Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 240 of 279
Found at i:78017915 original size:25 final size:25
Alignment explanation
Indices: 78017881--78017931 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
78017871 GGTGGTTCGA
*
78017881 GGAGTTTATACTCCTCATTCCTGCT
1 GGAGTTTATACTCCTCAGTCCTGCT
78017906 GGAGTTTATACTCCTCAGTCCTGCT
1 GGAGTTTATACTCCTCAGTCCTGCT
78017931 G
1 G
78017932 TGAATCTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (25 bp):
GGAGTTTATACTCCTCAGTCCTGCT
Found at i:78019867 original size:8 final size:8
Alignment explanation
Indices: 78019834--78019869 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
78019824 TAAATAAGAA
78019834 ATAATAATT
1 ATAATAA-T
78019843 ATAATAAT
1 ATAATAAT
*
78019851 TTAATAAT
1 ATAATAAT
78019859 ATAATAAT
1 ATAATAAT
78019867 ATA
1 ATA
78019870 TGTTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:78024925 original size:22 final size:22
Alignment explanation
Indices: 78024900--78024955 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
78024890 TTGATAGGAG
78024900 AACAC-AGACGTGGGAATAGAAA
1 AACACGAG-CGTGGGAATAGAAA
78024922 AACACGAGCGTGGGAATAGAAA
1 AACACGAGCGTGGGAATAGAAA
78024944 AACACGAGCGTG
1 AACACGAGCGTG
78024956 TCAGGGGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 31 0.94
23 2 0.06
ACGTcount: A:0.45, C:0.16, G:0.30, T:0.09
Consensus pattern (22 bp):
AACACGAGCGTGGGAATAGAAA
Found at i:78029842 original size:8 final size:8
Alignment explanation
Indices: 78029824--78029854 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
78029814 TCTCTTTGCT
78029824 TTAGTTTAA
1 TTAG-TTAA
78029833 TTAGTTAA
1 TTAGTTAA
78029841 TTAGTTAA
1 TTAGTTAA
78029849 TTAGTT
1 TTAGTT
78029855 TAGTAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (8 bp):
TTAGTTAA
Found at i:78053692 original size:22 final size:22
Alignment explanation
Indices: 78053667--78053713 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
78053657 ACCACACACT
* *
78053667 CGTGTGCCTAATGTGACACGCC
1 CGTGTGACTAATGTGACACCCC
*
78053689 CGTGTGACTAGTGTGACACCCC
1 CGTGTGACTAATGTGACACCCC
78053711 CGT
1 CGT
78053714 AAAGGGCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (22 bp):
CGTGTGACTAATGTGACACCCC
Found at i:78054679 original size:22 final size:23
Alignment explanation
Indices: 78054640--78054687 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
78054630 ACAATCATTT
*
78054640 AATCATTACTATTCAGTATCAGTC
1 AATCATTA-TATTCAGTAACAGTC
*
78054664 AATCATT-TATTTAGTAACAGTC
1 AATCATTATATTCAGTAACAGTC
78054686 AA
1 AA
78054688 GTACTCGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
AATCATTATATTCAGTAACAGTC
Found at i:78054839 original size:6 final size:6
Alignment explanation
Indices: 78054830--78054871 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
78054820 CACCGTAAGG
* *
78054830 GTAACA GTAACA GTAACA ATAACA GTAATA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
78054872 ATAGCAGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:78054852 original size:18 final size:18
Alignment explanation
Indices: 78054831--78054885 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
78054821 ACCGTAAGGG
78054831 TAACAGTAACAGTAACAA
1 TAACAGTAACAGTAACAA
* *
78054849 TAACAGTAATAGTAACAG
1 TAACAGTAACAGTAACAA
* *
78054867 TAACAATAGCAGTACACAA
1 TAACAGTAACAGTA-ACAA
78054886 AGTACCTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 27 0.90
19 3 0.10
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (18 bp):
TAACAGTAACAGTAACAA
Found at i:78054862 original size:24 final size:24
Alignment explanation
Indices: 78054830--78054880 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
78054820 CACCGTAAGG
78054830 GTAACAGTAACAGTAACAATAACA
1 GTAACAGTAACAGTAACAATAACA
* *
78054854 GTAATAGTAACAGTAACAATAGCA
1 GTAACAGTAACAGTAACAATAACA
78054878 GTA
1 GTA
78054881 CACAAAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (24 bp):
GTAACAGTAACAGTAACAATAACA
Found at i:78054879 original size:12 final size:12
Alignment explanation
Indices: 78054830--78054885 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
78054820 CACCGTAAGG
*
78054830 GTAACAGTAACA
1 GTAACAATAACA
78054842 GTAACAATAACA
1 GTAACAATAACA
* *
78054854 GTAATAGTAACA
1 GTAACAATAACA
*
78054866 GTAACAATAGCA
1 GTAACAATAACA
78054878 GTACACAA
1 GTA-ACAA
78054886 AGTACCTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
12 33 0.89
13 4 0.11
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (12 bp):
GTAACAATAACA
Found at i:78055135 original size:23 final size:25
Alignment explanation
Indices: 78055099--78055144 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
78055089 ACTTTCAAAT
**
78055099 TTTCAATTTTATTT-GTA-ATTTAA
1 TTTCAATTCAATTTAGTACATTTAA
78055122 TTTCAATTCAATTTAGTACATTT
1 TTTCAATTCAATTTAGTACATTT
78055145 TTCCATATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 3 0.16
25 4 0.21
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTCAATTCAATTTAGTACATTTAA
Found at i:78055952 original size:18 final size:17
Alignment explanation
Indices: 78055913--78055964 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
78055903 TCGTTTCATG
78055913 TTCTGTTCTTTCTATTCTTT
1 TTCT-TTCTTT-TATT-TTT
78055933 TTCTTTCTTTTATTTGTT
1 TTCTTTCTTTTATTT-TT
*
78055951 TTGTTTC-TTTATTT
1 TTCTTTCTTTTATTT
78055965 AACTATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.27
18 12 0.40
19 6 0.20
20 4 0.13
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.75
Consensus pattern (17 bp):
TTCTTTCTTTTATTTTT
Found at i:78062225 original size:29 final size:31
Alignment explanation
Indices: 78062177--78062237 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
78062167 CCCATTTTCC
*
78062177 TATTTTATTTATTTAGTATTAT-T-TTATTT
1 TATTTTATTTATTTACTATTATATATTATTT
78062206 TATTTTATTTATTGT-CTATTATATATTATTT
1 TATTTTATTTATT-TACTATTATATATTATTT
78062237 T
1 T
78062238 CTTTGTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 19 0.68
30 2 0.07
31 7 0.25
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (31 bp):
TATTTTATTTATTTACTATTATATATTATTT
Found at i:78063836 original size:6 final size:6
Alignment explanation
Indices: 78063805--78063844 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
78063795 TCCATTTGTC
* * *
78063805 TTTATC TTTATT TTTATT TTTATT TTTCTT TTTATG TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
78063845 CTCTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:78063836 original size:18 final size:18
Alignment explanation
Indices: 78063805--78063856 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
78063795 TCCATTTGTC
*
78063805 TTTATCTTTATTTTTATT
1 TTTATCTTTATTTTTATG
* *
78063823 TTTATTTTTCTTTTTATG
1 TTTATCTTTATTTTTATG
*
78063841 TTTA-CTCTATTTTTAT
1 TTTATCTTTATTTTTAT
78063857 ATTTTGAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTATCTTTATTTTTATG
Found at i:78065931 original size:54 final size:54
Alignment explanation
Indices: 78065849--78065957 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
78065839 CTCCTGTAGC
78065849 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
1 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
78065903 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
1 TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
78065957 T
1 T
78065958 TAGTTTGATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (54 bp):
TGCAAATACTTTTGAACTGAAACCTAACACAATTCAAATGATACAACAATTTGT
Found at i:78073514 original size:103 final size:104
Alignment explanation
Indices: 78073332--78073532 Score: 332
Period size: 103 Copynumber: 1.9 Consensus size: 104
78073322 AAAATATTAT
* * *
78073332 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGTTTGTTCGGTAACGCCTCGTACGTTA
1 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
* **
78073397 TCCCGGCCTTGGGTACGGGTAA-GGGTGTTACATTTAGC
66 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACATTTAGC
*
78073435 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTTTATGCTTGTTCGATAACGCCTCGTACCTTA
1 GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
78073500 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACA
66 TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACA
78073533 CACCTTCATT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 80 0.89
104 10 0.11
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (104 bp):
GAAATTTTATGGCCCGTATTTTAGTTTAATGTTTGTATGCTTGTTCGATAACGCCTCGTACCTTA
TCCCGGCCTCGGGTACAAGTAAGGGGTGTTACATTTAGC
Found at i:78077440 original size:82 final size:82
Alignment explanation
Indices: 78077303--78077468 Score: 332
Period size: 82 Copynumber: 2.0 Consensus size: 82
