Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 165 of 770
Found at i:48808128 original size:27 final size:27
Alignment explanation
Indices: 48808067--48808130 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
48808057 GGCGTATTCA
48808067 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
48808094 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
48808121 TCTTTTTACC
1 TCATTTTACC
48808131 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:48808241 original size:27 final size:27
Alignment explanation
Indices: 48808164--48808314 Score: 103
Period size: 27 Copynumber: 5.6 Consensus size: 27
48808154 CATCCTACAA
* * * *
48808164 GGGTGTTTTGGTAAATCTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
** **
48808191 GAATATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
* *
48808218 GGGTATTTTGGTAATTTTTCAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* * *
48808244 AGG-ATGTTTCGGTAATTTCACAAACCAG
1 GGGTAT-TTT-GGTAATTTTACAAATCAG
*
48808272 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
*
48808299 GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATT
48808315 CTACCCTATA
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
25 2 0.02
26 8 0.08
27 76 0.80
28 7 0.07
29 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:48808241 original size:54 final size:54
Alignment explanation
Indices: 48808164--48808294 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
48808154 CATCCTACAA
* * * * *** *
48808164 GGGTGTTTTGGTAAATCTACAAATCAAGAATATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGAATATTTCGGTAATTTCACAAACCAG
* ** * *
48808218 GGGTATTTTGGTAATTTTTCAAATTGAGGATGTTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGAATATTTCGGTAATTTCACAAACCAG
*
48808272 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
48808295 CTAGGGGTGT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGAATATTTCGGTAATTTCACAAACCAG
Found at i:48808376 original size:27 final size:27
Alignment explanation
Indices: 48808346--48808437 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
48808336 GTAATTTCAC
*
48808346 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
48808373 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
48808400 AATCGAGGGTAGAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
48808427 AATCGGGGGTA
1 AATCGAGGGTA
48808438 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:48808445 original size:27 final size:27
Alignment explanation
Indices: 48808346--48808448 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
48808336 GTAATTTCAC
* * * *
48808346 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTACAATGGTAATTCTATA
* *
48808373 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTACAATGGTAATTCTATA
* *
48808400 AATCGAGGGTAGAACGGTAATTCTATA
1 AATCGAGGGTACAATGGTAATTCTATA
* **
48808427 AATCGGGGGTACTTTGGTAATT
1 AATCGAGGGTACAATGGTAATT
48808449 TGGTAAACTA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTACAATGGTAATTCTATA
Found at i:48812856 original size:43 final size:41
Alignment explanation
Indices: 48812801--48812935 Score: 164
Period size: 43 Copynumber: 3.1 Consensus size: 41
48812791 ATACCGTACA
*
48812801 ATGCCAAC-GTCCTTGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCTAGACG-GGTCTTAC-TGTAATCACATATCG
* *
48812844 ATGCCACTGTCCTAGACAAGGTCTTACTTGTAGTCACATATCG
1 ATGCCACTGTCCTAGAC-GGGTCTTAC-TGTAATCACATATCG
*
48812887 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAATCACATATCG
1 ATGCCACTGTCCTAGAC-GGGTCTTACT-GTAATCACATATCG
48812930 ATGCCA
1 ATGCCA
48812936 ATGTATTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
42 3 0.04
43 79 0.96
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
ATGCCACTGTCCTAGACGGGTCTTACTGTAATCACATATCG
Found at i:48816144 original size:126 final size:127
Alignment explanation
Indices: 48815953--48816181 Score: 309
Period size: 126 Copynumber: 1.8 Consensus size: 127
48815943 TAATTTTAAA
* *
48815953 GGATATTCGGTTATTTAGGTTAAACGAGAAAAATCAAAACCCAGTAAGTTAGGGCACGATTTCTC
1 GGATATTCGGCTATTTAGGTTAAACGAGAAAAATCAAAACCCAGTAAGTTAGGGCACGACTTCTC
48816018 GAATTTCC-AAACACAAAATATTGCCTTATTTTAAAAATATCATGCATTTTTTACAATTGAAG
66 GAATTTCCAAAACACAAAATATT-CCTTATTTTAAAAATATCATGCATTTTTTACAATTGAAG
* * ** * * * *
48816080 GGATATTTGGCTATTTAGGTTTAACGAG-AAAATTGAAACCCCGTAAGTTATGGTATGACTTCTC
1 GGATATTCGGCTATTTAGGTTAAACGAGAAAAATCAAAACCCAGTAAGTTAGGGCACGACTTCTC
* * * *
48816144 GTATTTCCAAAACACGAAATATTCCTTGTTTTCAAAAT
66 GAATTTCCAAAACACAAAATATTCCTTATTTTAAAAAT
48816182 TTTCTTTTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
126 49 0.56
127 38 0.44
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (127 bp):
GGATATTCGGCTATTTAGGTTAAACGAGAAAAATCAAAACCCAGTAAGTTAGGGCACGACTTCTC
GAATTTCCAAAACACAAAATATTCCTTATTTTAAAAATATCATGCATTTTTTACAATTGAAG
Found at i:48818531 original size:3 final size:3
Alignment explanation
Indices: 48818523--48818575 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
48818513 ATAAAATGAT
* *
48818523 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
48818571 AAC AA
1 AAC AA
48818576 TAATAATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.04
Consensus pattern (3 bp):
AAC
Found at i:48818585 original size:6 final size:6
Alignment explanation
Indices: 48818521--48818584 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
48818511 GAATAAAATG
* * * * * *
48818521 ATAACA ACAACA ACAACA ACAACA ACAACA ACAACA ACAACA ATAACA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA
*
48818569 ATAACA ATAATA ATAA
1 ATAACA ATAACA ATAA
48818585 TCTAATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.09
Consensus pattern (6 bp):
ATAACA
Found at i:48820984 original size:29 final size:29
Alignment explanation
Indices: 48820944--48821046 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
48820934 GTTGAGAGAT
*
48820944 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
48820973 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
48821002 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
48821031 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48821047 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:48826246 original size:39 final size:39
Alignment explanation
Indices: 48826192--48826335 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
48826182 GAATGTTCGA
48826192 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
48826231 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
48826270 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
48826309 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
48826336 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:48826282 original size:78 final size:79
Alignment explanation
Indices: 48826193--48826375 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
48826183 AATGTTCGAG
48826193 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
48826257 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
48826271 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
48826336 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
48826350 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
48826376 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:48829676 original size:40 final size:40
Alignment explanation
Indices: 48829623--48829761 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
48829613 GGATATAACG
* *
48829623 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTT-TAGTA
* *
48829663 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
*
48829703 ACTCGCACAAATGCCTTCGGG-CTTAA-CCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGG-TTTAGTA
* *
48829742 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
48829762 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.33
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
Found at i:48837697 original size:40 final size:40
Alignment explanation
Indices: 48837644--48837782 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
48837634 GGATATAACG
* *
48837644 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTT-TAGTA
* *
48837684 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
*
48837724 ACTCGCACAAATGCCTTCGGG-CTTAA-CCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGG-TTTAGTA
* *
48837763 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
48837783 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.33
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
Found at i:48843679 original size:40 final size:40
Alignment explanation
Indices: 48843634--48843801 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
48843624 CGGAATATAA
48843634 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48843674 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48843714 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48843754 CCGGATATAATTTCCAGCATAATTGTCC-TCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATG-CCTTCGGGTCTTAGC
48843794 CCGGATAT
1 CCGGATAT
48843802 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48846782 original size:29 final size:29
