Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 50 of 172
Found at i:16265942 original size:38 final size:38
Alignment explanation
Indices: 16265852--16265943 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
16265842 CAGGCTATAC
* * * *
16265852 GCTGGAATTATATCCGGGTTAAATCCCACAGGCTTCGT
1 GCTGGTATTATATCTGGGTTAAATCCCACAGGCCTAGT
*
16265890 GCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGT
1 GCTGGTATTATATCTGGGTTAAATCCCACAGGCCTAGT
16265928 GCTGGTATTATATCTG
1 GCTGGTATTATATCTG
16265944 AGTTTAAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (38 bp):
GCTGGTATTATATCTGGGTTAAATCCCACAGGCCTAGT
Found at i:16274941 original size:46 final size:44
Alignment explanation
Indices: 16274794--16274961 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 44
16274784 TTTGTGTGCT
* * *
16274794 AGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCA-GATG-AAGCC
* * * * *
16274840 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTCAGATGA-AGCC
*
16274888 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC-AGATG-AAGCC
16274934 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
16274962 GGCTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 50 0.50
47 28 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAGATGAAGCC
Found at i:16278325 original size:44 final size:41
Alignment explanation
Indices: 16278264--16278416 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 41
16278254 ATCTGAGATA
* * * *
16278264 TCGTGTAACACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCT--GATT
* *
16278307 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTGATT
* *
16278350 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-CTG-ATT
* *
16278393 ACAG-GTAAGACCACGTCTGGGACA
1 TC-GTGTAAGACCATGTCTGGGACA
16278417 TCGGCATTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.34
43 28 0.30
44 28 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTGATT
Found at i:16278367 original size:42 final size:41
Alignment explanation
Indices: 16278264--16278423 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 41
16278254 ATCTGAGATA
* * * * *
16278264 TCGTGTAACACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCGATCT--GATT
* *
16278307 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATAGGCATCG-ATCTGATT
*
16278350 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCGAT-CTG-ATT
* *
16278393 ACAG-GTAAGACCAC-GTCTGGGACATCGGCAT
1 TC-GTGTAAGACC-CTGTCTGGGACATAGGCAT
16278424 TGTACCCGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 32 0.32
43 33 0.33
44 29 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACATAGGCATCGATCTGATT
Found at i:16280835 original size:22 final size:22
Alignment explanation
Indices: 16280778--16280837 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
16280768 ATTTTTATTT
* *
16280778 AAATTTAT-TATAACAATATTTA
1 AAATTTATAT-TAATAATATTAA
16280800 AAATTTATATTAATAATATTAA
1 AAATTTATATTAATAATATTAA
16280822 AATATTTA-ATTAATAA
1 AA-ATTTATATTAATAA
16280838 ACATTATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTTATATTAATAATATTAA
Found at i:16285694 original size:48 final size:48
Alignment explanation
Indices: 16285620--16285717 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
16285610 GTGGCCCACT
* *
16285620 AACCTAGTGCTTAAAAAAACCACTTACATAAGGTAATAACCAAAAAAA
1 AACCTAGTGCTTAAAAAAACCACTTACAAAAGGTAAAAACCAAAAAAA
*
16285668 AACCTAGTGCTTAAAAAAACCCCTTACAAAAGGTAAAAACCAAAAAAA
1 AACCTAGTGCTTAAAAAAACCACTTACAAAAGGTAAAAACCAAAAAAA
16285716 AA
1 AA
16285718 AAAAAGAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.16
Consensus pattern (48 bp):
AACCTAGTGCTTAAAAAAACCACTTACAAAAGGTAAAAACCAAAAAAA
Found at i:16286548 original size:5 final size:5
Alignment explanation
Indices: 16286538--16286571 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
16286528 GTAGAGTTGA
* *
16286538 AAAAT AAAAT AAAAT GAAAG AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16286572 CATTTGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:16287085 original size:42 final size:39
Alignment explanation
Indices: 16287002--16287085 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
16286992 TGAATCAAAG
*
16287002 TTAATTGGTTCATGTAACAAAAAGAAAAAAAAGTGTTAA
1 TTAATTGGTTCATGTAACAAAAAGAAAAAAAAGAGTTAA
16287041 TTAATTGGTTCATGTAACCAAAAAGAAAAAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAA-CAAAAAG--AAAAAAAAGAGTTAA
16287083 TTA
1 TTA
16287086 TTTCAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 17 0.41
40 7 0.17
42 17 0.41
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.27
Consensus pattern (39 bp):
TTAATTGGTTCATGTAACAAAAAGAAAAAAAAGAGTTAA
Found at i:16292831 original size:44 final size:45
Alignment explanation
Indices: 16292736--16292850 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
16292726 ACAGGACAGA
* *
16292736 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAG
* * *
16292782 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
* **
16292826 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16292851 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
Found at i:16300172 original size:46 final size:44
Alignment explanation
Indices: 16300113--16300227 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
16300103 ACAGGACAGA
* *
16300113 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
16300159 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
16300203 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16300228 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:16300208 original size:44 final size:45
Alignment explanation
Indices: 16300113--16300246 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
16300103 ACAGGACAGA
* *
16300113 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
16300159 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
16300203 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
16300247 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:16306526 original size:39 final size:39
Alignment explanation
Indices: 16306483--16306560 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
16306473 TGATCAAATT
16306483 GTACGCCATATTTTTGGTTGGGTTTTATTTAATAGTATA
1 GTACGCCATATTTTTGGTTGGGTTTTATTTAATAGTATA
*
16306522 GTACGCCATATTTTTTGTTGGGTTTTATTTAATAGTATA
1 GTACGCCATATTTTTGGTTGGGTTTTATTTAATAGTATA
16306561 TACTATAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (39 bp):
GTACGCCATATTTTTGGTTGGGTTTTATTTAATAGTATA
Found at i:16306573 original size:34 final size:37
Alignment explanation
Indices: 16306499--16306574 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 37
16306489 CATATTTTTG
**
16306499 GTTGGGTTTTATTTAATAGTATAGTACGCCATATTTTTT
1 GTTGGGTTTTATTTAATAGTATAGTA--CCATATAATTT
16306538 GTTGGGTTTTATTTAATAGTATA-TA-C-TATAATTT
1 GTTGGGTTTTATTTAATAGTATAGTACCATATAATTT
16306572 GTT
1 GTT
16306575 AATACCTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 9 0.26
35 1 0.03
38 2 0.06
39 23 0.66
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (37 bp):
GTTGGGTTTTATTTAATAGTATAGTACCATATAATTT
Found at i:16320576 original size:35 final size:35
Alignment explanation
Indices: 16320537--16320610 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
16320527 AGCCAAAGTG
*
16320537 AAAACCCGTAAAGGGCGTTTTGAGACTTCCAAAAA
1 AAAACCCGTAAAGGGCGCTTTGAGACTTCCAAAAA
16320572 AAAACCCGTAAAGGGCGCTTTGAGACTTCCAAAAA
1 AAAACCCGTAAAGGGCGCTTTGAGACTTCCAAAAA
16320607 AAAA
1 AAAA
16320611 TAAAGGGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (35 bp):
AAAACCCGTAAAGGGCGCTTTGAGACTTCCAAAAA
Found at i:16320648 original size:55 final size:53
Alignment explanation
Indices: 16320572--16320725 Score: 184
Period size: 54 Copynumber: 2.8 Consensus size: 53
16320562 CTTCCAAAAA
*
16320572 AAAACCCGTAAAGGGCGCTTTGAGACTTCCAAAAAAAAAT-AAAGGGGCCAAAGTG
1 AAAACCCGCAAAGGGCGCTTTGAGAC-T-CAAAAAAAAATGAAA-GGGCCAAAGTG
* * *
16320627 AAAACCCGCAAAGGGCACTTTGATACTCAAATAAAAATGGAAAGGGCCAAAGTG
1 AAAACCCGCAAAGGGCGCTTTGAGACTCAAAAAAAAAT-GAAAGGGCCAAAGTG
* * *
16320681 AAAACCCGCAAAGGGTGCTTTGAGACCCAATAATAAAAAAGAAAG
1 AAAACCCGCAAAGGGCGCTTTGAGACTCAA-AA-AAAAATGAAAG
16320726 AAAAAGAGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 10 0.12
54 38 0.45
55 32 0.38
56 5 0.06
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AAAACCCGCAAAGGGCGCTTTGAGACTCAAAAAAAAATGAAAGGGCCAAAGTG
Found at i:16321762 original size:64 final size:64
Alignment explanation
Indices: 16321661--16321786 Score: 207
Period size: 64 Copynumber: 2.0 Consensus size: 64
16321651 CTGCATGTAT
* * *
16321661 CATTTAGTTAGGAGTATTTGATTCATTTTGGTCATAGCACCCTAATTATTTGACATAAGCATCA
1 CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAGCATCA
* *
16321725 CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAGCAT
16321787 GTGCATATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (64 bp):
CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAGCATCA
Found at i:16322163 original size:180 final size:180
Alignment explanation
Indices: 16321851--16323009 Score: 1606
Period size: 180 Copynumber: 6.5 Consensus size: 180
16321841 ATTGGTAAAG
* * * * * ** *
16321851 ATTGAATATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATC-CCTGTAGATGGTGAATCTTATCT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTC-ACAAATGGTGAATCTTATCT
* * * * *
