Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 34 of 54
Found at i:13854715 original size:20 final size:20
Alignment explanation
Indices: 13854690--13854727 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13854680 TTTAACATTA
13854690 TTTATTAAT-TTGATATAATC
1 TTTATTAATATT-ATATAATC
13854710 TTTATTAATATTATATAA
1 TTTATTAATATTATATAA
13854728 GTTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTATTAATATTATATAATC
Found at i:13854771 original size:18 final size:17
Alignment explanation
Indices: 13854744--13854782 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13854734 ATTTTTTATG
*
13854744 AATATTATTAAGGACTT
1 AATATTATTAAAGACTT
*
13854761 AATATTTATTAAAGATTT
1 AATA-TTATTAAAGACTT
13854779 AATA
1 AATA
13854783 ATTTTATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
AATATTATTAAAGACTT
Found at i:13858808 original size:15 final size:15
Alignment explanation
Indices: 13858788--13858817 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13858778 CCATCTAGTA
13858788 TTACACTCCATACAT
1 TTACACTCCATACAT
*
13858803 TTACACTCCTTACAT
1 TTACACTCCATACAT
13858818 CCAAATGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (15 bp):
TTACACTCCATACAT
Found at i:13864116 original size:20 final size:20
Alignment explanation
Indices: 13864091--13864137 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
13864081 AAATAGTGAG
* *
13864091 CAAGCCAACCCGTGCACCAT
1 CAAGCCAACCCATACACCAT
*
13864111 CAAGCCAACCCATACACTAT
1 CAAGCCAACCCATACACCAT
13864131 CAAGCCA
1 CAAGCCA
13864138 GCTTGCACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.43, G:0.11, T:0.11
Consensus pattern (20 bp):
CAAGCCAACCCATACACCAT
Found at i:13867923 original size:25 final size:26
Alignment explanation
Indices: 13867895--13867968 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 26
13867885 CCAAAACATC
13867895 CAAAATGTGGTGAGGCACGTAAG-CT
1 CAAAATGTGGTGAGGCACGTAAGTCT
* ** * *
13867920 CAAAATGTTGCAAGGCACGT-GGTTT
1 CAAAATGTGGTGAGGCACGTAAGTCT
* *
13867945 CAAAACGTGGTGAGACACGTAAGT
1 CAAAATGTGGTGAGGCACGTAAGT
13867969 TTAAAACATG
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (26 bp):
CAAAATGTGGTGAGGCACGTAAGTCT
Found at i:13888989 original size:17 final size:17
Alignment explanation
Indices: 13888963--13888996 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13888953 ATTTTCAAAT
*
13888963 TGTTTACAAATCTGCTA
1 TGTTTACAAATATGCTA
*
13888980 TGTTTGCAAATATGCTA
1 TGTTTACAAATATGCTA
13888997 CTATGTACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (17 bp):
TGTTTACAAATATGCTA
Found at i:13889310 original size:80 final size:80
Alignment explanation
Indices: 13889189--13889496 Score: 437
Period size: 80 Copynumber: 3.9 Consensus size: 80
13889179 ATATTGTAAC
* * * *
13889189 ATGTATGCGATGAGATGTATGTGTTAAGTATA-TCATGTACACTATGCGCTAAGCATGCAAGTGA
1 ATGTATGCGATGAGATGTATGTGTTGAG-ATAGTCATATACACTATGGGCTAAGCATGTAAGTGA
13889253 TTTATGAGGTTATGAA
65 TTTATGAGGTTATGAA
* *
13889269 TTGTATGTC-ATGAGATGTATGTGTTGAGATAGTCATATACACTATGAGCTAAGCATGTAAGTGA
1 ATGTATG-CGATGAGATGTATGTGTTGAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGA
13889333 TTTATGAGGTTATGAA
65 TTTATGAGGTTATGAA
* * * *
13889349 ATGTATGCCATGAGATGTATGTGTTGAGATAGTCACAAACACTATGGGCTAATCATGTAAGTGAT
1 ATGTATGCGATGAGATGTATGTGTTGAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGAT
13889414 TTATGAGGTTATGAA
66 TTATGAGGTTATGAA
* * *
13889429 ATGTCTGCTATGAGATG--TGTGTTGAGATAGTCATATACACTATGGGCTAAGTATGATAA-TGA
1 ATGTATGCGATGAGATGTATGTGTTGAGATAGTCATATACACTATGGGCTAAGCATG-TAAGTGA
13889491 TTTATG
65 TTTATG
13889497 GAAATGTTAT
Statistics
Matches: 208, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
78 43 0.21
79 7 0.03
80 157 0.75
81 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (80 bp):
ATGTATGCGATGAGATGTATGTGTTGAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGAT
TTATGAGGTTATGAA
Found at i:13897063 original size:19 final size:19
Alignment explanation
Indices: 13897039--13897075 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13897029 TGCCAAACCT
*
13897039 TCAAATTATACTCCAATAC
1 TCAAATCATACTCCAATAC
13897058 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
13897076 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:13900906 original size:15 final size:15
Alignment explanation
Indices: 13900886--13900931 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
13900876 TTCTTAAAAC
13900886 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
13900901 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
13900916 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
13900931 A
1 A
13900932 TCTCTGATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:13903607 original size:19 final size:19
Alignment explanation
Indices: 13903583--13903620 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13903573 CTGCCAAACC
*
13903583 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13903602 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13903621 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13913071 original size:16 final size:16
Alignment explanation
Indices: 13913047--13913081 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13913037 AAATTATAAA
*
13913047 TAAATTATTAATATTT
1 TAAAATATTAATATTT
*
13913063 TAAAATATTAATGTTT
1 TAAAATATTAATATTT
13913079 TAA
1 TAA
13913082 TTATTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:13913195 original size:22 final size:22
Alignment explanation
Indices: 13913155--13913215 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
13913145 TTGTAATACC
* *
13913155 TTAATAATAAATTATTTAAAATA
1 TTAAT-ATAAAATAATTAAAATA
13913178 TTAATATAAAATAATTAAAATA
1 TTAATATAAAATAATTAAAATA
* *
13913200 ATAA-A-ATAATAATTAA
1 TTAATATAAAATAATTAA
13913216 TGGGCTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 1 0.03
22 18 0.53
23 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAATATAAAATAATTAAAATA
Found at i:13913507 original size:19 final size:18
Alignment explanation
Indices: 13913483--13913534 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
13913473 CTCTTGCTTT
13913483 TTTTATATCTTAAATTTAC
1 TTTTATAT-TTAAATTTAC
***
13913502 TTTTATGATTTTTTTTTAC
1 TTTTAT-ATTTAAATTTAC
13913521 TTTTATATATTAAA
1 TTTTATAT-TTAAA
13913535 AACTATGGAG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATATTTAAATTTAC
Found at i:13916117 original size:366 final size:366
Alignment explanation
Indices: 13914800--13917663 Score: 2195
Period size: 366 Copynumber: 7.8 Consensus size: 366
13914790 TGAGCGAATG
* * * * * *
13914800 TGTCACAGTCCTTGCATGGACGTGAATCCCACATCATAGAGATAATGCTCCCAACGGGTGAGCCA
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCCAGCGAGTGAGCCA
* * * * *
13914865 CAAAGTCCCACGTCAAAAAGAAACTCCTAGTGGGGAGTAAGGGTGGATGTCATGGTCCTAGAGAG
66 CAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGAG
* * * ** *
13914930 GGGAGCCATGAAACCTACATTGGTTATGTACTAGAGTGATACTAGGATTAT-AAGGATTCACACC
131 GGGAGCCATGAATCCCACATTGGCTATGTACTAGAAAGATACTAGGAATATAAAGG-TTCACACC
* * * * *
13914994 ACCTCTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAAGCCAGCGGTCCAAAGTGGACAA
195 ACCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGATAA
* * * *
13915059 TACCTCACAGGGGTT-GTGTGGACCGTGACAATTGGTATCAGAGTGGACTTTGA-GTACTAGCAA
260 TACCTCACAAGGGTTGGTGTGGACTGTGACAATTGGTATCAGAGTGGACTCT-ATGTACTAACAA
* * * * * * *
13915122 TGTGCCATTAAAGATAATGGACCTTTGTTGAAGTGGGGAAGGA
324 TGTGCCACTAAGGACAATGGACCCTTGTTGAAGTAGGAAAAGA
* * * * * *
13915165 TGCCATGGTTCTTGCGTGGATGTGAATCTCACATCATACAGATAATG-GTCCTAGCGAGTGAGCC
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCC-AGCGAGTGAGCC
* * * * * * * * *
13915229 ACAAAATCCCACATTGGAGAGAAACTTCTAGCGGGGAGTACGGATGGATGTCATGGTCCTAGAGA
65 ACAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGA
* * * * ** * * *
13915294 AGGAAGCCATGAATCTCACATTGGCAATGTACTAGAGTGATATTGGGAATATAAGGGTTCACACC
130 GGGGAGCCATGAATCCCACATTGGCTATGTACTAGAAAGATACTAGGAATATAAAGGTTCACACC
* * * ** **
13915359 ACCTCTAACTTGTGAGGCACCTTTTATGGGACAAAACCGTGAGGTCAATGGGCCAAAGCAAATAA
195 ACCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGATAA
* ** * * * * * *
13915424 TATCTCAC-AGAGGTAAGTGTGGACTGTGACAACTGATATTAGAGTGGACTTTAAGTACTAGCAA
260 TACCTCACAAG-GGTTGGTGTGGACTGTGACAATTGGTATCAGAGTGGACTCTATGTACTAACAA
* * **
13915488 TGTGCCACTGAA-GATAATGGACCCTTGTTGAAGTGGGGGAA-A
324 TGTGCCACT-AAGGACAATGGACCCTTGTTGAAGTAGGAAAAGA
* * * * * * * * * *
13915530 TGTCACGATCCCTGCATGGACGTGAATCCCATACCATAGTGATAATGCTCCCAGCAAGTGAGCCT
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCCAGCGAGTGAGCCA
* ** * ** * * * * * * *
13915595 TACGGTCCCATATTAAAAAAAAAAACTCACAGCAAGGACTAAGGGTGGATGTCATGATCCTAAAA
66 CAAAGTCCCACA-T-CGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAG
* * * * * *
13915660 AAGAGAGCCATGAATCCCATATTGGCAATGTACTA-AAGTGATACT-GAGAATATAAAGATTCAC
129 AGGGGAGCCATGAATCCCACATTGGCTATGTACTAGAA-AGATACTAG-GAATATAAAGGTTCAC
* * * * * * * *
13915723 ACCACCTTTAACCTGTGATG-AGCCTTTTGTGAGACAAAATCGTGAGCCCAGCAGACTAAAGCGG
192 ACCACCTTTAACTTGTGAGGCA-CCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGG
* ** * * * * *
13915787 ATAATATCTCACAAATGTTGTTGTGGACTGTGACCATTGGTATCAGAATGGGCTCTATGTATTAA
256 ATAATACCTCACAAGGGTTGGTGTGGACTGTGACAATTGGTATCAGAGTGGACTCTATGTACTAA
*
13915852 CAATGTGCCACTAAGGACATTGGACCCTTGTTGAAGTAGGAAAAGA
321 CAATGTGCCACTAAGGACAATGGACCCTTGTTGAAGTAGGAAAAGA
* * * * * *
13915898 TGTTACGGTCCTTGTGTGGATGAGAATCCCACATCGTAGAGATAATGCTTTCAACGAGTGAGCCA
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCCAGCGAGTGAGCCA
* * * *
13915963 CAAAGTCCCACATCGAAAAGAAAGTCCCAGCAAGGAGTAAGGGTCGATGTCATGGTCCTATAGAG
66 CAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGAG
* ** * *
13916028 GGGAGCCAAGAATCCCACATTGATTATGTAGTAGAAAGATACTAGGAATATAAAGGTTTACACCA
131 GGGAGCCATGAATCCCACATTGGCTATGTACTAGAAAGATACTAGGAATATAAAGGTTCACACCA
* * * * * * *
13916093 CCTTTAACCTGTAAGGCACCTTTTGTGGGACAAAATCATGAGGTCTGCGGGCCAAAACGGATAAT
196 CCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGATAAT
* * * * * * *
13916158 ATCTCATAAGGGGTTGGTGT-GAATCATGACAATTAGTATTAGAGCGGA-T-TATGAGTACTAAC
261 ACCTCACAA-GGGTTGGTGTGGACT-GTGACAATTGGTATCAGAGTGGACTCTAT--GTACTAAC
* * * *
13916220 AATGTGCCACTGAGGACAGTGGACCCTTGTTGAAGTAAGAAAGGA
322 AATGTGCCACTAAGGACAATGGACCCTTGTTGAAGTAGGAAAAGA
* * * * * * * *
13916265 TGTCACGATCCTCGCGTGGATGCGAATCCTATATCATAGATACAATGC-TCC--CAAGTGAGCCA
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCCAGCGAGTGAGCCA
* * ** * *
13916327 TAAAGTCTCACATCGAATTGAAACTCCCAACGAGGAGTAAGGGTGGATGTCATGGTCTTAGAGAG
66 CAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGAG
* * * * * * *
13916392 AGGAGCTATGAATCCCACATTGGCTACGTA-TAAAAATGATA-TTGGAAATATAAGGGTTTAC-C
131 GGGAGCCATGAATCCCACATTGGCTATGTACTAGAAA-GATACTAGG-AATATAAAGGTTCACAC
** * * * * * *
13916454 CTACCTTTAACTTGTGAGGTGCCTTTTGTGGTATAAAACCGTGAAGCTAGCGGGCCAAAGCGAAC
194 C-ACCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGAT
* * * * * *
13916519 AATACCTCACAAGGGTTGGTGTGGACTGAGACAATTGGTATCAGAGCGAACTTTAGGTACTAGCA
258 AATACCTCACAAGGGTTGGTGTGGACTGTGACAATTGGTATCAGAGTGGACTCTATGTACTAACA
* * * * * *
13916584 ATGTACCACTGAGGACAGTGAACCCTTGTTAAAGTA-AAAAAGGA
323 ATGTGCCACTAAGGACAATGGACCCTTGTTGAAGTAGGAAAA-GA
* ** ** *** * * * *
13916628 TATCATAGTCCTTATGTGGATGTGAATTTGACATCATAAAGATAATGC-TCTTAGCGTGTGAGCT
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTC-CAGCGAGTGAGCC
* * * * * * ** * ** * *
