Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 42 of 50
Found at i:17863091 original size:110 final size:110
Alignment explanation
Indices: 17862821--17863257 Score: 538
Period size: 110 Copynumber: 4.0 Consensus size: 110
17862811 CATCTGTAAA
* * *
17862821 TGGCATGTTGTGGGTTAACT-GATTTTTTGAGTTTTTAACGTGTCACGGTTGTTCCTGACGTGTT
1 TGGCATGTTGTGGGTTAACTGGA-TTTTTGGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTT
* * *
17862885 GTGGGTTAACTAGTTTTTTGGGTTTTTAGCATGTCAC-GCTGTTCT
65 GTGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCT
* * * * * **
17862930 TGGCATGTTGTGGGTTAATTGGATTTTTGGGTTTTTGGCATATCACAGTTGTTCCTGGCGTGTTG
1 TGGCATGTTGTGGGTTAACTGGATTTTTGGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTTG
* *
17862995 TGGGTTAATTGGTTTTTTGAGTTTTTAGTGTGTCACGGCTGTTCT
66 TGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCT
* ** ** * * * * *
17863040 TGGCGTGTAATGGGTTAACTGGATTTTTTTGTTTTTGGCCTGTCATGGTTGTTTCTAGCGTGTTG
1 TGGCATGTTGTGGGTTAACTGGATTTTTGGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTTG
*
17863105 TGGGTTAACTGGTTTTTT-AGGTTTTTAGCGTGTCATGGCTGTTCT
66 TGGGTTAACTGGTTTTTTGA-GTTTTTAGCGTGTCACGGCTGTTCT
* *
17863150 TGACATGTTGTAGGTTAACTGGATTTTTGGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTTG
1 TGGCATGTTGTGGGTTAACTGGATTTTTGGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTTG
* * * * *
17863215 TAGGTTAATTGGTTTTTGGTGTTTTTAGTGTGTCACGGCTGTT
66 TGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTT
17863258 GGTGTAACGA
Statistics
Matches: 278, Mismatches: 46, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
109 86 0.31
110 192 0.69
ACGTcount: A:0.13, C:0.11, G:0.30, T:0.47
Consensus pattern (110 bp):
TGGCATGTTGTGGGTTAACTGGATTTTTGGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTTG
TGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCT
Found at i:17863214 original size:220 final size:219
Alignment explanation
Indices: 17862831--17863257 Score: 615
Period size: 220 Copynumber: 1.9 Consensus size: 219
17862821 TGGCATGTTG
*
17862831 TGGGTTAACTGATTTTTTGAGTTTTTAACGTGTCACGGTTGTTCCTGACGTGTTGTGGGTTAACT
1 TGGGTTAACTGATTTTTTGAGTTTTTAACCTGTCACGGTTGTTCCTGACGTGTTGTGGGTTAACT
* * * *
17862896 AGTTTTTTGGGTTTTTAGCATGTCACGCTGTTCTTGGCATGTTGTGGGTTAATTGGATTTTTGGG
66 AGTTTTTTAGGTTTTTAGCATGTCACGCTGTTCTTGACATGTTGTAGGTTAACTGGATTTTTGGG
* ** * *
17862961 TTTTTGGCATATCACAGTTGTTCCTGGCGTGTTGTGGGTTAATTGGTTTTTTGAGTTTTTAGTGT
131 TTTTTGACATATCACAGTTGTTCCTAACGTGTTGTAGGTTAATTGGTTTTTGGAGTTTTTAGTGT
17863026 GTCACGGCTGTTCTTGGCGTGTAA
196 GTCACGGCTGTTCTTGGCGTGTAA
* ** * *
17863050 TGGGTTAACTGGATTTTTT-TGTTTTTGGCCTGTCATGGTTGTTTCT-AGCGTGTTGTGGGTTAA
1 TGGGTTAACT-GATTTTTTGAGTTTTTAACCTGTCACGGTTGTTCCTGA-CGTGTTGTGGGTTAA
* * *
17863113 CTGGTTTTTTAGGTTTTTAGCGTGTCATGGCTGTTCTTGACATGTTGTAGGTTAACTGGATTTTT
64 CTAGTTTTTTAGGTTTTTAGCATGTCA-CGCTGTTCTTGACATGTTGTAGGTTAACTGGATTTTT
* * * *
17863178 GGGTTTTTGACGTGTCACGGTTGTTCCTAACGTGTTGTAGGTTAATTGGTTTTTGGTGTTTTTAG
128 GGGTTTTTGACATATCACAGTTGTTCCTAACGTGTTGTAGGTTAATTGGTTTTTGGAGTTTTTAG
17863243 TGTGTCACGGCTGTT
193 TGTGTCACGGCTGTT
17863258 GGTGTAACGA
Statistics
Matches: 183, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
218 1 0.01
219 70 0.38
220 112 0.61
ACGTcount: A:0.13, C:0.11, G:0.29, T:0.47
Consensus pattern (219 bp):
TGGGTTAACTGATTTTTTGAGTTTTTAACCTGTCACGGTTGTTCCTGACGTGTTGTGGGTTAACT
AGTTTTTTAGGTTTTTAGCATGTCACGCTGTTCTTGACATGTTGTAGGTTAACTGGATTTTTGGG
TTTTTGACATATCACAGTTGTTCCTAACGTGTTGTAGGTTAATTGGTTTTTGGAGTTTTTAGTGT
GTCACGGCTGTTCTTGGCGTGTAA
Found at i:17863328 original size:31 final size:30
Alignment explanation
Indices: 17863290--17863395 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 30
17863280 AGTGATTGGT
17863290 GTGTCACGACACTTGACTTGATATGCATGGC
1 GTGTCACGACA-TTGACTTGATATGCATGGC
17863321 GTGTCACGACATTGGACTTGATATGCATGGC
1 GTGTCACGACATT-GACTTGATATGCATGGC
* ** *
17863352 GTGTTATAACATTTTACTTGATATGCATGGC
1 GTGTCACGACA-TTGACTTGATATGCATGGC
* *
17863383 GTGTAACAACATT
1 GTGTCACGACATT
17863396 TATTTCTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.06
31 61 0.91
32 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (30 bp):
GTGTCACGACATTGACTTGATATGCATGGC
Found at i:17863396 original size:31 final size:31
Alignment explanation
Indices: 17863302--17863396 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
17863292 GTCACGACAC
* *
17863302 TTGACTTGATATGCATGGCGTGTCACGACAT
1 TTGACTTGATATGCATGGCGTGTAACAACAT
* * *
17863333 TGGACTTGATATGCATGGCGTGTTATAACAT
1 TTGACTTGATATGCATGGCGTGTAACAACAT
*
17863364 TTTACTTGATATGCATGGCGTGTAACAACAT
1 TTGACTTGATATGCATGGCGTGTAACAACAT
17863395 TT
1 TT
17863397 ATTTCTTTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (31 bp):
TTGACTTGATATGCATGGCGTGTAACAACAT
Found at i:17865828 original size:81 final size:81
Alignment explanation
Indices: 17865645--17865829 Score: 309
Period size: 81 Copynumber: 2.3 Consensus size: 81
17865635 ATCAGATGAT
* * *
17865645 GCTGAAGGAGTCCATGTTCTTAAGGCTGATTCGGTTATCGATGTATCTGTGGGAGGGGAAGAGGA
1 GCTGAAGGAGTCCATGTTCTTGAGGCTGATTCGGTTATCGATGCATCTGCGGGAGGGGAAGAGGA
17865710 CCTTCACTCACTCGTG
66 CCTTCACTCACTCGTG
*
17865726 GTTGAAGGAGTCCATGTTCTTGAGGCTGATTCGGTTATCGATGCATCTGCGGGAGGGG-AGAGAG
1 GCTGAAGGAGTCCATGTTCTTGAGGCTGATTCGGTTATCGATGCATCTGCGGGAGGGGAAGAG-G
*
17865790 AGCTTCACTCACTCGTG
65 ACCTTCACTCACTCGTG
17865807 GCTGAAGGAGTCCATGTTCTTGA
1 GCTGAAGGAGTCCATGTTCTTGA
17865830 AGTCGCTCGT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 4 0.04
81 93 0.96
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (81 bp):
GCTGAAGGAGTCCATGTTCTTGAGGCTGATTCGGTTATCGATGCATCTGCGGGAGGGGAAGAGGA
CCTTCACTCACTCGTG
Found at i:17867377 original size:86 final size:86
Alignment explanation
Indices: 17867270--17868032 Score: 950
Period size: 86 Copynumber: 8.9 Consensus size: 86
17867260 TGAGGCATGG
* * *
17867270 CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCAGAAGTCTGCATGCACTCAACGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
17867335 GTCACCACAATTGGCCCGTGC
66 GTCACCACAATTGGCCCGTGC
* * * ** * *
17867356 CGTGTCACCCTATAAGACTGCAACAAGTTAGCGTGTCGCGCCATAAGTCTGCATGCACTTAGTGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
* * *
17867421 GTCACCATAATTAGCCTGTGC
66 GTCACCACAATTGGCCCGTGC
* * * * * * * *
17867442 CGTGTCACCCCACAAGACTACAACAAGTCAGCATGTCACGTCAGAAGTCTGCATACACTTAACGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
*
17867507 GTCACCACAATTGGCCTGTGC
66 GTCACCACAATTGGCCCGTGC
* * * * * *
17867528 TGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCATGCTAGAAGTCTGCATACACTCAACGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
* *
17867593 GTCACCACAATTGGCCCATGT
66 GTCACCACAATTGGCCCGTGC
* * * *
17867614 CGTGTCACCCCACAAGACTGCAACAAGTCAGCATGTCACGCCATAAGTCTGTATGCACTCAACGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
* * *
17867679 GTCACCATAATTGGCCCGCGA
66 GTCACCACAATTGGCCCGTGC
*
17867700 CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
*
17867765 GTCACCACAATTGGCCGGTGC
66 GTCACCACAATTGGCCCGTGC
* * * *
17867786 CATGTCACCCCACAAGACTACAACAAGTCAACGTGTCATGCCATAAGTCTGCATGCACTCAGTGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
*
17867851 GTCACCACAATTGGCTCGTGC
66 GTCACCACAATTGGCCCGTGC
* * * * *
17867872 CGTGTCACCCCACAAGACTGCAACAAGTTAGTGTGTCATGCCAGAAGTTTGCATTCACTCAGCGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
* * * ***
17867937 GGCACCATAATTGACCCCAAC
66 GTCACCACAATTGGCCCGTGC
** * * * * ** *
17867958 TATGTCACCCTACAAGACTGCAACAAGTTAACGTGTCACGTTATAAGTCTGCATGCACTTAGCGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
17868023 GTCACCACAA
66 GTCACCACAA
17868033 GCATCTGCTC
Statistics
Matches: 584, Mismatches: 93, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 584 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (86 bp):
CGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCATGCCATAAGTCTGCATGCACTCAGCGT
GTCACCACAATTGGCCCGTGC
Found at i:17867728 original size:258 final size:258
Alignment explanation
Indices: 17867270--17868032 Score: 1078
Period size: 258 Copynumber: 3.0 Consensus size: 258
17867260 TGAGGCATGG
17867270 CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCAGAAGTCTGCATGCACTCAACGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCAGAAGTCTGCATGCACTCAACGT
* * *
17867335 GTCACCACAATTGGCCCGTGCCGTGTCACCCTATAAGACTGCAACAAGTTAGCGTGTCGCGCCAT
66 GTCACCACAATTGGCCCGTGCCGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAT
* * * * * * *
17867400 AAGTCTGCATGCACTTAGTGTGTCACCATAATTAGCCTGTGCCGTGTCACCCCACAAGACTACAA
131 AAGTCTGCATGCACTCAGCGTGTCACCATAATTGGCCCGCGACGTGTCACCCCACAAGACTGCAA
* * * * * *
17867465 CAAGTCAGCATGTCACGTCAGAAGTCTGCATACACTTAACGTGTCACCACAATTGGCCTGTGC
196 CAAGTCAACGTGTCACGTCATAAGTCTGCATGCACTTAGCGTGTCACCACAATTGGCCGGTGC
* * * * *
17867528 TGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCATGCTAGAAGTCTGCATACACTCAACGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCAGAAGTCTGCATGCACTCAACGT
* * * *
17867593 GTCACCACAATTGGCCCATGTCGTGTCACCCCACAAGACTGCAACAAGTCAGCATGTCACGCCAT
66 GTCACCACAATTGGCCCGTGCCGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAT
* *
17867658 AAGTCTGTATGCACTCAACGTGTCACCATAATTGGCCCGCGACGTGTCACCCCACAAGACTGCAA
131 AAGTCTGCATGCACTCAGCGTGTCACCATAATTGGCCCGCGACGTGTCACCCCACAAGACTGCAA
* * *
17867723 CAAGTCAACGTGTCATGCCATAAGTCTGCATGCACTCAGCGTGTCACCACAATTGGCCGGTGC
196 CAAGTCAACGTGTCACGTCATAAGTCTGCATGCACTTAGCGTGTCACCACAATTGGCCGGTGC
* * * **
17867786 CATGTCACCCCACAAGACTACAACAAGTCAACGTGTCATGCCATAAGTCTGCATGCACTCAGTGT
1 CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCAGAAGTCTGCATGCACTCAACGT
* * * *
17867851 GTCACCACAATTGGCTCGTGCCGTGTCACCCCACAAGACTGCAACAAGTTAGTGTGTCATGCCAG
66 GTCACCACAATTGGCCCGTGCCGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAT
* * * * * * *
17867916 AAGTTTGCATTCACTCAGCGTGGCACCATAATTGACCC-CAACTATGTCACCCTACAAGACTGCA
