Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 58 of 290
Found at i:17864775 original size:22 final size:22
Alignment explanation
Indices: 17864750--17864805 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
17864740 TTGATAGGAG
*
17864750 AACACGGGCGTGGGAATAGAAA
1 AACACGAGCGTGGGAATAGAAA
17864772 AACACGAGCGTGGGAATAGAAA
1 AACACGAGCGTGGGAATAGAAA
17864794 AACACGAGCGTG
1 AACACGAGCGTG
17864806 TCAGGGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.34, T:0.09
Consensus pattern (22 bp):
AACACGAGCGTGGGAATAGAAA
Found at i:17866785 original size:15 final size:15
Alignment explanation
Indices: 17866762--17866797 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
17866752 TTGAATCCTC
*
17866762 TTATTTTTTT-GTTT
1 TTATTTTTTTATTTT
17866776 TTATTTTTTTATTTT
1 TTATTTTTTTATTTT
17866791 TTATTTT
1 TTATTTT
17866798 CATTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (15 bp):
TTATTTTTTTATTTT
Found at i:17869709 original size:8 final size:8
Alignment explanation
Indices: 17869691--17869721 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
17869681 TCTCTTTGCT
17869691 TTAGTTTAA
1 TTAG-TTAA
17869700 TTAGTTAA
1 TTAGTTAA
17869708 TTAGTTAA
1 TTAGTTAA
17869716 TTAGTT
1 TTAGTT
17869722 TAGTAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (8 bp):
TTAGTTAA
Found at i:17891544 original size:30 final size:30
Alignment explanation
Indices: 17891508--17891565 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
17891498 AAGACCATTC
*
17891508 CCACACGGGCTGAG-CACACGCCCTTGTGAG
1 CCACACGGGCTG-GCCACACGCCCATGTGAG
17891538 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
17891566 GAAGCCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:17894939 original size:22 final size:22
Alignment explanation
Indices: 17894914--17894960 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17894904 ACCACACACT
* *
17894914 CGTGTGCCTAATGTGACACGCC
1 CGTGTGACTAATGTGACACCCC
*
17894936 CGTGTGACTAGTGTGACACCCC
1 CGTGTGACTAATGTGACACCCC
17894958 CGT
1 CGT
17894961 AGAAGGCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (22 bp):
CGTGTGACTAATGTGACACCCC
Found at i:17895926 original size:22 final size:23
Alignment explanation
Indices: 17895887--17895934 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
17895877 ACAATCATTT
*
17895887 AATCATTACTATTCAGTATCAGTC
1 AATCATTA-TATTCAGTAACAGTC
*
17895911 AATCATT-TATTTAGTAACAGTC
1 AATCATTATATTCAGTAACAGTC
17895933 AA
1 AA
17895935 GTACTCAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
AATCATTATATTCAGTAACAGTC
Found at i:17896085 original size:6 final size:6
Alignment explanation
Indices: 17896076--17896111 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
17896066 CACCGTAAGG
*
17896076 GTAACA GTAACA GTAACA GTAATA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
17896112 ATAGCAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:17896119 original size:12 final size:12
Alignment explanation
Indices: 17896077--17896125 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
17896067 ACCGTAAGGG
*
17896077 TAACAGTAACAG
1 TAACAGTAACAA
* *
17896089 TAACAGTAATAG
1 TAACAGTAACAA
17896101 TAACAGTAACAA
1 TAACAGTAACAA
*
17896113 TAGCAGTACACAA
1 TAACAGTA-ACAA
17896126 AGTACCTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 28 0.88
13 4 0.12
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.18
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:17896120 original size:18 final size:18
Alignment explanation
Indices: 17896077--17896120 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
17896067 ACCGTAAGGG
*
17896077 TAACAGTAACAGTAACAG
1 TAACAGTAACAGTAACAA
*
17896095 TAATAGTAACAGTAACAA
1 TAACAGTAACAGTAACAA
*
17896113 TAGCAGTA
1 TAACAGTA
17896121 CACAAAGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (18 bp):
TAACAGTAACAGTAACAA
Found at i:17896374 original size:23 final size:25
Alignment explanation
Indices: 17896338--17896383 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
17896328 ACTTTCAAAT
**
17896338 TTTCAATTTTATTT-GTA-ATTTAA
1 TTTCAATTCAATTTAGTACATTTAA
17896361 TTTCAATTCAATTTAGTACATTT
1 TTTCAATTCAATTTAGTACATTT
17896384 TTCCATATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 3 0.16
25 4 0.21
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTCAATTCAATTTAGTACATTTAA
Found at i:17897191 original size:18 final size:17
Alignment explanation
Indices: 17897152--17897203 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
17897142 TCGTTTCATG
17897152 TTCTGTTCTTTCTATTCTTT
1 TTCT-TTCTTT-TATT-TTT
17897172 TTCTTTCTTTTATTTGTT
1 TTCTTTCTTTTATTT-TT
*
17897190 TTGTTTC-TTTATTT
1 TTCTTTCTTTTATTT
17897204 AACTATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.27
18 12 0.40
19 6 0.20
20 4 0.13
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.75
Consensus pattern (17 bp):
TTCTTTCTTTTATTTTT
Found at i:17903377 original size:29 final size:31
Alignment explanation
Indices: 17903329--17903389 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
17903319 CCCATTTTCC
*
17903329 TATTTTATTTATTTAGTATTAT-T-TTATTT
1 TATTTTATTTATTTACTATTATATATTATTT
17903358 TATTTTATTTATTGT-CTATTATATATTATTT
1 TATTTTATTTATT-TACTATTATATATTATTT
17903389 T
1 T
17903390 CTTTGTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 19 0.68
30 2 0.07
31 7 0.25
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (31 bp):
TATTTTATTTATTTACTATTATATATTATTT
Found at i:17904998 original size:6 final size:6
Alignment explanation
Indices: 17904961--17905006 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
17904951 TCCATTTGTC
* * *
17904961 TTTATC TTTATT TTTATT TTTATT TTTATT TTTCTT TTTATG TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
17905007 CTCTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:17908819 original size:68 final size:66
Alignment explanation
Indices: 17908747--17908918 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
17908737 CATCATGTGT
* * * *
17908747 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
17908810 TGTAG
62 TGTAG
** * *
17908815 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
17908880 AG
65 AG
* * * *
17908882 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
17908919 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:17908852 original size:64 final size:64
Alignment explanation
Indices: 17908771--17908954 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
17908761 AGACATTATG
* * *
17908771 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
17908835 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17908900 AA
63 AA
* * *
17908902 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
17908955 CAAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17913257 original size:68 final size:66
Alignment explanation
Indices: 17913185--17913356 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
17913175 CATCATGTGT
* * * *
17913185 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
17913248 TGTAG
62 TGTAG
** * *
17913253 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
17913318 AG
65 AG
* * * *
17913320 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
17913357 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:17913290 original size:64 final size:64
Alignment explanation
Indices: 17913209--17913392 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
17913199 AGACATTATG
* * *
17913209 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
17913273 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17913338 AA
63 AA
* * *
17913340 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
17913393 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17915251 original size:103 final size:104
Alignment explanation
Indices: 17915069--17915269 Score: 341
Period size: 103 Copynumber: 1.9 Consensus size: 104
17915059 AAAATATAAT
* *
17915069 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGTTTGTTCGGTAACGCCTCGTACCTTA
1 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
* **
17915134 TCCCGGCCTTGGGTACGGGTAA-GGGTGTTACATTTTGC