13916692 AGAAAGTCTCATATTGAAGAGAAATTTTCAGCAAAAAGTAAGAGTGGATGTCATGGTCTTAGAGA
65 ACAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGA
* * * **
13916757 GGGAAGCCATGAATCCCACATTGACTATGTATTA-AAATGATACTTCGAATATAAAGGTTCACAC
130 GGGGAGCCATGAATCCCACATTGGCTATGTACTAGAAA-GATACTAGGAATATAAAGGTTCACAC
* ** * * * * * * * ***
13916821 TATATTTAACCTATGAGGCACCTTTTATGGGGCAAAACCATGAGGCCAACAGGCCAAAATAGATA
194 CACCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGATA
* * * * *
13916886 ATACCTCATAAAGGTTGGTGT-GAATCGTGACAATTGGTATTAAAGTGGACTCTGTGTATTAGCA
259 ATACCTCACAAGGGTTGGTGTGGACT-GTGACAATTGGTATCAGAGTGGACTC-------T----
* * * * * **
13916950 ATGTGCCGTTGAGGGCATGCAATATGCCACTAAGGACAATCGACCCTTATTGAAGTGGGGGAAGA
312 ATGT-AC--T-A----A--CAATGTGCCACTAAGGACAATGGACCCTTGTTGAAGTAGGAAAAGA
* * * * * * *
13917015 TGCCACGGTCCTCGCGTGGACGTGAATCCCACATCATAGTGATAATGC-TCATAGTGGGTGAGCC
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTC-CAGCGAGTGAGCC
** * ** *
13917079 ACAAAGTTTCACATCGAAGAGAAACTCTTAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAAAGA
65 ACAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGA
** * * *
13917144 GGAAAGCCATGAATCCCACATCGACTATGTACTAGAGTA-ATACT-GAGAATATAAAGGTTCACA
130 GGGGAGCCATGAATCCCACATTGGCTATGTACTAGA-AAGATACTAG-GAATATAAAGGTTCACA
* ** * * * * * *
13917207 CCACCTTTAACTTGTGAGGTACCTTTTGTAAGATAAAATCGTGAGGCTAACGAGCCAAAGCGAAT
193 CCACCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGAT
* * * * * *
13917272 AATACCTCATAGGGGTTGGTGTGGACTGTGACAATTGATATCATAGCGGACTCTAAGTACTAACA
258 AATACCTCACAAGGGTTGGTGTGGACTGTGACAATTGGTATCAGAGTGGACTCTATGTACTAACA
* * * * * * *
13917337 ATGTGCCACTGAGGATAGTAGACCCATGTTGATGTGAGG-AAGGA
323 ATGTGCCACTAAGGACAATGGACCCTTGTTGAAGT-AGGAAAAGA
* * * ** * *
13917381 TGTCACAGTCCTCGTGTGGACATGAATCCCACATCATAAAGATAATAC-TCCTAGCGAGTGAGCC
1 TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCC-AGCGAGTGAGCC
** * * * * * *
13917445 ACAAAGTGGCACAT-TAAAGATAAACTCTCAGCGGGGAGTAAGAGTGGATGTCATGGTCCTAAAG
65 ACAAAGTCCCACATCGAAA-AGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAG
* ** ** *
13917509 AAGGGAGCCACAAATCCCACATTGGCTATGTACTAGAGTGATACTAGGAATATAAGGGTTCACAC
129 AGGGGAGCCATGAATCCCACATTGGCTATGTACTAGAAAGATACTAGGAATATAAAGGTTCACAC
* * * ** * *
13917574 CACCTTTAACTTGTGAGGCACCTTTTGTGGGATAAAATCTTGAGGTTAGCGTGCCAAAGCGGACA
194 CACCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGATA
* *
13917639 ATACCTTATAAGGGTTGGTGTGGAC
259 ATACCTCACAAGGGTTGGTGTGGAC
13917664 CATGGCAATT
Statistics
Matches: 1969, Mismatches: 463, Indels: 133
0.77 0.18 0.05
Matches are distributed among these distances:
362 3 0.00
363 116 0.06
364 172 0.09
365 284 0.14
366 702 0.36
367 341 0.17
368 60 0.03
372 1 0.00
373 2 0.00
375 1 0.00
376 3 0.00
377 3 0.00
378 1 0.00
380 2 0.00
381 1 0.00
387 270 0.14
388 6 0.00
389 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (366 bp):
TGTCACGGTCCTTGCGTGGATGTGAATCCCACATCATAGAGATAATGCTTCCAGCGAGTGAGCCA
CAAAGTCCCACATCGAAAAGAAACTCCCAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAGAGAG
GGGAGCCATGAATCCCACATTGGCTATGTACTAGAAAGATACTAGGAATATAAAGGTTCACACCA
CCTTTAACTTGTGAGGCACCTTTTGTGGGACAAAACCGTGAGGCCAGCGGGCCAAAGCGGATAAT
ACCTCACAAGGGTTGGTGTGGACTGTGACAATTGGTATCAGAGTGGACTCTATGTACTAACAATG
TGCCACTAAGGACAATGGACCCTTGTTGAAGTAGGAAAAGA
Found at i:13916744 original size:730 final size:726
Alignment explanation
Indices: 13914816--13917660 Score: 2489
Period size: 730 Copynumber: 3.9 Consensus size: 726
13914806 AGTCCTTGCA
* * * * * *
13914816 TGGACGTGAATCCCACATCATAGAGATAATGCTCCCAACGGGTGAGCCACAAAGTCCCACGTCAA
1 TGGACGTGAATCCCATATCATAGTGATAATGCTCCCAA---GTGAGCCATAAAGTCTCACATCGA
* * * *
13914881 AAAGAAACTC-CTAGTGGGGAGTAAGGGTGGATGTCATGGTCCTAGAGAGGGGAGCCATGAAACC
63 AAAGAAACTCAC-AGCGAGGAGTAAGGGTGGATGTCATGGTCCTA-AGAGAGGAGCCATGAATCC
* * * * * *
13914945 TACATTGGTTATGTACTAGAGTGATACT-AGGATTATAAGGATTCACACCACCTCTAACTTGTGA
126 CACATTGGCTATGTACTAAAGTGATACTGA-GAATATAAAGATTCACACCACCTTTAACTTGTGA
* * * * *
13915009 GGCACCTTTTGTGGGACAAAACCGTGAAGCCAGCGGTCCAAAGTGGACAATACCTCACAGGGGTT
190 GGTACCTTTTGT-GGACAAAACCGTGAAGCCAGCGGGCCAAAGCGAACAATACCTCACAAGGGTT
* * * * * * *
13915074 -GTGTGGACCGTGACAATTGGTATCAGAGTGGACT-TTGAGTACTAGCAATGTGCCATTAAAGAT
254 GGTGTGGACTGTGACAATTGGTATCAGAGCGGACTCTAG-GTACTAACAATGTGCCACTAAGGAC
* * * **** * ** * * *
13915137 AATGGACCTTTGTTGAAGTGGGGAAGGATGCCATGGTTCTTGCGTGGATGTGAATCTCACATCAT
318 AGTGAACCCTTGTTGAAGTAAAAAAGGATGTCACAGTCCTTGTGTGGATGTGAATCCCACATCAT
* * * * **
13915202 ACAGATAATGGTCCTAGCGAGTGAGCCACAAAATCCCACATTGGAGAGAAA-CTTCTAGCGGGGA
383 AAAGATAATGCTCCTAGCGAGTGAGCCACAAAGTCCCACATTGAAGAGAAATC-TC-AGCAAGGA
* * * * *
13915266 GTACG-GATGGATGTCATGGTCCTAGAGAAGGAAGCCATGAATCTCACATTGGCAATGTACTAGA
446 GTAAGAG-TGGATGTCATGGTCCTAGAGAAGGAAGCCAAGAATCCCACATTGACTATGTACTAGA
** * * * * *
13915330 GTGATATTGGGAATATAAGGGTTCACACCACCTCTAACTTGTGAGGCACCTTTTATGGGACAAAA
510 AAGATACTAGGAATATAAAGGTTCACACCACCTTTAACCTGTGAGGCACCTTTTATGGGACAAAA
* * * * * * * ** * *
13915395 CCGTGAGGTCAATGGGCCAAAGCAAATAATATCTCACAGAGGTAAGTGTGGA-CTGTGACAACTG
575 CCATGAGGTCAACGGGCCAAAACAGATAATACCTCATAAAGGTTGGTGTGAATC-GTGACAATTG
* * * *
13915459 ATATTAGAGTGGACTT-TAAGTACTAGCAATGTGCCACTGAAGATAATGGACCCTTGTTGAAGTG
639 -TATTAGAGTGGACTTATGAGTACTAACAATGTGCCACTGAGGACAATGGACCCTTGTTGAAGTG
*
13915523 GGGGAA-ATGTCACGATCC-CTGCA
703 GGGGAAGATGTCACGATCCTC-GCG
* * ** * * *
13915546 TGGACGTGAATCCCATACCATAGTGATAATGCTCCCAGCAAGTGAGCCTTACGGTCCCATATTAA
1 TGGACGTGAATCCCATATCATAGTGATAATGCT-CC--CAAGTGAGCCATAAAGTCTCACA-T-C
* * * * * * *
13915611 AAAAAAAAACTCACAGCAAGGACTAAGGGTGGATGTCATGATCCTAAAAAAGAGAGCCATGAATC
61 GAAAAGAAACTCACAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAAGAGAG-GAGCCATGAATC
* * *
13915676 CCATATTGGCAATGTACTAAAGTGATACTGAGAATATAAAGATTCACACCACCTTTAACCTGTGA
125 CCACATTGGCTATGTACTAAAGTGATACTGAGAATATAAAGATTCACACCACCTTTAACTTGTGA
* * * * * * * * **
13915741 TG-AGCCTTTTGTGAGACAAAATCGTG-AGCCCAGCAGACTAAAGCGGATAATATCTCACAAATG
190 GGTA-CCTTTTGTG-GACAAAACCGTGAAG-CCAGCGGGCCAAAGCGAACAATACCTCACAAGGG
* * ** * * *
13915804 TTGTTGTGGACTGTGACCATTGGTATCAGAATGGGCTCTATGTATTAACAATGTGCCACTAAGGA
252 TTGGTGTGGACTGTGACAATTGGTATCAGAGCGGACTCTAGGTACTAACAATGTGCCACTAAGGA
* * * * * *
13915869 CATTGGACCCTTGTTGAAGTAGGAAAA-GATGTTACGGTCCTTGTGTGGATGAGAATCCCACATC
317 CAGTGAACCCTTGTTGAAGTA-AAAAAGGATGTCACAGTCCTTGTGTGGATGTGAATCCCACATC
* * * * * * *
13915933 GTAGAGATAATGCT-TTCAACGAGTGAGCCACAAAGTCCCACATCGAAAAGAAAGTCCCAGCAAG
381 ATAAAGATAATGCTCCT-AGCGAGTGAGCCACAAAGTCCCACATTGAAGAGAAA-TCTCAGCAAG
* * * * * * *
13915997 GAGTAAGGGTCGATGTCATGGTCCTATAGAGGGGAGCCAAGAATCCCACATTGATTATGTAGTAG
444 GAGTAAGAGTGGATGTCATGGTCCTAGAGAAGGAAGCCAAGAATCCCACATTGACTATGTACTAG
* * *
13916062 AAAGATACTAGGAATATAAAGGTTTACACCACCTTTAACCTGTAAGGCACCTTTTGTGGGACAAA
509 AAAGATACTAGGAATATAAAGGTTCACACCACCTTTAACCTGTGAGGCACCTTTTATGGGACAAA
* ** * * * *
13916127 ATCATGAGGTCTGCGGGCCAAAACGGATAATATCTCATAAGGGGTTGGTGTGAATCATGACAATT
574 ACCATGAGGTCAACGGGCCAAAACAGATAATACCTCATAA-AGGTTGGTGTGAATCGTGACAATT
* *
13916192 AGTATTAGAGCGGA-TTATGAGTACTAACAATGTGCCACTGAGGACAGTGGACCCTTGTTGAAGT
638 -GTATTAGAGTGGACTTATGAGTACTAACAATGTGCCACTGAGGACAATGGACCCTTGTTGAAGT
** *
13916256 -AAGAAAGGATGTCACGATCCTCGCG
702 GGGGGAA-GATGTCACGATCCTCGCG
* * * * *
13916281 TGGATGCGAATCCTATATCATAGAT-ACAATGCTCCCAAGTGAGCCATAAAGTCTCACATCGAAT
1 TGGACGTGAATCCCATATCATAG-TGATAATGCTCCCAAGTGAGCCATAAAGTCTCACATCGAAA
* * * * *
13916345 TGAAACTCCCAACGAGGAGTAAGGGTGGATGTCATGGTCTTAGAGAGAGGAGCTATGAATCCCAC
65 AGAAACTCACAGCGAGGAGTAAGGGTGGATGTCATGGTCCTA-AGAGAGGAGCCATGAATCCCAC
* * * * * *
13916410 ATTGGCTACGTA-TAAAAATGATATTG-GAAATATAAGGGTTTAC-CCTACCTTTAACTTGTGAG
129 ATTGGCTATGTACT-AAAGTGATACTGAG-AATATAAAGATTCACACC-ACCTTTAACTTGTGAG
* * *
13916472 GTGCCTTTTGTGGTATAAAACCGTGAAGCTAGCGGGCCAAAGCGAACAATACCTCACAAGGGTTG
191 GTACCTTTTGTGG-ACAAAACCGTGAAGCCAGCGGGCCAAAGCGAACAATACCTCACAAGGGTTG
* * * * * *
13916537 GTGTGGACTGAGACAATTGGTATCAGAGCGAACTTTAGGTACTAGCAATGTACCACTGAGGACAG
255 GTGTGGACTGTGACAATTGGTATCAGAGCGGACTCTAGGTACTAACAATGTGCCACTAAGGACAG
* * * * ***
13916602 TGAACCCTTGTTAAAGTAAAAAAGGATATCATAGTCCTTATGTGGATGTGAATTTGACATCATAA
320 TGAACCCTTGTTGAAGTAAAAAAGGATGTCACAGTCCTTGTGTGGATGTGAATCCCACATCATAA
* * * * * * * **
13916667 AGATAATGCTCTTAGCGTGTGAGCTAGAAAGTCTCATATTGAAGAGAAATTTTCAGCAAAAAGTA
385 AGATAATGCTCCTAGCGAGTGAGCCACAAAGTCCCACATTGAAGAGAAA-TCTCAGCAAGGAGTA
* * * *
13916732 AGAGTGGATGTCATGGTCTTAGAGAGGGAAGCCATGAATCCCACATTGACTATGTATTA-AAATG
449 AGAGTGGATGTCATGGTCCTAGAGAAGGAAGCCAAGAATCCCACATTGACTATGTACTAGAAA-G
** * ** * *
13916796 ATACTTCGAATATAAAGGTTCACACTATATTTAACCTATGAGGCACCTTTTATGGGGCAAAACCA
513 ATACTAGGAATATAAAGGTTCACACCACCTTTAACCTGTGAGGCACCTTTTATGGGACAAAACCA
* * *
13916861 TGAGGCCAACAGGCCAAAATAGATAATACCTCATAAAGGTTGGTGTGAATCGTGACAATTGGTAT
578 TGAGGTCAACGGGCCAAAACAGATAATACCTCATAAAGGTTGGTGTGAATCGTGACAATT-GTAT
* * * * *
13916926 TAAAGTGGACTCTGTGTATTAGCAATGTGCCGTTGAGGGCATGCAATATGCCACTAAGGACAATC
642 TAGAGTGGA--C--T-TA-T-G--A-GT-AC--T-A----A--CAATGTGCCACTGAGGACAATG
* * *
13916991 GACCCTTATTGAAGTGGGGGAAGATGCCACGGTCCTCGCG
687 GACCCTTGTTGAAGTGGGGGAAGATGTCACGATCCTCGCG
* ** * * *
13917031 TGGACGTGAATCCCACATCATAGTGATAATGCTCATAGTGGGTGAGCCACAAAGTTTCACATCGA
1 TGGACGTGAATCCCATATCATAGTGATAATGCTCCCA---AGTGAGCCATAAAGTCTCACATCGA
* **
13917096 AGAGAAACTCTTAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAA-AGAGGAAAGCCATGAATCC
63 AAAGAAACTCACAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAAGAGAGG--AGCCATGAATCC
* * * * *
13917160 CACATCGACTATGTACTAGAGTAATACTGAGAATATAAAGGTTCACACCACCTTTAACTTGTGAG
126 CACATTGGCTATGTACTAAAGTGATACTGAGAATATAAAGATTCACACCACCTTTAACTTGTGAG
* * * * * * * * * *
13917225 GTACCTTTTGTAAGATAAAATCGTGAGGCTAACGAGCCAAAGCGAATAATACCTCATAGGGGTTG
191 GTACCTTTTGT-GGACAAAACCGTGAAGCCAGCGGGCCAAAGCGAACAATACCTCACAAGGGTTG
* * * * *
13917290 GTGTGGACTGTGACAATTGATATCATAGCGGACTCTAAGTACTAACAATGTGCCACTGAGGATAG
255 GTGTGGACTGTGACAATTGGTATCAGAGCGGACTCTAGGTACTAACAATGTGCCACTAAGGACAG
* * * ** * **
13917355 T-AGACCCATGTTGATGTGAGGAAGGATGTCACAGTCCTCGTGTGGACATGAATCCCACATCATA
320 TGA-ACCCTTGTTGAAGTAAAAAAGGATGTCACAGTCCTTGTGTGGATGTGAATCCCACATCATA
* ** * * **
13917419 AAGATAATACTCCTAGCGAGTGAGCCACAAAGTGGCACATTAAAGATAAACTCTCAGCGGGGAGT
384 AAGATAATGCTCCTAGCGAGTGAGCCACAAAGTCCCACATTGAAGAGAAA-TCTCAGCAAGGAGT
* * * **
13917484 AAGAGTGGATGTCATGGTCCTAAAGAAGGGAGCCACA-AATCCCACATTGGCTATGTACTAGAGT
448 AAGAGTGGATGTCATGGTCCTAGAGAAGGAAGCCA-AGAATCCCACATTGACTATGTACTAGAAA
* * * * *
13917548 GATACTAGGAATATAAGGGTTCACACCACCTTTAACTTGTGAGGCACCTTTTGTGGGATAAAATC
512 GATACTAGGAATATAAAGGTTCACACCACCTTTAACCTGTGAGGCACCTTTTATGGGACAAAACC
* * * * * * * * *
13917613 TTGAGGTTAGCGTGCCAAAGCGGACAATACCTTATAAGGGTTGGTGTG
577 ATGAGGTCAACGGGCCAAAACAGATAATACCTCATAAAGGTTGGTGTG
13917661 GACCATGGCA
Statistics
Matches: 1684, Mismatches: 360, Indels: 119
0.78 0.17 0.06
Matches are distributed among these distances:
729 45 0.03
730 468 0.28
731 19 0.01
732 169 0.10
733 289 0.17
734 78 0.05
735 45 0.03
736 3 0.00
737 1 0.00
739 1 0.00
740 2 0.00
741 1 0.00
743 1 0.00
744 1 0.00
748 1 0.00
749 1 0.00
750 76 0.05
751 8 0.00
752 2 0.00
753 467 0.28
754 6 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (726 bp):
TGGACGTGAATCCCATATCATAGTGATAATGCTCCCAAGTGAGCCATAAAGTCTCACATCGAAAA
GAAACTCACAGCGAGGAGTAAGGGTGGATGTCATGGTCCTAAGAGAGGAGCCATGAATCCCACAT
TGGCTATGTACTAAAGTGATACTGAGAATATAAAGATTCACACCACCTTTAACTTGTGAGGTACC