16321915 TCATGTATCAGCAATGGAGTAGATTTTACCATCAAACCTTATCTCTCTGAGGTAGCAAGAAAGCA
65 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
*
16321980 GGTTGAAGAATGAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
130 GGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * * *
16322031 ATTGAAGATTTTATCTCCCTGAAGTTACAACAGAGTAGATCTTCGCAGATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* * *
16322096 CATGTATCAGTAATGGAGCAGATTTTACCACCAAGCCTTGTCTCTCTGAGGTGGCAAGAGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* *
16322161 GTTGAAGAATGAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
*
16322211 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTTCACAAATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* *
16322276 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTGTCTCTCTGAGGTGGCAAGAGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* *
16322341 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCGAGGAAGCAGACTAAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
*
16322391 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTTCACAAATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* * * * *
16322456 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTGTCCCTCTGAGGTGGCAAGAGAACAA
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* *
16322521 GTTGAATAATGAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* *
16322571 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAGATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* * * *
16322636 CATGTATCAGCAATGGAGTAGATTTTACTACCAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
16322701 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * *
16322751 ATTGAAGATTTTATCTCCCTGAAGTCGTAGCGGAGTAGATCTTCACAAATGGTGAATCTTATATC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
** * * * *
16322816 CATGTATTGGCAATGGAGCAGATTTTACCTCC-AGCCTCATCTCTCTGAGGTAGTAAGGGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* * *
16322880 GTTGAAGAATGAG-----TCTTCCTGAAGTAGCAAGGAAGTAGACTGAGG
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * * * * * * *
16322925 GTTGAGGATCTTATCTCCCCGAAATGGCAGTGGAGC--ATATTGA-AAAT-G-GAATTTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
16322985 CATGTATC-GACAATGGAGCAGATTT
66 CATGTATCAG-CAATGGAGCAGATTT
16323010 AATCTCATCT
Statistics
Matches: 892, Mismatches: 85, Indels: 15
0.90 0.09 0.02
Matches are distributed among these distances:
168 1 0.00
169 32 0.04
170 1 0.00
171 4 0.00
172 5 0.01
174 56 0.06
179 40 0.04
180 752 0.84
181 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (180 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCACAAATGGTGAATCTTATCTC
CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
Found at i:16323334 original size:40 final size:40
Alignment explanation
Indices: 16323280--16323359 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
16323270 AAAATAACTC
16323280 ATGACCCAACAAATTTTAAAACCCAATTCTATAAACCCAG
1 ATGACCCAACAAATTTTAAAACCCAATTCTATAAACCCAG
* * *
16323320 ATGAGCCATCAAATTTTAAAATCCAATTCTATAAACCCAG
1 ATGACCCAACAAATTTTAAAACCCAATTCTATAAACCCAG
16323360 GCCCTAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (40 bp):
ATGACCCAACAAATTTTAAAACCCAATTCTATAAACCCAG
Found at i:16323826 original size:45 final size:44
Alignment explanation
Indices: 16323776--16323865 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
16323766 ATTTTTTTTC
16323776 TCTTCCGATTTTTTTTCATTTTTTCTATTCTCTTTATTTTCTTA
1 TCTTCCGATTTTTTTTCATTTTTTCTATTCTCTTTATTTTCTTA
* *
16323820 TNCTTCCGATTTTTTTTCGTTTTTTCTTTTCTCTTTATTTTCTTA
1 T-CTTCCGATTTTTTTTCATTTTTTCTATTCTCTTTATTTTCTTA
16323865 T
1 T
16323866 TTGTTTGCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.69
Consensus pattern (44 bp):
TCTTCCGATTTTTTTTCATTTTTTCTATTCTCTTTATTTTCTTA
Found at i:16326322 original size:23 final size:24
Alignment explanation
Indices: 16326266--16326324 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
16326256 AAATAAATTA
* *
16326266 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
16326290 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
16326314 TTTTATTACAA
1 TTTTATTACAA
16326325 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:16327222 original size:20 final size:21
Alignment explanation
Indices: 16327199--16327237 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
16327189 AAATTTATTT
16327199 TAATAATT-TTAA-ATTTTAAA
1 TAAT-ATTCTTAATATTTTAAA
16327219 TAATATTCTTAATATTTTA
1 TAATATTCTTAATATTTTA
16327238 TTGAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATTCTTAATATTTTAAA
Found at i:16327276 original size:14 final size:14
Alignment explanation
Indices: 16327257--16327305 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
16327247 ATTTTATGTT
16327257 AATATTTAATAATA
1 AATATTTAATAATA
*
16327271 AATATTTAGTAATA
1 AATATTTAATAATA
*
16327285 AATATTTTATAGTATA
1 AATATTTAATA--ATA
16327301 AATAT
1 AATAT
16327306 AATATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 22 0.73
16 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (14 bp):
AATATTTAATAATA
Found at i:16327335 original size:32 final size:33
Alignment explanation
Indices: 16327267--16327335 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 33
16327257 AATATTTAAT
16327267 AATAAATATTTAGTAATAAATATTTTATAGTATA
1 AATAAATATTTAG-AATAAATATTTTATAGTATA
16327301 AATATAATATTTA-AATAAA-ATTATT-TAGTATA
1 AATA-AATATTTAGAATAAATATT-TTATAGTATA
16327333 AAT
1 AAT
16327336 TTTAATTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
32 13 0.39
33 8 0.24
34 4 0.12
35 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (33 bp):
AATAAATATTTAGAATAAATATTTTATAGTATA
Found at i:16328646 original size:23 final size:24
Alignment explanation
Indices: 16328620--16328665 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
16328610 AATGTGCTTA
*
16328620 TCACTAAAATGCACC-AAGTGCAG
1 TCACCAAAATGCACCAAAGTGCAG
*
16328643 TCACCGAAATGCACCAAAGTGCA
1 TCACCAAAATGCACCAAAGTGCA
16328666 TTATCATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (24 bp):
TCACCAAAATGCACCAAAGTGCAG
Found at i:16328935 original size:14 final size:14
Alignment explanation
Indices: 16328916--16328945 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16328906 AACACTTCAT
16328916 TTGAACATCTTAAC
1 TTGAACATCTTAAC
*
16328930 TTGAACTTCTTAAC
1 TTGAACATCTTAAC
16328944 TT
1 TT
16328946 ACATAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (14 bp):
TTGAACATCTTAAC
Found at i:16332048 original size:28 final size:27
Alignment explanation
Indices: 16331988--16332142 Score: 238
Period size: 27 Copynumber: 5.7 Consensus size: 27
16331978 GTTTAAATTG
* *
16331988 TGTAGCACTAAGTGTGCGAATTGAATA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
16332015 TGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAG-TTGACTA
16332043 TGTAGCACTAAGTGTGCGAGTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
*
16332070 TGTAGCACTAAGTGTGCGAGTATGATTA
1 TGTAGCACTAAGTGTGCGAGT-TGACTA
*
16332098 TGTAGCACTAAGTGTGCGAGTTGATTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
* *
16332125 TATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCG
16332143 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 69 0.57
28 52 0.43
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
TGTAGCACTAAGTGTGCGAGTTGACTA
Found at i:16332053 original size:55 final size:55
Alignment explanation
Indices: 16331988--16332142 Score: 247
Period size: 55 Copynumber: 2.8 Consensus size: 55
16331978 GTTTAAATTG
* *
16331988 TGTAGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
* *
16332043 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTA
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
* * *
16332098 TGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
16332143 GACTTAATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
Found at i:16334585 original size:94 final size:94
Alignment explanation
Indices: 16334419--16334590 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 94
16334409 AGTCTGCCAG
* * * * ** **
16334419 GACATTAAACATGGGGTTACATGTGTAAGACATTAGCTCGACTATGGCGACATGGGTAGTCCATT
1 GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
* *
16334484 GGGACAGTAAACACGGGATAATCCATCAA
66 AGAACAGTAAACACGGGATAATCCATCAA
* ** *
16334513 GACATTAAACATGGGATTACATATGTAAAACCTTAGCTCGGTTATGGCAATATAAGTAGTCCACC
1 GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
16334578 AGAACAGTAAACA
66 AGAACAGTAAACA
16334591 TGGGGTAGTC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
94 64 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (94 bp):
GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
AGAACAGTAAACACGGGATAATCCATCAA
Found at i:16334610 original size:94 final size:93
Alignment explanation
Indices: 16334407--16334626 Score: 217
Period size: 94 Copynumber: 2.3 Consensus size: 93
16334397 GGAAACCAAA
* * *
16334407 GTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACATTAGCTCGACTATGGCGACAT
1 GTAGTCTGCCA-GACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACAT
** *** *
16334472 GGGTAGTCCATTGGGACAGTAAACACGGG
65 AAGTAGTCCACCAGAACAGTAAACACGGG
* * * * * ** *
16334501 ATAATCCAT-CAAGACATTAAACATGGGATTACATATGTAAAACCTTAGCTCGGTTATGGCAATA
1 GTAGT-C-TGCCAGACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACA
*
16334565 TAAGTAGTCCACCAGAACAGTAAACATGGG
64 TAAGTAGTCCACCAGAACAGTAAACACGGG
