Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 56 of 290
Found at i:18615280 original size:51 final size:51
Alignment explanation
Indices: 18615219--18615335 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
18615209 ACTTCTGATC
* * *
18615219 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATTTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAATGACA
* * *
18615270 AGTGACAAGTGATAAGTGGTAGCTTTAGCTTCACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAATGACA
18615321 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
18615336 ATGTGATCTG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAATGACA
Found at i:18621148 original size:32 final size:30
Alignment explanation
Indices: 18621092--18621161 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 30
18621082 ATAATCACTT
* *
18621092 TAATGTTAAATTAATAAAATACTATTAAGA
1 TAATATTAAATTAATAAAATACTATTAAAA
18621122 TAAGTATTAAATTTAATATAAA-ACTATTAAAA
1 TAA-TATTAAA-TTAATA-AAATACTATTAAAA
18621154 TAATATTA
1 TAATATTA
18621162 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 3 0.09
31 11 0.31
32 18 0.51
33 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATACTATTAAAA
Found at i:18625661 original size:29 final size:29
Alignment explanation
Indices: 18625626--18625687 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
18625616 CTAAATTATA
18625626 AAAGATGCAAAAGTTAAATTCTATTAATT
1 AAAGATGCAAAAGTTAAATTCTATTAATT
18625655 AAAGATGCAAAAGTTAAATTCTATTAATT
1 AAAGATGCAAAAGTTAAATTCTATTAATT
18625684 AAAG
1 AAAG
18625688 GTGTCGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.32
Consensus pattern (29 bp):
AAAGATGCAAAAGTTAAATTCTATTAATT
Found at i:18630476 original size:21 final size:21
Alignment explanation
Indices: 18630451--18630501 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18630441 AAGACAACCC
* *
18630451 TCCTTTAGCTTAACCTGAGTA
1 TCCTTTAGATTAACCTAAGTA
* *
18630472 TCCTTTAAATTAACCTAAGTC
1 TCCTTTAGATTAACCTAAGTA
18630493 TCCTTTAGA
1 TCCTTTAGA
18630502 ACTGGGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (21 bp):
TCCTTTAGATTAACCTAAGTA
Found at i:18643239 original size:18 final size:19
Alignment explanation
Indices: 18643192--18643243 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
18643182 AAGATTCATC
*
18643192 AAAACTATAAAAGATATAA
1 AAAACTATAAAATATATAA
* *
18643211 AAAATTCATAAAATTTA-AA
1 AAAACT-ATAAAATATATAA
18643230 AAAACTATAAAATA
1 AAAACTATAAAATA
18643244 CACGTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.26
19 12 0.44
20 8 0.30
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAACTATAAAATATATAA
Found at i:18647136 original size:25 final size:24
Alignment explanation
Indices: 18647108--18647186 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
18647098 AAGCTCTTCC
18647108 GAGCCAAAAATTGAGAAGCTCAAGA
1 GAGCCAAAAATTG-GAAGCTCAAGA
*** * *
18647133 GAGCTGTTAATTTGGAAGCTCATGA
1 GAGC-CAAAAATTGGAAGCTCAAGA
** *
18647158 GAGCCAAGTATCGGGAAGCTCAAGA
1 GAGCCAAAAAT-TGGAAGCTCAAGA
18647183 GAGC
1 GAGC
18647187 TGTGGTGTGT
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
24 1 0.03
25 33 0.85
26 5 0.13
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (24 bp):
GAGCCAAAAATTGGAAGCTCAAGA
Found at i:18651045 original size:46 final size:47
Alignment explanation
Indices: 18650944--18651115 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 47
18650934 GTCAGGTGCT
* *
18650944 GATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCG-AGCC
* *
18650990 GATG-CATGTCCCAGACAT-GTCTTACGCTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA-GCC
* * *
18651036 GATG-CATGTCCCAGACA-CGTCTTACACTAGCATT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACGTCTCGA-GCC
18651082 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
18651116 CTCACAATGT
Statistics
Matches: 108, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 54 0.50
47 16 0.15
48 12 0.11
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGCC
Found at i:18651139 original size:94 final size:92
Alignment explanation
Indices: 18650987--18651160 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 92
18650977 ACATCTCGTA
* ** *
18650987 GCCGATGCATGTCCCAGACATGTCTTACGCTGGCTTACGTCTCGAGGCTGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGAATCGAGGCCGATGCATGTCCCAGAC
18651052 ACGTCTTACACTAGCATTCGTCTCAAT
66 ACGTCTTACACTAGCATTCGTCTCAAT
* *
18651079 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAC-AAT-GTGGCCGATGTATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACGAATCGAGGCCGATGCATGTCCC
* *
18651142 AGATATGTCTTACACTAGC