78077293 CAATCTACAC
78077303 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
1 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
78077368 ATGTATTCATCAAAATG
66 ATGTATTCATCAAAATG
78077385 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
1 AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
78077450 ATGTATTCATCAAAATG
66 ATGTATTCATCAAAATG
78077467 AA
1 AA
78077469 TAATAGCCAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (82 bp):
AAGATCATTTCAATATATAAATCTCATCACAATGGACACTAATCCATCCATAGAAAGAATATCAT
ATGTATTCATCAAAATG
Found at i:78078144 original size:47 final size:45
Alignment explanation
Indices: 78078039--78078349 Score: 222
Period size: 47 Copynumber: 6.7 Consensus size: 45
78078029 ATATGCGTGT
* * * *
78078039 TGATGTATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGC
* * *
78078083 CGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGC
* * *
78078130 TGATGCATGTCCCAGACATGTATTACACTAGCACTCATCTCTGT-GTC
1 TGATGCATGTCCCAGACATGTCTTACACT-G-GCT-ATCTCTGTAGGC
*
78078177 -GATGCCATGTTCCAGACATGCTCTTACACTGGCTATCT-TAGTATGGC
1 TGATG-CATGTCCCAGACATG-TCTTACACTGGCTATCTCT-GTA-GGC
* * * * * *
78078224 TGATGTATGTCCCAGACATGTCTTACACTAGCCCT-TGTTTGGATGC
1 TGATGCATGTCCCAGACATGTCTTACACT-G-GCTATCTCTGTAGGC
* * * *
78078270 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGAC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGGC
* *
78078319 -AAAGCATGTCCCAGACATGTCTTACACTGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC
78078350 ACACAAATCA
Statistics
Matches: 213, Mismatches: 33, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
43 5 0.02
44 29 0.14
45 6 0.03
46 37 0.17
47 93 0.44
48 29 0.14
49 6 0.03
50 8 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
TGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGC
Found at i:78078241 original size:94 final size:93
Alignment explanation
Indices: 78077988--78078304 Score: 353
Period size: 94 Copynumber: 3.4 Consensus size: 93
78077978 GGATATATTA
* * * *
78077988 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TATGCGTGTTGATGTATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTAT--G-GCTGATGTATGTCCC
*
78078052 AGACATGTCTTACACTAGCA-CAACTCT-TAG
63 AGACATGTCTTACACTAGCACCATCTCTGT-G
* * *
78078082 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCT-GTCGA-GGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCT-TAGT--ATGGCTGATGTATGTCCC
*
78078143 AGACATGTATTACACTAGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCAC-CATCTCTGTG
* * *
78078175 TCGATGCCATGTTCCAGACATGCTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
* * *
78078240 CATGTCTTACACTAGC-CCTTGTTTGGATG
66 CATGTCTTACACTAGCACCATCTCT-G-TG
78078269 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
78078305 CTCATAATGT
Statistics
Matches: 188, Mismatches: 22, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
91 32 0.17
92 21 0.11
93 28 0.15
94 87 0.46
95 20 0.11
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGTATGTCCCAGA
CATGTCTTACACTAGCACCATCTCTGTG
Found at i:78078328 original size:94 final size:93
Alignment explanation
Indices: 78077988--78078346 Score: 349
Period size: 94 Copynumber: 3.8 Consensus size: 93
78077978 GGATATATTA
* * * * *
78077988 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATG-CGTGTTGATGTATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TA-ATGTAG-GCTGATGCATGTCCC
* *
78078052 AGACATGTCTTACACTAGCACAACTCTT-A-G
63 AGACATGTCTTACACTAGCCCATCT-TTGATG
* * *
78078082 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCT-CTGTCGAGGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAATGT--AGGCTGATGCATGTCCCA
* *
78078144 GACATGTATTACACTAGCACTCATCTCTG-TG
64 GACATGTCTTACACTAGC-C-CATCTTTGATG
* * * * *
78078175 TCGATGCCATGTTCCAGACATGCTCTTACACTGGCTATCTTA-GTATGGCTGATGTATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAATGTA-GGCTGATGCATGTCCCAG
* *
78078239 ACATGTCTTACACTAGCCCTTGTTTGGATG
65 ACATGTCTTACACTAGCCCATCTTT-GATG
* * * *
78078269 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGAC-AAAGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TAATGTAGGCTGATGCATGTCCCAG
78078333 ACATGTCTTACACT
65 ACATGTCTTACACT
78078347 GGCACACAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
89 2 0.01
91 32 0.15
92 22 0.10
93 24 0.11
94 112 0.51
95 23 0.11
96 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAATGTAGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCCATCTTTGATG
Found at i:78084861 original size:40 final size:40
Alignment explanation
Indices: 78084794--78084881 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
78084784 CTCAGTCTCA
**
78084794 CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAATTG
1 CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAAACG
* ** * *
78084834 CACACTAAGTGCT-CTATATGGTTGAAGCTATCTCGAAACG
1 CACACTAAGTGCTAC-ATATAGCCGAAGCTACCCCGAAACG
78084874 CACACTAA
1 CACACTAA
78084882 CTGCCAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCTACATATAGCCGAAGCTACCCCGAAACG
Found at i:78089739 original size:26 final size:22
Alignment explanation
Indices: 78089685--78089729 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
78089675 GTCTCAAACC
78089685 ATTCTTCATCGACAATTAATTT
1 ATTCTTCATCGACAATTAATTT
78089707 ATTCTTCATCGACAATTAATTT
1 ATTCTTCATCGACAATTAATTT
78089729 A
1 A
78089730 CCTATTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTCTTCATCGACAATTAATTT
Found at i:78099064 original size:23 final size:23
Alignment explanation
Indices: 78099033--78099108 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
78099023 AAAAATAAAA
*
78099033 AATGTACAGTGAAGATTTTCTGC
1 AATGAACAGTGAAGATTTTCTGC
*
78099056 AATGAACAGTGAAG-TTTCCTTGC
1 AATGAACAGTGAAGATTTTC-TGC
*
78099079 AATGAACAGTGAAGATTCTCTGC
1 AATGAACAGTGAAGATTTTCTGC
78099102 AATGAAC
1 AATGAAC
78099109 TTTAAATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.09
23 40 0.85
24 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (23 bp):
AATGAACAGTGAAGATTTTCTGC
Found at i:78099201 original size:25 final size:25
Alignment explanation
Indices: 78099137--78099201 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
78099127 AGATTTTATT
* *
78099137 TAAATTTAATATAAGTTAAAATATA
1 TAAAATTAATAAAAGTTAAAATATA
* * *
78099162 -ATAATTTATGAAAAATTTAAAATATA
1 TAAAATTAAT--AAAAGTTAAAATATA
78099188 TAAAATTAATAAAA
1 TAAAATTAATAAAA
78099202 AAATATATGG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
24 6 0.20
25 4 0.13
26 13 0.43
27 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (25 bp):
TAAAATTAATAAAAGTTAAAATATA
Found at i:78099201 original size:26 final size:26
Alignment explanation
Indices: 78099152--78099203 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78099142 TTAATATAAG
* *
78099152 TTAAAATATAATAATTTATGAAAAAT
1 TTAAAATATAAAAATTAATGAAAAAT
*
78099178 TTAAAATATATAAAATTAATAAAAAA
1 TTAAAATATA-AAAATTAATGAAAAA
78099204 ATATATGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAAAATATAAAAATTAATGAAAAAT
Found at i:78106887 original size:54 final size:54
Alignment explanation
Indices: 78106805--78106945 Score: 255
Period size: 54 Copynumber: 2.6 Consensus size: 54
78106795 AACCTTGCAG
* **
78106805 CGGGATTACCAGTCCAAGCTAAATCCCCTGCAATATTTACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
78106859 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
78106913 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
78106946 CGACAATTAC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
Found at i:78109977 original size:20 final size:20
Alignment explanation
Indices: 78109952--78109992 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
78109942 AAGGTTCAAA
78109952 TGTGATTGTTTGATTAGTAG
1 TGTGATTGTTTGATTAGTAG
78109972 TGTGATTGTTTGATTAGTAG
1 TGTGATTGTTTGATTAGTAG
78109992 T
1 T
78109993 CTGAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (20 bp):
TGTGATTGTTTGATTAGTAG
Found at i:78124439 original size:40 final size:40
Alignment explanation
Indices: 78124377--78124518 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 40
78124367 CAAACACACC
* * * *
78124377 AATTTGTCACCCAACG-CATCATCGGTTAATTCGAAGTAAT
1 AATTTGACACCCAATGTC-TCATCGGATAATCCGAAGTAAT
* * *
78124417 AATTTGACACCCAATGTCTCATCGGCTAAACCAAAGT-A-
1 AATTTGACACCCAATGTCTCATCGGATAATCCGAAGTAAT
* * *
78124455 AA-TTGACATCCAATGCCTCATCGAATATATCCGAAGTAAT
1 AATTTGACACCCAATGTCTCATCGGATA-ATCCGAAGTAAT
* *
78124495 AAATTGACACCCAGTGTCTCATCG
1 AATTTGACACCCAATGTCTCATCG
78124519 ACTTGATGTC
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
37 21 0.26
38 9 0.11
39 2 0.02
40 31 0.38
41 19 0.23
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (40 bp):