* *
16334595 GTAGTCTGCCGAGACAGTAAACACGGGGTTAC
1 GTAGTCTGCC-AGACATTAAACATGGGGTTAC
16334627 GTGTGGAAGA
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 91 0.93
95 3 0.03
96 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (93 bp):
GTAGTCTGCCAGACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACATA
AGTAGTCCACCAGAACAGTAAACACGGG
Found at i:16337076 original size:37 final size:37
Alignment explanation
Indices: 16337017--16337124 Score: 182
Period size: 36 Copynumber: 2.9 Consensus size: 37
16337007 AGCTCAGACG
* * *
16337017 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
16337054 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
16337090 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
16337125 ATATATTTCC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 36 0.54
37 31 0.46
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:16337395 original size:47 final size:47
Alignment explanation
Indices: 16337333--16337716 Score: 588
Period size: 47 Copynumber: 8.2 Consensus size: 47
16337323 ACACGTTTCG
* * * **
16337333 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
16337380 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
16337427 CATTGGCCATTCGGCCTTATCACACATACGCAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
16337474 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
16337521 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * ** *
16337568 CATTGGCCATTCGGCCTTAGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
16337615 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCG
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
16337662 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
16337709 CATTGGCC
1 CATTGGCC
16337717 CCTAAATCAA
Statistics
Matches: 310, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 310 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:16337474 original size:25 final size:25
Alignment explanation
Indices: 16337445--16337522 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
16337435 ATTCGGCCTT
16337445 ATCACACATACGCAAGTTCACATTC
1 ATCACACATACGCAAGTTCACATTC
** * * *
16337470 AT--CACATTGGCCA-TTCGGCCTT-
1 ATCACACATACGCAAGTTC-ACATTC
*
16337492 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCAAGTTCACATTC
16337517 ATCACA
1 ATCACA
16337523 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 5 0.14
23 11 0.30
24 10 0.27
25 11 0.30
ACGTcount: A:0.31, C:0.32, G:0.10, T:0.27
Consensus pattern (25 bp):
ATCACACATACGCAAGTTCACATTC
Found at i:16337497 original size:22 final size:22
Alignment explanation
Indices: 16337423--16337497 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
16337413 GTTCACATTC
16337423 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
16337445 ATCACACATACGCAAGTTC-ACATT
1 AT--CACATTGGCCA-TTCGGCCTT
16337469 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
16337492 ATCACA
1 ATCACA
16337498 CATACGCATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.29
23 11 0.29
24 11 0.29
25 5 0.13
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:16354753 original size:22 final size:23
Alignment explanation
Indices: 16354728--16354773 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16354718 CAACCAAATC
16354728 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16354750 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16354773 A
1 A
16354774 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16354779 original size:23 final size:23
Alignment explanation
Indices: 16354735--16354779 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16354725 ATCAATTCAA
*
16354735 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16354758 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16354780 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16359953 original size:11 final size:11
Alignment explanation
Indices: 16359937--16359961 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16359927 TTATATATAC
16359937 TAATAAAATAA
1 TAATAAAATAA
16359948 TAATAAAATAA
1 TAATAAAATAA
16359959 TAA
1 TAA
16359962 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:16360267 original size:30 final size:29
Alignment explanation
Indices: 16360233--16360300 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
16360223 CACCCTTAAA
*
16360233 ATATTTTCACTATT-AGCCCTTCAAATTTTT
1 ATATTTACACT-TTAAGCCC-TCAAATTTTT
* *
16360263 ATATTTACACTTTAATCCCTCAAATTTTG
1 ATATTTACACTTTAAGCCCTCAAATTTTT
16360292 AGTATTTAC
1 A-TATTTAC
16360301 TTTTGGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.47
Consensus pattern (29 bp):
ATATTTACACTTTAAGCCCTCAAATTTTT
Found at i:16361247 original size:14 final size:14
Alignment explanation
Indices: 16361228--16361254 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16361218 GAAAAGGCTG
16361228 AAAAGCTTTTACAA
1 AAAAGCTTTTACAA
16361242 AAAAGCTTTTACA
1 AAAAGCTTTTACA
16361255 GGTAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAAGCTTTTACAA
Found at i:16362078 original size:21 final size:21
Alignment explanation
Indices: 16362054--16362095 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16362044 AGAAGTTAAA
*
16362054 TAAA-AAATACATTAATAAAAT
1 TAAATAAATA-ATTAAAAAAAT
*
16362075 TAAATAATTAATTAAAAAAAT
1 TAAATAAATAATTAAAAAAAT
16362096 CACTCGCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATAAATAATTAAAAAAAT
Found at i:16365856 original size:39 final size:39
Alignment explanation
Indices: 16365798--16365892 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
16365788 TTTTAAGCAT
* * *
16365798 ATATATCATATTACACATATAATCACGTAACATTCAAGC
1 ATATATCATAATACTCATATAATCACATAACATTCAAGC
* *
16365837 ATATATCATAATACTCATATAATCACATAACGTTTAAGC
1 ATATATCATAATACTCATATAATCACATAACATTCAAGC
*
16365876 ATATATCACAATACTCA
1 ATATATCATAATACTCA
16365893 AAATCATGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (39 bp):
ATATATCATAATACTCATATAATCACATAACATTCAAGC
Found at i:16369323 original size:28 final size:28
Alignment explanation
Indices: 16369287--16369412 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
16369277 TTCTGAAGAT
*
16369287 TCTTGCTTGAGAGATAGTCCATGCAGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* * * *
16369315 TCTTACTTGAGAGATAGTCTATGTGGCC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
*
16369343 TCTTGCTTGAGAGATAGTCTATGTAGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* *
16369371 TCTTGCTTGAAAGATAGTCCATGTGGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* *
16369399 TATTGCATGA-AGAT
1 TCTTGCTTGAGAGAT
16369413 TCTTACCCAA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 4 0.05
28 81 0.95
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (28 bp):
TCTTGCTTGAGAGATAGTCCATGTAGAC
Found at i:16369373 original size:56 final size:56
Alignment explanation
Indices: 16369287--16369396 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
16369277 TTCTGAAGAT
* *
16369287 TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAGAGATAGTCTATGTGGCC
1 TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGGCC
* * *
16369343 TCTTGCTTGAGAGATAGTCTATGTAGACTCTTGCTTGAAAGATAGTCCATGTGG
1 TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGG
16369397 ACTATTGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (56 bp):
TCTTGCTTGAGAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGGCC
Found at i:16369480 original size:18 final size:18
Alignment explanation
Indices: 16369453--16369488 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16369443 TACTTGAGAA
* *
16369453 ACGACCAAATTACCATTT
1 ACGACAAAATAACCATTT
16369471 ACGACAAAATAACCATTT
1 ACGACAAAATAACCATTT
16369489 TGCCCATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (18 bp):
ACGACAAAATAACCATTT
Found at i:16371945 original size:22 final size:22
Alignment explanation
Indices: 16371889--16371945 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
16371879 TGCAGGGCTT
*
16371889 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGA
* *
16371911 ACCCACCCGTGTGGTCCAAGGA
1 ACACGCCCGTGTGGTCCAAGGA
*
16371933 ACACGCCCATGTG
1 ACACGCCCGTGTG
16371946 ACCTTAGGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.35, G:0.30, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGGA
Found at i:16377470 original size:40 final size:40
Alignment explanation
Indices: 16377425--16377520 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
16377415 CTATTTGTTG
*
16377425 CATATAAATTGTTGAACTATCTATTTTTACTAATTCTTTA
1 CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
* * * * *
16377465 TATATAAATTATTGAAGTATTTATTTTTATTGATTCTTTA
1 CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
*
16377505 CATATAAATTACTGAA
1 CATATAAATTATTGAA
16377521 TTGTTGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (40 bp):
CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
Found at i:16377531 original size:40 final size:40
Alignment explanation
Indices: 16377425--16377531 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
16377415 CTATTTGTTG
** *
16377425 CATATAAATTGTTGAACTATCT-ATTTTTACTAATTCTTTA
1 CATATAAATTACTGAAGTAT-TGATTTTTACTAATTCTTTA
* * * * *
16377465 TATATAAATTATTGAAGTATTTATTTTTATTGATTCTTTA
1 CATATAAATTACTGAAGTATTGATTTTTACTAATTCTTTA
* *
16377505 CATATAAATTACTGAATTGTTGATTTT
1 CATATAAATTACTGAAGTATTGATTTT
16377532 CAAGCCATCG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (40 bp):