62 AGACACGTCTTACACTAGC
18651161 TCATACAAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 45 0.64
95 2 0.03
96 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGAATCGAGGCCGATGCATGTCCCAGAC
ACGTCTTACACTAGCATTCGTCTCAAT
Found at i:18654302 original size:22 final size:22
Alignment explanation
Indices: 18654277--18654323 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
18654267 CTTGAACTTA
18654277 AATTTTGAAATATGAAATGTAG
1 AATTTTGAAATATGAAATGTAG
*
18654299 AATTTTGAAGTATGAAATGTAG
1 AATTTTGAAATATGAAATGTAG
18654321 AAT
1 AAT
18654324 GACTAAATTA
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:0.00, G:0.19, T:0.36
Consensus pattern (22 bp):
AATTTTGAAATATGAAATGTAG
Found at i:18657890 original size:34 final size:34
Alignment explanation
Indices: 18657847--18657914 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
18657837 ATGACTGATG
*
18657847 CTAATACTGTGATGGGTTAAGGCCCTAATGCATA
1 CTAATACTGTGATGGGCTAAGGCCCTAATGCATA
*
18657881 CTAATACTGTGATGGGCTAAGGCCCTACTGCATA
1 CTAATACTGTGATGGGCTAAGGCCCTAATGCATA
18657915 TTTGATACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (34 bp):
CTAATACTGTGATGGGCTAAGGCCCTAATGCATA
Found at i:18662630 original size:19 final size:19
Alignment explanation
Indices: 18662606--18662649 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
18662596 TTTTCACAGT
*
18662606 AAAAATT-ATAAAAGTTATA
1 AAAAATTCATAAAAATT-TA
18662625 AAAAATTCATAAAAATTTA
1 AAAAATTCATAAAAATTTA
18662644 AAAAAT
1 AAAAAT
18662650 ACCTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTCATAAAAATTTA
Found at i:18662638 original size:10 final size:9
Alignment explanation
Indices: 18662605--18662647 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
18662595 CTTTTCACAG
18662605 TAAAAATTA
1 TAAAAATTA
*
18662614 TAAAAGTTA
1 TAAAAATTA
18662623 TAAAAAATTCA
1 T-AAAAATT-A
18662634 TAAAAATT-
1 TAAAAATTA
18662642 TAAAAA
1 TAAAAA
18662648 ATACCTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 6 0.20
9 9 0.30
10 13 0.43
11 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:18664880 original size:3 final size:3
Alignment explanation
Indices: 18664872--18664908 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18664862 ATGTTTAAGC
18664872 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18664909 GATACCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18667645 original size:14 final size:15
Alignment explanation
Indices: 18667619--18667647 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18667609 ATAATTGTAA
18667619 TAAATAGTTAATATT
1 TAAATAGTTAATATT
18667634 TAAATA-TTAATATT
1 TAAATAGTTAATATT
18667648 GAATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TAAATAGTTAATATT
Found at i:18670095 original size:43 final size:43
Alignment explanation
Indices: 18670045--18670138 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
18670035 AGGTCTAAAG
* * *
18670045 CCCGTGTGAAGAGGGGAACATGACTGTGTGGCTGAGGCACACA
1 CCCGTGTGAAGAGAGGAACATGACCGCGTGGCTGAGGCACACA
* * * *
18670088 CTCGTGTGAAGAGAGGCACATGGCCGCGTGTCTGAGGCACACA
1 CCCGTGTGAAGAGAGGAACATGACCGCGTGGCTGAGGCACACA
18670131 CCCGTGTG
1 CCCGTGTG
18670139 GACCGGAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.17
Consensus pattern (43 bp):
CCCGTGTGAAGAGAGGAACATGACCGCGTGGCTGAGGCACACA
Found at i:18671052 original size:18 final size:19
Alignment explanation
Indices: 18671029--18671070 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
18671019 TAGAAATTCT
*
18671029 AAAATT-TATATTTTAAAA
1 AAAATTATAAATTTTAAAA
*
18671047 AAAATTATAAATTTTTAAA
1 AAAATTATAAATTTTAAAA
18671066 AAAAT
1 AAAAT
18671071 CTAAAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATAAATTTTAAAA
Found at i:18671066 original size:19 final size:18
Alignment explanation
Indices: 18671029--18671075 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
18671019 TAGAAATTCT
*
18671029 AAAATTTATATTTTAAAA
1 AAAATTTAAATTTTAAAA
*
18671047 AAAATTATAAATTTTTAAA
1 AAAATT-TAAATTTTAAAA
*
18671066 AAAATCTAAA
1 AAAATTTAAA
18671076 AGAATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTAAATTTTAAAA
Found at i:18671102 original size:21 final size:20
Alignment explanation
Indices: 18671064--18671106 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
18671054 TAAATTTTTA
18671064 AAAAAATCTAAAAGAATATAT
1 AAAAAATCTAAAAGAATA-AT
*
18671085 AAAAAATTTAATAA-AATAAT
1 AAAAAATCTAA-AAGAATAAT
18671105 AA
1 AA
18671107 TTTTGGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATCTAAAAGAATAAT
Found at i:18675918 original size:60 final size:60
Alignment explanation
