Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 137 of 311
Found at i:46486082 original size:46 final size:46
Alignment explanation
Indices: 46485904--46486088 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 46
46485894 TTGCGAGGCT
* * * * * *
46485904 GATGCATGTCCCAGACATGTCTTACACTAGCT-CTTGTCTCAACGCT
1 GATGCATGTCCCAGACATGTCTTACATTGGCTACATATCTCGA-GCC
*
46485950 GATGCATGTCCCAGACATGTCTTACATTGGCTTAAATATCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACATTGGC-TACATATCTCGA-GCC
* * *
46485998 GATGCATGTCCCAGACATGTCTTACATTGGCTCTCATATTTTG-GCC
1 GATGCATGTCCCAGACATGTCTTACATTGGCT-ACATATCTCGAGCC
* * *
46486044 GATGCATGTCCCAAACATGTCTTACACTAGCATACATATCATCGA
1 GATGCATGTCCCAGACATGTCTTACATTGGC-TACATATC-TCGA
46486089 ATATCAAGGT
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
46 65 0.57
47 5 0.04
48 45 0.39
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACATTGGCTACATATCTCGAGCC
Found at i:46486083 original size:94 final size:95
Alignment explanation
Indices: 46485904--46486088 Score: 228
Period size: 94 Copynumber: 2.0 Consensus size: 95
46485894 TTGCGAGGCT
** * * *
46485904 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAACGCTGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGATGCATGTCCCAAACATG
* * *
46485969 TCTTACATTGGCTTAAATATC-TCGATGCC
66 TCTTACACTAGCATAAATATCATCGATGCC
* * ****
46485998 GATGCATGTCCCAGACATGTCTTACATTGGCTCTCATATTTTGGCCGATGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGATGCATGTCCCAAACATG
*
46486063 TCTTACACTAGCATACATATCATCGA
66 TCTTACACTAGCATAAATATCATCGA
46486089 ATATCAAGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
94 71 0.95
95 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGATGCATGTCCCAAACATG
TCTTACACTAGCATAAATATCATCGATGCC
Found at i:46493264 original size:46 final size:48
Alignment explanation
Indices: 46493159--46493271 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 48
46493149 GTGACGCCAT
* * * * * * *
46493159 GTCCTAGACAAGTCTTACACTAGCTTGTCCATCGCGAGGCTGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTTATCCATCGCAACGCCGATGCAA
*
46493207 GTCCCAGACATGTCTTACACTAGC-TAT-CATCTCAACGCCGATGCAA
1 GTCCCAGACATGTCTTACACTAGCTTATCCATCGCAACGCCGATGCAA
46493253 GTCCCAGACATGTCTTACA
1 GTCCCAGACATGTCTTACA
46493272 TTGGCTTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 33 0.58
47 2 0.04
48 22 0.39
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GTCCCAGACATGTCTTACACTAGCTTATCCATCGCAACGCCGATGCAA
Found at i:46493359 original size:46 final size:45
Alignment explanation
Indices: 46493194--46493363 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 45
46493184 TGTCCATCGC
* * * *
46493194 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCATATT
* * * * *
46493240 AACGCCGATGCAAGTCCCAGACATGTCTTACATTGGCTTAAATATCTT
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATA--TT
**
46493288 GAGGTTGATGCATGT--C--ACATGTCTTACACTGGCTCTCATATT
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCATATT
*
46493330 GTGGCCGATGCATGTCCCAGACATGTCTTACACT
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACT
46493364 AGCACACATA
Statistics
Matches: 97, Mismatches: 19, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
42 14 0.14
44 21 0.22
45 2 0.02
46 49 0.51
48 11 0.11
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (45 bp):
GAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATATT
Found at i:46500113 original size:47 final size:47
Alignment explanation
Indices: 46499965--46500282 Score: 244
Period size: 47 Copynumber: 6.8 Consensus size: 47
46499955 TGATTTGTGC
* **
46499965 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCAACA-TTATGAGAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAACAGAGATGAG-T
* * * * * *
46500012 -CCAGTGTAAGACCATGCCTAGGACATTGCATCGGCATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCAACAGAGATGAGT
* *
46500059 GCTAGTGTAAGACATGTCTGGGACATGGCATCGAC-ACAGAGATGAGT
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCAACAGAGATGAGT
*
46500106 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGAT-A--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG---CAACAGAGATGAGT
* * * * *
46500153 GCCAGTGTAAGACGTGTCTAGGACACGCATCGGCTA-AGAGCT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAACAGAGATGAGT
* * * * * *
46500197 GCTAGTGTAAGACATGTCTGGGACATGCATCAGTATGC-GTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-ACAG-AGATGAGT
*
46500245 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAA
46500283 TATATCCCAT
Statistics
Matches: 213, Mismatches: 39, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
43 5 0.02
44 30 0.14
45 1 0.00
46 21 0.10
47 90 0.42
48 35 0.16
49 16 0.08
50 15 0.07
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAACAGAGATGAGT
Found at i:46500130 original size:94 final size:94
Alignment explanation
Indices: 46499965--46500282 Score: 312
Period size: 94 Copynumber: 3.4 Consensus size: 94
46499955 TGATTTGTGC
* **
46499965 GCCAGTGTAAGACATGTCTGGGACAT-GCTTCGGCAACA-TTATGAGAT-CCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAACAGAGATGAG-TGCCAGTGTAAGA-CAT
* * *
46500027 GCCTAGGACATTGCATCGGCATC-CAGACGAGG
64 GTCTGGGACA-TGCATCGGCATCGCAGA-GAGA
* *
46500059 GCTAGTGTAAGACATGTCTGGGACATGGCATCGAC-ACAGAGATGAGTGCCAGTGTAAGACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAACAGAGATGAGTGCCAGTGTAAGACATGT
* *
46500123 CTGGGACATGCATCGGCCTCGACAGAGATA
66 CTGGGACATGCATCGGCATCG-CAGAGAGA
* * * * * *
46500153 GCCAGTGTAAGACGTGTCTAGGACA-CGCATCGGCTA-AGAGCT--GTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAACAGAGATGAGTGCCAGTGTAAGACATGT
* * * *
46500214 CTGGGACATGCATCAGTATGCGTATATGAGA
66 CTGGGACATGCATCGGCAT-CGCAGA-GAGA
*
46500245 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCAA
46500283 TATATCCCAT
Statistics
Matches: 186, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
91 36 0.19
92 16 0.09
93 34 0.18
94 74 0.40
95 26 0.14
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAACAGAGATGAGTGCCAGTGTAAGACATGT
CTGGGACATGCATCGGCATCGCAGAGAGA
Found at i:46506248 original size:43 final size:43
Alignment explanation
Indices: 46506187--46506295 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
46506177 CAATGCTAAG
46506187 GTCCCAGAC-GTGGTCTTACATGTAA-CCAAATATTGATGCC-ACT
1 GTCCCAGACAG-GGTCTTACATGTAAGCCAAATA-TGATGCCGA-T
* * *
46506230 GTCCCAGACAGGGTCTTACACG-AAGTCAAATATGATTCCGAT
1 GTCCCAGACAGGGTCTTACATGTAAGCCAAATATGATGCCGAT
* *
46506272 GTCCCATACATGGTC-TACATGTAA
1 GTCCCAGACAGGGTCTTACATGTAA
46506296 ATCATAAGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
41 5 0.09
42 24 0.43
43 26 0.46
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAAGCCAAATATGATGCCGAT
Found at i:46509487 original size:7 final size:8
Alignment explanation
Indices: 46509473--46509502 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
46509463 TGAACATACT
46509473 TAAAAAAA
1 TAAAAAAA
46509481 TAAAAAAA
1 TAAAAAAA
46509489 TAAAAAAA
1 TAAAAAAA
46509497 TAAAAA
1 TAAAAA
46509503 CTTAAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:46509508 original size:16 final size:16
Alignment explanation
Indices: 46509470--46509508 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
46509460 GTTTGAACAT
46509470 ACTTAAAAAAATAAAA
1 ACTTAAAAAAATAAAA
**
46509486 AAATAAAAAAATAAAA
1 ACTTAAAAAAATAAAA
46509502 ACTTAAA
1 ACTTAAA
46509509 TGCTTAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (16 bp):
ACTTAAAAAAATAAAA
Found at i:46510415 original size:29 final size:29
Alignment explanation
Indices: 46510339--46510403 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
46510329 AATCGTATTC
*
46510339 ATATGGCCCACTAGGCCCAAATCACCTAG
1 ATATGGCCCATTAGGCCCAAATCACCTAG
**
46510368 ATATGGCCCATTAGGCCCAAATCACCTCT
1 ATATGGCCCATTAGGCCCAAATCACCTAG
46510397 ATATGGC
1 ATATGGC
46510404 TCGTTCGGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTAG
Found at i:46522787 original size:47 final size:47
Alignment explanation
Indices: 46522669--46522840 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 47
46522659 GGATGGTTGA
* *
46522669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
46522717 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
46522762 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
46522809 -C-GCC-AGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
46522841 TAGGGGCGGG
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 6 0.06
44 26 0.25
45 6 0.06
46 30 0.28
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:46523104 original size:19 final size:20
Alignment explanation
Indices: 46523067--46523104 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46523057 ATAAGGTGGT
46523067 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
46523087 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
46523105 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:46530283 original size:46 final size:46
Alignment explanation
Indices: 46530233--46530358 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
46530223 TGGTTGAGCA
*
46530233 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46530279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46530325 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46530359 GGGCGGGTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46537956 original size:19 final size:20
Alignment explanation
Indices: 46537919--46537956 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46537909 GTATAGTGGT
46537919 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
46537939 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
46537957 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:46544541 original size:103 final size:104
Alignment explanation
Indices: 46544271--46544630 Score: 557
Period size: 103 Copynumber: 3.6 Consensus size: 104
46544261 TAACCGTTAT
* **