66 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACATTTTGC
*
17915172 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTTTATGCTTGTTCGATAACGCCTCGTACCTTA
1 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
17915237 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACA
66 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACA
17915270 CACATTCATT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 81 0.89
104 10 0.11
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (104 bp):
GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACATTTTGC
Found at i:17919805 original size:47 final size:45
Alignment explanation
Indices: 17919640--17919998 Score: 244
Period size: 47 Copynumber: 7.7 Consensus size: 45
17919630 ATATATTACC
* * * * *
17919640 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGT-AG-GCT
* * * * *
17919690 GATGTATGTCCCAGACATGTCTTACACTAGCAAACTCT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCT
* *
17919733 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCT
* * * *
17919780 GATGCATGTCCCCGACATGTATTACACTAGCACTCATCTCTGT--GCC
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCT-ATCTCTGTAGGCT
*
17919826 GATGCCATGTTCCAGACATGCTCTTACACTGGCTATCT-TAGTATGGCT
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTATCTCT-GTA-GGCT
* * ** * * * *
17919874 GATGTATGTCCCAGACATGTCTTACACTAGCCCTCGTTTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTAGGCT
* * *
17919920 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGAC-
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGGCT
*
17919968 GAAGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
17919999 ACACAAATCA
Statistics
Matches: 247, Mismatches: 44, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
43 33 0.13
44 2 0.01
45 6 0.02
46 42 0.17
47 85 0.34
48 48 0.19
49 19 0.08
50 12 0.05
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCT
Found at i:17919883 original size:94 final size:94
Alignment explanation
Indices: 17919638--17920000 Score: 365
Period size: 94 Copynumber: 3.9 Consensus size: 94
17919628 GGATATATTA
* * *
17919638 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TATGCGTGTTGATGTATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTAT--G-GCTGATGTATGTCCC
*
17919702 AGACATGTCTTACACTAGCA---AACTCT-TAG
63 AGACATGTCTTACACTAGCACTCATCTCTGT-G
* * *
17919731 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCT-GTCGA-GGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCT-TAGT--ATGGCTGATGTATGTCCC
* *
17919792 CGACATGTATTACACTAGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCACTCATCTCTGTG
* *
17919824 CCGATGCCATGTTCCAGACATGCTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
* *
17919889 CATGTCTTACACTAGCCCTCGT-T-TGGATG
66 CATGTCTTACACTAGCACTCATCTCT-G-TG
* * * * *
17919918 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTA-GAC-GAAGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TTA-GTATGGCTGATGTATGTCCCA
*
17919981 GACATGTCTTACACTGGCAC
64 GACATGTCTTACACTAGCAC
17920001 ACAAATCACC
Statistics
Matches: 227, Mismatches: 27, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
90 31 0.14
91 17 0.07
92 15 0.07
93 21 0.09
94 117 0.52
95 23 0.10
96 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
CATGTCTTACACTAGCACTCATCTCTGTG
Found at i:17926514 original size:40 final size:40
Alignment explanation
Indices: 17926447--17926534 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
17926437 CTCAGTCTCA
**
17926447 CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAATTG
1 CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAAACG
* ** * *
17926487 CACACTAAGTGCT-CTATATGGTTGAAGCTATCTCGAAACG
1 CACACTAAGTGCTAC-ATATAGCCGAAGCTACCCCGAAACG
17926527 CACACTAA
1 CACACTAA
17926535 CTGCCAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAAACG
Found at i:17931388 original size:26 final size:22
Alignment explanation
Indices: 17931337--17931381 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17931327 GTCTCAAACC
17931337 ATTCTTCATCGACAATTAATTT
1 ATTCTTCATCGACAATTAATTT
17931359 ATTCTTCATCGACAATTAATTT
1 ATTCTTCATCGACAATTAATTT
17931381 A
1 A
17931382 CCTATTCGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTCTTCATCGACAATTAATTT
Found at i:17940747 original size:23 final size:23
Alignment explanation
Indices: 17940716--17940791 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
17940706 AAAAATAAAA
*
17940716 AATGTACAGTGAAGATTTTCTGC
1 AATGAACAGTGAAGATTTTCTGC
*
17940739 AATGAACAGTGAAG-TTTCCTTGC
1 AATGAACAGTGAAGATTTTC-TGC
* *
17940762 AATGAATAGTGAAGATTCTCTGC
1 AATGAACAGTGAAGATTTTCTGC
17940785 AATGAAC
1 AATGAAC
17940792 TTTAAATGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.09
23 38 0.84
24 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (23 bp):
AATGAACAGTGAAGATTTTCTGC
Found at i:17940884 original size:26 final size:26
Alignment explanation
Indices: 17940835--17940885 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
17940825 TTAATATAAG
* *
17940835 TTAAAATATAATAATTTATGAAAATT
1 TTAAAATATAAAAATTAATGAAAATT
*
17940861 TTAAAATATATAAAATTAATAAAAA
1 TTAAAATATA-AAAATTAATGAAAA
17940886 AAATATATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAAATATAAAAATTAATGAAAATT
Found at i:17951188 original size:29 final size:29
Alignment explanation
Indices: 17951137--17951194 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
17951127 GAATCATTGT
* *
17951137 CAGTAAAGGGTCGTGCACGTAGGAAGGGG
1 CAGTAAAGGGTCATGCACATAGGAAGGGG
*
17951166 CAGTAAAGGGTCATGTACATAGGAAGGGG
1 CAGTAAAGGGTCATGCACATAGGAAGGGG
17951195 GTACCTTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.41, T:0.16
Consensus pattern (29 bp):
CAGTAAAGGGTCATGCACATAGGAAGGGG
Found at i:17952377 original size:20 final size:20
Alignment explanation
Indices: 17952352--17952392 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17952342 AAGGTTCAAA
17952352 TGTGATTGTTTGATTAGTAG
1 TGTGATTGTTTGATTAGTAG
17952372 TGTGATTGTTTGATTAGTAG
1 TGTGATTGTTTGATTAGTAG
17952392 T
1 T
17952393 CTGAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (20 bp):
TGTGATTGTTTGATTAGTAG
Found at i:17957129 original size:24 final size:24
Alignment explanation
Indices: 17957102--17957148 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17957092 TTTTTTTTTG
17957102 TTTTAAATAATTATTATT-ATATTA
1 TTTTAAATAATTA-TATTAATATTA
* *
17957126 TTTTTAATATTTATATTAATATT
1 TTTTAAATAATTATATTAATATT
17957149 TAGGTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTAAATAATTATATTAATATTA
Found at i:17959754 original size:40 final size:40
Alignment explanation
Indices: 17959710--17959848 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
17959700 AACACACCAG
* * *
17959710 TTTGACTCCCAGTACCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * * * *
17959750 TTTGATACCCAGTGTCTAATCAGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* *
17959788 -TTGGCACCCAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAATAA
* *
17959828 ATTGACACCCAGTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
17959849 AACTAGAAGT
Statistics
Matches: 76, Mismatches: 19, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
37 18 0.24
38 10 0.13
39 2 0.03
40 28 0.37
41 18 0.24
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:17966847 original size:40 final size:40
Alignment explanation
Indices: 17966785--17966926 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
17966775 CAAACACACC
* * *
17966785 AATTTGTCACCCAACG-CATCATCGGATAATTCGAAGTAAT
1 AATTTGACACCCAATGTC-TCATCGGATAATCCGAAGTAAT
* * *
17966825 AATTTGACACCCAATGTCTCATCGGCTAAACCAAAGT-A-
1 AATTTGACACCCAATGTCTCATCGGATAATCCGAAGTAAT
* * *
17966863 AA-TTGACATCCAATGCCTCATCGAATATATCCGAAGTAAT
1 AATTTGACACCCAATGTCTCATCGGATA-ATCCGAAGTAAT
* *
17966903 AAATTGACACCCAGTGTCTCATCG
1 AATTTGACACCCAATGTCTCATCG
17966927 ACTTGATGTC
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
37 21 0.26
38 9 0.11
39 2 0.02
40 31 0.38
41 19 0.23
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (40 bp):
AATTTGACACCCAATGTCTCATCGGATAATCCGAAGTAAT
Found at i:17966924 original size:41 final size:40
Alignment explanation