131 AAGTCTGCATGCACTCAGCGTGTCACCATAATTGGCCCGCGAC-GTGTCACCCCACAAGACTGCA
* *
17867980 ACAAGTTAACGTGTCACGTTATAAGTCTGCATGCACTTAGCGTGTCACCACAA
195 ACAAGTCAACGTGTCACGTCATAAGTCTGCATGCACTTAGCGTGTCACCACAA
17868033 GCATCTGCTC
Statistics
Matches: 442, Mismatches: 62, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
257 3 0.01
258 439 0.99
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (258 bp):
CGTGTCACCCCACAAGACTGCAACAAGTCAACGTGTCATGCCAGAAGTCTGCATGCACTCAACGT
GTCACCACAATTGGCCCGTGCCGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAT
AAGTCTGCATGCACTCAGCGTGTCACCATAATTGGCCCGCGACGTGTCACCCCACAAGACTGCAA
CAAGTCAACGTGTCACGTCATAAGTCTGCATGCACTTAGCGTGTCACCACAATTGGCCGGTGC
Found at i:17873360 original size:31 final size:31
Alignment explanation
Indices: 17873325--17873920 Score: 881
Period size: 31 Copynumber: 19.2 Consensus size: 31
17873315 CATGTTGTTG
* *
17873325 CACGCCATGCATATAACGTAAAATGTTGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
*
17873356 CACGCCATGCATATAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
*
17873387 CACGCCATGCATATAACGTAAAATG-GGATAA
1 CACGCCATGCATGTAACGTAAAATGTGG-TAA
*
17873418 CACGCCATGCATGTAACGTAAAATGTGGAAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873449 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873480 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873511 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873542 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873573 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873604 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873635 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
17873666 CACGCCATGCATGTAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
*
17873697 CACGCCATGCATGTAACGTTAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
* * *
17873728 CACGTCATACATATAACGTAAAATGTGGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
* * ** *
17873759 CATGCCATACATAAAACGTAAAATGTTGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
* ** * *
17873790 CACACCATGCATAAAACATAAAATGTGGTAG
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
* *
17873821 CACGCCATGCATATAACGTAAAATGTGGTAG
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
* ** * * *
17873852 CATGGTATGCATATAACGTAAAATTTTGTAA
1 CACGCCATGCATGTAACGTAAAATGTGGTAA
* * * *
17873883 CACAG-TATGCATATAATGTAAAATGTTGTAA
1 CAC-GCCATGCATGTAACGTAAAATGTGGTAA
17873914 CACGCCA
1 CACGCCA
17873921 ATGCTGACAC
Statistics
Matches: 529, Mismatches: 32, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
30 3 0.01
31 523 0.99
32 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (31 bp):
CACGCCATGCATGTAACGTAAAATGTGGTAA
Found at i:17874282 original size:63 final size:64
Alignment explanation
Indices: 17874164--17874292 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 64
17874154 AATAGACCAC
* * * *
17874164 AGCTCGATGATGATGGTGCTCAACAGAGAGTTGATAGGGCTCATACAGTTTAGAGAGCTAAGAG
1 AGCTCGATGATGATGGTGCTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAGAGAGCTAAGAG
* * * * * * *
17874228 AGCT-GATGATGATGGTGCTCAATAGAGAGTTGGCAGAGTTGAGACTGTTCAGAGAGTTGAGAG
1 AGCTCGATGATGATGGTGCTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAGAGAGCTAAGAG
17874291 AG
1 AG
17874293 AAATATGACC
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
63 50 0.93
64 4 0.07
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (64 bp):
AGCTCGATGATGATGGTGCTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAGAGAGCTAAGAG
Found at i:17897906 original size:30 final size:30
Alignment explanation
Indices: 17897843--17897906 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
17897833 TAATAATGAA
**
17897843 TTATTTGACTCAAAATAAAAGTAAAAGGGC
1 TTATTTGACTCAAAATAAAAGTAAAAGAAC
* * * *
17897873 TTATTTGGCTCAAAATAAGAGTACAATAAC
1 TTATTTGACTCAAAATAAAAGTAAAAGAAC
17897903 TTAT
1 TTAT
17897907 ACGTAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (30 bp):
TTATTTGACTCAAAATAAAAGTAAAAGAAC
Found at i:17905704 original size:22 final size:22
Alignment explanation
Indices: 17905679--17905730 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
17905669 TCAAGCAATT
17905679 TACTTTGTGCTTAGATTTTAAG
1 TACTTTGTGCTTAGATTTTAAG
17905701 TACTTTGTGCTTAGATTTTAAG
1 TACTTTGTGCTTAGATTTTAAG
17905723 TACTTTGT
1 TACTTTGT
17905731 TTTTCTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (22 bp):
TACTTTGTGCTTAGATTTTAAG
Found at i:17908607 original size:27 final size:27
Alignment explanation
Indices: 17908577--17908684 Score: 90
Period size: 28 Copynumber: 3.9 Consensus size: 27
17908567 ACATAAATGC
17908577 TAAATTTTCAACATGACGTATAACAAT
1 TAAATTTTCAACATGACGTATAACAAT
* * ** *
17908604 TAAATCTTCAATACAACGTATAACAAC
1 TAAATTTTCAACATGACGTATAACAAT
* * * *
17908631 TACATTTCTCAATATTACGTGTAACAAT
1 TAAATTT-TCAACATGACGTATAACAAT
* * *
17908659 TAAATTTTAAAACATGCCATATAACA
1 TAAATTTT-CAACATGACGTATAACA
17908685 CTATATTTTT
Statistics
Matches: 61, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
27 28 0.46
28 33 0.54
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (27 bp):
TAAATTTTCAACATGACGTATAACAAT
Found at i:17908665 original size:28 final size:27
Alignment explanation
Indices: 17908577--17908666 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
17908567 ACATAAATGC
* *
17908577 TAAATTTTCAACATGACGTATAACAAT
1 TAAATTTTCAATATAACGTATAACAAT
* * *
17908604 TAAATCTTCAATACAACGTATAACAAC
1 TAAATTTTCAATATAACGTATAACAAT
* * *
17908631 TACATTTCTCAATATTACGTGTAACAAT
1 TAAATTT-TCAATATAACGTATAACAAT
17908659 TAAATTTT
1 TAAATTTT
17908667 AAAACATGCC
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 28 0.56
28 22 0.44
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (27 bp):
TAAATTTTCAATATAACGTATAACAAT
Found at i:17919404 original size:19 final size:21
Alignment explanation
Indices: 17919365--17919405 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17919355 AATTTTAATT
17919365 TATATTAAAAAAATTGACATAA
1 TATATTAAAAAAATT-ACATAA
17919387 TATA-TAAAAAAATT-CATAA
1 TATATTAAAAAAATTACATAA
17919406 ACTATTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (21 bp):
TATATTAAAAAAATTACATAA
Found at i:17923911 original size:23 final size:23
Alignment explanation
Indices: 17923852--17923923 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
17923842 CAATTATCTA
*
17923852 TTTTT-TTGTCAT-TTATTGTTAT
1 TTTTTATTATCATATTATT-TTAT
*
17923874 TTAATTATTAT--TATTATTTTAT
1 TT-TTTATTATCATATTATTTTAT
17923896 TTTTTATTATCATATT-TTTCTAT
1 TTTTTATTATCATATTATTT-TAT
17923919 TTTTT
1 TTTTT
17923924 TCTTATTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 7 0.17
22 12 0.29
23 19 0.46
24 3 0.07
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (23 bp):
TTTTTATTATCATATTATTTTAT
Found at i:17923940 original size:27 final size:28
Alignment explanation
Indices: 17923888--17923941 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
17923878 TTATTATTAT
*
17923888 TATTTTATTTTTTATTATCATATTTTTC
1 TATTTTATTTCTTATTATCATATTTTTC
* *
17923916 TATTTT-TTTCTTATTATGATTTTTTT
1 TATTTTATTTCTTATTATCATATTTTT
17923942 AAGCAATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (28 bp):
TATTTTATTTCTTATTATCATATTTTTC
Found at i:17924268 original size:15 final size:16
Alignment explanation
Indices: 17924250--17924286 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17924240 TATTTACCTG
17924250 TTATTTGT-TTATTTA
1 TTATTTGTATTATTTA
17924265 TTATTT-TATTATTTA
1 TTATTTGTATTATTTA
*
17924280 TTTTTTG
1 TTATTTG
17924287 AATGATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TTATTTGTATTATTTA
Found at i:17926111 original size:37 final size:37
Alignment explanation
Indices: 17926070--17926319 Score: 367
Period size: 37 Copynumber: 6.8 Consensus size: 37
17926060 TTTTTGTTTG
*
17926070 ATAAACTTCTCAAAATTGAGGCAATGAAACTTTAAAA
1 ATAAACTCCTCAAAATTGAGGCAATGAAACTTTAAAA
17926107 ATAAACTCCTCAAAATTGAGGCAATGAAACTTT-AAA
1 ATAAACTCCTCAAAATTGAGGCAATGAAACTTTAAAA
* * * *
17926143 ATAAATTCCTCAAAATTGAGGTAACGAAATTTTTAAAA
1 ATAAACTCCTCAAAATTGAGGCAATGAAA-CTTTAAAA
* *
17926181 CTAAACTCCTCAAAATTGAGGCAACGAAACTTTAAAA
1 ATAAACTCCTCAAAATTGAGGCAATGAAACTTTAAAA
** *
17926218 ATGGATTCCTCAAAATTGAGGCAATGAAACTTTAAAA
1 ATAAACTCCTCAAAATTGAGGCAATGAAACTTTAAAA
* *
17926255 ATAAAATCCTCAAAATTGAGGCAATGAAACTTTAAGA
1 ATAAACTCCTCAAAATTGAGGCAATGAAACTTTAAAA
*
17926292 ATAAACTACTCAAAATTGAGGCAATGAA
1 ATAAACTCCTCAAAATTGAGGCAATGAA
17926320 CTCCTCAAAA
Statistics
Matches: 191, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
36 29 0.15
37 133 0.70
38 29 0.15
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (37 bp):
ATAAACTCCTCAAAATTGAGGCAATGAAACTTTAAAA
Found at i:17926336 original size:97 final size:98
Alignment explanation
Indices: 17926224--17926409 Score: 252
Period size: 97 Copynumber: 1.9 Consensus size: 98
17926214 AAAAATGGAT
* * *
17926224 TCCTCAAAATTGAGGCAATGAAACTT-TAAAAATAAAATCCTCAAAATTGAGGCAATGAA-AC-T
1 TCCTCAAAACTGAGGCAACGAAACTTCT-AAAATAAAATCCTCAAAACTGAGGCAAT-AAGACTT
* *
17926286 TTAAGAATAAACTACTCAAAATTGAGGCAATGAAC
64 TTAAAAATAAACTACTCAAAACTGAGGCAATGAAC
* *
17926321 TCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGAGGCAATAAGACTTTT
1 TCCTCAAAACTGAGGCAACGAAACTTCTAAAATAAAATCCTCAAAACTGAGGCAATAAGACTTTT
* *
17926386 AAAAATGAACTCCTCAAAACTGAG
66 AAAAATAAACTACTCAAAACTGAG
17926410 ACAACGAAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
96 2 0.03
97 51 0.66
98 24 0.31
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (98 bp):
TCCTCAAAACTGAGGCAACGAAACTTCTAAAATAAAATCCTCAAAACTGAGGCAATAAGACTTTT
AAAAATAAACTACTCAAAACTGAGGCAATGAAC
Found at i:17926343 original size:134 final size:136
Alignment explanation
Indices: 17926184--17926900 Score: 367
Period size: 150 Copynumber: 5.0 Consensus size: 136
17926174 TTTAAAACTA
* * * *
17926184 AACTCCTCAAAATTGAGGCAACGAAACTT-TAAAAATGGATTCCTCAAAATTGAGGCAATGAA-A
