Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 56
Found at i:8218235 original size:20 final size:20
Alignment explanation
Indices: 8218210--8218252 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8218200 TCTAAGAGCA
*
8218210 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
8218230 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
8218250 CAT
1 CAT
8218253 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:8218523 original size:27 final size:27
Alignment explanation
Indices: 8218482--8218536 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
8218472 TATTTTCACG
*
8218482 GGATCTCTGACCATGACTGAGAAATCC
1 GGATCTCTGACCATGACCGAGAAATCC
*
8218509 GGATCTCTGATCATGACCGAGAAATCC
1 GGATCTCTGACCATGACCGAGAAATCC
8218536 G
1 G
8218537 CCTGGATCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (27 bp):
GGATCTCTGACCATGACCGAGAAATCC
Found at i:8226907 original size:20 final size:20
Alignment explanation
Indices: 8226882--8226924 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8226872 TCTAAGAGCA
* *
8226882 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
8226902 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
8226922 CAT
1 CAT
8226925 CTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:8227195 original size:27 final size:27
Alignment explanation
Indices: 8227154--8227208 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
8227144 TATTTACACG
8227154 GGATCTCTGACCATGACCGAGAAATCC
1 GGATCTCTGACCATGACCGAGAAATCC
* *
8227181 GGATCTCTGATCATGACTGAGAAATCC
1 GGATCTCTGACCATGACCGAGAAATCC
8227208 G
1 G
8227209 CCTGGATCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (27 bp):
GGATCTCTGACCATGACCGAGAAATCC
Found at i:8230068 original size:84 final size:82
Alignment explanation
Indices: 8229885--8230066 Score: 328
Period size: 84 Copynumber: 2.2 Consensus size: 82
8229875 AAACTCATGT
8229885 TTTAGGATATTATTTTAAATATTATATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTTTT
1 TTTAGGATATTATTTTAAATATTATATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTTTT
8229950 AAGTGTTTTAATTAGGA
66 AAGTGTTTTAATTAGGA
* *
8229967 TTTAGGATATTACTTTTATTATATTTTATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTT
1 TTTAGGATATTA-TTTTA-AATATTATATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTT
8230032 TTAAGTGTTTTAATTAGGA
64 TTAAGTGTTTTAATTAGGA
8230051 TTTAGGATATTATTTT
1 TTTAGGATATTATTTT
8230067 TAGAATTATC
Statistics
Matches: 96, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
82 12 0.12
83 9 0.09
84 75 0.78
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.57
Consensus pattern (82 bp):
TTTAGGATATTATTTTAAATATTATATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTTTT
AAGTGTTTTAATTAGGA
Found at i:8230112 original size:84 final size:81
Alignment explanation
Indices: 8229885--8230098 Score: 308
Period size: 84 Copynumber: 2.6 Consensus size: 81
8229875 AAACTCATGT
8229885 TTTAGGATATTA-TTTTAAATATTATATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTTT
1 TTTAGGATATTATTTTTAAATA-T-TATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTTT
8229949 TAAGTGTTTTAATTAGGA
64 TAAGTGTTTTAATTAGGA
* *
8229967 TTTAGGATATTACTTTTATTATATTTTATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTT
1 TTTAGGATATTA--TTT-TTAAATATTATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTT
8230032 TTAAGTGTTTTAATTAGGA
63 TTAAGTGTTTTAATTAGGA
* *
8230051 TTTAGGATATTATTTTTAGA-ATTATCTTTAGC-TTGTTTTTAGGAATTT
1 TTTAGGATATTATTTTTAAATATTAT-TTTATCTTTG-TTTTAGGAATTT
8230099 GAAGGCTATA
Statistics
Matches: 121, Mismatches: 5, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
80 7 0.06
81 21 0.17
82 15 0.12
84 70 0.58
85 3 0.02
86 5 0.04
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (81 bp):
TTTAGGATATTATTTTTAAATATTATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGTTTTA
AGTGTTTTAATTAGGA
Found at i:8230828 original size:19 final size:19
Alignment explanation
Indices: 8230801--8230862 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
8230791 TTACCATAAT
* *
8230801 TTTTCTTTATCCTAATCTA
1 TTTTATTTATCTTAATCTA
8230820 TTTTATTTAT-TTAAT-TA
1 TTTTATTTATCTTAATCTA
*
8230837 -TTTATTTAATCTTTATCT-
1 TTTTATTT-ATCTTAATCTA
8230855 TTTTATTT
1 TTTTATTT
8230863 CTTTAAACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 8 0.22
19 17 0.47
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATTTATCTTAATCTA
Found at i:8230839 original size:12 final size:12
Alignment explanation
Indices: 8230822--8230846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8230812 CTAATCTATT
8230822 TTATTTATTTAA
1 TTATTTATTTAA
8230834 TTATTTATTTAA
1 TTATTTATTTAA
8230846 T
1 T
8230847 CTTTATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:8230960 original size:20 final size:20
Alignment explanation
Indices: 8230901--8230962 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
8230891 ATCTTTAGCA
*
8230901 TTATATTTATTTA--TTATT
1 TTATAATTATTTATTTTATT
*
8230919 TTATTATTATTT-TTCCTT-TT
1 TTATAATTATTTATT--TTATT
8230939 TTATAATTATTTATTTTATT
1 TTATAATTATTTATTTTATT
8230959 TTAT
1 TTAT
8230963 TATATCTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 10 0.29
19 2 0.06
20 19 0.54
21 4 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATAATTATTTATTTTATT
Found at i:8232065 original size:2 final size:2
Alignment explanation
Indices: 8232058--8232173 Score: 126
Period size: 2 Copynumber: 58.5 Consensus size: 2
8232048 ATGTGATTAC
* * *
8232058 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CC CT CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
8232100 CT CC CT CT CC CT CT CC CT CT CC CT CT CC CT CC CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
8232142 CC CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8232174 ATTTTATTAA
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
1 1 0.01
2 92 0.99
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:8234090 original size:20 final size:21
Alignment explanation
Indices: 8234042--8234091 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
8234032 GTACTATACT
* *
8234042 TGAAATTT-ATGTTAGAGTGT
1 TGAAATTTGATGTTAGAATGA
8234062 TGAAA-TTGATGTTAGAAT-A
1 TGAAATTTGATGTTAGAATGA
8234081 TGAAATTTGAT
1 TGAAATTTGAT
8234092 CATTTTGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (21 bp):
TGAAATTTGATGTTAGAATGA
Found at i:8235186 original size:65 final size:64
Alignment explanation
Indices: 8235116--8235240 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 64
8235106 CACACTAGGG
* ** *
8235116 GTGCATCGATGCATAAAATACATTCAATGTTTGAAATGAGCCTGGAGTGCATCGATGCATGGTCT
1 GTGCATCGATACATAAAATACATTCAATGTTCAAAAT-AGCCAGGAGTGCATCGATGCATGGTCT
* * * **
8235181 GTGCATCGGTACATAAATTGCATTCAATGTTCAAAATATTCAGGAGTGCATCGATGCATG
1 GTGCATCGATACATAAAATACATTCAATGTTCAAAATAGCCAGGAGTGCATCGATGCATG
8235241 CCTCGTGCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
64 20 0.39
65 31 0.61
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATACATAAAATACATTCAATGTTCAAAATAGCCAGGAGTGCATCGATGCATGGTCT
Found at i:8235962 original size:16 final size:16
Alignment explanation
Indices: 8235920--8235964 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
8235910 ATATATTAAG
8235920 TTCAAACATCC-AACA
1 TTCAAACATCCAAACA
* *
8235935 TCCATAATATCCAAACA
1 TTCA-AACATCCAAACA
8235952 TTCAAACATCCAA
1 TTCAAACATCCAA
8235965 TCCAAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.58
17 7 0.29
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
TTCAAACATCCAAACA
Found at i:8237943 original size:23 final size:21
Alignment explanation
Indices: 8237854--8237947 Score: 72
Period size: 23 Copynumber: 4.5 Consensus size: 21
8237844 TGATGGGTGT
*
8237854 ATCGATGCACA-GC-AGA-GC
1 ATCGATGCACATTCAAGATGC
8237872 ATCGATGCACATTCAACGAGTGC
1 ATCGATGCACATTCAA-GA-TGC
* * *
8237895 ATCGGTGCATC-TTC-ATATGT
1 ATCGATGCA-CATTCAAGATGC
8237915 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAA--GATGC
8237938 ATCGATGCAC
1 ATCGATGCAC
8237948 TGTCTAGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
18 11 0.19
19 2 0.03
20 14 0.24
21 4 0.07
22 1 0.02
23 26 0.44
24 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (21 bp):
ATCGATGCACATTCAAGATGC
Found at i:8238181 original size:3 final size:3
Alignment explanation
Indices: 8238173--8238205 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
8238163 ATTAAAAGTG
8238173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8238206 AAGCATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:8243757 original size:64 final size:65
Alignment explanation
Indices: 8243633--8243788 Score: 201
Period size: 64 Copynumber: 2.4 Consensus size: 65
8243623 TACACTAAGG
* * * * *
8243633 GTGTATCGATGCATAAAATACATTCGATGTTTCAAATGAGTCTGGAGTGCATCGATGCATG-GTC
1 GTGTATCGATACACAAAATGCATTCGATGTTTCAAATGAGTCAGGAGTGCATCGATGCATGCCT-
8243697 T
65 T
* *
8243698 GTGTATCGGTACACAAAATGCATTCGATG-TTCAAAAT-ATTCAGGAGTGCATCGATGCATGCCT
1 GTGTATCGATACACAAAATGCATTCGATGTTTC-AAATGAGTCAGGAGTGCATCGATGCATGCCT
8243761 T
65 T
*
8243762 GTGCATCGATACACAAAATGCATTCGA
1 GTGTATCGATACACAAAATGCATTCGA
8243789 AATATTAATT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 50 0.62
65 30 0.38
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (65 bp):