Indices: 17966803--17966927 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 40
17966793 ACCCAACGCA
* * *
17966803 TCATCGGATAATTCGAAGTAATAATTTGACACCCAATGTC
1 TCATCGAATAATCCGAAGTAATAAATTGACACCCAATGTC
** * * * *
17966843 TCATCGGCTAAACC-AA--AGTAAATTGACATCCAATGCC
1 TCATCGAATAATCCGAAGTAATAAATTGACACCCAATGTC
*
17966880 TCATCGAATATATCCGAAGTAATAAATTGACACCCAGTGTC
1 TCATCGAATA-ATCCGAAGTAATAAATTGACACCCAATGTC
17966921 TCATCGA
1 TCATCGA
17966928 CTTGATGTCG
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
37 25 0.37
38 3 0.04
39 4 0.06
40 11 0.16
41 24 0.36
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (40 bp):
TCATCGAATAATCCGAAGTAATAAATTGACACCCAATGTC
Found at i:17967815 original size:25 final size:26
Alignment explanation
Indices: 17967778--17967834 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
17967768 GAAACCCTAA
*
17967778 CTTTTCCTCCTTTATTTCTCT-TTTT
1 CTTTTCCTCCTTTACTTCTCTATTTT
* * *
17967803 CTTTTCTTTCTTTCCTTCTCTATTTT
1 CTTTTCCTCCTTTACTTCTCTATTTT
*
17967829 CGTTTC
1 CTTTTC
17967835 AATTTGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.67
Consensus pattern (26 bp):
CTTTTCCTCCTTTACTTCTCTATTTT
Found at i:17974898 original size:17 final size:17
Alignment explanation
Indices: 17974872--17974906 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17974862 AGAAATCAAC
*
17974872 CAACCGCTTCATGTTAT
1 CAACCACTTCATGTTAT
17974889 CAACCACTTCATGTTAT
1 CAACCACTTCATGTTAT
17974906 C
1 C
17974907 GTATTTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (17 bp):
CAACCACTTCATGTTAT
Found at i:17976064 original size:16 final size:17
Alignment explanation
Indices: 17976028--17976071 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
17976018 ATTAGGAATT
*
17976028 AAATAACTAAAATAAAA
1 AAATAACTAAAAGAAAA
*
17976045 AAATAA-TAAAAGAAAC
1 AAATAACTAAAAGAAAA
*
17976061 AAATGACTAAA
1 AAATAACTAAA
17976072 CCAATTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAACTAAAAGAAAA
Found at i:17977982 original size:20 final size:19
Alignment explanation
Indices: 17977957--17978002 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
17977947 TTCATTAAGC
* *
17977957 TAATTATTTTTGTTTCATCT
1 TAATTAATTTTATTTCA-CT
17977977 TAATTAAATTTTATTTCACT
1 TAATT-AATTTTATTTCACT
17977997 TAATTA
1 TAATTA
17978003 GTCCACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATTAATTTTATTTCACT
Found at i:17977993 original size:21 final size:20
Alignment explanation
Indices: 17977964--17978002 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17977954 AGCTAATTAT
*
17977964 TTTTGTTTCATCTTAATTAAA
1 TTTTATTTCA-CTTAATTAAA
17977985 TTTTATTTCACTTAATTA
1 TTTTATTTCACTTAATTA
17978003 GTCCACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATTTCACTTAATTAAA
Found at i:17978972 original size:40 final size:38
Alignment explanation
Indices: 17978901--17978984 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 38
17978891 TTATAAAAAA
*
17978901 TTATATTTTTTTGAGTTTTAAATATACTTTTTAAAATT
1 TTATATTTTTTTGAATTTTAAATATACTTTTTAAAATT
* *
17978939 TTATATTTTTTT-AATTCTTAAAATAATATTTTTTTAAATT
1 TTATATTTTTTTGAATT-TT-AAAT-ATACTTTTTAAAATT
17978979 TTATAT
1 TTATAT
17978985 AATAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
37 3 0.08
38 14 0.35
39 4 0.10
40 19 0.47
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (38 bp):
TTATATTTTTTTGAATTTTAAATATACTTTTTAAAATT
Found at i:17979398 original size:14 final size:13
Alignment explanation
Indices: 17979355--17979410 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
17979345 GATAATGTGA
17979355 TAAT-TTTATAAT
1 TAATATTTATAAT
*
17979367 TAATA-TAATAA-
1 TAATATTTATAAT
17979378 TAA-ATTTATAACT
1 TAATATTTATAA-T
17979391 TAATATTTATACAT
1 TAATATTTATA-AT
17979405 T-ATATT
1 TAATATT
17979411 AATTTTGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
10 1 0.03
11 8 0.22
12 9 0.25
13 8 0.22
14 9 0.25
15 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATTTATAAT
Found at i:17980172 original size:24 final size:24
Alignment explanation
Indices: 17980140--17980189 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
17980130 GCTAAAAGTA
17980140 AAATATTAACTTGAAATATGAGAT
1 AAATATTAACTTGAAATATGAGAT
*
17980164 AAATCTTAACTTGAAATATGAGAT
1 AAATATTAACTTGAAATATGAGAT
17980188 AA
1 AA
17980190 GAAATAATGG
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:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (24 bp):
AAATATTAACTTGAAATATGAGAT
Found at i:17981826 original size:18 final size:18
Alignment explanation
Indices: 17981803--17981854 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
17981793 TTTATCTAAA
17981803 TGGGCCCACACGCCTATG
1 TGGGCCCACACGCCTATG
*
17981821 TGGGCCCACACGCCCATG
1 TGGGCCCACACGCCTATG
17981839 TGGGCCCACACGCCTA
1 TGGGCCCACACGCCTA
17981855 GATTAGCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.42, G:0.27, T:0.13
Consensus pattern (18 bp):
TGGGCCCACACGCCTATG
Found at i:17987468 original size:47 final size:47
Alignment explanation
Indices: 17987360--17987468 Score: 107
Period size: 47 Copynumber: 2.3 Consensus size: 47
17987350 CCGGGATAAG
** ** *
17987360 CACATAGTGT-TCATTGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGTCTCATCAGAACAAATCCAGAACTTTAACAGTATAGTA
* * *
17987406 CACAAAGT-ACTTCATCAGAACAAATCCAGAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCAGAACAAATCCAGAACTTTAACAGTA-TAGTA
17987453 CACATAGTGTCTCATC
1 CACATAGTGTCTCATC
17987469 GACTCAATGT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
46 7 0.14
47 39 0.80
48 3 0.06
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (47 bp):
CACATAGTGTCTCATCAGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:17988242 original size:4 final size:4
Alignment explanation
Indices: 17988233--17988321 Score: 72
Period size: 4 Copynumber: 21.8 Consensus size: 4
17988223 CCCTTTTCTA
** * * * ***
17988233 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
17988283 TTT- TTATC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
17988322 TAACTTACTC
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
3 2 0.03
4 59 0.88
5 5 0.07
6 1 0.01
ACGTcount: A:0.06, C:0.25, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTC
Found at i:17995471 original size:20 final size:20
Alignment explanation
Indices: 17995443--17995487 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17995433 ATCCTCAAAT
* *
17995443 TTTCCTTTTCTATTTCTTTC
1 TTTCTTTTTCTATTTATTTC
* *
17995463 TTTCTTTTTTTCTTTATTTC
1 TTTCTTTTTCTATTTATTTC
17995483 TTTCT
1 TTTCT
17995488 CACGTTTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTTTTCTATTTATTTC
Found at i:17995474 original size:16 final size:16
Alignment explanation
Indices: 17995455--17995485 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17995445 TCCTTTTCTA
*
17995455 TTTCTTTCTTTCTTTT
1 TTTCTTTATTTCTTTT
17995471 TTTCTTTATTTCTTT
1 TTTCTTTATTTCTTT
17995486 CTCACGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTATTTCTTTT
Found at i:17995524 original size:4 final size:4
Alignment explanation
Indices: 17995507--17995539 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
17995497 TCTTTGTAAC
*
17995507 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
17995540 TAACTTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:18000050 original size:21 final size:22
Alignment explanation
Indices: 18000008--18000050 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
17999998 TTAAAACAAA
* * *
18000008 ATATGATTTTTTAATTATTTTT
1 ATATGATTTTCTAATAACTTTT
18000030 ATAT-ATTTTCTAATAACTTTT
1 ATATGATTTTCTAATAACTTTT
18000051 TGTCTAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATGATTTTCTAATAACTTTT
Found at i:18003686 original size:96 final size:96
Alignment explanation
Indices: 18003516--18003709 Score: 286
Period size: 96 Copynumber: 2.0 Consensus size: 96
18003506 GTGTCCGAGA
* *
18003516 AAGTCTGTCATCCATGGGAAAGATGGAGCAGATACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAATGGGAAAGATGGAGCAGACACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
18003581 AAAAACCGAAGCCAAGAGGGC-AAGGAGGAGC
66 AAAAACCGAAGCCAAGAGGGCTAA-GAGGAGC
* *