CATATAAATTACTGAAGTATTGATTTTTACTAATTCTTTA
Found at i:16383227 original size:47 final size:47
Alignment explanation
Indices: 16383158--16383252 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
16383148 AGTCCAGTAT
16383158 TTAGATAGCACCATATAAGGCTCTTTGTAGACGTAAGTGCCTCACTC
1 TTAGATAGCACCATATAAGGCTCTTTGTAGACGTAAGTGCCTCACTC
*
16383205 TTAGATCGCACCATATAAGGCTCTTTGTAGACGTAAGTGCCTCACTC
1 TTAGATAGCACCATATAAGGCTCTTTGTAGACGTAAGTGCCTCACTC
16383252 T
1 T
16383253 GTTGTGTTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (47 bp):
TTAGATAGCACCATATAAGGCTCTTTGTAGACGTAAGTGCCTCACTC
Found at i:16384053 original size:88 final size:88
Alignment explanation
Indices: 16383955--16384130 Score: 325
Period size: 88 Copynumber: 2.0 Consensus size: 88
16383945 TATGAGTAGT
16383955 GTGTATGTGGTAAGGAATTCTAATCATTTTCCTTTAAAATTTTATTAATTTTTTCCCAACCCTTA
1 GTGTATGTGGTAAGGAATTCTAATCATTTTCCTTTAAAATTTTATTAATTTTTTCCCAACCCTTA
16384020 ACTTTAGATATTAAGGTTATATA
66 ACTTTAGATATTAAGGTTATATA
***
16384043 GTGTATGTGGTTCTGAATTCTAATCATTTTCCTTTAAAATTTTATTAATTTTTTCCCAACCCTTA
1 GTGTATGTGGTAAGGAATTCTAATCATTTTCCTTTAAAATTTTATTAATTTTTTCCCAACCCTTA
16384108 ACTTTAGATATTAAGGTTATATA
66 ACTTTAGATATTAAGGTTATATA
16384131 TTATTTTCAT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (88 bp):
GTGTATGTGGTAAGGAATTCTAATCATTTTCCTTTAAAATTTTATTAATTTTTTCCCAACCCTTA
ACTTTAGATATTAAGGTTATATA
Found at i:16386481 original size:93 final size:93
Alignment explanation
Indices: 16386364--16386532 Score: 329
Period size: 93 Copynumber: 1.8 Consensus size: 93
16386354 CGCCCATAAG
16386364 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
16386429 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
16386457 CGAATTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
16386522 ACGAGTTCGGA
66 ACGAGTTCGGA
16386533 CATTCGCATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16386597 original size:46 final size:46
Alignment explanation
Indices: 16386357--16386578 Score: 249
Period size: 46 Copynumber: 4.8 Consensus size: 46
16386347 TGTAACCCGC
* *
16386357 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
* *
16386403 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * * *
16386453 -C-TCA-CGAATTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
* *
16386496 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
16386542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16386579 TGCTCAATCA
Statistics
Matches: 147, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 6 0.04
46 98 0.67
47 23 0.16
48 4 0.03
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:16387841 original size:59 final size:59
Alignment explanation
Indices: 16387749--16387865 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
16387739 ATCACGAAAA
*
16387749 TTTCACACAATCATGCAATCATATCATAAACCTAAAAATAATTATAAAATAATTATTTT
1 TTTCACACAATCATGAAATCATATCATAAACCTAAAAATAATTATAAAATAATTATTTT
16387808 TTTCACACAATCATGAAATCATATCATAAACCTAAAAATAATTATAAAATAATTATTT
1 TTTCACACAATCATGAAATCATATCATAAACCTAAAAATAATTATAAAATAATTATTT
16387866 CTATCTCAGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.35
Consensus pattern (59 bp):
TTTCACACAATCATGAAATCATATCATAAACCTAAAAATAATTATAAAATAATTATTTT
Found at i:16395676 original size:46 final size:46
Alignment explanation
Indices: 16395609--16395865 Score: 354
Period size: 46 Copynumber: 5.6 Consensus size: 46
16395599 TTTTTGAAAT
16395609 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* *
16395655 GAAATGTGTAAAACCATGGTTGAAAGATACCATGACAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** *
16395701 GAAATGTGTAAGACCATGGTTGAAAGATAGTATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* * * *
16395747 GAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACGTGACAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** * * *
16395793 GAAATGAATAAGTCCATGGTTGAAAGATACCATGACAACATGACA-
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* *
16395838 GAAAATGAGTAAGACCATAGTTGAAAGA
1 G-AAATGTGTAAGACCATGGTTGAAAGA
16395866 CACTATGTCA
Statistics
Matches: 189, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 188 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
Found at i:16395725 original size:21 final size:21
Alignment explanation
Indices: 16395701--16395771 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
16395691 AACATGATAC
16395701 GAAATGTGTAAGACCATGGTT
1 GAAATGTGTAAGACCATGGTT
* * *
16395722 GAAA-GATAGTATGGCAACATGATAT
1 GAAATG-T-GTA-AG-ACCATGGT-T
*
16395747 GAAATGTGTAAGACTATGGTT
1 GAAATGTGTAAGACCATGGTT
16395768 GAAA
1 GAAA
16395772 GATACCATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 8 0.22
23 2 0.05
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (21 bp):
GAAATGTGTAAGACCATGGTT
Found at i:16395855 original size:138 final size:138
Alignment explanation
Indices: 16395607--16395865 Score: 403
Period size: 138 Copynumber: 1.9 Consensus size: 138
16395597 GCTTTTTGAA
* **
16395607 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATACGAAATGTGTAAAACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACACGAAATGAATAAAACCAT
* * *
16395672 GGTTGAAAGATACCATGACAACATGATACGAAATGTGTAAGACCATGGTTGAAAGATAGTATGGC
66 GGTTGAAAGATACCATGACAACATGACACGAAATGAGTAAGACCATAGTTGAAAGATAGTATGGC
16395737 AACATGAT
131 AACATGAT
* * * **
16395745 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGTCCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACACGAAATGAATAAAACCAT
16395810 GGTTGAAAGATACCATGACAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
66 GGTTGAAAGATACCATGACAACATGACACG-AAATGAGTAAGACCATAGTTGAAAGA
16395866 CACTATGTCA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 108 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACACGAAATGAATAAAACCAT
GGTTGAAAGATACCATGACAACATGACACGAAATGAGTAAGACCATAGTTGAAAGATAGTATGGC
AACATGAT
Found at i:16397645 original size:17 final size:17
Alignment explanation
Indices: 16397601--16397647 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
16397591 ATTTTATACA
* * *
16397601 ATTTATGAACATTTTAT
1 ATTTATAAATATTTAAT
*
16397618 ATTT-GAAATATTTAAT
1 ATTTATAAATATTTAAT
16397634 ATTTATAAATATTT
1 ATTTATAAATATTT
16397648 TTATATAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTATAAATATTTAAT
Found at i:16398213 original size:30 final size:31
Alignment explanation
Indices: 16398141--16398217 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
16398131 ATAAAGTAAT
*
16398141 ATTTAATTCTTAAATTTGATAAATTTTATCA
1 ATTTAATCCTTAAATTTGATAAATTTTATCA
*
16398172 ATTTAATCCTTAAATTT-A-ACAATTTTTTCAA
1 ATTTAATCCTTAAATTTGATA-AATTTTATC-A
*
16398203 ATTTGA-CCTTAAATT
1 ATTTAATCCTTAAATT
16398218 AGATTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 18 0.44
31 22 0.54
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTTAATCCTTAAATTTGATAAATTTTATCA
Found at i:16400651 original size:4 final size:4
Alignment explanation
Indices: 16400642--16400708 Score: 134
Period size: 4 Copynumber: 16.8 Consensus size: 4
16400632 ATTAATATAA
16400642 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
16400690 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
16400709 AAAGGGCAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:16406114 original size:39 final size:39
Alignment explanation
Indices: 16406069--16406169 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
16406059 ATCGTGATCT
* * * *
16406069 GAAGCCCGAAGTCTAGCTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
16406108 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
16406147 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
16406170 CCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:16406170 original size:18 final size:18
Alignment explanation
Indices: 16406067--16406171 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 18
16406057 ACATCGTGAT
* *
16406067 CTGAAGCCCGAAGTCTAG
1 CTGAAGCCCGAAGGCTAA
* **
16406085 CTGAAGTACATAAGTGCTAAA
1 CTGAAG-CCCGAAG-GCT-AA
*
16406106 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
*
16406124 CTGAAGCACAC-AAGTGTTAAA
1 CTGAAGC-C-CGAAG-GCT-AA
*
16406145 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
16406163 CTGAAGCCC
1 CTGAAGCCC
16406172 ATCAGAGCTG
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
18 24 0.37
19 14 0.22
20 13 0.20
21 14 0.22
ACGTcount: A:0.35, C:0.25, G:0.26, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGGCTAA
Found at i:16411258 original size:34 final size:34
Alignment explanation
Indices: 16411214--16411299 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
16411204 ACACAATTAA
* *
16411214 CCATCCAGCACACCAGATGCTTATATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
* *
16411248 CCATCTAGCACACCAAATGCTCGTATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
*
16411282 CCATCCAGCACATCAAAT
1 CCATCCAGCACACCAAAT
16411300 AACACTGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.22
Consensus pattern (34 bp):
CCATCCAGCACACCAAATGCTCATATGAGCTAAT
Found at i:16416749 original size:24 final size:24
Alignment explanation
Indices: 16416722--16416771 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
16416712 CAGACACGGG
*
16416722 CTGGGACACGGCCGTGTGTTCTTA
1 CTGGGACACGACCGTGTGTTCTTA
16416746 CTGGGACACGACCGTGTGTTCTTA
1 CTGGGACACGACCGTGTGTTCTTA
16416770 CT
1 CT