Alignment explanation
Indices: 48846742--48846844 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
48846732 GTTGAGAGAT
*
48846742 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
48846771 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* * **
48846800 TGGCACTAAGTGTGCAAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
48846829 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48846845 CGGCTGATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 5 0.07
29 62 0.93
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:48851228 original size:29 final size:28
Alignment explanation
Indices: 48851186--48851246 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 28
48851176 AGCTTGGTCT
48851186 CGAAGGGCTTTTGAGCCAGTGTCATAATC
1 CGAAGGGCTTTTGAGCCAGTGTCATAA-C
48851215 CGAAGGGCTTTTGAGCCAGTGTCATAAC
1 CGAAGGGCTTTTGAGCCAGTGTCATAAC
48851243 CGAA
1 CGAA
48851247 CCTAGTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (28 bp):
CGAAGGGCTTTTGAGCCAGTGTCATAAC
Found at i:48854651 original size:13 final size:13
Alignment explanation
Indices: 48854633--48854657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48854623 ACAAACGATA
48854633 AAATTTTCACACG
1 AAATTTTCACACG
48854646 AAATTTTCACAC
1 AAATTTTCACAC
48854658 ATACTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:48857649 original size:31 final size:31
Alignment explanation
Indices: 48857608--48857671 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48857598 CCTTTTCATA
*
48857608 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
** *
48857639 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
48857670 TT
1 TT
48857672 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCCGAAGCCT
Found at i:48857940 original size:23 final size:23
Alignment explanation
Indices: 48857886--48858027 Score: 239
Period size: 23 Copynumber: 6.1 Consensus size: 23
48857876 CCTAGCCTCT
*
48857886 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
48857909 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
48857933 TTTAATAACTGGGGCATAATCCC
1 TTTAATAACTGGGGCATAAGCCC
*
48857956 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
48857979 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
48858002 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
48858025 TTT
1 TTT
48858028 TTCACTTCCC
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 91 0.81
24 22 0.19
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:48858106 original size:20 final size:20
Alignment explanation
Indices: 48858078--48858144 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
48858068 TTATGATTAC
*
48858078 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48858098 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48858118 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48858138 ACCATGT
1 ATCATGT
48858145 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48858213 original size:25 final size:25
Alignment explanation
Indices: 48858181--48858228 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48858171 ATACATAAAC
* *
48858181 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
48858206 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
48858229 CATTTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:48865802 original size:31 final size:31
Alignment explanation
Indices: 48865761--48865824 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48865751 CCTTTTCATA
*
48865761 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
48865792 TTTCAAATTTCATATTATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
48865823 TT
1 TT
48865825 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:48867194 original size:46 final size:46
Alignment explanation
Indices: 48867007--48867184 Score: 284
Period size: 46 Copynumber: 3.9 Consensus size: 46
48866997 ATATATATAT
* * * * *
48867007 ATATACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
48867053 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* *
48867099 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
48867145 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
48867185 CGCCACATAT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:48867239 original size:47 final size:47
Alignment explanation
Indices: 48867208--48867546 Score: 579
Period size: 47 Copynumber: 7.1 Consensus size: 47
48867198 CACTTCCACG
**
48867208 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48867255 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
48867302 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
48867349 TTCATCACATTGGCCATTCGGCCTTATTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCC----TTATCACATATATGCATGTTCACA
*
48867400 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
48867447 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48867494 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
48867541 TTCATC
1 TTCATC
48867547 TCATAAAATC
Statistics
Matches: 280, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
47 236 0.84
51 44 0.16
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:48867286 original size:22 final size:22
Alignment explanation
Indices: 48867258--48867375 Score: 64
Period size: 22 Copynumber: 5.1 Consensus size: 22
48867248 GTTCACATTC
48867258 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
48867280 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
48867304 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
48867327 ATCACACATAT-GCAAGTTC-ACATT
1 AT--CACAT-TGGCCA-TTCGGCCTT
48867351 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48867374 AT
1 AT
48867376 TTATCACGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 18 0.26
23 18 0.26
24 18 0.26
25 16 0.23
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48867411 original size:145 final size:141
Alignment explanation
Indices: 48867208--48867546 Score: 579
Period size: 145 Copynumber: 2.4 Consensus size: 141
48867198 CACTTCCACG
**
48867208 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
48867273 CGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
66 CGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
48867338 GCAAGTTCACA
131 GCAAGTTCACA
*
48867349 TTCATCACATTGGCCATTCGGCCTTATTTATCACGTATATGCATGTTCACATTCATCACATTGGC
1 TTCATCACATTGGCCATTCGGCC----TTATCACATATATGCATGTTCACATTCATCACATTGGC
* **
48867414 CATTCGGCCTTATCACGTATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGT
62 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
48867479 ATATGCATGTTCACA
127 ATATGCAAGTTCACA
48867494 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
48867547 TCATAAAATC
Statistics
Matches: 186, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
141 50 0.27
145 136 0.73
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (141 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
GCAAGTTCACA
Found at i:48867429 original size:22 final size:22
Alignment explanation
Indices: 48867403--48867525 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
48867393 GTTCACATTC
48867403 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
48867425 ATCACGTATAT-G-CATGTTC-ACATT
1 ATCAC--AT-TGGCCA--TTCGGCCTT
48867449 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
48867472 ATCACGTATAT-G-CATGTTC-ACATT
1 ATCAC--AT-TGGCCA--TTCGGCCTT
48867496 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48867519 ATCACAT
1 ATCACAT
48867526 ATATGCATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48870849 original size:40 final size:40
Alignment explanation
Indices: 48870804--48870970 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
48870794 CGGAATATAA
48870804 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48870844 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
48870884 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48870924 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48870963 CCGGATAT
1 CCGGATAT
48870971 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48870954 original size:80 final size:79
Alignment explanation
Indices: 48870804--48870970 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
48870794 CGGAATATAA
* *
48870804 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
48870869 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
48870884 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
48870946 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
48870963 CCGGATAT
1 CCGGATAT
48870971 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:48871819 original size:17 final size:19
Alignment explanation
Indices: 48871796--48871841 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
48871786 AAGAAGCATG
48871796 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
48871814 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
48871832 AATCATGCTC
1 AATCATGCTC
48871842 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:48873729 original size:23 final size:23
Alignment explanation