AATTTGACACCCAATGTCTCATCGGATAATCCGAAGTAAT
Found at i:78124516 original size:41 final size:40
Alignment explanation
Indices: 78124408--78124519 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 40
78124398 TCGGTTAATT
* **
78124408 CGAAGTAATAATTTGACACCCAATGTCTCATCGGCTAAAC
1 CGAAGTAATAAATTGACACCCAATGTCTCATCGAATAAAC
* * * *
78124448 C-AA--AGTAAATTGACATCCAATGCCTCATCGAATATATC
1 CGAAGTAATAAATTGACACCCAATGTCTCATCGAATA-AAC
*
78124486 CGAAGTAATAAATTGACACCCAGTGTCTCATCGA
1 CGAAGTAATAAATTGACACCCAATGTCTCATCGA
78124520 CTTGATGTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
37 25 0.44
38 3 0.05
39 4 0.07
40 1 0.02
41 24 0.42
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (40 bp):
CGAAGTAATAAATTGACACCCAATGTCTCATCGAATAAAC
Found at i:78125405 original size:25 final size:26
Alignment explanation
Indices: 78125368--78125424 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
78125358 GAAACCCTAA
*
78125368 CTTTTCCTCCTTTATTTCTCT-TTTT
1 CTTTTCCTCCTTTACTTCTCTATTTT
* * *
78125393 CTTTTCTTTCTTTCCTTCTCTATTTT
1 CTTTTCCTCCTTTACTTCTCTATTTT
*
78125419 CGTTTC
1 CTTTTC
78125425 AATTTGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.67
Consensus pattern (26 bp):
CTTTTCCTCCTTTACTTCTCTATTTT
Found at i:78128660 original size:3 final size:3
Alignment explanation
Indices: 78128652--78128678 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
78128642 TACAACGAAA
78128652 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
78128679 TCATTCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:78132489 original size:17 final size:17
Alignment explanation
Indices: 78132467--78132501 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
78132457 AGAAATCAAC
78132467 CAACCGCTTCATGTTAT
1 CAACCGCTTCATGTTAT
78132484 CAACCGCTTCATGTTAT
1 CAACCGCTTCATGTTAT
78132501 C
1 C
78132502 GTATTTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (17 bp):
CAACCGCTTCATGTTAT
Found at i:78133651 original size:16 final size:17
Alignment explanation
Indices: 78133623--78133666 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
78133613 ATTAGGAATT
78133623 AAATAACTAAAATAAAA
1 AAATAACTAAAATAAAA
*
78133640 AAATAA-TAAAATAAAC
1 AAATAACTAAAATAAAA
*
78133656 AAATGACTAAA
1 AAATAACTAAA
78133667 CCAATTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (17 bp):
AAATAACTAAAATAAAA
Found at i:78135577 original size:20 final size:19
Alignment explanation
Indices: 78135552--78135597 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
78135542 TTCATTAAGC
* *
78135552 TAATTATTTTTGTTTCATCT
1 TAATTAATTTTATTTCA-CT
78135572 TAATTAAATTTTATTTCACT
1 TAATT-AATTTTATTTCACT
78135592 TAATTA
1 TAATTA
78135598 GTCCACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATTAATTTTATTTCACT
Found at i:78135588 original size:21 final size:20
Alignment explanation
Indices: 78135559--78135597 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
78135549 AGCTAATTAT
*
78135559 TTTTGTTTCATCTTAATTAAA
1 TTTTATTTCA-CTTAATTAAA
78135580 TTTTATTTCACTTAATTA
1 TTTTATTTCACTTAATTA
78135598 GTCCACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATTTCACTTAATTAAA
Found at i:78137764 original size:24 final size:24
Alignment explanation
Indices: 78137732--78137781 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
78137722 GCTAAAAGTA
78137732 AAATATTAACTTGAAATATGAGAT
1 AAATATTAACTTGAAATATGAGAT
*
78137756 AAATCTTAACTTGAAATATGAGAT
1 AAATATTAACTTGAAATATGAGAT
78137780 AA
1 AA
78137782 GAAATAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (24 bp):
AAATATTAACTTGAAATATGAGAT
Found at i:78139391 original size:18 final size:18
Alignment explanation
Indices: 78139368--78139416 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
78139358 ATCTAAATGA
78139368 GCCCACACGCCTATGTGG
1 GCCCACACGCCTATGTGG
*
78139386 GCCCACACGCCCATGTGG
1 GCCCACACGCCTATGTGG
78139404 GCCCACACGCCTA
1 GCCCACACGCCTA
78139417 GATTAGCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCACACGCCTATGTGG
Found at i:78145386 original size:4 final size:4
Alignment explanation
Indices: 78145377--78145405 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
78145367 CCCTTTTCTA
78145377 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
78145406 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:78151639 original size:47 final size:47
Alignment explanation
Indices: 78151530--78151640 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
78151520 CCGGGATAAG
* *
78151530 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
78151577 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
78151624 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
78151641 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:78152413 original size:4 final size:4
Alignment explanation
Indices: 78152404--78152432 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
78152394 CCCTTTTCTA
78152404 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
78152433 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:78156981 original size:21 final size:22
Alignment explanation
Indices: 78156939--78156981 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
78156929 TTAAAACAAA
* * *
78156939 ATATGATTTTTTAATTATTTTT
1 ATATGATTTTCTAATAACTTTT
78156961 ATAT-ATTTTCTAATAACTTTT
1 ATATGATTTTCTAATAACTTTT
78156982 TGTCTAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATGATTTTCTAATAACTTTT
Found at i:78160584 original size:96 final size:96
Alignment explanation
Indices: 78160414--78160603 Score: 285
Period size: 96 Copynumber: 2.0 Consensus size: 96
78160404 GTGTCCGAGG
* *
78160414 AAGTCTGTCATCCATGGGAAAGATGGAGCAGATACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAATGGGAAAGATGGAGCAGACACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
78160479 AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
* *
78160510 AAGTCTGTCATCGAAT-GGAACGATGGAGCAGACA-AGAAGCCCAAGAAGCTTGGTTCGAGCAAG
1 AAGTCTGTCATC-AATGGGAAAGATGGAGCAGACACAG-AGCCCAAAAAGCTTGGTTCGAGCAAG
* * *
78160573 GGTAAAGCCGAAGCCAAGAGGGCTAAGAGGA
64 GGAAAAACCGAAGCCAAGAGGGCAAAGAGGA
78160604 ACAAAAAGAA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 2 0.02
96 81 0.95
97 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCAATGGGAAAGATGGAGCAGACACAGAGCCCAAAAAGCTTGGTTCGAGCAAGGG
AAAAACCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:78164829 original size:38 final size:37
Alignment explanation
Indices: 78164778--78164849 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
78164768 GATTCTTTTT
78164778 CTTTTTCTTTTTCTCTTTTT-GGATACTATCTCTATGAA
1 CTTTTTCTTTTTCTCTTTTTGGGATA-T-TCTCTATGAA
*
78164816 CTTTTTCTTTTTCTTTTTTTGGGATATTCTCTAT
1 CTTTTTCTTTTTCTCTTTTTGGGATATTCTCTAT
78164850 CAAAGATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 7 0.22
38 20 0.62
39 5 0.16
ACGTcount: A:0.12, C:0.17, G:0.08, T:0.62
Consensus pattern (37 bp):
CTTTTTCTTTTTCTCTTTTTGGGATATTCTCTATGAA
Found at i:78164847 original size:37 final size:38
Alignment explanation
Indices: 78164778--78164869 Score: 116
Period size: 37 Copynumber: 2.4 Consensus size: 38
78164768 GATTCTTTTT
* *
78164778 CTTTTTCTTTTTCTCTTTTTGGATACTATCTCTATGAA
1 CTTTTTCTTTTTCTTTTTTTGGATACTATCTCTATCAA
78164816 CTTTTTCTTTTTCTTTTTTTGGGATA-T-TCTCTATCAA
1 CTTTTTCTTTTTCTTTTTTT-GGATACTATCTCTATCAA
***
78164853 AGATTTCTTTTTCTTTT
1 CTTTTTCTTTTTCTTTT
78164870 GATTAATCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 23 0.48
38 20 0.42
39 5 0.10
ACGTcount: A:0.14, C:0.16, G:0.08, T:0.62
Consensus pattern (38 bp):
CTTTTTCTTTTTCTTTTTTTGGATACTATCTCTATCAA
Found at i:78167720 original size:18 final size:18
Alignment explanation
Indices: 78167691--78167743 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
78167681 TGGTGTCAGC
*
78167691 TCATTTTCATCTCTACCG
1 TCATCTTCATCTCTACCG
* *
78167709 TCATCTTTATCT-TCACCT
1 TCATCTTCATCTCT-ACCG
78167727 TCATCTTCATCTCTACC
1 TCATCTTCATCTCTACC
78167744 CTCAGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.17, C:0.36, G:0.02, T:0.45
Consensus pattern (18 bp):
TCATCTTCATCTCTACCG
Found at i:78169127 original size:30 final size:31
Alignment explanation
Indices: 78169068--78169131 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
78169058 ACTTAACAAG
78169068 CAAATGCTTCTAAAATAATAAAAAAAATTAA
1 CAAATGCTTCTAAAATAATAAAAAAAATTAA
* *
78169099 CAAATGCCTT-TAAAATGAT-AAGAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAAAATTAA
78169129 CAA
1 CAA
78169132 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 14 0.47
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAAAAAAATTAA
Found at i:78173692 original size:21 final size:21