18003612 AAGTCTGTCATCGAAT-GGAACGATGGAGCAGACA-AGAAGCCCAAGAAGCTTGGTTCGAGCAAG
1 AAGTCTGTCATC-AATGGGAAAGATGGAGCAGACACAG-AGCCCAAAAAGCTTGGTTCGAGCAAG
* *
18003675 GGTAAAGCCGAAGCCAAGAGGGCTAAGAGGAGC
64 GGAAAAACCGAAGCCAAGAGGGCTAAGAGGAGC
18003708 AA
1 AA
18003710 AAAGACGCGA
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.02
96 83 0.93
97 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.32, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCAATGGGAAAGATGGAGCAGACACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
AAAAACCGAAGCCAAGAGGGCTAAGAGGAGC
Found at i:18007993 original size:37 final size:37
Alignment explanation
Indices: 18007924--18008015 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
18007914 GATTCTTTTT
* *
18007924 CTTTTTCTTTTTCTCTTTTTGGATACTATCTCTATGAA
1 CTTTTTCTTTTTCTTTTTTTGGATA-TATCTCTATCAA
*
18007962 CTTTTTCTTTTTCTTTTTTTGGGAT-TTTCTCTATCAA
1 CTTTTTCTTTTTCTTTTTTT-GGATATATCTCTATCAA
***
18007999 AGATTTCTTTTTCTTTT
1 CTTTTTCTTTTTCTTTT
18008016 GATTAATCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 24 0.51
38 19 0.40
39 4 0.09
ACGTcount: A:0.13, C:0.16, G:0.08, T:0.63
Consensus pattern (37 bp):
CTTTTTCTTTTTCTTTTTTTGGATATATCTCTATCAA
Found at i:18010868 original size:18 final size:18
Alignment explanation
Indices: 18010839--18010891 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
18010829 TGGTGTCAGC
*
18010839 TCATTTTCATCTCTACCG
1 TCATCTTCATCTCTACCG
* *
18010857 TCATCTTTATCT-TCACCT
1 TCATCTTCATCTCT-ACCG
18010875 TCATCTTCATCTCTACC
1 TCATCTTCATCTCTACC
18010892 CTCGGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.17, C:0.36, G:0.02, T:0.45
Consensus pattern (18 bp):
TCATCTTCATCTCTACCG
Found at i:18012252 original size:30 final size:30
Alignment explanation
Indices: 18012218--18012280 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
18012208 ACTTAACAAG
18012218 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
* *
18012248 CAAATGCCTTTAAAATGATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
18012278 CAA
1 CAA
18012281 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:18016821 original size:21 final size:21
Alignment explanation
Indices: 18016797--18016858 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
18016787 TTACTCCATG
*
18016797 TTGTGGATAAACCACTCATCA
1 TTGTGGATGAACCACTCATCA
* * **
18016818 TTGTGGATGAACTACTTATTG
1 TTGTGGATGAACCACTCATCA
*
18016839 TTGTAGATGAACCACTCATC
1 TTGTGGATGAACCACTCATC
18016859 GATGTAGATA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (21 bp):
TTGTGGATGAACCACTCATCA
Found at i:18016864 original size:21 final size:21
Alignment explanation
Indices: 18016806--18016867 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
18016796 GTTGTGGATA
*
18016806 AACCACTCATC-ATTGTGGATG
1 AACCACTCATCGA-TGTAGATG
* * * *
18016827 AACTACTTATTGTTGTAGATG
1 AACCACTCATCGATGTAGATG
18016848 AACCACTCATCGATGTAGAT
1 AACCACTCATCGATGTAGAT
18016868 AAATTGCCAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (21 bp):
AACCACTCATCGATGTAGATG
Found at i:18016924 original size:42 final size:42
Alignment explanation
Indices: 18016861--18016954 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
18016851 CACTCATCGA
* * *
18016861 TGTAGAT-AAATTGCCATTGGGTTGTAGATGCACAACATATT
1 TGTAGATAAAATTACCACTGGGTTGTAGATGAACAACATATT
* *
18016902 TGTAGATAAAATTACCACTGGGTTGTGGGTGAACAACATATT
1 TGTAGATAAAATTACCACTGGGTTGTAGATGAACAACATATT
18016944 TGTAGATAAAA
1 TGTAGATAAAA
18016955 CTGTCAGTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 7 0.15
42 40 0.85
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (42 bp):
TGTAGATAAAATTACCACTGGGTTGTAGATGAACAACATATT
Found at i:18016969 original size:42 final size:42
Alignment explanation
Indices: 18016892--18016995 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
18016882 TTGTAGATGC
* ** **
18016892 ACAACATATTTGTAGATAAAATTACCACTGGGTTGTGGGTGA
1 ACAACATATTTGTAGATAAAACTACCACTAAGTTGTGCATGA
** * *
18016934 ACAACATATTTGTAGATAAAACTGTCAGTAAGTTGTGCATGC
1 ACAACATATTTGTAGATAAAACTACCACTAAGTTGTGCATGA
* *
18016976 ATAATATATTTGTAGATAAA
1 ACAACATATTTGTAGATAAA
18016996 TTGTCACTGG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (42 bp):
ACAACATATTTGTAGATAAAACTACCACTAAGTTGTGCATGA
Found at i:18022922 original size:21 final size:21
Alignment explanation
Indices: 18022880--18022926 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18022870 ACAGTAGGGG
* *
18022880 TAAAGCACTCATCGATGTAGA
1 TAAACCACTCATCGATGCAGA
18022901 TAAACCACTCATCTG-TGCAGA
1 TAAACCACTCATC-GATGCAGA
18022922 TAAAC
1 TAAAC
18022927 TGCTCTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (21 bp):
TAAACCACTCATCGATGCAGA
Found at i:18023914 original size:18 final size:18
Alignment explanation
Indices: 18023872--18023905 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18023862 AGAATGAGAG
18023872 AAAAGA-AAAGAAAAGAT
1 AAAAGAGAAAGAAAAGAT
18023889 AAAAGAGAAAGAAAAGA
1 AAAAGAGAAAGAAAAGA
18023906 AATAGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAGAGAAAGAAAAGAT
Found at i:18024487 original size:15 final size:14
Alignment explanation
Indices: 18024456--18024483 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18024446 ACACTAAATA
18024456 AAAAATTATAAGAT
1 AAAAATTATAAGAT
18024470 AAAAATTATAAGAT
1 AAAAATTATAAGAT
18024484 TAAACCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAAATTATAAGAT
Found at i:18030516 original size:10 final size:10
Alignment explanation
Indices: 18030501--18030532 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
18030491 TAAATACATT
18030501 TAATTAAAGA
1 TAATTAAAGA
18030511 TAATTAAAGA
1 TAATTAAAGA
18030521 TAATTAAA-A
1 TAATTAAAGA
18030530 TAA
1 TAA
18030533 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:18030544 original size:19 final size:18
Alignment explanation
Indices: 18030520--18030563 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
18030510 ATAATTAAAG
18030520 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
18030540 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
18030557 ATAATTA
1 ATAATTA
18030564 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:18038672 original size:10 final size:10
Alignment explanation
Indices: 18038657--18038688 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
18038647 TAAATACATT
18038657 TAATTAAAGA
1 TAATTAAAGA
18038667 TAATTAAAGA
1 TAATTAAAGA
18038677 TAATTAAA-A
1 TAATTAAAGA
18038686 TAA
1 TAA
18038689 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:18049050 original size:59 final size:59
Alignment explanation
Indices: 18048975--18049107 Score: 230
Period size: 59 Copynumber: 2.2 Consensus size: 59
18048965 AAATTTTTAG
*
18048975 GCGAGATTTCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
1 GCGA-ATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
*
18049035 GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCTTTTTTTAGACGATATCTGTA
1 GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
18049094 GCGAATTCCTCTCA
1 GCGAATTCC-CTCA
18049108 ACTATATCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
59 62 0.89
60 8 0.11
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (59 bp):
GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
Found at i:18051345 original size:22 final size:22
Alignment explanation
Indices: 18051320--18051363 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18051310 CATCTCCTTC
18051320 CATAGGTACTATTACTTTCCCT
1 CATAGGTACTATTACTTTCCCT
18051342 CATAGGTACTATTACTTTCCCT
1 CATAGGTACTATTACTTTCCCT
18051364 TCAATCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (22 bp):
CATAGGTACTATTACTTTCCCT
Found at i:18055138 original size:16 final size:17
Alignment explanation
Indices: 18055119--18055151 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18055109 TTTTATCATC
18055119 TCTTC-GTTTTCTTTTT
1 TCTTCTGTTTTCTTTTT
18055135 TCTTCTGTTTTCTTTTT
1 TCTTCTGTTTTCTTTTT
18055152 CTTTATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (17 bp):
TCTTCTGTTTTCTTTTT
Found at i:18055353 original size:59 final size:59
Alignment explanation
Indices: 18055286--18055397 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