1 AACTCCTCAAAACTGAGGCAACGAAACTTCT-AAAATGAACTCCTCAAAACTGAGGCAAT-AAGA
* * * *
17926247 C-TTTAAAAATAAAATCCTCAAAATTGAGGCAATGAAAC-TTTAAGAATAAACTACTCAAAATTG
64 CTTTTAAAAATAAAATCCTCAAAACTGAGACAACGAAACTTTTAAAAATAAACTACTCAAAATTG
17926310 AGGCAATG
129 AGGCAATG
17926318 AACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGAGGCAATAAGACT
1 AACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGAGGCAATAAGACT
* * * * ** *
17926383 TTTAAAAATGAACTCCTCAAAACTGAGACAACGAAACTTTTAAAAATGAACTCCTCAAAGCTAAG
66 TTTAAAAATAAAATCCTCAAAACTGAGACAACGAAACTTTTAAAAATAAACTACTCAAAATTGAG
17926448 GCAATG
131 GCAATG
* * *
17926454 ACACTTTTAAAAATGAAATCCTCAAAACTGAGGCAATG-AACTTTTAAAATGAACTCCTCAAAGC
1 A-AC--------------TCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAAC
* * * * * * *
17926518 TGCGGCAACGAA-ACTTTTAAAAATGAACTCCTCAAACCTGAGGCAACG-AACTTTT-AAAATGA
51 TGAGGCAA-TAAGACTTTTAAAAATAAAATCCTCAAAACTGAGACAACGAAACTTTTAAAAATAA
* ** *
17926580 ACTTCTCAAAGCTGAGGCAACGAAACTTCTAAAAATA
115 ACTACTCAAAATTGA-G----G------C----AATG
* * * *
17926617 AACTCCTCAAAACTAAGACAACGAAACTTCTAAAAATGAACTCCTCAAAGCTGAGGCAA-CAGAA
1 AACTCCTCAAAACTGAGGCAACGAAACTTCT-AAAATGAACTCCTCAAAACTGAGGCAATAAG-A
* * * * * * * **
17926681 CTTTTAAAAAATGAAACTCCCCAAAGCTGAGGCAACGGAACTTTT-AAAATGAACTCCTCAAAGC
64 CTTTT-AAAAAT-AAAATCCTCAAAACTGAGACAACGAAACTTTTAAAAATAAACTACTCAAAAT
17926745 TGAGGCAACGAAACTTTTAAAAATG
127 TGA-G----G---C-------AATG
* * * * * * * *
17926770 AACTCCTCAAAGCTGAGGTAACGAAGCTTTTTAAAATGAACTCCTTAAAGCTGAGGCAACAAAAC
1 AACTCCTCAAAACTGAGGCAACGAAAC-TTCTAAAATGAACTCCTCAAAACTGAGGCAATAAGAC
* * * * * * *
17926835 TTTTAAAAATGAATTCCTCAAAGCTGAGGCAACGAAAC-TTTAAAAATGAACTCCTCAAAGTTGA
65 TTTTAAAAATAAAATCCTCAAAACTGAGACAACGAAACTTTTAAAAATAAACTACTCAAAATTGA
17926899 GG
130 GG
17926901 TAACGAAAAT
Statistics
Matches: 482, Mismatches: 53, Indels: 84
0.78 0.09 0.14
Matches are distributed among these distances:
133 2 0.00
134 55 0.11
135 33 0.07
136 28 0.06
137 2 0.00
146 1 0.00
148 38 0.08
149 14 0.03
150 102 0.21
151 72 0.15
152 27 0.06
153 97 0.20
154 4 0.01
159 1 0.00
162 2 0.00
163 4 0.01
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.22
Consensus pattern (136 bp):
AACTCCTCAAAACTGAGGCAACGAAACTTCTAAAATGAACTCCTCAAAACTGAGGCAATAAGACT
TTTAAAAATAAAATCCTCAAAACTGAGACAACGAAACTTTTAAAAATAAACTACTCAAAATTGAG
GCAATG
Found at i:17926352 original size:23 final size:24
Alignment explanation
Indices: 17926294--17926345 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
17926284 CTTTAAGAAT
* *
17926294 AAACTACTCAAAATTGAGGCAATG
1 AAACTACTCAAAACTGAGGCAACG
*
17926318 -AACTCCTCAAAACTGAGGCAACG
1 AAACTACTCAAAACTGAGGCAACG
17926341 AAACT
1 AAACT
17926346 TCTAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (24 bp):
AAACTACTCAAAACTGAGGCAACG
Found at i:17926364 original size:60 final size:60
Alignment explanation
Indices: 17926261--17926376 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
17926251 AAAAATAAAA
* * *
17926261 TCCTCAAAATTGAGGCAATGAAACTTTAAGAATAAACTACTCAAAATTGAGGCAATGAAC
1 TCCTCAAAACTGAGGCAACGAAACTTTAAGAATAAACTACTCAAAACTGAGGCAATGAAC
* *
17926321 TCCTCAAAACTGAGGCAACGAAACTTCTAA-AATGAACTCCTCAAAACTGAGGCAAT
1 TCCTCAAAACTGAGGCAACGAAACTT-TAAGAATAAACTACTCAAAACTGAGGCAAT
17926377 AAGACTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 47 0.94
61 3 0.06
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.22
Consensus pattern (60 bp):
TCCTCAAAACTGAGGCAACGAAACTTTAAGAATAAACTACTCAAAACTGAGGCAATGAAC
Found at i:17926400 original size:38 final size:38
Alignment explanation
Indices: 17926314--17926989 Score: 913
Period size: 38 Copynumber: 17.9 Consensus size: 38
17926304 AAATTGAGGC
* *
17926314 AATGAACTCCTCAAAACTGAGGCAACGAAACTTCT-AA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* *
17926351 AATGAACTCCTCAAAACTGAGGCAA-TAAGACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAA-ACTTTTAAA
* *
17926389 AATGAACTCCTCAAAACTGAGACAACGAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * *
17926427 AATGAACTCCTCAAAGCTAAGGCAATGACACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * *
17926465 AATGAAATCCTCAAAACTGAGGCAATG-AACTTTT-AA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
*
17926501 AATGAACTCCTCAAAGCTGCGGCAACGAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
*
17926539 AATGAACTCCTCAAACCTGAGGCAACG-AACTTTT-AA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* *
17926575 AATGAACTTCTCAAAGCTGAGGCAACGAAACTTCTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * * * *
17926613 AATAAACTCCTCAAAACTAAGACAACGAAACTTCTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
17926651 AATGAACTCCTCAAAGCTGAGGCAAC-AGAACTTTTAAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGA-AACTTTT-AAA
* *
17926690 AATGAAACTCCCCAAAGCTGAGGCAACGGAACTTTT-AA
1 AATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
17926728 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * *
17926766 AATGAACTCCTCAAAGCTGAGGTAACGAAGCTTTTTAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* *
17926804 AATGAACTCCTTAAAGCTGAGGCAACAAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
*
17926842 AATGAATTCCTCAAAGCTGAGGCAACGAAAC-TTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * *
17926879 AATGAACTCCTCAAAGTTGAGGTAACGAAAATTTT-AA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
*
17926916 AATAAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
1 AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
* * *
17926954 AATGAACTCTTCAAAACTGAGGTAACGAAACCTTTT
1 AATGAACTCCTCAAAGCTGAGGCAACGAAA-CTTTT
17926990 TTTCTTTTTT
Statistics
Matches: 565, Mismatches: 59, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
36 54 0.10
37 152 0.27
38 317 0.56
39 14 0.02
40 28 0.05
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (38 bp):
AATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAA
Found at i:17933618 original size:23 final size:23
Alignment explanation
Indices: 17933567--17933630 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
17933557 CTATTTTTTG
*
17933567 TCAT-TTATTGTTATTTAATTATTA
1 TCATATTATT-TTATTT-TTTATTA
17933591 T--TATTATTTTATTTTTTATTA
1 TCATATTATTTTATTTTTTATTA
17933612 TCATATT-TTTCTATTTTTT
1 TCATATTATTT-TATTTTTT
17933631 TCTTATTATG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 7 0.20
22 10 0.29
23 17 0.49
24 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TCATATTATTTTATTTTTTATTA
Found at i:17933647 original size:27 final size:28
Alignment explanation
Indices: 17933595--17933648 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
17933585 TTATTATTAT
*
17933595 TATTTTATTTTTTATTATCATATTTTTC
1 TATTTTATTTCTTATTATCATATTTTTC
* *
17933623 TATTTT-TTTCTTATTATGATTTTTTT
1 TATTTTATTTCTTATTATCATATTTTT
17933649 AAGCAAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (28 bp):
TATTTTATTTCTTATTATCATATTTTTC
Found at i:17933968 original size:15 final size:16
Alignment explanation
Indices: 17933950--17933989 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
17933940 TATTTTTACC
17933950 TATTATTTGT-TTATT
1 TATTATTTGTATTATT
17933965 TATTATTT-TATTATT
1 TATTATTTGTATTATT
17933980 TATTTATTTG
1 TA-TTATTTG
17933990 AATGATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 15 0.68
16 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TATTATTTGTATTATT
Found at i:17935607 original size:11 final size:11
Alignment explanation
Indices: 17935591--17935661 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
17935581 TTTCTCTTTC
17935591 TATTTTTTTTT
1 TATTTTTTTTT
17935602 TATTTTTTTATT
1 TATTTTTTT-TT
*
17935614 T-TTATTTTTT
1 TATTTTTTTTT
* * *
17935624 TGTTTGTTGTT
1 TATTTTTTTTT
* *
17935635 TATCTTTTGTT
1 TATTTTTTTTT
17935646 TATTATTATTTTT
1 TATT-TT-TTTTT
17935659 TAT
1 TAT
17935662 CATATATTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
10 3 0.06
11 32 0.68
12 5 0.11
13 7 0.15
ACGTcount: A:0.13, C:0.01, G:0.06, T:0.80
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:17935610 original size:14 final size:14
Alignment explanation
Indices: 17935593--17935624 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17935583 TCTCTTTCTA
17935593 TTTTT-TTTTTATT
1 TTTTTATTTTTATT
17935606 TTTTTATTTTTATT
1 TTTTTATTTTTATT
17935620 TTTTT
1 TTTTT
17935625 GTTTGTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:17935636 original size:25 final size:26
Alignment explanation
Indices: 17935585--17935642 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
17935575 TCCCCTTTTC
* *
17935585 TCTTTCTATTTTTTTTTTATTTTTTTA
1 TCTTT-TATTTTTTTTTTAGTTGTTTA
17935612 T-TTTTATTTTTTTGTTT-GTTGTTTA
1 TCTTTTATTTTTTT-TTTAGTTGTTTA
17935637 TCTTTT
1 TCTTTT
17935643 GTTTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 16 0.59
26 10 0.37
27 1 0.04
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (26 bp):
TCTTTTATTTTTTTTTTAGTTGTTTA
Found at i:17938181 original size:18 final size:18
Alignment explanation
Indices: 17938154--17938190 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17938144 TGTCCATTTT
* *
17938154 GAAAATTAATGGACTTTC
1 GAAAACTAATGGACCTTC
17938172 GAAAACTAATGGACCTTC
1 GAAAACTAATGGACCTTC
17938190 G
1 G
17938191 TATAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (18 bp):
GAAAACTAATGGACCTTC
Found at i:17939360 original size:33 final size:32
Alignment explanation
Indices: 17939323--17939384 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
17939313 AATATAGGAA
* *
17939323 ATTATATTAAGCAATGAAAATAAAATATATAAG
1 ATTATAATAAGAAATGAAAATAAAA-ATATAAG
17939356 ATTATAATAAGAAATGAAAATAAAAATAT
1 ATTATAATAAGAAATGAAAATAAAAATAT
17939385 GACATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (32 bp):
ATTATAATAAGAAATGAAAATAAAAATATAAG
Found at i:17940631 original size:17 final size:18
Alignment explanation
Indices: 17940609--17940655 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
17940599 TAATTTTTAC
17940609 TAATTAAGCAAA-TATAG
1 TAATTAAGCAAACTATAG