46544271 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46544336 AATCAGCACATAGCAACCCCCTTTCACA-TT-----ATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46544369 TGGTGGATATCGCACTTAG----ACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46544429 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46544468 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46544532 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
46544572 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46544631 TTATATACAA
Statistics
Matches: 243, Mismatches: 6, Indels: 19
0.91 0.02 0.07
Matches are distributed among these distances:
93 60 0.25
94 9 0.04
98 18 0.07
99 22 0.09
103 62 0.26
104 47 0.19
105 25 0.10
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:46544989 original size:29 final size:29
Alignment explanation
Indices: 46544956--46545019 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46544946 TAATCCACCA
46544956 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46544985 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46545015 CCCAA
1 CCCAA
46545020 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46544993 original size:30 final size:30
Alignment explanation
Indices: 46544963--46545019 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46544953 CCACCCAACT
46544963 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46544992 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46545020 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46552077 original size:104 final size:104
Alignment explanation
Indices: 46551840--46552202 Score: 591
Period size: 104 Copynumber: 3.6 Consensus size: 104
46551830 TAACCGTTAT
* * *
46551840 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46551905 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46551942 ---T--ATATCGCACTTAGCA-CACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46552001 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46552040 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46552105 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
46552144 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
46552203 TTATATACAA
Statistics
Matches: 245, Mismatches: 7, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
96 65 0.27
97 14 0.06
98 13 0.05
99 1 0.00
101 1 0.00
103 15 0.06
104 135 0.55
105 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:46552559 original size:29 final size:29
Alignment explanation
Indices: 46552526--46552589 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46552516 TAATCCACCA
46552526 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46552555 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46552585 CCCAA
1 CCCAA
46552590 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46552563 original size:30 final size:30
Alignment explanation
Indices: 46552533--46552589 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46552523 CCACCCAACT
46552533 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46552562 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46552590 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46553536 original size:23 final size:24
Alignment explanation
Indices: 46553510--46553565 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
46553500 AGTTAGTAAT
46553510 AAAGAAATGGA-GAAAA-AAAAGA
1 AAAGAAATGGATGAAAACAAAAGA
*
46553532 GAAAGAAAAGGATGAAAACAAAAGA
1 -AAAGAAATGGATGAAAACAAAAGA
*
46553557 AAAAAAATG
1 AAAGAAATG
46553566 TGTCCATCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.05
Consensus pattern (24 bp):
AAAGAAATGGATGAAAACAAAAGA
Found at i:46554891 original size:40 final size:39
Alignment explanation
Indices: 46554807--46554991 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
46554797 TCGAATGATG
* * * *
46554807 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
46554847 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46554887 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
46554926 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
46554967 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
46554992 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 37 0.30
40 78 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46554943 original size:79 final size:81
Alignment explanation
Indices: 46554807--46554989 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
46554797 TCGAATGATG
* *
46554807 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46554871 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
46554886 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
46554948 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
46554966 ACCGGGCTATGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46554990 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:46555013 original size:79 final size:79
Alignment explanation
Indices: 46554860--46555014 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
46554850 GGACTAAGAT
* **
46554860 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
46554925 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
46554939 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
46555002 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
46555015 ATTCTGAAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:46562048 original size:42 final size:42
Alignment explanation
Indices: 46561986--46562139 Score: 188
Period size: 42 Copynumber: 3.6 Consensus size: 42
46561976 AAATATTTTT
* *
46561986 TAAAGGTCATGTTCTTTAGCGGCGTTTGAGAGAAAAGCGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTG-GAAAAGCGCCGC
* *
46562029 TAAAGGTC-TGTTCTATAGCGGCGTTAGTGGCAAAAGCGCCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGG-AAAAGCGCCGC
** *
46562071 TAAAGG-CTATGTTCT-TAGCAACGTTTGTTGTAAAAGCGCCGC
1 TAAAGGTC-ATGTTCTATAGCGGCGTTTG-TGGAAAAGCGCCGC
46562113 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
46562140 TTTACATAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 66 0.70
43 26 0.28
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (42 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:46566194 original size:12 final size:12
Alignment explanation
Indices: 46566177--46566202 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46566167 ACTCAACAAG
46566177 AACAAAACTTTC
1 AACAAAACTTTC
46566189 AACAAAACTTTC
1 AACAAAACTTTC
46566201 AA
1 AA
46566203 TAAGTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (12 bp):
AACAAAACTTTC
Found at i:46573115 original size:14 final size:14
Alignment explanation
Indices: 46573094--46573134 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
46573084 CTTACCTAAT
*
46573094 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTAA
*
46573108 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTAA
46573122 TGTGCAAGTTGTA
1 TGTGCAAGTTGTA
46573135 CAAGTTGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTAA
Found at i:46576250 original size:4 final size:4
Alignment explanation
Indices: 46576241--46576267 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46576231 ATTAAAAACA
46576241 AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AAT
46576268 ACATGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:46578033 original size:96 final size:96
Alignment explanation
Indices: 46577907--46578114 Score: 283
Period size: 96 Copynumber: 2.2 Consensus size: 96
46577897 GACCTACTCT
* * *
46577907 ACTTTAGAGAGATAAGATCTGTAACTTGTAGCTTCAATCTGCTCCACTGCAAATTCAAGAAAATG
1 ACTTTAGGGAGATAAGATCTGCAACTTGTAGCTTCAATCTGCTCCACTACAAATTCAAGAAAATG
* * *
46577972 AGATTTGCTATCTTCAGTCTGCTCTGCTACA
66 AAATTTACTATCTTCAGTCTGCTCCGCTACA
* * * * *
46578003 ACTTTAGGGAGATAAGA-CTTGCAACTTGTAGCTTCAATCTGCTCCACTACTACTTCAGGGAGAT
1 ACTTTAGGGAGATAAGATC-TGCAACTTGTAGCTTCAATCTGCTCCACTACAAATTCAAGAAAAT
*
46578067 GAAATTTACTGTCTTCAGTCTGCTCCGCTACA
65 GAAATTTACTATCTTCAGTCTGCTCCGCTACA
*
46578099 ACTTTAGGTAGATAAG
1 ACTTTAGGGAGATAAG
46578115 GCTGGTGGCT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
95 1 0.01
96 97 0.99
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (96 bp):
ACTTTAGGGAGATAAGATCTGCAACTTGTAGCTTCAATCTGCTCCACTACAAATTCAAGAAAATG
AAATTTACTATCTTCAGTCTGCTCCGCTACA
Found at i:46578044 original size:51 final size:45
Alignment explanation
Indices: 46577982--46578114 Score: 133
Period size: 51 Copynumber: 2.8 Consensus size: 45
46577972 AGATTTGCTA
*
46577982 TCTTCAGTCTGCTCTGCTACAACTTTAGGGAGATAAGACTTGCAACTTG
1 TCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGA-TT--AAC-TG
* * * * *
46578031 TAGCTTCAATCTGCTCCACTACTACTTCAGGGAGATGAA-ATTTACTG
1 T--CTTCAGTCTGCTCCGCTACAACTTTAGGGAGAT-AAGATTAACTG
*
46578078 TCTTCAGTCTGCTCCGCTACAACTTTAGGTAGATAAG
1 TCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAG
46578115 GCTGGTGGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
44 2 0.03
45 28 0.41
47 3 0.04
48 2 0.03
49 1 0.01
50 2 0.03
51 29 0.42
52 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
TCTTCAGTCTGCTCCGCTACAACTTTAGGGAGATAAGATTAACTG
Found at i:46578216 original size:89 final size:87
Alignment explanation
Indices: 46578123--46578401 Score: 267
Period size: 89 Copynumber: 3.1 Consensus size: 87
46578113 AGGCTGGTGG
*
46578123 CTTCAATCTGCTTTGCTGCAATGTCAGGAAGATAAGATTCACCTTATTTGATCTACTCCACTACA
1 CTTCAATCTGCTTCGCTGCAAT-TCAGGAAGATAAGATT-ACCTTATTTGATCTACTCCACTACA
* **
46578188 ATTTCAAAAAGATAAGATCTTCAA
64 ACTTCAAGGAGATAAGATCTTCAA
* * * * * * ** * * * *
46578212 CTTCAATTTGCTCCACTGCTACTTCAGGGAGATGAGATTTGCTGT-CTTCAGTCTGCTCCACTGC
1 CTTCAATCTGCTTCGCTGC-AATTCAGGAAGATAAGATTACCT-TATTTGA-TCTACTCCACTAC
* * *
46578276 AACTTCAGGGAGATAAG-GCTGGT-AG
63 AACTTCAAGGAGATAAGATCT--TCAA
* *
46578301 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCGTATTTGATCTACTCCACTACA
1 CTTCAATCTGCTTCGCTGCAA-TTCAGGAAGATAAGA-TTACCTTATTTGATCTACTCCACTACA
46578366 ACTTCAAGGAGATAAGATCTTCAA
64 ACTTCAAGGAGATAAGATCTTCAA
46578390 CTTCAATCTGCT
1 CTTCAATCTGCT
46578402 CCACTACTGC
Statistics
Matches: 145, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
88 9 0.06
89 125 0.86
90 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (87 bp):
CTTCAATCTGCTTCGCTGCAATTCAGGAAGATAAGATTACCTTATTTGATCTACTCCACTACAAC