GTGTATCGATACACAAAATGCATTCGATGTTTCAAATGAGTCAGGAGTGCATCGATGCATGCCTT
Found at i:8246922 original size:22 final size:22
Alignment explanation
Indices: 8246894--8246952 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
8246884 TTTTATGAAT
8246894 AGTACCGTGAACAGTAATAAAC
1 AGTACCGTGAACAGTAATAAAC
8246916 AGTACCGTGAACAGTAATAAAC
1 AGTACCGTGAACAGTAATAAAC
*
8246938 AATACCGTGAACAGT
1 AGTACCGTGAACAGT
8246953 GAACAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (22 bp):
AGTACCGTGAACAGTAATAAAC
Found at i:8252324 original size:21 final size:21
Alignment explanation
Indices: 8252298--8252337 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8252288 TAAAATGTGT
*
8252298 ATCGATGCACCGCTACAGTGC
1 ATCGATGCACCACTACAGTGC
*
8252319 ATCGATGCACTACTACAGT
1 ATCGATGCACCACTACAGT
8252338 AATTTCAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGATGCACCACTACAGTGC
Found at i:8252766 original size:20 final size:20
Alignment explanation
Indices: 8252741--8252803 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
8252731 TTTCTTACCA
**
8252741 ATATACTTGTCATTTATCCC
1 ATATACTTACCATTTATCCC
8252761 ATATACTTACCATTTATCCC
1 ATATACTTACCATTTATCCC
*
8252781 ATATACTTACCATTTATTCC
1 ATATACTTACCATTTATCCC
8252801 ATA
1 ATA
8252804 AGCTCGTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATACTTACCATTTATCCC
Found at i:8252862 original size:46 final size:45
Alignment explanation
Indices: 8252781--8252956 Score: 255
Period size: 46 Copynumber: 3.9 Consensus size: 45
8252771 CATTTATCCC
* *
8252781 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTGCCA
1 ATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCA
* *
8252826 ATATACTTACCATTTAATCTCATAAGATCGTAAGCTTATTTTACAA
1 ATATACTTACCATTTAATC-CATAAGCTCGTAAGCTTATTTTACCA
*
8252872 ATATACTTACCATTTAATCTCATAAGCTCGTAAGTTTATTTTACCA
1 ATATACTTACCATTTAATC-CATAAGCTCGTAAGCTTATTTTACCA
* * *
8252918 ATATACTTACCA-TTATTCCATAGGCTCGTAAGCATATTT
1 ATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATTT
8252957 GCATACTTAC
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
44 18 0.15
45 23 0.19
46 78 0.66
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (45 bp):
ATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCA
Found at i:8253151 original size:61 final size:61
Alignment explanation
Indices: 8253066--8253180 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
8253056 GTAGTGCTAA
* *
8253066 ACCTGCACTAAGCTTACACCATAGTGTTAATCCGGATAAT-ACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCGGA-AATGACACATAAGGTCGTGCCCACC
* * * *
8253127 ACCTACACTAAGCTTACGCTATAGTGCTAATCCGGACATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCGGAAATGACACATAAGGTCGT
8253181 ATCCACCTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 2 0.04
61 45 0.96
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACCATAGTGCTAATCCGGAAATGACACATAAGGTCGTGCCCACC
Found at i:8253440 original size:31 final size:31
Alignment explanation
Indices: 8253384--8253442 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
8253374 ATATTCATGG
*
8253384 TAAAATATCACATTATTCATGATCAATGCAT
1 TAAAATATCACATTATACATGATCAATGCAT
*
8253415 TAAAATTTCACATTATGACAT-ATCAATG
1 TAAAATATCACATTAT-ACATGATCAATG
8253443 TCATATCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (31 bp):
TAAAATATCACATTATACATGATCAATGCAT
Found at i:8261647 original size:18 final size:18
Alignment explanation
Indices: 8261614--8261660 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8261604 CATGAATCGG
* *
8261614 TCTCTATCTCTGTCTCAA
1 TCTCTATCCCTATCTCAA
* *
8261632 TCTCTGTCCCTATCTCGA
1 TCTCTATCCCTATCTCAA
8261650 TCTCTATCCCT
1 TCTCTATCCCT
8261661 TCTATGCTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.38, G:0.06, T:0.43
Consensus pattern (18 bp):
TCTCTATCCCTATCTCAA
Found at i:8261656 original size:12 final size:12
Alignment explanation
Indices: 8261613--8261657 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
8261603 TCATGAATCG
8261613 GTCTCTATCTCT
1 GTCTCTATCTCT
*
8261625 GTCTCAATCTCT
1 GTCTCTATCTCT
*
8261637 GTCCCTATCTC-
1 GTCTCTATCTCT
8261648 GATCTCTATC
1 G-TCTCTATC
8261658 CCTTCTATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 1 0.04
12 27 0.96
ACGTcount: A:0.13, C:0.36, G:0.09, T:0.42
Consensus pattern (12 bp):
GTCTCTATCTCT
Found at i:8266270 original size:9 final size:9
Alignment explanation
Indices: 8266256--8266293 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
8266246 TAAACTCAGT
8266256 TTACAAACA
1 TTACAAACA
8266265 TTACAAACA
1 TTACAAACA
8266274 TGTA-AAACA
1 T-TACAAACA
8266283 TTACAAACA
1 TTACAAACA
8266292 TT
1 TT
8266294 CGTTGAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.07
9 23 0.85
10 2 0.07
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (9 bp):
TTACAAACA
Found at i:8272566 original size:21 final size:19
Alignment explanation
Indices: 8272542--8272586 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
8272532 AATAATAATA
8272542 AATAATGATAATAAAATAAGT
1 AATAAT-ATAA-AAAATAAGT
*
8272563 AATAAATATAAAAAATATGT
1 AAT-AATATAAAAAATAAGT
8272583 AATA
1 AATA
8272587 TTAATAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 7 0.32
22 3 0.14
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (19 bp):
AATAATATAAAAAATAAGT
Found at i:8272963 original size:117 final size:118
Alignment explanation
Indices: 8272729--8272989 Score: 305
Period size: 117 Copynumber: 2.2 Consensus size: 118
8272719 CATGGAGCTG
* * *
8272729 CAAGTTCTTCTCATTATGAA---CTTCTCCCTCGGTGGTCAAGTTCTTCTCCTTACAAACTTTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGGTGGACAAGTTATTCTCATTACAAACTTTCC
* * * * * * *
8272791 ATTGATAATATTGATTCACCTCCTTTTATGATGGATTTGAGCGAAATGTCGAA
66 ATTGATAATATTGATCCACCTCCTTCTACGATAGATTTGAGCAAAAAGTCAAA
* * * **
8272844 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTGGACTAGTTATTCTTATTATGAACTTTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGGTGGACAAGTTATTCTCATTACAAACTTTCC
* * *
8272909 ATT-ATATTGTTGATCCACCTCCTTCTGCGATAGATTTGAGCAAAAAGTCAAA
66 ATTGATAATATTGATCCACCTCCTTCTACGATAGATTTGAGCAAAAAGTCAAA
* * *
8272961 CAATTTTTTCTTATTATGAACTTCTTCTC
1 CAAGTTCTTCTCATTATGAACTTCTTCTC
8272990 TTTTCATGGA
Statistics
Matches: 122, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
115 20 0.16
117 65 0.53
118 37 0.30
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (118 bp):
CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGGTGGACAAGTTATTCTCATTACAAACTTTCC
ATTGATAATATTGATCCACCTCCTTCTACGATAGATTTGAGCAAAAAGTCAAA
Found at i:8273016 original size:117 final size:118
Alignment explanation
Indices: 8272729--8273019 Score: 288
Period size: 117 Copynumber: 2.5 Consensus size: 118
8272719 CATGGAGCTG
** * * * *
8272729 CAAGTTCTTCTCATTATGAA---CTTCTCCCTCGGTGGTCAAGTTCTTCTCCTTACAAACTTTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATGGACTAGTTCTTCTCATTATAAACTTTCC
* * * * * * *
8272791 ATTGATAATATTGATTCACCTCCTTTTATGATGGATTTGAGCGAAATGTCGAA
66 ATTGATAATATTGATCCACCTCCTTCTACGATAGATTTGAGCAAAAAGTCAAA
* * * *
8272844 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTGGACTAGTTATTCTTATTATGAACTTTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATGGACTAGTTCTTCTCATTATAAACTTTCC
* * *
8272909 ATT-ATATTGTTGATCCACCTCCTTCTGCGATAGATTTGAGCAAAAAGTCAAA
66 ATTGATAATATTGATCCACCTCCTTCTACGATAGATTTGAGCAAAAAGTCAAA
* * * * * *
8272961 CAATTTTTTCTTATTATGAACTTCTTCT-CTTTTCATGGA-TGATTTCTTCTCATTATAAA
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCT-ATGGACT-AGTTCTTCTCATTATAAA
8273020 ATCCCTTTAA
Statistics
Matches: 143, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
115 20 0.14
116 4 0.03
117 82 0.57
118 37 0.26
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (118 bp):
CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATGGACTAGTTCTTCTCATTATAAACTTTCC
ATTGATAATATTGATCCACCTCCTTCTACGATAGATTTGAGCAAAAAGTCAAA
Found at i:8273587 original size:16 final size:15
Alignment explanation
Indices: 8273551--8273586 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
8273541 TTTACTTTGG
8273551 TTTTTCAATCTTTTC
1 TTTTTCAATCTTTTC
8273566 TTTTTCATATCCTTTTC
1 TTTTTCA-AT-CTTTTC
8273583 TTTT
1 TTTT
8273587 CCTTCTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTCAATCTTTTC
Found at i:8282781 original size:21 final size:20
Alignment explanation
Indices: 8282737--8282810 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
8282727 TTCATGGTGC
8282737 AAAGTTTTGAAACTCTTACA
1 AAAGTTTTGAAACTCTTACA
* *
8282757 AAAGTTTTGAAAGTCTTTTCA
1 AAAGTTTTGAAACTC-TTACA
* * *
8282778 AAAGGTTTCAAACTCCTAC-
1 AAAGTTTTGAAACTCTTACA
*
8282797 AAAGTTTTCAAACT
1 AAAGTTTTGAAACT
8282811 ATGAATAGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 13 0.29
20 16 0.36
21 16 0.36
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (20 bp):
AAAGTTTTGAAACTCTTACA
Found at i:8287985 original size:35 final size:35
Alignment explanation
Indices: 8287939--8288037 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 35
8287929 TCACCATATA
* ***
8287939 CACTAAGTGTCTTTTGTATACACTCTAGTGTTTTG
1 CACTATGTGTCTTTTGTATACACTCTAGTGACCTG
*
8287974 CACTATGTGTCTTTTCTATACACTCTAGT-ACCTG
1 CACTATGTGTCTTTTGTATACACTCTAGTGACCTG
* *
8288008 GAATATGTGTC-TTTGTTATACACTCTAGTG
1 CACTATGTGTCTTTTG-TATACACTCTAGTG
8288038 CTACAAGTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.06