TTTTGTGGACAAAACCGTGAAGCCAGCGGGCCAAAGCGAACAATACCTCACAAGGGTTGGTGTGG
ACTGTGACAATTGGTATCAGAGCGGACTCTAGGTACTAACAATGTGCCACTAAGGACAGTGAACC
CTTGTTGAAGTAAAAAAGGATGTCACAGTCCTTGTGTGGATGTGAATCCCACATCATAAAGATAA
TGCTCCTAGCGAGTGAGCCACAAAGTCCCACATTGAAGAGAAATCTCAGCAAGGAGTAAGAGTGG
ATGTCATGGTCCTAGAGAAGGAAGCCAAGAATCCCACATTGACTATGTACTAGAAAGATACTAGG
AATATAAAGGTTCACACCACCTTTAACCTGTGAGGCACCTTTTATGGGACAAAACCATGAGGTCA
ACGGGCCAAAACAGATAATACCTCATAAAGGTTGGTGTGAATCGTGACAATTGTATTAGAGTGGA
CTTATGAGTACTAACAATGTGCCACTGAGGACAATGGACCCTTGTTGAAGTGGGGGAAGATGTCA
CGATCCTCGCG
Found at i:13918264 original size:295 final size:292
Alignment explanation
Indices: 13917379--13918232 Score: 992
Period size: 295 Copynumber: 2.9 Consensus size: 292
13917369 TGTGAGGAAG
* *
13917379 GATGTCACAGTCCTCGTGTGGACATGAATCCCACATCATAAAGATAATACTCCTAGCGAGTGAGC
1 GATGTCACA-TCCTCGCGTGGACATGAATCCCACATCATAAAGATAATACTCCTAACGAGTGAGC
** * * * ** * * *
13917444 CACAAAGTGGCACATTAAAGATAAACTCTCAGCGGGGAGTAAGAGTGGATGTCATGGTCCTAAAG
65 CACAAAGTCTCACATTGAAGAAAAACTCTCAACAAGGAGTATGGGTGGATGTCATGGTCCTAGAG
* * *
13917509 AAGGGAGCCACAAATCCCACATTGGCTATGTACTAGAGTGATACTAGGAATATAAGGGTTCACAC
130 -AGGGAGCCA-TAATCCCACATTAGCTATGTACTAGAGTGATACTGGGAATATAAGGGTTCACAC
* * * * *
13917574 CACCTTTAACTTGTGAGGCACCTTTTGTGGGATAAAATCTTGAGGTTAGCGTGCCAAAGCGGACA
193 CACCTTTAACTTGTGAGGCGCCTTTTGTGGAATAAAATCGTGAGGTCAGCGTGCCAAAGCGAACA
* * * *
13917639 ATACCTTATAAGGGTTGGTGTGGACCATGGCAATT
258 ATACCTTATAGGGGTTGGTGTGGATCGTGACAATT
* * * * *
13917674 GATGTCACGGTCCTCGCGTGGACATAAATCCCACATTATAAAGATAATGCTCCTAACGGGTGAGC
1 GATGTCAC-ATCCTCGCGTGGACATGAATCCCACATCATAAAGATAATACTCCTAACGAGTGAGC
* * * * * ** *
13917739 CACAAAATTTCACATCGAAGAGAAGCTCTCAACAAGGAGTATGGGTGGATGTCATGGTATTAGAA
65 CACAAAGTCTCACATTGAAGAAAAACTCTCAACAAGGAGTATGGGTGGATGTCATGGTCCTAGAG
* *
13917804 AGGGGAGCCATGAATCCCACATTAGCTATGTACTAAAGTGATATTGGGAATATAAGGGTTCACAC
130 A-GGGAGCCAT-AATCCCACATTAGCTATGTACTAGAGTGATACTGGGAATATAAGGGTTCACAC
* * * * * * **
13917869 CACCTTTAACTTGTGAGGTGCCTTTCGTGGCACAAAACCGTGAGGCCAGCGTGCCAAATTGAACA
193 CACCTTTAACTTGTGAGGCGCCTTTTGTGGAATAAAATCGTGAGGTCAGCGTGCCAAAGCGAACA
13917934 ATACCTTATAGGGGTTGGTGTGGATCGTGACAATT
258 ATACCTTATAGGGGTTGGTGTGGATCGTGACAATT
* * * *
13917969 GATGTCACTATCCTTGCGTGGACGTGAATCCCACATCATAGAA-ATAATACTCGC-AACAAGTGG
1 GATGTCAC-ATCCTCGCGTGGACATGAATCCCACATCATA-AAGATAATACTC-CTAACGAGTGA
*
13918032 GCCACAAAGTCTCACATTGAAGAAAAACTCTCAACAAGGAGTATGGGTAGATGTCATGGTCCTAG
63 GCCACAAAGTCTCACATTGAAGAAAAACTCTCAACAAGGAGTATGGGTGGATGTCATGGTCCTAG
* * * * *
13918097 AGAGGAAAGCCATATATCTCACATTAGTTATGTATTAGAGTGATAGTGGGAATATAAGGGTTCAC
128 AGAGG-GAGCCATA-ATCCCACATTAGCTATGTACTAGAGTGATACTGGGAATATAAGGGTTCAC
* * * * * * * * *
13918162 ACAACCTTTAACTTATAAAGCGCCTTTTGTGAAATAAAATCGTGACGTCAGCGGGCTAAAGCAAA
191 ACCACCTTTAACTTGTGAGGCGCCTTTTGTGGAATAAAATCGTGAGGTCAGCGTGCCAAAGCGAA
*
13918227 TAATAC
256 CAATAC
13918233 ATCACGGGGA
Statistics
Matches: 465, Mismatches: 87, Indels: 14
0.82 0.15 0.02
Matches are distributed among these distances:
294 4 0.01
295 458 0.98
296 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (292 bp):
GATGTCACATCCTCGCGTGGACATGAATCCCACATCATAAAGATAATACTCCTAACGAGTGAGCC
ACAAAGTCTCACATTGAAGAAAAACTCTCAACAAGGAGTATGGGTGGATGTCATGGTCCTAGAGA
GGGAGCCATAATCCCACATTAGCTATGTACTAGAGTGATACTGGGAATATAAGGGTTCACACCAC
CTTTAACTTGTGAGGCGCCTTTTGTGGAATAAAATCGTGAGGTCAGCGTGCCAAAGCGAACAATA
CCTTATAGGGGTTGGTGTGGATCGTGACAATT
Found at i:13918671 original size:366 final size:365
Alignment explanation
Indices: 13917992--13918798 Score: 831
Period size: 366 Copynumber: 2.2 Consensus size: 365
13917982 TTGCGTGGAC
* * * * ** * *
13917992 GTGAATCCCACATCATAGAAATAATACTCGCAACAAGTGGGCCACAAAGTCTCACATTGAAGAAA
1 GTGAATCCTACATCATAAAAATAATGCTCCCAACGGGTGAGCCACAAAGTCTCACATTGAAGAGA
* * *
13918057 AACTCTCAACAAGGAGTATGGGTAGATGTCATGGTCCTAGAGAGGAAAGCCATATATCTCACATT
66 AACTCTCAACAAGGAGTATGGGTAGATATCATGGTCCAAGAGAGGAAAGCCATATATCCCACATT
* *
13918122 AGTTATGTATTAGAGTGATAGTGGGAATATAAGGGTTCACACAACCTTTAACTTATAAAGCGCCT
131 AGTAATGTATTAGAGTGATAGTGGGAATATAAGGGTTCACACAACCTTTAACTTATAAAGCCCCT
* * **
13918187 TTTGTGAAATAAAATCGTGACGTCAGCGGGCTAAAGCAAATAATACATCACGGGGATTATTGTGA
196 TTTGTGAAACAAAATCGTGACGTCAGCGGGCTAAAGCAAACAATACATCAAAGGGATTATTGTGA
*** * * * * *
13918252 ATTGTGACAATTGGTATCAGAGCGAACTCTAAGTACTTGCAACGTACCACTAAGGATAGTGGACC
261 ACCATGACAATTGGTATCAAAGAGAACTCTAAGTACTAGCAACGTACCACTAAGGACAGTAGACC
* *
13918317 CTTGTTGAAATAAGGGAGGATGTCACGATCCT-CATCCGGAT
326 CTTGTTGAAATAAGGGAGGATATCACGATCCTCCAT--GAAT
* * * ** *
13918358 GTGAAT-TTCATATCATAAAAATAATGCTCTCAGTGGGTGAGCCACAAAGTCTCACATTGAATAG
1 GTGAATCCT-ACATCATAAAAATAATGCTCCCAACGGGTGAGCCACAAAGTCTCACATTGAAGAG
* ** * *
13918422 AAACTCAT-AGCGCGGAGTAAT-GGTGGATATCATGGTCCAAGAGAAGG-GAGCCATGA-ATCCC
65 AAACTC-TCAACAAGGAGT-ATGGGTAGATATCATGGTCCAAGAG-AGGAAAGCCAT-ATATCCC
* * * * * *
13918483 ACATTGGTAATGTATTAGAGTGATAGTGGGAATATAAGGGTTTACACCACCTTTAACTTGTGAGG
126 ACATTAGTAATGTATTAGAGTGATAGTGGGAATATAAGGGTTCACACAACCTTTAACTTATAAAG
* * * * ** ** *
13918548 CCCCTTTT-TTAGGACAAAATTGTGAGGTCAGTTGGCTAAAGCTGACAATACCTCATAAGGG-TT
191 CCCCTTTTGTGA-AACAAAATCGTGACGTCAGCGGGCTAAAGCAAACAATACATCA-AAGGGATT
* * * * * *
13918611 GTTGTGGACCATGACAATTGTTATCAAAGTAG-ACTTTAAGTACTAGCAATGTGCCACTAAGGAC
254 ATTGTGAACCATGACAATTGGTATCAAAG-AGAACTCTAAGTACTAGCAACGTACCACTAAGGAC
* ** *
13918675 AGTAGACCCTTGTTGAAGTGGGGGAGGATATCACGGTCCTCGCATGAAT
318 AGTAGACCCTTGTTGAAATAAGGGAGGATATCACGATCCTC-CATGAAT
* * * * *
13918724 GTGAATCCTACATCATAAAGATAATGCTCCCAACGTGTGAGCCACAAAATCCCACATTAAAGAGA
1 GTGAATCCTACATCATAAAAATAATGCTCCCAACGGGTGAGCCACAAAGTCTCACATTGAAGAGA
*
13918789 AACTCCCAAC
66 AACTCTCAAC
13918799 GGAGAGTAAG
Statistics
Matches: 354, Mismatches: 75, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
365 2 0.01
366 337 0.95
367 12 0.03
368 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (365 bp):
GTGAATCCTACATCATAAAAATAATGCTCCCAACGGGTGAGCCACAAAGTCTCACATTGAAGAGA
AACTCTCAACAAGGAGTATGGGTAGATATCATGGTCCAAGAGAGGAAAGCCATATATCCCACATT
AGTAATGTATTAGAGTGATAGTGGGAATATAAGGGTTCACACAACCTTTAACTTATAAAGCCCCT
TTTGTGAAACAAAATCGTGACGTCAGCGGGCTAAAGCAAACAATACATCAAAGGGATTATTGTGA
ACCATGACAATTGGTATCAAAGAGAACTCTAAGTACTAGCAACGTACCACTAAGGACAGTAGACC
CTTGTTGAAATAAGGGAGGATATCACGATCCTCCATGAAT
Found at i:13927891 original size:18 final size:18
Alignment explanation
Indices: 13927870--13927907 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13927860 CCTGCCAACC
*
13927870 TTCCTTCTCTTTTTTC-CT
1 TTCCTT-TCTTCTTTCTCT
13927888 TTCCTTTCTTCTTTCTCT
1 TTCCTTTCTTCTTTCTCT
13927906 TT
1 TT
13927908 TTCTAGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCCTTTCTTCTTTCTCT
Found at i:13928019 original size:35 final size:35
Alignment explanation
Indices: 13927949--13928022 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
13927939 TTCAACCCAA
* * * *
13927949 AAAAATCAGCAGCCAAAGGTGTTAATTTTAGCCTC
1 AAAAATCAGCAACCAAAGCTGTTAATTTCACCCTC
13927984 AAAAATCAGCAACCAAAGCTGCTT-ATTTCACCCTC
1 AAAAATCAGCAACCAAAGCTG-TTAATTTCACCCTC
13928019 AAAA
1 AAAA
13928023 CTAGCAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (35 bp):
AAAAATCAGCAACCAAAGCTGTTAATTTCACCCTC
Found at i:13929216 original size:15 final size:17
Alignment explanation
Indices: 13929183--13929218 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13929173 ATTTTAATAT
13929183 TATTTTATTCATAAAAA
1 TATTTTATTCATAAAAA
13929200 TATTTTATTC-T-AAAA
1 TATTTTATTCATAAAAA
13929215 TATT
1 TATT
13929219 CTTCTCGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 1 0.05
17 10 0.53
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTTATTCATAAAAA
Found at i:13936847 original size:23 final size:23
Alignment explanation
Indices: 13936821--13936868 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
13936811 CATTGCATGT
13936821 CCGTTAACACTTTAGCTCACTGA
1 CCGTTAACACTTTAGCTCACTGA
13936844 CCGTTAACACTTTAGCTCACTGA
1 CCGTTAACACTTTAGCTCACTGA
13936867 CC
1 CC
13936869 TCTTTGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.29
Consensus pattern (23 bp):
CCGTTAACACTTTAGCTCACTGA
Found at i:13943077 original size:15 final size:15
Alignment explanation
Indices: 13943057--13943098 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
13943047 TAAAACAACC
13943057 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
13943072 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
13943087 TTAAAATCAAAA
1 TTAAAATCAAAA
13943099 TATCTGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:13944507 original size:13 final size:13
Alignment explanation
Indices: 13944489--13944513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13944479 TTCCAAAAAA
13944489 TTTATAAAATCAT
1 TTTATAAAATCAT
13944502 TTTATAAAATCA
1 TTTATAAAATCA
13944514 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13950783 original size:34 final size:34
Alignment explanation
Indices: 13950745--13950828 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
13950735 TTCAACCCAA
* * *
13950745 AAAAATAACAGCCAAAGGTG-TTAATTTCAGCCTC
1 AAAAATAGCAGCCAAAGCTGCTT-ATTTCACCCTC
*
13950779 AAAAATTAGTAGCCAAAGCTGCTTATTTCACCCTC
1 AAAAA-TAGCAGCCAAAGCTGCTTATTTCACCCTC
*
13950814 AAAACTAGCAGCCAA
1 AAAAATAGCAGCCAA
13950829 CACCTCAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
34 14 0.33
35 26 0.62
36 2 0.05
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (34 bp):
AAAAATAGCAGCCAAAGCTGCTTATTTCACCCTC
Found at i:13951977 original size:30 final size:30
Alignment explanation
Indices: 13951941--13952010 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
13951931 AATAAAATAT
*
13951941 TAATATTTTAATATTATTTTATTCATAAAA
1 TAATATTTTAATATTATCTTATTCATAAAA
13951971 TAATATTTTAATATTATCTTATTCATAAAA
1 TAATATTTTAATATTATCTTATTCATAAAA
13952001 TAATATTTTA
1 TAATATTTTA
13952011 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TAATATTTTAATATTATCTTATTCATAAAA
Found at i:13953452 original size:2 final size:2
Alignment explanation
Indices: 13953447--13953479 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13953437 TTTTTTACTA
13953447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13953480 ATTAACGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13955447 original size:19 final size:18
Alignment explanation
Indices: 13955420--13955468 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
13955410 TAGCTGGTTC
*
13955420 TTTTTTCTTTTTTATTTTA
1 TTTTATCTTTTTTA-TTTA
*
13955439 TTTTATCTTATTTATTTA
1 TTTTATCTTTTTTATTTA
13955457 TTGTTAT-TTTTT
1 TT-TTATCTTTTT
13955469 ATATCATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATCTTTTTTATTTA
Found at i:13964061 original size:26 final size:27
Alignment explanation
Indices: 13964016--13964088 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 27
13964006 GAAATTAAGA
* * *
13964016 TACTTACATCTTAAAAAAATTTTC-GC
1 TACTTACATCTTATAGAAATTTTCAAC
*
13964042 TACTTACATGTTATAGAAA--TTCAAC
1 TACTTACATCTTATAGAAATTTTCAAC
* *
13964067 TACTTAAATTTTATAGAAATTT
1 TACTTACATCTTATAGAAATTT
13964089 GGCAGCTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 3 0.08
25 18 0.47
26 16 0.42
27 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (27 bp):
TACTTACATCTTATAGAAATTTTCAAC
Found at i:13966355 original size:19 final size:19
Alignment explanation
Indices: 13966319--13966356 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13966309 CCATTTGACT
* *
13966319 TATTGGAGTATGATTTGAG
1 TATTGGAGTAAGAGTTGAG
13966338 TATTGGAGTAAGAGTTGAG