Indices: 48873675--48873793 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
48873665 CCTAGCCTCT
*
48873675 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
*
48873698 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCACAAGCCC
48873722 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
48873745 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
*
48873768 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCACAAGCCC
48873791 TTT
1 TTT
48873794 TTCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 70 0.76
24 22 0.24
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCACAAGCCC
Found at i:48873872 original size:20 final size:20
Alignment explanation
Indices: 48873844--48873910 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
48873834 TTATGATTAC
*
48873844 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48873864 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
*
48873884 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48873904 ACCATGT
1 ATCATGT
48873911 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48873979 original size:25 final size:25
Alignment explanation
Indices: 48873947--48873994 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48873937 ATACATAAAC
* *
48873947 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
48873972 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
48873995 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:48877401 original size:40 final size:40
Alignment explanation
Indices: 48877257--48877401 Score: 204
Period size: 40 Copynumber: 3.6 Consensus size: 40
48877247 GCCACTAGCT
* *
48877257 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAG-TTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-AGCTCGCA
* * *
48877297 CAAATGCCTTCGGGACATAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
*
48877336 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
*
48877376 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48877402 ATTAGCCACT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.34
40 60 0.65
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
Found at i:48877919 original size:20 final size:20
Alignment explanation
Indices: 48877894--48877932 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
48877884 CTCAAGGTAC
48877894 TTAGCCCATATATATACATA
1 TTAGCCCATATATATACATA
48877914 TTAGCCCATATATATACAT
1 TTAGCCCATATATATACAT
48877933 TAGACACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (20 bp):
TTAGCCCATATATATACATA
Found at i:48885387 original size:40 final size:39
Alignment explanation
Indices: 48885320--48885565 Score: 208
Period size: 40 Copynumber: 6.2 Consensus size: 39
48885310 CCTTCAAAGT
* ** * *
48885320 TTAGCCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
48885359 GTAGCCCAGTTATAGTAACTTGCACAAATGCCTTCAGGAC
1 TTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
48885399 TTAGCCCGGTATAATAACTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
48885438 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * * *
48885478 TTAGTCCGGATATAGTAGCTCACACGAATGTCTTCGGGAC
1 TTAG-CCCGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** * *
48885518 TTAGTCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAG-CCCGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
48885558 TTAGCCCG
1 TTAGCCCG
48885566 GTTATCATCC
Statistics
Matches: 172, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
39 45 0.26
40 125 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
TTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:48885443 original size:79 final size:80
Alignment explanation
Indices: 48885343--48885521 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 80
48885333 GCCACTAGCT
* * *
48885343 CAAATGCCTTCGGGACGTAGCCCAGTTATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGG
*
48885408 -TATAATAACTCGCA
66 ATATAATAACTCACA
* * * * * *
48885422 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGG
* *
48885487 ATATAGTAGCTCACA
66 ATATAATAACTCACA
* *
48885502 CGAATGTCTTCGGGACTTAG
1 CAAATGCCTTCGGGACTTAG
48885522 TCCGGAATTA
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 56 0.67
80 28 0.33
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGG
ATATAATAACTCACA
Found at i:48885548 original size:80 final size:79
Alignment explanation
Indices: 48885343--48885567 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 79
48885333 GCCACTAGCT
* * * * * * * *
48885343 CAAATGCCTTCGGGACGTAGCCCAGTTATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGG
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
48885408 TATAATAACTCGCA
66 TATAATAACTCACA
* * * *
48885422 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGTCCGG
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
48885487 ATATAGTAGCTCACA
66 -TATAATAACTCACA
* * * * *
48885502 CGAATGTCTTCGGGACTTAGTCCGGA-ATTAGCCA-CTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CAAACGCCTTCGGGACTTAGCCCGGATA-TAG-CAGCTAGCACAAATGCCT-TCGGGACTTAGCC
48885564 CGGT
63 CGGT
48885568 TATCATCCGA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
79 60 0.50
80 60 0.50
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (79 bp):
CAAACGCCTTCGGGACTTAGCCCGGATATAGCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
TATAATAACTCACA
Found at i:48887635 original size:42 final size:42
Alignment explanation
Indices: 48887583--48887735 Score: 265
Period size: 42 Copynumber: 3.7 Consensus size: 42
48887573 CTCGATATAT
48887583 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
*
48887625 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
* *
48887665 TATATATCCGGGTTAAATCCCACAGGCTTTGTGTTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
48887707 TATATATCCGGGTTAAATCCCGCAGGCTT
1 TATATATCCGGGTTAAATCCCGCAGGCTT
48887736 AGTGCTAGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 36 0.35
41 2 0.02
42 66 0.63
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
Found at i:48887770 original size:40 final size:38
Alignment explanation
Indices: 48887585--48887784 Score: 130
Period size: 42 Copynumber: 4.9 Consensus size: 38
48887575 CGATATATTA
* * * * *
48887585 TATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATA
1 TATATCCGGGTTAAATCCCGCAGGCTT--AG-AGCTAGTA-C
* * * *
48887627 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATCCGGGTTAAATCCCGCAGGCTTAGAGCTAGT-A-C
* * * * * *
48887667 TATATCCGGGTTAAATCCCACAGGCTTTGTGTTGGTAATATA
1 TATATCCGGGTTAAATCCCGCAGGC-TT-AG-AGCTAGTA-C
*
48887709 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAC
1 TATATCCGGGTTAAATCCCGCAGGCTTAGAGCTAGTAC
* *
48887747 TATATCCGGGCTTAAAGTTCCGCAGGCTTTGAGCTAGT
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTAGAGCTAGT
48887785 GACTGGATTC
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
38 10 0.07
39 15 0.11
40 47 0.35
41 4 0.03
42 55 0.41
43 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGAGCTAGTAC
Found at i:48887773 original size:82 final size:82
Alignment explanation
Indices: 48887583--48887777 Score: 304
Period size: 82 Copynumber: 2.4 Consensus size: 82
48887573 CTCGATATAT
*
48887583 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
1 TATATATCCGGGTTAAATCCCGCAGGCTTTGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
* *
48887648 AGGCTTCGTGCTGGTAA
66 AGGCTTAGTGCTAGTAA
*
48887665 TATATATCCGGGTTAAATCCCACAGGCTTTGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
1 TATATATCCGGGTTAAATCCCGCAGGCTTTGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
48887730 AGGCTTAGTGCTAGT-A
66 AGGCTTAGTGCTAGTAA
* *
48887746 -CTATATCCGGGCTTAAAGTTCCGCAGGCTTTG
1 TATATATCCGGG-TTAAA-TCCCGCAGGCTTTG
48887778 AGCTAGTGAC
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
80 10 0.10
81 6 0.06
82 88 0.85
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (82 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTTGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
AGGCTTAGTGCTAGTAA
Found at i:48892433 original size:49 final size:49
Alignment explanation
Indices: 48892348--48892465 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
48892338 TGCGTGTCAT
*
48892348 TGTAAGACCTTTCTGGGACATGGCATCAACACCGATAGAT-AAGAGCCAA
1 TGTAAGACCTATCTGGGACATGGCATCAACACCGATAGATGAA-AGCCAA
* * * * * * *
48892397 TGTAAGATCTCTCTGGGACATGGGATCAGC-CTCGATATATGAAAGTCAG
1 TGTAAGACCTATCTGGGACATGGCATCAACAC-CGATAGATGAAAGCCAA
48892446 TGTAAGACCTATCTGGGACA
1 TGTAAGACCTATCTGGGACA
48892466 CAGCATCGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
48 1 0.02
49 55 0.95
50 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTATCTGGGACATGGCATCAACACCGATAGATGAAAGCCAA
Found at i:48899542 original size:25 final size:25
Alignment explanation
Indices: 48899514--48899590 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
48899504 CGATGAATGT
48899514 GAATGTGCATATATGTGATAAGGCC
1 GAATGTGCATATATGTGATAAGGCC
* * *
48899539 GAATG-GC--CTATGTGATGAATG-T
1 GAATGTGCATATATGTGAT-AAGGCC
** *
48899561 GAACATGCATATATGTGATGAGGCC
1 GAATGTGCATATATGTGATAAGGCC
48899586 GAATG
1 GAATG