18055276 ATTGTTTATA
* * * *
18055286 AATTTTAAAATATTATTTATTTAAATTAGGTCTTAT-ACTAACTATCATATTTTAAAAAC
1 AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAAC-AACTATCATATTTTAAAAAC
* *
18055345 AATTTTAAAATATTGTTCATTTAAAATAAGTCTCATAACAATTATCATATTTT
1 AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAACAACTATCATATTTT
18055398 TAAATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.46
Consensus pattern (59 bp):
AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAACAACTATCATATTTTAAAAAC
Found at i:18065466 original size:23 final size:25
Alignment explanation
Indices: 18065440--18065486 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18065430 TATCATTCAT
*
18065440 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
18065463 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
18065487 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:18065814 original size:46 final size:46
Alignment explanation
Indices: 18065747--18065966 Score: 287
Period size: 46 Copynumber: 5.0 Consensus size: 46
18065737 TTTGACGTGA
* * * * * *
18065747 TGCCATAGTGTCTTTCAACCATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *
18065793 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
18065839 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18065885 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18065923 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18065967 AGAGCACACT
Statistics
Matches: 153, Mismatches: 12, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
38 33 0.22
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 107 0.70
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18065931 original size:38 final size:38
Alignment explanation
Indices: 18065880--18065955 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
18065870 CATTTCATAT
18065880 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18065918 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18065956 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:18072378 original size:5 final size:5
Alignment explanation
Indices: 18072358--18072390 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
18072348 TTGTGTGTTC
18072358 TTTAT TTT-T ATTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT
18072391 TCACAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:18077565 original size:51 final size:49
Alignment explanation
Indices: 18077440--18077634 Score: 241
Period size: 49 Copynumber: 3.9 Consensus size: 49
18077430 TAGCCAAAGC
* *
18077440 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
** *
18077489 TATCCA-GTACATGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TAT-CAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * *
18077540 TATCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
18077589 TATTC-GGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACC
1 TA-TCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
18077635 TCACAATAGA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 76 0.61
50 11 0.09
51 37 0.30
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:18077580 original size:100 final size:100
Alignment explanation
Indices: 18077440--18077625 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
18077430 TAGCCAAAGC
* * *
18077440 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCAGTACATGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
18077505 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* * *
18077540 TATCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
18077605 TAGCCTGCACTTAGTACTACA
66 TAGCCTGCACTTAGTACTACA
18077626 TACGTGACCT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:18080152 original size:16 final size:16
Alignment explanation
Indices: 18080133--18080163 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18080123 TTGTAAAGGA
18080133 ATTTTAAACTATTATT
1 ATTTTAAACTATTATT
18080149 ATTTTAAACTATTAT
1 ATTTTAAACTATTAT
18080164 CATACCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAAACTATTATT
Found at i:18084430 original size:182 final size:182
Alignment explanation
Indices: 18084118--18084486 Score: 684
Period size: 182 Copynumber: 2.0 Consensus size: 182
18084108 AAATGATAAA
*
18084118 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATTTAGCCT
1 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
*
18084183 TTTCATGCCTTTCTTATTCCATGCATTTCCATTTACCAAATACTATCCATACAACTAGCCATCAA
66 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
*
18084248 TCAAGCAATTTACCAACTTGTAACTATGACAAAATCAAATTCATTTATTCAT
131 TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
* *
18084300 ATATGGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCGTGCATCTAGCCT
1 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
18084365 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
66 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
*
18084430 TCAAGCAATTTGCCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
131 TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
18084482 ATATA
1 ATATA
18084487 CCATATTAAT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 180 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (182 bp):
ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
Found at i:18085087 original size:22 final size:22
Alignment explanation
Indices: 18085048--18085101 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
18085038 AGAGCACCGT
*
18085048 AGTGCTAAACAAATGGAAAT-AA
1 AGTGCTAAACAAA-GGGAATCAA
* *
18085070 AGTGCTAAACAGAGGGAATCGA
1 AGTGCTAAACAAAGGGAATCAA
18085092 AGTGCTAAAC
1 AGTGCTAAAC
18085102 CTATACAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (22 bp):
AGTGCTAAACAAAGGGAATCAA
Found at i:18091337 original size:17 final size:17
Alignment explanation
Indices: 18091315--18091353 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
18091305 ACTGTTGCAA
18091315 AAAAGAGAAAAAAAAAG
1 AAAAGAGAAAAAAAAAG
18091332 AAAAGAGAAAAAAAAAG
1 AAAAGAGAAAAAAAAAG
18091349 AAAAG
1 AAAAG
18091354 GCTTATAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAGAAAAAAAAAG
Found at i:18097414 original size:33 final size:35
Alignment explanation
Indices: 18097376--18097472 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 35
18097366 ATAGTTATAT
18097376 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
18097409 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
18097444 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
18097473 AAAATATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
32 7 0.13
33 25 0.48
34 5 0.10
35 12 0.23
36 3 0.06
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:18100426 original size:48 final size:48
Alignment explanation
Indices: 18100374--18100469 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
18100364 TTAATAATCT
* *
18100374 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGGGATAAACATCAA
1 ATCTCATCTAATAATCAATTTAAGGATCTTAATGGAGATAAACATCAA
*
18100422 ATCTCATCTAATAATCAATTTAAGGATCTTAATGGATATAAACATCAA
1 ATCTCATCTAATAATCAATTTAAGGATCTTAATGGAGATAAACATCAA
18100470 GGTATAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (48 bp):
ATCTCATCTAATAATCAATTTAAGGATCTTAATGGAGATAAACATCAA
Found at i:18104953 original size:3 final size:3
Alignment explanation
Indices: 18104947--18104985 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
18104937 CATCATCATC
18104947 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18104986 TACAAACTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18109785 original size:79 final size:79
Alignment explanation
Indices: 18109689--18109877 Score: 288
Period size: 79 Copynumber: 2.4 Consensus size: 79
18109679 TTAACATATG
* * * *
18109689 CAAATATCGTATGTTCTTCATCAATAGAGTAACGTAAAGGGTTATAAATCAGAACCGGTAACAAT
1 CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
18109754 CAATCCAACATTTT
66 CAATCCAACATTTT
* * * *
18109768 CAGATATCGTATATTCTTCATCAATAGAATAATATAAAGGGTTATAAATTAGAATCAGTAACAAT
1 CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
18109833 CAATCCAACATTTT
66 CAATCCAACATTTT
* *
18109847 CAAATATCGCATATTCTTCATCAACAGAATA