Indices: 18675822--18675990 Score: 238
Period size: 60 Copynumber: 2.9 Consensus size: 60
18675812 ATAACTCCTA
* * * *
18675822 ATTT-ATTAAATGAAA-TA-ATAGAAAATAATTTGTACAAACATATTCAAAAGAACTTCT
1 ATTTCATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAAAACTTCT
* * *
18675879 ATTTCGTTAAATGAAACAATATAAAAAATAATTTTTACAAAAATATTTAAAAAAACTTCT
1 ATTTCATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAAAACTTCT
*
18675939 ATTTTATTAAATGAAACAATAT-AAAAATAATTTGTACAAAAATATTCAAAAA
1 ATTTCATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAA
18675991 TAAATCAATG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 10 0.10
59 29 0.30
60 55 0.56
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.34
Consensus pattern (60 bp):
ATTTCATTAAATGAAACAATATAAAAAATAATTTGTACAAAAATATTCAAAAAAACTTCT
Found at i:18676361 original size:18 final size:18
Alignment explanation
Indices: 18676338--18676375 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18676328 AAAGAAACAT
18676338 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
18676356 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
18676374 AT
1 AT
18676376 CTGACATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ATAAGGGTTAGGATACAC
Found at i:18676608 original size:31 final size:31
Alignment explanation
Indices: 18676570--18676635 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
18676560 GTTATGGATC
*
18676570 CTAAACCATGTCATGTAATCCGTATCACACA
1 CTAAACCATGACATGTAATCCGTATCACACA
* *
18676601 CTAAACCATGACCTGTAATCCGTATCGCACA
1 CTAAACCATGACATGTAATCCGTATCACACA
18676632 CTAA
1 CTAA
18676636 CTCTGGAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (31 bp):
CTAAACCATGACATGTAATCCGTATCACACA
Found at i:18677000 original size:7 final size:7
Alignment explanation
Indices: 18676990--18677021 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18676980 CCATATACAT
18676990 AATACTA
1 AATACTA
18676997 AATACTA
1 AATACTA
18677004 AATACTA
1 AATACTA
18677011 AATACTA
1 AATACTA
18677018 AATA
1 AATA
18677022 GACTATGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:18678755 original size:3 final size:3
Alignment explanation
Indices: 18678747--18678774 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18678737 ATCTATATAG
18678747 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18678775 CCTAATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18678945 original size:35 final size:33
Alignment explanation
Indices: 18678880--18678946 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
18678870 TTTATACATG
* * *
18678880 TATATATATCCTTTATATAGTAATATTATTTTA
1 TATATATATCATATATATAGTAATAATATTTTA
*
18678913 TATATATATCATATATTATGGTACATAATATTTT
1 TATATATATCATATA-TATAGTA-ATAATATTTT
18678947 CATTTACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 13 0.46
34 6 0.21
35 9 0.32
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.52
Consensus pattern (33 bp):
TATATATATCATATATATAGTAATAATATTTTA
Found at i:18679260 original size:18 final size:19
Alignment explanation
Indices: 18679237--18679279 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
18679227 ATATATTCTC
18679237 ATTATTATCATT-ACTTTT
1 ATTATTATCATTAACTTTT
* *
18679255 ATTATTATTATTAATTTTT
1 ATTATTATCATTAACTTTT
18679274 ATTATT
1 ATTATT
18679280 TGACGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTATCATTAACTTTT
Found at i:18679393 original size:24 final size:23
Alignment explanation
Indices: 18679349--18679405 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
18679339 TTTTACTTAT
* *
18679349 TTTCTTATTACTTAGTTATTTACG
1 TTTCTTATTACTCAGTAATTT-CG
18679373 TTTCTTATTCACTCA-TAATTTCG
1 TTTCTTATT-ACTCAGTAATTTCG
*
18679396 -TTATTATTAC
1 TTTCTTATTAC
18679406 GTATAAGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 7 0.24
23 2 0.07
24 14 0.48
25 4 0.14
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTCTTATTACTCAGTAATTTCG
Found at i:18680916 original size:40 final size:40
Alignment explanation
Indices: 18680881--18681063 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
18680871 TACTCGTTCG
*
18680881 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
18680921 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
18680961 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* * * * *
18681000 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
18681041 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
18681064 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:18680990 original size:79 final size:82
Alignment explanation
Indices: 18680881--18681063 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 82