1 TATTGGAGTAAGAGTTGAG
13966357 GTTAAGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (19 bp):
TATTGGAGTAAGAGTTGAG
Found at i:13966436 original size:28 final size:28
Alignment explanation
Indices: 13966411--13966478 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
13966401 AGGTAAAATG
13966411 GTAATTTTGCCACTCTAGGGGCAAAACA
1 GTAATTTTGCCACTCTAGGGGCAAAACA
* *
13966439 ATAATTTTGCCACTCTAGGGGTAAAACA
1 GTAATTTTGCCACTCTAGGGGCAAAACA
13966467 GTAATTTT-CCAC
1 GTAATTTTGCCAC
13966479 CACCAGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 4 0.11
28 33 0.89
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (28 bp):
GTAATTTTGCCACTCTAGGGGCAAAACA
Found at i:13982441 original size:28 final size:29
Alignment explanation
Indices: 13982400--13982459 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13982390 GTCTATGGGC
* *
13982400 AATTTTTCAGTTTT-TGGGGTAAAAATGT
1 AATTTTTCACTTTTAGGGGGTAAAAATGT
* *
13982428 AATTTTTGACTTTTACGGGGGTAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGTAAAAATGT
13982458 AA
1 AA
13982460 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGTAAAAATGT
Found at i:13984917 original size:19 final size:19
Alignment explanation
Indices: 13984877--13984918 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13984867 AGGCCTAAGG
* *
13984877 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
13984896 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
13984915 AATA
1 AATA
13984919 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:13985916 original size:2 final size:2
Alignment explanation
Indices: 13985903--13985939 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
13985893 TATTGGTGGT
*
13985903 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13985940 TATTTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13985946 original size:4 final size:4
Alignment explanation
Indices: 13985939--13985964 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13985929 TATATATATA
13985939 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
13985965 GTATGAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:13986265 original size:2 final size:2
Alignment explanation
Indices: 13986258--13986292 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13986248 ATTCTAAAGC
13986258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13986293 AATGATCGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13995535 original size:21 final size:20
Alignment explanation
Indices: 13995495--13995549 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
13995485 TGATATATGG
13995495 AATTGAATTAATTAATTTAA
1 AATTGAATTAATTAATTTAA
* *
13995515 AATTGAATATGATTCATTT-A
1 AATTGAAT-TAATTAATTTAA
*
13995535 AATT-AATCAATTAAT
1 AATTGAATTAATTAAT
13995550 AAAATTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.17
19 3 0.10
20 13 0.45
21 8 0.28
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (20 bp):
AATTGAATTAATTAATTTAA
Found at i:13996967 original size:2 final size:2
Alignment explanation
Indices: 13996960--13997039 Score: 70
Period size: 2 Copynumber: 39.0 Consensus size: 2
13996950 TCCCTTTTAA
* * * *
13996960 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT AGT TT CT TT CT TT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT CT CT CT CT CT
* * * *
13997003 ACT TT TT TT NT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 -CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13997040 AGTTTCTTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
2 64 0.97
3 2 0.03
ACGTcount: A:0.03, C:0.39, G:0.01, T:0.56
Consensus pattern (2 bp):
CT
Found at i:13997018 original size:50 final size:50
Alignment explanation
Indices: 13996963--13997059 Score: 178
Period size: 50 Copynumber: 1.9 Consensus size: 50
13996953 CTTTTAACTC
13996963 TCTCTCTCTCTCTCTCTCTCTCTCTCTAGTTTCTTTC-TTTACTTTTTTT
1 TCTCTCTCTCTCTCTCTCTCTCTCTCTAGTTTCTTTCTTTTACTTTTTTT
13997012 NTCTCTCTCTCTCTCTCTCTCTCTCTCTAGTTTCTTTCTTTTACTTTT
1 -TCTCTCTCTCTCTCTCTCTCTCTCTCTAGTTTCTTTCTTTTACTTTT
13997060 GGTTAGTGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 37 0.80
51 9 0.20
ACGTcount: A:0.04, C:0.33, G:0.02, T:0.60
Consensus pattern (50 bp):
TCTCTCTCTCTCTCTCTCTCTCTCTCTAGTTTCTTTCTTTTACTTTTTTT
Found at i:13999692 original size:12 final size:12
Alignment explanation
Indices: 13999671--13999719 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
13999661 AGAACAAACG
* *
13999671 CAGCAGCAGCAT
1 CAGCATCAGCAA
13999683 CAGCATCAGCAA
1 CAGCATCAGCAA
13999695 CAGCAT---CAA
1 CAGCATCAGCAA
*
13999704 CAGCATCAACAA
1 CAGCATCAGCAA
13999716 CAGC
1 CAGC
13999720 CTGTAATGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 9 0.28
12 23 0.72
ACGTcount: A:0.41, C:0.35, G:0.16, T:0.08
Consensus pattern (12 bp):
CAGCATCAGCAA
Found at i:14006349 original size:31 final size:31
Alignment explanation
Indices: 14006311--14006371 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14006301 AGCTCTATTC
14006311 AATTTAATCCATGTACTGTAAAATTTTGTTT
1 AATTTAATCCATGTACTGTAAAATTTTGTTT
* * *
14006342 AATTTAATTCATGTACTTTACAATTTTGTT
1 AATTTAATCCATGTACTGTAAAATTTTGTT
14006372 CATTTTAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (31 bp):
AATTTAATCCATGTACTGTAAAATTTTGTTT
Found at i:14007644 original size:21 final size:23
Alignment explanation
Indices: 14007602--14007648 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14007592 CTCTTGTCCT
*
14007602 TTTTTACTATATTTTGGATTTTC
1 TTTTTACTATATCTTGGATTTTC
*
14007625 TTTTTACTAT-TCTT-GTTTTTC
1 TTTTTACTATATCTTGGATTTTC
14007646 TTT
1 TTT
14007649 CGTTTGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.13, C:0.11, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTTTACTATATCTTGGATTTTC
Found at i:14011444 original size:2 final size:2
Alignment explanation
Indices: 14011439--14011483 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
14011429 TATATAGCAA
*
14011439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14011481 AT A
1 AT A
14011484 AACACATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14011593 original size:36 final size:36
Alignment explanation
Indices: 14011548--14011647 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 36
14011538 TAGCCAGAGT
* * * *
14011548 CATCGTGTGCACCCCCACATCACGCATAGCTAATGC
1 CATCGTGTGCTCCCCCACATCGCGCACAACTAATGC
* * * *
14011584 CATCATGTGCTCCGCTACATCGCACACAACTAATGC
1 CATCGTGTGCTCCCCCACATCGCGCACAACTAATGC
*
14011620 CATTGTGTGCTCCCCCACATCGCGCACA
1 CATCGTGTGCTCCCCCACATCGCGCACA
14011648 GGCAATATCA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.24, C:0.39, G:0.16, T:0.21
Consensus pattern (36 bp):
CATCGTGTGCTCCCCCACATCGCGCACAACTAATGC
Found at i:14012324 original size:20 final size:20
Alignment explanation
Indices: 14012299--14012336 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14012289 AAAAAGAAGA
* *
14012299 AGAAGCTGCTGGAAATTTGC
1 AGAAGCCGCTAGAAATTTGC
14012319 AGAAGCCGCTAGAAATTT
1 AGAAGCCGCTAGAAATTT
14012337 TTGATATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (20 bp):
AGAAGCCGCTAGAAATTTGC
Found at i:14014204 original size:11 final size:11
Alignment explanation
Indices: 14014185--14014222 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14014175 GAGGCTGAAA
14014185 TTGATGATATT
1 TTGATGATATT
*
14014196 TTTATGATATT
1 TTGATGATATT
*
14014207 TTGGTGATA-T
1 TTGATGATATT
14014217 TTGATG
1 TTGATG
14014223 TTTGGTGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (11 bp):
TTGATGATATT
Found at i:14017323 original size:2 final size:2
Alignment explanation
Indices: 14017316--14017374 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
14017306 AATAAGCAAA
14017316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14017357 A- AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
14017375 CAACACANNN
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14017594 original size:2 final size:2
Alignment explanation
Indices: 14017587--14017643 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
14017577 NNNNNNNNNN
14017587 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14017629 AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT A
14017644 AACACATATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14017753 original size:36 final size:36
Alignment explanation
Indices: 14017708--14017807 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 36
14017698 TAGCCGGAGT
* * * *
14017708 CATCATGTGCACCCCCACATCGCGCATAGCTAATGC
1 CATCGTGTGCTCCCCCACATCGCGCACAACTAATGC
** *
14017744 CATCGTGTGCTCTACCACATCGCACACAACTAATGC
1 CATCGTGTGCTCCCCCACATCGCGCACAACTAATGC
* *
14017780 CATTGTGTGCTCCCCCACATCTCGCACA
1 CATCGTGTGCTCCCCCACATCGCGCACA
14017808 GGCAATATCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (36 bp):
CATCGTGTGCTCCCCCACATCGCGCACAACTAATGC
Found at i:14021157 original size:21 final size:21
Alignment explanation
Indices: 14021131--14021171 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14021121 TATTTGATAT
* *
14021131 GTAGGTGGTCGAGCTAACAAC
1 GTAGGTAGTCAAGCTAACAAC
*
14021152 GTAGGTAGTCAAGTTAACAA
1 GTAGGTAGTCAAGCTAACAA
14021172 GGCAGACCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (21 bp):
GTAGGTAGTCAAGCTAACAAC
Found at i:14021191 original size:23 final size:23
Alignment explanation
Indices: 14021163--14021208 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
14021153 TAGGTAGTCA
14021163 AGTTAACAAGGCAGACCTACTAG
1 AGTTAACAAGGCAGACCTACTAG
*
14021186 AGTTAACAAGGCAGGCCTACTAG
1 AGTTAACAAGGCAGACCTACTAG
14021209 CGTCAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
AGTTAACAAGGCAGACCTACTAG
Found at i:14031633 original size:16 final size:16
Alignment explanation
Indices: 14031609--14031664 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
14031599 AATACAAAAG
14031609 AAAATATATAGAAAATT
1 AAAA-ATATAGAAAATT
*
14031626 AAAAATAT-GAAGAAGT
1 AAAAATATAGAA-AATT
*
14031642 AAAAATAATAGAGAATT
1 AAAAAT-ATAGAAAATT
14031659 GAAAAA
1 -AAAAA
14031665 ATACAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.09
16 13 0.41
17 9 0.28
18 7 0.22
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAAATATAGAAAATT
Found at i:14032550 original size:3 final size:3
Alignment explanation
Indices: 14032542--14032567 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14032532 TTATGAATCG
14032542 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
14032568 TGATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14033602 original size:24 final size:24
Alignment explanation
Indices: 14033557--14033602 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
14033547 ACTTATTTAA
** *
14033557 GTTATGAACCCATTTGGGTTATGG
1 GTTATGAACCCATTAAGATTATGG
*
14033581 GTTATGAATCCATTAAGATTAT
1 GTTATGAACCCATTAAGATTAT
14033603 AAGCCCATCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (24 bp):
GTTATGAACCCATTAAGATTATGG
Found at i:14034223 original size:31 final size:31
Alignment explanation
Indices: 14034085--14034406 Score: 211
Period size: 31 Copynumber: 10.7 Consensus size: 31
14034075 CGAGGCTCTA
* *
14034085 AATTCCTTCACCAAGGTTTCAATATCTTAAG
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
* * *** *
14034116 AATTCTTTCATTGAGGTTTCAATATCTTAAG
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
* *
14034147 ACTTCCTCCATCAAGGTTCCAATATCTTAAG
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
** ** *
14034178 AATTTTTCTGCCAAGATTCCAATATCTTAAG