1 CAAATATCGTATATTCTTCATCAATAGAATA
18109878 GCGCAGAGGC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 99 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (79 bp):
CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
CAATCCAACATTTT
Found at i:18112938 original size:11 final size:11
Alignment explanation
Indices: 18112924--18112999 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 11
18112914 GATAATCATT
18112924 TTAATATTAAA
1 TTAATATTAAA
*
18112935 TTAATAAAATAATA
1 TTAAT--ATTAA-A
*
18112949 TTAATATAAAA
1 TTAATATTAAA
18112960 TTAA-ATTAAA
1 TTAATATTAAA
18112970 TTTAATATTAAA
1 -TTAATATTAAA
*
18112982 -T-CTATTAAA
1 TTAATATTAAA
*
18112991 ATAATATTA
1 TTAATATTA
18113000 TTTTTAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
9 7 0.13
10 7 0.13
11 19 0.37
12 9 0.17
13 4 0.08
14 6 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:18112939 original size:20 final size:20
Alignment explanation
Indices: 18112888--18112939 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
18112878 TTCAACTATA
*
18112888 ATTAAACTTAATTACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
* *
18112909 ATTATGA-TAATCATTTTAAT
1 ATTA-AATTAATCACTTTAAT
18112929 ATTAAATTAAT
1 ATTAAATTAAT
18112940 AAAATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:18117785 original size:25 final size:25
Alignment explanation
Indices: 18117750--18117800 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
18117740 GATGATGGTG
18117750 TAAGTTCTGTATTGAATATTCAAGA
1 TAAGTTCTGTATTGAATATTCAAGA
*
18117775 TAAGTTTTGTATTGAATATTCAAGA
1 TAAGTTCTGTATTGAATATTCAAGA
18117800 T
1 T
18117801 GAATTATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (25 bp):
TAAGTTCTGTATTGAATATTCAAGA
Found at i:18127392 original size:18 final size:18
Alignment explanation
Indices: 18127369--18127443 Score: 114
Period size: 18 Copynumber: 4.2 Consensus size: 18
18127359 CCCAACTACT
*
18127369 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
18127387 GTATACGTGGATAGTGCC
1 GTATACGTGAATAGTACC
18127405 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
18127423 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
18127441 GTA
1 GTA
18127444 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:18131517 original size:100 final size:105
Alignment explanation
Indices: 18131396--18131635 Score: 287
Period size: 108 Copynumber: 2.3 Consensus size: 105
18131386 TAAAAAAAAA
*
18131396 CTAAAACCGAAAACCCATCTTTACTCCATGGATATC-A-GTTTC-AT-TTAATT-TATTTTTTTT
1 CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAATGTTTCTATGTTAATTCTATTTTTTTT
***
18131456 AATTTCTCGAGCTTTTATGGTTCAAAAATGGC-AGACAAAG
66 AATTTCTCGAGCTTTTACAATTCAAAAATGGCGA-ACAAAG
* * * * ** *
18131496 CTAAAACTGAAAACCTATCTTTACTCCATGGGTATCAATTTCTTTTCTTTGTTTTTTCTTTTTTT
1 CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAA--T-GTTTCTATGTTAATTCTATTTTT
18131561 TTTAATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
63 TTTAATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
18131604 CTAAAA-TCGAAAACCCATCTTTACTCCATGGA
1 CTAAAACT-GAAAACCCATCTTTACTCCATGGA
18131636 AAATACAAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
100 33 0.28
101 1 0.01
105 4 0.03
106 1 0.01
107 5 0.04
108 72 0.62
109 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (105 bp):
CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAATGTTTCTATGTTAATTCTATTTTTTTT
AATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
Found at i:18131569 original size:16 final size:18
Alignment explanation
Indices: 18131532--18131570 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
18131522 CATGGGTATC
18131532 AATTTCTTTTCTTTGTTT
1 AATTTCTTTTCTTTGTTT
18131550 --TTTCTTTT-TTT-TTT
1 AATTTCTTTTCTTTGTTT
18131564 AATTTCT
1 AATTTCT
18131571 CGAGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.16
15 3 0.16
16 13 0.68
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (18 bp):
AATTTCTTTTCTTTGTTT
Found at i:18132324 original size:20 final size:20
Alignment explanation
Indices: 18132299--18132376 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
18132289 GAAAAAAAAG
18132299 GGAAGAGAAAGAGGAGTTGA
1 GGAAGAGAAAGAGGAGTTGA
*
18132319 GGAAGAGAGGAAGGGAGGAAGTTATA
1 GGAAGAGA--AA--GAGG-AGTT-GA
**
18132345 CGGAAGATTAAGAGGAGTTGA
1 -GGAAGAGAAAGAGGAGTTGA
*
18132366 GGAAGGGAAAG
1 GGAAGAGAAAG
18132377 GAAGAATGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
20 16 0.36
21 1 0.02
22 6 0.14
23 4 0.09
24 4 0.09
25 6 0.14
26 1 0.02
27 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.45, T:0.12
Consensus pattern (20 bp):
GGAAGAGAAAGAGGAGTTGA
Found at i:18132844 original size:31 final size:27
Alignment explanation
Indices: 18132806--18132882 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 27
18132796 GGCCCGTCAA
18132806 TAATATTTTTTTTTAAATTAATATATATT
1 TAATATTTTTTTTTAAATTAA-ATA-ATT
*
18132835 T-ATATTATTTTAATTTAATATTTAATAATT
1 TAATATT-TTTT--TTTAA-ATTAAATAATT
18132865 TAATATTTTTTTATTAAA
1 TAATATTTTTTT-TTAAA
18132883 ACTTTATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
28 7 0.17
29 9 0.22
30 8 0.20
31 13 0.32
32 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATATTTTTTTTTAAATTAAATAATT
Found at i:18132872 original size:22 final size:22
Alignment explanation
Indices: 18132830--18132872 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18132820 AAATTAATAT
* *
18132830 ATATTTATATTATTTTAATTTA
1 ATATTTATATAATTTAAATTTA
18132852 ATATTTA-ATAATTTAATATTT
1 ATATTTATATAATTTAA-ATTT
18132873 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATATAATTTAAATTTA
Found at i:18132877 original size:26 final size:29
Alignment explanation
Indices: 18132808--18132877 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
18132798 CCCGTCAATA
18132808 ATATT-TTTTTTTAAATTAATATATATTT
1 ATATTATTTTTTTAAATTAATATATATTT
*
18132836 ATATTATTTTAATTTAATATTTA-ATA-ATTT
1 ATATTATTTT--TTTAA-ATTAATATATATTT
18132866 A-A-TATTTTTTTA
1 ATATTATTTTTTTA
18132878 TTAAAACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 4 0.11
28 11 0.30
29 5 0.14
30 5 0.14
31 8 0.22
32 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
ATATTATTTTTTTAAATTAATATATATTT
Found at i:18134253 original size:40 final size:40
Alignment explanation
Indices: 18134178--18134274 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
18134168 AACACACAAG
**
18134178 TTTGACACCCAGTGCCTCATTGCATAATTCAAAGTAATTA
1 TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
* * *
18134218 TTTGACACCTAGTGTCTCATTGGC-TAAACCGAAGTAA--A
1 TTTGACACCCAGTGCCTCATT-GCATAAACCAAAGTAATTA
*
18134256 -TTGGCACCCAGTGCCTCAT
1 TTTGACACCCAGTGCCTCAT
18134275 CGAATTAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 16 0.33
38 1 0.02
40 29 0.60
41 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
Found at i:18135070 original size:28 final size:28
Alignment explanation
Indices: 18135038--18135093 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
18135028 TTATTCAACA
*
18135038 TAGACAACACTTGAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
*
18135066 TAGACAACACTTAAAAACTCAGTAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
18135094 CTAAAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
TAGACAACACTTAAAAACTCAATAATTT
Found at i:18135326 original size:8 final size:8
Alignment explanation
Indices: 18135305--18135401 Score: 64
Period size: 8 Copynumber: 12.4 Consensus size: 8
18135295 TATATTTTCT
18135305 TATTATAA
1 TATTATAA
18135313 TA-TATAA
1 TATTATAA
18135320 TATTATAA
1 TATTATAA
18135328 TATTAT-A
1 TATTATAA
*
18135335 TCTTAATTATA
1 TATT-A-TA-A
18135346 TATGATATAA
1 TAT--TATAA
18135356 TA-TAT-A
1 TATTATAA
*
18135362 TACT-TAA
1 TATTATAA
*
18135369 TAAT-TAA
1 TATTATAA
*
18135376 GA-TATAA
1 TATTATAA
18135383 TATTATAA
1 TATTATAA
18135391 TATTATAA
1 TATTATAA
18135399 TAT
1 TAT
18135402 ATTTATTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
6 5 0.07
7 27 0.37
8 30 0.41
9 1 0.01
10 3 0.04
11 5 0.07
12 1 0.01
13 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (8 bp):
TATTATAA
Found at i:18135361 original size:27 final size:27
Alignment explanation