TTCAAGGAGATAAGATCTTCAA
Found at i:46578269 original size:45 final size:45
Alignment explanation
Indices: 46577938--46578430 Score: 223
Period size: 45 Copynumber: 10.9 Consensus size: 45
46577928 TAACTTGTAG
* * * * * *
46577938 CTTCAATCTGCTCCACTGCAAATTCAAGAAAATGAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTGT
* ** * * *
46577983 CTTCAGTCTGCTCTGCTACAACTTTAGGGAGATAAGACTTGCAACTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C-TGT
* * *
46578032 AGCTTCAATCTGCTCCACTACTACTTCAGGGAGATGAA-ATTTACTGT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTTGCTGT
* * * * * ** * *
46578079 CTTCAGTCTGCTCCGCTACAACTTTAGGTAGATAAG-GCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTGT
*** * **
46578123 CTTCAATCTGCTTTGCTGCAA-TGTCAGGAAGATAAGATTCACCT-T
1 CTTCAATCTGCTCCACTGCAACT-TCAGGGAGATAAGATT-TGCTGT
* ** * * * *** **
46578168 ATTTGATCTACTCCACTACAATTTCAAAAAGATAAGATCTT-C-AA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGCTGT
* * *
46578212 CTTCAATTTGCTCCACTGCTACTTCAGGGAGATGAGATTTGCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTGT
* ** *
46578257 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-GCTGGTAG-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-GT
* * * *
46578301 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTGT
* ** * * * **
46578346 ATTTGATCTACTCCACTACAACTTCAAGGAGATAAGATCTT-C-AA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGCTGT
* ** * *
46578390 CTTCAATCTGCTCCACTACTGCTTTAGGGAGATGAGATTTG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
46578431 TGGATTCACC
Statistics
Matches: 325, Mismatches: 102, Indels: 43
0.69 0.22 0.09
Matches are distributed among these distances:
43 5 0.02
44 126 0.39
45 149 0.46
46 5 0.02
47 3 0.01
48 2 0.01
49 2 0.01
51 31 0.10
52 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTGT
Found at i:46578428 original size:89 final size:89
Alignment explanation
Indices: 46578167--46578430 Score: 300
Period size: 89 Copynumber: 3.0 Consensus size: 89
46578157 AGATTCACCT
* ** *
46578167 TATTTGATCTACTCCACTACAATTTCAAAAAGATAAGATCTTCAACTTCAATTTGCTCCACTGCT
1 TATTTGATCTACTCCACTACAACTTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCACTGCT
*
46578232 ACTTCAGGGAGATGAGATTTGCTG
66 ACTTCAGGGAGATGAGATTTGCCG
* * * * * * * * *
46578256 T-CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-GCTGGT-AGCTTCAATCTGCTTCGCT
1 TATTTGA-TCTACTCCACTACAACTTCAAGGAGATAAGATCT--TCAACTTCAATCTGCTCCACT
* * *
46578318 GCAACTTCAGGAAGATAAGATTTGCCG
63 GCTACTTCAGGGAGATGAGATTTGCCG
*
46578345 TATTTGATCTACTCCACTACAACTTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCACTACT
1 TATTTGATCTACTCCACTACAACTTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCACTGCT
* *
46578410 GCTTTAGGGAGATGAGATTTG
66 ACTTCAGGGAGATGAGATTTG
46578431 TGGATTCACC
Statistics
Matches: 137, Mismatches: 32, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
88 6 0.04
89 125 0.91
90 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
TATTTGATCTACTCCACTACAACTTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCACTGCT
ACTTCAGGGAGATGAGATTTGCCG
Found at i:46578430 original size:178 final size:178
Alignment explanation
Indices: 46578034--46578430 Score: 616
Period size: 178 Copynumber: 2.2 Consensus size: 178
46578024 CAACTTGTAG
* * *
46578034 CTTCAATCTGCTCCACTACTACTTCAGGGAGATGAAATTTACTGTCTTCAGTCTGCTCCGCTACA
1 CTTCAATCTGCTCCACTACTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGCTCCACTACA
* * * *
46578099 ACTTTAGGTAGATAAGGCTGGTGGCTTCAATCTGCTTTGCTGCAATGTCAGGAAGATAAGATTCA
66 ACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTTCGCTGCAATGTCAGGAAGATAAGATTCA
* *
46578164 CCTTATTTGATCTACTCCACTACAATTTCAAAAAGATAAGATCTTCAA
131 CCGTATTTGATCTACTCCACTACAACTTCAAAAAGATAAGATCTTCAA
* * *
46578212 CTTCAATTTGCTCCACTGCTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTACTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGCTCCACTACA
*
46578277 ACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTTCGCTGCAACT-TCAGGAAGATAAGATTT
66 ACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTTCGCTGCAA-TGTCAGGAAGATAAGATTC
* **
46578341 GCCGTATTTGATCTACTCCACTACAACTTCAAGGAGATAAGATCTTCAA
130 ACCGTATTTGATCTACTCCACTACAACTTCAAAAAGATAAGATCTTCAA
* *
46578390 CTTCAATCTGCTCCACTACTGCTTTAGGGAGATGAGATTTG
1 CTTCAATCTGCTCCACTACTACTTCAGGGAGATGAGATTTG
46578431 TGGATTCACC
Statistics
Matches: 198, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 197 0.99
179 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (178 bp):
CTTCAATCTGCTCCACTACTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGCTCCACTACA
ACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTTCGCTGCAATGTCAGGAAGATAAGATTCA
CCGTATTTGATCTACTCCACTACAACTTCAAAAAGATAAGATCTTCAA
Found at i:46578921 original size:46 final size:46
Alignment explanation
Indices: 46578780--46578927 Score: 215
Period size: 46 Copynumber: 3.2 Consensus size: 46
46578770 AAAATTTGGT
* * *
46578780 TTCTTCTATCCATCCTACTGCAACTCAAAGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
* * *
46578826 ATCTCCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
* **
46578872 TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTGGC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
46578918 TTCTTCAATC
1 TTCTTCAATC
46578928 AATTGATTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
Found at i:46579423 original size:53 final size:53
Alignment explanation
Indices: 46579322--46579424 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
46579312 GCTCGAAACA
* * **
46579322 AATAAGTTAATCAAAGATAGCGAATGCAATAAGAAGGAATTTTTTTGGGAATG
1 AATAAGTTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTGATTGGGAATG
*
46579375 AATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTGATTGGGA
1 AATAAGTTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTGATTGGGA
46579425 GTATAGCTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.47, C:0.05, G:0.22, T:0.26
Consensus pattern (53 bp):
AATAAGTTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTGATTGGGAATG
Found at i:46585234 original size:22 final size:23
Alignment explanation
Indices: 46585208--46585256 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
46585198 GAATTTGCTG
* * *
46585208 TAAATTGAAAGTTTTTTGATAGA
1 TAAATTAAAAGATTATTGATAGA
46585231 -AAA-TAAAAGATTATTGATAGA
1 TAAATTAAAAGATTATTGATAGA
46585252 TAAAT
1 TAAAT
46585257 CACTTTTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (23 bp):
TAAATTAAAAGATTATTGATAGA
Found at i:46585981 original size:32 final size:32
Alignment explanation
Indices: 46585942--46586094 Score: 137
Period size: 32 Copynumber: 4.7 Consensus size: 32
46585932 AAATGGAACA
* *
46585942 ACTTGAAAACGTTATGTACACTTTATGTGTAC
1 ACTTGAAAAGGATATGTACACTTTATGTGTAC
* * * * *
46585974 ACTTGAAAAGGAAAGGTATACTTTGTGTATACC
1 ACTTGAAAAGGATATGTACACTTTATGTGTA-C
* * *
46586007 ACTTGAAAAGGAAAGGTACACTATATGTGTAC
1 ACTTGAAAAGGATATGTACACTTTATGTGTAC
* * *
46586039 ACTTGAAAAGGTTTTGTGCACTTTGA-GTGTAC
1 ACTTGAAAAGGATATGTACACTTT-ATGTGTAC
* *
46586071 AAATTGAAAAGGGTATGTACACTT
1 -ACTTGAAAAGGATATGTACACTT
46586095 CGTGTGTGCC
Statistics
Matches: 97, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
32 49 0.51
33 48 0.49
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (32 bp):
ACTTGAAAAGGATATGTACACTTTATGTGTAC
Found at i:46586091 original size:65 final size:65
Alignment explanation
Indices: 46585939--46586093 Score: 166
Period size: 65 Copynumber: 2.4 Consensus size: 65
46585929 CCCAAATGGA
* * * * *
46585939 ACAACTTGAAAACGTTATGTACACTTTATGTGTACACTTGAAAAGGAAAGGTATACTTTGTGTAT
1 ACAACTTGAAAAGGATATGTACACTATATGTGTACACTTGAAAAGGAAAGGTACACTTTGAGTAT
* * * **** * *
46586004 ACCACTTGAAAAGGAAAGGTACACTATATGTGTACACTTGAAAAGGTTTTGTGCACTTTGAGTGT
1 ACAACTTGAAAAGGATATGTACACTATATGTGTACACTTGAAAAGGAAAGGTACACTTTGAGTAT
* *
46586069 ACAAATTGAAAAGGGTATGTACACT
1 ACAACTTGAAAAGGATATGTACACT
46586094 TCGTGTGTGC
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (65 bp):
ACAACTTGAAAAGGATATGTACACTATATGTGTACACTTGAAAAGGAAAGGTACACTTTGAGTAT
Found at i:46586094 original size:33 final size:33
Alignment explanation
Indices: 46585939--46586151 Score: 128
Period size: 33 Copynumber: 6.5 Consensus size: 33
46585929 CCCAAATGGA
* **
46585939 ACAACTTGAAAACGTTATGTACACTTT-ATGTGT
1 ACAACTTGAAAAGGAAATGTACACTTTGA-GTGT
* * * *
46585972 AC-ACTTGAAAAGGAAAGGTATACTTTGTGTAT
1 ACAACTTGAAAAGGAAATGTACACTTTGAGTGT
* * *
46586004 ACCACTTGAAAAGGAAAGGTACACTAT-ATGTGT
1 ACAACTTGAAAAGGAAATGTACACTTTGA-GTGT
*** *
46586037 AC-ACTTGAAAAGGTTTTGTGCACTTTGAGTGT
1 ACAACTTGAAAAGGAAATGTACACTTTGAGTGT
* ** * *
46586069 ACAAATTGAAAAGGGTATGTACACTTCGTGTGT
1 ACAACTTGAAAAGGAAATGTACACTTTGAGTGT
* * * * * * *
46586102 GCCATTTGAAAAGGGAATGTGCACCTCGAGTGT
1 ACAACTTGAAAAGGAAATGTACACTTTGAGTGT
* *
46586135 ACAACTAGAAAATGAAA
1 ACAACTTGAAAAGGAAA
46586152 AGTCCATCAG
Statistics
Matches: 139, Mismatches: 36, Indels: 10
0.75 0.19 0.05
Matches are distributed among these distances:
32 48 0.35
33 91 0.65
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (33 bp):
ACAACTTGAAAAGGAAATGTACACTTTGAGTGT
Found at i:46587587 original size:3 final size:3
Alignment explanation
Indices: 46587579--46587603 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46587569 GCTATAAATG
46587579 GTA GTA GTA GTA GTA GTA GTA GTA G
1 GTA GTA GTA GTA GTA GTA GTA GTA G
46587604 AAGGTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GTA
Found at i:46588722 original size:19 final size:20
Alignment explanation
Indices: 46588690--46588728 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
46588680 GTAGACAACC
46588690 TAGACACTCCAGAAATGTTA
1 TAGACACTCCAGAAATGTTA
46588710 TAGACAC-CCAGAAATGTTA
1 TAGACACTCCAGAAATGTTA
46588729 GTGGTAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (20 bp):
TAGACACTCCAGAAATGTTA
Found at i:46592789 original size:21 final size:21
Alignment explanation
Indices: 46592751--46592798 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
46592741 GAATATGCTG
*
46592751 TAAATTGAAAATTTTTGATAGA
1 TAAA-TGAAAATTATTGATAGA