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
14034209 AATTCCTCCACCAA-G--CC--T-TC---A-
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
* * * *
14034230 AATTCCTCCATCGAGGCTT-CAATATCATATG
1 AATTCCTCCACCAAGG-TTCCAATATCTTAAG
* *
14034261 AATTCCTCAACCGAGGCTT-CAATATCTTAAG
1 AATTCCTCCACCAAGG-TTCCAATATCTTAAG
* * *
14034292 AATTCCTCCACTC-AGGCTCTAATATCTTAAA
1 AATTCCTCCAC-CAAGGTTCCAATATCTTAAG
* * * * *
14034323 AATTTCTCTACTAAGTTTCCAAAATCTTAAG
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
* ** *
14034354 AATTCTTCCACTGAGGTTCCAATATCTTAAA
1 AATTCCTCCACCAAGGTTCCAATATCTTAAG
* *
14034385 AATTCCTGCACTAAGGTTCCAA
1 AATTCCTCCACCAAGGTTCCAA
14034407 ACTTTAGATA
Statistics
Matches: 226, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
21 12 0.05
22 2 0.01
24 1 0.00
25 2 0.01
26 2 0.01
27 2 0.01
28 2 0.01
30 1 0.00
31 201 0.89
32 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (31 bp):
AATTCCTCCACCAAGGTTCCAATATCTTAAG
Found at i:14035628 original size:23 final size:23
Alignment explanation
Indices: 14035600--14035653 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
14035590 TTTCTTCTCC
14035600 CAACTTCTTATGCACCAAAGTTA
1 CAACTTCTTATGCACCAAAGTTA
14035623 CAACTTCTTATGCACCAAAGTTA
1 CAACTTCTTATGCACCAAAGTTA
14035646 CAACTTCT
1 CAACTTCT
14035654 AAGCCCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (23 bp):
CAACTTCTTATGCACCAAAGTTA
Found at i:14037626 original size:19 final size:19
Alignment explanation
Indices: 14037602--14037639 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14037592 ATTTCTCAAC
14037602 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14037621 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14037640 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14049246 original size:61 final size:61
Alignment explanation
Indices: 14049171--14049338 Score: 291
Period size: 61 Copynumber: 2.8 Consensus size: 61
14049161 TAATTGATGT
*
14049171 AACCGTGCATGTGCGGACTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCAC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCAC
* *
14049232 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTTGTGATATTTAC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCAC
* *
14049293 AACCGTACATGTGCGGAGTGGGTAGTGCACATGCCGGTAATGATGC
1 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGC
14049339 ACATGAGTTG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 102 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (61 bp):
AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCAC
Found at i:14052768 original size:13 final size:14
Alignment explanation
Indices: 14052744--14052774 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
14052734 CTTGAGTTTT
14052744 TTTGATCTTATCTA
1 TTTGATCTTATCTA
14052758 TTTGA-CTTATCTA
1 TTTGATCTTATCTA
14052771 TTTG
1 TTTG
14052775 TACTCCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (14 bp):
TTTGATCTTATCTA
Found at i:14057665 original size:10 final size:10
Alignment explanation
Indices: 14057637--14057665 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
14057627 TAAATCCATT
14057637 TTTCATAAAA
1 TTTCATAAAA
14057647 TTT-ATAAAA
1 TTTCATAAAA
14057656 TTTCATAAAA
1 TTTCATAAAA
14057666 ACTACCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTCATAAAA
Found at i:14061531 original size:19 final size:20
Alignment explanation
Indices: 14061507--14061546 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14061497 CCATTTGACT
14061507 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
14061526 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
14061546 T
1 T
14061547 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:14064845 original size:105 final size:105
Alignment explanation
Indices: 14064729--14064939 Score: 395
Period size: 105 Copynumber: 2.0 Consensus size: 105
14064719 CATCATCAAA
14064729 AGACTTCCATTTATTTTATATCAAACATTTATTAAGAAATTATATTTACAAAATTTAAATTGTTT
1 AGACTTCCATTTATTTTATATCAAACATTTATTAAGAAATTATATTTACAAAATTTAAATTGTTT
*
14064794 ATTTAACTATGTTATTATTTGTAATAATTATTTATAAATG
66 ATTTAACTATGTTATTATTTGAAATAATTATTTATAAATG
* *
14064834 AGACTTCCATTTATTTTGTATTAAACATTTATTAAGAAATTATATTTACAAAATTTAAATTGTTT
1 AGACTTCCATTTATTTTATATCAAACATTTATTAAGAAATTATATTTACAAAATTTAAATTGTTT
14064899 ATTTAACTATGTTATTATTTGAAATAATTATTTATAAATG
66 ATTTAACTATGTTATTATTTGAAATAATTATTTATAAATG
14064939 A
1 A
14064940 AACCTTTTTT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (105 bp):
AGACTTCCATTTATTTTATATCAAACATTTATTAAGAAATTATATTTACAAAATTTAAATTGTTT
ATTTAACTATGTTATTATTTGAAATAATTATTTATAAATG
Found at i:14071419 original size:19 final size:19
Alignment explanation
Indices: 14071392--14071429 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14071382 ACTTTTAAAC
*
14071392 CTCACATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14071411 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14071430 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14074181 original size:21 final size:20
Alignment explanation
Indices: 14074155--14074195 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14074145 AAAACAACAA
14074155 GAAGTATCGATACTTTGAGTT
1 GAAGTATCGATACTTT-AGTT
*
14074176 GAAGTATTGATACTTTAGTT
1 GAAGTATCGATACTTTAGTT
14074196 TCTAGGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (20 bp):
GAAGTATCGATACTTTAGTT
Found at i:14074633 original size:46 final size:46
Alignment explanation
Indices: 14074561--14074653 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
14074551 CCAAGTAGTG
* *
14074561 AGGTGTTAAGCATTACTCTTGGGTTTTAATACCCTTGTCTAAATTC
1 AGGTGTTAAGCACTACTCTTGAGTTTTAATACCCTTGTCTAAATTC
14074607 AGGTGTTAAGCACTACTCTTGAGTTTTAATACCCTTGTCTAAATTC
1 AGGTGTTAAGCACTACTCTTGAGTTTTAATACCCTTGTCTAAATTC
14074653 A
1 A
14074654 AGTTCTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (46 bp):
AGGTGTTAAGCACTACTCTTGAGTTTTAATACCCTTGTCTAAATTC
Found at i:14081776 original size:17 final size:17
Alignment explanation
Indices: 14081726--14081776 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
14081716 TATCCCAATT
14081726 TTCCTAGATAAAAAAAAA
1 TTCCTAGA-AAAAAAAAA
* *
14081744 TTCCCA-AAAAAGAAAA
1 TTCCTAGAAAAAAAAAA
*
14081760 TTTCTAGAAAAAAAAAA
1 TTCCTAGAAAAAAAAAA
14081777 CCCTTGTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 12 0.44
17 10 0.37
18 5 0.19
ACGTcount: A:0.63, C:0.12, G:0.06, T:0.20
Consensus pattern (17 bp):
TTCCTAGAAAAAAAAAA
Found at i:14082527 original size:2 final size:2
Alignment explanation
Indices: 14082520--14082545 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14082510 TCATAATATT
14082520 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
14082546 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14082550 original size:2 final size:2
Alignment explanation
Indices: 14082545--14082583 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
14082535 ACACACACAC
*
14082545 AT AT AT AT AT ACT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
14082584 GTCTTCATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 33 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:14085678 original size:45 final size:45
Alignment explanation
Indices: 14085594--14085679 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
14085584 TGAATTATTG
** *
14085594 TGCTACAGAATAAGAACAAGTGTGGAATATTTATTTCATATAGTC
1 TGCTACAGAATAAGAACAAGTGTGGAATAGCTATCTCATATAGTC
* *
14085639 TGCTACAGTATAGGAACAAGTGTGGAATAGCTATCTCATAT
1 TGCTACAGAATAAGAACAAGTGTGGAATAGCTATCTCATAT
14085680 GAAGAAGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (45 bp):
TGCTACAGAATAAGAACAAGTGTGGAATAGCTATCTCATATAGTC
Found at i:14089440 original size:105 final size:105
Alignment explanation
Indices: 14089254--14089486 Score: 272
Period size: 105 Copynumber: 2.2 Consensus size: 105
14089244 TTTATCACTC
* * * *
14089254 TTACTTTGGTTGTAATGTATTGTTACACTTGGTCGCAAGCTTTATCACTCATTCTTTAACCATAT
1 TTACTTTGGTTGTAATGTATTATTACAATCGGTAGCAAGCTTTATCACTCATTCTTTAACCATAT
* * * * *
14089319 AATTCATTACTCATATTTCAACTGCTAGCTTTATCG-TTA
66 AATTCATCACTAATATTTCAACTACAAGCTTTAACGCTTA
* ** ** *
14089358 TTACTTTGGTTGTAATGTCATTATTGCAATCGGTATTAAGCTTTATCGTTCATTCTTTGACCATA
1 TTACTTTGGTTGTAATGT-ATTATTACAATCGGTAGCAAGCTTTATCACTCATTCTTTAACCATA
* *
14089423 TAATTCATCACTAATATTTTAGCTACAAGCTTTAACGCTTA
65 TAATTCATCACTAATATTTCAACTACAAGCTTTAACGCTTA
*
14089464 -TAATTTGGTTGTAATGATATTAT
1 TTACTTTGGTTGTAATG-TATTAT
14089487 GCTATTGGCT
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
104 18 0.17
105 86 0.80
106 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (105 bp):
TTACTTTGGTTGTAATGTATTATTACAATCGGTAGCAAGCTTTATCACTCATTCTTTAACCATAT
AATTCATCACTAATATTTCAACTACAAGCTTTAACGCTTA
Found at i:14090118 original size:39 final size:40
Alignment explanation
Indices: 14090018--14090224 Score: 199
Period size: 39 Copynumber: 5.2 Consensus size: 40
14090008 ACATGGAAAT
* * * * *
14090018 AAGAAGCGTTACAAGTT-TATTCGGGACATCCCAAGAGAAA
1 AAGAAGCATTACGAGTTATATTTGGAACA-CCCAAGAGAAG
* * *
14090058 AAGAAGCATT-TGAGTTATATTTGGAACACCCTA-AGAAT
1 AAGAAGCATTACGAGTTATATTTGGAACACCCAAGAGAAG
*
14090096 AAGAAGCATTACGAGTTGTATTTGGAACATCCCAAGAGAAG
1 AAGAAGCATTACGAGTTATATTTGGAACA-CCCAAGAGAAG
* * *
14090137 AAAAAGCATTATGAGTTATATTCGGAACACCTC-A-AGAAG
1 AAGAAGCATTACGAGTTATATTTGGAACACC-CAAGAGAAG
* * * *
14090176 AAGAAACATTACAAGTTGTATTTGAAACACTCCAAGAGAAG
1 AAGAAGCATTACGAGTTATATTTGGAACAC-CCAAGAGAAG
14090217 AAGAAGCA
1 AAGAAGCA
14090225 ATGTGAGTAA
Statistics
Matches: 136, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
38 14 0.10
39 53 0.39
40 27 0.20
41 42 0.31
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (40 bp):
AAGAAGCATTACGAGTTATATTTGGAACACCCAAGAGAAG
Found at i:14090174 original size:80 final size:79
Alignment explanation
Indices: 14090015--14090254 Score: 281
Period size: 80 Copynumber: 3.0 Consensus size: 79
14090005 AACACATGGA
* * *
14090015 AATAAGAAGCGTTACAAGTT-TATTCGGGACATCCCAAGAGAA-AAAGAAGCATTTGAGTTATAT
1 AATAAGAAGCATTACAAGTTGTATTTGGAACATCCCAAGAGAAGAAA-AAGCATTTGAGTTATAT
*
14090078 TTGGAACACCCTAAG
65 TCGGAACACCCTAAG
*
14090093 AATAAGAAGCATTACGAGTTGTATTTGGAACATCCCAAGAGAAGAAAAAGCATTATGAGTTATAT
1 AATAAGAAGCATTACAAGTTGTATTTGGAACATCCCAAGAGAAGAAAAAGCATT-TGAGTTATAT
14090158 TCGGAACA-CCTCAAG
65 TCGGAACACCCT-AAG
* * * * * *
14090173 AAGAAGAAACATTACAAGTTGTATTTGAAACA-CTCCAAGAGAAGAAGAAGCAATGTGAGTAATA
1 AATAAGAAGCATTACAAGTTGTATTTGGAACATC-CCAAGAGAAGAAAAAGC-ATTTGAGTTATA
**
14090237 TTCAAAACACCCATAAG
64 TTCGGAACACCC-TAAG
14090254 A
1 A
14090255 GAAAAAACAT
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
78 18 0.13
79 31 0.22
80 82 0.59
81 8 0.06
82 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (79 bp):
AATAAGAAGCATTACAAGTTGTATTTGGAACATCCCAAGAGAAGAAAAAGCATTTGAGTTATATT
CGGAACACCCTAAG
Found at i:14096946 original size:23 final size:23
Alignment explanation
Indices: 14096902--14096959 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
14096892 GTCGCGACCT
* *
14096902 TGCTTTCCTCAACACTGTAGCCG
1 TGCTTTCCTCAGCACTGCAGCCG
* *
14096925 TGCTTTCCTCAGCATTGCAGCCT
1 TGCTTTCCTCAGCACTGCAGCCG
14096948 TG-TTATCCTCAG
1 TGCTT-TCCTCAG
14096960 TGCCACAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.34
Consensus pattern (23 bp):
TGCTTTCCTCAGCACTGCAGCCG
Found at i:14098160 original size:27 final size:27
Alignment explanation
Indices: 14098136--14098210 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