* * *
17940626 TAATTAAGTAAACTTTGG
1 TAATTAAGCAAACTATAG
17940644 TAATTAAGCAAA
1 TAATTAAGCAAA
17940656 ATGGATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (18 bp):
TAATTAAGCAAACTATAG
Found at i:17951759 original size:9 final size:9
Alignment explanation
Indices: 17951745--17951774 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17951735 TCTAGTTGTA
*
17951745 CTTCTTTAT
1 CTTCTTTTT
17951754 CTTCTTTTT
1 CTTCTTTTT
17951763 CTTCTTTTT
1 CTTCTTTTT
17951772 CTT
1 CTT
17951775 GGGTATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (9 bp):
CTTCTTTTT
Found at i:17954933 original size:73 final size:73
Alignment explanation
Indices: 17954744--17954944 Score: 240
Period size: 73 Copynumber: 2.8 Consensus size: 73
17954734 AAGATGGCCA
* * * ** * *
17954744 GTTCAAAGATAGAGACGACTTAATCGACTAAAAAGCCTAGTTAATTGACTAAGAGCTTCCTGCTA
1 GTTCAAAGATAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCTTACTGCCA
* *
17954809 GAAACCGG
66 AAAACCAG
* * * * *
17954817 GTTTAGAGACAAAGACGACTTAATCGACTAAGAAGCATAGTTAGTCAATTAAGAGCTTACTGCCA
1 GTTCAAAGATAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCTTACTGCCA
*
17954882 AAAACTAG
66 AAAACCAG
* * *
17954890 GTTCAAAGATAGAGACAACTTAATCGACTAAGAAGCATAGTTAGTCGACTTAGAG
1 GTTCAAAGATAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAG
17954945 TATTTTGTCT
Statistics
Matches: 105, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
73 105 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (73 bp):
GTTCAAAGATAGAGACGACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCTTACTGCCA
AAAACCAG
Found at i:17956459 original size:18 final size:18
Alignment explanation
Indices: 17956428--17956470 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
17956418 GAGCTTAAAG
*
17956428 AAGAG-GAAGAAAAAGAC
1 AAGAGAGAAGAAAAAGAA
*
17956445 AAGAGAGAAGCAAAAGAA
1 AAGAGAGAAGAAAAAGAA
17956463 AAGA-AGAA
1 AAGAGAGAA
17956471 AAACATTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAGAGAAGAAAAAGAA
Found at i:17958254 original size:15 final size:15
Alignment explanation
Indices: 17958234--17958275 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
17958224 GAGTGATCAT
17958234 GGAGGTGAGTTTGAG
1 GGAGGTGAGTTTGAG
17958249 GGAGGTGAGTTTGAG
1 GGAGGTGAGTTTGAG
*
17958264 GGAGATGAGTTT
1 GGAGGTGAGTTT
17958276 AAAGACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (15 bp):
GGAGGTGAGTTTGAG
Found at i:17961088 original size:20 final size:20
Alignment explanation
Indices: 17961065--17961102 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17961055 GAAGAAACAG
* *
17961065 AGAGAGAAAGAACGAAAATC
1 AGAGAAAAAGAAAGAAAATC
17961085 AGAGAAAAAGAAAGAAAA
1 AGAGAAAAAGAAAGAAAA
17961103 AGAAAAATGC
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:0.68, C:0.05, G:0.24, T:0.03
Consensus pattern (20 bp):
AGAGAAAAAGAAAGAAAATC
Found at i:17963779 original size:73 final size:73
Alignment explanation
Indices: 17963689--17963853 Score: 260
Period size: 73 Copynumber: 2.3 Consensus size: 73
17963679 TTAAAGACAA
* * *
17963689 AGACAACTTAATCGACTAAAAAGCATAGTTAGTTGACTAAGAGCTTACTGCCAGAAATCAG-GTT
1 AGACGACTTAATCGACTAAAAAGCATAGTTAGTCGACTAAGAGCTTAATGCCAGAAAT-AGAGTT
17963753 CAGAGATAG
65 CAGAGATAG
* * *
17963762 AGACGACTTAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTAATGTCAGAAATTGAGTTC
1 AGACGACTTAATCGACTAAAAAGCATAGTTAGTCGACTAAGAGCTTAATGCCAGAAATAGAGTTC
17963827 AGAGATAG
66 AGAGATAG
17963835 AGACGACTTAATCGACTAA
1 AGACGACTTAATCGACTAA
17963854 TAGCATTCTG
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
72 1 0.01
73 84 0.99
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (73 bp):
AGACGACTTAATCGACTAAAAAGCATAGTTAGTCGACTAAGAGCTTAATGCCAGAAATAGAGTTC
AGAGATAG
Found at i:17967288 original size:8 final size:8
Alignment explanation
Indices: 17967275--17967301 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17967265 TCCCAATTCT
17967275 TTTTATTA
1 TTTTATTA
17967283 TTTTATTA
1 TTTTATTA
17967291 TTTTATTA
1 TTTTATTA
17967299 TTT
1 TTT
17967302 ATTTTATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTA
Found at i:17972138 original size:11 final size:11
Alignment explanation
Indices: 17972106--17972139 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17972096 CAAAGATTAA
17972106 GGAATCTTTTT
1 GGAATCTTTTT
*
17972117 AGAATCTTTTT
1 GGAATCTTTTT
*
17972128 GGAATTTTTTT
1 GGAATCTTTTT
17972139 G
1 G
17972140 AAGATGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.56
Consensus pattern (11 bp):
GGAATCTTTTT
Found at i:17973348 original size:2 final size:2
Alignment explanation
Indices: 17973341--17973380 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
17973331 GAACAATGCT
*
17973341 CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17973381 TATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:17973492 original size:17 final size:17
Alignment explanation
Indices: 17973470--17973504 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17973460 GTTGATAGTA
*
17973470 CACATATTTAGGGGGAG
1 CACATATATAGGGGGAG
17973487 CACATATATAGGGGGAG
1 CACATATATAGGGGGAG
17973504 C
1 C
17973505 GATCCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.20
Consensus pattern (17 bp):
CACATATATAGGGGGAG
Found at i:17974563 original size:21 final size:21
Alignment explanation
Indices: 17974539--17974581 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17974529 ACGCTTGCAG
*
17974539 GGAGAAAGGAGAGAAAG-AGAA
1 GGAGAAA-GAAAGAAAGAAGAA
17974560 GGAGAAAGAAAGAAAGAAGAA
1 GGAGAAAGAAAGAAAGAAGAA
17974581 G
1 G
17974582 CCAGCGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (21 bp):
GGAGAAAGAAAGAAAGAAGAA
Found at i:17974617 original size:22 final size:22
Alignment explanation
Indices: 17974591--17974650 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
17974581 GCCAGCGGGG
*
17974591 AGAGAGAAAAGAAAGGAGAGAA
1 AGAGAGAAAAGAAAGAAGAGAA
*
17974613 AGAGAAGAAAA-AAAAAAGAGAA
1 AGAG-AGAAAAGAAAGAAGAGAA
*
17974635 AAAGA-AAAAGAAAGAA
1 AGAGAGAAAAGAAAGAA
17974651 AAAGCCGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 4 0.12
21 6 0.19
22 16 0.50
23 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
AGAGAGAAAAGAAAGAAGAGAA
Found at i:17974630 original size:16 final size:16
Alignment explanation
Indices: 17974611--17974653 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
17974601 GAAAGGAGAG
17974611 AAAGAGAAGAAAAAAA
1 AAAGAGAAGAAAAAAA
*
17974627 AAAGAG-A-AAAAGAA
1 AAAGAGAAGAAAAAAA
17974641 AAAGA-AAGAAAAA
1 AAAGAGAAGAAAAA
17974654 GCCGGTAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAGAGAAGAAAAAAA
Found at i:17974654 original size:16 final size:16
Alignment explanation
Indices: 17974611--17974654 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
17974601 GAAAGGAGAG
17974611 AAAGAGAAGAAAAA-AA
1 AAAGA-AAGAAAAAGAA
17974627 AAAG--AGAAAAAGAA
1 AAAGAAAGAAAAAGAA
17974641 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
17974655 CCGGTAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
16 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAGAA
Found at i:17974704 original size:73 final size:77
Alignment explanation
Indices: 17974543--17974728 Score: 185
Period size: 73 Copynumber: 2.5 Consensus size: 77
17974533 TTGCAGGGAG
** * *
17974543 AAAG-GAGAGAAAGAGAAGGAGAAAGAAAGAAAGAAGAAGCCAGCGGGGAGAGAGAAAAGAAAGG
1 AAAGAGAGAGAAAGAGAAAAAG-AA-AAAGAAAGAAAAAGCCAGCAGGGAGAGAGAAAAGAAAGG
17974607 AGAGAAAGAGAAGA
64 AGAGAAAGAGAAGA
* * * *
17974621 AAA-A-A-A-AAAGAGAAAAAGAAAAAGAAAGAAAAAGCCGGTAGGGTGAGAGAAAGGAAAGG-G
1 AAAGAGAGAGAAAGAGAAAAAGAAAAAGAAAGAAAAAGCCAGCAGGGAGAGAGAAAAGAAAGGAG
17974681 AG-AAG-GAA-A
66 AGAAAGAGAAGA
*
17974690 AAAGAGAGAGAAAGA-AAGAAAGAAAAGAAAAAGAAAAAG
1 AAAGAGAGAGAAAGAGAA-AAAGAAAA-AGAAAGAAAAAG
17974729 GAGAAAGGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
69 4 0.04
70 4 0.04
71 4 0.04
72 6 0.07
73 46 0.50
74 13 0.14
75 10 0.11
76 1 0.01
77 1 0.01
78 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.33, T:0.01
Consensus pattern (77 bp):
AAAGAGAGAGAAAGAGAAAAAGAAAAAGAAAGAAAAAGCCAGCAGGGAGAGAGAAAAGAAAGGAG
AGAAAGAGAAGA
Found at i:17975118 original size:27 final size:28
Alignment explanation
Indices: 17975060--17975119 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
17975050 AAATATGGGT
* * *
17975060 AAATATTTGATAAAAAATAGATATAAAC
1 AAATATTTGATAAAAAATAAATACAAAA
17975088 AAATATTTGA-ACAAAAA-AAATACAAAA
1 AAATATTTGATA-AAAAATAAATACAAAA
17975115 AAATA
1 AAATA
17975120 ATAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (28 bp):
AAATATTTGATAAAAAATAAATACAAAA
Found at i:17975165 original size:2 final size:2
Alignment explanation
Indices: 17975158--17975249 Score: 98
Period size: 2 Copynumber: 45.0 Consensus size: 2
17975148 ATAGTAAATG
17975158 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
17975200 TA GTA CTA TA NTT TA GA TA CT- TG TA AA TA TA -A TA TA TA TA TA
1 TA -TA -TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
17975242 TA TA TA TA
1 TA TA TA TA
17975250 AACAAAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
1 2 0.03
2 69 0.90
3 6 0.08
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17994785 original size:18 final size:18
Alignment explanation
Indices: 17994759--17994805 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
17994749 GAATGGTGTC
*
17994759 ATAACTAAAATAATA-ATA
1 ATAATTAAAATAATATA-A
17994777 ATAATTAAAA-AATATAA
1 ATAATTAAAATAATATAA
17994794 ATAAGTTAAAAT
1 ATAA-TTAAAAT
17994806 CTATAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATTAAAATAATATAA
Found at i:18000233 original size:2 final size:2
Alignment explanation
Indices: 18000226--18000275 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
18000216 TATTACTCAA
18000226 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
*
18000268 AT GT AT AT
1 AT AT AT AT
18000276 TAAAATCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18002787 original size:27 final size:27