34 24 0.44
35 27 0.50
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (35 bp):
CACTATGTGTCTTTTGTATACACTCTAGTGACCTG
Found at i:8288020 original size:34 final size:34
Alignment explanation
Indices: 8287945--8288037 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
8287935 TATACACTAA
*** *
8287945 GTGTCTTTTGTATACACTCTAGTGTTTTGCACTAT
1 GTGTCTTTT-TATACACTCTAGTGACCTGCAATAT
*
8287980 GTGTCTTTTCTATACACTCTAGT-ACCTGGAATAT
1 GTGTCTTTT-TATACACTCTAGTGACCTGCAATAT
8288014 GTGTCTTTGTTATACACTCTAGTG
1 GTGTCTTT-TTATACACTCTAGTG
8288038 CTACAAGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 27 0.54
35 23 0.46
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.45
Consensus pattern (34 bp):
GTGTCTTTTTATACACTCTAGTGACCTGCAATAT
Found at i:8309427 original size:21 final size:21
Alignment explanation
Indices: 8309401--8309440 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8309391 CAGAACCCCA
*
8309401 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
8309422 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
8309441 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:8309475 original size:20 final size:21
Alignment explanation
Indices: 8309421--8309483 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
8309411 GATTCCCCTG
8309421 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
8309445 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
8309465 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
8309484 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:8313326 original size:22 final size:21
Alignment explanation
Indices: 8313284--8313323 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8313274 GAGTTTGTTT
*
8313284 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8313305 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8313324 ACAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8318001 original size:29 final size:29
Alignment explanation
Indices: 8317887--8318002 Score: 101
Period size: 31 Copynumber: 3.9 Consensus size: 29
8317877 TATTTTTTTG
** *
8317887 AAAATTGTA-ATTTTGGTCCCTAAACTTTT
1 AAAATT-TATATTTTGGTCATTAAACTTTC
* *
8317916 AGAAAATTACTATTTTGGTCCTTAAACTTTTC
1 A-AAATTTA-TATTTTGGTCATTAAAC-TTTC
*
8317948 TAATATTTATATTTTGG-CTATTAAACTTTC
1 -AAAATTTATATTTTGGTC-ATTAAACTTTC
*
8317978 AAAATTTATATTTTGGTCAATAAAC
1 AAAATTTATATTTTGGTCATTAAAC
8318003 AAAGTTTGGG
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
29 24 0.33
30 10 0.14
31 29 0.40
32 8 0.11
33 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.46
Consensus pattern (29 bp):
AAAATTTATATTTTGGTCATTAAACTTTC
Found at i:8321289 original size:2 final size:2
Alignment explanation
Indices: 8321278--8321332 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
8321268 AATTAAATCG
8321278 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8321319 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
8321333 AACGCATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8323078 original size:29 final size:29
Alignment explanation
Indices: 8323045--8323111 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
8323035 TATAGGTTTC
*
8323045 CAACTTTTCCGTATTTATGATTTTATCCT
1 CAACTTTTCCATATTTATGATTTTATCCT
8323074 CAACTTTTCCATATTTATGATTTTATCCT
1 CAACTTTTCCATATTTATGATTTTATCCT
8323103 CAACTTTTC
1 CAACTTTTC
8323112 TCAACTTCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.51
Consensus pattern (29 bp):
CAACTTTTCCATATTTATGATTTTATCCT
Found at i:8326830 original size:22 final size:22
Alignment explanation
Indices: 8326805--8326860 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
8326795 TTCAAGCATG
*
8326805 GGTTTCGAAACCAACCTAAGGT
1 GGTTTTGAAACCAACCTAAGGT
**
8326827 GGTTTTGAAACCTGCCTAAGGT
1 GGTTTTGAAACCAACCTAAGGT
*
8326849 GATTTTGAAACC
1 GGTTTTGAAACC
8326861 TGAATATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (22 bp):
GGTTTTGAAACCAACCTAAGGT
Found at i:8326861 original size:22 final size:22
Alignment explanation
Indices: 8326819--8326862 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8326809 TCGAAACCAA
*
8326819 CCTAAGGTGGTTTTGAAACCTG
1 CCTAAGGTGATTTTGAAACCTG
8326841 CCTAAGGTGATTTTGAAACCTG
1 CCTAAGGTGATTTTGAAACCTG
8326863 AATATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (22 bp):
CCTAAGGTGATTTTGAAACCTG
Found at i:8327466 original size:13 final size:13
Alignment explanation
Indices: 8327448--8327484 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8327438 AACCTCCCTA
*
8327448 AAACCAATTTTTG
1 AAACCAATTCTTG
8327461 AAACCAATTCTTG
1 AAACCAATTCTTG
8327474 AAACCAATTCT
1 AAACCAATTCT
8327485 AAAATTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (13 bp):
AAACCAATTCTTG
Found at i:8330531 original size:19 final size:20
Alignment explanation
Indices: 8330507--8330557 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8330497 AATTGAATTA
* *
8330507 GTATCGATACTGA-AGTAGG
1 GTATCGATACTAAGAGTAAG
*
8330526 GTATCGATACCAAGAGTAAG
1 GTATCGATACTAAGAGTAAG
8330546 GTATCGATACTA
1 GTATCGATACTA
8330558 TTATTGAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (20 bp):
GTATCGATACTAAGAGTAAG
Found at i:8331252 original size:23 final size:24
Alignment explanation
Indices: 8331200--8331254 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
8331190 GTCGAGGATT
*
8331200 TTATGTGGTCCTTCGGGACAAAAC
1 TTATGTGGTCCTTCAGGACAAAAC
* *
8331224 TT-TGTGGTCCTTTAGGAC-AATC
1 TTATGTGGTCCTTCAGGACAAAAC
8331246 TTATGTGGT
1 TTATGTGGT
8331255 TTTTTTGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 20 0.74
24 2 0.07
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.38
Consensus pattern (24 bp):
TTATGTGGTCCTTCAGGACAAAAC
Found at i:8332391 original size:45 final size:45
Alignment explanation
Indices: 8332340--8332561 Score: 358
Period size: 46 Copynumber: 4.9 Consensus size: 45
8332330 AATTTCTTAT
*
8332340 CAATATACTTACCATTTATCCCATAAGCTCGTAAGTTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
8332385 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTA-TTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
8332429 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCGTATTTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTA-TTTTAC
8332475 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTA-TTTTAC
* * * *
8332521 CAATATACTTTCCA-TTATTCCATAAGTTCATAAGCTTATTT
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTT
8332562 ACATGGTTAC
Statistics
Matches: 168, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
44 46 0.27
45 59 0.35
46 63 0.38
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (45 bp):
CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:8332491 original size:46 final size:46
Alignment explanation
Indices: 8332331--8332561 Score: 362
Period size: 45 Copynumber: 5.1 Consensus size: 46
8332321 ATAATATAAA
* *
8332331 ATTTCTTATCAATATACTTACCATTTATCCCATAAGCTCGTAAGTTT
1 ATTT-TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
8332378 A-TTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
1 ATTTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
*
8332423 A--TTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCGT
1 ATTTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
8332467 ATTTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
1 ATTTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
* * * *
8332513 ATTTTTACCAATATACTTTCCA-TTATTCCATAAGTTCATAAGCTT
1 ATTTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
8332558 ATTT
1 ATTT
8332562 ACATGGTTAC
Statistics
Matches: 174, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
44 43 0.25
45 65 0.37
46 65 0.37
47 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (46 bp):
ATTTTTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTT
Found at i:8332831 original size:40 final size:40
Alignment explanation
Indices: 8332666--8332815 Score: 255
Period size: 40 Copynumber: 3.8 Consensus size: 40
8332656 ACCGTAGTGC
*
8332666 TACACATAAGCTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
8332706 TACACATAAGGTCGTTCCCACCATATACACCGAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
8332746 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
8332786 TACACATAAGGTCATTCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
8332816 TTAGTGTCCT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:8332831 original size:80 final size:80
Alignment explanation
Indices: 8332666--8332815 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
8332656 ACCGTAGTGC
*
8332666 TACACATAAGCTCGTGCCCACCATATACACCGAAGTGTATTACACATAAGGTCGTTCCCACCATA
1 TACACATAAGCTCGTGCCCACCATATACACCGAAGTGTATTACACATAAGGTCATTCCCACCATA
8332731 TACACCGAAGTATAT
66 TACACCGAAGTATAT
*
8332746 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATTACACATAAGGTCATTCCCACCATA
1 TACACATAAGCTCGTGCCCACCATATACACCGAAGTGTATTACACATAAGGTCATTCCCACCATA
8332811 TACAC
66 TACAC
8332816 TTAGTGTCCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (80 bp):
TACACATAAGCTCGTGCCCACCATATACACCGAAGTGTATTACACATAAGGTCATTCCCACCATA
TACACCGAAGTATAT
Found at i:8333166 original size:24 final size:24
Alignment explanation
Indices: 8333134--8333179 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8333124 CTTCCTGATG
8333134 ATGTATAAAACATCTACGTACATA