Indices: 18135323--18135389 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
18135313 TATATAATAT
* *
18135323 TATAATAT-TATATCTTAATTATATATGA
1 TATAATATATATA-CTTAATAAT-TAAGA
18135351 TATAATATATATACTTAATAATTAAGA
1 TATAATATATATACTTAATAATTAAGA
18135378 TATAATAT-TATA
1 TATAATATATATA
18135390 ATATTATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 4 0.11
27 12 0.33
28 16 0.44
29 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
TATAATATATATACTTAATAATTAAGA
Found at i:18135402 original size:13 final size:13
Alignment explanation
Indices: 18135314--18135393 Score: 55
Period size: 13 Copynumber: 6.3 Consensus size: 13
18135304 TTATTATAAT
18135314 ATATAATATTATA
1 ATATAATATTATA
*
18135327 ATATTATATCT-TA
1 ATATAATAT-TATA
*
18135340 AT-T-ATA-TATG
1 ATATAATATTATA
18135350 ATATAATATATATA
1 ATATAATAT-TATA
*
18135364 CT-TAATAATTA-A
1 ATATAAT-ATTATA
18135376 GATATAATATTATA
1 -ATATAATATTATA
18135390 ATAT
1 ATAT
18135394 TATAATATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
9 1 0.02
10 3 0.06
11 4 0.08
12 5 0.10
13 27 0.52
14 12 0.23
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
ATATAATATTATA
Found at i:18137792 original size:50 final size:49
Alignment explanation
Indices: 18137692--18137870 Score: 196
Period size: 50 Copynumber: 3.6 Consensus size: 49
18137682 ATATGATGAA
* * * * * *
18137692 TAAGAGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACGTGTGTAGTAC
** **
18137743 TAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTAC
* * *
18137793 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
* *
18137842 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTACGTGTACCAGATA
18137871 GCTTGGCTAC
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 41 0.38
50 44 0.41
51 22 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
Found at i:18141090 original size:172 final size:172
Alignment explanation
Indices: 18140798--18141139 Score: 614
Period size: 172 Copynumber: 2.0 Consensus size: 172
18140788 ATAACCCCGT
* * *
18140798 TTTCAAAATCTATTCCATATGACATCACTAGATTTGACCATAACGTTTAGGCCGAGTTTGGAGTG
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
18140863 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
66 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
18140928 TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
131 TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
* *
18140970 TTTCAAAATCTATTCCATATGACATCGCTAAATTTGACCATAACATCTAGGCTGAGTTTAGG-GT
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTT-GGAGT
*
18141034 GTTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTTTGGGTTTCAAAATAT
65 GTTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATAT
18141099 GTTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTG
130 GTTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTG
18141140 ATTAAGAAGG
Statistics
Matches: 163, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
172 161 0.99
173 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (172 bp):
TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
Found at i:18143566 original size:2 final size:2
Alignment explanation
Indices: 18143523--18143557 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18143513 GAAAAGAAAA
*
18143523 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18143558 AACAGAGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18144747 original size:38 final size:39
Alignment explanation
Indices: 18144645--18144753 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 39
18144635 GACCTCGAGT
**
18144645 CGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAGC
* * * *
18144686 CGATGACG-TACTGGGT-ACCACTTTACTTCGGCTAG-GC
1 CGATGA-GACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
18144723 CGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
18144754 AACTATCCGA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
36 1 0.02
37 13 0.24
38 23 0.42
39 3 0.05
40 1 0.02
41 13 0.24
42 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:18153390 original size:34 final size:34
Alignment explanation
Indices: 18153337--18153404 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
18153327 GAATAGTTGA
* * *
18153337 ACAGTCTTGGGCCTAAGCCCTTTTCAATATCAGTG
1 ACAGTCTTGGACCTAAGCCCATCTCAATA-CAGTG
*
18153372 ACAGT-TTGGACCTTAGCCCATCTCAATACAGTG
1 ACAGTCTTGGACCTAAGCCCATCTCAATACAGTG
18153405 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGACCTAAGCCCATCTCAATACAGTG
Found at i:18155928 original size:23 final size:23
Alignment explanation
Indices: 18155884--18155932 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18155874 TGAGTTTTTA
*
18155884 AATGTATATATTTAATTGAATTG
1 AATGTATATATTTAATTAAATTG
*
18155907 AATGTATATAATTTGA-TAAATTG
1 AATGTATAT-ATTTAATTAAATTG
18155930 AAT
1 AAT
18155933 TATTGATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
AATGTATATATTTAATTAAATTG
Found at i:18156148 original size:23 final size:23
Alignment explanation
Indices: 18156107--18156176 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
18156097 TAACTTGTGA
**
18156107 GAGCTTACTATTTTCAGCTCAAT
1 GAGCTTACCGTTTTCAGCTCAAT
*
18156130 GGAGCTTACCG-TTTCAGCTCGTAT
1 -GAGCTTACCGTTTTCAGCTC-AAT
*
18156154 GAGCTTACTGTTTATCAGCTCAA
1 GAGCTTACCGTTT-TCAGCTCAA
18156177 GAGAAGCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 18 0.47
24 13 0.34
25 7 0.18
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTTCAGCTCAAT
Found at i:18156376 original size:20 final size:20
Alignment explanation
Indices: 18156353--18156414 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
18156343 GATTAATTAT
*
18156353 TGTTAATACAGATGAATTAC
1 TGTTAATACAGATGAACTAC
* *
18156373 TGTTATTACTGATGAACTAC
1 TGTTAATACAGATGAACTAC
* * *
18156393 TATTTATACGGATGAACTAC
1 TGTTAATACAGATGAACTAC
18156413 TG
1 TG
18156415 GTTATATGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTTAATACAGATGAACTAC
Found at i:18156427 original size:20 final size:20
Alignment explanation
Indices: 18156384--18156445 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
18156374 GTTATTACTG
* *
18156384 ATGAACTACTATTTATACGG
1 ATGAACTACTAGTTATACGA
* *
18156404 ATGAACTACTGGTTATATGA
1 ATGAACTACTAGTTATACGA
*
18156424 ATGAATTAC-AGTTTATACGA
1 ATGAACTACTAG-TTATACGA
18156444 AT
1 AT
18156446 AGAAATGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGAACTACTAGTTATACGA
Found at i:18156428 original size:40 final size:40
Alignment explanation
Indices: 18156358--18156442 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
18156348 ATTATTGTTA
* *
18156358 ATACAGATGAATTACTGTTATTACTGATGAACTACTA-TTT
1 ATACGGATGAACTACTGTTATTACTGATGAACTAC-AGTTT
*
18156398 ATACGGATGAACTACTGGTTA-TA-TGAATGAATTACAGTTT
1 ATACGGATGAACTACT-GTTATTACTG-ATGAACTACAGTTT
18156438 ATACG
1 ATACG
18156443 AATAGAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
39 3 0.08
40 32 0.82
41 4 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (40 bp):
ATACGGATGAACTACTGTTATTACTGATGAACTACAGTTT
Found at i:18159421 original size:40 final size:41
Alignment explanation
Indices: 18159369--18159465 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
18159359 TAAGTTGGTA
* *
18159369 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAACTATATCAAAC
* *
18159409 TCGCACACTTAGTGCCATTTGTAGCCGAAACTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
*
18159450 -CACACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
18159466 AGCATAGTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 44 0.88
41 6 0.12
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
Found at i:18160287 original size:17 final size:19
Alignment explanation
Indices: 18160262--18160303 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
18160252 TATTTACATA
18160262 ATAAACATT-TT-ACCATT
1 ATAAACATTGTTAACCATT
*
18160279 ATAACCATTGTTAAACCATT
1 ATAAACATTGTT-AACCATT
18160299 ATAAA
1 ATAAA
18160304 ATCACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
20 10 0.50
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAACATTGTTAACCATT
Found at i:18164768 original size:25 final size:23
Alignment explanation
