Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 55 of 250
Found at i:17375210 original size:80 final size:80
Alignment explanation
Indices: 17375077--17375326 Score: 308
Period size: 80 Copynumber: 3.1 Consensus size: 80
17375067 CTAACGGGGT
* * * **
17375077 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCTGGGCTAAGTTTCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
17375142 TTACTATATCCGGGC
66 TTACTATATCCGGGC
* * * * *
17375157 TAAGTCCTGAAGGCATTTGTACGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTACGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
17375222 TTACTATATCCGGGC
66 TTACTATATCCGGGC
* * * *
17375237 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGCTAAGACCCGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
***
17375300 GTGGTTATATCC-GGC
65 GTTACTATATCCGGGC
*
17375315 TAAATCCCGAAG
1 TAAGTCCCGAAG
17375327 ATACTTGGGT
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 18 0.12
80 114 0.78
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:17375310 original size:39 final size:40
Alignment explanation
Indices: 17375077--17375326 Score: 274
Period size: 40 Copynumber: 6.3 Consensus size: 40
17375067 CTAACGGGGT
* * * *
17375077 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
** *
17375117 TAAGTTTCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * *
17375157 TAAGTCCTGAAGGCATTTGTACGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* *
17375197 TAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* *
17375237 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * **
17375277 TAAGACCCGACGGC-CTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
17375315 TAAATCCCGAAG
1 TAAGTCCCGAAG
17375327 ATACTTGGGT
Statistics
Matches: 181, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 12 0.07
39 17 0.09
40 150 0.83
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:17379242 original size:27 final size:26
Alignment explanation
Indices: 17379206--17379313 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
17379196 AGCGTCCTGC
*
17379206 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCAC-ATTATCTGATCTGG
*
17379233 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACAT-TATCTGATCTGG
* *
17379260 TGGTTCTGCCACGATTATCTGTATTTGG
1 TGGCTCTGCCAC-ATTATCTG-ATCTGG
* * * *
17379288 TGACTCTGTCATATTATCTGTTCTGG
1 TGGCTCTGCCACATTATCTGATCTGG
17379314 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.09
27 47 0.70
28 14 0.21
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGATCTGG
Found at i:17386217 original size:23 final size:24
Alignment explanation
Indices: 17386131--17386221 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 24
17386121 GGACTCACCA
* *
17386131 CAGCTCATAAGAGCTTACTGATATAT
1 CAGCTCATATGAGCTTAC-CATAT-T
* * *
17386157 CAACTCGA-AAGAGCTTACTATATT
1 CAGCTC-ATATGAGCTTACCATATT
*
17386181 TAGCTCAT-TGGAGCTTACCAT-TT
1 CAGCTCATAT-GAGCTTACCATATT
17386204 CAGCTCATATGAGCTTAC
1 CAGCTCATATGAGCTTAC
17386222 TGTTCAGCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
23 18 0.33
24 16 0.30
25 4 0.07
26 15 0.28
27 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACCATATT
Found at i:17386230 original size:22 final size:21
Alignment explanation
Indices: 17386202--17386272 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
17386192 AGCTTACCAT
17386202 TTCAGCTCATATGAGCTTACTG
1 TTCAGCTCATA-GAGCTTACTG
* *
17386224 TTCAGCTTGATAGAGCTTACCG
1 TTCAGC-TCATAGAGCTTACTG
* *
17386246 TTTTAGCTCAAAAGAGCTTACTG
1 -TTCAGCTC-ATAGAGCTTACTG
17386269 TTCA
1 TTCA
17386273 TCAGCTCAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (21 bp):
TTCAGCTCATAGAGCTTACTG
Found at i:17386261 original size:23 final size:23
Alignment explanation
Indices: 17386131--17386266 Score: 69
Period size: 23 Copynumber: 5.8 Consensus size: 23
17386121 GGACTCACCA
* *
17386131 CAGCTCATAAGAGCTTACTGATATAT
1 CAGCTCAAAAGAGCTTAC-CAT-T-T
* * *
17386157 CAACTCGAAAGAGCTTACTATATT
1 CAGCTCAAAAGAGCTTACCAT-TT
* ***
17386181 TAGCTCATTGGAGCTTACCATTT
1 CAGCTCAAAAGAGCTTACCATTT
* *
17386204 CAGCTCATATGAGCTTA-C-TGTT
1 CAGCTCAAAAGAGCTTACCAT-TT
** * *
17386226 CAGCTTGATAGAGCTTACCGTTT
1 CAGCTCAAAAGAGCTTACCATTT
*
17386249 TAGCTCAAAAGAGCTTAC
1 CAGCTCAAAAGAGCTTAC
17386267 TGTTCATCAG
Statistics
Matches: 84, Mismatches: 23, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
21 1 0.01
22 15 0.18
23 33 0.39
24 16 0.19
25 4 0.05
26 15 0.18
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (23 bp):
CAGCTCAAAAGAGCTTACCATTT
Found at i:17390635 original size:44 final size:42
Alignment explanation
Indices: 17390504--17390644 Score: 160
Period size: 44 Copynumber: 3.3 Consensus size: 42
17390494 GTCTCAAATG
* * *
17390504 TGGTCTTACATGT-AATCAAATATCAATGCCATTGTCCCAGACA
1 TGGTCTTACACGTAAATC-AA-ATCGATGCCAATGTCCCAGACA
* **
17390547 GGGTCTTACACG-AAATCAAATACGATGCTGATGTCCCAGACA
1 TGGTCTTACACGTAAATCAAAT-CGATGCCAATGTCCCAGACA
*
17390589 TGGTCTTACACGTAAATCATAAGTCGATGCCAATGTCCCAGTCA
1 TGGTCTTACACGTAAATCA-AA-TCGATGCCAATGTCCCAGACA
17390633 TGGTCTTACACG
1 TGGTCTTACACG
17390645 AAAACACATA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.35
43 20 0.24
44 31 0.37
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
TGGTCTTACACGTAAATCAAATCGATGCCAATGTCCCAGACA
Found at i:17390675 original size:86 final size:84
Alignment explanation
Indices: 17390504--17390668 Score: 190
Period size: 86 Copynumber: 1.9 Consensus size: 84
17390494 GTCTCAAATG
* * *
17390504 TGGTCTTACATGTAATCAAATATCAATGCCATTGTCCCAGACAGGGTCTTACACGAAATCAAATA
1 TGGTCTTACACGTAATCAAATATCAATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAAATA
*
17390569 CGATGCTGATGTCCCAGACA
66 CGATCCTGATGT-CCAGACA
* * * * *
17390589 TGGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAGTCATGGTCTTACACGAAAACACA
1 TGGTCTTACACGT-AATCA-AATATCAATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAAA
17390653 TATCGGATCCT-ATGTC
64 TA-C-GATCCTGATGTC
17390669 ATGACATATG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 12 0.18
86 43 0.64
87 7 0.10
88 5 0.07
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (84 bp):
TGGTCTTACACGTAATCAAATATCAATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAAATA
CGATCCTGATGTCCAGACA
Found at i:17393785 original size:24 final size:24
Alignment explanation
Indices: 17393758--17393803 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17393748 AACCCATTAC
*
17393758 AGAATAAGAAACATTATCAGAACT
1 AGAATAAGAAACATAATCAGAACT
* *
17393782 AGAATTAGAATCATAATCAGAA
1 AGAATAAGAAACATAATCAGAA
17393804 TCAAAATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (24 bp):
AGAATAAGAAACATAATCAGAACT
Found at i:17393827 original size:6 final size:6
Alignment explanation
Indices: 17393773--17393872 Score: 53
Period size: 6 Copynumber: 16.3 Consensus size: 6
17393763 AAGAAACATT
* * * *
17393773 ATCAGA A-CTAGA ATTAGA ATCATA ATCAGA ATCAAA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
17393822 ATCAGA ATCAAA ATCAGT ATCAGT ATCAGGTA A-CAGA ATTAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
17393871 AT
1 AT
17393873 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
5 5 0.07
6 58 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:17393868 original size:37 final size:37
Alignment explanation
Indices: 17393782--17393868 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 37
17393772 TATCAGAACT
* *
17393782 AGAATTAGAATCATAATCAGAATCAAAATCAAGTGAC
1 AGAATTAGAATCAAAATCAGAATCAAAATCAAGTAAC
* * ** *
17393819 AGAATCAGAATCAAAATCAGTATCAGTATCAGGTAAC
1 AGAATTAGAATCAAAATCAGAATCAAAATCAAGTAAC
*
17393856 AGAATTAAAATCA
1 AGAATTAGAATCA
17393869 GAATGTGAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.22
Consensus pattern (37 bp):
AGAATTAGAATCAAAATCAGAATCAAAATCAAGTAAC
Found at i:17394297 original size:27 final size:27
Alignment explanation
Indices: 17394267--17394369 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
17394257 GGGGCAAAAT
* * *
17394267 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17394294 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
17394321 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17394348 AGTAATTCTACCCTACAAGGGT
1 GGTAATTCTACCCTACAAGGGT
17394370 TGTAACACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:17396057 original size:29 final size:29
Alignment explanation
Indices: 17396023--17396154 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
17396013 TAATCAACCG
* * *
17396023 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTCAGTGCCATGCA-TTTCAAGCT
*
17396052 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
17396081 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
* *
17396110 CACACACTCAGTGACATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
17396139 CGCACACTCAGTGCCA
1 CGCACACTCAGTGCCA
17396155 ATCTCTCAAC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 3 0.03
29 92 0.97
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTCAGTGCCATGCATTTCAAGCT
Found at i:17404029 original size:29 final size:29
Alignment explanation
Indices: 17403995--17404097 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
17403985 TAATCAACCG
* * *
17403995 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTCAGTGCCATGCA-TTTCAAGCT
*
17404024 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
17404053 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
17404082 CGCACACTCAGTGCCA
1 CGCACACTCAGTGCCA
17404098 ATCTCTCAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 3 0.04
29 67 0.96
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTCAGTGCCATGCATTTCAAGCT
Found at i:17405697 original size:27 final size:27
Alignment explanation
Indices: 17405640--17405743 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
17405630 TACCCTACAG
* * * * * *
17405640 GGGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
** * *
17405667 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
17405694 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
17405721 GGGTATTTTAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
17405744 TCGAAGGTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:17405747 original size:54 final size:54
Alignment explanation
