17337998 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT-TAAGCC
* *
17338046 AGTGTAAAACCTGTCTGGGA
1 AGTGTAAGACATGTCTGGGA
17338066 GATGGTGTCA
Statistics
Matches: 128, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
45 16 0.12
46 49 0.38
47 17 0.13
48 46 0.36
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTAAGCC
Found at i:17339546 original size:41 final size:40
Alignment explanation
Indices: 17339475--17339587 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 40
17339465 ATGTGGTTAC
* * * * * *
17339475 GTGTAAGACCATGTTTAGGACATCGACATCGTATTTGA-TTT
1 GTGTAAGACCATGTCTGGGACAT-GGCATCG-ATATGAGATA
*
17339516 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGAGATA
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATATGAGATA
17339557 GCATGTAAGACCATGTCTGGGACATTGGCAT
1 G--TGTAAGACCATGTCTGGGACA-TGGCAT
17339588 TGTACGATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 5 0.08
41 27 0.46
42 1 0.02
43 26 0.44
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (40 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATA
Found at i:17340403 original size:18 final size:19
Alignment explanation
Indices: 17340363--17340404 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
17340353 TGTATTGATA
* *
17340363 ATGGTTGGTGAACTTGGAT
1 ATGGTTGATGAACTTGGAC
*
17340382 ATGGTTGATGAA-TTGGCC
1 ATGGTTGATGAACTTGGAC
17340400 ATGGT
1 ATGGT
17340405 ATATATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (19 bp):
ATGGTTGATGAACTTGGAC
Found at i:17340839 original size:20 final size:20
Alignment explanation
Indices: 17340773--17340839 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
17340763 ATGATTCGAC
17340773 ATTTGTATATGTATAAGCATAT
1 ATTTGTATATG-ATAAG-ATAT
* * *
17340795 A-ATGT-TTTGATATGATAT
1 ATTTGTATATGATAAGATAT
17340813 -TTATGTATATGATAAGATAT
1 ATT-TGTATATGATAAGATAT
17340833 ATTTGTA
1 ATTTGTA
17340840 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 4 0.11
19 7 0.20
20 18 0.51
21 5 0.14
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (20 bp):
ATTTGTATATGATAAGATAT
Found at i:17361268 original size:60 final size:60
Alignment explanation
Indices: 17361194--17361313 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
17361184 CCCACTTCCC
17361194 TCAAACACACCAACTGCCCAAGCTTCAGAGTTCTAGTGAAATACAACCATTCATACGGCA
1 TCAAACACACCAACTGCCCAAGCTTCAGAGTTCTAGTGAAATACAACCATTCATACGGCA
*
17361254 TCAAACCCACCAACTGCCCAAGCTTCAGAGTTCTAGTGAAATACAACCATTCATACGGCA
1 TCAAACACACCAACTGCCCAAGCTTCAGAGTTCTAGTGAAATACAACCATTCATACGGCA
17361314 ACAAGCCAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (60 bp):
TCAAACACACCAACTGCCCAAGCTTCAGAGTTCTAGTGAAATACAACCATTCATACGGCA
Found at i:17373965 original size:170 final size:171
Alignment explanation
Indices: 17373670--17374010 Score: 621
Period size: 170 Copynumber: 2.0 Consensus size: 171
17373660 TCATAATGAC
17373670 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
1 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
* *
17373735 ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCGAGCTAGCTGAATAAACC
66 ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCCAGCTACCTGAATAAACC
17373800 TATGAGAGGTGGGAAAG-AAAAAAGGGGGTAAGCTTCAAAG
131 TATGAGAGGTGGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
* *
17373840 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGATTCAAAGGTTTGCGTTCATTTACCCA
1 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
*
17373905 ACATGATAGCTTGATAGTGTGATAGAATCTTCGACGATCTCCAACCCCAGCTACCTGAATAAACC
66 ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCCAGCTACCTGAATAAACC
*
17373970 TATGAGAGGTTGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
131 TATGAGAGGTGGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
17374011 CTTAGTAAAT
Statistics
Matches: 164, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
170 141 0.86
171 23 0.14
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (171 bp):
ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCCAGCTACCTGAATAAACC
TATGAGAGGTGGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
Found at i:17374547 original size:45 final size:45
Alignment explanation
Indices: 17374497--17374584 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
17374487 CCAAAACATG
*
17374497 TGTCACATACATCGCGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCACGAACTCAGACCACAACTCAATGAGTTCAGA
** * * *
17374542 TGTCACATATGTCATGAACTCAGAGCATAACTCAATGAGTTCA
1 TGTCACATACATCACGAACTCAGACCACAACTCAATGAGTTCA
17374585 AACCACATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCACGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:17395811 original size:47 final size:48
Alignment explanation
Indices: 17395659--17395825 Score: 210
Period size: 48 Copynumber: 3.5 Consensus size: 48
17395649 TTTCATATCG
* * * * * *
17395659 ATGCCATGTACCAGACTTGGTTTTACATGAAATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
* * * *
17395707 ATGCCATATCCCTGATATGGTCCTACATGAGATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
* * *
17395755 AGGCTATGTCCCAAACATGGTCTTACATG-GATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
17395802 ATGCCATGTCCCAGACATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
17395826 GCATAGGATC
Statistics
Matches: 99, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
47 39 0.39
48 60 0.61
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
Found at i:17399501 original size:60 final size:59
Alignment explanation
Indices: 17399381--17399517 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
17399371 CAGTGTTAAC
* * *
17399381 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATA-
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCACAGCCCATTACAG-ATCAGAGTATAT
* *
17399441 TGGAGCCTAGCCCATATCAGTATCAATCTGGGCCGCAGCCCTATTACA-AGTC-GAGATATAT
1 TGG-GCCTAGCCCATATCAATATCAATCTGGGCCACAGCCC-ATTACAGA-TCAGAG-TATAT
*
17399502 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
17399518 TAACATAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCACAGCCCATTACAGATCAGAGTATAT
Found at i:17404561 original size:60 final size:59
Alignment explanation
Indices: 17404441--17404577 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
17404431 CAGTGTTAAC
* * *
17404441 TGGGCCTTAGCCCATATCAATATTAATATGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATATGGGCCACAGCCCATTACAG-ATCAGAGTATAT
* * *
17404502 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGCAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATATGGGCCACAGCCC-ATTACAGA-TCAGAG-TATAT
* *
17404562 TGGCCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
17404578 TAACATAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 50 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATATGGGCCACAGCCCATTACAGATCAGAGTATAT
Found at i:17406530 original size:15 final size:15
Alignment explanation
Indices: 17406493--17406521 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17406483 TTTCCCTATC
17406493 TAATAATAATAATTA
1 TAATAATAATAATTA
17406508 TAATAATAATAATT
1 TAATAATAATAATT
17406522 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:17409962 original size:40 final size:40
Alignment explanation
Indices: 17409895--17410035 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
17409885 ACCCAAGTAT
* *
17409895 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
*
17409934 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
17409974 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
17410014 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
17410036 CATCCGAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 11 0.12
40 82 0.87
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:17417426 original size:40 final size:40
Alignment explanation
Indices: 17417359--17417575 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
17417349 ACCCAAGTAT
*
17417359 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
17417398 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
17417438 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