18680871 TACTCGTTCG
* *
18680881 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
18680944 ATTTAGTAAC-TCGCACA
65 ATATAGTAACTTAGCACA
* **
18680961 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
18681024 TATGGTCACTTAGCACA
66 TATAGTAACTTAGCACA
18681041 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
18681064 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.61
80 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCACA
Found at i:18685884 original size:93 final size:93
Alignment explanation
Indices: 18685725--18685895 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
18685715 GGATGGTTGA
* * *
18685725 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCATTGAGT
18685790 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
18685818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCATTGAGT
18685883 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18685896 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18685898 original size:46 final size:46
Alignment explanation
Indices: 18685729--18685900 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
18685719 GGTTGAGCAT
* * *
18685729 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
18685775 CCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
18685820 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
18685868 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18685901 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:18686161 original size:19 final size:20
Alignment explanation
Indices: 18686124--18686161 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18686114 ATAAGGTGGT
18686124 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18686144 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18686162 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18696184 original size:87 final size:87
Alignment explanation
Indices: 18696093--18696618 Score: 811
Period size: 87 Copynumber: 6.0 Consensus size: 87
18696083 CGCAATGGAG
* * * *
18696093 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTT
1 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCTT
18696158 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
* * * * * **
18696180 CAGGCTAAATTTACAGATCTCAACCCCTTAAGCAGTAGGGAAACAGATCGAA-AGCGATGAACCT
1 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGA-TGATGGGCCT
* *
18696244 CAAACCCCTAAGCAGTAGGATAA
65 TAAACCCCTAAGCAGTAGGGTAA
* ** * * * *
18696267 CAGGTTGGATTTACAGATCTTAACCCCCTAAGAAGTAGGGAAACAGATTGAAGATGATGGGCCTT
1 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCTT
18696332 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
* *
18696354 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGGAGGTGATGGGCCTT
1 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCTT
18696419 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
*
18696441 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTT
1 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCTT
18696506 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
* *
18696528 CAGGCTAAATTTACAAATCTTAACCCCTTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTT
1 CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCTT
18696593 AAACCCCTAAGCAGTAGGGTAA
66 AAACCCCTAAGCAGTAGGGTAA
18696615 CAGG
1 CAGG
18696619 TTGAAAATCA
Statistics
Matches: 405, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
86 1 0.00
87 403 1.00
88 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (87 bp):
CAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCTT
AAACCCCTAAGCAGTAGGGTAA
Found at i:18696716 original size:68 final size:69
Alignment explanation
Indices: 18696633--18696767 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 69
18696623 AAATCAAATA
* * *
18696633 TCTTCTCCTTGAAATGGCGTTGGAGC-AGCT-AAAAGCCATAGCAGATCTCCTTGAAGTTTCAGC
1 TCTTCTCCTTGAAATGGCATTGGAACGA-CTAAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
18696696 GGATC
65 GGATC
* * *
18696701 TCTTCTTCC-TGAAATGGCATTGGAACGACTAAAAAGTCACAGCAGGTTTCCTTGAAGTTTCAGC
1 TCTTC-TCCTTGAAATGGCATTGGAACGACTAAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
18696765 GGA
65 GGA
18696768 AGAAGATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
68 22 0.38
69 36 0.62
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (69 bp):
TCTTCTCCTTGAAATGGCATTGGAACGACTAAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCG
GATC
Found at i:18698527 original size:22 final size:24
Alignment explanation