Alignment explanation
Indices: 78173645--78173707 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
78173635 CCTTACTCCA
78173645 TGTTGTGGATAAACCACTCAT
1 TGTTGTGGATAAACCACTCAT
** ** *
78173666 CATTGTGGATAAACTGCTTAT
1 TGTTGTGGATAAACCACTCAT
* *
78173687 TGTTGTAGATGAACCACTCAT
1 TGTTGTGGATAAACCACTCAT
78173708 CGATGTAGAT
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTTGTGGATAAACCACTCAT
Found at i:78173775 original size:42 final size:40
Alignment explanation
Indices: 78173711--78173844 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 40
78173701 CACTCATCGA
* *
78173711 TGTAGAT-AAATTCCATTGGGTTGTAGATGCACAACATATT
1 TGTAGATAAAATTCCACTAGGTTGT-GATGCACAACATATT
* *
78173751 TGTAGATAAAATTACCACTAGGTTGTGGGTGAACAACATATT
1 TGTAGATAAAATT-CCACTAGGTTGT-GATGCACAACATATT
* * * *
78173793 TGTAGATAAAACTGT-CAGTAAGTTGTGCATGCATAATATATT
1 TGTAGATAAAA-T-TCCACTAGGTTGTG-ATGCACAACATATT
78173835 TGTAGATAAA
1 TGTAGATAAA
78173845 TTGTCACTGG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
40 7 0.09
41 6 0.08
42 63 0.81
43 1 0.01
44 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (40 bp):
TGTAGATAAAATTCCACTAGGTTGTGATGCACAACATATT
Found at i:78179755 original size:21 final size:21
Alignment explanation
Indices: 78179731--78179777 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
78179721 ACAGTAGGGG
*
78179731 TAAACCACTCATC-GATGTAGA
1 TAAACCACTCATCTG-TGCAGA
78179752 TAAACCACTCATCTGTGCAGA
1 TAAACCACTCATCTGTGCAGA
78179773 TAAAC
1 TAAAC
78179778 TGCTCTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (21 bp):
TAAACCACTCATCTGTGCAGA
Found at i:78180765 original size:18 final size:18
Alignment explanation
Indices: 78180723--78180756 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78180713 AGAATGAGAG
78180723 AAAAGA-AAAGAAAAGAT
1 AAAAGAGAAAGAAAAGAT
78180740 AAAAGAGAAAGAAAAGA
1 AAAAGAGAAAGAAAAGA
78180757 AATAGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAGAGAAAGAAAAGAT
Found at i:78183956 original size:82 final size:82
Alignment explanation
Indices: 78183819--78183985 Score: 298
Period size: 82 Copynumber: 2.0 Consensus size: 82
78183809 CTTAGTAGCC
* * *
78183819 AACAGGTGGGCCACAGAGTTTCCCTCCTGGGGAACATGGAGGAACTGACACAAATGGAACTACCC
1 AACAGGTGGGCCACAGAGTTTCCCTCATGGGGAACATGCAGGAACCGACACAAATGGAACTACCC
78183884 GATCAAGCCCTTGATAT
66 GATCAAGCCCTTGATAT
*
78183901 AACAGGTGGGCCACAGAGTTTCCCTCATGGGGAACATGCAGGAACCGACACAAATGGAACTGCCC
1 AACAGGTGGGCCACAGAGTTTCCCTCATGGGGAACATGCAGGAACCGACACAAATGGAACTACCC
78183966 GATCAAGCCCTTGATAT
66 GATCAAGCCCTTGATAT
78183983 AAC
1 AAC
78183986 TGATGTAATA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.17
Consensus pattern (82 bp):
AACAGGTGGGCCACAGAGTTTCCCTCATGGGGAACATGCAGGAACCGACACAAATGGAACTACCC
GATCAAGCCCTTGATAT
Found at i:78187436 original size:10 final size:10
Alignment explanation
Indices: 78187421--78187452 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
78187411 TAAATACATT
78187421 TAATTAAAGA
1 TAATTAAAGA
78187431 TAATTAAAGA
1 TAATTAAAGA
78187441 TAATTAAA-A
1 TAATTAAAGA
78187450 TAA
1 TAA
78187453 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:78187464 original size:19 final size:18
Alignment explanation
Indices: 78187440--78187483 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
78187430 ATAATTAAAG
78187440 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
78187460 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
78187477 ATAATTA
1 ATAATTA
78187484 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:78195620 original size:213 final size:213
Alignment explanation
Indices: 78195253--78195678 Score: 852
Period size: 213 Copynumber: 2.0 Consensus size: 213
78195243 GTGTCAGCCC
78195253 ATAATGCAGAGAAACGATGAATACTTGGCGAGAAGGCTAAGTATGGATTCTAGGCCTCAAGAACC
1 ATAATGCAGAGAAACGATGAATACTTGGCGAGAAGGCTAAGTATGGATTCTAGGCCTCAAGAACC
78195318 CTTTCTGGGGAATATTGACAACTTTCGGCTAGATAAGGTTTAGTGGCTCATGATAATGGTGGAAA
66 CTTTCTGGGGAATATTGACAACTTTCGGCTAGATAAGGTTTAGTGGCTCATGATAATGGTGGAAA
78195383 AGAAAATAAATATAAAGATGGAAAAGGAAGTTTTATTGAAAGAAAATATGAAGAAACAAAAGCCT
131 AGAAAATAAATATAAAGATGGAAAAGGAAGTTTTATTGAAAGAAAATATGAAGAAACAAAAGCCT
78195448 AGACTTTCAGGGGGAGAG
196 AGACTTTCAGGGGGAGAG
78195466 ATAATGCAGAGAAACGATGAATACTTGGCGAGAAGGCTAAGTATGGATTCTAGGCCTCAAGAACC
1 ATAATGCAGAGAAACGATGAATACTTGGCGAGAAGGCTAAGTATGGATTCTAGGCCTCAAGAACC
78195531 CTTTCTGGGGAATATTGACAACTTTCGGCTAGATAAGGTTTAGTGGCTCATGATAATGGTGGAAA
66 CTTTCTGGGGAATATTGACAACTTTCGGCTAGATAAGGTTTAGTGGCTCATGATAATGGTGGAAA
78195596 AGAAAATAAATATAAAGATGGAAAAGGAAGTTTTATTGAAAGAAAATATGAAGAAACAAAAGCCT
131 AGAAAATAAATATAAAGATGGAAAAGGAAGTTTTATTGAAAGAAAATATGAAGAAACAAAAGCCT
78195661 AGACTTTCAGGGGGAGAG
196 AGACTTTCAGGGGGAGAG
78195679 TGTTTACAGA
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 213 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (213 bp):
ATAATGCAGAGAAACGATGAATACTTGGCGAGAAGGCTAAGTATGGATTCTAGGCCTCAAGAACC
CTTTCTGGGGAATATTGACAACTTTCGGCTAGATAAGGTTTAGTGGCTCATGATAATGGTGGAAA
AGAAAATAAATATAAAGATGGAAAAGGAAGTTTTATTGAAAGAAAATATGAAGAAACAAAAGCCT
AGACTTTCAGGGGGAGAG
Found at i:78195800 original size:10 final size:10
Alignment explanation
Indices: 78195785--78195816 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
78195775 TAAATACATT
78195785 TAATTAAAGA
1 TAATTAAAGA
78195795 TAATTAAAGA
1 TAATTAAAGA
78195805 TAATTAAA-A
1 TAATTAAAGA
78195814 TAA
1 TAA
78195817 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:78206131 original size:59 final size:59
Alignment explanation
Indices: 78206056--78206188 Score: 230
Period size: 59 Copynumber: 2.2 Consensus size: 59
78206046 AAATTTTTAG
*
78206056 GCGAGATTTCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
1 GCGA-ATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
*
78206116 GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCTTTTTTTAGACGATATCTGTA
1 GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
78206175 GCGAATTCCTCTCA
1 GCGAATTCC-CTCA
78206189 ACTATATCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
59 62 0.89
60 8 0.11
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (59 bp):
GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
Found at i:78208422 original size:22 final size:22
Alignment explanation
Indices: 78208397--78208440 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
78208387 CATCTCCTTC
78208397 CATAGGTACTATTACTTTCCCT
1 CATAGGTACTATTACTTTCCCT
78208419 CATAGGTACTATTACTTTCCCT
1 CATAGGTACTATTACTTTCCCT
78208441 TCAATCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (22 bp):
CATAGGTACTATTACTTTCCCT
Found at i:78208450 original size:6 final size:6
Alignment explanation
Indices: 78208441--78208469 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
78208431 TACTTTCCCT
78208441 TCAATC TCAATC TCAATC TCAATC TCAAT
1 TCAATC TCAATC TCAATC TCAATC TCAAT
78208470 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (6 bp):
TCAATC
Found at i:78212231 original size:15 final size:15
Alignment explanation
Indices: 78212201--78212235 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
78212191 TTTTATCATC
78212201 TCTTCGTTTTCTTTT
1 TCTTCGTTTTCTTTT
78212216 TCTTCTGTTTTCTTTT
1 TCTTC-GTTTTCTTTT
78212232 TCTT
1 TCTT
78212236 TATTTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (15 bp):
TCTTCGTTTTCTTTT
Found at i:78212436 original size:59 final size:59
Alignment explanation
Indices: 78212369--78212480 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
78212359 ATTGTTTATA
* * * *
78212369 AATTTTAAAATATTATTTATTTAAATTAGGTCTTAT-ACTAACTATCATATTTTAAAAAC
1 AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAAC-AACTATCATATTTTAAAAAC
* *
78212428 AATTTTAAAATATTGTTCATTTAAAATAAGTCTCATAACAATTATCATATTTT
1 AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAACAACTATCATATTTT
78212481 TAAATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.46
Consensus pattern (59 bp):
AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAACAACTATCATATTTTAAAAAC
Found at i:78234251 original size:16 final size:16
Alignment explanation
Indices: 78234232--78234262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78234222 TTGTAAAGGA
*
78234232 ATTTTAAACTATTATT
1 ATTTAAAACTATTATT
78234248 ATTTAAAACTATTAT
1 ATTTAAAACTATTAT
78234263 CATACCTAAT
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:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAAAACTATTATT
Found at i:78238531 original size:182 final size:182
Alignment explanation
Indices: 78238219--78238587 Score: 684
Period size: 182 Copynumber: 2.0 Consensus size: 182
78238209 AAATGATAAA
*
78238219 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATTTAGCCT
1 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
*
78238284 TTTCATGCCTTTCTTATTCCATGCATTTCCATTTACCAAATACTATCCATACAACTAGCCATCAA
66 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
*
78238349 TCAAGCAATTTACCAACTTGTAACTATGACAAAATCAAATTCATTTATTCAT
131 TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
* *
78238401 ATATGGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCGTGCATCTAGCCT
1 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
78238466 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
66 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
*
78238531 TCAAGCAATTTGCCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
131 TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
78238583 ATATA
1 ATATA
78238588 CCATATTAAT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 180 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (182 bp):
ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
Found at i:78239185 original size:22 final size:22
Alignment explanation
Indices: 78239146--78239199 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
78239136 AGAGCACCGT
*
78239146 AGTGCTAAACAAATGGAAAT-AA
1 AGTGCTAAACAAA-GGGAATCAA
* *
78239168 AGTGCTAAACAGAGGGAATCGA
1 AGTGCTAAACAAAGGGAATCAA
78239190 AGTGCTAAAC
1 AGTGCTAAAC
78239200 CTATACAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (22 bp):
AGTGCTAAACAAAGGGAATCAA
Found at i:78245379 original size:17 final size:18
Alignment explanation
Indices: 78245349--78245388 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
78245339 ACTGTTACAA
78245349 AAAAGAGAAAAAAAAAAG
1 AAAAGAGAAAAAAAAAAG
78245367 AAAAGAG-AAAAAAAAAG
1 AAAAGAGAAAAAAAAAAG
78245384 AAAAG
1 AAAAG
78245389 GCTTATAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAAAAAAAAAG
Found at i:78254462 original size:48 final size:48
Alignment explanation
Indices: 78254410--78254505 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
78254400 TTAATAATCT
*
78254410 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGGGATAAACATCAA
1 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGAGATAAACATCAA
*
78254458 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGATATAAACATCAA
1 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGAGATAAACATCAA
78254506 GGTATAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (48 bp):
ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGAGATAAACATCAA
Found at i:78263802 original size:79 final size:79
Alignment explanation
Indices: 78263706--78263894 Score: 279
Period size: 79 Copynumber: 2.4 Consensus size: 79
78263696 TTAACATATG
* * * *
78263706 CAAATATCGTATGTTCTTCATCAATAGAGTAACGTAAAGGGTTATAAATCAGAACCGGTAACAAT
1 CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
78263771 CAATCCAACATTTT
66 CAATCCAACATTTT
* * * *
78263785 CAGATATCGTATATTCTTCATCAATAGAATAATATAAAGGGTTATAAATTAGAATCAGTAACAAT
1 CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
78263850 CAATCCAACATTTT
66 CAATCCAACATTTT
* * *
78263864 CAAATATCGCATATTCTTTATCAACAGAATA
1 CAAATATCGTATATTCTTCATCAATAGAATA
78263895 GCGCAGAGGC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 98 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (79 bp):
CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
CAATCCAACATTTT
Found at i:78271058 original size:11 final size:11
Alignment explanation
Indices: 78271042--78271068 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
78271032 TAGAAATTAG
78271042 TTTGTGAAACT
1 TTTGTGAAACT
78271053 TTTGTGAAACT
1 TTTGTGAAACT
78271064 TTTGT
1 TTTGT
78271069 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:78272605 original size:92 final size:92
Alignment explanation
Indices: 78272469--78272662 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
78272459 TTGATTTTAG
* *
78272469 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
78272533 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
78272560 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
78272625 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
78272653 CAAATTCATA
1 TAAATTCATA
78272663 AACTATAATA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:78272719 original size:17 final size:17
Alignment explanation
Indices: 78272694--78272727 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
78272684 ATAATTTTAA
*
78272694 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
78272711 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
78272728 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:78272744 original size:17 final size:16
Alignment explanation
Indices: 78272699--78272746 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
78272689 TTTAAATTTT
78272699 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
78272716 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
78272730 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
78272747 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:78272804 original size:61 final size:61
Alignment explanation
Indices: 78272739--78272926 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
78272729 AGTTATAATC
78272739 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * *
78272800 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
78272858 C
61 T
* * *
78272859 ATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
78272920 ATATATT
1 ATATATT
78272927 TTAATTATAA
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
57 11 0.12
58 7 0.08
59 18 0.19
60 16 0.17
61 25 0.27
62 6 0.06
63 10 0.11
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:78272826 original size:15 final size:15
Alignment explanation
Indices: 78272791--78272842 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
78272781 TTAAGAATTT
*
78272791 TATTAAATTAT-ATA
1 TATTTAATTATAATA
78272805 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
78272819 TATTTAATAATAAT-
1 TATTTAATTATAATA
78272833 TATGTTAATT
1 TAT-TTAATT
78272843 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:78272866 original size:120 final size:120
Alignment explanation
Indices: 78272736--78272958 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
78272726 ATTAGTTATA
*
78272736 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATTA
78272801 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
* *
78272856 ATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATTA
78272921 TATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTT
78272959 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
Found at i:78272941 original size:16 final size:16
Alignment explanation
Indices: 78272920--78272961 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
78272910 TTATTAAATT
*
78272920 ATATATTTTAATTATA
1 ATATATTTTAATAATA
78272936 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
78272951 AT-TATGTTTAA
1 ATATAT-TTTAA
78272962 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:78272946 original size:15 final size:15
Alignment explanation
Indices: 78272911--78272952 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
78272901 TTAAGAATTT
*
78272911 TATTAAATTAT-ATA
1 TATTTAATTATAATA
78272925 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
78272939 TATTTAATAATAAT
1 TATTTAATTATAAT
78272953 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:78273056 original size:158 final size:156
Alignment explanation
Indices: 78272898--78273209 Score: 556
Period size: 154 Copynumber: 2.0 Consensus size: 156
78272888 AGAATTTTAT
* *
78272898 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
78272963 TATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAAT
66 TATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAAT
78273026 AATTTACCAAAACAAATTTATGCTAA
131 AATTTACCAAAACAAATTTATGCTAA
78273052 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
*
78273117 TATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 TATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAACAATA
*
78273182 ATCATTTACCAAAACAAATTTATGCTAA
129 ATAATTTACCAAAACAAATTTATGCTAA
78273210 GGGTATTCTG
Statistics
Matches: 150, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
154 87 0.58
155 2 0.01
158 61 0.41
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
TATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAAT
AATTTACCAAAACAAATTTATGCTAA
Found at i:78273089 original size:18 final size:17
Alignment explanation
Indices: 78273061--78273095 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
78273051 ATTATTAAGA
*
78273061 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