46592773 -AAATGAAAGATTATTGATAGA
1 TAAATGAAA-ATTATTGATAGA
46592794 TAAAT
1 TAAAT
46592799 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TAAATGAAAATTATTGATAGA
Found at i:46593518 original size:33 final size:33
Alignment explanation
Indices: 46593501--46593728 Score: 201
Period size: 33 Copynumber: 7.0 Consensus size: 33
46593491 AAAATGTTAT
46593501 GTACACTTTGTGTGTA-CACTTGAAAAGGAAAG
1 GTACACTTTGTGTGTACCACTTGAAAAGGAAAG
* *
46593533 GTATACTTTGTGTATACCA-TATGAAAAGGAAAG
1 GTACACTTTGTGTGTACCACT-TGAAAAGGAAAG
* *
46593566 GTATACTTTGTGTATACCACTTGAAAAGGAAAG
1 GTACACTTTGTGTGTACCACTTGAAAAGGAAAG
* * ** *
46593599 GTACACTATATGTGTA-CACTTGAAAAGGTTAT
1 GTACACTTTGTGTGTACCACTTGAAAAGGAAAG
* * * * ** *
46593631 GTGCACTTTGAGTGTACAAATTGAAAAGGGTAT
1 GTACACTTTGTGTGTACCACTTGAAAAGGAAAG
* * *
46593664 GTACACTTCGTGTGTACCACTTGAAAAGGGAAT
1 GTACACTTTGTGTGTACCACTTGAAAAGGAAAG
* * * * * *
46593697 GTGCACCTCGAGTGTACAACTAGAAAAGGAAA
1 GTACACTTTGTGTGTACCACTTGAAAAGGAAA
46593729 AGTCCATCAG
Statistics
Matches: 164, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
32 40 0.24
33 123 0.75
34 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (33 bp):
GTACACTTTGTGTGTACCACTTGAAAAGGAAAG
Found at i:46593558 original size:65 final size:64
Alignment explanation
Indices: 46593481--46593728 Score: 196
Period size: 65 Copynumber: 3.8 Consensus size: 64
46593471 TACCCAAATG
* *
46593481 GTACAACTTGAAAATGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTATACT-T-TGT
1 GTAC-ACTTGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTACACTATATGT
* ** * * *
46593544 GTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATA
1 GTACA-C-T-TGAAAAGGTTATGTACACTTTGTGTGTA-CACTTGAAAAGGAAAGGTACACTATA
46593609 TGT
62 TGT
* * * ** * *
46593612 GTACACTTGAAAAGGTTATGTGCACTTTGAGTGTACAAATTGAAAAGGGTATGTACACT-TCGTG
1 GTACACTTGAAAAGGTTATGTACACTTTGTGTGTAC-ACTTGAAAAGGAAAGGTACACTAT-ATG
46593676 T
64 T
** * * * * *
46593677 GTACCACTTGAAAAGGGAATGTGCACCTCGAGTGTACAACTAGAAAAGGAAA
1 GTA-CACTTGAAAAGGTTATGTACACTTTGTGTGTAC-ACTTGAAAAGGAAA
46593729 AGTCCATCAG
Statistics
Matches: 147, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 3 0.02
65 67 0.46
66 63 0.43
67 2 0.01
68 7 0.05
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (64 bp):
GTACACTTGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTACACTATATGT
Found at i:46593639 original size:98 final size:98
Alignment explanation
Indices: 46593501--46593692 Score: 224
Period size: 98 Copynumber: 2.0 Consensus size: 98
46593491 AAAATGTTAT
* * * * *
46593501 GTACACTTTGTGTGTACACTTGAAAAGGAAAGGTATACTTTGTGTATAC-CATATGAAAAGGAAA
1 GTACACTATATGTGTACACTTGAAAAGGAAAGGTACACTTTGAGTATACAAAT-TGAAAAGGAAA
* *
46593565 GGTATACTTTGTGTATACCACTTGAAAAGGAAAG
65 GGTACACTTCGTGTATACCACTTGAAAAGGAAAG
** * * * ** *
46593599 GTACACTATATGTGTACACTTGAAAAGGTTATGTGCACTTTGAGTGTACAAATTGAAAAGGGTAT
1 GTACACTATATGTGTACACTTGAAAAGGAAAGGTACACTTTGAGTATACAAATTGAAAAGGAAAG
*
46593664 GTACACTTCGTGTGTACCACTTGAAAAGG
66 GTACACTTCGTGTATACCACTTGAAAAGG
46593693 GAATGTGCAC
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
98 75 0.97
99 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (98 bp):
GTACACTATATGTGTACACTTGAAAAGGAAAGGTACACTTTGAGTATACAAATTGAAAAGGAAAG
GTACACTTCGTGTATACCACTTGAAAAGGAAAG
Found at i:46595278 original size:4 final size:4
Alignment explanation
Indices: 46595271--46595297 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46595261 ATTGAAAAAA
46595271 AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AAT
46595298 ACATGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:46599123 original size:48 final size:46
Alignment explanation
Indices: 46599006--46599128 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 46
46598996 AGTGATAATT
*
46599006 TTAAATTTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAA
1 TTAAA-TTTCAATACTATTTGATATT-TTTTAATTTATGCAAATTTAA
*
46599054 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAATTT-CAATACTATTTGATATTTT-TTAATTTATGCAAATT-TAA
*
46599102 TTACAATTTCAATACTGTTTGAT-TTTT
1 TTA-AATTTCAATACTATTTGATATTTT
46599129 CTTTTTTCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
47 13 0.19
48 50 0.74
49 5 0.07
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (46 bp):
TTAAATTTCAATACTATTTGATATTTTTTAATTTATGCAAATTTAA
Found at i:46600760 original size:18 final size:18
Alignment explanation
Indices: 46600737--46600779 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
46600727 TTCCAGGTGC
*
46600737 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
46600755 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
46600773 GTTTCCT
1 GTATCCT
46600780 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:46601285 original size:19 final size:20
Alignment explanation
Indices: 46601256--46601301 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
46601246 TATAAATAAT
46601256 ACAAC-ATAG-TTTTTTACG
1 ACAACTATAGTTTTTTTACG
46601274 ACAACTATAGTTTTTTTACG
1 ACAACTATAGTTTTTTTACG
46601294 ACAACTAT
1 ACAACTAT
46601302 CAACTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 17 0.65
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ACAACTATAGTTTTTTTACG
Found at i:46604447 original size:126 final size:126
Alignment explanation
Indices: 46604279--46604660 Score: 586
Period size: 126 Copynumber: 3.0 Consensus size: 126
46604269 TTATAGCCTC
* * * *
46604279 ATTTGTCTACGAACTACTATAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
*
46604344 ATAGTGCATCTTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ATAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
*
46604405 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* *
46604470 ATAGTGCATCCTACTTGAAGCGTTTTCGGCACTATTTGTTTAGAAACGTCTACTCAGAATT
66 ATAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
46604531 ATTTTTCTACGAACTACTGTAGCAAAAAAGCGTCCACATGGGAGGTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * * * *
46604596 ACAGTGCATCCTGCTTGGAGCATTTTCTGACACTATTT-TTCCAGAAACGTCTGCTTAGAATT
66 ATAGTGCATCCTGCTTGAAGCGTTTTC-GGCACTATTTGTT-CAGAAACGTCTACTCAGAATT
46604658 ATT
1 ATT
46604661 CTTGTAGAAA
Statistics
Matches: 234, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
126 204 0.87
127 30 0.13
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ATAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:46606113 original size:25 final size:25
Alignment explanation
Indices: 46606085--46606169 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
46606075 AATAACTGGG
* *
46606085 GCCCTTTTTGATTAACTGGGGCAAA
1 GCCCTTTTTGGTAAACTGGGGCAAA
*
46606110 GCCCTTTTGGGTAAACTGGGGCAAA
1 GCCCTTTTTGGTAAACTGGGGCAAA
*
46606135 GCCCTTTTCGGTAAACTGGGGCAAA
1 GCCCTTTTTGGTAAACTGGGGCAAA
46606160 GCCCTTTTTG
1 GCCCTTTTTG
46606170 CACTTCCTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (25 bp):
GCCCTTTTTGGTAAACTGGGGCAAA
Found at i:46606259 original size:10 final size:10
Alignment explanation
Indices: 46606235--46606281 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
46606225 CATCTCATAA
46606235 CATATCATGT
1 CATATCATGT
46606245 GCATATCATGT
1 -CATATCATGT
46606256 CATATCATGT
1 CATATCATGT
*
46606266 CATATGATGT
1 CATATCATGT
46606276 -ATATCA
1 CATATCA
46606282 AAATCTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:46606259 original size:21 final size:21
Alignment explanation
Indices: 46606215--46606281 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
46606205 TATAATGAAT
* * **
46606215 ATATCTTGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
46606236 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
*
46606257 ATATCATGT-CATATGATGT-
1 ATATCATGTGCATATCATGTC
46606276 ATATCA
1 ATATCA
46606282 AAATCTCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 26 0.63
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:46614264 original size:21 final size:21
Alignment explanation
Indices: 46614200--46614252 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
46614190 ACCGAACCCA
* * *
46614200 TGCATATAATGAATATATCTTG
1 TGCATATCAT-AACATATCATG
*
46614222 TGCATCTCATAACATATCATG
1 TGCATATCATAACATATCATG
46614243 TGCATATCAT
1 TGCATATCAT
46614253 GTCATATGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (21 bp):
TGCATATCATAACATATCATG
Found at i:46622163 original size:24 final size:24
Alignment explanation
Indices: 46622116--46622213 Score: 106
Period size: 25 Copynumber: 4.0 Consensus size: 24
46622106 GCTTTATCAT
** *
46622116 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
46622141 ATAACTGGGGCAAAGCCTTTTTTA
1 ATAACTGGGGCAAAGCCTTTTTTA
* *
46622165 ATTAACTGGGGCAAAGCCCTTTTTG
1 A-TAACTGGGGCAAAGCCTTTTTTA
* *
46622190 GTAAATTGGGGCAAAGCCTTTTTT
1 AT-AACTGGGGCAAAGCCTTTTTT
46622214 GCACTTCTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 15 0.24
25 48 0.76
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:46622188 original size:25 final size:25
Alignment explanation
Indices: 46622130--46622213 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
46622120 CTGGAGGCCT
*
46622130 AGCCTCTTTTAA-TAACTGGGGCAA
1 AGCCTTTTTTAATTAACTGGGGCAA
46622154 AGCCTTTTTTAATTAACTGGGGCAA
1 AGCCTTTTTTAATTAACTGGGGCAA
* ** * *
46622179 AGCCCTTTTTGGTAAATTGGGGCAA
1 AGCCTTTTTTAATTAACTGGGGCAA
46622204 AGCCTTTTTT
1 AGCCTTTTTT
46622214 GCACTTCTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
24 11 0.21
25 41 0.79
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (25 bp):
AGCCTTTTTTAATTAACTGGGGCAA
Found at i:46622304 original size:10 final size:10
Alignment explanation
Indices: 46622280--46622326 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
46622270 CATCTCATAA
46622280 CATATCATGT
1 CATATCATGT
46622290 GCATATCATGT
1 -CATATCATGT
46622301 CATATCATGT
1 CATATCATGT
*
46622311 CATATGATGT
1 CATATCATGT
46622321 -ATATCA
1 CATATCA
46622327 AAATCTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:46622304 original size:21 final size:21
Alignment explanation
Indices: 46622260--46622326 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
46622250 TATAATGAAT
* * **