Alignment explanation
Indices: 18002749--18002803 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18002739 CAGCATTTTA
18002749 ATAGTCAGTTTCAATAATCAAAGATTC
1 ATAGTCAGTTTCAATAATCAAAGATTC
18002776 ATAGTCAGTTTCAATAATCAAAGATTC
1 ATAGTCAGTTTCAATAATCAAAGATTC
18002803 A
1 A
18002804 GGGCCCAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (27 bp):
ATAGTCAGTTTCAATAATCAAAGATTC
Found at i:18007141 original size:39 final size:39
Alignment explanation
Indices: 18007096--18007178 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
18007086 TAACTTTTAC
* *
18007096 AATCACTGCCTTTTC-AAGGATAAATCATAACATATCACA
1 AATCACTGCCTTTTCAAAGG-CAAAGCATAACATATCACA
*
18007135 AATCACTGCCTTTTCAAAGGCAAAGCATAACTTATCACA
1 AATCACTGCCTTTTCAAAGGCAAAGCATAACATATCACA
18007174 AATCA
1 AATCA
18007179 GTACCATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (39 bp):
AATCACTGCCTTTTCAAAGGCAAAGCATAACATATCACA
Found at i:18007199 original size:39 final size:38
Alignment explanation
Indices: 18007096--18007200 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 38
18007086 TAACTTTTAC
* * *
18007096 AATCACTGCCTTTTCAAGGATAAATCATAACATATCACA
1 AATCACTACCATTTCAA-GATAAAGCATAACATATCACA
* * ** *
18007135 AATCACTGCCTTTTCAAAGGCAAAGCATAACTTATCACA
1 AATCACTACCATTTC-AAGATAAAGCATAACATATCACA
*
18007174 AATCAGTACCATTTCAAGATTAAAGCA
1 AATCACTACCATTTCAAGA-TAAAGCA
18007201 CAACCTTTCT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.05
39 50 0.91
40 2 0.04
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (38 bp):
AATCACTACCATTTCAAGATAAAGCATAACATATCACA
Found at i:18010308 original size:27 final size:27
Alignment explanation
Indices: 18010260--18010311 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
18010250 ATTTTCTTAC
18010260 CTAAATATGTATGTATATATATTATAT
1 CTAAATATGTATGTATATATATTATAT
* *
18010287 CTAAATATTTATTTAT-TAATATTAT
1 CTAAATATGTATGTATAT-ATATTAT
18010312 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (27 bp):
CTAAATATGTATGTATATATATTATAT
Found at i:18012773 original size:90 final size:88
Alignment explanation
Indices: 18012670--18012846 Score: 239
Period size: 88 Copynumber: 2.0 Consensus size: 88
18012660 ATCATTATAG
* * *
18012670 ATAAGGAAAATATTT-AGCTTCAAAAATTTTTAAAATATTTTATGTATTATACATTTAAAACATT
1 ATAAGGAAAATATTTAATC-CCAAAAA--TTTAAAATATTTTATATATTATACATTTAAAACATT
*
18012734 AATTAATACCATCATTATGAGAATAT
63 AATTAATACCATCATTATAAGAATAT
* *
18012760 ATAAGGAAAATATTTAATCCCCAAAATTTAAAATATTTTATATATTATATATTTAAAACATTAAT
1 ATAAGGAAAATATTTAATCCCAAAAATTTAAAATATTTTATATATTATACATTTAAAACATTAAT
* * *
18012825 TCATATCATTATTATAAGAATA
66 TAATACCATCATTATAAGAATA
18012847 CGAATTGTGC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
88 55 0.71
90 20 0.26
91 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (88 bp):
ATAAGGAAAATATTTAATCCCAAAAATTTAAAATATTTTATATATTATACATTTAAAACATTAAT
TAATACCATCATTATAAGAATAT
Found at i:18013884 original size:15 final size:15
Alignment explanation
Indices: 18013861--18013903 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18013851 ACATAAAATT
* *
18013861 AAATTAACTTAATAA
1 AAATAAACTAAATAA
18013876 AAATAAACTAAATAA
1 AAATAAACTAAATAA
18013891 AAA-ATAACTAAAT
1 AAATA-AACTAAAT
18013904 TCTAAGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAACTAAATAA
Found at i:18018814 original size:21 final size:21
Alignment explanation
Indices: 18018785--18018833 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18018775 CAACGGAATT
18018785 TTTC-GTTGGAAATAG-AAAAA
1 TTTCTGTTGGAAAT-GTAAAAA
*
18018805 TTTCTGTTGGAAATGTACAAA
1 TTTCTGTTGGAAATGTAAAAA
18018826 TTTCTGTT
1 TTTCTGTT
18018834 AAAAATGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (21 bp):
TTTCTGTTGGAAATGTAAAAA
Found at i:18018839 original size:21 final size:21
Alignment explanation
Indices: 18018802--18018841 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18018792 GGAAATAGAA
**
18018802 AAATTTCTGTTGGAAATGTAC
1 AAATTTCTGTTAAAAATGTAC
18018823 AAATTTCTGTTAAAAATGT
1 AAATTTCTGTTAAAAATGT
18018842 CTATTTCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (21 bp):
AAATTTCTGTTAAAAATGTAC
Found at i:18021094 original size:13 final size:13
Alignment explanation
Indices: 18021076--18021100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18021066 TTTCAGAAAA
18021076 TTTATAAAATCAT
1 TTTATAAAATCAT
18021089 TTTATAAAATCA
1 TTTATAAAATCA
18021101 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:18025585 original size:28 final size:28
Alignment explanation
Indices: 18025554--18025616 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
18025544 GGAAATTCAA
*
18025554 TTGGAATACAATGCAGAAAGAAAATT-CG
1 TTGGAAAACAATGCAGAAA-AAAATTCCG
* *
18025582 TTGGAAAACACTGCAGATAAAAATTCCG
1 TTGGAAAACAATGCAGAAAAAAATTCCG
18025610 TTGGAAA
1 TTGGAAA
18025617 TTTCCAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (28 bp):
TTGGAAAACAATGCAGAAAAAAATTCCG
Found at i:18028129 original size:24 final size:23
Alignment explanation
Indices: 18028093--18028138 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
18028083 GTATACATAG
18028093 ATATAATTAATTAATATAGTTTAA
1 ATATAATTAATTAATAT-GTTTAA
*
18028117 ATAT-ATTATATTACTATGTTTA
1 ATATAATTA-ATTAATATGTTTA
18028139 TTATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
ATATAATTAATTAATATGTTTAA
Found at i:18029053 original size:11 final size:11
Alignment explanation
Indices: 18029037--18029071 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
18029027 CGAAAAAATT
18029037 TCCGTTGAAAA
1 TCCGTTGAAAA
18029048 TCCGTTGAAAA
1 TCCGTTGAAAA
*
18029059 TTCCGTTGGAAA
1 -TCCGTTGAAAA
18029071 T
1 T
18029072 TTTGGTGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (11 bp):
TCCGTTGAAAA
Found at i:18029065 original size:12 final size:12
Alignment explanation
Indices: 18029031--18029072 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
18029021 TTCTAACGAA
18029031 AAAATTTCCGTTG
1 AAAA-TTCCGTTG
18029044 AAAA-TCCGTTG
1 AAAATTCCGTTG
18029055 AAAATTCCGTTG
1 AAAATTCCGTTG
*
18029067 GAAATT
1 AAAATT
18029073 TTGGTGGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.41
12 12 0.44
13 4 0.15
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (12 bp):
AAAATTCCGTTG
Found at i:18030659 original size:173 final size:172
Alignment explanation
Indices: 18030351--18030685 Score: 503
Period size: 173 Copynumber: 1.9 Consensus size: 172
18030341 TTAAATAAAG
*
18030351 GAAAAGAAAAGAATGGTTCAAGATTTTTCATAGTCTAGAAATAAACAATAGACTTCAATTTTTTC
1 GAAAAGAAAAGAATGGTTCAAGATTTTTCATAGTCTAGAAATAAACAAAAGACTTCAATTTTTTC
* * *
18030416 AAATTCGGTGCAAAATTGAAATAAAGAGAAAGTAGAAAAAAAGAAAGAAAAAGAGGGTGAAAATG
66 AAATTCAGTGCAAAATTGAAATAAAGAGAAAGTAGAAAAAAAGAAAGAAAAAGAAGATGAAAATG
* *
18030481 AACTGTAGTGAAGAAAATGGTTTTTGCGTTTTGGTCACAGAA
131 AACTGTAGGGAAGAAAACGGTTTTTGCGTTTTGGTCACAGAA
* * **
18030523 GAAAGGAAAAGAATGGTTCAAGATTTTTCATCCA-TCTTGAAATAAACAAAAGGTTTCAATTTTT
1 GAAAAGAAAAGAATGGTTCAAGATTTTTCAT--AGTCTAGAAATAAACAAAAGACTTCAATTTTT
* * *
18030587 TCAAATTTAGTGTAAAATTGAAATAAAGAGAAAGTGGAAAAAAAAGAAAGAAAAAGAAGATGAAA
64 TCAAATTCAGTGCAAAATTGAAATAAAGAGAAAGTAG-AAAAAAAGAAAGAAAAAGAAGATGAAA
*
18030652 A-GAACTGTAGGGAAGAAAACGGTTTTTGTGTTTT
128 ATGAACTGTAGGGAAGAAAACGGTTTTTGCGTTTT
18030686 AGTTACTTCT
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
172 30 0.21
173 89 0.61
174 27 0.18
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (172 bp):
GAAAAGAAAAGAATGGTTCAAGATTTTTCATAGTCTAGAAATAAACAAAAGACTTCAATTTTTTC
AAATTCAGTGCAAAATTGAAATAAAGAGAAAGTAGAAAAAAAGAAAGAAAAAGAAGATGAAAATG
AACTGTAGGGAAGAAAACGGTTTTTGCGTTTTGGTCACAGAA
Found at i:18030908 original size:26 final size:25
Alignment explanation
Indices: 18030872--18030983 Score: 107
Period size: 26 Copynumber: 4.3 Consensus size: 25
18030862 GAGATGACTG
* * * *
18030872 TAATATTTTTTGAACGTGATATGTAA
1 TAAT-TTTTTTTAATGTGATGTATAA
* *
18030898 TAATTTTTTTTAAATATGACGTATAA
1 TAATTTTTTTT-AATGTGATGTATAA
18030924 TAATTTTTTTTAATGTGATGTATAA
1 TAATTTTTTTTAATGTGATGTATAA
* * *
18030949 TAATTTTTTTCTTAATATAATATATAA
1 TAA-TTTTTT-TTAATGTGATGTATAA
18030976 TAATTTTT
1 TAATTTTT
18030984 ATTTTAATAT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
25 21 0.29
26 35 0.49
27 16 0.22
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (25 bp):
TAATTTTTTTTAATGTGATGTATAA
Found at i:18030930 original size:25 final size:25
Alignment explanation
Indices: 18030895--18030958 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
18030885 ACGTGATATG
18030895 TAATAATTTTTTTTAAATATGACGTA
1 TAATAA-TTTTTTTAAATATGACGTA
* * *
18030921 TAATAATTTTTTTTAATGTGATGTA
1 TAATAATTTTTTTAAATATGACGTA
18030946 TAATAATTTTTTT
1 TAATAATTTTTTT
18030959 CTTAATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (25 bp):
TAATAATTTTTTTAAATATGACGTA
Found at i:18030966 original size:52 final size:51
Alignment explanation
Indices: 18030872--18030983 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
18030862 GAGATGACTG
* * *
18030872 TAATATTTTTTGAACGTGATATGTAATAATTTTTTTTAAATATGACGTATAA
1 TAAT-TTTTTTGAACGTGATATATAATAATTTTTTTTAAATATAACATATAA
* * * * *
18030924 TAATTTTTTTTAATGTGATGTATAATAATTTTTTTCTTAATATAATATATAA
1 TAATTTTTTTGAACGTGATATATAATAATTTTTTT-TAAATATAACATATAA
18030976 TAATTTTT
1 TAATTTTT
18030984 ATTTTAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 27 0.53
52 24 0.47
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (51 bp):
TAATTTTTTTGAACGTGATATATAATAATTTTTTTTAAATATAACATATAA
Found at i:18030972 original size:25 final size:26
Alignment explanation
Indices: 18030888--18031012 Score: 135
Period size: 27 Copynumber: 4.8 Consensus size: 26
18030878 TTTTTGAACG
* *
18030888 TGATATGTAATAATTTTTTTTAAATA
1 TGATATATAATAATTTTTTTTTAATA
** *
18030914 TGACGTATAATAA-TTTTTTTTAATG
1 TGATATATAATAATTTTTTTTTAATA
*
18030939 TGATGTATAATAATTTTTTTCTTAATA
1 TGATATATAATAATTTTTTT-TTAATA
*