Indices: 17405667--17405824 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
17405657 CACAAATCAG
* ** ***
17405667 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACCAA
* * * * *
17405721 GGGTATTTTAGTAATTTTGTAAATCGAAGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACCAA
*** * *
17405775 GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAA
17405825 TGAGGGTAAA
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACCAA
Found at i:17405752 original size:27 final size:27
Alignment explanation
Indices: 17405667--17405832 Score: 154
Period size: 27 Copynumber: 6.2 Consensus size: 27
17405657 CACAAATCAG
* **
17405667 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
* *
17405694 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*
17405721 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
* *** *
17405748 AGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*** *
17405775 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
****
17405802 GGGTAAAACGGTAATTTTGTAAAT-GA
1 GGGTATTTTGGTAATTTTGTAAATCGA
17405828 GGGTA
1 GGGTA
17405833 AAATGGTAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 7 0.06
27 115 0.94
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAATCGA
Found at i:17405760 original size:81 final size:80
Alignment explanation
Indices: 17405675--17405847 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 80
17405665 AGGGGTATTT
* ** *** * ****
17405675 TGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTG
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAAGGGTAAAACAGTAATTTTG
17405740 TAAATCGAAGGTAAAA
66 TAAAT-GAAGGTAAAA
* * * *
17405756 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTG
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAAGGGTAAAACAGTAATTTTG
*
17405821 TAAATGAGGGTAAAA
66 TAAATGAAGGTAAAA
17405836 TGGTAATTCTAT
1 TGGTAATTCTAT
17405848 CTTATTTCGG
Statistics
Matches: 75, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
80 20 0.27
81 55 0.73
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (80 bp):
TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAAGGGTAAAACAGTAATTTTG
TAAATGAAGGTAAAA
Found at i:17405825 original size:54 final size:54
Alignment explanation
Indices: 17405703--17405845 Score: 189
Period size: 54 Copynumber: 2.7 Consensus size: 54
17405693 AGGGTATTTT
* * *** * * *
17405703 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAAGGTAAAAT
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAAGGTAAAAC
* *
17405757 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAAGGTAAAAC
17405811 GGTAATTTTGTAAAT-GAGGGTAAAATGGTAATTCT
1 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCT
17405846 ATCTTATTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 20 0.26
54 58 0.74
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (54 bp):
GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAAGGTAAAAC
Found at i:17405880 original size:27 final size:26
Alignment explanation
Indices: 17405850--17405944 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
17405840 AATTCTATCT
* *
17405850 TATTTCGGTAATTTTACAAATCGAGGA
1 TATTT-GGTAATTTTACAAATTGAGGG
*
17405877 TATTTGGCTAATTTTATAAATTGAGGG
1 TATTTGG-TAATTTTACAAATTGAGGG
*
17405904 TACTTTGGTAATTTTACAAGTTGAGGG
1 TA-TTTGGTAATTTTACAAATTGAGGG
*
17405931 TATTTCAGTAATTT
1 TATTT-GGTAATTT
17405945 GGTAAACTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
26 5 0.08
27 49 0.83
28 5 0.08
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.43
Consensus pattern (26 bp):
TATTTGGTAATTTTACAAATTGAGGG
Found at i:17407906 original size:24 final size:24
Alignment explanation
Indices: 17407879--17407931 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
17407869 AACCCATTAC
**
17407879 AGAATAAGAAACATTATCAGAACT
1 AGAATAAGAAACAGGATCAGAACT
* * *
17407903 AGAATCAGAATCAGGATCAGAATT
1 AGAATAAGAAACAGGATCAGAACT
17407927 AGAAT
1 AGAAT
17407932 CAAAATCAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (24 bp):
AGAATAAGAAACAGGATCAGAACT
Found at i:17407912 original size:6 final size:6
Alignment explanation
Indices: 17407894--17407987 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
17407884 AAGAAACATT
* * *
17407894 ATCAGA A-CTAGA ATCAGA ATCAGG ATCAGA ATTAGA ATCAAA ATCA-A
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
17407941 GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
17407988 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.07
6 55 0.80
7 6 0.09
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:17407939 original size:18 final size:18
Alignment explanation
Indices: 17407905--17407987 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 18
17407895 TCAGAACTAG
* *
17407905 AATCAGAATCAGGATCAG
1 AATCAGAATCAGAATCAA
* *
17407923 AATTAGAATCAAAATC-A
1 AATCAGAATCAGAATCAA
* *
17407940 AGTGACAGAATCAGAATCAG
1 AAT--CAGAATCAGAATCAA
*
17407960 TATCAGGTAA-CAGAATCAA
1 AATCA-G-AATCAGAATCAA
17407979 AATCAGAAT
1 AATCAGAAT
17407988 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
17 4 0.09
18 16 0.34
19 24 0.51
20 3 0.06
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (18 bp):
AATCAGAATCAGAATCAA
Found at i:17407955 original size:25 final size:25
Alignment explanation
Indices: 17407903--17407987 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
17407893 TATCAGAACT
*
17407903 AGAATCAGAATC-AG-GATCAGAATT
1 AGAATCAGAATCAAGTGA-CAGAATC
*
17407927 AGAATCAAAATCAAGTGACAGAATC
1 AGAATCAGAATCAAGTGACAGAATC
* * *
17407952 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAAGTGACAGAATC
*
17407977 AAAATCAGAAT
1 AGAATCAGAAT
17407988 GTGAATGCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
24 11 0.22
25 38 0.75
26 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAAGTGACAGAATC
Found at i:17411312 original size:37 final size:37
Alignment explanation
Indices: 17411262--17411339 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
17411252 ATTTAATACC
17411262 TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
1 TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
**
17411299 TTTAACTATTAGAACAACACTTTTTCACTTTACACGA
1 TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
17411336 TTTA
1 TTTA
17411340 GTCTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.38
Consensus pattern (37 bp):
TTTAACTATTAGAACAACACTTTTAAACTTTACACGA
Found at i:17411745 original size:21 final size:21
Alignment explanation
Indices: 17411721--17411777 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
17411711 AGTAATTAGG
17411721 TTCTTAATCTTTTATCATAGA
1 TTCTTAATCTTTTATCATAGA
*
17411742 TTCTTAATCATTTATCATAGA
1 TTCTTAATCTTTTATCATAGA
* *
17411763 TTCCTGATCTTTTAT
1 TTCTTAATCTTTTAT
17411778 TGTTAAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (21 bp):
TTCTTAATCTTTTATCATAGA
Found at i:17414075 original size:16 final size:17
Alignment explanation
Indices: 17414037--17414075 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17414027 AAAAAATTAT
*
17414037 AAATAAAATATTCAAAA
1 AAATAAAACATTCAAAA
*
17414054 ATATAAAACATT-AAAA
1 AAATAAAACATTCAAAA
17414070 AAATAA
1 AAATAA
17414076 TCAACCAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAACATTCAAAA
Found at i:17418426 original size:26 final size:27
Alignment explanation
Indices: 17418367--17418426 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
17418357 AAAAGTATTC
17418367 AAAAAT-TATAAAAAAATAAAAATTTT
1 AAAAATATATAAAAAAATAAAAATTTT
* *
17418393 AAAGAATATATAAAAACAT-TAAATTTT
1 AAA-AATATATAAAAAAATAAAAATTTT
17418420 AAAAATA
1 AAAAATA
17418427 AAAATCCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.23
27 13 0.43
28 10 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAAATATATAAAAAAATAAAAATTTT
Found at i:17418705 original size:11 final size:10
Alignment explanation
Indices: 17418685--17418759 Score: 66
Period size: 10 Copynumber: 7.6 Consensus size: 10
17418675 TTAGTCTCTC
*
17418685 TAAAAAAATT
1 TAAAATAATT
17418695 ATAAAATAATT
1 -TAAAATAATT
*
17418706 CAAAATAATTT
1 TAAAATAA-TT
17418717 TAAAA-AATT
1 TAAAATAATT
*
17418726 CAAAATAATT
1 TAAAATAATT
*
17418736 T-TAA-AATT
1 TAAAATAATT
*
17418744 CAAAATAATT
1 TAAAATAATT
17418754 TAAAAT
1 TAAAAT
17418760 TTTAAAAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 4 0.08
9 10 0.20
10 22 0.43
11 15 0.29
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAATAATT
Found at i:17418766 original size:18 final size:18
Alignment explanation
Indices: 17418702--17418760 Score: 93
Period size: 20 Copynumber: 3.2 Consensus size: 18
17418692 ATTATAAAAT
17418702 AATTCAAAATAATTTTAAAA
1 AATTCAAAATAATTTT--AA
17418722 AATTCAAAATAATTTTAA
1 AATTCAAAATAATTTTAA
17418740 AATTCAAAATAA-TTTAA
1 AATTCAAAATAATTTTAA
17418757 AATT
1 AATT
17418761 TTAAAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 9 0.23
18 14 0.36
20 16 0.41
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTCAAAATAATTTTAA
Found at i:17418793 original size:10 final size:9
Alignment explanation
Indices: 17418780--17418815 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
17418770 TATATTTTTT
17418780 TAAAAAATC
1 TAAAAAATC
*
17418789 ATAAAAAATT
1 -TAAAAAATC
17418799 TAAAAAATC
1 TAAAAAATC
17418808 TAAAAAAT
1 TAAAAAAT
17418816 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAAAAATC
Found at i:17418802 original size:9 final size:9
Alignment explanation
Indices: 17418778--17418825 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
17418768 TTTATATTTT
17418778 TTTAAAAAA
1 TTTAAAAAA
*
17418787 TCATAAAAAA
1 T-TTAAAAAA
17418797 TTTAAAAAA
1 TTTAAAAAA
*
17418806 TCTAAAAAATA
1 T-TTAAAAA-A
17418817 TTTAAAAAA
1 TTTAAAAAA
17418826 AATTTCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 10 0.31
10 20 0.62
11 2 0.06
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:17418804 original size:20 final size:20
Alignment explanation
Indices: 17418778--17418825 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
17418768 TTTATATTTT
17418778 TTTAAAAAATC-ATAAAAA-A
1 TTTAAAAAATCTA-AAAAATA
17418797 TTTAAAAAATCTAAAAAATA
1 TTTAAAAAATCTAAAAAATA
17418817 TTTAAAAAA
1 TTTAAAAAA
17418826 AATTTCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTAAAAAATCTAAAAAATA
Found at i:17424450 original size:23 final size:23
Alignment explanation