46622260 ATATCTTGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
46622281 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
*
46622302 ATATCATGT-CATATGATGT-
1 ATATCATGTGCATATCATGTC
46622321 ATATCA
1 ATATCA
46622327 AAATCTCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 26 0.63
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:46629060 original size:40 final size:40
Alignment explanation
Indices: 46629001--46629148 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
46628991 TATTTGGATG
*
46629001 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46629041 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46629081 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
46629121 ATAACCGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
46629149 AGCAAGTAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 16 0.16
40 87 0.84
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:46631645 original size:49 final size:49
Alignment explanation
Indices: 46631588--46631688 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
46631578 AAAAAAAAAG
46631588 ATCCAAATGAAATTTAGTGTTTGCATTTATTTTATGTTATTAAAGAAAC
1 ATCCAAATGAAATTTAGTGTTTGCATTTATTTTATGTTATTAAAGAAAC
46631637 ATCCAAATGAAATTTAGTGTTTGCATTTATTTTATGTTATTAAAGAAAC
1 ATCCAAATGAAATTTAGTGTTTGCATTTATTTTATGTTATTAAAGAAAC
46631686 ATC
1 ATC
46631689 ATAATATTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (49 bp):
ATCCAAATGAAATTTAGTGTTTGCATTTATTTTATGTTATTAAAGAAAC
Found at i:46638288 original size:23 final size:23
Alignment explanation
Indices: 46638246--46638290 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46638236 TTATGAAATA
** *
46638246 AAAAAAGAAAGGTAGTGGAAAAG
1 AAAAAAGAAAGAAAGAGGAAAAG
46638269 AAAAAAGAAAGAAAGAGGAAAA
1 AAAAAAGAAAGAAAGAGGAAAA
46638291 CATTTCTCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (23 bp):
AAAAAAGAAAGAAAGAGGAAAAG
Found at i:46640400 original size:27 final size:27
Alignment explanation
Indices: 46640368--46640692 Score: 337
Period size: 27 Copynumber: 12.0 Consensus size: 27
46640358 CCTAGACCCT
**
46640368 TTATATGGTAAAATGACTGTTTCACCC
1 TTATATGGTAAAATGACTGTTTTGCCC
* *
46640395 TTATATGGTAAAATAACTGTTTTACCC
1 TTATATGGTAAAATGACTGTTTTGCCC
* * *
46640422 TTATGTGGTGAAATAACTGTTTTGCCC
1 TTATATGGTAAAATGACTGTTTTGCCC
* *
46640449 TTATATGGTAAAATGACTGTTTTACAC
1 TTATATGGTAAAATGACTGTTTTGCCC
* *
46640476 TTA-AGTGGTAAAATGACTATTTTGCCT
1 TTATA-TGGTAAAATGACTGTTTTGCCC
* * * * *
46640503 TTATGTGGTGAAATGAATATTTTTCCC
1 TTATATGGTAAAATGACTGTTTTGCCC
* *
46640530 TTATGTGGTGAAATGACTGTTTTGCCC
1 TTATATGGTAAAATGACTGTTTTGCCC
* * * ** *
46640557 TTATATAGTGAAATGACAGTTTTATCG
1 TTATATGGTAAAATGACTGTTTTGCCC
* * *
46640584 TTATGTGGTAAGATGACTGTTTTGCCT
1 TTATATGGTAAAATGACTGTTTTGCCC
* *
46640611 TTATGTGGTAAGATGACTGTTTTGCCC
1 TTATATGGTAAAATGACTGTTTTGCCC
* * *
46640638 TTATGTGGTAAGATGATTGTTTTGCCC
1 TTATATGGTAAAATGACTGTTTTGCCC
*
46640665 TTATATGGTAAGATGACTGTTTTGCCC
1 TTATATGGTAAAATGACTGTTTTGCCC
46640692 T
1 T
46640693 ATGCGATGTA
Statistics
Matches: 256, Mismatches: 40, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 255 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (27 bp):
TTATATGGTAAAATGACTGTTTTGCCC
Found at i:46641152 original size:41 final size:41
Alignment explanation
Indices: 46641107--46641287 Score: 176
Period size: 41 Copynumber: 4.5 Consensus size: 41
46641097 GGGTTTAAAA
46641107 CAAAACGCCGCTAAAAACTGAGCAAA-AGTGGCTTTTTTATC
1 CAAAACGCCGCTAAAAACTGAG-AAATAGTGGCTTTTTTATC
** * * * *
46641148 CAAAACGCCGCTAAAAACAAAGTAATAGTGGCGTTTTCAAC
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCTTTTTTATC
*
46641189 CAAAACGCCG-TAAAAAACTGAGAAATAGT-GC-ATTTTATC
1 CAAAACGCCGCT-AAAAACTGAGAAATAGTGGCTTTTTTATC
* * *
46641228 CAAAACGTCG-TAAAAAATAGAGAAATAGTGG-TGTTTTTGTC
1 CAAAACGCCGCTAAAAACT-GAGAAATAGTGGCT-TTTTTATC
* *
46641269 AAAAACGCCGCAAAAAACT
1 CAAAACGCCGCTAAAAACT
46641288 TCGATATAGT
Statistics
Matches: 113, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
38 6 0.05
39 25 0.22
40 6 0.05
41 70 0.62
42 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (41 bp):
CAAAACGCCGCTAAAAACTGAGAAATAGTGGCTTTTTTATC
Found at i:46641298 original size:80 final size:80
Alignment explanation
Indices: 46641108--46641287 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 80
46641098 GGTTTAAAAC
* * *
46641108 AAAACGCCGCTAAAAACTGAGCAAA-AGTGGCTTTTTTATCCAAAACGCCGCTAAAAACAAAGTA
1 AAAACGCCGCAAAAAACTGAG-AAATAGT-GC-ATTTTATCCAAAACGCCGCTAAAAACAAAGAA
*
46641172 ATAGTGGCGTTTTCAACC
63 ATAGTGGCGTTTTCAACA
* *
46641190 AAAACGCCGTAAAAAACTGAGAAATAGTGCATTTTATCCAAAACGTCG-TAAAAA-ATAGAGAAA
1 AAAACGCCGCAAAAAACTGAGAAATAGTGCATTTTATCCAAAACGCCGCTAAAAACA-A-AGAAA
* ***
46641253 TAGTGGTGTTTTTGTCA
64 TAGTGGCGTTTTCAACA
46641270 AAAACGCCGCAAAAAACT
1 AAAACGCCGCAAAAAACT
46641288 TCGATATAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 7 0.08
80 49 0.58
81 5 0.06
82 22 0.26
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.22
Consensus pattern (80 bp):
AAAACGCCGCAAAAAACTGAGAAATAGTGCATTTTATCCAAAACGCCGCTAAAAACAAAGAAATA
GTGGCGTTTTCAACA
Found at i:46642022 original size:108 final size:108
Alignment explanation
Indices: 46641836--46642033 Score: 351
Period size: 108 Copynumber: 1.8 Consensus size: 108
46641826 TTTTAGCCCC
* * *
46641836 TAAACCCTAAACTCTAAAGCCTAATCCCAAAACCTTAAACTACCTTAAACCCTAAAATATGAATC
1 TAAACCATAAACTCTAAAGCCTAATCCCAAAACCCTAAACTACCTTAAACCCTAAAATATGAAGC
46641901 CTAACCCCTAAATCATAACCCATGACCTAAACTCTAAACTTTT
66 CTAACCCCTAAATCATAACCCATGACCTAAACTCTAAACTTTT
*
46641944 TAAACCATAAACTCTAAAGCCTAATCCTAAAACCCTAAACTACCTTAAACCCTAAAATATGAAGC
1 TAAACCATAAACTCTAAAGCCTAATCCCAAAACCCTAAACTACCTTAAACCCTAAAATATGAAGC
*
46642009 TTAACCCCTAAATCATAACCCATGA
66 CTAACCCCTAAATCATAACCCATGA
46642034 GCTATAAAAC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.24
Consensus pattern (108 bp):
TAAACCATAAACTCTAAAGCCTAATCCCAAAACCCTAAACTACCTTAAACCCTAAAATATGAAGC
CTAACCCCTAAATCATAACCCATGACCTAAACTCTAAACTTTT
Found at i:46643241 original size:20 final size:20
Alignment explanation
Indices: 46643196--46643247 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
46643186 CCCCACCCAA
*
46643196 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
46643216 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
*
46643235 ATTTCCCCGAATC
1 ATTTCCCCAAATC
46643248 AAAAATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:46643294 original size:19 final size:19
Alignment explanation
Indices: 46643270--46643306 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
46643260 ATCCTTCTGT
46643270 CATTGAAGACTCCGAGTGC
1 CATTGAAGACTCCGAGTGC
46643289 CATTGAAGACTCCGAGTG
1 CATTGAAGACTCCGAGTG
46643307 GACGACCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (19 bp):
CATTGAAGACTCCGAGTGC
Found at i:46646087 original size:9 final size:9
Alignment explanation
Indices: 46646075--46646241 Score: 64
Period size: 9 Copynumber: 19.0 Consensus size: 9
46646065 ATATCATATA
46646075 ATAACTTAC
1 ATAACTTAC
*
46646084 ATAACTTAT
1 ATAACTTAC
*
46646093 ATACCTTAC
1 ATAACTTAC
*
46646102 A-AA-ATAC
1 ATAACTTAC
* *
46646109 ATAA-ATAT
1 ATAACTTAC
* *
46646117 ATATCATATC
1 ATAACTTA-C
46646127 ATAACTTAC
1 ATAACTTAC
*
46646136 ACAACTTAC
1 ATAACTTAC
46646145 ATAA--TAC
1 ATAACTTAC
* *
46646152 ATAA-ATAT
1 ATAACTTAC
* *
46646160 ATATCATATC
1 ATAACTTA-C
46646170 ATAACTTAC
1 ATAACTTAC
*
46646179 AT-ACTTTAT
1 ATAAC-TTAC
* *
46646188 ATAAATGTAT
1 ATAACT-TAC
* *
46646198 ATCA-TAAC
1 ATAACTTAC
46646206 ATAACTTAC
1 ATAACTTAC
46646215 ATAACTTAC
1 ATAACTTAC
46646224 A-AAGCTTAC
1 ATAA-CTTAC
*
46646233 TTAACTTAC
1 ATAACTTAC
46646242 GTAATACATA
Statistics
Matches: 121, Mismatches: 25, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
7 11 0.09
8 22 0.18
9 67 0.55
10 21 0.17
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAACTTAC
Found at i:46646130 original size:43 final size:43
Alignment explanation
Indices: 46646083--46646226 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 43
46646073 TAATAACTTA
*
46646083 CATAACTTATATACCTTACAAAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
* * *
46646126 CATAACTTACACAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
* * *
46646169 CATAACTTACATA-CTT------TATATAAATGTATATCATAA
1 CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
*
46646205 CATAACTTACATAACTTACAAA
1 CATAACTTACATACCTTACAAA
46646227 GCTTACTTAA
Statistics
Matches: 87, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
36 30 0.34
37 3 0.03
42 3 0.03
43 51 0.59
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (43 bp):
CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
Found at i:46646136 original size:52 final size:50
Alignment explanation
Indices: 46646058--46646190 Score: 172
Period size: 43 Copynumber: 2.7 Consensus size: 50
46646048 ATCTTAATGT
*
46646058 TAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAATACA
1 TAAATATATATCATATCATAACTTACAT-ACTTATATA-CTTACAAAATACA
*
46646110 TAAATATATATCATATCATAACTTAC--AC----A-ACTTACATAATACA
1 TAAATATATATCATATCATAACTTACATACTTATATACTTACAAAATACA
46646153 TAAATATATATCATATCATAACTTACATACTTTATATA
1 TAAATATATATCATATCATAACTTACATAC-TTATATA
46646191 AATGTATATC
Statistics
Matches: 71, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
43 38 0.54
44 1 0.01
45 3 0.04
49 2 0.03
50 1 0.01
51 1 0.01
52 25 0.35
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (50 bp):
TAAATATATATCATATCATAACTTACATACTTATATACTTACAAAATACA
Found at i:46646147 original size:36 final size:36
Alignment explanation
Indices: 46646097--46646224 Score: 118
Period size: 36 Copynumber: 3.4 Consensus size: 36
46646087 ACTTATATAC
46646097 CTTACAAA-A-TACATAAATATATATCATATCATAA
1 CTTACAAACATTACATAAATATATATCATATCATAA
46646131 CTTACACAACTTACATAATACATAAATATATATCATATCATAA
1 CTT--ACAA---ACAT--TACATAAATATATATCATATCATAA
* * * * *
46646174 CTTACATACTTTATATAAATGTATATCATAACATAA
1 CTTACAAACATTACATAAATATATATCATATCATAA
46646210 CTTACATAAC-TTACA
1 CTTACA-AACATTACA
46646225 AAGCTTACTT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
34 3 0.04