48899591 GCCAATGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 11 0.31
23 5 0.14
24 4 0.11
25 16 0.44
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (25 bp):
GAATGTGCATATATGTGATAAGGCC
Found at i:48899559 original size:47 final size:47
Alignment explanation
Indices: 48899500--48899694 Score: 266
Period size: 47 Copynumber: 4.1 Consensus size: 47
48899490 TTTAGGATTT
* **
48899500 TATGCGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
48899547 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
48899594 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
48899641 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGG-C
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
48899687 TAATGTGA
1 T-ATGTGA
48899695 AATATATATG
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 1 0.01
47 130 0.99
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:48899603 original size:94 final size:94
Alignment explanation
Indices: 48899505--48899742 Score: 286
Period size: 94 Copynumber: 2.5 Consensus size: 94
48899495 GATTTTATGC
*
48899505 GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCA
1 GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATATGAACATGCA
* *
48899570 TATATGTGATGAGGCCGAATGGCCAATGT
66 TATATGTGATAAAGCCGAATGGCCAATGT
*** * * *
48899599 GATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCA
1 GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATATGAACATGCA
* *
48899664 TATATGTGGTAAAGCCGAATGGCTAATGT
66 TATATGTGATAAAGCCGAATGGCCAATGT
* *
48899693 GAAAT-ATATATGAGATGTG--TATATGTGATAAAGCCGAATGG-CTAATGTGA
1 G--ATGA-ATGTGA-ATGTGCATATATGTGATAAGGCCGAATGGCCT-ATGTGA
48899743 AATATATGTG
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
94 85 0.71
95 26 0.22
96 7 0.06
97 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (94 bp):
GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATATGAACATGCA
TATATGTGATAAAGCCGAATGGCCAATGT
Found at i:48899728 original size:48 final size:48
Alignment explanation
Indices: 48899664--48900271 Score: 1000
Period size: 48 Copynumber: 12.7 Consensus size: 48
48899654 TGAACATGCA
*
48899664 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* * *
48899712 TATATGTGATAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
48899760 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* * *
48899808 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
*
48899856 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* * *
48899904 TATATGTGATAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
*
48899952 TATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* *
48900000 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* * *
48900048 TATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* *
48900096 TATATGTGGTAAAGCCGAATGGCCAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* * *
48900144 TATATGTGATAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
48900192 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
* *
48900240 CATATGTGGTAAAGCCGAAAGGCTAATGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
48900272 TGTTGTAACA
Statistics
Matches: 519, Mismatches: 41, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 519 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
Found at i:48900366 original size:37 final size:37
Alignment explanation
Indices: 48900316--48900423 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
48900306 GGAAATATAT
*
48900316 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48900353 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
48900390 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
48900424 TCGTCTGAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48918424 original size:55 final size:53
Alignment explanation
Indices: 48918289--48918497 Score: 224
Period size: 55 Copynumber: 3.9 Consensus size: 53
48918279 ATCCTTTTGA
* * *
48918289 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCTTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
48918342 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
48918396 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
48918449 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
48918498 AACTCAAATG
Statistics
Matches: 129, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 8 0.06
55 72 0.56
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:48918441 original size:108 final size:110
Alignment explanation
Indices: 48918289--48918489 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
48918279 ATCCTTTTGA
* * *
48918289 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCTTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
48918352 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* * *
48918397 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
48918462 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
48918490 TATCCTTGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:48926338 original size:124 final size:124
Alignment explanation
Indices: 48926116--48926340 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
48926106 GAATTATGTG
* * * ** * * *
48926116 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
48926181 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
48926240 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
48926305 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
48926341 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:48926462 original size:40 final size:40
Alignment explanation
Indices: 48926335--48926464 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
48926325 ATGCTGGAAA
* *
48926335 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
48926375 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
48926415 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
48926455 TTATATCCGG
1 TTATATCCGG
48926465 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:48926463 original size:80 final size:80
Alignment explanation
Indices: 48926297--48926464 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
48926287 CAATTGAATG
* * *
48926297 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
48926362 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
48926377 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
48926441 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
48926457 ATATCCGG
1 ATATCCGG
48926465 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:48934367 original size:124 final size:124
Alignment explanation
Indices: 48934145--48934369 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
48934135 GAATTATGTG
* * * * * * *
48934145 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
48934210 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
48934269 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
48934334 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
48934370 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 1 0.01
124 87 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:48934491 original size:40 final size:40
Alignment explanation
Indices: 48934364--48934493 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
48934354 ATGCTGGAAA
* *
48934364 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
48934404 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
48934444 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
48934484 TTATATCCGG
1 TTATATCCGG
48934494 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:48934492 original size:80 final size:80
Alignment explanation
Indices: 48934326--48934493 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
48934316 CAATTGAATG
* * *
48934326 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
48934391 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
48934406 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
48934470 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
48934486 ATATCCGG
1 ATATCCGG
48934494 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:48936735 original size:39 final size:39
Alignment explanation
Indices: 48936692--48936890 Score: 290
Period size: 39 Copynumber: 5.1 Consensus size: 39
48936682 ATGCAAGATA
*
48936692 CTGGAAATGTATCTGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
48936731 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
* * *
48936770 CTGGAAATGTATCCAGGCTAAAGTCCCATAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
* ** *
48936809 CTGGAAATGTATTCGGGCTAAAGTCCCGTAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
* ** *
48936848 CAGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
48936887 CTGG
1 CTGG
48936891 TAATATAATT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
Found at i:48941128 original size:16 final size:16
Alignment explanation
Indices: 48941109--48941139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48941099 CTTCTTCACT
48941109 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
48941125 TACTTACTTACTTAA
1 TACTCACTTACTTAA