* * *
17417478 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
17417518 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
17417558 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
17417576 TTATCATCCG
Statistics
Matches: 155, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 139 0.90
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:17420204 original size:23 final size:23
Alignment explanation
Indices: 17420174--17420222 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
17420164 ATCTGATTGT
*
17420174 CTTGAAAATATTCTCATTAAGGA
1 CTTGAAAACATTCTCATTAAGGA
*
17420197 CTTGAAAACATTCTTATTAAGGA
1 CTTGAAAACATTCTCATTAAGGA
17420220 CTT
1 CTT
17420223 AGTCATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (23 bp):
CTTGAAAACATTCTCATTAAGGA
Found at i:17422420 original size:18 final size:18
Alignment explanation
Indices: 17422397--17422434 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17422387 TTTAGACCAT
17422397 AAAATATAATAAAAATAA
1 AAAATATAATAAAAATAA
17422415 AAAATATAATAAAAATAA
1 AAAATATAATAAAAATAA
17422433 AA
1 AA
17422435 TTTCTTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATATAATAAAAATAA
Found at i:17422423 original size:9 final size:9
Alignment explanation
Indices: 17422395--17422432 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
17422385 ATTTTAGACC
17422395 ATAAAATATA
1 ATAAAA-ATA
17422405 ATAAAAATA
1 ATAAAAATA
17422414 A-AAAATATA
1 ATAAAA-ATA
17422423 ATAAAAATA
1 ATAAAAATA
17422432 A
1 A
17422433 AATTTCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 12 0.46
10 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAAAAATA
Found at i:17431040 original size:48 final size:48
Alignment explanation
Indices: 17430856--17431133 Score: 224
Period size: 48 Copynumber: 6.0 Consensus size: 48
17430846 CACATAGTAA
*
17430856 GATGCCAATGCCATATCCTAGAAATGGTCTTACATGGGATCATACATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATC-T-CATATC
* * * * *
17430906 GATG----T-CGATAGCCTAG-CTATGGTCTTACACGATG-TTTCATATC
1 GATGCCAATGCCATATCCTAGAC-ATGGTCTTACATG-GGATCTCATATC
* * ** ** *
17430949 GATG-----G-CATGTCCCAGACATGGTCTTACATGAAATAACAAATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
* *
17430991 GATGCCAATGTCATATCCTAGATATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
** * *
17431039 GATGTGAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
* *
17431087 GATGCCAATGCCATGTCC-CGAACATGGTCTTACATGGGATCTCATAT
1 GATGCCAATGCCATATCCTAG-ACATGGTCTTACATGGGATCTCATAT
17431134 AACCCTAATG
Statistics
Matches: 183, Mismatches: 33, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
42 28 0.15
43 11 0.06
44 1 0.01
45 22 0.12
46 2 0.01
47 2 0.01
48 113 0.62
50 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
Found at i:17431088 original size:96 final size:96
Alignment explanation
Indices: 17430954--17431133 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
17430944 ATATCGATGG
* *
17430954 CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGTCATATCCTAG-ATATGG
1 CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGCCATATCC-AGAACATGG
17431018 TCTTACATGGGATCTCATATCGATGTGAATGC
65 TCTTACATGGGATCTCATATCGATGTGAATGC
** ** * * *
17431050 CATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCAATGCCATGTCCCGAACATGGT
1 CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGCCATATCCAGAACATGGT
17431115 CTTACATGGGATCTCATAT
66 CTTACATGGGATCTCATAT
17431134 AACCCTAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGCCATATCCAGAACATGGT
CTTACATGGGATCTCATATCGATGTGAATGC
Found at i:17437054 original size:22 final size:22
Alignment explanation
Indices: 17437029--17437071 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17437019 AAAGCCGAGG
17437029 AGCTCAGTAT-GGAGAAAAGAAA
1 AGCTCA-TATGGGAGAAAAGAAA
* *
17437051 AGCTGATATGGGAGCAAAGAA
1 AGCTCATATGGGAGAAAAGAA
17437072 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (22 bp):
AGCTCATATGGGAGAAAAGAAA
Found at i:17447712 original size:12 final size:12
Alignment explanation