18030966 TAATATATAATAATTTTTATTTTAATA
1 TGATATATAATAATTTTT-TTTTAATA
* * *
18030993 TAATATATAAGAATATTTTT
1 TGATATATAATAATTTTTTT
18031013 GTACATGAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.26
26 18 0.21
27 43 0.51
28 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (26 bp):
TGATATATAATAATTTTTTTTTAATA
Found at i:18040884 original size:175 final size:176
Alignment explanation
Indices: 18040533--18040885 Score: 591
Period size: 175 Copynumber: 2.0 Consensus size: 176
18040523 TTACCATCTA
*
18040533 TTTTGTTCTTTATTTGGACTTCTATAATGTCTGAGATTTGAAACTGTAAATTTCATAAAGGAAAA
1 TTTTGTTCTTTATTTGGACTTCTATAATGTCTAAGATTTGAAACTGTAAATTTCATAAAGGAAAA
* * *
18040598 ATGGGCCACTGAATGACAAACTCAATGAAGCACAAACTAATGGCTGTATATTAATCAAATATGCC
66 ATGGGCCACTAAATGACAAACTCAATGAAGAACAAACTAATGGCTGTACATTAATCAAATATGCC
* *
18040663 CCAAAAGTCAAATTTGTAGGCATTCAAAACTTAGTGAAGCTAAGAG
131 CCAAAAGTCAAATTTGGAGGCAATCAAAACTTAGTGAAGCTAAGAG
* *
18040709 TTTTGTTCTTTATTTGGACTTCTATAGTGTCTAAGTTTTGAAACTGTAAATTTCATAAAGGAAAA
1 TTTTGTTCTTTATTTGGACTTCTATAATGTCTAAGATTTGAAACTGTAAATTTCATAAAGGAAAA
* *
18040774 ATGGGCTACTAAATGAC-AACTCAATGAAGAACAAACTAATTGCTGTACATTAATCAAATATGCC
66 ATGGGCCACTAAATGACAAACTCAATGAAGAACAAACTAATGGCTGTACATTAATCAAATATGCC
* *
18040838 CCAAAAGTCAAATTTGGAGGCAATCAAAACTTGGTGAAGTTAAGAG
131 CCAAAAGTCAAATTTGGAGGCAATCAAAACTTAGTGAAGCTAAGAG
18040884 TT
1 TT
18040886 GCAATGCTAG
Statistics
Matches: 165, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
175 88 0.53
176 77 0.47
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (176 bp):
TTTTGTTCTTTATTTGGACTTCTATAATGTCTAAGATTTGAAACTGTAAATTTCATAAAGGAAAA
ATGGGCCACTAAATGACAAACTCAATGAAGAACAAACTAATGGCTGTACATTAATCAAATATGCC
CCAAAAGTCAAATTTGGAGGCAATCAAAACTTAGTGAAGCTAAGAG
Found at i:18041392 original size:24 final size:22
Alignment explanation
Indices: 18041365--18041416 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
18041355 GGAGTTGGAT
*
18041365 AAAAATAGATAAAAGAGAGAAGAG
1 AAAAATA-A-AAAAGAAAGAAGAG
**
18041389 AAAAATAAAAATTAAAGAAGAG
1 AAAAATAAAAAAGAAAGAAGAG
18041411 AAAAAT
1 AAAAAT
18041417 GTAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.68
23 1 0.04
24 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAAAGAAAGAAGAG
Found at i:18054904 original size:27 final size:27
Alignment explanation
Indices: 18054874--18054930 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
18054864 AGGAGGAGGA
*
18054874 GCTGCT-GGAAAAGGTGGCGGCGGTGGT
1 GCTGCTGGGAAAA-GTGGAGGCGGTGGT
18054901 GCTGCTGGGAAAAGTGGAGGCGGTGGT
1 GCTGCTGGGAAAAGTGGAGGCGGTGGT
18054928 GCT
1 GCT
18054931 AGCGCTGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.16, C:0.14, G:0.51, T:0.19
Consensus pattern (27 bp):
GCTGCTGGGAAAAGTGGAGGCGGTGGT
Found at i:18055935 original size:53 final size:53
Alignment explanation
Indices: 18055872--18055979 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
18055862 AGAGGAACCA
18055872 AAGTGATGAACTATAGAGGAGAGAAGAGGAAGAGAAGAGAGTGGAGATGGCAG
1 AAGTGATGAACTATAGAGGAGAGAAGAGGAAGAGAAGAGAGTGGAGATGGCAG
18055925 AAGTGATGAACTATAGAGGAGAGAAGAGGAAGAGAAGAGAGTGGAGATGGCAG
1 AAGTGATGAACTATAGAGGAGAGAAGAGGAAGAGAAGAGAGTGGAGATGGCAG
18055978 AA
1 AA
18055980 AGGGGATTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.44, C:0.04, G:0.41, T:0.11
Consensus pattern (53 bp):
AAGTGATGAACTATAGAGGAGAGAAGAGGAAGAGAAGAGAGTGGAGATGGCAG
Found at i:18063503 original size:15 final size:13
Alignment explanation
Indices: 18063459--18063510 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 13
18063449 TTGATAATAA
18063459 AAATA-TAAAATT
1 AAATATTAAAATT
18063471 AAAT-TTAAAATT
1 AAATATTAAAATT
18063483 ATAATATGTAAAATAT
1 A-AATAT-TAAAAT-T
18063499 AAATAGTTAAAA
1 AAATA-TTAAAA
18063511 ATGATGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 12 0.35
13 3 0.09
14 1 0.03
15 15 0.44
16 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (13 bp):
AAATATTAAAATT
Found at i:18063979 original size:18 final size:18
Alignment explanation
Indices: 18063921--18063989 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
18063911 GAACAAATAG
* *
18063921 AATAAAAATAAAAAAAATA
1 AATATAAATATAAAAAA-A
* *
18063940 AATATAAATATAAATAAT
1 AATATAAATATAAAAAAA
18063958 AATATAAAT-TGAAAAAAA
1 AATATAAATAT-AAAAAAA
* *
18063976 AATAAAAAAATAAA
1 AATATAAATATAAA
18063990 GTTGAGAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
17 1 0.03
18 24 0.60
19 15 0.38
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (18 bp):
AATATAAATATAAAAAAA
Found at i:18066308 original size:23 final size:23
Alignment explanation
Indices: 18066282--18066380 Score: 69
Period size: 23 Copynumber: 4.1 Consensus size: 23
18066272 CATATTCATG
18066282 TTTAAATTATAAATTATTAATAT
1 TTTAAATTATAAATTATTAATAT
18066305 TTTAAATAAACTATAAATTATTAATA-
1 TTTAAAT----TATAAATTATTAATAT
** * *
18066331 TTTAAAAAAT-AATCATATGAAAAT
1 TTTAAATTATAAAT--TATTAATAT
*
18066355 TTTAAA-TAAAAATTTATTAATAT
1 TTTAAATTATAAA-TTATTAATAT
18066378 TTT
1 TTT
18066381 CAAGAAATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
21 3 0.05
22 2 0.03
23 24 0.41
24 8 0.14
25 1 0.02
26 6 0.10
27 15 0.25
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (23 bp):
TTTAAATTATAAATTATTAATAT
Found at i:18066314 original size:27 final size:27
Alignment explanation
Indices: 18066284--18066394 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 27
18066274 TATTCATGTT
18066284 TAAATTATAAATTATTAATATTTTAAA
1 TAAATTATAAATTATTAATATTTTAAA
*
18066311 TAAACTATAAATTATTAATA-TTTAAA
1 TAAATTATAAATTATTAATATTTTAAA
* * * *
18066337 -AAATAAT-CA-TATGAAAATTTTAAA
1 TAAATTATAAATTATTAATATTTTAAA
* *
18066361 T-AA--A-AATTTATTAATATTTTCAA
1 TAAATTATAAATTATTAATATTTTAAA
*
18066384 GAAATTATAAA
1 TAAATTATAAA
18066395 AATAACTTAG
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
22 1 0.02
23 18 0.29
24 11 0.17
25 5 0.08
26 7 0.11
27 21 0.33
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (27 bp):
TAAATTATAAATTATTAATATTTTAAA
Found at i:18067002 original size:15 final size:14
Alignment explanation
Indices: 18066977--18067020 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
18066967 TTATTTAATC
18066977 TAAATTATTAATTTA
1 TAAA-TATTAATTTA
18066992 TAGAATATTAATTTA
1 TA-AATATTAATTTA
*
18067007 TACATATTAATTTA
1 TAAATATTAATTTA
18067021 CTATAATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.41
15 14 0.52
16 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TAAATATTAATTTA
Found at i:18067015 original size:14 final size:15
Alignment explanation
Indices: 18066982--18067020 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
18066972 TAATCTAAAT
18066982 TATTAATTTATAGAA
1 TATTAATTTATAGAA
*
18066997 TATTAATTTATA-CA
1 TATTAATTTATAGAA
18067011 TATTAATTTA
1 TATTAATTTA
18067021 CTATAATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
TATTAATTTATAGAA
Found at i:18068691 original size:31 final size:30
Alignment explanation
Indices: 18068656--18068768 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 30
18068646 TGTTAAAAAA
*
18068656 TGTTATAACACGTCATGTTGAAAAAAGATAC
1 TGTTATTACACGTCATGTT-AAAAAAGATAC
*
18068687 TGTTATTACACGCCATGGTT--AAAA-A-A-
1 TGTTATTACACGTCAT-GTTAAAAAAGATAC
18068713 TGTTATTACACGTCATGTTAAAAAAGATAC
1 TGTTATTACACGTCATGTTAAAAAAGATAC
* * *
18068743 T-TTGTTACACGCCATAATTAAAAAAG
1 TGTTATTACACGTCAT-GTTAAAAAAG
18068769 GTTGATATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
25 3 0.04
26 15 0.22
27 5 0.07
28 2 0.03
29 17 0.25
30 10 0.14
31 14 0.20
32 3 0.04
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (30 bp):
TGTTATTACACGTCATGTTAAAAAAGATAC
Found at i:18068717 original size:26 final size:25
Alignment explanation
Indices: 18068635--18068737 Score: 107
Period size: 26 Copynumber: 3.8 Consensus size: 25
18068625 CAAAAACATG
*
18068635 TTACACGATAATGTTAAAAAATGTTA
1 TTACACG-TCATGTTAAAAAATGTTA
*
18068661 TAACACGTCATGTTGAAAAAAGATACTGTTA
1 TTACACGTCATGTT---AAAA-A-A-TGTTA
*
18068692 TTACACGCCATGGTTAAAAAATGTTA
1 TTACACGTCAT-GTTAAAAAATGTTA
18068718 TTACACGTCATGTTAAAAAA
1 TTACACGTCATGTTAAAAAA
18068738 GATACTTTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
25 15 0.23
26 21 0.32
27 1 0.02
28 5 0.08
29 5 0.08
30 1 0.02
31 14 0.22
32 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (25 bp):
TTACACGTCATGTTAAAAAATGTTA
Found at i:18068724 original size:57 final size:57
Alignment explanation
Indices: 18068647--18068811 Score: 210
Period size: 55 Copynumber: 2.9 Consensus size: 57
18068637 ACACGATAAT
* *
18068647 GTTAAAAAATGTTATAACACGTCATGTTGAAAAAAGATACTGTTATTACACGCCATG
1 GTTAAAAAATGTTATTACACGTCATGTTGAAAAAAGATACTGTTATTACACGCCATA
*
18068704 GTTAAAAAATGTTATTACACGTCATGTT-AAAAAAGATACT-TTGTTACACGCCATA
1 GTTAAAAAATGTTATTACACGTCATGTTGAAAAAAGATACTGTTATTACACGCCATA
* * * * * *
18068759 ATTAAAAAAGGTTGA-TATATGTCATGTTGAAAAAACAATATTGTTATTACACG
1 GTTAAAAAATGTT-ATTACACGTCATGTTGAAAAAA-GATACTGTTATTACACG
18068812 TTATGTACAA
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
55 35 0.37
56 19 0.20
57 31 0.33
58 9 0.10
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (57 bp):
GTTAAAAAATGTTATTACACGTCATGTTGAAAAAAGATACTGTTATTACACGCCATA
Found at i:18068903 original size:27 final size:27
Alignment explanation
Indices: 18068873--18068937 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 27
18068863 TATATTGAAA
*
18068873 AAAAAAATATTGTTACATGCTATGTAC
1 AAAAAAATATTGTTACATGCCATGTAC
* **
18068900 --AAAAACA-TGTTACATGCCATGTTG
1 AAAAAAATATTGTTACATGCCATGTAC
18068924 AAAAAAATATTGTT
1 AAAAAAATATTGTT
18068938 GTTACATGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
24 14 0.47
25 6 0.20
26 6 0.20
27 4 0.13
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (27 bp):
AAAAAAATATTGTTACATGCCATGTAC
Found at i:18068904 original size:30 final size:30
Alignment explanation
Indices: 18068844--18068904 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18068834 CATCATAGTT
* **