Indices: 17424424--17424489 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
17424414 AGCTCGTTGG
17424424 AGCTTACTGTTTCAGCTCATAAA
1 AGCTTACTGTTTCAGCTCATAAA
* ** *
17424447 AGCTTACTGTTTTCATCTTGTCAA
1 AGCTTACTG-TTTCAGCTCATAAA
*
17424471 AGCTTACCGTTTCAGCTCA
1 AGCTTACTGTTTCAGCTCA
17424490 ATAGAGCTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCATAAA
Found at i:17424454 original size:47 final size:47
Alignment explanation
Indices: 17424400--17424489 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 47
17424390 AGCTTGTAAG
*** *
17424400 AGCTTACTATTTTCAGCTCGTTGGAGCTTACTGTTTCAGCTCATAAA
1 AGCTTACTATTTTCAGCTCGTCAAAGCTTACCGTTTCAGCTCATAAA
* * *
17424447 AGCTTACTGTTTTCATCTTGTCAAAGCTTACCGTTTCAGCTCA
1 AGCTTACTATTTTCAGCTCGTCAAAGCTTACCGTTTCAGCTCA
17424490 ATAGAGCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (47 bp):
AGCTTACTATTTTCAGCTCGTCAAAGCTTACCGTTTCAGCTCATAAA
Found at i:17426348 original size:43 final size:41
Alignment explanation
Indices: 17426204--17426352 Score: 126
Period size: 44 Copynumber: 3.5 Consensus size: 41
17426194 TGTGATTTCG
* *
17426204 TGTAAGACCACGTCTGGGACATTGGCATCGAATTCTAT-TTTACG
1 TGTAAGACCACGTCTGGGACA-TGGCATCG-ATT-T-TGATTACA
* * *
17426248 TGTAAGACCATGTCTGGGACATCGACATC--TTATATGATTTCA
1 TGTAAGACCACGTCTGGGACAT-GGCATCGATT-T-TGATTACA
17426290 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACA-TGGCATCGAT-TTTGATTACA
*
17426333 TGTAAGACAACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
17426353 GTTGGCAATG
Statistics
Matches: 87, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
41 5 0.06
42 27 0.31
43 26 0.30
44 28 0.32
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACATGGCATCGATTTTGATTACA
Found at i:17426359 original size:43 final size:42
Alignment explanation
Indices: 17426204--17426359 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
17426194 TGTGATTTCG
* *
17426204 TGTAAGACCACGTCTGGGACATTGGCATCGAATTCTAT-TTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATT-T-TGATTACA
* * * *
17426248 TGTAAGACCATGTCTGGGACATCGACATC--TTATATGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATT-T-TGATTACA
*
17426290 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TTTGATTACA
* *
17426333 TGTAAGACAACGTCTGGGACGTTGGCA
1 TGTAAGACCACGTCTGGGACATTGGCA
17426360 ATGTTCTTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 5 0.05
42 27 0.30
43 29 0.32
44 29 0.32
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTTTGATTACA
Found at i:17430697 original size:38 final size:38
Alignment explanation
Indices: 17430606--17430712 Score: 153
Period size: 37 Copynumber: 2.8 Consensus size: 38
17430596 GGCTTAAAGA
** *
17430606 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
17430644 -CCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
17430681 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
17430713 CCTTCGTGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
37 34 0.55
38 28 0.45
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:17430782 original size:43 final size:43
Alignment explanation
Indices: 17430705--17430786 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
17430695 GCTGGTATTA
* **
17430705 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
*
17430748 TATTCGGGCCTTCGTGCCTAGCATGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
17430787 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:17433816 original size:40 final size:39
Alignment explanation
Indices: 17433707--17433834 Score: 145
Period size: 39 Copynumber: 3.3 Consensus size: 39
17433697 GGACTAAGAT
* *
17433707 CCGAAGGTATTTGTGCGAGTTATT-AATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTT-TTAAATCCGGGTTAAGTC
*** *
17433746 CCGAAGGC-TTTGTGCGAGATACCAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-TTTTAAATCCGGGTTAAGTC
*
17433785 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTT-AGTC
1 CCGAAGGCATTTGTGCGAGTTTT-AAATCCGGGTTAAGTC
17433824 CCGAAGGCATT
1 CCGAAGGCATT
17433835 GAATGATACT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
38 10 0.14
39 45 0.61
40 19 0.26
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTTTAAATCCGGGTTAAGTC
Found at i:17476799 original size:40 final size:39
Alignment explanation
Indices: 17476747--17476930 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
17476737 TAACTCATTC
*
17476747 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
17476787 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
17476827 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * ** *
17476867 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
17476908 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17476931 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.04
40 99 0.85
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:17476890 original size:80 final size:80
Alignment explanation
Indices: 17476750--17476930 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
17476740 CTCATTCAAT
* * *
17476750 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
17476814 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
17476829 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
17476892 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
17476910 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
17476931 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:17482595 original size:74 final size:75
Alignment explanation
Indices: 17482485--17482627 Score: 234
Period size: 74 Copynumber: 1.9 Consensus size: 75
17482475 TACACGGCTA
* *
17482485 TGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTCCACACGGTCTCACACACGAGCGTG
1 TGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTCCACACGATCTCACACACGAGCATG
17482550 TGACTAGCCG
66 TGACTAGCCG
* * *
17482560 TGTGTCCCCTGGTGTTGAA-TAAAATAAAGTGAGTATGCTCTACACGATCTCACACACGGGCATG
1 TGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTCCACACGATCTCACACACGAGCATG
17482624 TGAC
66 TGAC
17482628 CGGCTGTGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
74 44 0.70
75 19 0.30
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (75 bp):
TGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTCCACACGATCTCACACACGAGCATG
TGACTAGCCG
Found at i:17482637 original size:74 final size:75
Alignment explanation
Indices: 17482461--17482637 Score: 230
Period size: 74 Copynumber: 2.4 Consensus size: 75
17482451 ACCGTGTGTG
** * *
17482461 ACACACGGTTATGTTACACGGCTATGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTC
1 ACACACGGGCATGTGAC-CGGCTGTGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTC
*
17482526 CACACGGTCTC
65 CACACGATCTC
* * ** * * *
17482537 ACACACGAGCGTGTGACTAGCCGTGTGTCCCCTGGTGTTGAA-TAAAATAAAGTGAGTATGCTCT
1 ACACACGGGCATGTGACCGGCTGTGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTCC
17482601 ACACGATCTC
66 ACACGATCTC
17482611 ACACACGGGCATGTGACCGGCTGTGTG
1 ACACACGGGCATGTGACCGGCTGTGTG
17482638 GTACAAGTCA
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
74 51 0.61
75 21 0.25
76 12 0.14
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (75 bp):
ACACACGGGCATGTGACCGGCTGTGTGTCCCCTGGTGTTGAATTAAAATAAAGTCAGTATGCTCC
ACACGATCTC
Found at i:17483217 original size:40 final size:40
Alignment explanation
Indices: 17483166--17483258 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
17483156 ATGGGATTTT
*
17483166 CACTTCGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
1 CACTACGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
* *
17483206 CACTGCGGTGCCCCTGTATACACTTTGGTGTCCCTGTTCA
1 CACTACGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
17483246 CACTACGGTGCCC
1 CACTACGGTGCCC
17483259 TTATTTGCAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.14, C:0.34, G:0.20, T:0.31
Consensus pattern (40 bp):
CACTACGGTGCCCCTGTATACACTTTAGTGTCCCTGTTCA
Found at i:17483248 original size:20 final size:20
Alignment explanation
Indices: 17483166--17483258 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
17483156 ATGGGATTTT
17483166 CACTTCGGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTATA
** *
17483186 CACTTTAGTGTCCCTGT-TCA
1 CACTTCGGTGCCCCTGTAT-A
*
17483206 CACTGCGGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTATA
* *
17483226 CACTTTGGTGTCCCTGT-TCA
1 CACTTCGGTGCCCCTGTAT-A
*
17483246 CACTACGGTGCCC
1 CACTTCGGTGCCC
17483259 TTATTTGCAC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.04
20 54 0.95
21 1 0.02
ACGTcount: A:0.14, C:0.34, G:0.20, T:0.31
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTATA
Found at i:17486510 original size:43 final size:42
Alignment explanation
Indices: 17486341--17486512 Score: 123
Period size: 43 Copynumber: 4.0 Consensus size: 42
17486331 ATAGGATTCC
* * * ** *
17486341 TATATGTGATTTCATGTAAGACCACATCTGGGATGTTGGCAT
1 TATATTTGATTACGTGTAAGACCATGTCTAGGATGTTGGCAT
* * ** **
17486383 CTAT-TTGAGACTTACGTGTAAGACCATGTCTGGGACATCAGCAT
1 -TATATT-TGA-TTACGTGTAAGACCATGTCTAGGATGTTGGCAT
** * * * *
17486427 CGTATTTGATTTCGTGTAAAACCCTGTCTAGGACAG-TGGCAT
1 TATATTTGATTACGTGTAAGACCATGTCTAGGA-TGTTGGCAT
17486469 TAATATTTGATTACGTGTAAGACCATGTCTAGGATGTTGGCAT
1 T-ATATTTGATTACGTGTAAGACCATGTCTAGGATGTTGGCAT
17486512 T
1 T
17486513 GTACAAGCTT
Statistics
Matches: 96, Mismatches: 27, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
42 26 0.27
43 43 0.45
44 27 0.28
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TATATTTGATTACGTGTAAGACCATGTCTAGGATGTTGGCAT
Found at i:17487212 original size:23 final size:22
Alignment explanation
Indices: 17487181--17487224 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
17487171 TTATGAAACA
* *
17487181 TATGTTTTGGTATGACTTTGGTT
1 TATGATTTGGCATGA-TTTGGTT
17487204 TATGATTTGGCATGATTTGGT
1 TATGATTTGGCATGATTTGGT
17487225 ATAGATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.52
Consensus pattern (22 bp):
TATGATTTGGCATGATTTGGTT
Found at i:17492210 original size:41 final size:42
Alignment explanation
Indices: 17492165--17492252 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
17492155 CTGAGATTCA
*
17492165 TCGTGTAATATCTTGAATTAAGGCCTAATCGGAA-AGTGGTT
1 TCGTGTAATATCCTGAATTAAGGCCTAATCGGAATAGTGGTT
* ** *
17492206 TCGTGTAATATCCTGATTTTGGGCCTAGTCGGAATAGTGGTT