1 ATGTATAAAACATCTACGTACATA
*
8333158 ATGTATAAAACATCTATGTACA
1 ATGTATAAAACATCTACGTACA
8333180 ATGTCATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (24 bp):
ATGTATAAAACATCTACGTACATA
Found at i:8333776 original size:30 final size:30
Alignment explanation
Indices: 8333721--8333784 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
8333711 CATTCACAAT
* * *
8333721 TTTTCTAAAATTATTAAATTGGTCCCCTAAC
1 TTTTCAAAAATTATTAAAATGGT-CCCTAAA
8333752 TTTTCAAAAATTA-TAAAATGGTCCCTAAA
1 TTTTCAAAAATTATTAAAATGGTCCCTAAA
8333781 TTTT
1 TTTT
8333785 ATATGGCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 10 0.33
30 8 0.27
31 12 0.40
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (30 bp):
TTTTCAAAAATTATTAAAATGGTCCCTAAA
Found at i:8336321 original size:20 final size:20
Alignment explanation
Indices: 8336298--8336336 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8336288 ACTGGTTGGA
8336298 GTTGACTCCA-ACCGGTTCAG
1 GTTGACT-CAGACCGGTTCAG
8336318 GTTGACTCAGACCGGTTCA
1 GTTGACTCAGACCGGTTCA
8336337 AGTTAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (20 bp):
GTTGACTCAGACCGGTTCAG
Found at i:8343433 original size:2 final size:2
Alignment explanation
Indices: 8343426--8343452 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8343416 TCAATCTACA
8343426 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8343453 ATTTACGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8343665 original size:77 final size:75
Alignment explanation
Indices: 8343523--8343679 Score: 233
Period size: 77 Copynumber: 2.1 Consensus size: 75
8343513 CAATGACACG
* * *
8343523 CAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGTCAAGTAGATTTATG
1 CAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGTCAACTAGATATATG
8343588 ACGGGGGACGTT
66 ACGGGGG-C-TT
* * **
8343600 CAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTGTGTCATCTTTATATATG
1 CAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGTCAACTAGATATATG
8343665 ACGGGGGCTT
66 ACGGGGGCTT
8343675 CAATG
1 CAATG
8343680 ACGCTCAATG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
75 7 0.10
76 1 0.01
77 65 0.89
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (75 bp):
CAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGTCAACTAGATATATG
ACGGGGGCTT
Found at i:8344339 original size:19 final size:19
Alignment explanation
Indices: 8344315--8344359 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
8344305 GAGAGAAGTC
* *
8344315 ATCCTCTGTGTGAGGTGCT
1 ATCCTCTGCGTGAGATGCT
*
8344334 ATCCTCTGCGTGAGATGTT
1 ATCCTCTGCGTGAGATGCT
8344353 ATCCTCT
1 ATCCTCT
8344360 ACAAGAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.38
Consensus pattern (19 bp):
ATCCTCTGCGTGAGATGCT
Found at i:8353928 original size:135 final size:135
Alignment explanation
Indices: 8353684--8353933 Score: 340
Period size: 135 Copynumber: 1.8 Consensus size: 135
8353674 TGTCAAAAAA
* * * * * *
8353684 AAAACAATAAGGTTACATTTGACAATATTGTCAAACGTTAGGGGTATTTTGTTGCATTATGTCAA
1 AAAACAATAAGATTAAATTTGACAATATTGTCAAACATTAGGGGTATTTTATTGCATCATGCCAA
*
8353749 AATCATATATATATATAACATATCATATATGCATTTGTGTGTGTGTATATATATATATGGTCAAA
66 AATCATATATATATATAACATATCATATATGCA-TTGTGCGTGTGTATATATATATATGGTCAAA
8353814 TGTGTC
130 TGTGTC
* *
8353820 AAAA-AATAAGATTAAATTTGATAATATTTTCAAACATTAGGGGTATTTTATTGCATCATGCCAA
1 AAAACAATAAGATTAAATTTGACAATATTGTCAAACATTAGGGGTATTTTATTGCATCATGCCAA
* *
8353884 CATTATATATATATATATATAACATATCATATATGCATTCGTGTGTGTGT
66 -A--AT-CATATATATATATAACATATCATATATGCATT-GTGCGTGTGT
8353934 GTGTGTGTGT
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
135 52 0.52
136 5 0.05
138 4 0.04
139 39 0.39
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (135 bp):
AAAACAATAAGATTAAATTTGACAATATTGTCAAACATTAGGGGTATTTTATTGCATCATGCCAA
AATCATATATATATATAACATATCATATATGCATTGTGCGTGTGTATATATATATATGGTCAAAT
GTGTC
Found at i:8355724 original size:13 final size:13
Alignment explanation
Indices: 8355706--8355731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8355696 CACATATCAT
8355706 ACAAATGTTAGTA
1 ACAAATGTTAGTA
8355719 ACAAATGTTAGTA
1 ACAAATGTTAGTA
8355732 TACTTTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
ACAAATGTTAGTA
Found at i:8365041 original size:17 final size:17
Alignment explanation
Indices: 8365007--8365048 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8364997 CCATTCATTT
* *
8365007 TCTTT-GAGATAAATTC
1 TCTTTCGAGAAAAACTC
8365023 TCTTTCGAGAAAAACTC
1 TCTTTCGAGAAAAACTC
*
8365040 TCGTTCGAG
1 TCTTTCGAG
8365049 CAACAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (17 bp):
TCTTTCGAGAAAAACTC
Found at i:8375711 original size:22 final size:22
Alignment explanation
Indices: 8375683--8375729 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
8375673 GTTTTTCTGC
*
8375683 TTTCGAATAGAAAAGTAATAGT
1 TTTCGAATAGAAAAATAATAGT
8375705 TTTCGAATAGAAAAATAATAGT
1 TTTCGAATAGAAAAATAATAGT
8375727 TTT
1 TTT
8375730 TGAAAACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (22 bp):
TTTCGAATAGAAAAATAATAGT
Found at i:8395169 original size:23 final size:23
Alignment explanation
Indices: 8395128--8395172 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8395118 TATTTTTATA
**
8395128 TTTTATTTTAAATTTTAAATAAT
1 TTTTATTTTAAATAATAAATAAT
*
8395151 TTTTATTTTTAATAATAAATAA
1 TTTTATTTTAAATAATAAATAA
8395173 ACCCTTAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTATTTTAAATAATAAATAAT
Found at i:8395170 original size:30 final size:29
Alignment explanation
Indices: 8395112--8395170 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
8395102 GGGGTGTATA
**
8395112 TTTAAATATTTTTATATTTTATTTTAAAT
1 TTTAAATATTTTTATATTTTATAATAAAT
8395141 TTTAAATAATTTTTAT-TTTTAATAATAAAT
1 TTTAAAT-ATTTTTATATTTT-ATAATAAAT
8395171 AAACCCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTAAATATTTTTATATTTTATAATAAAT
Found at i:8395277 original size:21 final size:21
Alignment explanation
Indices: 8395251--8395291 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8395241 TATCAACAGC
8395251 CACCGTGAAATATCACATCAG
1 CACCGTGAAATATCACATCAG
*
8395272 CACCGTGAATTATCACATCA
1 CACCGTGAAATATCACATCA
8395292 ATATCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (21 bp):
CACCGTGAAATATCACATCAG
Found at i:8396607 original size:157 final size:158
Alignment explanation
Indices: 8396419--8396771 Score: 482
Period size: 157 Copynumber: 2.3 Consensus size: 158
8396409 TTTTGTAAAA
* * * * *
8396419 AAAAAGA-GACTTAAAATAAATCACAAATTGAAGGAATAAGGAGATTATGAAAAATTGAAGGACT
1 AAAAAGATGACTTAAAATGAATGACGAATTGAAGAAATAAGGAGACTATGAAAAATTGAAGGACT
* * *
8396483 AAACTGAAAACT-AAAAATTTGTTATCAAAAAGTGGAATTGAAAATA-AGCATGTAATCTACTAT
66 AAACTGAAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAATAGA-CATGTAATCTACTAT
* * *
8396546 GGTTTAGGATCATGTGGCTCAAATTTGGT
130 AGTTTAGGAGCATGTCGCTCAAATTTGGT
* *
8396575 AAAAAGATGACTTAAAATGAATGATGAATTGAAGAAATAAGGAGACTATGAAAAATTGAATGACT
1 AAAAAGATGACTTAAAATGAATGACGAATTGAAGAAATAAGGAGACTATGAAAAATTGAAGGACT
* * *
8396640 AAATTGAAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAGTAGACATGTATTCTACTATA
66 AAACTGAAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAATAGACATGTAATCTACTATA
*
8396705 GTTTAGGAGCATGTCGTTCAAATTTGGT
131 GTTTAGGAGCATGTCGCTCAAATTTGGT
* *
8396733 -AAAA-ATGGACTTAAAATGAAGGAGGAATTGAAGAAATAA
1 AAAAAGAT-GACTTAAAATGAATGACGAATTGAAGAAATAA
8396772 TGAAATCAGA
Statistics
Matches: 174, Mismatches: 19, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
156 9 0.05
157 94 0.54
158 70 0.40
159 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (158 bp):
AAAAAGATGACTTAAAATGAATGACGAATTGAAGAAATAAGGAGACTATGAAAAATTGAAGGACT
AAACTGAAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAATAGACATGTAATCTACTATA
GTTTAGGAGCATGTCGCTCAAATTTGGT
Found at i:8398332 original size:13 final size:12
Alignment explanation
Indices: 8398301--8398335 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
8398291 ACTTTCATCT
*
8398301 TTCACTTTCACA
1 TTCATTTTCACA
8398313 TTCATTTTCACA
1 TTCATTTTCACA
8398325 TATCATTTTCA
1 T-TCATTTTCA
8398336 TAACCAGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (12 bp):
TTCATTTTCACA
Found at i:8404431 original size:21 final size:20
Alignment explanation
Indices: 8404397--8404437 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8404387 AACTGTAATT
**
8404397 TAAAATATTTCTTTATTCTAA
1 TAAAATATAACTTTA-TCTAA
8404418 TAAAATATAACTTTATCTAA
1 TAAAATATAACTTTATCTAA
8404438 AACACAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAATATAACTTTATCTAA
Found at i:8404945 original size:13 final size:12
Alignment explanation
Indices: 8404914--8404948 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
8404904 ATTTTCGTCT
8404914 TTCATTTTCACA
1 TTCATTTTCACA
8404926 TTCATTTTCACA
1 TTCATTTTCACA
8404938 TCTCATTTTCA
1 T-TCATTTTCA
8404949 TAACCAGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (12 bp):
TTCATTTTCACA
Found at i:8415174 original size:21 final size:22
Alignment explanation
Indices: 8415141--8415181 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8415131 GGTTAAAATA
8415141 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
8415163 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
8415182 CAAATTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:8415968 original size:77 final size:77