48941140 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:48941145 original size:20 final size:20
Alignment explanation
Indices: 48941106--48941145 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48941096 AAACTTCTTC
* *
48941106 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
48941126 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
48941146 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:48941457 original size:53 final size:54
Alignment explanation
Indices: 48941368--48941584 Score: 242
Period size: 55 Copynumber: 4.0 Consensus size: 54
48941358 TTACGTGGTA
* * * * *
48941368 TCCTTTTGAAACTTACCATTTCCATGTCTTGACATGGTCTTACATGATATCCTT
1 TCCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
* *
48941422 TCCTTATG-AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTT
1 TCCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
* * * * *
48941474 TGCCTTATAGTAACTTATCAATGCCATGTCTTGACATAGTCTTACATGGTTTCCTT
1 T-CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
* * *
48941530 GCCTTA-GAAACCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TCCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
48941585 GAACCCTAAT
Statistics
Matches: 136, Mismatches: 21, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 5 0.04
53 43 0.32
54 15 0.11
55 69 0.51
56 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
TCCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
Found at i:48949163 original size:28 final size:28
Alignment explanation
Indices: 48949117--48949185 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48949107 TTTAAAACCC
*
48949117 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48949144 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48949172 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
48949186 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:48950828 original size:20 final size:20
Alignment explanation
Indices: 48950805--48950842 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48950795 CACATCCAAA
*
48950805 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
48950825 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
48950843 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:48954999 original size:28 final size:28
Alignment explanation
Indices: 48954954--48955022 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48954944 ATTTAAAACC
*
48954954 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48954981 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48955009 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
48955023 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:48956676 original size:20 final size:20
Alignment explanation
Indices: 48956653--48956690 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48956643 CACCTCCAAA
*
48956653 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
48956673 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
48956691 ACGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:48957150 original size:9 final size:9
Alignment explanation
Indices: 48957138--48957194 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48957128 TTTGATAAAC
48957138 ATGATATGT
1 ATGATATGT
*
48957147 ATGATATGCAC
1 ATGATATG--T
*
48957158 ATGACATGT
1 ATGATATGT
*
48957167 ATGATATGCAC
1 ATGATATG--T
48957178 ATGATATGT
1 ATGATATGT
48957187 ATGATATG
1 ATGATATG
48957195 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48957161 original size:20 final size:20
Alignment explanation
Indices: 48957136--48957206 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
48957126 ATTTTGATAA
48957136 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48957156 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48957176 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48957196 ACATGAGATGT
1 ACATGATATGT
48957207 TCAAAAATCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48957183 original size:11 final size:11
Alignment explanation
Indices: 48957147--48957201 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
48957137 CATGATATGT
48957147 ATGATATGCAC
1 ATGATATGCAC
* *
48957158 ATGACATG--T
1 ATGATATGCAC
48957167 ATGATATGCAC
1 ATGATATGCAC
*
48957178 ATGATATG--T
1 ATGATATGCAC
48957187 ATGATATGCAC
1 ATGATATGCAC
48957198 ATGA
1 ATGA
48957202 GATGTTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48957283 original size:23 final size:23
Alignment explanation
Indices: 48957253--48957325 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
48957243 AGGAAGTGCA
48957253 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48957276 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
48957299 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
48957323 AAA
1 AAA
48957326 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:48957342 original size:25 final size:24
Alignment explanation
Indices: 48957252--48957346 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
48957242 GAGGAAGTGC
48957252 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48957276 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48957299 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48957323 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48957347 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48961986 original size:402 final size:403
Alignment explanation
Indices: 48961223--48962031 Score: 1404
Period size: 402 Copynumber: 2.0 Consensus size: 403
48961213 CGTATATATT
* *
48961223 GCTTTTATTCCTTTATAGCCAAATTTACTACCTAATACCACATGCACAACCAAGTTTCCTTTAGT
1 GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
48961288 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
66 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
* * *
48961353 GTTAAGCAAACCATTTTAAAGCATTTAGGCTATAACGAATATTATACCTTCACGACATATGACTA
131 GTTAAGCAAACCATTTCAAAGCATTTAGGCTAGAACGAATATTATACATTCACGACATATGACTA
* *
48961418 TAAAACTAAAATAAACTTAACTCGTACTCACCATGACCAAATATAAAAATAAAAGATTAGCCATT
196 TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATACAAAAATAAAAGATTAGCCATT
*
48961483 TTCGTATGGCTTATATACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
261 TTCGTATGGCTTATACACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
*
48961548 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAGATAGTGTGATGAGCTTGGCTGACAGT
326 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
*
48961613 TCTCGAGCTTGTA
391 TCCCGAGCTTGTA
48961626 GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
1 GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
48961691 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
66 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
* * * *
48961756 GTTAAGCAAACCATTTCAAAGCATTTAGGCT-GCACGAATATTATACATTTATGGCATATGACTA
131 GTTAAGCAAACCATTTCAAAGCATTTAGGCTAGAACGAATATTATACATTCACGACATATGACTA
* * **
48961820 TAAAACTAAAATAAACTTAACTCATACTTACCATGGCTGAATACAAAAATAAAAGATTAGCCATT
196 TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATACAAAAATAAAAGATTAGCCATT
* * * *
48961885 TTCGTATGGCTTATACACATAACCAATATTCAGCATTTCAAATGTAAATTCTAGCCTATACATGC
261 TTCGTATGGCTTATACACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
*
48961950 CATAATTTAAGTTTAGCTGAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
326 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
48962015 TCCCGAGCTTGTA
391 TCCCGAGCTTGTA
48962028 GCTT
1 GCTT
48962032 GACTTTAAAA
Statistics
Matches: 383, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
402 225 0.59
403 158 0.41
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (403 bp):
GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
GTTAAGCAAACCATTTCAAAGCATTTAGGCTAGAACGAATATTATACATTCACGACATATGACTA
TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATACAAAAATAAAAGATTAGCCATT
TTCGTATGGCTTATACACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
TCCCGAGCTTGTA
Found at i:48974718 original size:41 final size:41
Alignment explanation
Indices: 48974547--48974728 Score: 185
Period size: 41 Copynumber: 4.5 Consensus size: 41
48974537 GGGTTTAAAT
48974547 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* * *
48974588 CCGAACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTTTCGAAGGGCCTTT-GAGCCAGTGCTAATAA
* * *
48974628 CCG-GACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTTTCGAAGGGCCTTTGAGCCAGT-G-CTAATAA
* * *
48974669 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAA
1 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* * *
48974710 TCGGGCTTGATTTCGAAGG
1 CCGAGCTTGGTTTCGAAGG
48974729 ATGTTTGTGC
Statistics
Matches: 115, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
39 4 0.03
40 35 0.30
41 72 0.63
42 1 0.01
43 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (41 bp):
CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
Found at i:48979758 original size:93 final size:93
Alignment explanation
Indices: 48979646--48979817 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48979636 CGCCCATAAG
* *