16416772 TCAAATGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (24 bp):
CTGGGACACGACCGTGTGTTCTTA
Found at i:16440658 original size:65 final size:66
Alignment explanation
Indices: 16440576--16440714 Score: 228
Period size: 65 Copynumber: 2.1 Consensus size: 66
16440566 AAGCCAAAAC
*
16440576 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATGCAGAAATCGAATGATGTAGGAATAG
1 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATACAGAAATCGAATGATGTAGGAATAG
16440641 G
66 G
* * *
16440642 ATGTC-GATCAAGAATCACAATCAGTTCTTGCCAGAGATATAGAAATCGAATGGTGTAGGACTAG
1 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATACAGAAATCGAATGATGTAGGAATAG
16440706 G
66 G
16440707 ATGT-TGAT
1 ATGTCTGAT
16440715 ATTTGTCCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
65 63 0.93
66 5 0.07
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (66 bp):
ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATACAGAAATCGAATGATGTAGGAATAG
G
Found at i:16448549 original size:3 final size:3
Alignment explanation
Indices: 16448499--16448532 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16448489 TCTAATCACT
16448499 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
16448533 ATGTGTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:16449627 original size:18 final size:17
Alignment explanation
Indices: 16449604--16449656 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
16449594 ATTAATTAAT
16449604 TTTTTAAATATTTTAAAA
1 TTTTTAAAT-TTTTAAAA
*
16449622 TTTTTATACTTTTTAAATA
1 TTTTTA-AATTTTTAAA-A
16449641 TTTTT-AATTTTTAAAA
1 TTTTTAAATTTTTAAAA
16449657 ATTAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 13 0.42
19 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAATTTTTAAAA
Found at i:16462972 original size:43 final size:43
Alignment explanation
Indices: 16462924--16463073 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
16462914 TTTACGGAGA
16462924 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
16462967 TGTGATTACGTGTAAGATCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * * * *
16463010 TATGATTTCGTATAAGACTC-TGTCTGGGATAGTGGCACTG-AT
1 TGTGATTACATGTAAGAC-CATGTCTGGGACATTGGCATTGTAT
*
16463052 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
16463074 ATCCGGGATA
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 79 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:16464848 original size:18 final size:18
Alignment explanation
Indices: 16464816--16464857 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16464806 GACAATGTGA
*
16464816 TTATGT-TTGATGGATGT
1 TTATGTGTTAATGGATGT
*
16464833 TTATGTGTTAATGGATTT
1 TTATGTGTTAATGGATGT
16464851 TTATGTG
1 TTATGTG
16464858 AGAAATGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (18 bp):
TTATGTGTTAATGGATGT
Found at i:16465978 original size:22 final size:22
Alignment explanation
Indices: 16465946--16465996 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
16465936 TAATTCAAGC
16465946 AATCTTTATTTGTCGCAAATTCA
1 AATC-TTATTTGTCGCAAATTCA
16465969 AATCTTATTTGTCGCAAATTCA
1 AATCTTATTTGTCGCAAATTCA
*
16465991 AGTCTT
1 AATCTT
16465997 TCTGAGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (22 bp):
AATCTTATTTGTCGCAAATTCA
Found at i:16473665 original size:14 final size:14
Alignment explanation
Indices: 16473646--16473674 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16473636 TATGTCATAT
16473646 TTTTATGTTTGAGA
1 TTTTATGTTTGAGA
16473660 TTTTATGTTTGAGA
1 TTTTATGTTTGAGA
16473674 T
1 T
16473675 GTGACTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGAGA
Found at i:16477888 original size:66 final size:66
Alignment explanation
Indices: 16477776--16478107 Score: 592
Period size: 66 Copynumber: 5.0 Consensus size: 66
16477766 TTCTTTTTGT
* * * * *
16477776 TTTTAATAAACTTAAGCTTTTAAGTTGTTTGTAGAAACTCTTTAATACAACGTTTATTACATTAA
1 TTTTAATAAACTTAAGC-TTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAA
16477841 TC
65 TC
16477843 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
16477908 C
66 C
16477909 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
16477974 C
66 C
16477975 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
16478040 C
66 C
*
16478041 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTTAATACACCATTTATTACATTAA
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAAC-TTTTTAATACAACATTTATTACATTAA
16478106 TC
65 TC
16478108 AATGTATTGT
Statistics
Matches: 258, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 213 0.83
67 45 0.17
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (66 bp):
TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
C
Found at i:16485578 original size:19 final size:19
Alignment explanation
Indices: 16485554--16485593 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16485544 TGAAAATGTG
16485554 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
16485573 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
16485592 TA
1 TA
16485594 TGATGACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:16489706 original size:40 final size:40
Alignment explanation
Indices: 16489561--16489706 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 40
16489551 TACTAGCTCA
* * *
16489561 AAGCCTGCGGAACTTTAAGCCC-GA-ATATAGTACCAGCACT-
1 AAGCCTGCGGGA-TTTAA-CCCGGATATACATTACCAGCA-TG
*
16489601 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
16489641 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
* *
16489681 AAGCCTGCAGGATTTAACCCAGATAT
1 AAGCCTGCGGGATTTAACCCGGATAT
16489707 TTAATATATC
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.03
39 7 0.07
40 86 0.90
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCATG
Found at i:16497609 original size:40 final size:38
Alignment explanation
Indices: 16497564--16497680 Score: 117
Period size: 40 Copynumber: 3.0 Consensus size: 38
16497554 CGAATCCAGT
*
16497564 TACTAGCTCAAAGCCTACGGAACTTTAAGCCCGGATATAG
1 TACTAGCACAAAGCCTACGGAA-TTTAA-CCCGGATATAG
* * *
16497604 TACTAGCACTAAGCCTACGGGATTTAACCCGGATATACAT
1 TACTAGCACAAAGCCTACGGAATTTAACCCGGATAT--AG
* * * * *
16497644 TACCAGCACGAAGCCTGCGGGATTTATCCCGGATATA
1 TACTAGCACAAAGCCTACGGAATTTAACCCGGATATA
16497681 CATTACCAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
38 10 0.15
39 5 0.07
40 52 0.78
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (38 bp):
TACTAGCACAAAGCCTACGGAATTTAACCCGGATATAG
Found at i:16497681 original size:40 final size:40
Alignment explanation
Indices: 16497587--16497719 Score: 180
Period size: 40 Copynumber: 3.4 Consensus size: 40
16497577 CCTACGGAAC
* * * *
16497587 TTTAAGCCCGGATAT--AGTACTAGCACTAAGCCTACGGGA
1 TTTAA-CCCGGATATACATTACCAGCACGAAGCCTGCGGGA
16497626 TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
* *
16497666 TTTATCCCGGATATACATTACCAGCATGAAGCCTGCGGGA
1 TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
*
16497706 TTTAACCTGGATAT
1 TTTAACCCGGATAT
16497720 TTAATATATC
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
38 9 0.11
39 5 0.06
40 70 0.83
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (40 bp):
TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
Found at i:16507014 original size:40 final size:40
Alignment explanation
Indices: 16506959--16507187 Score: 377
Period size: 40 Copynumber: 5.7 Consensus size: 40
16506949 TGAGCATTGG
16506959 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
16506999 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
16507039 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
16507079 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
16507119 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
16507159 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
16507188 ATGTGTTTGC
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:16512482 original size:37 final size:37
Alignment explanation
Indices: 16512421--16512499 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
16512411 TTATTACGAA
* * *
16512421 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
16512458 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
16512495 GTCTT
1 GTCTT
16512500 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:16512696 original size:47 final size:47
Alignment explanation
Indices: 16512618--16513003 Score: 592
Period size: 47 Copynumber: 8.1 Consensus size: 47
16512608 CCCTTCGGGA
* * * * * *
16512618 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16512665 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16512712 CTTATCACATATATACACTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16512759 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16512806 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16512857 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16512906 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16512953 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16513000 CTTA
1 CTTA
16513004 CTATCATTTC
Statistics
Matches: 314, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 219 0.70
49 49 0.16
51 46 0.15
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16512956 original size:194 final size:192
Alignment explanation
Indices: 16512629--16513003 Score: 651
Period size: 194 Copynumber: 1.9 Consensus size: 192
16512619 TTATCACATT
* * * *
16512629 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