Alignment explanation
Indices: 8415828--8415971 Score: 209
Period size: 77 Copynumber: 1.9 Consensus size: 77
8415818 TAAAAATAAT
* * * * *
8415828 ATAATATTCTAAATCCTAATAAAAATATTAAAACCTATTTAAACTAAAATACCTAAATCAAATAT
1 ATAATATCCTAAAACCTAATAAAAATACTAAAACCTATTTAAACTAAAATACCAAAATAAAATAT
8415893 AAAATATAAAAA
66 AAAATATAAAAA
* *
8415905 ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-CAAAGATAAAATA
1 ATAATATCCTAAAACCTAATAAAAATACTAAAACCTATTTAAACTAAAATACCAAA-ATAAAATA
8415969 TAA
65 TAA
8415972 TTTCATCCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 3 0.05
77 56 0.95
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (77 bp):
ATAATATCCTAAAACCTAATAAAAATACTAAAACCTATTTAAACTAAAATACCAAAATAAAATAT
AAAATATAAAAA
Found at i:8420179 original size:22 final size:22
Alignment explanation
Indices: 8420154--8420195 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8420144 AAGGAAAGGT
8420154 ACGATCTAAAATATTATAAAAC
1 ACGATCTAAAATATTATAAAAC
*
8420176 ACGATCTAAAATGTTATAAA
1 ACGATCTAAAATATTATAAA
8420196 CAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (22 bp):
ACGATCTAAAATATTATAAAAC
Found at i:8420670 original size:64 final size:64
Alignment explanation
Indices: 8420591--8420710 Score: 195
Period size: 64 Copynumber: 1.9 Consensus size: 64
8420581 TACCTATTAC
* **
8420591 ATTATATAATAGCTACCTAATATATTATTGTACTTGATAATATTTCCGGTTAAATGTTTATTTT
1 ATTATATAAGAGCTACCTAATATATTATTACACTTGATAATATTTCCGGTTAAATGTTTATTTT
* *
8420655 ATTATATAAGCGCTACCTAATATGTTATTACACTTGATAATATTTCCGGTTAAATG
1 ATTATATAAGAGCTACCTAATATATTATTACACTTGATAATATTTCCGGTTAAATG
8420711 ATATAACATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (64 bp):
ATTATATAAGAGCTACCTAATATATTATTACACTTGATAATATTTCCGGTTAAATGTTTATTTT
Found at i:8420752 original size:16 final size:16
Alignment explanation
Indices: 8420733--8420771 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
8420723 CAGTCAAAAT
8420733 TTTAACCGGTCACTTG
1 TTTAACCGGTCACTTG
*
8420749 TTTAACTGGTCACTTG
1 TTTAACCGGTCACTTG
8420765 TTTAACC
1 TTTAACC
8420772 AATCACATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (16 bp):
TTTAACCGGTCACTTG
Found at i:8432487 original size:20 final size:21
Alignment explanation
Indices: 8432462--8432556 Score: 68
Period size: 23 Copynumber: 4.4 Consensus size: 21
8432452 TTTTGCTTCA
8432462 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
8432482 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
8432504 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAAAG
* * *
8432525 TGCACCGATGTACGCCTTGAATG
1 TGCATCGA--TACACCTTGAAAG
*
8432548 TGTATCGAT
1 TGCATCGAT
8432557 GCACAAGGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
20 11 0.19
21 17 0.29
22 13 0.22
23 18 0.31
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:8432527 original size:21 final size:20
Alignment explanation
Indices: 8432462--8432533 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
8432452 TTTTGCTTCA
8432462 TGCATCGATACACCT-AACAG
1 TGCATCGATACACCTGAA-AG
* *
8432482 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CC-TGAAAG
*
8432504 TGCATCGATACACCATGAAGG
1 TGCATCGATACACC-TGAAAG
*
8432525 TGCACCGAT
1 TGCATCGAT
8432534 GTACGCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.26
21 17 0.40
22 13 0.30
23 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (20 bp):
TGCATCGATACACCTGAAAG
Found at i:8432556 original size:23 final size:23
Alignment explanation
Indices: 8432481--8432557 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
8432471 ACACCTAACA
8432481 GTGCATCGATG--CATCCTTGAAT
1 GTGCATCGATGTACA-CCTTGAAT
* *
8432503 GTGCATCGA--TACACCATGAAG
1 GTGCATCGATGTACACCTTGAAT
* *
8432524 GTGCACCGATGTACGCCTTGAAT
1 GTGCATCGATGTACACCTTGAAT
*
8432547 GTGTATCGATG
1 GTGCATCGATG
8432558 CACAAGGCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
21 14 0.33
22 11 0.26
23 18 0.42
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGTACACCTTGAAT
Found at i:8434492 original size:14 final size:15
Alignment explanation
Indices: 8434467--8434495 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8434457 ATTGTTTTGA
8434467 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
8434482 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
8434496 AGATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:8435261 original size:45 final size:45
Alignment explanation
Indices: 8435212--8435299 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
8435202 GAACATCGAA
*
8435212 TGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACA-AGCCATGCATCGATGCACTCAG
8435257 TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTC
8435300 TGGCTATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAG
Found at i:8441362 original size:46 final size:46
Alignment explanation
Indices: 8441301--8441407 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
8441291 TTCGTTAATC
* * *
8441301 TTAGTTGTGGCATCCTTTCATACCTTAATGCATCATTTCATGCGTT
1 TTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTAATGCATT
* * *
8441347 TTAGTTATGGTATCCTTTCATGCCTTAATGCATCATTTAATGTATT
1 TTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTAATGCATT
*
8441393 TCAGTTATGGCATCC
1 TTAGTTATGGCATCC
8441408 GTTAAACCAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (46 bp):
TTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTAATGCATT
Found at i:8441692 original size:46 final size:46
Alignment explanation
Indices: 8441625--8441712 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
8441615 TACCGCTATG
* * *
8441625 TATTTTCATTTGTGGCATCCTTTCATGTCAATTATGCATTGTCATA
1 TATTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTCATA
*
8441671 TATTTTCATTTATGACATCCTTTCTTGCCAATTATGCATTGT
1 TATTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGT
8441713 TCTTCATCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (46 bp):
TATTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTCATA
Found at i:8442063 original size:54 final size:54
Alignment explanation
Indices: 8442021--8442659 Score: 911
Period size: 54 Copynumber: 11.8 Consensus size: 54
8442011 CTATACAGTC
* * ** * ** *
8442021 GTTCATCAACCTATGATGAATTTCGTGGGTTGCACACATAGTGCATATACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* * * *
8442075 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCTG-TACAGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC-GAAACGGTT
** * * *
8442129 GTTCATCAATTTATGATGAATTCTGTGAATTACACACTTAGTGCCGAAATGGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
*
8442183 GTTCATCAACACATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
*
8442237 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* * *
8442291 GTTCATCAATATATGATGAATTACGTGAATTGCACACTTAGTGCCGAAACTGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* * * *
8442345 GTTCATCAACATATGATGAATTCCGTGAAATGCATACTTTGTGCCGAAACAGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* ** *
8442399 GTTCGTCAACATATGATGAATTTTGTGAATTGCACACTTAGTGCAGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
8442453 GTTCATCAATATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
*
8442507 GTTCATCAATATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
** * *
8442561 GTTCATCAACATATGATGAATTATGTGAATTACACACTTAGTGCCGAAACAGTT
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
8442615 GTTCATCAACATATGATGAATTCCGTGACTTACACACTTAGTGCC
1 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
8442660 TATTTGGTAA
Statistics
Matches: 527, Mismatches: 56, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 526 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (54 bp):
GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
Found at i:8445799 original size:15 final size:15
Alignment explanation
Indices: 8445779--8445809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8445769 CAACAAATAG
8445779 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
8445794 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
8445809 A
1 A
8445810 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:8446306 original size:20 final size:20
Alignment explanation
Indices: 8446281--8446335 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
8446271 ATGCTTACTA
8446281 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
** *
8446301 GTATCGATACTACTATACTATG
1 GTATCGATAC--CCCTACCATG
8446323 GTATCGATACCCC
1 GTATCGATACCCC
8446336 CTTTCAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:8449817 original size:24 final size:23
Alignment explanation
Indices: 8449763--8449805 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8449753 AGCTGAATCT
*
8449763 TTTTTTTTAAAAAAATAATTAAA
1 TTTTATTTAAAAAAATAATTAAA
*
8449786 TATTATTTAAAAAAA-AATTA
1 TTTTATTTAAAAAAATAATTA
8449806 TGACTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTATTTAAAAAAATAATTAAA
Found at i:8452190 original size:3 final size:3
Alignment explanation
Indices: 8452182--8452213 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8452172 TACTTGTTAA
8452182 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8452214 AAGTAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8452942 original size:134 final size:133
Alignment explanation
Indices: 8452483--8452954 Score: 561