48979646 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48979711 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48979739 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48979804 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48979818 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48979814 original size:46 final size:46
Alignment explanation
Indices: 48979639--48979814 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48979629 TGTAACCCGC
* * *
48979639 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48979685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48979735 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48979778 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48979815 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48987390 original size:46 final size:46
Alignment explanation
Indices: 48987238--48987397 Score: 193
Period size: 46 Copynumber: 3.5 Consensus size: 46
48987228 CTCGGACTCA
* * *
48987238 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGG
1 ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
* * *
48987284 ACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCGG
1 ACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGTGAACTCGG
48987331 ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
48987377 ACTCAACTCAACGAGTTCGGA
1 ACTCAACTCAACGAGTTCGGA
48987398 TGCTCAACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 48 0.50
47 29 0.30
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
Found at i:48987416 original size:46 final size:44
Alignment explanation
Indices: 48987273--48987416 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
48987263 CGCATCCATA
48987273 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
48987320 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
48987366 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
48987412 AGTGA
1 AGTGA
48987417 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:48992926 original size:40 final size:40
Alignment explanation
Indices: 48992855--48992999 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
48992845 CTACTCGTTT
* * *
48992855 AAATGCCTTCAGGACATAGGCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
* *
48992895 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
48992935 AAATGCGTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
48992976 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
48993000 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.03
40 74 0.83
41 12 0.13
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:48995393 original size:17 final size:17
Alignment explanation
Indices: 48995371--48995408 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
48995361 AAACAATGGT
48995371 GTACGGCATTTAAGCCC
1 GTACGGCATTTAAGCCC
48995388 GTACGGCATTTAAGCCC
1 GTACGGCATTTAAGCCC
48995405 GTAC
1 GTAC
48995409 AAGGCCTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (17 bp):
GTACGGCATTTAAGCCC
Found at i:49000976 original size:40 final size:40
Alignment explanation
Indices: 49000932--49001076 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
49000922 CTACTCATTT
*
49000932 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
* *
49000972 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
49001012 AAATGCGTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
49001053 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
49001077 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 3 0.03
40 76 0.84
41 12 0.13
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:49006174 original size:40 final size:40
Alignment explanation
Indices: 49006129--49006295 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
49006119 CGGAATATAA
49006129 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49006169 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49006209 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
49006249 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49006288 CCGGATAT
1 CCGGATAT
49006296 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49006279 original size:80 final size:79
Alignment explanation
Indices: 49006145--49006293 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
49006135 ATAATCACGT
* *
49006145 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
49006210 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
49006225 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
49006288 CCGGAT
64 CCGGAT
49006294 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:49014130 original size:40 final size:40
Alignment explanation
Indices: 49014085--49014252 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49014075 CGGAATATAA
49014085 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49014125 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49014165 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49014205 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49014245 CCGGATAT
1 CCGGATAT
49014253 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49014235 original size:80 final size:80
Alignment explanation
Indices: 49014101--49014250 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49014091 ATAATCACGT
*
49014101 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49014165 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49014181 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49014244 CCCGGAT
64 CCCGGAT
49014251 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49016996 original size:17 final size:17
Alignment explanation
Indices: 49016974--49017007 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49016964 AACGGAGATG
49016974 GTTAAAGTTGATAAAAA
1 GTTAAAGTTGATAAAAA
49016991 GTTAAAGTTGATAAAAA
1 GTTAAAGTTGATAAAAA
49017008 AACTATGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (17 bp):
GTTAAAGTTGATAAAAA
Found at i:49025040 original size:68 final size:64
Alignment explanation
Indices: 49024924--49025182 Score: 233
Period size: 68 Copynumber: 3.9 Consensus size: 64
49024914 TGGATGATAC
** * * *
49024924 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
49024988 AAG
64 --G
* *
49024991 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
49025055 CG
63 CG
* * * *
49025057 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
49025120 TACG
61 TACG
* * *
49025124 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
49025183 CGAACTATAT
Statistics
Matches: 159, Mismatches: 20, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 19 0.12
64 20 0.13
65 5 0.03
66 19 0.12
67 36 0.23
68 51 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:49029393 original size:40 final size:40
Alignment explanation
Indices: 49029327--49029493 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49029317 AAATTGAATG
* * *
49029327 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49029366 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49029406 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49029446 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49029486 ATATCCGG
1 ATATCCGG
49029494 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49037380 original size:40 final size:40
Alignment explanation
Indices: 49037314--49037480 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49037304 AAATTGAATG
* * *
49037314 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49037353 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49037393 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49037433 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49037473 ATATCCGG
1 ATATCCGG
49037481 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49042848 original size:20 final size:20
Alignment explanation
Indices: 49042782--49042848 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
49042772 ATTTTAGTAA
*
49042782 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
49042802 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
*
49042822 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
49042842 ACATGAT
1 ACATGAT
49042849 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49042966 original size:46 final size:47
Alignment explanation
Indices: 49042899--49042994 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
49042889 AGGAAGTGCA
49042899 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
49042945 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
49042992 AAA
1 AAA
49042995 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 23 0.48
47 25 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:49042977 original size:24 final size:24
Alignment explanation
Indices: 49042898--49043015 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
49042888 GAGGAAGTGC
49042898 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49042922 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49042945 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49042968 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49042992 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49043016 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.52