*
16512694 TCACATCGGCCGTTAGGCCTTATCACATATATACACTTGCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTGCACATTCATCACATCGGCCATTAGGC
16512759 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
131 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* * *
16512821 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATACACTTTCACATT
*
16512886 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
64 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTGCACATTCATCACATCGGCCATTAG
16512951 GCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
129 GCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
16513004 CTATCATTTC
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
192 37 0.22
194 135 0.78
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (192 bp):
TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTGCACATTCATCACATCGGCCATTAGGC
CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:16517995 original size:30 final size:30
Alignment explanation
Indices: 16517952--16518014 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
16517942 ACTTATTTTA
16517952 TTGTTAATATTGTTATTATTTTAGAGGCAT
1 TTGTTAATATTGTTATTATTTTAGAGGCAT
* *
16517982 TTGTTATTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATATTGTTATTATTTTAGAGGCAT
16518012 TTG
1 TTG
16518015 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTGTTAATATTGTTATTATTTTAGAGGCAT
Found at i:16518170 original size:12 final size:11
Alignment explanation
Indices: 16518137--16518172 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
16518127 TATATATATT
*
16518137 TAAAAATTATA
1 TAAAAATAATA
16518148 TAAAAATAATA
1 TAAAAATAATA
16518159 TAAAAATGAATA
1 TAAAAAT-AATA
16518171 TA
1 TA
16518173 GGCGGGCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:16520099 original size:16 final size:16
Alignment explanation
Indices: 16520078--16520112 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
16520068 CATGTAAGAC
16520078 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
16520094 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
16520110 CAT
1 CAT
16520113 TGGCATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (16 bp):
CATGTCTGGGACATGG
Found at i:16522399 original size:40 final size:40
Alignment explanation
Indices: 16522325--16522549 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
16522315 AACCCAAGTA
* * *
16522325 CCTTCGGGATTTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
**
16522364 CCTTCGGGTTTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
16522404 CCTTCGGGATTTAGCCCGGGTATAG-CAACTACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
16522447 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
16522487 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
16522527 CCATCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
16522550 CATCCAAATA
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 14 0.08
40 116 0.69
41 1 0.01
43 35 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:16522448 original size:83 final size:81
Alignment explanation
Indices: 16522325--16522549 Score: 316
Period size: 83 Copynumber: 2.8 Consensus size: 81
16522315 AACCCAAGTA
**
16522325 CCTTCGGGATTTAG-CCGGATATAGCAA-T-TCGCACAAATGCCTTCGGGTTTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAT-GCACAAATGCCTTCGGGACTTAGCCCGGATAT
16522387 AGTCACTAGCACAAATG
65 AGTCACTAGCACAAATG
* *
16522404 CCTTCGGGATTTAGCCCGGGTATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGATTTAGCCCGGATATAGCAACTA--TGCACAAATGCCTTCGGGACTTAGCCCGGATA
16522469 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
* * *
16522487 CCTTCGAGACTTAGCCCGGATATAGTC-ACTA-GCACAAATGCCATCGGGACTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATATAG-CAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATAT
16522550 CATCCAAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
79 14 0.11
80 42 0.32
81 1 0.01
83 72 0.55
84 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTATGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACTAGCACAAATG
Found at i:16524706 original size:13 final size:13
Alignment explanation
Indices: 16524684--16524716 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16524674 TTACTTTAGT
16524684 TTAA-TTAGTTAA
1 TTAATTTAGTTAA
16524696 TTAATTTAGTTAA
1 TTAATTTAGTTAA
*
16524709 TTAGTTTA
1 TTAATTTA
16524717 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (13 bp):
TTAATTTAGTTAA
Found at i:16528855 original size:26 final size:26
Alignment explanation
Indices: 16528795--16528866 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
16528785 ATGAAGTTTT
* *
16528795 CCACAAAGGCATTCCTTTCATACTCTC
1 CCACAAAGGC-TTTCTTTCATACTATC
* * *
16528822 CCAAAAAGGCTTTCTTTCATATTATG
1 CCACAAAGGCTTTCTTTCATACTATC
*
16528848 CCACAAAGGGTTTTCTTTC
1 CCACAAA-GGCTTTCTTTC
16528867 CAAACATGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATACTATC
Found at i:16539044 original size:201 final size:200
Alignment explanation
Indices: 16538700--16539100 Score: 793
Period size: 201 Copynumber: 2.0 Consensus size: 200
16538690 CCCCATTGCC
16538700 GTGAGCTAAAGAAGAGAAAGGGGGGAATTTTGTTCATCCTTTTCTCATCTTCATGCTTGCCAAAA
1 GTGAGCTAAAGAAGAGAAAGGGGGGAATTTTGTTCATCCTTTTCTCATCTTCATGCTTGCCAAAA
16538765 ACTAGAAAGAAAAACAAAGAAAAATTTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAG
66 ACTAGAAAGAAAAACAAAGAAAAATTTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAG
16538830 GAGGAAAGAAGAAGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGAT
131 GAGGAAAGAAGAAGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGAT
16538895 GATGT
196 GATGT
16538900 GTGAGCTAAAGAAGAGAAAGGGGGGGAATTTTGTTCATCCTTTTCTCATCTTCATGCTTGCCAAA
1 GTGAGCTAAAGAAGAGAAA-GGGGGGAATTTTGTTCATCCTTTTCTCATCTTCATGCTTGCCAAA
16538965 AACTAGAAAGAAAAACAAAGAAAAATTTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAA
65 AACTAGAAAGAAAAACAAAGAAAAATTTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAA
16539030 GGAGGAAAGAAGAAGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGA
130 GGAGGAAAGAAGAAGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGA
16539095 TGATGT
195 TGATGT
16539101 TCCATGAGGC
Statistics
Matches: 200, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
200 19 0.09
201 181 0.90
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (200 bp):
GTGAGCTAAAGAAGAGAAAGGGGGGAATTTTGTTCATCCTTTTCTCATCTTCATGCTTGCCAAAA
ACTAGAAAGAAAAACAAAGAAAAATTTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAG
GAGGAAAGAAGAAGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGAT
GATGT
Found at i:16540088 original size:40 final size:40
Alignment explanation
Indices: 16540032--16540201 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
16540022 GGACTAAGAT
* * *
16540032 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
16540072 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
16540112 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
16540152 CCGAAGGCA-TGGTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACT-AAATCCGGGTTAAGTC
16540191 CCGAAGGCATT
1 CCGAAGGCATT
16540202 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 28 0.25
40 84 0.75
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:16540221 original size:79 final size:80
Alignment explanation
Indices: 16540054--16540236 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
16540044 GTGCGAGATA
* * * *
16540054 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
16540119 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * * *
16540134 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAATCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
16540198 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
16540213 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
16540237 TACGTGAATT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 46 0.55
80 24 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:16543978 original size:30 final size:30
Alignment explanation
Indices: 16543939--16544027 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
16543929 GATTAAATTA
*
16543939 CTCACACAAGCTGACATTATATCAGGGTTG
1 CTCACACAAGCTGACATTATATCAAGGTTG
* * *
16543969 CTTACACAAGCTGACATTAAAACAAGGTTG
1 CTCACACAAGCTGACATTATATCAAGGTTG
* *
16543999 CTCACACAAGCTAACATAATATCAAGGTT
1 CTCACACAAGCTGACATTATATCAAGGTT
16544028 ACTTGTGTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATATCAAGGTTG
Found at i:16551296 original size:18 final size:18
Alignment explanation
Indices: 16551275--16551348 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
16551265 GAACAATTAT
* *
16551275 TTATTTAGTAACAGTCAG
1 TTATTTAGTAACAATCAA
*
16551293 TTATTTGGTAACAATCAA
1 TTATTTAGTAACAATCAA
* * * *
16551311 TTATTCAATAATAATCAG
1 TTATTTAGTAACAATCAA
* * *
16551329 TTAGTCAGTATCAATCAA
1 TTATTTAGTAACAATCAA
16551347 TT
1 TT
16551349 GATCAGTTAT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (18 bp):
TTATTTAGTAACAATCAA
Found at i:16551354 original size:26 final size:26
Alignment explanation
Indices: 16551324--16551381 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
16551314 TTCAATAATA
**
16551324 ATCAGTTAGT-CAGTATCAATCAATTG
1 ATCAGTTA-TCCAGTAAAAATCAATTG
16551350 ATCAGTTATCCAGTAAAAATCAATTG
1 ATCAGTTATCCAGTAAAAATCAATTG
*
16551376 TTCAGT
1 ATCAGT
16551382 AAAAATCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (26 bp):