Period size: 134 Copynumber: 3.5 Consensus size: 133
8452473 GACTCCTATA
* * * ** *
8452483 TGATGAGAAGATCTGGTCGATGGATGAAACAATTCCTACGTGATGAGGATGTCTGGCCATCTTTA
1 TGATGAGAA-ATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATAACTGACCATCTTTA
* * * *
8452548 GGGATCATGATAACATGGTTCCTACATAATGAGGATGGTTGGTTATCTATGGTTGACGCGGTTCC
65 GGGATGATGATAACATGGTTCCTACATGATGAGGATGGTTGGTTATCTAAGGTTGACGCGGCTCC
8452613 TACG
130 TACG
* * * ** * *
8452617 TGATGAGGAGATTTGGTCAGTGGATGACACAGTTTTTACGTGATGAAGATGAA-TGGCCATCTTT
1 TGATGA-GAAATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGAT-AACTGACCATCTTT
* ** *
8452681 AGGGATGATGATAACATGGTTTCTACATGATGAGGATGACTAGTTATCTAAGGTTGACGCGGCTC
64 AGGGATGATGATAACATGGTTCCTACATGATGAGGATGGTTGGTTATCTAAGGTTGACGCGGCTC
8452746 CTACG
129 CTACG
* * *** *
8452751 TGATGAAGAGATCTGGTCGGTGGATGACACAGTTCCTATGTGATGAGGATGGTTGACCATTTTTA
1 TGATG-AGAAATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATAACTGACCATCTTTA
* * * * * *
8452816 GGGATGATCACAATATGGTTCCTACGTGATGAGGACGGTTGGTTATCTAAGGTTGATGCGGCTCC
65 GGGATGATGATAACATGGTTCCTACATGATGAGGATGGTTGGTTATCTAAGGTTGACGCGGCTCC
8452881 TACG
130 TACG
*
8452885 TGATGAGTAAATCTGGTCGGTGGATGACA-AGGTTCCTACGTGATGAGGACAACTGACCATCTTT
1 TGATGAG-AAATCTGGTCGGTGGATGACACA-GTTCCTACGTGATGAGGATAACTGACCATCTTT
*
8452949 AAGGAT
64 AGGGAT
8452955 AATTGTTTCA
Statistics
Matches: 285, Mismatches: 47, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
133 3 0.01
134 279 0.98
135 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (133 bp):
TGATGAGAAATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATAACTGACCATCTTTAG
GGATGATGATAACATGGTTCCTACATGATGAGGATGGTTGGTTATCTAAGGTTGACGCGGCTCCT
ACG
Found at i:8453016 original size:36 final size:36
Alignment explanation
Indices: 8452957--8453149 Score: 104
Period size: 36 Copynumber: 5.7 Consensus size: 36
8452947 TTAAGGATAA
***
8452957 TTGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAAC
* * ***
8452993 ATGTTTCAAGTGAAACAGACTC-A-A-AG---ATTT
1 TTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAAC
* *
8453023 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAAC
* * ***
8453059 TTGTTTCAAGTGATACAGACTC-A-A-AG---ATTG
1 TTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAAC
* ** *
8453089 TTGTTTCAATAGAAATTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAAC
* *
8453125 TTTGTTTCAAGGGAAACATACTCAA
1 -TTGTTTCAAGAGAAACAGACTCAA
8453150 ATATTTTTTT
Statistics
Matches: 107, Mismatches: 37, Indels: 25
0.63 0.22 0.15
Matches are distributed among these distances:
30 36 0.34
31 2 0.02
32 2 0.02
33 8 0.07
34 2 0.02
35 2 0.02
36 37 0.35
37 18 0.17
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAAC
Found at i:8453028 original size:30 final size:30
Alignment explanation
Indices: 8452994--8453097 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 30
8452984 AGACAAAACA
*
8452994 TGTTTCAAGTGAAACAGACTCAAAGATTTT
1 TGTTTCAAGTGAAACAGACTCAAAGATTCT
* * * **
8453024 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGTGAAACAGACTC-A-A-AG---ATTCT
* *
8453060 TGTTTCAAGTGATACAGACTCAAAGATTGT
1 TGTTTCAAGTGAAACAGACTCAAAGATTCT
8453090 TGTTTCAA
1 TGTTTCAA
8453098 TAGAAATTGT
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
30 28 0.51
31 1 0.02
32 1 0.02
33 4 0.07
34 1 0.02
35 1 0.02
36 19 0.35
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (30 bp):
TGTTTCAAGTGAAACAGACTCAAAGATTCT
Found at i:8453064 original size:66 final size:66
Alignment explanation
Indices: 8452957--8453190 Score: 360
Period size: 66 Copynumber: 3.5 Consensus size: 66
8452947 TTAAGGATAA
* *
8452957 TTGTTTCAAGAGAAACTTTCTCAAGAGAGACAAAACATGTTTCAAGTGAAACAGACTCAAAGATT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGTGAAACAGACTCAAAGATT
8453022 T
66 T
*
8453023 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGTGATACAGACTCAAAGATT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGTGAAACAGACTCAAAGATT
*
8453088 G
66 T
* * * * *
8453089 TTGTTTCAATAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAATAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGTGAAACAGACTCAAAGA-
8453154 TTTT
64 -TTT
8453158 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
8453191 CTTTTTTTTA
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
66 96 0.63
67 23 0.15
69 33 0.22
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGTGAAACAGACTCAAAGATT
T
Found at i:8453493 original size:37 final size:37
Alignment explanation
Indices: 8453443--8453563 Score: 113
Period size: 37 Copynumber: 3.3 Consensus size: 37
8453433 TGCCTTAAGG
* * *
8453443 AAAACTG-CATCAAGTGAGACAAAGTTTGTTTTGAGAA
1 AAAACTGTC-TCAAGCGAGACAAAATTTGTTTTAAGAA
* * * *
8453480 AAAACAT-TCTCAAGCGTGGCAAAATTTGTTTTTAGAG
1 AAAAC-TGTCTCAAGCGAGACAAAATTTGTTTTAAGAA
*
8453517 AAAACTGTCTCAA-CGAGACAAAATTGGTTTTTAAGAA
1 AAAACTGTCTCAAGCGAGACAAAATTTG-TTTTAAGAA
*
8453554 AAAAATGTCT
1 AAAACTGTCT
8453564 ATAACGAGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
36 12 0.18
37 54 0.79
38 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (37 bp):
AAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAA
Found at i:8453547 original size:36 final size:37
Alignment explanation
Indices: 8453452--8453555 Score: 115
Period size: 37 Copynumber: 2.9 Consensus size: 37
8453442 GAAAACTGCA
* * * *
8453452 TCAAGTGAGACAAAGTTTGTTTTGAGAAAAAACATTC
1 TCAAGCGAGACAAAATTTGTTTTTAGAGAAAACATTC
* *
8453489 TCAAGCGTGGCAAAATTTGTTTTTAGAGAAAAC-TGTC
1 TCAAGCGAGACAAAATTTGTTTTTAGAGAAAACAT-TC
*
8453526 TCAA-CGAGACAAAATTGGTTTTTA-AGAAAA
1 TCAAGCGAGACAAAATTTGTTTTTAGAGAAAA
8453556 AAATGTCTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
35 6 0.11
36 18 0.32
37 33 0.58
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (37 bp):
TCAAGCGAGACAAAATTTGTTTTTAGAGAAAACATTC
Found at i:8454642 original size:17 final size:18
Alignment explanation
Indices: 8454620--8454663 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
8454610 TAACCGGTCT
*
8454620 GACCCGACTCGTTGA-CC
1 GACCCGACCCGTTGACCC
8454637 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
*
8454655 GACCTGACC
1 GACCCGACC
8454664 TAATTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.18, C:0.45, G:0.23, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:8454719 original size:29 final size:29
Alignment explanation
Indices: 8454669--8454797 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
8454659 TGACCTAATT
*
8454669 ACATTCTGGG-AATTTTTGTGAAAAAGGTG
1 ACATTCTGGGAAATATTT-TGAAAAAGGTG
*
8454698 ACATTCTGGGAAATATTTTGAAATAGGTG
1 ACATTCTGGGAAATATTTTGAAAAAGGTG
*
8454727 ACATTCTAGGAAATATTTTGAAAAAGGTG
1 ACATTCTGGGAAATATTTTGAAAAAGGTG
* * *
8454756 ACATTCTGAGAATTATTTTGGAAAAGGTG
1 ACATTCTGGGAAATATTTTGAAAAAGGTG
*
8454785 ACATT-TTGGAAAT
1 ACATTCTGGGAAAT
8454798 TTTCGAATGT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 5 0.06
29 77 0.88
30 6 0.07
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (29 bp):
ACATTCTGGGAAATATTTTGAAAAAGGTG
Found at i:8461754 original size:19 final size:19
Alignment explanation
Indices: 8461732--8461768 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8461722 TTCATGTTGG
8461732 CCGGTTTGACCGGTCTGAA
1 CCGGTTTGACCGGTCTGAA
8461751 CCGGTTTGACCGGTCTGA
1 CCGGTTTGACCGGTCTGA
8461769 CCCGACCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.27
Consensus pattern (19 bp):
CCGGTTTGACCGGTCTGAA
Found at i:8461762 original size:9 final size:9
Alignment explanation
Indices: 8461732--8461770 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
8461722 TTCATGTTGG
*
8461732 CCGGTTTGA
1 CCGGTCTGA
8461741 CCGGTCTGAA
1 CCGGTCTG-A
*
8461751 CCGGTTTGA
1 CCGGTCTGA
8461760 CCGGTCTGA
1 CCGGTCTGA
8461769 CC
1 CC
8461771 CGACCCGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.26
Consensus pattern (9 bp):
CCGGTCTGA
Found at i:8461784 original size:13 final size:13
Alignment explanation
Indices: 8461766--8461790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8461756 TTGACCGGTC
8461766 TGACCCGACCCGT
1 TGACCCGACCCGT
8461779 TGACCCGACCCG
1 TGACCCGACCCG
8461791 ACCCAGTGAC
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:0.16, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:8461838 original size:29 final size:29
Alignment explanation
Indices: 8461796--8461919 Score: 187
Period size: 29 Copynumber: 4.3 Consensus size: 29
8461786 ACCCGACCCA
8461796 GTGACATTCTGGGAATT-TTTGTGAAAAAG
1 GTGACATTCTGGGAATTATTT-TGAAAAAG
* *
8461825 GTGACATTCTGGGAAATATTTTGAAATAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
*
8461854 GTGACATTCTAGGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
**
8461883 GTGACATTCTTAGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
8461912 GTGACATT
1 GTGACATT
8461920 TTGGAAAGTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
29 84 0.97
30 3 0.03
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (29 bp):
GTGACATTCTGGGAATTATTTTGAAAAAG
Found at i:8463895 original size:19 final size:20
Alignment explanation
Indices: 8463868--8463905 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8463858 CTTTCAGAGA
8463868 GATTATCTT-GTTTGAAAAT
1 GATTATCTTCGTTTGAAAAT
* *
8463887 GATTTTCTTCTTTTGAAAA
1 GATTATCTTCGTTTGAAAA
8463906 CAACTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