24 31 0.35
25 11 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49043244 original size:31 final size:31
Alignment explanation
Indices: 49043209--49043272 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
49043199 CGTTTACAGT
49043209 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
49043240 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49043271 AA
1 AA
49043273 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49050957 original size:20 final size:20
Alignment explanation
Indices: 49050891--49050957 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
49050881 ATTTTAGTAA
*
49050891 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* * ** *
49050911 ACATGACATGTTTTCTATGA
1 ACATGATATGTATGATATGC
49050931 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49050951 ACATGAT
1 ACATGAT
49050958 GTATTCATAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49051038 original size:23 final size:23
Alignment explanation
Indices: 49051008--49051080 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
49050998 AGGAAGTGCA
49051008 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
49051031 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
49051054 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
49051078 AAA
1 AAA
49051081 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:49051099 original size:25 final size:24
Alignment explanation
Indices: 49051007--49051101 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
49050997 GAGGAAGTGC
49051007 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49051031 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
49051054 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49051078 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49051102 ATGATAAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 30 0.48
25 10 0.16
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49051330 original size:31 final size:31
Alignment explanation
Indices: 49051295--49051358 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
49051285 CGTTTACAGT
49051295 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
49051326 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49051357 AA
1 AA
49051359 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49052871 original size:59 final size:59
Alignment explanation
Indices: 49052779--49052904 Score: 209
Period size: 59 Copynumber: 2.1 Consensus size: 59
49052769 GCTTAATTGA
* *
49052779 TATGTAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGAT
1 TATGTGATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCATTGAGAGGCATGTGAT
49052838 TATGTGATACATGCTAGGGT-TCGGGTGCTTTTGAGTAGCCCCATTGAGAGGCATGTGAT
1 TATGTGATACATGCTAGGGTCT-GGGTGCTTTTGAGTAGCCCCATTGAGAGGCATGTGAT
*
49052897 TTTGTGAT
1 TATGTGAT
49052905 CTGTGGCACT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 1 0.02
59 62 0.98
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (59 bp):
TATGTGATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCATTGAGAGGCATGTGAT
Found at i:49055506 original size:28 final size:28
Alignment explanation
Indices: 49055472--49055536 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
49055462 TCAGTGTACG
* *
49055472 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
49055500 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
49055528 AAATATTGA
1 AAATATTGA
49055537 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:49055652 original size:39 final size:39
Alignment explanation
Indices: 49055608--49055830 Score: 349
Period size: 39 Copynumber: 5.7 Consensus size: 39
49055598 GACTTTATAA
*
49055608 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
49055647 TGGTGTTATATCTGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
49055686 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
49055725 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
49055764 TGGTGTTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
49055803 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
49055831 CATGCTTTGT
Statistics
Matches: 172, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 151 0.88
40 21 0.12
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:49062017 original size:28 final size:28
Alignment explanation
Indices: 49061975--49062039 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
49061965 TCAGTGTACG
*
49061975 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
49062003 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
49062031 AAATATTGA
1 AAATATTGA
49062040 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:49062206 original size:39 final size:39
Alignment explanation
Indices: 49062112--49062333 Score: 331
Period size: 39 Copynumber: 5.7 Consensus size: 39
49062102 GACTTTATAA
49062112 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG-
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
49062150 TTGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
49062189 TGGTGTTATATTCGGGCTAAGTCCCGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
49062228 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
49062267 TGGTGTTATATCCAGGCTAAAGTCCCGTAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
49062306 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
49062334 CATGCTTTGT
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 36 0.21
39 110 0.65
40 22 0.13
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:49065022 original size:40 final size:40
Alignment explanation
Indices: 49064963--49065048 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
49064953 ACCACAATTG
*
49064963 GGCTATGTAAGGCACTTAGTGTGCAATTCAAGATAGCTTT
1 GGCTATGTAAGGCACTTAGTGTGCAATTCAAGATAGCTTC
* * *
49065003 GGCTATGTATGGCAGTTAGTGTGCGATTCAAGATAGCTTC
1 GGCTATGTAAGGCACTTAGTGTGCAATTCAAGATAGCTTC
49065043 GGCTAT
1 GGCTAT
49065049 ATATTGGAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (40 bp):
GGCTATGTAAGGCACTTAGTGTGCAATTCAAGATAGCTTC
Found at i:49066788 original size:24 final size:24
Alignment explanation
Indices: 49066756--49066803 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
49066746 AAGACATGGC
49066756 ATCGGCATTGATTAAGGACTCCAT
1 ATCGGCATTGATTAAGGACTCCAT
49066780 ATCGGCATTGATTAAGGACTCCAT
1 ATCGGCATTGATTAAGGACTCCAT
49066804 GTACGACCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATCGGCATTGATTAAGGACTCCAT
Found at i:49067020 original size:55 final size:54
Alignment explanation
Indices: 49066896--49067084 Score: 215
Period size: 54 Copynumber: 3.5 Consensus size: 54
49066886 ATAAGGATAT
* * * ** *
49066896 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAT-AGGGAAAGCAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAG-GTAC
*
49066950 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTAC
* *
49067005 CATTTAAGACCATGCCAAGACAT-GCAATTGGTGAGTTC-ATAAGGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGC-ATTGATGAGTTCTATAAGGCAAAGG-TAC
* *
49067058 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
49067085 ATTGTAAGTT
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.03
53 30 0.26
54 40 0.34
55 36 0.31
56 7 0.06
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTAC
Found at i:49073967 original size:37 final size:37
Alignment explanation
Indices: 49073917--49073994 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
49073907 GTTCCAGGTG
49073917 AGACCCGATGACTAAGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTAAGTGTGGAGATTATGACCGGGTA
* *
49073954 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTAAGTGTGGAGATTATGACCGGGTA
49073991 AGAC
1 AGAC
49073995 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (37 bp):
AGACCCGATGACTAAGTGTGGAGATTATGACCGGGTA
Found at i:49084905 original size:31 final size:31
Alignment explanation
Indices: 49084870--49084931 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
49084860 CAATAATAAG
49084870 TAAAAATAGAAAATAATAAATAAATATTTCT
1 TAAAAATAGAAAATAATAAATAAATATTTCT
*
49084901 TAAAAATAGAAAGTAATAAATAAATATTTCT
1 TAAAAATAGAAAATAATAAATAAATATTTCT
49084932 AAACATCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (31 bp):
TAAAAATAGAAAATAATAAATAAATATTTCT
Found at i:49092223 original size:40 final size:40
Alignment explanation
Indices: 49092167--49092310 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
49092157 TGAATGATAC
* * *
49092167 CCGGGCTAAGTCCCGAAGGCATTTATTCTAGCGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
49092207 CCGGGCTAAGTA-CCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAG-ACCCGAAGGCATTTATGCTAGTGATTATAT
** *
49092247 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
49092287 CCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTT
49092311 GTGCAAGTTA
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
39 1 0.01
40 91 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:49092337 original size:40 final size:40
Alignment explanation