ATCAGTTATCCAGTAAAAATCAATTG
Found at i:16551371 original size:18 final size:18
Alignment explanation
Indices: 16551350--16551401 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
16551340 CAATCAATTG
*
16551350 ATCAGTTATCCAGTAAAA
1 ATCAGTTATACAGTAAAA
* * *
16551368 ATCAATTGTTCAGTAAAA
1 ATCAGTTATACAGTAAAA
*
16551386 ATCAGATATACAGTAA
1 ATCAGTTATACAGTAA
16551402 CAATTAAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (18 bp):
ATCAGTTATACAGTAAAA
Found at i:16551720 original size:6 final size:6
Alignment explanation
Indices: 16551705--16551737 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
16551695 TGTTAAACCG
*
16551705 GTAACA GTAACG GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
16551738 GTCCTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:16556308 original size:126 final size:126
Alignment explanation
Indices: 16556083--16556462 Score: 706
Period size: 126 Copynumber: 3.0 Consensus size: 126
16556073 GTAGCTTATC
*
16556083 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTAGTAGCTAATTCGTTA
1 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTACTAGCTAATTCGTTA
16556148 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
66 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
16556209 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTACTAGCTAATTCGTTA
1 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTACTAGCTAATTCGTTA
16556274 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
66 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
* **
16556335 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAACTAAGTTAATTACTAGCTAATTTATTA
1 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTACTAGCTAATTCGTTA
* *
16556400 AAACCCTTAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTCTGTTTACTTCAT
66 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
16556461 TT
1 TT
16556463 AAGCGAAATT
Statistics
Matches: 248, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 248 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (126 bp):
TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTACTAGCTAATTCGTTA
AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
Found at i:16563661 original size:49 final size:49
Alignment explanation
Indices: 16563589--16563777 Score: 279
Period size: 49 Copynumber: 3.8 Consensus size: 49
16563579 AAATTCGAAG
* *
16563589 TTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
16563638 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* *
16563688 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
*
16563738 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
16563778 CGTGACCCCA
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
49 77 0.63
50 6 0.05
51 40 0.33
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:16563756 original size:100 final size:100
Alignment explanation
Indices: 16563583--16563782 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
16563573 ATAATAAAAT
16563583 TCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
1 TCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
16563648 CACGTAGTAGCCTGCACTTAGTACTACACACGTGA
66 CACGTAGTAGCCTGCACTTAGTACTACACACGTGA
16563683 TCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
1 TCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
16563748 CACGTAGTAGCCTGCACTTAGTACTACACACGTGA
66 CACGTAGTAGCCTGCACTTAGTACTACACACGTGA
16563783 CCCCACAATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (100 bp):
TCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
CACGTAGTAGCCTGCACTTAGTACTACACACGTGA
Found at i:16564062 original size:27 final size:27
Alignment explanation
Indices: 16564032--16564085 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16564022 TCATACAACC
* *
16564032 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
16564059 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
16564086 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:16564417 original size:30 final size:30
Alignment explanation
Indices: 16564383--16564439 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
16564373 AAAATCATAT
*
16564383 TTTGTAAAAATTATAATTTTGCCCCTAAAC
1 TTTGTAAAAATTACAATTTTGCCCCTAAAC
* *
16564413 TTTGTCAAAATTACATTTTTGCCCCTA
1 TTTGTAAAAATTACAATTTTGCCCCTA
16564440 GGCTCGTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTGTAAAAATTACAATTTTGCCCCTAAAC
Found at i:16565462 original size:31 final size:30
Alignment explanation
Indices: 16565427--16565487 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
16565417 ATTTAATACG
16565427 AACTTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTT-AAAAAATTACACTTTTGCCCCTA
** *
16565458 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
16565488 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:16570038 original size:62 final size:61
Alignment explanation
Indices: 16569941--16570063 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 61
16569931 GCTCTGCACG
16569941 GACCAAAATGATTTCTACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
1 GACCAAAATGATTTCTACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
16570002 NGACCAAAATGATTTCTACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
1 -GACCAAAATGATTTCTACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
16570064 ACTGGCTGCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (61 bp):
GACCAAAATGATTTCTACCACACCGCTGGCACTCGGGTTTAACAAATCTCGAGTTCCCTAC
Found at i:16572249 original size:19 final size:20
Alignment explanation
Indices: 16572225--16572262 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16572215 GGTACCACCA
16572225 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
16572244 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
16572263 ACCACCTTAT
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:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:16572651 original size:93 final size:93
Alignment explanation
Indices: 16572492--16572662 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
16572482 GCCCCTAAGT
* * *
16572492 GAACTCGGACTCATCTCAACGAGATCGGGCGTTCGCATCAATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCAATAAATGAACTCAGACTCAACTCAA
16572557 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
16572585 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCAATAAATGAACTCAGACTCAACTCAA
16572650 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16572663 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCAATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16572659 original size:46 final size:46
Alignment explanation
Indices: 16572487--16572659 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
16572477 AACCCGCCCC
* * * * * *
16572487 TAAGTGAACTCGGACTCATCTCAACGAGATCGGGCGTTCGCATCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
16572533 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
16572581 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
16572626 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16572660 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:16572678 original size:46 final size:45
Alignment explanation
Indices: 16572537--16572678 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
16572527 CATCAATAAA
*
16572537 TGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
16572584 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
16572630 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
16572676 TGA
1 TGA
16572679 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:16579560 original size:46 final size:46
Alignment explanation
Indices: 16579510--16580147 Score: 444
Period size: 46 Copynumber: 13.7 Consensus size: 46
16579500 TGGTTGAGCA
16579510 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16579556 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C--GAATG
* * *
16579604 TCCGAACTCGTTGACTTGAGTCCGAGTT--C--GTGCGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * *
16579649 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
16579697 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA-GG-GGCGGGT-
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** * * * *
16579740 TACATGATTTC-TTGATAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 T-C-CGAACTCGTTG--AGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16579788 CATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16579836 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16579882 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16579927 CATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16579975 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16580021 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16580066 CATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16580114 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16580148 GGGGCGGGTT
Statistics
Matches: 462, Mismatches: 77, Indels: 106
0.72 0.12 0.16
Matches are distributed among these distances:
42 6 0.01
43 15 0.03
44 6 0.01
45 21 0.05
46 239 0.52
47 92 0.20
48 49 0.11
49 4 0.01
50 20 0.04
51 10 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16579623 original size:48 final size:49
Alignment explanation
Indices: 16579552--16579672 Score: 176
Period size: 48 Copynumber: 2.5 Consensus size: 49