GATTATCTTCGTTTGAAAAT
Found at i:8483683 original size:23 final size:23
Alignment explanation
Indices: 8483656--8483708 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
8483646 TCCCCAAAAC
8483656 AGTTTTGAGAGAAAGTGGCTGAA
1 AGTTTTGAGAGAAAGTGGCTGAA
8483679 AGTTTTGAGAGAAAGTGGCTGAA
1 AGTTTTGAGAGAAAGTGGCTGAA
8483702 AGTTTTG
1 AGTTTTG
8483709 TGTGTGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.34, T:0.30
Consensus pattern (23 bp):
AGTTTTGAGAGAAAGTGGCTGAA
Found at i:8483901 original size:90 final size:90
Alignment explanation
Indices: 8483748--8483914 Score: 298
Period size: 90 Copynumber: 1.9 Consensus size: 90
8483738 CCTAGCACAC
* * *
8483748 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
8483813 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGGAATTTAATAAT
*
8483838 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
8483903 ATTTAATTAATT
66 ATTTAATTAATT
8483915 AAAATTAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGGAATTTAATAAT
Found at i:8490394 original size:90 final size:91
Alignment explanation
Indices: 8490240--8490407 Score: 293
Period size: 90 Copynumber: 1.9 Consensus size: 91
8490230 CCTAACACAC
* * *
8490240 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
8490305 TATTTAATTAATTAGAATTTAATAAT
66 TATTTAATTAATTAGAATTTAATAAT
*
8490331 CCTTTTATATCCAAGTTACCCTAATCATATCAGGG-ATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
8490395 TATTTAATTAATT
66 TATTTAATTAATT
8490408 GATATTAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
90 41 0.56
91 32 0.44
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (91 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGTATTTTATTATTTCAAATTAATTAAATCTA
TATTTAATTAATTAGAATTTAATAAT
Found at i:8497067 original size:59 final size:56
Alignment explanation
Indices: 8496970--8497094 Score: 178
Period size: 59 Copynumber: 2.2 Consensus size: 56
8496960 GTAGTTCTAA
* *
8496970 TCCGAATATGAAACATAAGGTCGTGCCCACCATTTGCACTAGTTATACTTTAGTGCAGT
1 TCCGAATATGAAACATAAGGTCGTGCCCACCATATGCACTA---ATACTTTAGTGCAAT
* *
8497029 TCCGAATATGACACATAAGGTCTTGCCCACCATATGCACTAATACTTTAGTGCAAT
1 TCCGAATATGAAACATAAGGTCGTGCCCACCATATGCACTAATACTTTAGTGCAAT
*
8497085 CCCGAATATG
1 TCCGAATATG
8497095 CAGCCTACTG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
56 23 0.38
59 38 0.62
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (56 bp):
TCCGAATATGAAACATAAGGTCGTGCCCACCATATGCACTAATACTTTAGTGCAAT
Found at i:8500167 original size:7 final size:7
Alignment explanation
Indices: 8500155--8500180 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8500145 ATAAGAGATC
8500155 ATTTTCA
1 ATTTTCA
8500162 ATTTTCA
1 ATTTTCA
8500169 ATTTTCA
1 ATTTTCA
8500176 ATTTT
1 ATTTT
8500181 GAAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:8507998 original size:26 final size:26
Alignment explanation
Indices: 8507932--8507998 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
8507922 AAACGATACC
* * *
8507932 AAAAAAATTAAAAAGAACTAAATCAT
1 AAAAAAATTAAGAACAACTAAATAAT
* * *
8507958 AAAAACAATT-TGAACAATTAAGTAAT
1 AAAAA-AATTAAGAACAACTAAATAAT
8507984 AAAAAAATTAAGAAC
1 AAAAAAATTAAGAAC
8507999 CAAAATAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
25 4 0.12
26 24 0.75
27 4 0.12
ACGTcount: A:0.66, C:0.07, G:0.06, T:0.21
Consensus pattern (26 bp):
AAAAAAATTAAGAACAACTAAATAAT
Found at i:8512131 original size:22 final size:23
Alignment explanation
Indices: 8512104--8512167 Score: 103
Period size: 22 Copynumber: 2.8 Consensus size: 23
8512094 AAGAAAGAAT
*
8512104 AAAAACAGTTCGATAAATTAA-A
1 AAAAACAATTCGATAAATTAATA
*
8512126 AAAAACAATTCGATAAATAAATA
1 AAAAACAATTCGATAAATTAATA
8512149 AAAAACAATTCGATAAATT
1 AAAAACAATTCGATAAATT
8512168 GTTTATTGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 19 0.50
23 19 0.50
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.23
Consensus pattern (23 bp):
AAAAACAATTCGATAAATTAATA
Found at i:8516409 original size:21 final size:22
Alignment explanation
Indices: 8516371--8516412 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8516361 AAATGATATA
8516371 ATTTTTAAAATTATATTAATTG
1 ATTTTTAAAATTATATTAATTG
* *
8516393 ATTTTTATATTTA-ATTAATT
1 ATTTTTAAAATTATATTAATT
8516413 ATATTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTAAAATTATATTAATTG
Found at i:8517306 original size:12 final size:12
Alignment explanation
Indices: 8517284--8517312 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8517274 AATTACATGT
8517284 TAATT-GTCAAA
1 TAATTCGTCAAA
8517295 TAATTCGTCAAA
1 TAATTCGTCAAA
8517307 TAATTC
1 TAATTC
8517313 AAAGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (12 bp):
TAATTCGTCAAA
Found at i:8522673 original size:55 final size:55
Alignment explanation
Indices: 8522608--8522861 Score: 345
Period size: 55 Copynumber: 4.6 Consensus size: 55
8522598 CCCACTACCA
* * * *
8522608 ATACAGAAATTCA-CCTACTTATTATGAATTTCTTA-TGTTTGCACATATAGTTCCC
1 ATACAGAAATTCATAC-ACTTAGTATGAATTTCTTAGT-TTTGCACACATAGTGCCC
* * * *
8522663 ATATAGAAATTCACACACTTAGTATGAATTTCTTAG-TTTGCACACATAGTACCT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTGCCC
*
8522717 GTAC-GAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTGCCC
1 ATACAG-AAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTGCCC
* *
8522772 ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACAGATAGTGCCC
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTGCCC
*
8522827 ATACGGAAATTCATACACTTAGTATGAATTTCTTA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTA
8522862 ACTTTTTGCA
Statistics
Matches: 181, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
53 1 0.01
54 46 0.25
55 132 0.73
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (55 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTGCCC
Found at i:8522782 original size:109 final size:110
Alignment explanation
Indices: 8522624--8522861 Score: 354
Period size: 109 Copynumber: 2.2 Consensus size: 110
8522614 AAATTCACCT
* * * *
8522624 ACTTATTATGAATTTCTTATGTTTGCACATATAGTTCCCATATAGAAATTCACACACTTAGTATG
1 ACTTAGTATGAATTTCTTATGTTTGCACACATAGTGCCCATACAGAAATTCACACACTTAGTATG
**
8522689 AATTTCTTAG-TTTGCACACATAGTACCTGTACGAAAATTCATAC
66 AATTTCTTAGTTTTGCACACATAGTACCCATACGAAAATTCATAC
* *
8522733 ACTTAGTATGAATTTCTTA-GTTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAGTAT
1 ACTTAGTATGAATTTCTTATG-TTTGCACACATAGTGCCCATACAGAAATTCACACACTTAGTAT
* * *
8522797 GAATTTCTTAGTTTTGCACAGATAGTGCCCATACGGAAATTCATAC
65 GAATTTCTTAGTTTTGCACACATAGTACCCATACGAAAATTCATAC
8522843 ACTTAGTATGAATTTCTTA
1 ACTTAGTATGAATTTCTTA
8522862 ACTTTTTGCA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
108 1 0.01
109 67 0.58
110 48 0.41
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (110 bp):
ACTTAGTATGAATTTCTTATGTTTGCACACATAGTGCCCATACAGAAATTCACACACTTAGTATG
AATTTCTTAGTTTTGCACACATAGTACCCATACGAAAATTCATAC
Found at i:8526087 original size:17 final size:17
Alignment explanation
Indices: 8526067--8526100 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8526057 TTAAAATAAA
*
8526067 TAAATAAATTTATTTAT
1 TAAATAAATGTATTTAT
*
8526084 TAAATATATGTATTTAT
1 TAAATAAATGTATTTAT
8526101 GATTAAATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAAATAAATGTATTTAT
Found at i:8527582 original size:3 final size:3
Alignment explanation
Indices: 8527574--8527628 Score: 83
Period size: 3 Copynumber: 17.7 Consensus size: 3
8527564 ATTATTTATT
*
8527574 TAA TAA TAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
8527621 TAA TAA TA
1 TAA TAA TA
8527629 TATGAAAGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8527597 original size:19 final size:19
Alignment explanation
Indices: 8527573--8527631 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
8527563 AATTATTTAT
8527573 TTAATAATAATAATATATA
1 TTAATAATAATAATATATA
8527592 TTAATAATAATAATA-ATA
1 TTAATAATAATAATATATA
*
8527610 ATAATAAATAATAATAATATA
1 TTAAT-AATAATAAT-ATATA
8527631 T
1 T
8527632 GAAAGTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.20
19 24 0.69
20 1 0.03
21 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAATAATAATAATATATA
Found at i:8527602 original size:22 final size:21
Alignment explanation
Indices: 8527574--8527631 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
8527564 ATTATTTATT
*
8527574 TAATAATAATAATATATATTAA
1 TAATAATAATAATATATAAT-A
8527596 TAATAATAATAATA-ATAATA
1 TAATAATAATAATATATAATA
8527616 -AATAATAATAATATAT
1 TAATAATAATAATATAT
8527632 GAAAGTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 13 0.38
20 3 0.09
21 4 0.12
22 14 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATAATAATAATATATAATA
Found at i:8527883 original size:76 final size:76
Alignment explanation
Indices: 8527757--8528015 Score: 401
Period size: 76 Copynumber: 3.4 Consensus size: 76
8527747 GGAAATGTTA
* *
8527757 AAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
8527822 AAGGCTTTTTG
66 AAGGCTTTTTG
* * *
8527833 AAAACATCGTGCATTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCCG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
8527898 AAGGCTTTTTG
66 AAGGCTTTTTG
* * * * *
8527909 GAAACATCATGCACTGTAGGACTTCCAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCCTG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
8527974 AAGGCTTTTTG