1 TCGTGTAATATCCTGAATTAAGGCCTAATCGGAATAGTGGTT
17492248 TCGTG
1 TCGTG
17492253 ACCACAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 29 0.71
42 12 0.29
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (42 bp):
TCGTGTAATATCCTGAATTAAGGCCTAATCGGAATAGTGGTT
Found at i:17493552 original size:46 final size:45
Alignment explanation
Indices: 17493502--17493674 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
17493492 TTGAGCATCC
17493502 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-T
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG-CAT
* * *
17493548 GAACTCGTTGAGTTGAGTCTGAGTT--C-GA-GAGATGTAACTAGGCAT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAA-T--GCAT
* * *
17493593 CCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCTT
1 -GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGCAT
*
17493641 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17493675 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 22 0.21
48 3 0.03
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGCAT
Found at i:17493655 original size:93 final size:93
Alignment explanation
Indices: 17493496--17493666 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
17493486 GGATGGTTGA
* *
17493496 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTCTGAACTCGTTGAGT
*
17493561 TGAGTCTGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
17493589 GCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG-CTTGAGCTCGTTGA
1 GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTC-TGAACTCGTTGA
17493652 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
17493667 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTCTGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:17496608 original size:15 final size:15
Alignment explanation
Indices: 17496569--17496609 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
17496559 CGTATCTTGG
*
17496569 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
17496584 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
17496599 TTTCTTTATTC
1 TTTCTTTATTC
17496610 GTTTTCTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:17500975 original size:29 final size:27
Alignment explanation
Indices: 17500928--17501007 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 27
17500918 CCACTGAATC
*
17500928 GGGAATCATCACTTAGCAACCCCTC-G
1 GGGAATCAGCACTTAGCAACCCCTCGG
17500954 GGGAATAGCAGCAACTTAGCAAGCCCCTCGG
1 GGGAAT--CAGC-ACTTAGCAA-CCCCTCGG
*
17500985 GGGAATCAGCACATAGCAACCCC
1 GGGAATCAGCACTTAGCAACCCC
17501008 CTTTCACATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
26 6 0.13
27 4 0.09
28 11 0.23
29 13 0.28
30 6 0.13
31 7 0.15
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.14
Consensus pattern (27 bp):
GGGAATCAGCACTTAGCAACCCCTCGG
Found at i:17501193 original size:26 final size:26
Alignment explanation
Indices: 17501163--17501214 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17501153 CACCAATGAA
*
17501163 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17501189 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17501215 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:17501243 original size:103 final size:104
Alignment explanation
Indices: 17500951--17501291 Score: 571
Period size: 104 Copynumber: 3.3 Consensus size: 104
17500941 TAGCAACCCC
17500951 TCGGGGAATAGCAGCAACTTAGCAAGCCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACA
1 TCGGGGAAT--CAGC-ACTTAGCAA-CCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACA
17501016 TTTCAAAGATATGGTGGAT-ATCGCACTTAGCACCACCAATGAA
62 TTTCAAAGATATGGTGGATCA-CGCACTTAGCACCACCAATGAA
*
17501059 CCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTC
1 TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTC
17501124 AAAGATATGGTGGATCACGCACTTAGCACCACCAATGAA
66 AAAGATATGGTGGATCACGCACTTAGCACCACCAATGAA
17501163 TCGGGGAATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTC
1 TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTC
* *
17501227 AAAGATATGGTGGATCACGCACATAGCACCACC-ATAAA
66 AAAGATATGGTGGATCACGCACTTAGCACCACCAATGAA
**
17501265 TCGGGGAATCAGCACACAGCAACCCCT
1 TCGGGGAATCAGCACTTAGCAACCCCT
17501292 TTTATATACA
Statistics
Matches: 226, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
102 29 0.13
103 68 0.30
104 107 0.47
105 10 0.04
106 4 0.02
108 8 0.04
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.18
Consensus pattern (104 bp):
TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTC
AAAGATATGGTGGATCACGCACTTAGCACCACCAATGAA
Found at i:17501652 original size:29 final size:29
Alignment explanation
Indices: 17501619--17501682 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17501609 TAATCCACCA
17501619 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17501648 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17501678 CCCAA
1 CCCAA
17501683 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17501656 original size:30 final size:30
Alignment explanation
Indices: 17501626--17501682 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17501616 CCACCCAACT
17501626 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17501655 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17501683 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17508778 original size:100 final size:100
Alignment explanation
Indices: 17508596--17508913 Score: 477
Period size: 100 Copynumber: 3.1 Consensus size: 100
17508586 TTTCATACAT
17508596 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCC--T--CATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
*
17508657 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCAG
66 GATA-CGCACTTAGCACCA-C-AT-AATCGGGGAATCAG
17508696 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
17508761 GATACGCACTTAGCACCACCATAATCGGGGAATCAG
66 GATACGCACTTAGCACCA-CATAATCGGGGAATCAG
17508797 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
*
17508860 GATCACGCACATAGCACCACCCATAAATCGGGGAATCAG
66 GAT-ACGCACTTAGCACCA--CAT-AATCGGGGAATCAG
**
17508899 CACACAGCAACCCCT
1 CACTTAGCAACCCCT
17508914 TTTATATACA
Statistics
Matches: 207, Mismatches: 4, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
99 30 0.14
100 76 0.37
101 33 0.16
102 30 0.14
103 16 0.08
104 22 0.11
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (100 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATACGCACTTAGCACCACATAATCGGGGAATCAG
Found at i:17508815 original size:26 final size:26
Alignment explanation
Indices: 17508785--17508837 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
17508775 ACCACCATAA
*
17508785 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17508811 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17508837 T
1 T
17508838 TTCACATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:17509275 original size:29 final size:29
Alignment explanation
Indices: 17509242--17509305 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17509232 TAATCCACCA
17509242 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17509271 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17509301 CCCAA
1 CCCAA
17509306 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17509279 original size:30 final size:30
Alignment explanation
Indices: 17509249--17509305 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17509239 CCACCCAACT
17509249 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17509278 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17509306 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17510983 original size:27 final size:27
Alignment explanation
Indices: 17510952--17511129 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17510942 TAAATTGTAC
17510952 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17510979 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17511005 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17511033 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17511061 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17511088 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17511115 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17511130 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17511066 original size:82 final size:81
Alignment explanation
Indices: 17510953--17511108 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17510943 AAATTGTACA
* *
17510953 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17511017 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17511034 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17511099 TGCGAGTTGA
65 TGCGAATTGA
17511109 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17511120 original size:82 final size:81
Alignment explanation
Indices: 17510949--17511129 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17510939 GATTAAATTG
* *
17510949 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17511014 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17511030 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17511094 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17511112 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17511130 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17518994 original size:27 final size:27
Alignment explanation
Indices: 17518960--17519133 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
17518950 TAAATTGTAC
17518960 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17518987 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
17519013 ATGCACTAAGAGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17519041 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17519069 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17519096 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17519123 AGCACTGAGTG
1 AGCACTAAGTG
17519134 AGCGGACTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17519101 original size:82 final size:81
Alignment explanation
Indices: 17518961--17519116 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17518951 AAATTGTACA
* *
17518961 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGAGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGAGT
17519026 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
17519042 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGA
*
17519106 GTGCGAGTTGA
64 GTGCGAATTGA
17519117 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGAGT
GCGAATTGACCATGCG
Found at i:17520647 original size:46 final size:44
Alignment explanation
Indices: 17520597--17520772 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 44
17520587 TGGTTGAGCA
17520597 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
17520643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
17520690 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
17520736 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17520773 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:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:17520753 original size:93 final size:93
Alignment explanation
Indices: 17520594--17520764 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
17520584 GGATGGTTGA
* * *
17520594 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
17520659 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
17520687 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
17520752 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17520765 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:17522849 original size:37 final size:37
Alignment explanation
Indices: 17522799--17522877 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17522789 TTATTACGAA
* * *
17522799 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17522836 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17522873 GTCTT
1 GTCTT
17522878 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17523173 original size:49 final size:49
Alignment explanation
Indices: 17522996--17523601 Score: 962
Period size: 49 Copynumber: 12.6 Consensus size: 49
17522986 CCCTTCGGGA
* * * * *
17522996 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17523043 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523090 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17523137 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17523186 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523233 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
17523282 CTTATCATGTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17523331 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523380 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17523427 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17523476 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523525 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523574 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
17523602 ATGGGTTTAG
Statistics
Matches: 523, Mismatches: 28, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 180 0.34
49 342 0.65
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17523189 original size:96 final size:96
Alignment explanation
Indices: 17522996--17523601 Score: 1000
Period size: 96 Copynumber: 6.3 Consensus size: 96
17522986 CCCTTCGGGA
* * * * * * * *
17522996 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACA--TATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
17523059 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17523090 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
*
17523155 ACTTTCACATTCCTCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
17523186 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
17523251 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
17523282 CTTATCATGTATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATAT
1 CTTATCA--CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATAT
*
17523347 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523380 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
*
17523445 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
17523476 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATAT
17523541 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
17523574 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACA--TATATACACTTTCACAT
17523602 ATGGGTTTAG
Statistics
Matches: 483, Mismatches: 21, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
94 47 0.10
96 231 0.48
98 205 0.42
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17523337 original size:194 final size:192
Alignment explanation
Indices: 17522996--17523601 Score: 1000
Period size: 194 Copynumber: 3.1 Consensus size: 192
17522986 CCCTTCGGGA
* * * * * * * *
17522996 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACA--TATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
*
17523059 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACA
* * * *
17523124 TCGGCTATTAGGCCTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
17523186 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
17523251 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATGTATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA--TATATATACACTTTCACATTCATCA
*
17523316 CATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 CATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17523380 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
*
17523445 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CATATATATACACTTTCACATTCATCA
17523510 CATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
17523574 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACA--TATATACACTTTCACAT
17523602 ATGGGTTTAG
Statistics
Matches: 391, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
190 48 0.12
192 45 0.12
194 279 0.71
196 19 0.05
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17528154 original size:97 final size:100
Alignment explanation
Indices: 17527992--17528222 Score: 299
Period size: 97 Copynumber: 2.3 Consensus size: 100
17527982 TGAGGTCGCA
*
17527992 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGT-CAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
17528057 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
65 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * * *
17528093 TGTGTAGTACTAAGT-AGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
* * ** * *
17528155 GCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
66 GCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* *
17528189 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGT-CAGGCTACTACGCGTACC
17528223 AGATAGCTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
96 19 0.17
97 45 0.39
98 16 0.14
99 19 0.17
101 15 0.13
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
TGTGTAGTACTAAGTCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:17528178 original size:49 final size:49
Alignment explanation
Indices: 17527992--17528214 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
17527982 TGAGGTCGCA
* * * * *
17527992 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
17528043 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
17528093 TGTGTAGTACTAAGT--AGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
17528140 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
17528189 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
17528215 TGCGTACCAG
Statistics
Matches: 154, Mismatches: 15, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
47 22 0.14
48 21 0.14
49 56 0.36
50 22 0.14
51 33 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:17531167 original size:15 final size:14
Alignment explanation
Indices: 17531147--17531200 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
17531137 GTATCTTGCA
17531147 TTTCTTTACTCTGGG
1 TTTCTTTA-TCTGGG
*
17531162 TTTCTTTATTCCGGG
1 TTTCTTTA-TCTGGG
* *
17531177 TTTCTCTATCTTGGA
1 TTTCTTTATC-TGGG
17531192 TTTCTTTAT
1 TTTCTTTAT
17531201 TCGGTTTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 2 0.06
15 30 0.94
ACGTcount: A:0.09, C:0.19, G:0.15, T:0.57
Consensus pattern (14 bp):
TTTCTTTATCTGGG
Found at i:17533388 original size:49 final size:50
Alignment explanation
Indices: 17533266--17533403 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 50
17533256 AATGATGACG
* ** *
17533266 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * *
17533316 TGTGTAGTGCTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * *
17533365 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17533404 GCTTTGGCTA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 38 0.51
50 37 0.49
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:17537938 original size:38 final size:38
Alignment explanation
Indices: 17537887--17538417 Score: 338
Period size: 38 Copynumber: 12.9 Consensus size: 38
17537877 TGGAAAAACA
* *
17537887 TGGTGCTAAGTGGATATACCACGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
* * *
17537925 TGGTGCTAAGTGGATATACCACGATTACACA--T-A--
1 TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
* *
17537958 TTGTGCTAAGTGGATATGCCACGGTTAGATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATGCCACGGTT--ATACA-TG------TAACG
** *
17538005 TGGTGCTAAGTGGATATATCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
* * *
17538043 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAATG
1 TGGTGCTAAGTGGATATGCCACG---------GTT-ATACATGTAACG
* * *
17538091 TGATGCTAAGTGTATATGCCACGGTTAGATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATGCCACGGTT--ATACA-TG------TAACG
* *
17538138 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
* *
17538176 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAAG
1 TGGTGCTAAGTGGATATGCCACGGTT--ATACA-TG------TAACG
17538223 TGGTGCTAAGTGGATATGCCACGGTTA-ATCATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATA-CATGTAACG
* *
17538261 TGGTGCTAAGTGGATATGCCGCGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
* *
17538299 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAAG
1 TGGTGCTAAGTGGATATGCCACGGTT--ATACA-TG------TAACG
* *
17538346 TGGTGCTAAGTTGATATGCCACGGTTA-ATCATGTAACA
1 TGGTGCTAAGTGGATATGCCACGGTTATA-CATGTAACG
*
17538384 TGGTGCTAAGTGGATATGCCACGATTATACATGT
1 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
17538418 TAATTTGAAA
Statistics
Matches: 394, Mismatches: 45, Indels: 108