14098126 CATTCCAATT
14098136 GTGGAAATGCACAAGGGTGTTCCAAAC
1 GTGGAAATGCACAAGGGTGTTCCAAAC
* * * ** *
14098163 ATGAAAACGCACAAGGGCATTCCAAGC
1 GTGGAAATGCACAAGGGTGTTCCAAAC
* *
14098190 GTGGAAATGCTCAAGGATGTT
1 GTGGAAATGCACAAGGGTGTT
14098211 GCAAGCGCAA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (27 bp):
GTGGAAATGCACAAGGGTGTTCCAAAC
Found at i:14098238 original size:54 final size:54
Alignment explanation
Indices: 14098118--14098239 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 54
14098108 CTAAGTGTTT
** * **
14098118 CCTAGGGACATTCCAATTGTGGAAATGCACAAGGGTGTTCCAAACATGAAAACG
1 CCTAGGGACATTCCAAGCGTGGAAATGCACAAGGATGTTCCAAACACAAAAACG
* * * * * *
14098172 CACAAGGG-CATTCCAAGCGTGGAAATGCTCAAGGATGTTGCAAGCGCAAAAATG
1 C-CTAGGGACATTCCAAGCGTGGAAATGCACAAGGATGTTCCAAACACAAAAACG
14098226 CCTAGGGACATTCC
1 CCTAGGGACATTCC
14098240 CAAGTGCATA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
53 5 0.09
54 44 0.81
55 5 0.09
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CCTAGGGACATTCCAAGCGTGGAAATGCACAAGGATGTTCCAAACACAAAAACG
Found at i:14098326 original size:2 final size:2
Alignment explanation
Indices: 14098319--14098355 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14098309 CTTGATTTTC
14098319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14098356 AGCGTTGCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14100009 original size:37 final size:37
Alignment explanation
Indices: 14099968--14100085 Score: 191
Period size: 37 Copynumber: 3.2 Consensus size: 37
14099958 AATGTTGTGT
14099968 GATGATGTTAAAGTGTGCGAGTAGGGAGTGCACACAC
1 GATGATGTTAAAGTGTGCGAGTAGGGAGTGCACACAC
* *
14100005 GATGATGTTAAAGTGTGCGAATACGGAGTGCACACAC
1 GATGATGTTAAAGTGTGCGAGTAGGGAGTGCACACAC
* * *
14100042 GATGATGTTGAAGTGTGTGAGTAGGGAGTGCACACAT
1 GATGATGTTAAAGTGTGCGAGTAGGGAGTGCACACAC
14100079 GATGATG
1 GATGATG
14100086 ATATTGCATT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.24
Consensus pattern (37 bp):
GATGATGTTAAAGTGTGCGAGTAGGGAGTGCACACAC
Found at i:14108601 original size:14 final size:15
Alignment explanation
Indices: 14108573--14108606 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
14108563 TTTCGGCAAG
14108573 TAGGAAATGAGGAGA
1 TAGGAAATGAGGAGA
14108588 TAGGAAAT-AGGAGA
1 TAGGAAATGAGGAGA
14108602 TAGGA
1 TAGGA
14108607 GAGAGAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (15 bp):
TAGGAAATGAGGAGA
Found at i:14110519 original size:17 final size:17
Alignment explanation
Indices: 14110497--14110531 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14110487 ACCAAATGAA
14110497 TATCCTAAGAAGAATTT
1 TATCCTAAGAAGAATTT
14110514 TATCCTAAGAAGAATTT
1 TATCCTAAGAAGAATTT
14110531 T
1 T
14110532 GATGAAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (17 bp):
TATCCTAAGAAGAATTT
Found at i:14110706 original size:50 final size:50
Alignment explanation
Indices: 14110631--14110730 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
14110621 ATTTCATAAC
14110631 TAGTAACCATCTACATGTAGATGCAACTTTAGAATGGAAGATATAAAATT
1 TAGTAACCATCTACATGTAGATGCAACTTTAGAATGGAAGATATAAAATT
14110681 TAGTAACCATCTACATGTAGATGCAACTTTAGAATGGAAGATATAAAATT
1 TAGTAACCATCTACATGTAGATGCAACTTTAGAATGGAAGATATAAAATT
14110731 CATACTTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (50 bp):
TAGTAACCATCTACATGTAGATGCAACTTTAGAATGGAAGATATAAAATT
Found at i:14121837 original size:201 final size:201
Alignment explanation
Indices: 14121492--14121899 Score: 753
Period size: 201 Copynumber: 2.0 Consensus size: 201
14121482 TGATGAGTTA
* *
14121492 TAATAAAAATGAAAACTAGTCACGGTTGGAATTGGTTATGATACTACGTTGCAGGGGCAGCCATG
1 TAATAAAAATGAAAACTAGTCACGGTTGGAATTGATTATGATACTAAGTTGCAGGGGCAGCCATG
14121557 GACTACAGGGCAATGATGGTGGTAATTAAAAGTGTCAGGTTGCCTGCTATGGATATGATGGTGTT
66 GACTACAGGGCAATGATGGTGGTAATTAAAAGTGTCAGGTTGCCTGCTATGGATATGATGGTGTT
14121622 TGTCCCAAATCGGTAGAACCAGAGTATCACTAATGGTAGTCCTAGAAGGGTGAGGTGACAATCAT
131 TGTCCCAAATCGGTAGAACCAGAGTATCACTAATGGTAGTCCTAGAAGGGTGAGGTGACAATCAT
**
14121687 GGTGTT
196 AATGTT
*
14121693 TAATAAAAATGAAAACTAGTCACGGTTGGGATTGATTATGATACTAAGTTGCAGGGGCAGCCATG
1 TAATAAAAATGAAAACTAGTCACGGTTGGAATTGATTATGATACTAAGTTGCAGGGGCAGCCATG
*
14121758 GACTACAGGGCAATGATGGTGGTAATTAAAAGTGTCAGGTTGCCTGCTATGGATGTGATGGTGTT
66 GACTACAGGGCAATGATGGTGGTAATTAAAAGTGTCAGGTTGCCTGCTATGGATATGATGGTGTT
*
14121823 TGTCCCAAATCGGTAGAACCAGAGTATCACTAATGGTAGTCCTAGGAGGGTGAGGTGACAATCAT
131 TGTCCCAAATCGGTAGAACCAGAGTATCACTAATGGTAGTCCTAGAAGGGTGAGGTGACAATCAT
14121888 AATGTT
196 AATGTT
14121894 TAATAA
1 TAATAA
14121900 CTAGAGTAAG
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (201 bp):
TAATAAAAATGAAAACTAGTCACGGTTGGAATTGATTATGATACTAAGTTGCAGGGGCAGCCATG
GACTACAGGGCAATGATGGTGGTAATTAAAAGTGTCAGGTTGCCTGCTATGGATATGATGGTGTT
TGTCCCAAATCGGTAGAACCAGAGTATCACTAATGGTAGTCCTAGAAGGGTGAGGTGACAATCAT
AATGTT
Found at i:14125217 original size:12 final size:12
Alignment explanation
Indices: 14125184--14125218 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14125174 TAATAAATAA
*
14125184 ACAGATAGACAG
1 ACAGATAGATAG
14125196 ACAGATAGATAG
1 ACAGATAGATAG
*
14125208 ATAGATAGATA
1 ACAGATAGATA
14125219 TATACATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (12 bp):
ACAGATAGATAG
Found at i:14134873 original size:6 final size:6
Alignment explanation
Indices: 14134862--14134889 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14134852 TCTATTTTGA
14134862 TGTTGG TGTTGG TGTTGG TGTTGG TGTT
1 TGTTGG TGTTGG TGTTGG TGTTGG TGTT
14134890 TATTTTGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
TGTTGG
Found at i:14137784 original size:2 final size:2
Alignment explanation
Indices: 14137779--14137806 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14137769 TGAAATATTC
14137779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14137807 TCATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14140182 original size:21 final size:20
Alignment explanation
Indices: 14140156--14140213 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
14140146 CTTTCTGCTT
*
14140156 GCCATCTATCGATAGATGGG
1 GCCATCTATCGATAGATCGG
* *
14140176 AGCCATCTGTCGATAGATCTG
1 -GCCATCTATCGATAGATCGG
*
14140197 GCCATCTATAGATAGAT
1 GCCATCTATCGATAGAT
14140214 ATGCTCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (20 bp):
GCCATCTATCGATAGATCGG
Found at i:14147915 original size:25 final size:24
Alignment explanation
Indices: 14147885--14147934 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 24
14147875 TTTTATATGT
*
14147885 TTTTTCTTT-T-TCTTTTTTTTCT-
1 TTTTTCTTTCTATCTCTTTTTT-TC
14147907 TTT-TCTTTCTATCTCTTTTTTTC
1 TTTTTCTTTCTATCTCTTTTTTTC
14147930 TTTTT
1 TTTTT
14147935 TTCAATACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 12 0.52
24 1 0.04
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTCTTTCTATCTCTTTTTTTC
Found at i:14147954 original size:26 final size:26
Alignment explanation
Indices: 14147894--14147954 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
14147884 TTTTTTCTTT
*
14147894 TTCTTTTTTTTCTTTTTCTTTCTATC
1 TTCTTTTTTTTCTTTTTCTTTCAATC
14147920 -TC-TTTTTTTC-TTTT-TTTCAATAC
1 TTCTTTTTTTTCTTTTTCTTTCAAT-C
14147943 TTCTTTTATTTT
1 TTCTTTT-TTTT
14147955 TTCTATTACC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
22 6 0.20
23 5 0.17
24 10 0.33
25 5 0.17
26 4 0.13
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.75
Consensus pattern (26 bp):
TTCTTTTTTTTCTTTTTCTTTCAATC
Found at i:14149675 original size:42 final size:42
Alignment explanation
Indices: 14149594--14149697 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
14149584 TAATTAAAGT
* * *
14149594 TATTAATATTTTAATCATAGTAATATTTAAATTATAAATAAAA
1 TATTAATAATTTAA-AATATTAATATTTAAATTATAAATAAAA
*
14149637 TATTAATAATTTAAAATATTAATCA-TTAAATTGTAAATAAAA
1 TATTAATAATTTAAAATATTAAT-ATTTAAATTATAAATAAAA
14149679 TATTAAT-ATTTAAAA-ATTA
1 TATTAATAATTTAAAATATTA
14149698 TAAATATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 4 0.07
41 8 0.14
42 30 0.54
43 14 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (42 bp):
TATTAATAATTTAAAATATTAATATTTAAATTATAAATAAAA
Found at i:14149717 original size:20 final size:20
Alignment explanation
Indices: 14149670--14149727 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 20
14149660 CATTAAATTG
* *
14149670 TAAATAAAATATTAATA-TT
1 TAAATAAATTATAAATATTT
14149689 T-AA-AAATTATAAATATTT
1 TAAATAAATTATAAATATTT
14149707 TAAATAAATTATAAATTATTT
1 TAAATAAATTATAAA-TATTT
14149728 AATATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 10 0.30
18 5 0.15
19 3 0.09
20 10 0.30
21 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATAAATTATAAATATTT
Found at i:14149728 original size:20 final size:19
Alignment explanation
Indices: 14149670--14149729 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
14149660 CATTAAATTG
* *
14149670 TAAATAAAATATTAATATT
1 TAAATAAATTATAAATATT
14149689 T-AA-AAATTATAAATATTT
1 TAAATAAATTATAAATA-TT
14149707 TAAATAAATTATAAATTATT
1 TAAATAAATTATAAA-TATT
14149727 TAA
1 TAA
14149730 TATTTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 10 0.29
18 5 0.14
19 3 0.09
20 15 0.43
21 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATAAATTATAAATATT
Found at i:14149747 original size:27 final size:26
Alignment explanation
Indices: 14149692--14149748 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
14149682 TAATATTTAA
*
14149692 AAATTATAAATATTTTAAATAAATTAT
1 AAATTATAAATATTTAAAATAAA-TAT
*
14149719 AAATTATTTAATATTTAAAAATAAA-AT
1 AAATTA-TAAATATTT-AAAATAAATAT
14149746 AAA
1 AAA
14149749 ACTTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 11 0.42
28 8 0.31
29 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATTATAAATATTTAAAATAAATAT
Found at i:14152342 original size:19 final size:18
Alignment explanation
Indices: 14152318--14152353 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14152308 GGGAAATTAC
*
14152318 GATTTGCATTGGTGAGGGT
1 GATTTGCAGTGG-GAGGGT
14152337 GATTTGCAGTGGGAGGG
1 GATTTGCAGTGGGAGGG
14152354 AGAGGAGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.17, C:0.06, G:0.47, T:0.31
Consensus pattern (18 bp):
GATTTGCAGTGGGAGGGT
Found at i:14153609 original size:5 final size:5
Alignment explanation
Indices: 14153572--14153619 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
14153562 GTCTTTGCTA
*
14153572 AAAAG AAAAAA AAAAG ACAACAG AAATAG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG AAAAG A-AA-AG AAA-AG AAAAG AAAAG AAAAG AAAA
14153620 ATATACTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 21 0.57
6 13 0.35
7 3 0.08
ACGTcount: A:0.79, C:0.04, G:0.15, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:14154521 original size:18 final size:18
Alignment explanation
Indices: 14154498--14154537 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14154488 AGTTTCATAA
*
14154498 ATAATTCATAAGTAACAC
1 ATAATTCATAAATAACAC
*
14154516 ATAATTCATAAATAACTC
1 ATAATTCATAAATAACAC
14154534 ATAA
1 ATAA
14154538 ATTAACGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (18 bp):
ATAATTCATAAATAACAC
Found at i:14162046 original size:30 final size:30
Alignment explanation
Indices: 14162010--14162067 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
14162000 TTTATTTTTT
**
14162010 AAGAAAAAAGAGAGAGATGAAAAAGAAAAA
1 AAGAAAAAAGAGAGAGAAAAAAAAGAAAAA
14162040 AAGAAAAAAGAGAGAGAAAAAAAAGAAA
1 AAGAAAAAAGAGAGAGAAAAAAAAGAAA