36 36 0.47
37 2 0.03
38 3 0.04
39 1 0.01
40 1 0.01
41 3 0.04
43 28 0.36
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (36 bp):
CTTACAAACATTACATAAATATATATCATATCATAA
Found at i:46651364 original size:13 final size:14
Alignment explanation
Indices: 46651348--46651376 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46651338 TTATAAATAT
46651348 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
46651361 TTATAATGGTTTAA
1 TTATAATGGTTTAA
46651375 TT
1 TT
46651377 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:46651820 original size:21 final size:21
Alignment explanation
Indices: 46651782--46651857 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
46651772 ACAACTTAGA
* * *
46651782 GCAGAGGCAGTAGAGAGGGAG
1 GCAGCGGCAGCAGTGAGGGAG
*
46651803 GCAGCGACAGCAGTGAGGGAG
1 GCAGCGGCAGCAGTGAGGGAG
* *
46651824 GCAACGGCAGCAGTGAGAGAG
1 GCAGCGGCAGCAGTGAGGGAG
*
46651845 GCAGAGGCAGCAG
1 GCAGCGGCAGCAG
46651858 CGATGGTAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.47, T:0.04
Consensus pattern (21 bp):
GCAGCGGCAGCAGTGAGGGAG
Found at i:46652148 original size:31 final size:31
Alignment explanation
Indices: 46652113--46652178 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
46652103 TGTATTTTTT
*
46652113 ATGCTACATTT-TCTATTTTTGGTTGGATTTC
1 ATGCTACATTTGT-TATTTTTGGTTGGATTTA
* *
46652144 ATGCTATATTTGTTGTTTTTGGTTGGATTTA
1 ATGCTACATTTGTTATTTTTGGTTGGATTTA
46652175 ATGC
1 ATGC
46652179 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.17, C:0.09, G:0.20, T:0.55
Consensus pattern (31 bp):
ATGCTACATTTGTTATTTTTGGTTGGATTTA
Found at i:46659152 original size:28 final size:26
Alignment explanation
Indices: 46659121--46659184 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
46659111 AATTACTTGA
*
46659121 ATACCCCTATGTATGGAAAATTA-CAGTT
1 ATACCCCTA-G-ATGCAAAATTACCA-TT
*
46659149 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
46659175 ATACCCCTAG
1 ATACCCCTAG
46659185 GGTTACTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 21 0.64
27 3 0.09
28 9 0.27
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:46659393 original size:54 final size:54
Alignment explanation
Indices: 46659291--46659396 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
46659281 GAAGCGTCCT
*
46659291 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTTC
1 GGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTTTC
* * * *
46659345 GGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 GGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCTGTT
46659397 CTGGAAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTTTC
Found at i:46659394 original size:27 final size:27
Alignment explanation
Indices: 46659289--46659400 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
46659279 AGGAAGCGTC
* *
46659289 CTGGTGGCTATGCCACAATTATCT-AAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
46659316 CTGGTGGCTCTGCCACATATATCTGTTT
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
46659344 C-GGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
46659371 CTGGTGACTCTGTCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
46659397 CTGG
1 CTGG
46659401 AAGCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:46668238 original size:27 final size:27
Alignment explanation
Indices: 46668215--46668681 Score: 501
Period size: 27 Copynumber: 17.3 Consensus size: 27
46668205 TTAGTTTACC
46668215 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCT-TGGTTTGTA
*
46668242 AAATTACTAAAATACCCTTGGTTTAG-A
1 AAATTACCAAAATACCCTTGGTTT-GTA
* *
46668269 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
46668296 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
46668323 AAATTACCAAAATACCCATAATTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
46668350 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
46668377 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
46668404 AAATTACC-AAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
46668430 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
46668457 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
46668484 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
46668511 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
46668538 AAATTATCAAAATACTCC-TAGTTTGTA
1 AAATTACCAAAATAC-CCTTGGTTTGTA
* * *
46668565 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * ***
46668592 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * **
46668619 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * *
46668646 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
46668673 GAATTACCA
1 AAATTACCA
46668682 TTTTACCCTC
Statistics
Matches: 373, Mismatches: 61, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
26 26 0.07
27 341 0.91
28 6 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:46668754 original size:27 final size:27
Alignment explanation
Indices: 46668708--46668919 Score: 221
Period size: 27 Copynumber: 7.9 Consensus size: 27
46668698 CAAAATTACT
** ***
46668708 GAAATACCCTTGTACAGTAGAAATGTT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
46668735 GAAATACCCTTCTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
**
46668762 GAAATACCCCAGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
46668789 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
46668816 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
46668843 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
46668870 GAAATACTCC-TATAAGGTAGAATTACC
1 GAAATAC-CCTTGTAGGGTAGAAATACC
* *
46668897 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
46668920 TACCATTTTA
Statistics
Matches: 155, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.03
27 148 0.95
28 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:46668934 original size:81 final size:81
Alignment explanation
Indices: 46668735--46668907 Score: 265
Period size: 81 Copynumber: 2.1 Consensus size: 81
46668725 TAGAAATGTT
* * *
46668735 GAAATACCCTTCTAGGGTAGAAATACCGAAATACCCCAGTAGGGTAGAAATACCGAAATACCCCT
1 GAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAAATACCGAAATACCCCT
* *
46668800 GTAGGGTAGAATTACC
66 ATAAGGTAGAATTACC
* * *
46668816 GAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATTACTGAAATACTCCT
1 GAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAAATACCGAAATACCCCT
46668881 ATAAGGTAGAATTACC
66 ATAAGGTAGAATTACC
*
46668897 GAGATACCCTT
1 GAAATACCCTT
46668908 GTGGGGTAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (81 bp):
GAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAAATACCGAAATACCCCT
ATAAGGTAGAATTACC
Found at i:46669348 original size:6 final size:6
Alignment explanation
Indices: 46669339--46669543 Score: 170
Period size: 6 Copynumber: 33.3 Consensus size: 6
46669329 TTGCATTCAC
* *
46669339 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
46669389 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
46669438 ATTCTG ATTCTG -TTACCTA ATTTTG ATTCTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
46669487 -TCACCTG ATTCTG ATTCTG ATTCTG ATTTTG ATTCTT ATTTTG ATTCT-
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
46669535 AGTTCTG AT
1 A-TTCTG AT
46669544 AATGTTTCTT
Statistics
Matches: 160, Mismatches: 22, Indels: 34
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.07
6 128 0.80
7 13 0.08
8 8 0.05
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:46669370 original size:25 final size:25
Alignment explanation
Indices: 46669342--46669474 Score: 156
Period size: 25 Copynumber: 5.6 Consensus size: 25
46669332 CATTCACATT
46669342 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
46669367 CTGATTCTGATTCTGTTACC---TA
1 CTGATTCTGATTCTGTTACCTGATA
*
46669389 ---ATTCTGATTCTGGTT--CTGATT
1 CTGATTCTGATTCT-GTTACCTGATA
*
46669410 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* *
46669435 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
*
46669460 TTGATTCTGATTCTG
1 CTGATTCTGATTCTG
46669475 ATTTTGATTC
Statistics
Matches: 92, Mismatches: 7, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.01
19 11 0.12
20 3 0.03
21 1 0.01
22 2 0.02
23 2 0.02
24 11 0.12
25 61 0.66
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:46669408 original size:37 final size:37
Alignment explanation
Indices: 46669361--46669522 Score: 185
Period size: 37 Copynumber: 4.5 Consensus size: 37
46669351 ATTCTGTTAC
*
46669361 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
* *
46669398 CTGGTTCTGATTCTGATTCTGATT--CT-A-T-T-A-C
1 CTGATTCTGATTCTGATTCTG-TTACCTAATTCTGATT
* *
46669429 CTGATACTGATTCTGATTCTGTTACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
* * *
46669466 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
*
46669503 CTGATTCTGATTTTGATTCT
1 CTGATTCTGATTCTGATTCT
46669523 TATTTTGATT
Statistics
Matches: 106, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
30 2 0.02
31 19 0.18
32 3 0.03
33 2 0.02
34 2 0.02
35 2 0.02
36 3 0.03
37 71 0.67
38 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
Found at i:46669448 original size:68 final size:68
Alignment explanation
Indices: 46669339--46669486 Score: 260
Period size: 68 Copynumber: 2.2 Consensus size: 68
46669329 TTGCATTCAC
* *
46669339 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATT
46669404 CTG
66 CTG
*
46669407 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGATT
1 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATT
46669472 CTG
66 CTG
*
46669475 ATTTTGATTCTG
1 ATTCTGATTCTG
46669487 TCACCTGATT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 76 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (68 bp):
ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATT
CTG
Found at i:46669531 original size:18 final size:18
Alignment explanation
Indices: 46669339--46669532 Score: 128
Period size: 19 Copynumber: 10.5 Consensus size: 18
46669329 TTGCATTCAC
*
46669339 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
**
46669357 -TTACCTGATACTGATTCTG
1 ATT--CTGATTTTGATTCTG
* *
46669376 ATTCTG-TTACCTAATTCTG