Indices: 17447695--17447722 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17447685 TATATATATA
17447695 TGTGGTTGTATG
1 TGTGGTTGTATG
17447707 TGTGGTTGTATG
1 TGTGGTTGTATG
17447719 TGTG
1 TGTG
17447723 TGATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (12 bp):
TGTGGTTGTATG
Found at i:17448453 original size:38 final size:38
Alignment explanation
Indices: 17448411--17448542 Score: 115
Period size: 38 Copynumber: 3.4 Consensus size: 38
17448401 TAAAGACCTA
* *
17448411 CAGGCTATATGCTGGAAATATATTCAGGTTAAATCCCG
1 CAGGCTATATGCTGGTATTATATTCAGGTTAAATCCCG
* * * *
17448449 CAGGCT-TCGTGCTAGTATTATATCCGGGTTAAATCCCG
1 CAGGCTAT-ATGCTGGTATTATATTCAGGTTAAATCCCG
* * *
17448487 CAGGCCTA-GTGCTGGTATTATATCTAAGCTTAAAGTCCCG
1 CAGG-CTATATGCTGGTATTATAT-TCAGGTTAAA-TCCCG
* *
17448527 CAGGTTTTATGCTGGT
1 CAGGCTATATGCTGGT
17448543 GACTGGATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
37 1 0.01
38 48 0.65
39 9 0.12
40 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (38 bp):
CAGGCTATATGCTGGTATTATATTCAGGTTAAATCCCG
Found at i:17453004 original size:12 final size:12
Alignment explanation
Indices: 17452987--17453014 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17452977 GTTATATATA
17452987 TGTGGTTGTATG
1 TGTGGTTGTATG
17452999 TGTGGTTGTATG
1 TGTGGTTGTATG
17453011 TGTG
1 TGTG
17453015 TGATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (12 bp):
TGTGGTTGTATG
Found at i:17463807 original size:46 final size:46
Alignment explanation
Indices: 17463755--17463885 Score: 199
Period size: 46 Copynumber: 2.8 Consensus size: 46
17463745 GATGGTTGAG
*
17463755 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
17463801 TGTCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
17463847 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17463886 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:17468898 original size:9 final size:9
Alignment explanation
Indices: 17468883--17468998 Score: 103
Period size: 9 Copynumber: 12.7 Consensus size: 9
17468873 ATATTTATGT
17468883 ATTATGTAA
1 ATTATGTAA
*
17468892 GTTATGTAA
1 ATTATGTAA
17468901 ATTATGTAA
1 ATTATGTAA
* ***
17468910 GTTATCCGA
1 ATTATGTAA
17468919 ATTATGTAA
1 ATTATGTAA
17468928 ATTATGTAA
1 ATTATGTAA
17468937 GA-TATGATATA
1 -ATTATG-TA-A
17468948 TATTTATGT--
1 -A-TTATGTAA
17468957 ATTATGTAA
1 ATTATGTAA
*
17468966 GTTATGTAA
1 ATTATGTAA
17468975 ATTATGTAA
1 ATTATGTAA
17468984 ATTATGTAA
1 ATTATGTAA
*
17468993 AATATG
1 ATTATG
17468999 ATATATATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
9 69 0.80
10 3 0.03
11 2 0.02
12 1 0.01
13 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (9 bp):
ATTATGTAA
Found at i:17468964 original size:56 final size:56
Alignment explanation
Indices: 17468901--17469012 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
17468891 AGTTATGTAA
* *
17468901 ATTATGTAAGTTATCCGAATTATGTAAATTATGTAAGATATGATATATATTTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
**
17468957 ATTATGTAAGTTATGTAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
17469013 TGATGGGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (56 bp):
ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
Found at i:17469286 original size:91 final size:90
Alignment explanation
Indices: 17469179--17469926 Score: 873
Period size: 91 Copynumber: 8.3 Consensus size: 90
17469169 TATTTACAAG
*
17469179 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTT
1 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
*
17469244 GAAAATAAAATAAAAGTAGACAAAA
66 AAAAATAAAATAAAAGTAGACAAAA
* * *
17469269 TATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATT
1 T-TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATT
**
17469334 TAAAAATAAAATAAAAGTAGACAAGG
65 TAAAAATAAAATAAAAGTAGACAAAA
*
17469360 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTT
1 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
*
17469425 AAAAATAAAATAAAAGTAGACAAAGG
66 AAAAATAAAATAAAAGTAGACAAA-A
17469451 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTT-ATTCAGGTAATT