Indices: 49092205--49092353 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 40
49092195 TAGCGATTAT
* * * ** *
49092205 ATCCGGGCTAAGTA-CCGAAGGCATTTATGCTAGTGATTAT
1 ATCCGGGCTAAG-ACCCGAAGGCATTTGTGCAAGTTACCAA
* * *** *
49092245 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
49092285 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
* * *
49092325 ATCTGGGTTAAGA-CCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
49092354 TTGTGGTTAC
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
39 16 0.17
40 78 0.83
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
Found at i:49100545 original size:40 final size:40
Alignment explanation
Indices: 49100490--49100665 Score: 219
Period size: 40 Copynumber: 4.4 Consensus size: 40
49100480 ATGATACCCA
* *
49100490 GGCTAAGTCCCGAAGGCATTTATGCTAGCGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCG
*
49100530 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCG
** *
49100570 GGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATATCCG
* * * ** *
49100610 GGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCG
*
49100650 GGTTAAGACCCGAAGG
1 GGCTAAGACCCGAAGG
49100666 TAATTGTGCT
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCCG
Found at i:49106313 original size:13 final size:13
Alignment explanation
Indices: 49106297--49106329 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49106287 TTTAATTAAA
*
49106297 TTAGTTAATTAGT
1 TTAGATAATTAGT
49106310 TTAGATAATTAGT
1 TTAGATAATTAGT
49106323 TTA-ATAA
1 TTAGATAA
49106330 ACAAACCATT
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:49110231 original size:46 final size:46
Alignment explanation
Indices: 49110181--49110306 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
49110171 TGGTTGAGCA
*
49110181 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
49110227 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
49110273 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49110307 GGGGCAGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:49113815 original size:5 final size:5
Alignment explanation
Indices: 49113789--49113894 Score: 83
Period size: 6 Copynumber: 19.8 Consensus size: 5
49113779 CCTTTTATCT
*
49113789 TTTTA TTCTTA TATTT- TTTTA TTTTA TATTA TTTTA -TTTA TTTTA TTTTTA
1 TTTTA TT-TTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
*
49113840 TTTTTA TTTTTA TTCTTA TTTTCA TTTCAA TTTTA TTATT- TTATTA TTTTA
1 -TTTTA -TTTTA TT-TTA TTTT-A TTT-TA TTTTA TT-TTA TT-TTA TTTTA
49113891 TTTT
1 TTTT
49113895 GAAAGACATA
Statistics
Matches: 87, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
4 7 0.08
5 39 0.45
6 40 0.46
7 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:49113815 original size:15 final size:15
Alignment explanation
Indices: 49113788--49113850 Score: 76
Period size: 15 Copynumber: 4.2 Consensus size: 15
49113778 TCCTTTTATC
49113788 TTTTTATTCTTATATT
1 TTTTTATT-TTATATT
49113804 TTTTTATTTTATATT
1 TTTTTATTTTATATT
* *
49113819 ATTTTA-TTTATTTT
1 TTTTTATTTTATATT
49113833 ATTTTTATTTT-TATT
1 -TTTTTATTTTATATT
49113848 TTT
1 TTT
49113851 ATTCTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.24
15 20 0.49
16 11 0.27
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTATATT
Found at i:49113818 original size:23 final size:23
Alignment explanation
Indices: 49113788--49113893 Score: 87
Period size: 23 Copynumber: 4.7 Consensus size: 23
49113778 TCCTTTTATC
*
49113788 TTTTTATTCTTATATTT-TTTTA
1 TTTTTATTATTATATTTATTTTA
*
49113810 TTTTATATTATTTTATTTATTTTA
1 TTTT-TATTATTATATTTATTTTA
* *
49113834 TTTTTATTTTTATTTTTATTCTTA
1 TTTTTATTATTATATTTATT-TTA
* * *
49113858 TTTTCATT-TCA-ATTT-TATTA
1 TTTTTATTATTATATTTATTTTA
*
49113878 -TTTTATTATTTTATTT
1 TTTTTATTATTATATTT
49113894 TGAAAGACAT
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
19 6 0.09
20 4 0.06
21 5 0.07
22 7 0.10
23 26 0.39
24 19 0.28
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATTATTATATTTATTTTA
Found at i:49114058 original size:31 final size:31
Alignment explanation
Indices: 49114023--49114087 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
49114013 ACTTCCAAGA
49114023 AAAGCTGCTAGGAATATTTTACGGACTAAGG
1 AAAGCTGCTAGGAATATTTTACGGACTAAGG
49114054 AAAGCTGCTAGGAATATTTTACGGACTAAGG
1 AAAGCTGCTAGGAATATTTTACGGACTAAGG
49114085 AAA
1 AAA
49114088 CAAATGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGCTGCTAGGAATATTTTACGGACTAAGG
Found at i:49116852 original size:13 final size:13
Alignment explanation
Indices: 49116836--49116868 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49116826 TTTAATTAAA
*
49116836 TTAGTTAATTAGT
1 TTAGATAATTAGT
49116849 TTAGATAATTAGT
1 TTAGATAATTAGT
49116862 TTA-ATAA
1 TTAGATAA
49116869 ACAAACCCTT
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:49117517 original size:44 final size:44
Alignment explanation
Indices: 49117469--49117557 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
49117459 GCTAATAAAG
49117469 TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
1 TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
*
49117513 TATAAACAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
1 TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
49117557 T
1 T
49117558 CAGCTTGGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.35
Consensus pattern (44 bp):
TATAAAAAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
Found at i:49117730 original size:60 final size:60
Alignment explanation
Indices: 49117659--49117781 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 60
49117649 GATAATTAGT
* *
49117659 TGATTATTTGAGAAGTACAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGTG
1 TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGCG
*
49117719 TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAGGAGCG
1 TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGCG
49117779 TGA
1 TGA
49117782 AATGTTATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (60 bp):
TGATTATTTGAGAAGTAAAGAGATGGATGATAACTTGATTTAGTTATACTAGTAAGAGCG
Found at i:49147972 original size:7 final size:7
Alignment explanation
Indices: 49147942--49147986 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
49147932 CTTTAAGAAG
49147942 ATAAATA
1 ATAAATA
*
49147949 A-AGATA
1 ATAAATA
*
49147955 A-AAATG
1 ATAAATA
49147961 A-AAATA
1 ATAAATA
49147967 ATAAATA
1 ATAAATA
49147974 ATAAATA
1 ATAAATA
49147981 ATAAAT
1 ATAAAT
49147987 CTTTAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 14 0.42
7 19 0.58
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (7 bp):
ATAAATA
Found at i:49151021 original size:151 final size:151
Alignment explanation
Indices: 49150747--49151052 Score: 612
Period size: 151 Copynumber: 2.0 Consensus size: 151
49150737 GACTTCACTT
49150747 CAATGATCCCGAATCCGATCGTTAACGAGCAAAATCTAAAACAGAGAAACAAAGGAACGGAGTAA
1 CAATGATCCCGAATCCGATCGTTAACGAGCAAAATCTAAAACAGAGAAACAAAGGAACGGAGTAA
49150812 GCAATTTATGCTTAGTAAGTTTCGAGCCATAATTTACACACAACCAAAGCATAGCATTCAAGTAG
66 GCAATTTATGCTTAGTAAGTTTCGAGCCATAATTTACACACAACCAAAGCATAGCATTCAAGTAG
49150877 CTAAACAATAATTCATATGCA
131 CTAAACAATAATTCATATGCA
49150898 CAATGATCCCGAATCCGATCGTTAACGAGCAAAATCTAAAACAGAGAAACAAAGGAACGGAGTAA
1 CAATGATCCCGAATCCGATCGTTAACGAGCAAAATCTAAAACAGAGAAACAAAGGAACGGAGTAA
49150963 GCAATTTATGCTTAGTAAGTTTCGAGCCATAATTTACACACAACCAAAGCATAGCATTCAAGTAG
66 GCAATTTATGCTTAGTAAGTTTCGAGCCATAATTTACACACAACCAAAGCATAGCATTCAAGTAG
49151028 CTAAACAATAATTCATATGCA
131 CTAAACAATAATTCATATGCA
49151049 CAAT
1 CAAT
49151053 TTCTCAATGA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 155 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (151 bp):
CAATGATCCCGAATCCGATCGTTAACGAGCAAAATCTAAAACAGAGAAACAAAGGAACGGAGTAA
GCAATTTATGCTTAGTAAGTTTCGAGCCATAATTTACACACAACCAAAGCATAGCATTCAAGTAG
CTAAACAATAATTCATATGCA
Found at i:49151420 original size:39 final size:39
Alignment explanation
Indices: 49151339--49151501 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
49151329 TATGGTAACC
* *
49151339 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * * *
49151379 CGCGCAATTGCCTTCGGGCTTAGCCTGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49151418 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
49151457 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
49151496 CGCACA
1 CGCACA
49151502 TTCATACACA
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 92 0.85
40 16 0.15
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:49159357 original size:39 final size:39
Alignment explanation
Indices: 49159285--49159447 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
49159275 TATGGTAACC
* *
49159285 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * * *
49159325 CACGCAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49159364 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
49159403 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
49159442 CGCACA
1 CGCACA
49159448 TTCATACACA
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 93 0.86
40 15 0.14
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Done.