78273078 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
78273096 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:78273129 original size:75 final size:75
Alignment explanation
Indices: 78272898--78273131 Score: 199
Period size: 75 Copynumber: 3.1 Consensus size: 75
78272888 AGAATTTTAT
* *
78272898 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
78272963 TATGATTAAA
66 TATGATTAAA
* ** * * * * * * ***
78272973 TTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TACC
1 TTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTAAATAATAATTATGTT
* * *
78273034 AAAACA-AATTTATGCTAA
62 TAAATATGA-TTA----AA
78273052 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
78273117 TATGATTAAA
66 TATGATTAAA
78273127 TTATT
1 TTATT
78273132 TATTTTTGAT
Statistics
Matches: 114, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 28 0.25
76 28 0.25
77 6 0.05
78 27 0.24
79 23 0.20
80 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
TATGATTAAA
Found at i:78273306 original size:44 final size:45
Alignment explanation
Indices: 78273257--78273351 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
78273247 TTACACCTCT
* *
78273257 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
78273301 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
78273346 ATTACA
1 ATTACA
78273352 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:78273351 original size:16 final size:16
Alignment explanation
Indices: 78273330--78273362 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
78273320 TTGATTTGCT
*
78273330 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
78273346 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
78273362 A
1 A
78273363 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:78273372 original size:21 final size:21
Alignment explanation
Indices: 78273343--78273385 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
78273333 ACACCTCTAT
*
78273343 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
78273364 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
78273385 T
1 T
78273386 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:78275357 original size:11 final size:11
Alignment explanation
Indices: 78275343--78275418 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 11
78275333 GATAATCATT
78275343 TTAATATTAAA
1 TTAATATTAAA
*
78275354 TTAATAAAATAATA
1 TTAAT--ATTAA-A
*
78275368 TTAATATAAAA
1 TTAATATTAAA
78275379 TTAA-ATTAAA
1 TTAATATTAAA
78275389 TTTAATATTAAA
1 -TTAATATTAAA
*
78275401 -T-CTATTAAA
1 TTAATATTAAA
*
78275410 ATAATATTA
1 TTAATATTA
78275419 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
9 7 0.13
10 7 0.13
11 19 0.37
12 9 0.17
13 4 0.08
14 6 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:78275358 original size:20 final size:20
Alignment explanation
Indices: 78275307--78275358 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
78275297 TTCAACTATA
*
78275307 ATTAAACTTAATTACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
* *
78275328 ATTATGA-TAATCATTTTAAT
1 ATTA-AATTAATCACTTTAAT
78275348 ATTAAATTAAT
1 ATTAAATTAAT
78275359 AAAATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:78280205 original size:25 final size:25
Alignment explanation
Indices: 78280171--78280221 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
78280161 GATGATGGTG
78280171 TAAGTTTTGTATTGAATATTCAAGA
1 TAAGTTTTGTATTGAATATTCAAGA
78280196 TAAGTTTTGTATTGAATATTCAAGA
1 TAAGTTTTGTATTGAATATTCAAGA
78280221 T
1 T
78280222 GAATTATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTTTGTATTGAATATTCAAGA
Found at i:78289821 original size:18 final size:18
Alignment explanation
Indices: 78289798--78289890 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
78289788 CCCAACTACT
*
78289798 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
78289816 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
78289834 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
78289852 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
78289870 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
78289888 GTA
1 GTA
78289891 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:78289850 original size:36 final size:36
Alignment explanation
Indices: 78289798--78289890 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
78289788 CCCAACTACT
*
78289798 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
78289834 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
78289870 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
78289891 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:78293968 original size:100 final size:105
Alignment explanation
Indices: 78293847--78294086 Score: 287
Period size: 108 Copynumber: 2.3 Consensus size: 105
78293837 TAAAAAAAAA
*
78293847 CTAAAACCGAAAACCCATCTTTACTCCATGGATATC-A-GTTTC-AT-TTAATT-TATTTTTTTT
1 CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAATGTTTCTATGTTAATTCTATTTTTTTT
***
78293907 AATTTCTCGAGCTTTTATGGTTCAAAAATGGC-AGACAAAG
66 AATTTCTCGAGCTTTTACAATTCAAAAATGGCGA-ACAAAG
* * * * ** *
78293947 CTAAAACTGAAAACCTATCTTTACTCCATGGGTATCAATTTCTTTTCTTTGTTTTTTCTTTTTTT
1 CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAA--T-GTTTCTATGTTAATTCTATTTTT
78294012 TTTAATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
63 TTTAATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
78294055 CTAAAA-TCGAAAACCCATCTTTACTCCATGGA
1 CTAAAACT-GAAAACCCATCTTTACTCCATGGA
78294087 AAATACAAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
100 33 0.28
101 1 0.01
105 4 0.03
106 1 0.01
107 5 0.04
108 72 0.62
109 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (105 bp):
CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAATGTTTCTATGTTAATTCTATTTTTTTT
AATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
Found at i:78294020 original size:16 final size:18
Alignment explanation
Indices: 78293983--78294021 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
78293973 CATGGGTATC
78293983 AATTTCTTTTCTTTGTTT
1 AATTTCTTTTCTTTGTTT
78294001 --TTTCTTTT-TTT-TTT
1 AATTTCTTTTCTTTGTTT
78294015 AATTTCT
1 AATTTCT
78294022 CGAGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.16
15 3 0.16
16 13 0.68
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (18 bp):
AATTTCTTTTCTTTGTTT
Found at i:78294776 original size:20 final size:20
Alignment explanation
Indices: 78294751--78294828 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
78294741 AAAAAAAAAG
78294751 GGAAGAGAAAGAGGAGTTGA
1 GGAAGAGAAAGAGGAGTTGA
*
78294771 GGAAGAGAGGAAGGGAGGAAGTTATA
1 GGAAGAGA--AA--GAGG-AGTT-GA
*
78294797 GGGAAGATAAAGAGGAGTTGA
1 -GGAAGAGAAAGAGGAGTTGA
*
78294818 GGAAGGGAAAG
1 GGAAGAGAAAG
78294829 GAAGAATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
20 17 0.37
21 1 0.02
22 6 0.13
23 4 0.09
24 4 0.09
25 6 0.13
26 1 0.02
27 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (20 bp):
GGAAGAGAAAGAGGAGTTGA
Found at i:78295326 original size:22 final size:22
Alignment explanation
Indices: 78295284--78295326 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
78295274 AAATTAATAT
* *
78295284 ATATTTATATTATTTTAATTTA
1 ATATTTATATAATTTAAATTTA
78295306 ATATTTA-ATAATTTAATATTT
1 ATATTTATATAATTTAA-ATTT
78295327 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATATAATTTAAATTTA
Found at i:78295331 original size:26 final size:27
Alignment explanation
Indices: 78295261--78295331 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 27
78295251 GGCCCGTCAA
78295261 TAATATTTTTTTTAAATTAATATATATT
1 TAATA-TTTTTTTAAATTAATATATATT
* *
78295289 T-ATATTATTTTAATTTAATATTTAATAATT
1 TAATATTTTTTTAAATTAATA--T-AT-ATT
78295319 TAATATTTTTTTA
1 TAATATTTTTTTA
78295332 TTAAAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 14 0.40
27 3 0.09
28 2 0.06
29 2 0.06
30 4 0.11
31 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TAATATTTTTTTAAATTAATATATATT
Found at i:78296707 original size:40 final size:40
Alignment explanation
Indices: 78296632--78296728 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
78296622 AACACACAAG
**
78296632 TTTGACACCCAGTGCCTCATTGCATAATTCAAAGTAATTA
1 TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
* * *
78296672 TTTGACACCTAGTGTCTCATTGGC-TAAACCGAAGTAA--A
1 TTTGACACCCAGTGCCTCATT-GCATAAACCAAAGTAATTA
*
78296710 -TTGGCACCCAGTGCCTCAT
1 TTTGACACCCAGTGCCTCAT
78296729 CGAATTAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 16 0.33
38 1 0.02
40 29 0.60
41 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
Found at i:78297524 original size:28 final size:28
Alignment explanation