1 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATT-AGGTAATT
17469515 TAAAAATAAAATAAAAGTAGACAAAA
65 TAAAAATAAAATAAAAGTAGACAAAA
* * * * * * ** **
17469541 TATTTTCCCTAATTAAAATAAAACTTTAAATACAA-TTT-ACTTTAATTAGGTAATTTAA--AAA
1 T-TTTTTCGTGATTAAAATAAAA--TAAAATAAAACTTTAAATACAATT---TAATTTAATTAGG
** * * * ****
17469602 TAAAATAAAAGT-AGA-CAAAG--G-CTTTT
60 TAATTTAAAAATAAAATAAAAGTAGACAAAA
** ** * *
17469628 TCGTGATT--AAAATAAAATAAAAT-----AAAACTTTAAATACAATTTACTTTAATTAGGTAAT
1 T--TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAAT
*
17469686 TTAAAAATAAAATAAAAGTAGACAAAGG
64 TTAAAAATAAAATAAAAGTAGACAAA-A
* *
17469714 CTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTT
1 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
*
17469779 AAAAATAAAATAAAAGTAGACAAAGG
66 AAAAATAAAATAAAAGTAGACAAA-A
* *
17469805 CTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTT
1 TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
*
17469870 AAAAATAAAATAAAAGTAGACAAAGG
66 AAAAATAAAATAAAAGTAGACAAA-A
*
17469896 CTTTTTCGTGATTAAAATAAAATAAAATAAA
1 TTTTTTCGTGATTAAAATAAAATAAAATAAA
17469927 CCTTGTTAAG
Statistics
Matches: 571, Mismatches: 59, Indels: 55
0.83 0.09 0.08
Matches are distributed among these distances:
78 7 0.01
79 3 0.01
80 13 0.02
81 8 0.01
82 4 0.01
84 5 0.01
85 1 0.00
86 24 0.04
87 2 0.00
88 3 0.01
90 94 0.16
91 379 0.66
92 13 0.02
93 8 0.01
94 6 0.01
95 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (90 bp):
TTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
AAAAATAAAATAAAAGTAGACAAAA
Found at i:17469775 original size:182 final size:182
Alignment explanation
Indices: 17469180--17469926 Score: 1259
Period size: 182 Copynumber: 4.2 Consensus size: 182
17469170 ATTTACAAGT
* * *
17469180 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTG
1 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
*** * *
17469245 AAAATAAAATAAAAGTAGACAAAATATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAAT
66 AAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAAT
*
17469310 ACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC-AAGGT
131 ACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
17469361 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
1 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
*
17469426 AAAATAAAATAAAAGTAGACAAAGGTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAAT
66 AAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAAT
* *
17469491 ACAATTTAATTT-ATTCAGGTAATTTAAAAATAAAATAAAAGTAGACAAA--A
131 ACAATTTACTTTAATT-AGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
**
17469541 TATTTTC---CCT--AAT----TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTT
1 T-TTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTT
17469597 AAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAA
65 AAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAA
17469662 TACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
130 TACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
17469715 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
1 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
17469780 AAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAAT
66 AAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAAT
17469845 ACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
131 ACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
17469897 TTTTTCGTGATTAAAATAAAATAAAATAAA
1 TTTTTCGTGATTAAAATAAAATAAAATAAA
17469927 CCTTGTTAAG
Statistics
Matches: 534, Mismatches: 17, Indels: 29
0.92 0.03 0.05
Matches are distributed among these distances:
172 152 0.28
173 8 0.01
174 1 0.00
176 4 0.01
178 4 0.01
180 4 0.01
181 168 0.31
182 193 0.36
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (182 bp):
TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
AAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAAT
ACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGC
Done.