1 ATTCTGATT--TTGATTCTG
* *
46669395 ATTCTGGTTCTGATTCTG
1 ATTCTGATTTTGATTCTG
*
46669413 ATTCTGATTCT-ATTACCTG
1 ATTCTGATTTTGATT--CTG
* *
46669432 ATACTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
*
46669450 -TTACCTAATTTTGATTCTG
1 ATT--CTGATTTTGATTCTG
46669469 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
* *
46669487 -TCACCTGATTCTGATTCTG
1 AT--TCTGATTTTGATTCTG
*
46669506 ATTCTGATTTTGATTCTT
1 ATTCTGATTTTGATTCTG
*
46669524 ATTTTGATT
1 ATTCTGATT
46669533 CTAGTTCTGA
Statistics
Matches: 145, Mismatches: 16, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
17 8 0.06
18 59 0.41
19 68 0.47
20 10 0.07
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (18 bp):
ATTCTGATTTTGATTCTG
Found at i:46671288 original size:32 final size:33
Alignment explanation
Indices: 46671246--46671310 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
46671236 AATATGCAAA
* * *
46671246 ACAGTTTGGGCTTTAGCCCTATA-AGTATCAGT
1 ACAGTCTGGGCCTTAGCCCTATACAGTAACAGT
46671278 ACAGTCTGGGCCTTAGCCCTATACAGTAACAGT
1 ACAGTCTGGGCCTTAGCCCTATACAGTAACAGT
46671311 GTGAGCCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (33 bp):
ACAGTCTGGGCCTTAGCCCTATACAGTAACAGT
Found at i:46671318 original size:28 final size:28
Alignment explanation
Indices: 46671274--46671338 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
46671264 CTATAAGTAT
* * *
46671274 CAGT-ACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTCTGAGCCTAAGCCCAATA
*
46671301 CAGTAACAGTGTGAGCCTAAGCCCAATA
1 CAGTAACAGTCTGAGCCTAAGCCCAATA
*
46671329 CAGTATCAGT
1 CAGTAACAGT
46671339 ACAGTGTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTCTGAGCCTAAGCCCAATA
Found at i:46671756 original size:27 final size:27
Alignment explanation
Indices: 46671718--46671770 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
46671708 AACATAGTCA
*
46671718 TACAAGAGTATTTTGGTAATTTTACAC
1 TACAAGAGTATTTCGGTAATTTTACAC
*
46671745 TACAAGGGTATTTCGGTAATTTTACA
1 TACAAGAGTATTTCGGTAATTTTACA
46671771 AATTGAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAGAGTATTTCGGTAATTTTACAC
Found at i:46671779 original size:27 final size:27
Alignment explanation
Indices: 46671725--46671822 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
46671715 TCATACAAGA
* * *
46671725 GTATTTTGGTAATTTTACACTA-CAAGG
1 GTATTTCGGTAATTTTACA-AACCGAGG
**
46671752 GTATTTCGGTAATTTTACAAATTGAGG
1 GTATTTCGGTAATTTTACAAACCGAGG
*
46671779 GTATTTCGATAATTTTACAAACCG-GG
1 GTATTTCGGTAATTTTACAAACCGAGG
*
46671805 GTTATTTCAGTAATTTTA
1 G-TATTTCGGTAATTTTA
46671823 TAATTCGAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 4 0.07
27 56 0.93
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACAAACCGAGG
Found at i:46675834 original size:48 final size:48
Alignment explanation
Indices: 46675773--46676049 Score: 235
Period size: 48 Copynumber: 5.8 Consensus size: 48
46675763 GGGTTGATGA
* * * * * * *
46675773 GATCCCGTATAAGACCATAACTGGGATATTGCATCGGCATCGATATAT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * *
46675821 GATCCCATGTAAGACTATGTCTAGGACATGGCATT-GCAATCGTTATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGC-ATCGATATGT
* * *
46675869 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * * * *
46675917 G-TACATCGTGTAAGACCTTAGCTGGG-CTATCGGC-TTCG-AT--ATGTGT
1 GAT-C-CCATGTAAGACCATATCTGGGAC-AT-GGCATTGGCATCGATATGT
* *
46675963 GATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
** *
46676011 GGCCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
46676050 CCCTACTATT
Statistics
Matches: 179, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
44 3 0.02
45 20 0.11
46 9 0.05
47 4 0.02
48 118 0.66
49 22 0.12
50 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
Found at i:46678431 original size:46 final size:43
Alignment explanation
Indices: 46678288--46678423 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
46678278 CCCGCCCCTA
46678288 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
46678335 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
46678381 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
46678424 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:46696482 original size:37 final size:37
Alignment explanation
Indices: 46696432--46696510 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
46696422 TTATTACGAA
* * *
46696432 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCACCGG
*
46696469 GTCTTACCCGGACAAAATTCCCACACGTAGTCACCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCACCGG
46696506 GTCTT
1 GTCTT
46696511 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCACCGG
Found at i:46696805 original size:51 final size:51
Alignment explanation
Indices: 46696683--46696932 Score: 390
Period size: 51 Copynumber: 5.1 Consensus size: 51
46696673 GCCCTGTCAC
*
46696683 ATATATACACTTTCACATTCATCACATCGGCCATTAGGGCTTATCAC----
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
46696730 ATATATACACTCTCACATTCATCACATCGACCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
46696781 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
46696828 ATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
46696879 ATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
46696930 ATA
1 ATA
46696933 CACTTTCACA
Statistics
Matches: 185, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
47 89 0.48
51 96 0.52
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (51 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:46696824 original size:98 final size:98
Alignment explanation
Indices: 46696683--46696944 Score: 479
Period size: 98 Copynumber: 2.7 Consensus size: 98
46696673 GCCCTGTCAC
*
46696683 ATATATACACTTTCACATTCATCACATCGGCCATTAGGGCTTATCACATATATACACTCTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
46696748 TCATCACATCGACCATTAGGCCTTATCACATAT
66 TCATCACATCGACCATTAGGCCTTATCACATAT
46696781 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
* *
46696846 TCATCACGTCGGCCATTAGGCCTTATCACATAT
66 TCATCACATCGACCATTAGGCCTTATCACATAT
* *
46696879 ATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
46696944 T
66 T
46696945 TATTCAAATA
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 159 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (98 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
TCATCACATCGACCATTAGGCCTTATCACATAT
Found at i:46696930 original size:145 final size:141
Alignment explanation
Indices: 46696628--46696944 Score: 436
Period size: 145 Copynumber: 2.2 Consensus size: 141
46696618 GCCCTTCGGA
* * * * * *
46696628 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
46696693 TTTCACATTCATCACATCGGCCATTAGGGCTTATCACATATATACACTCTCACATTCATCACATC
66 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
46696758 GACCATTAGGC
131 GACCATTAGGC
* *
46696769 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATAT
* *
46696834 ACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTC
62 ACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTCTCACATTC
* *
46696899 ATCACATCGGCCATTAGGT
123 ATCACATCGACCATTAGGC
46696918 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
46696945 TATTCAAATA
Statistics
Matches: 154, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
141 8 0.05
145 102 0.66
149 44 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
GACCATTAGGC
Found at i:46696950 original size:51 final size:47
Alignment explanation
Indices: 46696628--46696944 Score: 436
Period size: 47 Copynumber: 6.6 Consensus size: 47
46696618 GCCCTTCGGA
* * * * * *
46696628 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46696675 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46696722 CTTATCACATATATACACTCTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46696769 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46696820 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46696867 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46696918 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
46696945 TATTCAAATA
Statistics
Matches: 241, Mismatches: 21, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
47 152 0.63
51 89 0.37
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46700177 original size:17 final size:18
Alignment explanation
Indices: 46700144--46700177 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46700134 AACAACTCAT
*
46700144 TTATTAATCTAATATGAG
1 TTATTAATCTAAGATGAG
46700162 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
46700178 ACTCAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:46700188 original size:19 final size:19
Alignment explanation
Indices: 46700164--46700215 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
46700154 AATATGAGTT
46700164 ATTAACTAAGATGAACTCA
1 ATTAACTAAGATGAACTCA
46700183 ATTAACTAA-ATTGAACTCA
1 ATTAACTAAGA-TGAACTCA
*
46700202 ATTAACTGAGATGA
1 ATTAACTAAGATGA
46700216 CTAATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (19 bp):
ATTAACTAAGATGAACTCA
Found at i:46704805 original size:17 final size:18
Alignment explanation
Indices: 46704775--46704808 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
46704765 AACAACTCAT
46704775 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
46704793 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
46704809 AATCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:46704819 original size:19 final size:19
Alignment explanation
Indices: 46704795--46704846 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
46704785 AAGATGAGTT
46704795 ATTAACTAAGATGAAATCA
1 ATTAACTAAGATGAAATCA
* *
46704814 ATTAACTAAAATGAACTCA
1 ATTAACTAAGATGAAATCA
46704833 ATTAACTAAGATGA
1 ATTAACTAAGATGA
46704847 GTAATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (19 bp):
ATTAACTAAGATGAAATCA
Found at i:46708327 original size:30 final size:30
Alignment explanation
Indices: 46708269--46708328 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46708259 TTCCCGAGCC
*
46708269 TAGGGGCAAAAGTGTAATTATGCTAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
* *