Indices: 18164709--18164780 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
18164699 GGTATATCGA
18164709 TTGTGTTTGGAGGGTATACTTAG
1 TTGTGTTTGGAGGGTATACTTAG
* ** * *
18164732 TTGTATGCGGAGGTTATACATTTGG
1 TTGTGTTTGGAGGGTATAC--TTAG
* *
18164757 TTGTGTTTGGAGAGTATATTTAG
1 TTGTGTTTGGAGGGTATACTTAG
18164780 T
1 T
18164781 ATCAAATTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
23 19 0.54
25 16 0.46
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.44
Consensus pattern (23 bp):
TTGTGTTTGGAGGGTATACTTAG
Found at i:18164889 original size:6 final size:7
Alignment explanation
Indices: 18164873--18164897 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18164863 TGTGTCGTCT
18164873 AAAAGGA
1 AAAAGGA
18164880 AAAAGGA
1 AAAAGGA
18164887 AAAAGGA
1 AAAAGGA
18164894 AAAA
1 AAAA
18164898 AAAAGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:18165664 original size:16 final size:16
Alignment explanation
Indices: 18165643--18165688 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
18165633 TAATTTTATA
18165643 AATAAATTTTATTAAT
1 AATAAATTTTATTAAT
* *
18165659 AATAAAATATATT-AT
1 AATAAATTTTATTAAT
*
18165674 TA-AAATTTTATTAAT
1 AATAAATTTTATTAAT
18165689 TCCCCAGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
14 8 0.33
15 5 0.21
16 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTATTAAT
Found at i:18171224 original size:35 final size:35
Alignment explanation
Indices: 18171185--18171286 Score: 85
Period size: 35 Copynumber: 3.1 Consensus size: 35
18171175 CATTACATCC
18171185 ACTTAAAATAAATCACCACCTACTACCACTAACAA
1 ACTTAAAATAAATCACCACCTACTACCACTAACAA
* * ** * * *
18171220 ACTT-AACTAAGT-TTCATC-ATTA-CA-T--C-C
1 ACTTAAAATAAATCACCACCTACTACCACTAACAA
18171247 ACTTAAAATAAATCACCACCTACTACCACTAACAA
1 ACTTAAAATAAATCACCACCTACTACCACTAACAA
18171282 ACTTA
1 ACTTA
18171287 GTTGGAATAC
Statistics
Matches: 45, Mismatches: 14, Indels: 16
0.60 0.19 0.21
Matches are distributed among these distances:
27 4 0.09
28 7 0.16
29 3 0.07
30 4 0.09
31 4 0.09
32 4 0.09
33 3 0.07
34 7 0.16
35 9 0.20
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.25
Consensus pattern (35 bp):
ACTTAAAATAAATCACCACCTACTACCACTAACAA
Found at i:18171259 original size:62 final size:62
Alignment explanation
Indices: 18171162--18171286 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
18171152 GTTGGAATAC
18171162 AACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTT
1 AACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTT
18171224 AACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTT
1 AACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTT
18171286 A
1 A
18171287 GTTGGAATAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (62 bp):
AACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTT
Found at i:18171329 original size:3 final size:3
Alignment explanation
Indices: 18171321--18171364 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18171311 ATTACATCCA
18171321 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18171365 ACATGTGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18175662 original size:73 final size:73
Alignment explanation
Indices: 18175575--18175760 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
18175565 ACAACTTGAC
18175575 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
18175640 CACTAACA
66 CACTAACA
*
18175648 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCATTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
18175713 CACTAACA
66 CACTAACA
*
18175721 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
18175761 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:18175769 original size:3 final size:3
Alignment explanation
Indices: 18175761--18175795 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18175751 ATTACATCCA
18175761 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18175796 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18180836 original size:33 final size:33
Alignment explanation
Indices: 18180794--18180859 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
18180784 TCAACCAAAC
18180794 ACACATTAAGTGAAAAGAAAATAAACTAATAGT
1 ACACATTAAGTGAAAAGAAAATAAACTAATAGT
18180827 ACACATTAAGTGAAAAGAAAATAAACTAATAGT
1 ACACATTAAGTGAAAAGAAAATAAACTAATAGT
18180860 TTGAACTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (33 bp):
ACACATTAAGTGAAAAGAAAATAAACTAATAGT
Found at i:18183783 original size:20 final size:20
Alignment explanation
Indices: 18183736--18183785 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
18183726 ATGCCACATC
*
18183736 AATATTCTTATCCTGCATTTT
1 AATATT-TTATCCTGAATTTT
** *
18183757 AGGATTTTATTCTGAATTTT
1 AATATTTTATCCTGAATTTT
18183777 AATATTTTA
1 AATATTTTA
18183786 ATTTGGATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (20 bp):
AATATTTTATCCTGAATTTT
Found at i:18184330 original size:28 final size:28
Alignment explanation
Indices: 18184298--18184355 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
18184288 TAATCTTAAT
18184298 GTAAACAATCAAGCAAAAAAGGAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGGAGA
*
18184326 GTAAACAATCAAGTAAAAAAGGAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGGAGA
18184354 GT
1 GT
18184356 TCCAAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.09, G:0.26, T:0.10
Consensus pattern (28 bp):
GTAAACAATCAAGCAAAAAAGGAGGAGA
Found at i:18189366 original size:24 final size:23
Alignment explanation
Indices: 18189333--18189377 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18189323 TAAAACTATA
* *
18189333 CTAATGACAATGATAATAATAAGC
1 CTAATAACAATAATAA-AATAAGC
18189357 CTAATAACAATAATAAAATAA
1 CTAATAACAATAATAAAATAA
18189378 CAATAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (23 bp):
CTAATAACAATAATAAAATAAGC
Found at i:18189378 original size:14 final size:14
Alignment explanation
Indices: 18189359--18189385 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18189349 TAATAAGCCT
18189359 AATAACAATAATAA
1 AATAACAATAATAA
18189373 AATAACAATAATA
1 AATAACAATAATA
18189386 GTAATAAGAA
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAACAATAATAA
Found at i:18195846 original size:20 final size:19
Alignment explanation
Indices: 18195810--18195884 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
18195800 ATTTAGCCAT
18195810 TTTTTATTTTAATTTTAATA
1 TTTTTATTTTAATTTTAA-A
*
18195830 TTTTTGTTTCTAA-TTTAAA
1 TTTTTATTT-TAATTTTAAA
* * **
18195849 TTTTACATTCTAATTTTTCA
1 TTTT-TATTTTAATTTTAAA
*
18195869 TTTTTTTTTTAATTTT
1 TTTTTATTTTAATTTT
18195885 GACAGGTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
19 17 0.40
20 23 0.53
21 3 0.07
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (19 bp):
TTTTTATTTTAATTTTAAA
Found at i:18199076 original size:27 final size:27
Alignment explanation
Indices: 18199020--18199129 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
18199010 AGCATGGCTG
* *
18199020 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
18199046 CCAGAACAGATAATTGCGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
18199073 CCAGAACAGAT-GTATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
18199100 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
18199127 CCA
1 CCA
18199130 AGATGCTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.19
27 58 0.79
28 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:18200535 original size:12 final size:12
Alignment explanation
Indices: 18200515--18200610 Score: 52
Period size: 12 Copynumber: 8.0 Consensus size: 12
18200505 TTTCTCCTTG
*
18200515 ATCAGCTCCTAA
1 ATCATCTCCTAA
* **
18200527 ATCTTCTCCTTT
1 ATCATCTCCTAA
*
18200539 ATCAGCTCCTAA
1 ATCATCTCCTAA
* *
18200551 ATCCTCTCCCT-T
1 ATCATCT-CCTAA
*
18200563 ATCAGCTCCTAA
1 ATCATCTCCTAA
* *
18200575 ATCCTCTCCCT-T
1 ATCATCT-CCTAA
*
18200587 ATCAGCTCCTAA
1 ATCATCTCCTAA
*
18200599 ATCTTCTCCTAA
1 ATCATCTCCTAA
18200611 CAGTCTTTCA
Statistics
Matches: 58, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.10
12 46 0.79
13 6 0.10
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.35
Consensus pattern (12 bp):
ATCATCTCCTAA
Done.