0.72 0.08 0.20
Matches are distributed among these distances:
33 23 0.06
35 4 0.01
36 1 0.00
38 182 0.46
39 4 0.01
40 11 0.03
41 6 0.02
44 11 0.03
45 11 0.03
47 111 0.28
48 30 0.08
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
Found at i:17538077 original size:85 final size:83
Alignment explanation
Indices: 17537920--17538406 Score: 402
Period size: 85 Copynumber: 5.8 Consensus size: 83
17537910 GTTATACGTG
* * * *
17537920 TAACGTGGTGCTAAGTGGATATACCACGATTACACA--T-A--TTGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
17537980 GGTTAGATATATTGATTCAT
66 GGTTA-A-ATATTGATTCAT
** *
17538000 TAACGTGGTGCTAAGTGGATATATCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCAC
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
* *
17538065 GATTACACATATTGATACAT
66 GGTTA-A-ATATTGATTCAT
* * * *
17538085 GTAATGTGATGCTAAGTGTATATGCCACGGTTAGATATATTGATTCATTAACGTGGTGCTAAGTG
1 -TAACGTGGTGCTAAGTGGATATGCCACGGTTA-A-ACA-TG------TAACGTGGTGCTAAGTG
* *
17538150 GATATACCACGGTTAAACA-TG------
56 GATATGCCACGGTTAAATATTGATTCAT
* *
17538171 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAAGTGGTGCTAAGTGG
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTA-A-ACA-TG------TAACGTGGTGCTAAGTGG
17538236 ATATGCCACGG-T---TA---A-TCAT
57 ATATGCCACGGTTAAATATTGATTCAT
*
17538255 GTAACGTGGTGCTAAGTGGATATGCCGCGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCA
1 -TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCA
17538320 CGGTTACATATATTGATTCAT
65 CGGTTA-A-ATATTGATTCAT
* * * *
17538341 TAAAGTGGTGCTAAGTTGATATGCCACGGTTAATCATGTAACATGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
17538406 G
66 G
17538407 ATTATACATG
Statistics
Matches: 344, Mismatches: 32, Indels: 57
0.79 0.07 0.13
Matches are distributed among these distances:
76 28 0.08
77 1 0.00
80 33 0.10
81 1 0.00
82 5 0.01
83 3 0.01
84 2 0.01
85 199 0.58
86 31 0.09
87 1 0.00
88 2 0.01
89 2 0.01
92 2 0.01
93 2 0.01
94 1 0.00
95 31 0.09
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (83 bp):
TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
GGTTAAATATTGATTCAT
Found at i:17538352 original size:123 final size:123
Alignment explanation
Indices: 17538129--17538417 Score: 517
Period size: 123 Copynumber: 2.4 Consensus size: 123
17538119 ATATATTGAT
*
17538129 TCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATAT
1 TCATGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATAT
17538193 GCCACGGTTACATATATTGATTCATTAAAGTGGTGCTAAGTGGATATGCCACGGTTAA
66 GCCACGGTTACATATATTGATTCATTAAAGTGGTGCTAAGTGGATATGCCACGGTTAA
*
17538251 TCATGTAACGTGGTGCTAAGTGGATATGCCGCGGTTAAACATGTAACGTGGTGCTAAGTGGATAT
1 TCATGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATAT
*
17538316 GCCACGGTTACATATATTGATTCATTAAAGTGGTGCTAAGTTGATATGCCACGGTTAA
66 GCCACGGTTACATATATTGATTCATTAAAGTGGTGCTAAGTGGATATGCCACGGTTAA
* * *
17538374 TCATGTAACATGGTGCTAAGTGGATATGCCACGATTATACATGT
1 TCATGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGT
17538418 TAATTTGAAA
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
122 4 0.03
123 155 0.97
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (123 bp):
TCATGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACGTGGTGCTAAGTGGATAT
GCCACGGTTACATATATTGATTCATTAAAGTGGTGCTAAGTGGATATGCCACGGTTAA
Found at i:17544369 original size:46 final size:44
Alignment explanation
Indices: 17544313--17544486 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 44
17544303 AACGCTTAGT
17544313 TGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCTCAAGGC
* * * *
17544359 TGATGCATGTCCCAGACACGTCTTACGCTAGCACTCGTCTCAATGC
1 TGATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCAAGGC
* * *
17544405 CGATTACATGTCCTAGACATGGTCTTACACTGGCTC-TCAT-AATGTGGC
1 TGA-TGCATGTCCCAGACAT-GTCTTACACTGGCTCGTC-TCAA---GGC
* *
17544453 TGATGCATGTCCCAGACATGTCTTCCACTAGCTC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTC
17544487 ATATAAGTGA
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 4 0.04
46 56 0.54
47 30 0.29
48 14 0.13
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
TGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCAAGGC
Found at i:17546739 original size:46 final size:46
Alignment explanation
Indices: 17546686--17546776 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
17546676 TATATATACA
* *
17546686 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
17546732 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
17546777 ATACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:17546819 original size:22 final size:22
Alignment explanation
Indices: 17546793--17546915 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
17546783 TTCCACGTTC
17546793 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
17546815 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
17546839 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
* *
17546862 ATCACATATATG-CATGT-TCGCATT
1 ATCACAT-T-GGCCAT-TCT-GCCTT
*
17546886 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
17546909 ATCACAT
1 ATCACAT
17546916 ATATGCATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 15 0.20
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:17546822 original size:47 final size:46
Alignment explanation
Indices: 17546750--17546987 Score: 271
Period size: 47 Copynumber: 5.1 Consensus size: 46
17546740 ACACGTTTCG
* * * * *
17546750 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TTCCACATTCATCA
* *
17546797 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCAT-TCCACATTCATCA
* *
17546844 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCGCATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCAT-TCCACATTCATCA
*
17546891 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCAT-TCCACATTCATCA
** * * * *
17546938 CATTTTCCATTCAGTCTTATCTCATATATACACATT-CACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATAT--GCATTCCACATTCATCA
17546985 CAT
1 CAT
17546988 AAAATCCTAA
Statistics
Matches: 172, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.01
47 167 0.97
48 1 0.01
49 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (46 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATTCCACATTCATCA
Found at i:17546868 original size:94 final size:93
Alignment explanation
Indices: 17546750--17546987 Score: 318
Period size: 94 Copynumber: 2.5 Consensus size: 93
17546740 ACACGTTTCG
* * *
17546750 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
1 CATTAGCCATTCGGCCTTATCACATATATACACTTCCAC-TTCATCACATTGGCCATTCGGCCTT
17546815 ATCACATATATGCATGTTCACATTCATCA
65 ATCACATATATGCATGTTCACATTCATCA
* * *
17546844 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCGCA-TTCATCACATTGGCCATTCGGCCT
1 CATTAGCCATTCGGCCTTATCACATATATACA-CTTC-CACTTCATCACATTGGCCATTCGGCCT
17546908 TATCACATATATGCATGTTCACATTCATCA
64 TATCACATATATGCATGTTCACATTCATCA
** * * *
17546938 CATTTTCCATTCAGTCTTATCTCATATATACACATT-CACATTCATCACAT
1 CATTAGCCATTCGGCCTTATCACATATATACAC-TTCCAC-TTCATCACAT
17546988 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
92 2 0.02
94 119 0.94
95 3 0.02
96 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (93 bp):
CATTAGCCATTCGGCCTTATCACATATATACACTTCCACTTCATCACATTGGCCATTCGGCCTTA
TCACATATATGCATGTTCACATTCATCA
Found at i:17546890 original size:25 final size:25
Alignment explanation
Indices: 17546815--17546940 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 25
17546805 ATTCTGCCTT
*
17546815 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCGCATTC
* *
17546840 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATATG-CATGTTC-GCATTC
17546862 ATCACATATATGCATGTTCGCATTC
1 ATCACATATATGCATGTTCGCATTC
* *
17546887 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATATG-CATGTTC-GCATTC
*
17546909 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCGCATTC
17546934 ATCACAT
1 ATCACAT
17546941 TTTCCATTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
22 20 0.26
23 15 0.19
24 15 0.19
25 27 0.35
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCATGTTCGCATTC
Found at i:17546988 original size:25 final size:25
Alignment explanation
Indices: 17546909--17546988 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
17546899 ATTCGGCCTT
* **
17546909 ATCACATATATGCATGTTCACATTC
1 ATCACATATATACACATTCACATTC
*
17546934 ATCACAT-T-TTC-CATTCAGTC-TT-
1 ATCACATATATACACATTCA--CATTC
*
17546956 ATCTCATATATACACATTCACATTC
1 ATCACATATATACACATTCACATTC
17546981 ATCACATA
1 ATCACATA
17546989 AAATCCTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 6 0.14
24 6 0.14
25 20 0.48
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:17555270 original size:46 final size:46
Alignment explanation
Indices: 17555183--17555272 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
17555173 ACAACTCTTA
* * * *
17555183 GCCGATGCCTGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTAACCTACGTCTCAAG
17555229 GCCGATGCATGTCCCAGACACGTCTTACACTAACACT-CGTCTCA
1 GCCGATGCATGTCCCAGACACGTCTTACACTAAC-CTACGTCTCA
17555273 GACTAACACT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 38 0.97
47 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.24
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTAACCTACGTCTCAAG
Found at i:17555277 original size:17 final size:17
Alignment explanation
Indices: 17555257--17555289 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17555247 CACGTCTTAC
17555257 ACTAACACTCGTCTCAG
1 ACTAACACTCGTCTCAG
17555274 ACTAACACTCGTCTCA
1 ACTAACACTCGTCTCA
17555290 ATGTCGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.24
Consensus pattern (17 bp):
ACTAACACTCGTCTCAG
Found at i:17562378 original size:26 final size:26
Alignment explanation
Indices: 17562349--17562471 Score: 102
Period size: 26 Copynumber: 4.7 Consensus size: 26
17562339 TTAGTTTACC
* * *
17562349 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTACCAAAATACCCCCATTTATA
*
17562375 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCCC-ATTTATA
* * * *
17562402 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATA-CCCCCATTTATA
* ** *
17562429 AAATTACCGAAATACCGTCAATTATA
1 AAATTACCAAAATACCCCCATTTATA
**
17562455 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
17562472 ATGTAGGATA