46708299 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
46708329 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCCAAAGTT
Found at i:46708910 original size:93 final size:93
Alignment explanation
Indices: 46708751--46708921 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
46708741 GGATGGTTGA
* * * *
46708751 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
46708816 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
46708844 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
*
46708909 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
46708922 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46708924 original size:46 final size:46
Alignment explanation
Indices: 46708755--46708926 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
46708745 GGTTGAGCAT
* * * *
46708755 CCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
46708801 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
46708846 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
46708894 CCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46708927 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:46716368 original size:46 final size:46
Alignment explanation
Indices: 46716318--46716490 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
46716308 TGGTTGAGCA
46716318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46716364 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
46716409 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46716457 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46716491 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46716474 original size:93 final size:93
Alignment explanation
Indices: 46716315--46716485 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
46716305 GGATGGTTGA
* *
46716315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46716380 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46716408 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46716473 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46716486 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46720630 original size:7 final size:7
Alignment explanation
Indices: 46720618--46720673 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
46720608 AATGATATGC
46720618 CCCTAAA
1 CCCTAAA
46720625 CCCTAAA
1 CCCTAAA
46720632 CCCTAAA
1 CCCTAAA
*
46720639 ACCTAAA
1 CCCTAAA
46720646 CCCTAAA
1 CCCTAAA
*
46720653 TCCTAAA
1 CCCTAAA
*
46720660 CCTTAAA
1 CCCTAAA
46720667 CCCTAAA
1 CCCTAAA
46720674 ACTGTGATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:46724388 original size:27 final size:26
Alignment explanation
Indices: 46724330--46724442 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
46724320 AGGAAGTGTC
* *
46724330 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
46724358 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
46724385 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
46724413 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
46724439 CTGG
1 CTGG
46724443 CAGCCATGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 7 0.09
27 39 0.50
28 32 0.41
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:46724415 original size:55 final size:54
Alignment explanation
Indices: 46724330--46724442 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
46724320 AGGAAGTGTC
*
46724330 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
46724385 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
46724439 CTGG
1 CTGG
46724443 CAGCCATGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 20 0.38
55 33 0.62
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:46738659 original size:43 final size:43
Alignment explanation
Indices: 46738612--46738762 Score: 257
Period size: 43 Copynumber: 3.5 Consensus size: 43
46738602 CATTACGGCA
*
46738612 GCTAGGCACGAAGGCCCGATTACACATCACCGGCATGAAGCCT
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCT
* *
46738655 GCTAGGCACGAAGGCTCGAATACACATCACCAGCATGAAGCCT
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCT
*
46738698 GCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCT
1 GCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCT
*
46738741 GCTAGGCACGAAGGCCTGAATA
1 GCTAGGCACGAAGGCCCGAATA
46738763 TAATACCAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.13
Consensus pattern (43 bp):
GCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCT
Found at i:46738803 original size:38 final size:38
Alignment explanation
Indices: 46738760--46738857 Score: 142
Period size: 38 Copynumber: 2.6 Consensus size: 38
46738750 GAAGGCCTGA
* * *
46738760 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
46738798 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
** *
46738836 ATATTTTACCAGCACGAAGCCT
1 ATATAATACCAGCACAAAGCCT
46738858 ACAGGTCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
Found at i:46752514 original size:47 final size:48
Alignment explanation
Indices: 46752442--46752810 Score: 266
Period size: 47 Copynumber: 7.8 Consensus size: 48
46752432 TTATTTGTGT
46752442 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * *
46752488 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG---CATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGA
* * ***
46752536 GCTAGTGTAAGA-CATGTCTGGGATAT-GCATCGGCCTCGCGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATG-AGA
* *
46752582 GCTAGTGTAAGA-CATGTCTAGGACATGGCATCGG-CAC-GTAT-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * *** * *
46752626 GGTGTCAGTGTAAGACCATGTCTGGTACATGGCATCAAAACAAATATGTGAGA
1 -G-CT-AGTGTAAGACCATGTCTGGGACATGGCATC-GGCCACAT-TATGAGA
* * * * *
46752679 GCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGA
* * *
46752728 GTTAGTGTAAGACCATGTCTAGGACATGACATC-G--AC-TTGATGGATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GA
* *
46752775 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
46752811 ATCATACCCT
Statistics
Matches: 255, Mismatches: 42, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
45 8 0.03
46 50 0.20
47 75 0.29
48 42 0.16
49 37 0.15
50 32 0.13
51 1 0.00
52 3 0.01
53 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:46754448 original size:40 final size:40
Alignment explanation
Indices: 46754366--46754586 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
46754356 ACCCAAGTAT
** * *
46754366 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
46754404 CTTCGGGTCTTAGCCCGGATCTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
46754444 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
46754484 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
46754524 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
46754565 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
46754587 CATTTGAATA
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 14 0.09
40 96 0.64
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:46765700 original size:21 final size:21
Alignment explanation
Indices: 46765662--46765703 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46765652 TAGAATATAT
* * *
46765662 ATTTTTTTTTCTACTTTGGTA
1 ATTTTTTTTCCCAATTTGGTA
46765683 ATTTTTTTTCCCAATTTGGTA
1 ATTTTTTTTCCCAATTTGGTA
46765704 CCTAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.62
Consensus pattern (21 bp):
ATTTTTTTTCCCAATTTGGTA
Found at i:46766283 original size:23 final size:25
Alignment explanation
Indices: 46766238--46766284 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
46766228 TTTAAAATTT
46766238 ATATATTTTAGAATTTTATAAAAAA
1 ATATATTTTAGAATTTTATAAAAAA
*
46766263 ATAT-TTTTA-AACTTT-TAAAAAA
1 ATATATTTTAGAATTTTATAAAAAA
46766285 TTTTCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 5 0.24
24 5 0.24
25 4 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATATATTTTAGAATTTTATAAAAAA
Found at i:46769082 original size:55 final size:56
Alignment explanation
Indices: 46769017--46769131 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
46769007 AGCATGGCTG
* * *
46769017 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTATGGCA-TAGCCA
* * *
46769073 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTATGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
46769128 CCAG
1 CCAG
46769132 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
Found at i:46769094 original size:27 final size:28
Alignment explanation
Indices: 46769042--46769111 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
46769032 GTGACAGAGT
* *
46769042 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
46769071 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
46769098 CACCAGAACAGATA
1 CACCAGAACAGATA
46769112 ATTTATGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.64
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:46769129 original size:28 final size:27
Alignment explanation
Indices: 46769042--46769131 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
46769032 GTGACAGAGT
*
46769042 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
46769071 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
46769098 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
46769126 CACCAG
1 CACCAG
46769132 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:46769284 original size:28 final size:28
Alignment explanation
Indices: 46769237--46769301 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
46769227 AAATTAACCC
*
46769237 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
46769265 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
46769293 TAGGGGTAT
1 TAGGGGTAT
46769302 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:46776932 original size:55 final size:56
Alignment explanation
Indices: 46776867--46776981 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
46776857 AGCATGGCTG
* *
46776867 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
46776923 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
46776978 CCAG
1 CCAG
46776982 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Done.