18068844 AAAAAATGTTATTACATGCTATATTGAAAA
1 AAAAAATATTATTACATGCTATATACAAAA
* *
18068874 AAAAAATATTGTTACATGCTATGTACAAAA
1 AAAAAATATTATTACATGCTATATACAAAA
18068904 A
1 A
18068905 CATGTTACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (30 bp):
AAAAAATATTATTACATGCTATATACAAAA
Found at i:18068943 original size:30 final size:30
Alignment explanation
Indices: 18068907--18069060 Score: 163
Period size: 30 Copynumber: 5.3 Consensus size: 30
18068897 TACAAAAACA
*
18068907 TGTTACATGCCATGTTGAAAAAAATATTGT
1 TGTTACACGCCATGTTGAAAAAAATATTGT
* * * *
18068937 TGTTACATGTCATGTTGAAAAAAATGTTAT
1 TGTTACACGCCATGTTGAAAAAAATATTGT
* *
18068967 TGTTACACACCATGTTGAAAAAAATGTTGT
1 TGTTACACGCCATGTTGAAAAAAATATTGT
* **
18068997 TGTTACACGCCATGTT-TAAAAAATATTAC
1 TGTTACACGCCATGTTGAAAAAAATATTGT
* * *
18069026 TGTTGCACGTCATGTT--CAAAAATATT-T
1 TGTTACACGCCATGTTGAAAAAAATATTGT
18069053 TGTTACAC
1 TGTTACAC
18069061 TTTAATACCT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
27 7 0.07
28 9 0.08
29 23 0.21
30 68 0.64
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (30 bp):
TGTTACACGCCATGTTGAAAAAAATATTGT
Found at i:18068958 original size:54 final size:54
Alignment explanation
Indices: 18068855--18068965 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
18068845 AAAAATGTTA
* *
18068855 TTACATGCTATATTGAAAAAAAAAATATTGTTACATGCTATGTACAAAAACATG
1 TTACATGCCATATTGAAAAAAAAAATATTGTTACATGCTATGTACAAAAAAATG
* * * * **
18068909 TTACATGCCATGTTGAAAAAAATATTGTTGTTACATG-TCATGTTGAAAAAAATG
1 TTACATGCCATATTGAAAAAAAAAATATTGTTACATGCT-ATGTACAAAAAAATG
18068963 TTA
1 TTA
18068966 TTGTTACACA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (54 bp):
TTACATGCCATATTGAAAAAAAAAATATTGTTACATGCTATGTACAAAAAAATG
Found at i:18069753 original size:2 final size:2
Alignment explanation
Indices: 18069746--18069782 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18069736 TAATTGAGAA
18069746 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
18069783 GAGAGAGTAG
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:18069841 original size:2 final size:2
Alignment explanation
Indices: 18069834--18069872 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18069824 NNNNNNNNNN
18069834 AT 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 AT A
18069873 GAGAGAGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18073742 original size:29 final size:27
Alignment explanation
Indices: 18073707--18073773 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
18073697 ACCAAGTTAT
18073707 ACGTCATGTTTAAAAAATAATATTATTAC
1 ACGTCATGTTT-AAAAA-AATATTATTAC
* * *
18073736 ACGTCATATTT-AAAAAATGTTGTTAC
1 ACGTCATGTTTAAAAAAATATTATTAC
18073762 ACGTCATGTTTA
1 ACGTCATGTTTA
18073774 TATTTTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 19 0.58
27 4 0.12
29 10 0.30
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (27 bp):
ACGTCATGTTTAAAAAAATATTATTAC
Found at i:18078909 original size:136 final size:136
Alignment explanation
Indices: 18078665--18078942 Score: 344
Period size: 136 Copynumber: 2.0 Consensus size: 136
18078655 TAGGTGTAAG
** * * * *
18078665 AATACCATAGGGTTATGATTGGTAAACATGTCATCTTTTTCCTTTATAAACCTAGTGTGGGGGCA
1 AATACCATAGGGTTAAAATTGGTAAACATGCCATCTTTTTCCCTTATAAACCGAGTGTAGGGGCA
* * ** * *
18078730 AGAATACCACAGGGGTAAGATGGACTAATGTATTCATCTCTCCCCCTTATAAAACTTAGTGTATG
66 AAAATACCACAAGAATAAGATGGACTAATGTATTCATCTCTCCCCCTTACAAAACTTAGTGTAGG
18078795 GGTCAA
131 GGTCAA
* *
18078801 AATACCATAGGGTTAAAATTGGTGAACGTGCCATCTTTTTCCCTTA-AGAACTCGA-TGTAGGGG
1 AATACCATAGGGTTAAAATTGGTAAACATGCCATCTTTTTCCCTTATA-AAC-CGAGTGTAGGGG
* * * * * *
18078864 CAAAAATATCACAAGAATAAGATGGATTAATGTATTCATCTCTCCCCCTTACAGAGCTTGGTGTG
64 CAAAAATACCACAAGAATAAGATGGACTAATGTATTCATCTCTCCCCCTTACAAAACTTAGTGTA
18078929 GGGGTCAA
129 GGGGTCAA
18078937 AATACC
1 AATACC
18078943 CCAAGGCCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 1 0.01
136 117 0.98
137 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (136 bp):
AATACCATAGGGTTAAAATTGGTAAACATGCCATCTTTTTCCCTTATAAACCGAGTGTAGGGGCA
AAAATACCACAAGAATAAGATGGACTAATGTATTCATCTCTCCCCCTTACAAAACTTAGTGTAGG
GGTCAA
Found at i:18079939 original size:23 final size:23
Alignment explanation
Indices: 18079909--18079952 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
18079899 GGATGACTAG
18079909 CCCATGCATTACTGATTTAGGTA
1 CCCATGCATTACTGATTTAGGTA
18079932 CCCATGCATTACTGATTTAGG
1 CCCATGCATTACTGATTTAGG
18079953 CTTACTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (23 bp):
CCCATGCATTACTGATTTAGGTA
Found at i:18080722 original size:20 final size:20
Alignment explanation
Indices: 18080689--18080726 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18080679 ATAAGTCTCA
*
18080689 TAATTTTATAAAAATATAAT
1 TAATTATATAAAAATATAAT
*
18080709 TAATTATATTAAAATATA
1 TAATTATATAAAAATATA
18080727 TATATTCATA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTATATAAAAATATAAT
Found at i:18081066 original size:54 final size:54
Alignment explanation
Indices: 18081008--18081119 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
18080998 TATTAATTCT
* *
18081008 CAACTATTTCACGTATTTTCAATCAACCAATGGTAATATGTATTTAATGATCCC
1 CAACTATTTCACATATTTTCAATCAACCAATGGTAATATGTATTTAATAATCCC
**
18081062 CAACTATTTCACATATTTTCAATCAATTAATGGTAATATGTATTTAATAATCCC
1 CAACTATTTCACATATTTTCAATCAACCAATGGTAATATGTATTTAATAATCCC
18081116 CAAC
1 CAAC
18081120 AACTATTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (54 bp):
CAACTATTTCACATATTTTCAATCAACCAATGGTAATATGTATTTAATAATCCC
Found at i:18083324 original size:24 final size:23
Alignment explanation
Indices: 18083297--18083352 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
18083287 TAAATTAAGT
**
18083297 ATAATTTATATAAAAAATTTTTAA
1 ATAATTT-TATAAAAAAAATTTAA
*
18083321 ATAATTTTTTAAAAAAAATTTAA
1 ATAATTTTATAAAAAAAATTTAA
18083344 ATTAATTTT
1 A-TAATTTT
18083353 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTTTATAAAAAAAATTTAA
Found at i:18083353 original size:24 final size:23
Alignment explanation
Indices: 18083297--18083353 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
18083287 TAAATTAAGT
* **
18083297 ATAATTTATATAAAAAATTTTTAA
1 ATAATTT-TTTAAAAAAAATTTAA
18083321 ATAATTTTTTAAAAAAAATTTAA
1 ATAATTTTTTAAAAAAAATTTAA
18083344 ATTAATTTTT
1 A-TAATTTTT
18083354 ATTTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAATTTTTTAAAAAAAATTTAA
Found at i:18083537 original size:127 final size:129
Alignment explanation
Indices: 18083373--18083611 Score: 313
Period size: 127 Copynumber: 1.9 Consensus size: 129
18083363 TACACTCAAT
* * * *
18083373 CAAGCTTATATGCTTTTTATCTTTAAACAAAATAAACTCTTATAATTAATAATTGATTGAC-TGT
1 CAAGCTTATATACTTTTTATCTTTAAACAAAACAAACTCTTATAACTAATAATTGATTAACTTGT
* *
18083437 T-ATTAGTAAAAATACTATTTGTCATTTTATATCATGTGATGCTAACGTGGCATGCTAACATAAG
66 TAATTAGTAAAAATAC-ATTTATCATTTAATATCATGTGATGCTAACGTGGCATGCTAACATAAG
* * ** *
18083501 CAAGCTTATGTAC-TTTTATCTTTGAATTAAACAAACTCTTATAACTAATGATTGATTAACTATT
1 CAAGCTTATATACTTTTTATCTTTAAACAAAACAAACTCTTATAACTAATAATTGATTAAC--TT
* *
18083565 GTTAATTAGTCAAAATGCATTTATCATTTAATATCATGTGATGCTAA
64 GTTAATTAGTAAAAATACATTTATCATTTAATATCATGTGATGCTAA
18083612 AATTGCATGC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
127 40 0.43
128 11 0.12
130 31 0.33
131 12 0.13
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (129 bp):
CAAGCTTATATACTTTTTATCTTTAAACAAAACAAACTCTTATAACTAATAATTGATTAACTTGT
TAATTAGTAAAAATACATTTATCATTTAATATCATGTGATGCTAACGTGGCATGCTAACATAAG
Found at i:18083620 original size:130 final size:128
Alignment explanation
Indices: 18083373--18083627 Score: 307
Period size: 130 Copynumber: 2.0 Consensus size: 128
18083363 TACACTCAAT
* * * *
18083373 CAAGCTTATATGCTTTTTATCTTTAAACAAAATAAACTCTTATAATTAATAATTGATTGACTGTT
1 CAAGCTTATATACTTTTTATCTTTAAACAAAACAAACTCTTATAACTAATAATTGATTAACTGTT
* * **
18083438 ATTAGTAAAAATACTATTTGTCATTTTATATCATGTGATGCTAACGTGGCATGCTAACATAAG
66 ATTAGTAAAAATACTATTTATCATTTAATATCATGTGATGCTAAAATGGCATGCTAACATAAG
* * ** *
18083501 CAAGCTTATGTAC-TTTTATCTTTGAATTAAACAAACTCTTATAACTAATGATTGATTAACTATT
1 CAAGCTTATATACTTTTTATCTTTAAACAAAACAAACTCTTATAACTAATAATTGATTAAC---T
* * * *
18083565 GTTAATTAGTCAAAATGC-ATTTATCATTTAATATCATGTGATGCTAAAATTGCATGCTGACAT
63 GTT-ATTAGTAAAAATACTATTTATCATTTAATATCATGTGATGCTAAAATGGCATGCTAACAT
18083628 GTCATGATGA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 40 0.38
128 11 0.10
130 43 0.41
131 12 0.11
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (128 bp):
CAAGCTTATATACTTTTTATCTTTAAACAAAACAAACTCTTATAACTAATAATTGATTAACTGTT
ATTAGTAAAAATACTATTTATCATTTAATATCATGTGATGCTAAAATGGCATGCTAACATAAG
Found at i:18093371 original size:25 final size:26
Alignment explanation
Indices: 18093323--18093371 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
18093313 ACAGCAATAT
*
18093323 AAAAAAATAAAAAACAGAGCAAACCC
1 AAAAAAATAAAAAACACAGCAAACCC
* *
18093349 AAAAAAA-AAAAAAGACAGTAAAC
1 AAAAAAATAAAAAACACAGCAAAC
18093372 AAACAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.73, C:0.14, G:0.08, T:0.04
Consensus pattern (26 bp):
AAAAAAATAAAAAACACAGCAAACCC
Found at i:18117786 original size:34 final size:34
Alignment explanation
Indices: 18117722--18117797 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
18117712 TGCTTGATCT
*
18117722 CGTGAAAAAGCATGGCAAGAGTTTCGCTTGAACC
1 CGTGAAAAAGCATGGCAAGAGTTTCACTTGAACC
* *
18117756 CGTGAAAAAGCATTGTG-AGGA-TTTCACTTGATCC
1 CGTGAAAAAGCA-TG-GCAAGAGTTTCACTTGAACC
18117790 CGTGAAAA
1 CGTGAAAA
18117798 GTTCATTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 31 0.84
35 5 0.14
36 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (34 bp):
CGTGAAAAAGCATGGCAAGAGTTTCACTTGAACC
Found at i:18117983 original size:36 final size:37
Alignment explanation
Indices: 18117931--18118010 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 37
18117921 ATTGCTTGCA
*
18117931 TTTAGCTTAGGAAAATATTTTACCTTGATTCATTAGT