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 39 0.50
27 36 0.46
28 3 0.04
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (26 bp):
AAATTACCAAAATACCCCCATTTATA
Found at i:17562393 original size:27 final size:26
Alignment explanation
Indices: 17562349--17562444 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 26
17562339 TTAGTTTACC
* *
17562349 AAATTACTAAAATACCCCC-AGTTGTA
1 AAATTAC-CAAATACCCCCGATTTGTA
*
17562375 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAA-TACCCCCGATTTGTA
* *
17562402 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCCCGATTTGTA
17562429 AAATTACCGAAATACC
1 AAATTACC-AAATACC
17562445 GTCAATTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
25 3 0.05
26 16 0.27
27 35 0.59
28 5 0.08
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGATTTGTA
Found at i:17562498 original size:27 final size:27
Alignment explanation
Indices: 17562456--17562794 Score: 376
Period size: 27 Copynumber: 12.6 Consensus size: 27
17562446 TCAATTATAA
* *
17562456 AATTACTGAAATACCCATGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
17562483 AATTACTAAAAGACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
17562510 AATTA-TCGAAATACCCCTTTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
17562537 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
17562564 AATTACCGAAGTACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
17562591 AATTACTGAAATACACCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * *
17562618 AATTACCAAAATACCCATGTAGGTTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
17562645 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * **
17562672 AATTACCGAAATGCCCCAATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
17562699 AATTACTGAAATACCTCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
17562726 AATTA-TCAAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
17562753 AAATACTGAAATACACCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
17562780 AATTACCGAGATACC
1 AATTACTGAAATACC
17562795 TCGTGCGGTA
Statistics
Matches: 255, Mismatches: 53, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
26 2 0.01
27 251 0.98
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:17562521 original size:54 final size:54
Alignment explanation
Indices: 17562456--17562794 Score: 428
Period size: 54 Copynumber: 6.3 Consensus size: 54
17562446 TCAATTATAA
* * * * *
17562456 AATTACTGAAATACCCATGTAGGATAGAATTACTAAAAGACCCCTATAAGGTAG
1 AATTACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
17562510 AATTATCGAAATACCCCTTTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * *
17562564 AATTACCGAAGTACCCCTATAGGGTAGAATTACTGAAATACACCTGTAAGGTAG
1 AATTACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
17562618 AATTACCAAAATACCCATGTAGGTTAGAATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
17562672 AATTACCGAAATGCCCCA-ATAGGGTAGAATTACTGAAATACCTCTATAGGGTAG
1 AATTACCGAAAT-ACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * * *
17562726 AATTATCAAAATACCCTTGTAGGGTAGAAATACTGAAATACACCTGTAGGGTAG
1 AATTACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
*
17562780 AATTACCGAGATACC
1 AATTACCGAAATACC
17562795 TCGTGCGGTA
Statistics
Matches: 246, Mismatches: 37, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.01
54 239 0.97
55 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:17564403 original size:18 final size:18
Alignment explanation
Indices: 17564380--17564434 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
17564370 CTTGGCCCAT
*
17564380 TGCAGTAACAATAAACAG
1 TGCAGTAACAGTAAACAG
*
17564398 TGCAGTAATAGTAAACAG
1 TGCAGTAACAGTAAACAG
**
17564416 TATAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
17564434 T
1 T
17564435 ATGCAAGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:17564822 original size:27 final size:27
Alignment explanation
Indices: 17564783--17564855 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
17564773 CAACAAATAG
* *
17564783 GGGCAAAATAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCACATAA
17564810 GGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
17564837 GGGCAAGACAGTCCTTTTA
1 GGGCAAAACAGTCATTTTA
17564856 TCAATTAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:17573638 original size:40 final size:40
Alignment explanation
Indices: 17573564--17573780 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
17573554 AACCCAAGTA
* *
17573564 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
17573603 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
17573643 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
17573682 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
17573722 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
17573761 CCTTC-GGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
17573781 GTCATCCGAA
Statistics
Matches: 168, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 15 0.09
39 58 0.35
40 94 0.56
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:17573695 original size:79 final size:79
Alignment explanation
Indices: 17573564--17573780 Score: 341
Period size: 79 Copynumber: 2.8 Consensus size: 79
17573554 AACCCAAGTA
* *
17573564 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCA-AAATGCCTTCGGGACTTAGCCCGGATATA
17573627 GTCACTAGCACAAATG
64 GTCACTAGCACAAATG
17573643 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
17573708 CACTAGCACAACTG
66 CACTAGCACAAATG
* **
17573722 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACCATGCCTTC-GGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAAAATGCCTTCGGGACTTAGCCCGGAT
17573781 GTCATCCGAA
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
78 15 0.12
79 98 0.75
80 14 0.11
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:17582150 original size:39 final size:40
Alignment explanation
Indices: 17582040--17582254 Score: 327
Period size: 39 Copynumber: 5.5 Consensus size: 40
17582030 AACCCAAGTA
* *
17582040 CCTT-GGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
17582078 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
17582118 CCTTCGGGACTTAGCCC-GATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
17582157 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA--
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
17582195 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
17582234 CCTTCAGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
17582255 TATCCGAATA
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
37 1 0.01
38 39 0.24
39 66 0.40
40 58 0.35
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:17582180 original size:79 final size:77
Alignment explanation
Indices: 17582039--17582254 Score: 321
Period size: 79 Copynumber: 2.8 Consensus size: 77
17582029 AAACCCAAGT
* * *
17582039 ACCTT-GGGATTTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 ACCTTCGGGACTTAGCCCGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
17582102 GTCACTAGCACAA
65 GTCACTAGCACAA
17582115 ATGCCTTCGGGACTTAGCCCGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 A--CCTTCGGGACTTAGCCCGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
17582180 AGTCACTAGCACAA
64 AGTCACTAGCACAA
* * *
17582194 ACCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATGCCTTCAGGACTTAGCCCGGAT
1 ACCTTCGGGACTTAGCCC-GATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGAT
17582255 TATCCGAATA
Statistics
Matches: 129, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
76 1 0.01
77 40 0.31
78 20 0.16
79 65 0.50
80 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (77 bp):
ACCTTCGGGACTTAGCCCGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAA
Found at i:17599099 original size:21 final size:21
Alignment explanation
Indices: 17599073--17599134 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
17599063 TGGTATTTGG
17599073 GAATTGGTACGAAATGGTATA
1 GAATTGGTACGAAATGGTATA
* *
17599094 GAATTGGTATGAAATGGTATG
1 GAATTGGTACGAAATGGTATA
* *
17599115 GTATTTGGTACGAATTGGTA
1 G-AATTGGTACGAAATGGTA
17599135 ATGGTTCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (21 bp):
GAATTGGTACGAAATGGTATA
Found at i:17609465 original size:6 final size:6
Alignment explanation
Indices: 17609447--17609546 Score: 98
Period size: 6 Copynumber: 16.3 Consensus size: 6
17609437 AAGAAACATT
*
17609447 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
17609494 GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
17609545 AT
1 AT
17609547 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.05
6 66 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:17609505 original size:31 final size:31
Alignment explanation
Indices: 17609447--17609546 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 31
17609437 AAGAAACATT
17609447 ATCAGAA-CTAGAATCA-G-AATCAGAATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGAATCAGA
* *
17609477 ATCAGAATCAGAATTAGGTGACAGAATCAGA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
* *
17609508 ATCAGAATCAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
17609539 ATCAGAAT
1 ATCAGAAT
17609547 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
30 13 0.21
31 47 0.77
32 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGGTAACAGAATCAGA
Found at i:17610005 original size:27 final size:27
Alignment explanation
Indices: 17609948--17610330 Score: 538
Period size: 27 Copynumber: 14.3 Consensus size: 27
17609938 GGGGAAAAAT
* * * *
17609948 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
17609974 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
17610001 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
17610028 GGTATTTCTACCCTACAAGGGTATGTC
1 GGTAATTCTACCCTACAGGGGTATTTC
17610055 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
17610082 AATAATTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
17610108 AAGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
17610136 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
17610163 GGTAATTATACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
17610190 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
17610217 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
17610244 GGTAATTCTACCC-ACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