66 AAGGCTTTTTG
* * *
8527985 GAAACATCAAGCATTGTAGGACTTACAGATG
1 AAAACATCATGCACTGTAGGACTTACAGATG
8528016 TGGGAAATAG
Statistics
Matches: 167, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 167 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (76 bp):
AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
AAGGCTTTTTG
Found at i:8528400 original size:73 final size:73
Alignment explanation
Indices: 8528184--8528531 Score: 592
Period size: 73 Copynumber: 4.8 Consensus size: 73
8528174 AACTCGAAAT
* * *
8528184 AACTGTCTCAAGCGAGACAAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAA-ATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGT
*
8528249 TTCAAGTGA
65 TTCGAGTGA
8528258 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAG-AAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
8528322 TCGAGTGA
66 TCGAGTGA
*
8528330 AACTGTCTCAAGCGAGACAAAATTTGTTTTAATAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
8528395 TCGAGTGA
66 TCGAGTGA
* *
8528403 AACTGTCTCAAGAGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
*
8528468 TTGAGTGA
66 TCGAGTGA
*
8528476 AACTGTGTCAAGCGAGAC-AAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
8528532 TTGCTATTTG
Statistics
Matches: 261, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
72 105 0.40
73 135 0.52
74 21 0.08
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (73 bp):
AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
TCGAGTGA
Found at i:8528498 original size:145 final size:144
Alignment explanation
Indices: 8528184--8528531 Score: 588
Period size: 145 Copynumber: 2.4 Consensus size: 144
8528174 AACTCGAAAT
* *
8528184 AACTGTCTCAAGCGAGACAAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAA--TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGT
*
8528249 TTCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAA
64 TTCAAGTGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAA
8528314 GTTCTGTTTCGAGTGA
129 GTTCTGTTTCGAGTGA
*
8528330 AACTGTCTCAAGCGAGACAAAATTTGTTTTAATAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGAC-AAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
* *
8528395 TCGAGTGAAACTGTCTCAAGAGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
65 TCAAGTGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAG-AAAACAATCTCAAGTGAGATAAA
*
8528460 GTTCTGTTTTGAGTGA
129 GTTCTGTTTCGAGTGA
*
8528476 AACTGTGTCAAGCGAGACAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1 AACTGTCTCAAGCGAGACAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
8528532 TTGCTATTTG
Statistics
Matches: 191, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
145 115 0.60
146 73 0.38
147 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (144 bp):
AACTGTCTCAAGCGAGACAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTT
CAAGTGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAAGT
TCTGTTTCGAGTGA
Found at i:8528847 original size:165 final size:165
Alignment explanation
Indices: 8528575--8528899 Score: 508
Period size: 165 Copynumber: 2.0 Consensus size: 165
8528565 TATGGATGTG
* * * * **
8528575 GGAAATAGTTTACTAAGTAAGATACTATGGAAATTGTTTTCTTACTTTTCAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTTC
** *
8528640 AAAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
66 AAAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTAAT
* *
8528705 TGGGTAACATGCCCCAATCTCAAGATAATGTTGTT
131 TGGGTAACATGACCCAAACTCAAGATAATGTTGTT
8528740 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGT-AAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTT
* *
8528805 -AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATATCATGTTAA
65 CAAAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTAA
*
8528869 TTGGGTAACATGACCCAAACTCAATATAATG
130 TTGGGTAACATGACCCAAACTCAAGATAATG
8528900 CTCATTCTTG
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
165 105 0.72
166 40 0.28
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTTC
AAAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTAAT
TGGGTAACATGACCCAAACTCAAGATAATGTTGTT
Found at i:8529439 original size:22 final size:22
Alignment explanation
Indices: 8529405--8529456 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
8529395 AATAAAGCTT
* *
8529405 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
8529427 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
8529449 TCATCTTT
1 TCATCTTT
8529457 GAAGAGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:8532360 original size:3 final size:3
Alignment explanation
Indices: 8532352--8532409 Score: 89
Period size: 3 Copynumber: 18.7 Consensus size: 3
8532342 ATTATTTATT
*
8532352 TAA TAA TAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
8532399 TAA TAA TAA TA
1 TAA TAA TAA TA
8532410 TATGAAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8532375 original size:19 final size:18
Alignment explanation
Indices: 8532351--8532406 Score: 85
Period size: 19 Copynumber: 3.0 Consensus size: 18
8532341 AATTATTTAT
8532351 TTAATAATAATAATATATA
1 TTAATAATAATAATA-ATA
8532370 TTAATAATAATAATAATA
1 TTAATAATAATAATAATA
*
8532388 ATAATAAATAATAATAATA
1 TTAAT-AATAATAATAATA
8532407 ATATATGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 7 0.20
19 28 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAATAATAATAATAATA
Found at i:8532380 original size:22 final size:23
Alignment explanation
Indices: 8532352--8532412 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
8532342 ATTATTTATT
*
8532352 TAATAATAATAATATAT-ATTAA
1 TAATAATAATAATATATAATAAA
8532374 TAATAATAATAATA-ATAATAAA
1 TAATAATAATAATATATAATAAA
8532396 TAATAATAATAATATAT
1 TAATAATAATAATATAT
8532413 GAAAGTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAATAATAATATATAATAAA
Found at i:8532664 original size:76 final size:76
Alignment explanation
Indices: 8532538--8532796 Score: 401
Period size: 76 Copynumber: 3.4 Consensus size: 76
8532528 GGAAATGTTA
* * *
8532538 AAAACATCATGCACTGAAGGGCTTATAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
8532603 AAGGCTTTTTG
66 AAGGCTTTTTG
* * *
8532614 AAAACATCGTGCATTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCCG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
8532679 AAGGCTTTTTG
66 AAGGCTTTTTG
* * * * *
8532690 GAAACATCATGCACTGTAGGACTTCCAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCCTG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
8532755 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
8532766 GAAACATCATGCATTGTAGGACTTACAGATG
1 AAAACATCATGCACTGTAGGACTTACAGATG
8532797 TGGGAAATAG
Statistics
Matches: 167, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 167 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (76 bp):
AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCTG
AAGGCTTTTTG
Found at i:8533029 original size:37 final size:36
Alignment explanation
Indices: 8532983--8533315 Score: 299
Period size: 37 Copynumber: 9.1 Consensus size: 36
8532973 CAAGCGAACC
8532983 AAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* ** ** * *
8533020 AAAGTTTTGTTTCAAGTGAAACTGTCTCAAGCGAGAC
1 AAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
*
8533057 AAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* ** ** ** * *
8533093 AAAGTTCTGTTTCGAGTGAAACTGTCTCAAGAGAGAC
1 AAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
8533130 AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* ** ** ** * *
8533166 AAAGTTATGTTTCGAGTGAAACTGTCTCAAGAGAGAC
1 AAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
8533203 AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* * ** ** * * *
8533239 AAAGTTCTGTTTTGAGTGAAACTGTGTCAAGCGAGAC
1 AAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
8533276 AAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
8533311 AAATT
1 AAATT
8533316 GCTATTTGAA
Statistics
Matches: 221, Mismatches: 70, Indels: 11
0.73 0.23 0.04
Matches are distributed among these distances:
35 26 0.12
36 83 0.38
37 111 0.50
38 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (36 bp):
AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
Found at i:8533085 original size:73 final size:73
Alignment explanation
Indices: 8532965--8533313 Score: 576
Period size: 73 Copynumber: 4.8 Consensus size: 73
8532955 AACTCGAAAT
* *
8532965 AACTGTCTCAAGCGA-ACCAAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTTTG
1 AACTGTCTCAAGCGAGA-CAAA-ATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTG
*
8533029 TTTCAAGTGA
64 TTTCGAGTGA
8533039 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
8533104 TCGAGTGA
66 TCGAGTGA
* * *
8533112 AACTGTCTCAAGAGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTATGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
8533177 TCGAGTGA
66 TCGAGTGA
* *
8533185 AACTGTCTCAAGAGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
*
8533250 TTGAGTGA
66 TCGAGTGA
*
8533258 AACTGTGTCAAGCGAGAC-AAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
8533314 TTGCTATTTG
Statistics
Matches: 263, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
72 37 0.14
73 206 0.78
74 19 0.07
75 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (73 bp):
AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
TCGAGTGA
Done.