1 TTTAGCTTAGGAAAATATTATACCTTGATTCATTAGT
* *
18117968 TTTA-CTTAGGAAAATATTATATCTTGGTTCATTA-T
1 TTTAGCTTAGGAAAATATTATACCTTGATTCATTAGT
*
18118003 TTTTGCTT
1 TTTAGCTT
18118011 GTGCTTGATC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.11
36 30 0.79
37 4 0.11
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (37 bp):
TTTAGCTTAGGAAAATATTATACCTTGATTCATTAGT
Found at i:18118065 original size:47 final size:47
Alignment explanation
Indices: 18118021--18118153 Score: 221
Period size: 47 Copynumber: 2.8 Consensus size: 47
18118011 GTGCTTGATC
*
18118021 TAGGGAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACG
1 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACG
* * *
18118068 TAGGAAAACATTTTTAGTTTGATTTATTATTTGTTCATTACTTGACT
1 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACG
*
18118115 TAGGAAAATATCTTTACTTTGATTTATTATTTGTTCATT
1 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATT
18118154 TTAATTTATT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (47 bp):
TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACG
Found at i:18118556 original size:21 final size:21
Alignment explanation
Indices: 18118506--18118556 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
18118496 CCTACTGAGG
* *
18118506 AAGCATTAGATTTGGCACCCA
1 AAGCATTAGATCTGGCAACCA
* *
18118527 TAGC--TAGATCTGGCAACTA
1 AAGCATTAGATCTGGCAACCA
18118546 AAGCATTAGAT
1 AAGCATTAGAT
18118557 TAAGCATTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
19 15 0.65
21 8 0.35
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (21 bp):
AAGCATTAGATCTGGCAACCA
Found at i:18120618 original size:21 final size:22
Alignment explanation
Indices: 18120594--18120673 Score: 87
Period size: 21 Copynumber: 3.8 Consensus size: 22
18120584 CGTGAGGGAG
*
18120594 GTTT-AAAACTAATTTAAACAA
1 GTTTAAAAACTAATTCAAACAA
18120615 GTTTAAAAACT-ATTCAAACAA
1 GTTTAAAAACTAATTCAAACAA
* *
18120636 G-TTAAAAAATAATTCAAGCAA
1 GTTTAAAAACTAATTCAAACAA
* *
18120657 -TTTCAAAACTTATTCAA
1 GTTTAAAAACTAATTCAA
18120674 GTATTTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.16
21 36 0.72
22 6 0.12
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.31
Consensus pattern (22 bp):
GTTTAAAAACTAATTCAAACAA
Found at i:18124310 original size:15 final size:15
Alignment explanation
Indices: 18124284--18124334 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
18124274 AAATGCAATA
*
18124284 TGATTACAAGTAATG
1 TGATTGCAAGTAATG
*
18124299 TAATTGCAAGTAATG
1 TGATTGCAAGTAATG
18124314 TGATTGCAAGTAATG
1 TGATTGCAAGTAATG
18124329 TGATTG
1 TGATTG
18124335 TAGGAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (15 bp):
TGATTGCAAGTAATG
Found at i:18124562 original size:2 final size:2
Alignment explanation
Indices: 18124555--18124591 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18124545 AAACCCATTA
18124555 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
18124592 CTTTACTTTA
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:18131623 original size:6 final size:6
Alignment explanation
Indices: 18131612--18131636 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18131602 GGCTTGACCC
18131612 GAACCA GAACCA GAACCA GAACCA G
1 GAACCA GAACCA GAACCA GAACCA G
18131637 TGAGACGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.32, G:0.20, T:0.00
Consensus pattern (6 bp):
GAACCA
Found at i:18131904 original size:2 final size:2
Alignment explanation
Indices: 18131897--18131926 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18131887 GGTCTTTCTT
18131897 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18131927 ATTGCTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18140116 original size:20 final size:20
Alignment explanation
Indices: 18140087--18140149 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
18140077 AAAAAAATTC
18140087 AAATAAATTTTTATTTTTTT
1 AAATAAATTTTTATTTTTTT
* *
18140107 AAATATATTTTTATTTTAATCT
1 AAATAAATTTTTATTTT--TTT
*
18140129 AAATAAATTTTTATATTTTT
1 AAATAAATTTTTATTTTTTT
18140149 A
1 A
18140150 TTTTGAATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 19 0.53
22 17 0.47
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATAAATTTTTATTTTTTT
Found at i:18140146 original size:30 final size:30
Alignment explanation
Indices: 18140110--18140173 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
18140100 TTTTTTTAAA
*
18140110 TATATTTTTATTTT-AATCTAAATAAATTTT
1 TATATTTTTATTTTGAATC-AAATAAACTTT
18140140 TATATTTTTATTTTGAATCAAATAAACTTT
1 TATATTTTTATTTTGAATCAAATAAACTTT
18140170 TATA
1 TATA
18140174 ACTAATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (30 bp):
TATATTTTTATTTTGAATCAAATAAACTTT
Found at i:18147918 original size:15 final size:15
Alignment explanation
Indices: 18147885--18147918 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18147875 GAAACCAGCT
* *
18147885 TAAATTTAAAAACAC
1 TAAATTTAAAAAAAA
18147900 TAAATTTAAAAAAAA
1 TAAATTTAAAAAAAA
18147915 TAAA
1 TAAA
18147919 GGAAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATTTAAAAAAAA
Found at i:18155256 original size:27 final size:28
Alignment explanation
Indices: 18155209--18155265 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 28
18155199 CATATGGAAA
18155209 TTTATTTAGTATTTTCATTAGTTTAAGAT
1 TTTATTTA-TATTTTCATTAGTTTAAGAT
*
18155238 TTTATTT-TATTTT-ATTTAGTTTGAGAT
1 TTTATTTATATTTTCA-TTAGTTTAAGAT
18155265 T
1 T
18155266 CTTTTTCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.04
27 18 0.69
29 7 0.27
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.63
Consensus pattern (28 bp):
TTTATTTATATTTTCATTAGTTTAAGAT
Found at i:18160224 original size:17 final size:17
Alignment explanation
Indices: 18160199--18160231 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18160189 AATGCTCCAC
*
18160199 TAACTAGTTAAAGACAT
1 TAACCAGTTAAAGACAT
18160216 TAACCAGTTAAAGACA
1 TAACCAGTTAAAGACA
18160232 GGTTTTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
TAACCAGTTAAAGACAT
Found at i:18164940 original size:2 final size:2
Alignment explanation
Indices: 18164928--18164970 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
18164918 AAACTAGACC
*
18164928 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18164970 T
1 T
18164971 TTTTTTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18176310 original size:49 final size:49
Alignment explanation
Indices: 18176251--18176359 Score: 182
Period size: 49 Copynumber: 2.2 Consensus size: 49
18176241 TAATCTTATG
* *
18176251 TGATGATGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAGACCGA
1 TGATGATGATGACCCGACTATGTGCGAGTAAGGAGTACGCATAGACCGA
* *
18176300 TGATGATGATGACCCGACTATGTGCGAGTAGGGAGTACGCATAGGCCGA
1 TGATGATGATGACCCGACTATGTGCGAGTAAGGAGTACGCATAGACCGA
18176349 TGATGATGATG
1 TGATGATGATG
18176360 GCGCATAGGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.22
Consensus pattern (49 bp):
TGATGATGATGACCCGACTATGTGCGAGTAAGGAGTACGCATAGACCGA
Found at i:18176369 original size:24 final size:24
Alignment explanation
Indices: 18176337--18176383 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
18176327 GTAGGGAGTA
18176337 CGCATAGGCCGATGATGATGATGG
1 CGCATAGGCCGATGATGATGATGG
18176361 CGCATAGGCCGATGATGATGATG
1 CGCATAGGCCGATGATGATGATG
18176384 ATGGCCCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (24 bp):
CGCATAGGCCGATGATGATGATGG
Found at i:18176375 original size:73 final size:74
Alignment explanation
Indices: 18176287--18176434 Score: 219
Period size: 76 Copynumber: 2.0 Consensus size: 74
18176277 AGTAAGGAGT
*
18176287 GCGCATAGACCGATGATGATGATGA-CCC-GACTATGTGCGAGTAGGGAGTACGCATAGGCCGAT
1 GCGCATAGACCGATGATGATGATGAGCCCAG-CTATGTACGAGTAGGGAGTACGCATAGGCCGAT
18176350 GATGATGATG
65 GATGATGATG
* * *
18176360 GCGCATAGGCCGATGATGATGATGATGGCCCAGCTATGTACGAGTAGGGAGTGCGCATAGGTCGA
1 GCGCATAGACCGATGATGATGATGA--GCCCAGCTATGTACGAGTAGGGAGTACGCATAGGCCGA
18176425 TGATGATGAT
64 TGATGATGAT
18176435 TATCCGGCTA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
73 24 0.36
76 42 0.63
77 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (74 bp):
GCGCATAGACCGATGATGATGATGAGCCCAGCTATGTACGAGTAGGGAGTACGCATAGGCCGATG
ATGATGATG
Found at i:18178098 original size:6 final size:6
Alignment explanation
Indices: 18178087--18178118 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
18178077 GCTTCACAAG
*
18178087 ATCTTC ATCTTC ATCTTC ATCATC ATCTTC AT
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC AT
18178119 TATCTTCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
ATCTTC
Found at i:18178131 original size:27 final size:27
Alignment explanation
Indices: 18178110--18178179 Score: 61
Period size: 30 Copynumber: 2.5 Consensus size: 27
18178100 TCTTCATCAT
* * *
18178110 CATCTTCATTATCTTC-TCCTTCCATGT
1 CATCTTCTTCATCTTCAT-CTTCCATAT
*
18178137 CATCTTCTTCATCTTCATCTTTATCAATAT
1 CATCTTCTTCATCTTCATC--T-TCCATAT
18178167 CATCTTCTTCATC
1 CATCTTCTTCATC
18178180 CTCAATCGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 15 0.43
28 1 0.03
29 1 0.03
30 18 0.51
ACGTcount: A:0.19, C:0.31, G:0.01, T:0.49
Consensus pattern (27 bp):
CATCTTCTTCATCTTCATCTTCCATAT
Found at i:18199655 original size:12 final size:12
Alignment explanation
Indices: 18199638--18199667 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18199628 TGTACAAGTC
18199638 AAATTTCCAACG
1 AAATTTCCAACG
18199650 AAATTTCCAACG
1 AAATTTCCAACG
*
18199662 GAATTT
1 AAATTT
18199668 TTCGTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (12 bp):
AAATTTCCAACG
Found at i:18199705 original size:11 final size:11
Alignment explanation
Indices: 18199689--18199715 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18199679 ATTTTCAACA
18199689 AAAATCCGTTG
1 AAAATCCGTTG
18199700 AAAATCCGTTG
1 AAAATCCGTTG
18199711 AAAAT
1 AAAAT
18199716 TCGTCGGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (11 bp):
AAAATCCGTTG
Done.