17610270 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
17610297 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
17610324 GGTAATT
1 GGTAATT
17610331 TATTTCGGTA
Statistics
Matches: 320, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
26 41 0.13
27 276 0.86
28 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:17610336 original size:13 final size:13
Alignment explanation
Indices: 17610318--17610343 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17610308 CCTACAGGGG
17610318 TATTTCGGTAATT
1 TATTTCGGTAATT
17610331 TATTTCGGTAATT
1 TATTTCGGTAATT
17610344 CTACCCTACA
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:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TATTTCGGTAATT
Found at i:17610369 original size:27 final size:27
Alignment explanation
Indices: 17610331--17610563 Score: 340
Period size: 27 Copynumber: 8.6 Consensus size: 27
17610321 TTCGGTAATT
*
17610331 TATTTCGGTAATTCTACCCTACAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
*
17610358 TATTCCAGTAATTCTACCCTACAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
* *
17610385 TATTGCGATAATTCTACCCTACAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
* * *
17610412 TATTTCAGTAATTCTACCCTACCGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
*
17610439 TATTCCGGTAATTCTACCCTATAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
* *
17610466 TATTTCGGTAATTCTACCCTATAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
* *
17610493 TATTGCGATAATTCTACCCTACAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
*
17610520 TATTTCGGTAATTCTACCCTACAGGGG
1 TATTCCGGTAATTCTACCCTACAGGGG
*
17610547 TATTCTGGTAATTCTAC
1 TATTCCGGTAATTCTAC
17610564 AAATTGAGGA
Statistics
Matches: 185, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 185 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TATTCCGGTAATTCTACCCTACAGGGG
Found at i:17610372 original size:67 final size:67
Alignment explanation
Indices: 17610264--17610397 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
17610254 CCCACAGGGG
* * *
17610264 TATTTCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAA
1 TATTTCGATAATTCTACCCTACAGGGGTATTCCGATAATTCTACCCTACAGGGGTATTGCGATAA
17610329 TT
66 TT
*
17610331 TATTTCGGTAATTCTACCCTACAGGGGTATTCC-AGTAATTCTACCCTACAGGGGTATTGCGATA
1 TATTTCGATAATTCTACCCTACAGGGGTATTCCGA-TAATTCTACCCTACAGGGGTATTGCGATA
17610395 ATT
65 ATT
17610398 CTACCCTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 1 0.02
67 61 0.98
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (67 bp):
TATTTCGATAATTCTACCCTACAGGGGTATTCCGATAATTCTACCCTACAGGGGTATTGCGATAA
TT
Found at i:17610628 original size:27 final size:26
Alignment explanation
Indices: 17610544--17610641 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 26
17610534 TACCCTACAG
*
17610544 GGGTATTCTGGTAATTCTACAAATTGA
1 GGGTATT-TGGTAATTTTACAAATTGA
** * * *
17610571 GGAAATTTGGGTAATTTTATAAATCGG
1 GGGTATTT-GGTAATTTTACAAATTGA
*
17610598 GGGTACTTTGGTAATTTTACAAGTTGA
1 GGGTA-TTTGGTAATTTTACAAATTGA
*
17610625 GGGTATTTCAGTAATTT
1 GGGTATTT-GGTAATTT
17610642 GGTAAACTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
26 4 0.07
27 48 0.87
28 3 0.05
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTACAAATTGA
Found at i:17611914 original size:24 final size:26
Alignment explanation
Indices: 17611877--17611936 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 26
17611867 CAGGGAATGC
* *
17611877 TATGTGGAGGAAATCAAGAAGAGGA-
1 TATGGGGAGAAAATCAAGAAGAGGAT
*
17611902 T-TGGGGAGAAAATCAAGGAGAGGAT
1 TATGGGGAGAAAATCAAGAAGAGGAT
17611927 TATGGGGAGA
1 TATGGGGAGA
17611937 TTTTAGGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 20 0.67
25 2 0.07
26 8 0.27
ACGTcount: A:0.40, C:0.03, G:0.40, T:0.17
Consensus pattern (26 bp):
TATGGGGAGAAAATCAAGAAGAGGAT
Found at i:17613418 original size:27 final size:27
Alignment explanation
Indices: 17613369--17613438 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
17613359 CCCCAAAGTA
***
17613369 GGTAAAATGACTAAAATACCCCTAAAG
1 GGTAAAATGACTATTTTACCCCTAAAG
* **
17613396 GGTAAAATGACTATTTTATCCCTCGAG
1 GGTAAAATGACTATTTTACCCCTAAAG
17613423 GGTAAAA-GACTGATTT
1 GGTAAAATGACT-ATTT
17613439 GTGTTATGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACTATTTTACCCCTAAAG
Found at i:17616669 original size:24 final size:24
Alignment explanation
Indices: 17616642--17616690 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
17616632 AGCACCAGTT
17616642 TTGTTCGTGAAAAAGAAAGATGGG
1 TTGTTCGTGAAAAAGAAAGATGGG
* *
17616666 TTGTTCGTGAAGAAGAAGGATGGG
1 TTGTTCGTGAAAAAGAAAGATGGG
17616690 T
1 T
17616691 CTATGTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (24 bp):
TTGTTCGTGAAAAAGAAAGATGGG
Found at i:17620990 original size:24 final size:24
Alignment explanation
Indices: 17620927--17620990 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
17620917 TCTTTTTCAA
17620927 TTTTCTTTTT-CTTCTCACATTCT
1 TTTTCTTTTTCCTTCTCACATTCT
** * * *
17620950 TTTTCACTCTCCATCTC-GATCTCT
1 TTTTCTTTTTCCTTCTCACAT-TCT
17620974 TTTTCTTTTTCCTTCTC
1 TTTTCTTTTTCCTTCTC
17620991 TTTTTCTGTT
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTCTTTTTCCTTCTCACATTCT
Found at i:17620992 original size:18 final size:19
Alignment explanation
Indices: 17620969--17621057 Score: 94
Period size: 18 Copynumber: 4.7 Consensus size: 19
17620959 TCCATCTCGA
17620969 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
*
17620987 TCTCTTTTTCTGTTTCACT
1 TCTCTTTTTCTTTTTCACT
* *
17621006 T-TCTTTTTCTTTTTAAAT
1 TCTCTTTTTCTTTTTCACT
*
17621024 T-TCATTTTTCTTTTTCTCAT
1 TCTC-TTTTTCTTTTTCAC-T
17621044 TCTCTTTTTGCTTT
1 TCTCTTTTT-CTTT
17621058 CTTTCACACT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
18 32 0.54
19 14 0.24
20 7 0.12
21 6 0.10
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:17621037 original size:5 final size:6
Alignment explanation
Indices: 17620971--17621040 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
17620961 CATCTCGATC
* * * **
17620971 TCTTTT TCTTTT TCCTTC TCTTTT TCTGTT TCACTT TCTTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
***
17621019 TAAATT TCATTTT TCTTTT TCT
1 TCTTTT TC-TTTT TCTTTT TCT
17621041 CATTCTCTTT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
6 44 0.92
7 4 0.08
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:17623536 original size:10 final size:10
Alignment explanation
Indices: 17623521--17623567 Score: 85
Period size: 10 Copynumber: 4.7 Consensus size: 10
17623511 TCTAGAAGGA
17623521 AGCTCAAACG
1 AGCTCAAACG
17623531 AGCTCAAACG
1 AGCTCAAACG
17623541 AGCTCAAACG
1 AGCTCAAACG
*
17623551 AGCTCAAACA
1 AGCTCAAACG
17623561 AGCTCAA
1 AGCTCAA
17623568 GTGAGCTAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 36 1.00
ACGTcount: A:0.43, C:0.30, G:0.17, T:0.11
Consensus pattern (10 bp):
AGCTCAAACG
Found at i:17627151 original size:26 final size:26
Alignment explanation
Indices: 17627122--17627174 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
17627112 GTTGCATTAC
17627122 TATTACTGGCAGCTCTACTGCGATAT
1 TATTACTGGCAGCTCTACTGCGATAT
* *
17627148 TATTACTGGCAGCTTTATTGCGATAT
1 TATTACTGGCAGCTCTACTGCGATAT
17627174 T
1 T
17627175 GGTGTGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (26 bp):
TATTACTGGCAGCTCTACTGCGATAT
Found at i:17631125 original size:15 final size:15
Alignment explanation
Indices: 17631093--17631121 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17631083 ATTTTCTATG
17631093 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
17631108 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
17631122 ATTTTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:17636097 original size:20 final size:21
Alignment explanation
Indices: 17636072--17636110 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17636062 TCGAATGTAC
17636072 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
17636092 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
17636111 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:17636348 original size:43 final size:42
Alignment explanation
Indices: 17636301--17636424 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 42
17636291 TCCTAGACGT
*
17636301 GGTCTTACATGCTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACG-TATCACATATCGATGCCACTGTCCCAGACAG
* * * * *
17636344 GGTCTTACACGAATCAAATAT-GATGTCGA-TGTCCCAAACAT
1 GGTCTTACACGTATCACATATCGATG-CCACTGTCCCAGACAG
*
17636385 GGTCTTACACGTAATCACATCTCGATGCCAAC-GTCCCAGA
1 GGTCTTACACGT-ATCACATATCGATGCC-ACTGTCCCAGA
17636425 TGTGGTCTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
41 25 0.38
42 18 0.28
43 22 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTATCACATATCGATGCCACTGTCCCAGACAG
Found at i:17636431 original size:43 final size:43
Alignment explanation
Indices: 17636282--17636434 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
17636272 ATATCGTACA
* *
17636282 ATGCCAACGTCCTAGACGTGGTCTTACATGCT-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
*
17636325 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * * * * *
17636366 ATGTCGATGTCCCAAACATGGTCTTACACGTAATCACATCTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
17636409 ATGCCAACGTCCCAGATGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
17636435 TAGGAGAACA
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
41 24 0.27
42 19 0.22
43 44 0.50
44 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:17640348 original size:13 final size:13
Alignment explanation
Indices: 17640330--17640356 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17640320 ATCGTATGAC
17640330 TATATCATCATCA
1 TATATCATCATCA
17640343 TATATCATCATCA
1 TATATCATCATCA
17640356 T
1 T
17640357 TATGTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATCATCATCA
Found at i:17642036 original size:27 final size:27
Alignment explanation
Indices: 17642006--17642057 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
17641996 AAAGTACTCC
* *
17642006 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
*
17642033 CGATTTACAGAATTACCATTTTACC
1 CGATTTACAAAATTACCATTTTACC
17642058 ATTGATTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
CGATTTACAAAATTACCATTTTACCCT
Done.