Indices: 78297492--78297547 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
78297482 TTATTCAACA
*
78297492 TAGACAACACTTGAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
78297520 TAGACAACACTTAAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
78297548 CTAAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (28 bp):
TAGACAACACTTAAAAACTCAATAATTT
Found at i:78297795 original size:28 final size:29
Alignment explanation
Indices: 78297764--78297920 Score: 114
Period size: 28 Copynumber: 5.3 Consensus size: 29
78297754 TTTCTTATTA
78297764 TAATATATAATATTATAATATTATAT-CT
1 TAATATATAATATTATAATATTATATACT
*
78297792 TAATTATATATGATATAATATATATACTTA-ATAAT
1 TAA-TATATA--ATAT--TATA-ATA-TTATATACT
*
78297827 TAAGATATAATATTATAATATTATAT-CT
1 TAATATATAATATTATAATATTATATACT
78297855 TAAT-TAT-ATATGATATAATA-TATATACT
1 TAATATATAATAT--TATAATATTATATACT
* *
78297883 TAATA-ATTAAGA-TATAATATTATAATATT
1 TAATATA-TAATATTATAATATTAT-ATACT
78297912 ATAATATAT
1 -TAATATAT
78297921 TTATTTTAAC
Statistics
Matches: 104, Mismatches: 6, Indels: 36
0.71 0.04 0.25
Matches are distributed among these distances:
26 4 0.04
27 15 0.14
28 27 0.26
29 16 0.15
30 12 0.12
31 5 0.05
32 4 0.04
33 4 0.04
34 10 0.10
35 7 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (29 bp):
TAATATATAATATTATAATATTATATACT
Found at i:78297835 original size:63 final size:63
Alignment explanation
Indices: 78297768--78297914 Score: 294
Period size: 63 Copynumber: 2.3 Consensus size: 63
78297758 TTATTATAAT
78297768 ATATAATATTATAATATTATATCTTAATTATATATGATATAATATATATACTTAATAATTAAG
1 ATATAATATTATAATATTATATCTTAATTATATATGATATAATATATATACTTAATAATTAAG
78297831 ATATAATATTATAATATTATATCTTAATTATATATGATATAATATATATACTTAATAATTAAG
1 ATATAATATTATAATATTATATCTTAATTATATATGATATAATATATATACTTAATAATTAAG
78297894 ATATAATATTATAATATTATA
1 ATATAATATTATAATATTATA
78297915 ATATATTTAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 84 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (63 bp):
ATATAATATTATAATATTATATCTTAATTATATATGATATAATATATATACTTAATAATTAAG
Found at i:78297857 original size:35 final size:34
Alignment explanation
Indices: 78297805--78297910 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 34
78297795 TTATATATGA
78297805 TATAATATATATACTTAATAATTAAGATATAATAT
1 TATAATATATAT-CTTAATAATTAAGATATAATAT
* *
78297840 TATAATATTATATC-T--TAATT-ATATATGATAT
1 TATAATA-TATATCTTAATAATTAAGATATAATAT
*
78297871 AAT-ATATATA-CTTAATAATTAAGATATAATAT
1 TATAATATATATCTTAATAATTAAGATATAATAT
78297903 TATAATAT
1 TATAATAT
78297911 TATAATATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
28 1 0.02
29 5 0.08
30 3 0.05
31 16 0.27
32 16 0.27
33 4 0.07
34 1 0.02
35 8 0.14
36 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (34 bp):
TATAATATATATCTTAATAATTAAGATATAATAT
Found at i:78297919 original size:13 final size:13
Alignment explanation
Indices: 78297768--78297910 Score: 76
Period size: 13 Copynumber: 11.3 Consensus size: 13
78297758 TTATTATAAT
78297768 ATATAATATTATA
1 ATATAATATTATA
*
78297781 ATATTATATCT-TA
1 ATATAATAT-TATA
*
78297794 AT-T-ATA-TATG
1 ATATAATATTATA
78297804 ATATAATATATATA
1 ATATAATAT-TATA
*
78297818 CT-TAATAATTA-A
1 ATATAAT-ATTATA
78297830 GATATAATATTATA
1 -ATATAATATTATA
*
78297844 ATATTATATCT-TA
1 ATATAATAT-TATA
*
78297857 AT-T-ATA-TATG
1 ATATAATATTATA
78297867 ATATAATATATATA
1 ATATAATAT-TATA
*
78297881 CT-TAATAATTA-A
1 ATATAAT-ATTATA
78297893 GATATAATATTATA
1 -ATATAATATTATA
78297907 ATAT
1 ATAT
78297911 TATAATATAT
Statistics
Matches: 100, Mismatches: 10, Indels: 40
0.67 0.07 0.27
Matches are distributed among these distances:
9 2 0.02
10 6 0.06
11 8 0.08
12 10 0.10
13 50 0.50
14 24 0.24
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
ATATAATATTATA
Found at i:78301403 original size:414 final size:414
Alignment explanation
Indices: 78300633--78301462 Score: 1660
Period size: 414 Copynumber: 2.0 Consensus size: 414
78300623 TACTAAGCAT
78300633 TCATGCTTACTCCCTCCCTTCCATTCATTGTAGTTTTGACAAGCCGGCTTGGAGAACAGGACGGT
1 TCATGCTTACTCCCTCCCTTCCATTCATTGTAGTTTTGACAAGCCGGCTTGGAGAACAGGACGGT
78300698 TGGAGGCACACTCACACTATCAACGGACCATCTCGGTAAAGTGGCTTGCATATTTTGGAAATATG
66 TGGAGGCACACTCACACTATCAACGGACCATCTCGGTAAAGTGGCTTGCATATTTTGGAAATATG
78300763 GCATGTATAGCATTATAATCCTTTTGTGTAGATAATCTTATGATATGGTGAATGAGTGATGTGGA
131 GCATGTATAGCATTATAATCCTTTTGTGTAGATAATCTTATGATATGGTGAATGAGTGATGTGGA
78300828 AATGCTTGTTGATGATTAGCTATTGGAATGTCTAATCAAAATTTATATTTAGTGTTATGTATACT
196 AATGCTTGTTGATGATTAGCTATTGGAATGTCTAATCAAAATTTATATTTAGTGTTATGTATACT
78300893 TAATGTATTACCTATTCCATGGAAAACCATAAAATGGTGAAATTGGCTATAAAATAGTGTCATAC
261 TAATGTATTACCTATTCCATGGAAAACCATAAAATGGTGAAATTGGCTATAAAATAGTGTCATAC
78300958 AGCAGCAGTTATGTAAATTTGAAAAATCATTAAAAATAGTAGAAATGGAATTAAATAATGAATAA
326 AGCAGCAGTTATGTAAATTTGAAAAATCATTAAAAATAGTAGAAATGGAATTAAATAATGAATAA
78301023 GTTATGGAATCGAAGCTTGATGAG
391 GTTATGGAATCGAAGCTTGATGAG
78301047 TCATGCTTACTCCCTCCCTTCCATTCATTGTAGTTTTGACAAGCCGGCTTGGAGAACAGGACGGT
1 TCATGCTTACTCCCTCCCTTCCATTCATTGTAGTTTTGACAAGCCGGCTTGGAGAACAGGACGGT
78301112 TGGAGGCACACTCACACTATCAACGGACCATCTCGGTAAAGTGGCTTGCATATTTTGGAAATATG
66 TGGAGGCACACTCACACTATCAACGGACCATCTCGGTAAAGTGGCTTGCATATTTTGGAAATATG
78301177 GCATGTATAGCATTATAATCCTTTTGTGTAGATAATCTTATGATATGGTGAATGAGTGATGTGGA
131 GCATGTATAGCATTATAATCCTTTTGTGTAGATAATCTTATGATATGGTGAATGAGTGATGTGGA
78301242 AATGCTTGTTGATGATTAGCTATTGGAATGTCTAATCAAAATTTATATTTAGTGTTATGTATACT
196 AATGCTTGTTGATGATTAGCTATTGGAATGTCTAATCAAAATTTATATTTAGTGTTATGTATACT
78301307 TAATGTATTACCTATTCCATGGAAAACCATAAAATGGTGAAATTGGCTATAAAATAGTGTCATAC
261 TAATGTATTACCTATTCCATGGAAAACCATAAAATGGTGAAATTGGCTATAAAATAGTGTCATAC
78301372 AGCAGCAGTTATGTAAATTTGAAAAATCATTAAAAATAGTAGAAATGGAATTAAATAATGAATAA
326 AGCAGCAGTTATGTAAATTTGAAAAATCATTAAAAATAGTAGAAATGGAATTAAATAATGAATAA
78301437 GTTATGGAATCGAAGCTTGATGAG
391 GTTATGGAATCGAAGCTTGATGAG
78301461 TC
1 TC
78301463 TATTTTCATA
Statistics
Matches: 416, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 416 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (414 bp):
TCATGCTTACTCCCTCCCTTCCATTCATTGTAGTTTTGACAAGCCGGCTTGGAGAACAGGACGGT
TGGAGGCACACTCACACTATCAACGGACCATCTCGGTAAAGTGGCTTGCATATTTTGGAAATATG
GCATGTATAGCATTATAATCCTTTTGTGTAGATAATCTTATGATATGGTGAATGAGTGATGTGGA
AATGCTTGTTGATGATTAGCTATTGGAATGTCTAATCAAAATTTATATTTAGTGTTATGTATACT
TAATGTATTACCTATTCCATGGAAAACCATAAAATGGTGAAATTGGCTATAAAATAGTGTCATAC
AGCAGCAGTTATGTAAATTTGAAAAATCATTAAAAATAGTAGAAATGGAATTAAATAATGAATAA
GTTATGGAATCGAAGCTTGATGAG
Found at i:78303958 original size:172 final size:172
Alignment explanation
Indices: 78303666--78304007 Score: 605
Period size: 172 Copynumber: 2.0 Consensus size: 172
78303656 ATAACCCCGT
* * *
78303666 TTTCAAAATCTATTCCATATGACATCACTAGATTTGACCATAACGTTTAGGCCGAGTTTGGAGTG
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
78303731 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
66 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
78303796 TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
131 TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
* *
78303838 TTTCAAAATCTATTCCATATGACATCGCTAAATTTGACCATAACATCTAGGCTGAGTTTAGG-GT
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTT-GGAGT
* *
78303902 GTTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGCATTTTGGGTTTCAAAATAT
65 GTTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATAT
78303967 GTTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTG
130 GTTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTG
78304008 ATTAAGAAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
172 160 0.99
173 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (172 bp):
TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
Found at i:78306438 original size:2 final size:2
Alignment explanation
Indices: 78306393--78306429 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
78306383 CAAAAGAAAA
*
78306393 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
78306430 AACAGAGAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:78307619 original size:38 final size:39
Alignment explanation
Indices: 78307517--78307625 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 39
78307507 GACCTCGAGT
**
78307517 CGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAGC
* * * * *
78307558 CAATGACG-TACTGGGT-ACCACTTTACTTCGGCTAG-GC
1 CGATGA-GACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
78307595 CGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
78307626 AACTATCCGA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
36 1 0.02
37 12 0.23
38 23 0.43
39 3 0.06
40 1 0.02
41 12 0.23