14162068 GGAAGATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (30 bp):
AAGAAAAAAGAGAGAGAAAAAAAAGAAAAA
Found at i:14162060 original size:22 final size:22
Alignment explanation
Indices: 14162035--14162110 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
14162025 GATGAAAAAG
14162035 AAAAAAAGAAAAAAGAGAGAGA
1 AAAAAAAGAAAAAAGAGAGAGA
* *
14162057 AAAAAAAGAAAGGAAGATA-AGA
1 AAAAAAAGAAA-AAAGAGAGAGA
* * *
14162079 ATAAAAGGAAAAAGGAGAGA-A
1 AAAAAAAGAAAAAAGAGAGAGA
14162100 AAAATAAAGAA
1 AAAA-AAAGAA
14162111 GTAAAAAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
21 8 0.19
22 29 0.69
23 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
AAAAAAAGAAAAAAGAGAGAGA
Found at i:14162061 original size:15 final size:15
Alignment explanation
Indices: 14162013--14162065 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
14162003 ATTTTTTAAG
*
14162013 AAAAAAGAGAGAGAT
1 AAAAAAGAGAGAGAA
* * *
14162028 GAAAAAGA-AAAAAA
1 AAAAAAGAGAGAGAA
14162042 GAAAAAAGAGAGAGAA
1 -AAAAAAGAGAGAGAA
14162058 AAAAAAGA
1 AAAAAAGA
14162066 AAGGAAGATA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 3 0.10
15 22 0.76
16 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
AAAAAAGAGAGAGAA
Found at i:14162078 original size:28 final size:28
Alignment explanation
Indices: 14162014--14162068 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
14162004 TTTTTTAAGA
14162014 AAAAAGAGAGAGATGAAAAAGAAAAAAAG
1 AAAAA-AGAGAGATGAAAAAGAAAAAAAG
*
14162043 AAAAAAGAGAGA-GAAAAA-AAAGAAAG
1 AAAAAAGAGAGATGAAAAAGAAAAAAAG
14162069 GAAGATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
27 6 0.24
28 7 0.28
29 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (28 bp):
AAAAAAGAGAGATGAAAAAGAAAAAAAG
Found at i:14162129 original size:44 final size:43
Alignment explanation
Indices: 14162032--14162129 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 43
14162022 AGAGATGAAA
* * *
14162032 AAGAAAAAAAGAAAAAAGAGAGAGAAAAAAAAGAAAGGAAGAT
1 AAGAAAAAAGGAAAAAAGAGAGAGAAAAAAAAGAAAGAAAAAT
*
14162075 AAGAATAAAAGGAAAAAGGAGAGA-AAAAATAAAG-AAGTAAAAAAT
1 AAGAA-AAAAGGAAAAAAGAGAGAGAAAAA-AAAGAAAG--AAAAAT
*
14162120 AGGAAAAAAG
1 AAGAAAAAAG
14162130 AGAGAAGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
43 13 0.28
44 25 0.54
45 8 0.17
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.05
Consensus pattern (43 bp):
AAGAAAAAAGGAAAAAAGAGAGAGAAAAAAAAGAAAGAAAAAT
Found at i:14169978 original size:21 final size:21
Alignment explanation
Indices: 14169954--14170093 Score: 115
Period size: 21 Copynumber: 6.5 Consensus size: 21
14169944 AACTAATTAT
* *
14169954 CCGGAGGGTTTGGAAATGTAC
1 CCGGAGGTTTTGAAAATGTAC
*
14169975 CCGGAGGTTTTGAAAAAATATAC
1 CCGGAGGTTTTG--AAAATGTAC
14169998 CCGGAGGCTTTAT-AGAAA-GTAC
1 CCGGAGG-TTT-TGA-AAATGTAC
14170020 CCGGAGGTTTT-AAGAATGTAC
1 CCGGAGGTTTTGAA-AATGTAC
**
14170041 CTAGAGGTTTTGAAAATGTAC
1 CCGGAGGTTTTGAAAATGTAC
** **
14170062 CCAAAGGTTTTAGAAAATACAC
1 CCGGAGGTTTT-GAAAATGTAC
14170084 CCGGAGGTTT
1 CCGGAGGTTT
14170094 AAGAGAAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
19 1 0.01
20 4 0.04
21 43 0.44
22 29 0.30
23 17 0.17
24 3 0.03
25 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (21 bp):
CCGGAGGTTTTGAAAATGTAC
Found at i:14170023 original size:22 final size:21
Alignment explanation
Indices: 14169966--14170041 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 21
14169956 GGAGGGTTTG
*
14169966 GAAATGTACCCGGAGGTTTTGAA
1 GAAA-GTACCCGGAGGCTTT-AA
* *
14169989 AAAATATACCCGGAGGCTTTATA
1 GAAA-GTACCCGGAGGCTTTA-A
*
14170012 GAAAGTACCCGGAGGTTTTAA
1 GAAAGTACCCGGAGGCTTTAA
*
14170033 GAATGTACC
1 GAAAGTACC
14170042 TAGAGGTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
21 9 0.20
22 15 0.33
23 21 0.47
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (21 bp):
GAAAGTACCCGGAGGCTTTAA
Found at i:14170085 original size:22 final size:21
Alignment explanation
Indices: 14170045--14170085 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14170035 ATGTACCTAG
**
14170045 AGGTTTTGAAAATGTACCCAA
1 AGGTTTTGAAAATACACCCAA
14170066 AGGTTTTAGAAAATACACCC
1 AGGTTTT-GAAAATACACCC
14170086 GGAGGTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (21 bp):
AGGTTTTGAAAATACACCCAA
Found at i:14170204 original size:75 final size:74
Alignment explanation
Indices: 14170082--14170231 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 74
14170072 TAGAAAATAC
*
14170082 ACCCGGAGGTTTAAGAGAAAAATGTGGCTCCTCAAAATTGAGGCAACGTAACTTTAAAAATCTTG
1 ACCCGGAGGTTTAAGAGAAAAATGTGGCTCCTCAAAACTGAGGCAACGTAACTTTAAAAATCTTG
14170147 AAACTAATT
66 AAACTAATT
** * * *
14170156 ACCCGGAGGTTTTGGGAGAAAAATTTGGCTCCTTAAAACTGAGGCAACGTAACTTTGAAAATCTT
1 ACCCGGAGG-TTTAAGAGAAAAATGTGGCTCCTCAAAACTGAGGCAACGTAACTTTAAAAATCTT
* *
14170221 GATATTAATT
65 GAAACTAATT
14170231 A
1 A
14170232 TCTAAAACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 9 0.13
75 58 0.87
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (74 bp):
ACCCGGAGGTTTAAGAGAAAAATGTGGCTCCTCAAAACTGAGGCAACGTAACTTTAAAAATCTTG
AAACTAATT
Found at i:14171879 original size:17 final size:18
Alignment explanation
Indices: 14171852--14171889 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
14171842 TTCCTTTCGT
14171852 TTTCAATTTTTATTTT-CA
1 TTTCAATTTTT-TTTTGCA
14171870 TTTC-ATTTTTTTTTGCA
1 TTTCAATTTTTTTTTGCA
14171887 TTT
1 TTT
14171890 TTTCAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 11 0.58
18 4 0.21
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCAATTTTTTTTTGCA
Found at i:14175111 original size:10 final size:9
Alignment explanation
Indices: 14175095--14175127 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
14175085 AATCTAAGTT
14175095 TTTTTTTTG
1 TTTTTTTTG
14175104 TATTTTTTTG
1 T-TTTTTTTG
14175114 -TTTTTTTG
1 TTTTTTTTG
14175122 TTTTTT
1 TTTTTT
14175128 ATGGTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
9 6 0.27
10 8 0.36
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:14175125 original size:24 final size:23
Alignment explanation
Indices: 14175093--14175141 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14175083 AAAATCTAAG
* *
14175093 TTTTTTTTTTGTAT-TTTTTTGT
1 TTTTTTTTTTTTATGGTTTTTGT
14175115 TTTTTTGTTTTTTATGGTTTTTGT
1 TTTTTT-TTTTTTATGGTTTTTGT
14175139 TTT
1 TTT
14175142 AAGAAATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 10 0.43
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (23 bp):
TTTTTTTTTTTTATGGTTTTTGT
Found at i:14175134 original size:18 final size:18
Alignment explanation
Indices: 14175096--14175136 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14175086 ATCTAAGTTT
*
14175096 TTTTTTTGTATTTTTTTG
1 TTTTTTTGTATTTTTTGG
14175114 TTTTTTTGT-TTTTTATGG
1 TTTTTTTGTATTTTT-TGG
14175132 TTTTT
1 TTTTT
14175137 GTTTTAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.83
Consensus pattern (18 bp):
TTTTTTTGTATTTTTTGG
Found at i:14188159 original size:14 final size:15
Alignment explanation
Indices: 14188140--14188178 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14188130 CGCTTGTTAG
14188140 ATGTCGTTGACAT-C
1 ATGTCGTTGACATCC
14188154 ATGTCG-TGACATGCC
1 ATGTCGTTGACAT-CC
14188169 ATGTCGTTGA
1 ATGTCGTTGA
14188179 AGTATTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 7 0.32
16 3 0.14
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (15 bp):
ATGTCGTTGACATCC
Found at i:14188331 original size:76 final size:76
Alignment explanation
Indices: 14188133--14188685 Score: 491
Period size: 76 Copynumber: 7.4 Consensus size: 76
14188123 CATGCTCCGC
* * * * * * *
14188133 TTGTTAGATGTCGTTGACATCATGTCGTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACG
1 TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
*
14188198 CCA----C-AC
66 CCACGCTCGAA
* * * * * * * *
14188204 TTGTTAGATGTCGTTTACGTATTGTCGTGACATGCCATGTCGTTGACGTATTATATTGTCACATG
1 TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
*
14188269 CCATGCTCGAA
66 CCACGCTCGAA
* * * * * * * *
14188280 TTGTTAGATGTCATTTATATCTTATGGTGACATGCCATGTTGTTGATGTATTATAAGGTTATATG
1 TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
14188345 CCACG-T----
66 CCACGCTCGAA
* * ** * * * *
14188351 TTGTTAGATATCATTTACATATTGTCATGACACGCCATGTCATTGACATATTATATTGTTACACA
1 TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
*
14188416 CCACGCTCAAA
66 CCACGCTCGAA
* *
14188427 TTGTTAGATGGT-GTTTACATCTTGTGGTGACACGCCATGTCGTT-ACAGTATTATAGGGTTACA
1 TTGTTAGAT-GTCATTTACATCTTGTGGTGACACGCCATGTCGTTGAC-GTATTATATGGTTACA
*
14188490 CGCCACACTCGAA
64 CGCCACGCTCGAA
* * * * * * *
14188503 TTTTTATATGTCATTTACATTTTGTGGTGACACACCATGTCGTTGGCGTATTATAAGGTTACACA
1 TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
* *
14188568 CCATGCTTGAA
66 CCACGCTCGAA
** * * * * * *
14188579 TTGTTAGATGTTGTTTATATCTTGTGGTGACATGCCATGTCGTTGATGTAGTATATTGTTACACT
1 TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
*
14188644 CCACACTCGAA
66 CCACGCTCGAA
* *
14188655 TTGTTAGATGTCATTTGCATCTTATGGTGAC
1 TTGTTAGATGTCATTTACATCTTGTGGTGAC
14188686 TCTATGCTCC
Statistics
Matches: 384, Mismatches: 84, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
71 113 0.29
72 1 0.00
75 6 0.02
76 262 0.68
77 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (76 bp):
TTGTTAGATGTCATTTACATCTTGTGGTGACACGCCATGTCGTTGACGTATTATATGGTTACACG
CCACGCTCGAA
Found at i:14188685 original size:152 final size:149
Alignment explanation
Indices: 14188133--14188670 Score: 593
Period size: 147 Copynumber: 3.6 Consensus size: 149
14188123 CATGCTCCGC
* * *
14188133 TTGTTAGATGTCGTTGACATCATGTCGTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACG
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACG
* * *
14188198 CCACAC--TTGTTAGATGTCGTTTACGTATTGTCGTGACATGCCATGTCGTTGACGTATTATATT
66 CCACACGATTGTTAGATGTCATTTACATATTGTCGTGACACGCCATGTCGTTGACGTATTATATT
* **
14188261 GTCACATGCCATGCTCGAA
131 GTTACACACCATGCTCGAA
* * * * * * * *
14188280 TTGTTAGATGTCATTTATATCTTATGGTGACATGCCATGTTGTTGATGTATTATAAGGTTATATG
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACG
* * * * *
14188345 -C-CACGTTTGTTAGATATCATTTACATATTGTCATGACACGCCATGTCATTGACATATTATATT
66 CCACACGATTGTTAGATGTCATTTACATATTGTCGTGACACGCCATGTCGTTGACGTATTATATT
* *
14188408 GTTACACACCACGCTCAAA
131 GTTACACACCATGCTCGAA
*
14188427 TTGTTAGATGGT-GTTTACATCTTGTGGTGACACGCCATGTCGTT-ACAGTATTATAGGGTTACA
1 TTGTTAGAT-GTCGTTTACATCTTGTGGTGACATGCCATGTCGTTGA-AGTATTATAGGGTTACA
* * * * * *
14188490 CGCCACACTCGAATTTTTATATGTCATTTACATTTTGTGGTGACACACCATGTCGTTGGCGTATT
64 CGCCACA--CG-ATTGTTAGATGTCATTTACATATTGTCGTGACACGCCATGTCGTTGACGTATT
** *
14188555 ATAAGGTTACACACCATGCTTGAA
126 ATATTGTTACACACCATGCTCGAA
* * * * ** *
14188579 TTGTTAGATGTTGTTTATATCTTGTGGTGACATGCCATGTCGTTGATGTAGTATATTGTTACACT
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACG
14188644 CCACACTCGAATTGTTAGATGTCATTT
66 CCACA--CG-ATTGTTAGATGTCATTT
14188671 GCATCTTATG
Statistics
Matches: 323, Mismatches: 57, Indels: 17
0.81 0.14 0.04
Matches are distributed among these distances:
145 3 0.01
146 2 0.01
147 169 0.52
148 3 0.01
149 2 0.01
151 4 0.01
152 139 0.43
153 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (149 bp):
TTGTTAGATGTCGTTTACATCTTGTGGTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACG
CCACACGATTGTTAGATGTCATTTACATATTGTCGTGACACGCCATGTCGTTGACGTATTATATT
GTTACACACCATGCTCGAA
Found at i:14188781 original size:119 final size:119
Alignment explanation
Indices: 14188577--14188796 Score: 298