16579542 TATGGATGCG
16579552 AATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTA-A
1 AATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGA
* * * *
16579600 AATGTCCGAACTCGTTGACTTGAGTCCGAGTTCGTGCGATGTAACTAGG
1 AATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGA
*
16579649 CA--TCCGAACTCGTTGAGTTGAGTC
1 AATGTCCGAACTCGTTGAGTTGAGTC
16579673 TGAGTTCATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 21 0.32
48 44 0.67
49 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
AATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGA
Found at i:16579825 original size:139 final size:139
Alignment explanation
Indices: 16579507--16580147 Score: 925
Period size: 139 Copynumber: 4.6 Consensus size: 139
16579497 GGATGGTTGA
* * * *
16579507 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
* * * * * * * *
16579572 TGAGTCCAAGTTC-GTGAGATGTA-ACTAAAATGTCCGAACTCGTTGACTTGAGTCCGAGTTCGT
66 TGAGTCCGAGTTCACT--TATGGAGGC--GAATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGT
*
16579635 GCGATGTAACTAG
127 GAGATGTAACTAG
* * * * * * *
16579648 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACGCTCGAGCTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
** * **
16579713 TGAGTCCGAGTTCACTTA-GG-GGCGGGT-TACATGATTTC-TTGATAGTTGAGTCCAAGTTCGT
66 TGAGTCCGAGTTCACTTATGGAGGCGAATGT-C-CGAACTCGTTG--AGTTGAGTCCAAGTTCGT
16579774 GAGATGTAACTAG
127 GAGATGTAACTAG
16579787 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
*
16579852 TGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
66 TGAGTCCGAGTTCACTTATGGAGGCGAATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
16579917 TGTAACTAG
131 TGTAACTAG
16579926 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
*
16579991 TGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
66 TGAGTCCGAGTTCACTTATGGAGGCGAATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
16580056 TGTAACTAG
131 TGTAACTAG
16580065 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
16580130 TGAGTCCGAGTTCACTTA
66 TGAGTCCGAGTTCACTTA
16580148 GGGGCGGGTT
Statistics
Matches: 456, Mismatches: 34, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
136 1 0.00
137 5 0.01
138 4 0.01
139 359 0.79
140 7 0.02
141 78 0.17
142 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (139 bp):
GCATCTGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCACTTATGGAGGCGAATGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
TGTAACTAG
Found at i:16580409 original size:19 final size:20
Alignment explanation
Indices: 16580372--16580409 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16580362 GTAAGGTGAT
16580372 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
16580392 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
16580410 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:16586942 original size:15 final size:15
Alignment explanation
Indices: 16586922--16586958 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16586912 ATACCAAGAT
16586922 GAGGCAAGTGATATC
1 GAGGCAAGTGATATC
16586937 GAGGCAAGTGATATC
1 GAGGCAAGTGATATC
*
16586952 AAGGCAA
1 GAGGCAA
16586959 CTCAGTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (15 bp):
GAGGCAAGTGATATC
Found at i:16587041 original size:27 final size:27
Alignment explanation
Indices: 16587011--16587067 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
16587001 ACCCCCTAAT
*
16587011 TGATAAAATGAATGTTATGCC-CTTATG
1 TGATAAAATCAATGTTATGCCTC-TATG
*
16587038 TGATAAAATCACTGTTATGCCTCTATG
1 TGATAAAATCAATGTTATGCCTCTATG
16587065 TGA
1 TGA
16587068 GGTATGATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (27 bp):
TGATAAAATCAATGTTATGCCTCTATG
Found at i:16593874 original size:25 final size:25
Alignment explanation
Indices: 16593846--16593915 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
16593836 CTCTTTTAAT
*
16593846 AACTGGGGCAAAGCCCTTTTTGACA
1 AACTGGGGCAAAGCCCTTTTCGACA
* **
16593871 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
16593896 AACCGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16593916 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGACA
Found at i:16598587 original size:15 final size:16
Alignment explanation
Indices: 16598560--16598589 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16598550 AGATATTCCA
16598560 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
16598576 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
16598590 GGGAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:16599673 original size:29 final size:28
Alignment explanation
Indices: 16599641--16599710 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
16599631 CTAGCCATAA
*
16599641 ACACGGTCGTGTGTGAGGCAC-AGCCTGTC
1 ACACGG-CGTGTATGAGGCACGA-CCTGTC
*
16599670 ACACAGGCATGTATGAGGCACGACCTGTC
1 ACAC-GGCGTGTATGAGGCACGACCTGTC
16599699 ACACGGGCGTGT
1 ACAC-GGCGTGT
16599711 CGAAGATCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 32 0.91
30 3 0.09
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (28 bp):
ACACGGCGTGTATGAGGCACGACCTGTC
Found at i:16603867 original size:40 final size:40
Alignment explanation
Indices: 16603818--16603897 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
16603808 ACGTTATTGT
*
16603818 GTTTATTATGATTGTTTTGTTTTGTCCATCTTATTTCCTG
1 GTTTATTATGATTGTTGTGTTTTGTCCATCTTATTTCCTG
16603858 GTTTATTATGATTGTTGTGTTTTGTCCATCTTATTTCCTG
1 GTTTATTATGATTGTTGTGTTTTGTCCATCTTATTTCCTG
16603898 CTGATTTAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (40 bp):
GTTTATTATGATTGTTGTGTTTTGTCCATCTTATTTCCTG
Found at i:16611955 original size:40 final size:39
Alignment explanation
Indices: 16611911--16612002 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
16611901 TATGATTGGT
*
16611911 ACTAAGTGTGCGGTTTAATATAACTTCGGCTACA-AATGGC
1 ACTAAGTGTGCGG-TTAACATAACTTCGGCTACAGAA-GGC
* ** *
16611951 ACTAAGTGTGCCAGTTGGCATAACTTCGGCTATAGAAGGC
1 ACTAAGTGTG-CGGTTAACATAACTTCGGCTACAGAAGGC
16611991 ACTAAGTGTGCG
1 ACTAAGTGTGCG
16612003 ATACCGATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 39 0.89
41 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (39 bp):
ACTAAGTGTGCGGTTAACATAACTTCGGCTACAGAAGGC
Found at i:16616218 original size:27 final size:29
Alignment explanation
Indices: 16616152--16616224 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
16616142 AATATTACTC
* *
16616152 AATTATTTATTTATTTTTATTGGTAACAT
1 AATTATTTCTTTATTCTTATTGGTAACAT
* *
16616181 AACTTTTTTTCTTT-TTCTT-TTGTTAACAT
1 AA--TTATTTCTTTATTCTTATTGGTAACAT
16616210 AATTATTTCTTTATT
1 AATTATTTCTTTATT
16616225 TGAAAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 9 0.25
28 2 0.06
29 13 0.36
30 4 0.11
31 8 0.22
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (29 bp):
AATTATTTCTTTATTCTTATTGGTAACAT
Found at i:16617746 original size:53 final size:53
Alignment explanation
Indices: 16617661--16617766 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
16617651 TTGTTCATGT
*
16617661 GTCATCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
1 GTCAGCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
* * *
16617714 GTCAGCATCGTGTTTAGTCATGTTACTCAACTGTTAAAAAATTAATTGTGTTA
1 GTCAGCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
16617767 ATCATAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (53 bp):
GTCAGCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
Found at i:16625238 original size:25 final size:25
Alignment explanation
Indices: 16625209--16625257 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16625199 TTATAATATG
* * * *
16625209 AAAAATGACTATTTTGCCCTTAGGT
1 AAAAACGACCATTTTACCCCTAGGT
16625234 AAAAACGACCATTTTACCCCTAGG
1 AAAAACGACCATTTTACCCCTAGG
16625258 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (25 bp):
AAAAACGACCATTTTACCCCTAGGT
Found at i:16629699 original size:27 final size:27
Alignment explanation
Indices: 16629669--16629757 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
16629659 GTGCGTATAG
16629669 TGATAGTGACACTTCGGTGCAACTCAA
1 TGATAGTGACACTTCGGTGCAACTCAA
* *
16629696 TGATAGTGACACTAT-GGTGCAACTTAG
1 TGATAGTGACACT-TCGGTGCAACTCAA
* * * *
16629723 TTATAGTGGCACTTCAGTGCAATTCAA
1 TGATAGTGACACTTCGGTGCAACTCAA
*
16629750 TGACAGTG
1 TGATAGTG
16629758 GCTCTTTGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (27 bp):
TGATAGTGACACTTCGGTGCAACTCAA
Found at i:16632285 original size:15 final size:15
Alignment explanation
Indices: 16632261--16632300 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
16632251 AAGCAACATC
16632261 AAGA-GAATCACCAA
1 AAGATGAATCACCAA
*
16632275 AAGATGAATCACCTA
1 AAGATGAATCACCAA
16632290 AAGATGAATCA
1 AAGATGAATCA
16632301 TATCATGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (15 bp):
AAGATGAATCACCAA
Found at i:16640176 original size:46 final size:45
Alignment explanation
Indices: 16640109--16640200 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 45
16640099 CATCACAAGA
16640109 ATAAGCCAAAAATTACAAGATCGTCTCGAAAATCATTCTCATAGAT
1 ATAAGCCAAAAATTACAAGATCGTCTCG-AAATCATTCTCATAGAT
16640155 ATAAGCCAAAAATTACAAGATCGTCTCGAAATCATTCTCATAGAT
1 ATAAGCCAAAAATTACAAGATCGTCTCGAAATCATTCTCATAGAT
16640200 A
1 A
16640201 GAACTTACTC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 18 0.39
46 28 0.61
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (45 bp):
ATAAGCCAAAAATTACAAGATCGTCTCGAAATCATTCTCATAGAT
Done.