42 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:78316295 original size:34 final size:34
Alignment explanation
Indices: 78316242--78316309 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
78316232 GAATAGTTGA
* *
78316242 ACAGTCTTGGGCCTAAGCCCTTTTCAATATCAGTG
1 ACAGTCTTGGACCTAAGCCCATTTCAATA-CAGTG
*
78316277 ACAGT-TTGGACCTTAGCCCATTTCAATACAGTG
1 ACAGTCTTGGACCTAAGCCCATTTCAATACAGTG
78316310 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (34 bp):
ACAGTCTTGGACCTAAGCCCATTTCAATACAGTG
Found at i:78318833 original size:23 final size:23
Alignment explanation
Indices: 78318789--78318837 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
78318779 TGAGTTTTTA
*
78318789 AATGTATATATTTAATTGAATTG
1 AATGTATATATTTAATTAAATTG
*
78318812 AATGTATATAATTTGA-TAAATTG
1 AATGTATAT-ATTTAATTAAATTG
78318835 AAT
1 AAT
78318838 TATTGATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
AATGTATATATTTAATTAAATTG
Found at i:78319053 original size:23 final size:23
Alignment explanation
Indices: 78319012--78319081 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
78319002 TAACTTGTGA
**
78319012 GAGCTTACTATTTTCAGCTCAAT
1 GAGCTTACCGTTTTCAGCTCAAT
*
78319035 GGAGCTTACCG-TTTCAGCTCGTAT
1 -GAGCTTACCGTTTTCAGCTC-AAT
*
78319059 GAGCTTACTGTTTATCAGCTCAA
1 GAGCTTACCGTTT-TCAGCTCAA
78319082 GAGAAGCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 18 0.47
24 13 0.34
25 7 0.18
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTTCAGCTCAAT
Found at i:78319281 original size:20 final size:20
Alignment explanation
Indices: 78319258--78319319 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
78319248 GATTAATTAT
*
78319258 TGTTAATACAGATGAATTAC
1 TGTTAATACAGATGAACTAC
* *
78319278 TGTTATTACTGATGAACTAC
1 TGTTAATACAGATGAACTAC
* * *
78319298 TATTTATACGGATGAACTAC
1 TGTTAATACAGATGAACTAC
78319318 TG
1 TG
78319320 GTTATATGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTTAATACAGATGAACTAC
Found at i:78319332 original size:20 final size:20
Alignment explanation
Indices: 78319289--78319350 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
78319279 GTTATTACTG
* *
78319289 ATGAACTACTATTTATACGG
1 ATGAACTACTAGTTATACGA
* *
78319309 ATGAACTACTGGTTATATGA
1 ATGAACTACTAGTTATACGA
*
78319329 ATGAATTAC-AGTTTATACGA
1 ATGAACTACTAG-TTATACGA
78319349 AT
1 AT
78319351 AGAAATGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGAACTACTAGTTATACGA
Found at i:78319333 original size:40 final size:40
Alignment explanation
Indices: 78319263--78319347 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
78319253 ATTATTGTTA
* *
78319263 ATACAGATGAATTACTGTTATTACTGATGAACTACTA-TTT
1 ATACGGATGAACTACTGTTATTACTGATGAACTAC-AGTTT
*
78319303 ATACGGATGAACTACTGGTTA-TA-TGAATGAATTACAGTTT
1 ATACGGATGAACTACT-GTTATTACTG-ATGAACTACAGTTT
78319343 ATACG
1 ATACG
78319348 AATAGAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
39 3 0.08
40 32 0.82
41 4 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (40 bp):
ATACGGATGAACTACTGTTATTACTGATGAACTACAGTTT
Found at i:78322284 original size:40 final size:41
Alignment explanation
Indices: 78322232--78322328 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
78322222 TAAGTTGGTA
* *
78322232 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAACTATATCAAAC
* *
78322272 TCGCACACTTAGTGCCATTTGTAGCCGAAACTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
78322313 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
78322329 AGCATAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.88
41 6 0.12
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
Found at i:78323150 original size:17 final size:19
Alignment explanation
Indices: 78323125--78323166 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
78323115 TATTTACATA
78323125 ATAAACATT-TT-ACCATT
1 ATAAACATTGTTAACCATT
*
78323142 ATAACCATTGTTAAACCATT
1 ATAAACATTGTT-AACCATT
78323162 ATAAA
1 ATAAA
78323167 ATCACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
20 10 0.50
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAACATTGTTAACCATT
Found at i:78327630 original size:25 final size:23
Alignment explanation
Indices: 78327571--78327642 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
78327561 GGTATATCGA
78327571 TTGTGTTTGGAGGGTATACTTAG
1 TTGTGTTTGGAGGGTATACTTAG
* ** * *
78327594 TTGTATGCGGAGGTTATACATTTGG
1 TTGTGTTTGGAGGGTATAC--TTAG
* *
78327619 TTGTGTTTGGAGAGTATATTTAG
1 TTGTGTTTGGAGGGTATACTTAG
78327642 T
1 T
78327643 ATCAAATTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
23 19 0.54
25 16 0.46
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.44
Consensus pattern (23 bp):
TTGTGTTTGGAGGGTATACTTAG
Found at i:78327751 original size:6 final size:7
Alignment explanation
Indices: 78327735--78327759 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
78327725 TGTGTCGTCT
78327735 AAAAGGA
1 AAAAGGA
78327742 AAAAGGA
1 AAAAGGA
78327749 AAAAGGA
1 AAAAGGA
78327756 AAAA
1 AAAA
78327760 AAAAGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:78328075 original size:51 final size:51
Alignment explanation
Indices: 78328015--78328111 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
78328005 AAAATTAGTT
* * * *
78328015 TAAATTGTGATTATAATAAAATTTAAAAAGATAAATAAATCTTATTAAGAA
1 TAAATTGTGAGTAAAAGAAAATTTAAAAAGATAAATAAATCATATTAAGAA
78328066 TAAATTGTGAGTAAAAGAAAATTTAAAAAGATAAATAAATCATATT
1 TAAATTGTGAGTAAAAGAAAATTTAAAAAGATAAATAAATCATATT
78328112 TAAAATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (51 bp):
TAAATTGTGAGTAAAAGAAAATTTAAAAAGATAAATAAATCATATTAAGAA
Found at i:78328577 original size:16 final size:16
Alignment explanation
Indices: 78328556--78328601 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
78328546 TAATTTTATA
78328556 AATAAATTTTATTAAT
1 AATAAATTTTATTAAT
* *
78328572 AATAAAATATATT-AT
1 AATAAATTTTATTAAT
*
78328587 TA-AAATTTTATTAAT
1 AATAAATTTTATTAAT
78328602 TCCCCAGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
14 8 0.33
15 5 0.21
16 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTATTAAT
Found at i:78341750 original size:20 final size:20
Alignment explanation
Indices: 78341703--78341752 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
78341693 ATGCCACATC
78341703 AATATTCTTATCCTGAATTTT
1 AATATT-TTATCCTGAATTTT
** *
78341724 AGGATTTTATTCTGAATTTT
1 AATATTTTATCCTGAATTTT
78341744 AATATTTTA
1 AATATTTTA
78341753 ATTTGGATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (20 bp):
AATATTTTATCCTGAATTTT
Found at i:78342304 original size:28 final size:28
Alignment explanation
Indices: 78342272--78342329 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
78342262 TAATCTTAAT
78342272 GTAAACAATCAAGCAAAAAAGGAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGGAGA
*
78342300 GTAAACAATCAAGTAAAAAAGGAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGGAGA
78342328 GT
1 GT
78342330 TCCAAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.09, G:0.26, T:0.10
Consensus pattern (28 bp):
GTAAACAATCAAGCAAAAAAGGAGGAGA
Found at i:78347341 original size:24 final size:23
Alignment explanation
Indices: 78347308--78347352 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
78347298 TAAAACTATA
* *
78347308 CTAATGACAATGATAATAATAAGC
1 CTAATAACAATAATAA-AATAAGC
78347332 CTAATAACAATAATAAAATAA
1 CTAATAACAATAATAAAATAA
78347353 CAATAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (23 bp):
CTAATAACAATAATAAAATAAGC
Found at i:78347353 original size:14 final size:14
Alignment explanation
Indices: 78347334--78347360 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78347324 TAATAAGCCT
78347334 AATAACAATAATAA
1 AATAACAATAATAA
78347348 AATAACAATAATA
1 AATAACAATAATA
78347361 GTAATAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAACAATAATAA
Found at i:78350770 original size:20 final size:20
Alignment explanation
Indices: 78350742--78350779 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78350732 ATGTAAAAAA
*
78350742 TAAATTAAAAACAAAAATAT
1 TAAAATAAAAACAAAAATAT
*
78350762 TAAAATAAAAATAAAAAT
1 TAAAATAAAAACAAAAAT
78350780 GGCTAAATTA
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:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAATAAAAACAAAAATAT
Found at i:78356478 original size:15 final size:14
Alignment explanation
Indices: 78356458--78356491 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
78356448 TTGTTAGTTA
78356458 ATTTTTATTTTTATT
1 ATTTTTA-TTTTATT
78356473 ATTTTTATTTTATT
1 ATTTTTATTTTATT
78356487 -TTTTT
1 ATTTTT
78356492 CAAATTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 7 0.37
15 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTTTATTTTATT
Done.