Period size: 119 Copynumber: 1.8 Consensus size: 119
14188567 ACCATGCTTG
** * * **
14188577 AATTGTTAGATGTTGTTTATATCTTGTGGTGACATGCCATGTCGTTGATGTAGTATATTGTTACA
1 AATTGTTAGATGTCATTTACATCTTATGGTGACATGCCATGTCGTTGATGTAGTATAGGGTTACA
* * *
14188642 CTCCACACTCGAATTGTTAGATGTCATTTGCATCTTATGGTGACTCTATGCTCC
66 CACCACACTCCAATTGTTAGATGTCATTTACATCTTATGGTGACTCTATGCTCC
*
14188696 AATTGTTAGATGTCATTTACATCTTATGGTGACATGCCATGTCGTTGCA-GTATTATAGGGTTAC
1 AATTGTTAGATGTCATTTACATCTTATGGTGACATGCCATGTCGTTG-ATGTAGTATAGGGTTAC
* ** *
14188760 ACACTATGCTCCAATTGTTAGATGTCGTTTACATCTT
65 ACACCACACTCCAATTGTTAGATGTCATTTACATCTT
14188797 GTCATGACAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 85 0.99
120 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (119 bp):
AATTGTTAGATGTCATTTACATCTTATGGTGACATGCCATGTCGTTGATGTAGTATAGGGTTACA
CACCACACTCCAATTGTTAGATGTCATTTACATCTTATGGTGACTCTATGCTCC
Found at i:14190252 original size:81 final size:81
Alignment explanation
Indices: 14190115--14190284 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 81
14190105 GATACATCGT
* * * *
14190115 CTCCTTCAGCATCAACTGATTCAAGGTTCCCATCCCCTCCCACAACTGCATCGACAA-GTGCATT
1 CTCCTTCAGCATCAACTGATTCAAGCTGCACATCCCCTCCCACAACTGCATCGACAACGT-CATC
14190179 GACATGAGGTACATGGC
65 GACATGAGGTACATGGC
* * * * * * *
14190196 CTCCTTTAGCATCAATTGATTGAAGCTGCACATCCCTTCCCACAGCTTCATTGACAACGTCATCG
1 CTCCTTCAGCATCAACTGATTCAAGCTGCACATCCCCTCCCACAACTGCATCGACAACGTCATCG
* * *
14190261 ACATGAGTTACATTGT
66 ACATGAGGTACATGGC
14190277 CTCCTTCA
1 CTCCTTCA
14190285 ACACCAACCA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 71 0.97
82 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (81 bp):
CTCCTTCAGCATCAACTGATTCAAGCTGCACATCCCCTCCCACAACTGCATCGACAACGTCATCG
ACATGAGGTACATGGC
Found at i:14205111 original size:52 final size:52
Alignment explanation
Indices: 14205026--14205175 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 52
14205016 ACTCTTAGGT
* *
14205026 TTAGTAAGTAAG-ACTTTT-TTTTTTTGTTTTATGGACAATGTCTTAGGTCCC
1 TTAGTAA-TAAGAATTTTTATTTTTTTGTTTTATGGAAAATGTCTTAGGTCCC
* * *
14205077 TTTGTAATAAGAGTTTTTATTTTTTTGTTCTATGGAAAATGTCTTAGGTCCC
1 TTAGTAATAAGAATTTTTATTTTTTTGTTTTATGGAAAATGTCTTAGGTCCC
*
14205129 TTAGTAATAAGAATTTTTATTTTTTTTATTTTATGGAAAATGTCTTA
1 TTAGTAATAAGAATTTTTA-TTTTTTTGTTTTATGGAAAATGTCTTA
14205176 TACCTTTGTG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 4 0.05
51 10 0.11
52 48 0.55
53 25 0.29
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (52 bp):
TTAGTAATAAGAATTTTTATTTTTTTGTTTTATGGAAAATGTCTTAGGTCCC
Found at i:14216563 original size:94 final size:94
Alignment explanation
Indices: 14216457--14216936 Score: 516
Period size: 94 Copynumber: 5.1 Consensus size: 94
14216447 TGCACCTTGT
* * * * * * *
14216457 CGTGTCAAAGATTCCCTCCATGGCATGTCACAAACTCTTAACACTGGCGTGTTATAGATTCCCTC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCATAGATTCCCTC
* * * * *
14216522 TATGACGTGTCATGAACTTTGAACGCTTG
66 CATGGCGTGTCACGAACTCTGAACGCTAG
* * * *
14216551 CGTGTCATAGATTTCATCCATGGCGTCTCACCAACTCTGAACTCTAGCGTGTCATAAATTCCCTC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCATAGATTCCCTC
** *
14216616 CATGGCGCCTCACGAACTCTGAATG-TAG
66 CATGGCGTGTCACGAACTCTGAACGCTAG
* * * * * *
14216644 -GAATGTCACATATTCCCTCCATGGCGTGTCACAAACTCTGAAC-CTTGAAGTGTCACAGATTCC
1 CG--TGTCATAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAG-CGTGTCATAGATTCC
* * *
14216707 CTCCATGGCGTGTCACAAACTCTGAATGCTGG
63 CTCCATGGCGTGTCACGAACTCTGAACGCTAG
* * * * *
14216739 TGTGTCATAGATTCCTTTCATGGCGTGTCACCAACTCTAAACTCTAGCGTGTCACAGATTCCCTC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCATAGATTCCCTC
* * *
14216804 CATGGAGTCTCACGAACTCTAAACGCTAG
66 CATGGCGTGTCACGAACTCTGAACGCTAG
* * **
14216833 CGTGTCACAGACTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAGCGCATCATAGATTCCCTC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCATAGATTCCCTC
* * *
14216898 CACGGCGTGTCACAAACTCTGAACGCTGG
66 CATGGCGTGTCACGAACTCTGAACGCTAG
*
14216927 CATGTCATAG
1 CGTGTCATAG
14216937 TCGTGTCACA
Statistics
Matches: 316, Mismatches: 64, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
92 1 0.00
93 5 0.02
94 304 0.96
95 5 0.02
96 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
CGTGTCATAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCATAGATTCCCTC
CATGGCGTGTCACGAACTCTGAACGCTAG
Found at i:14216673 original size:23 final size:23
Alignment explanation
Indices: 14216647--14216725 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
14216637 AATGTAGGAA
*
14216647 TGTCACATATTCCCTCCATGGCG
1 TGTCACAAATTCCCTCCATGGCG
* *** * **
14216670 TGTCACAAACTCTGAACCTTGAAG
1 TGTCACAAATTC-CCTCCATGGCG
*
14216694 TGTCACAGATTCCCTCCATGGCG
1 TGTCACAAATTCCCTCCATGGCG
14216717 TGTCACAAA
1 TGTCACAAA
14216726 CTCTGAATGC
Statistics
Matches: 38, Mismatches: 17, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
23 23 0.61
24 15 0.39
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (23 bp):
TGTCACAAATTCCCTCCATGGCG
Found at i:14216686 original size:141 final size:141
Alignment explanation
Indices: 14216457--14216921 Score: 524
Period size: 141 Copynumber: 3.3 Consensus size: 141
14216447 TGCACCTTGT
* * * * * * *
14216457 CGTGTCAAAGATTCCCTCCATGGCATGTCACAAACTCTTAACACTGGCGTGTTATAGATTCCCTC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACTCTAGCGTGTCACAGATTCCCTC
* * * * * * * *
14216522 TATGACGTGTCATGAACTTTGAACGCTTGCGTGTCATAGATTTCATCCATGGCGTCTCACCAACT
66 CATGGCGTGTCACGAACTCTGAACGCTTGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAACT
14216587 CTGAACTCTAG
131 CTGAACTCTAG
* ** * * *
14216598 CGTGTCATAAATTCCCTCCATGGCGCCTCACGAACTCTGAA-TGTAG-GAATGTCACATATTCCC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACTCTAGCG--TGTCACAGATTCCC
* * *
14216661 TCCATGGCGTGTCACAAACTCTGAAC-CTTGAAGTGTCACAGATTCCCTCCATGGCGTGTCACAA
64 TCCATGGCGTGTCACGAACTCTGAACGCTTG-CGTGTCACAGATTCCCTCCATGGCGTGTCACCA
*
14216725 ACTCTGAA-TGCTGG
128 ACTCTGAACT-CTAG
* * * * *
14216739 TGTGTCATAGATTCCTTTCATGGCGTGTCACCAACTCTAAACTCTAGCGTGTCACAGATTCCCTC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACTCTAGCGTGTCACAGATTCCCTC
* * * * *
14216804 CATGGAGTCTCACGAACTCTAAACGCTAGCGTGTCACAGACTCCCTCCATGGCGTGTCACCAACT
66 CATGGCGTGTCACGAACTCTGAACGCTTGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAACT
14216869 CTGAACTCTAG
131 CTGAACTCTAG
** *
14216880 CGCATCATAGATTCCCTCCACGGCGTGTCACAAACTCTGAAC
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAAC
14216922 GCTGGCATGT
Statistics
Matches: 264, Mismatches: 52, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
139 1 0.00
140 7 0.03
141 247 0.94
142 8 0.03
143 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (141 bp):
CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACTCTAGCGTGTCACAGATTCCCTC
CATGGCGTGTCACGAACTCTGAACGCTTGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAACT
CTGAACTCTAG
Found at i:14216935 original size:47 final size:47
Alignment explanation
Indices: 14216457--14216936 Score: 460
Period size: 47 Copynumber: 10.2 Consensus size: 47
14216447 TGCACCTTGT
* * * *
14216457 CGTGTCAAAGATTCCCTCCATGGCATGTCACAAACTCTTAACACTGG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
* * * ** * *
14216504 CGTGTTATAGATTCCCTCTATGACGTGTCATGAACTTTGAACGCTTG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
* * * * * *
14216551 CGTGTCATAGATTTCATCCATGGCGTCTCACCAACTCTGAACTCTAG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
* ** * *
14216598 CGTGTCATAAATTCCCTCCATGGCGCCTCACGAACTCTGAATG-TAGG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCT-GG
** * * *
14216645 AATGTCACATATTCCCTCCATGGCGTGTCACAAACTCTGAAC-CTTGA
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGC-TGG
* * *
14216692 AGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAATGCTGG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
* * * * * * *
14216739 TGTGTCATAGATTCCTTTCATGGCGTGTCACCAACTCTAAACTCTAG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
* * * * * *
14216786 CGTGTCACAGATTCCCTCCATGGAGTCTCACGAACTCTAAACGCTAG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
* * * * *
14216833 CGTGTCACAGACTCCCTCCATGGCGTGTCACCAACTCTGAACTCTAG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
** *
14216880 CGCATCATAGATTCCCTCCACGGCGTGTCACAAACTCTGAACGCTGG
1 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
*
14216927 CATGTCATAG
1 CGTGTCATAG
14216937 TCGTGTCACA
Statistics
Matches: 352, Mismatches: 77, Indels: 8
0.81 0.18 0.02
Matches are distributed among these distances:
46 1 0.00
47 349 0.99
48 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACGCTGG
Found at i:14216966 original size:23 final size:23
Alignment explanation
Indices: 14216936--14216982 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
14216926 GCATGTCATA
*
14216936 GTCGTGTCACACATTCCCACCAT
1 GTCGTGTCACACATTCCCAACAT
14216959 GTCGTGTCACACATTCCCAACAT
1 GTCGTGTCACACATTCCCAACAT
14216982 G
1 G
14216983 CCATTTCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (23 bp):
GTCGTGTCACACATTCCCAACAT
Found at i:14216991 original size:23 final size:23
Alignment explanation
Indices: 14216940--14216992 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
14216930 GTCATAGTCG
* * *
14216940 TGTCACACATTCCCACCATGTCG
1 TGTCACACATTCCCAACATGCCA
14216963 TGTCACACATTCCCAACATGCCA
1 TGTCACACATTCCCAACATGCCA
*
14216986 TTTCACA
1 TGTCACA
14216993 AACTCTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.26
Consensus pattern (23 bp):
TGTCACACATTCCCAACATGCCA
Found at i:14219292 original size:45 final size:45
Alignment explanation
Indices: 14219185--14219381 Score: 234
Period size: 45 Copynumber: 4.3 Consensus size: 45
14219175 TTCCAGAAGT
* *
14219185 AAGTCTTCGTTAATCACTTCATCCAAAAATCCCAAAAACAAAAGGC
1 AAGTCTTCGTCAACCACTTCATCCAAAAATCCCAAAAAC-AAAGGC
*
14219231 AAGTCTTCGTCCACCACTTCATCCAAAAATCCCAAAAACAAAGGC
1 AAGTCTTCGTCAACCACTTCATCCAAAAATCCCAAAAACAAAGGC
* *
14219276 AAGTCTTCGTCAACCACTTCATCAAAAAATCCCAAATACAAAGGC
1 AAGTCTTCGTCAACCACTTCATCCAAAAATCCCAAAAACAAAGGC
* * * * * *
14219321 AAGTCTTCAG-CATCCACTCCATCCATCCAAATTCCAGAAAACAAAAGA
1 AAGTCTTC-GTCAACCACTTCATCCA--AAAATCCCA-AAAACAAAGGC
*
14219369 AAGTCTTTGTCAA
1 AAGTCTTCGTCAA
14219382 TCATATCCCC
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
45 68 0.52
46 37 0.28
47 8 0.06
48 17 0.13
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (45 bp):
AAGTCTTCGTCAACCACTTCATCCAAAAATCCCAAAAACAAAGGC
Found at i:14219397 original size:93 final size:90
Alignment explanation
Indices: 14219185--14219381 Score: 220
Period size: 91 Copynumber: 2.1 Consensus size: 90
14219175 TTCCAGAAGT
* *
14219185 AAGTCTTCGTTAATCACTTCATCC-AAAAATCCCAAAAACAAAAGGCAAGTCTTCGTCCACCACT
1 AAGTCTTCGTCAACCACTTCA-CCAAAAAATCCCAAAAACAAAAGGCAAGTCTTCG-CCACCACT
* * *
14219249 TCATCCAAAAATCCCAAAAACAAAGGC
64 CCATCCAAAAATCCCAAAAACAAAAGA
* *
14219276 AAGTCTTCGTCAACCACTTCATCAAAAAATCCCAAATAC-AAAGGCAAGTCTTCAG-CATCCACT
1 AAGTCTTCGTCAACCACTTCACCAAAAAATCCCAAAAACAAAAGGCAAGTCTTC-GCCA-CCACT
* *
14219339 CCATCCATCCAAATTCCAGAAAACAAAAGA
64 CCATCCA--AAAATCCCA-AAAACAAAAGA
*
14219369 AAGTCTTTGTCAA
1 AAGTCTTCGTCAA
14219382 TCATATCCCC
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
89 2 0.02
90 26 0.29
91 34 0.38
92 7 0.08
93 21 0.23
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (90 bp):
AAGTCTTCGTCAACCACTTCACCAAAAAATCCCAAAAACAAAAGGCAAGTCTTCGCCACCACTCC
ATCCAAAAATCCCAAAAACAAAAGA
Done.