Indices: 18698484--18698529 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18698474 CTGTACATAT
* *
18698484 ATACTATGTATATTTCTCCTTTTA
1 ATACTATATATATATCTCCTTTTA
18698508 ATACTATATATATAT-T-CTTTTA
1 ATACTATATATATATCTCCTTTTA
18698530 TATATTACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 1 0.05
24 13 0.65
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.54
Consensus pattern (24 bp):
ATACTATATATATATCTCCTTTTA
Found at i:18700959 original size:43 final size:42
Alignment explanation
Indices: 18700911--18701035 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 42
18700901 CCAGACGTGG
* *
18700911 TCTTACATGTAATCAAATATCGATGT-AACTGTCCCAGACAATT
1 TCTTACACGAAATCAAATA-CGATGTCAA-TGTCCCAGACAATT
* *
18700954 TCTTACACGAAATCAAATACGATGTCGATGTCCCAGAC-ATGG
1 TCTTACACGAAATCAAATACGATGTCAATGTCCCAGACAAT-T
* *
18700996 TCTTACACATAAATCATAAGT-CGATGCCAATGTCCCAGAC
1 TCTTACAC-GAAATCA-AA-TACGATGTCAATGTCCCAGAC
18701036 GTGGTCTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 24 0.34
43 24 0.34
44 19 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (42 bp):
TCTTACACGAAATCAAATACGATGTCAATGTCCCAGACAATT
Found at i:18700990 original size:42 final size:42
Alignment explanation
Indices: 18700898--18701051 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 42
18700888 CAATGCCAAC
* * *
18700898 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGT-AACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGTCAA-T
* *
18700941 GTCCCAGACAAT-TTCTTACACGAAATCAAATACGATGTCGAT
1 GTCCCAGAC-ATGGTCTTACACGAAATCAAATACGATGTCAAT
* *
18700983 GTCCCAGACATGGTCTTACACATAAATCATAAGT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACAC-GAAATCA-AA-TACGATGTCAAT
*
18701027 GTCCCAGACGTGGTCTTACACGAAA
1 GTCCCAGACATGGTCTTACACGAAA
18701052 ACACATATCG
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 24 0.26
43 36 0.38
44 31 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGTCAAT
Found at i:18701034 original size:44 final size:41
Alignment explanation
Indices: 18700890--18701047 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 41
18700880 AGATAGCACA
* * *
18700890 ATGCCAACGTCCCAGACGTGGTCTTACA-TGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACT-AAATC-AA-ATCG
* * *
18700933 ATG-TAACTGTCCCAGACAAT-TTCTTACACGAAATCAAATACG
1 ATGCCAA-TGTCCCAGAC-ATGGTCTTACACTAAATCAAAT-CG
* *
18700975 ATGTCGATGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-TAAATCA-AA-TCG
*
18701019 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
18701048 GAAAACACAT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 27 0.29
43 30 0.32
44 31 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTAAATCAAATCG
Found at i:18701924 original size:31 final size:32
Alignment explanation
Indices: 18701889--18701953 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
18701879 TGATAATTGC
18701889 CTAATTTCATACATT-TTTTATTTAATTATAA
1 CTAATTTCATACATTGTTTTATTTAATTATAA
* *
18701920 CTAATTTCATACTTTGTTTTATTTAATTTTAA
1 CTAATTTCATACATTGTTTTATTTAATTATAA
18701952 CT
1 CT
18701954 TATTAATCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.57
Consensus pattern (32 bp):
CTAATTTCATACATTGTTTTATTTAATTATAA
Found at i:18701999 original size:26 final size:25
Alignment explanation
Indices: 18701948--18701999 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
18701938 TTATTTAATT
*
18701948 TTAACTTATTAATCCAATTACCAAA
1 TTAACTTATTAATCCAATTACAAAA
*
18701973 TTAACCTTATTTAATCC-ATTATAAAA
1 TTAA-CTTA-TTAATCCAATTACAAAA
18701999 T
1 T
18702000 CACATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAACTTATTAATCCAATTACAAAA
Found at i:18703029 original size:34 final size:34
Alignment explanation
Indices: 18702981--18703112 Score: 167
Period size: 34 Copynumber: 3.9 Consensus size: 34
18702971 GCGAATACAT
* * *
18702981 TCTGGGCCTAAGCCCATATCAATAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
18703015 TCTGGGCCTTAGCCCATTTCAGTAATAGTAACAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
18703049 TCTGGGCTTTAGCCCATTTCAGTAACAGAAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
* *
18703083 TCT-GGCCTTTATCCCATTTCAGTAATAGTA
1 TCTGGGCC-TTAGCCCATTTCAGTAACAGTA
18703113 ATTAGTGCAG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 3 0.04
34 81 0.96
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:18703099 original size:68 final size:68
Alignment explanation
Indices: 18702981--18703113 Score: 196
Period size: 68 Copynumber: 2.0 Consensus size: 68
18702971 GCGAATACAT
*
18702981 TCTGGGCCTAAGCCCATATCAATAACAGTAGCAGTCTGGGCCTTAGCCCATTTCAGTAATAGTAA
1 TCTGGGCCTAAGCCCATATCAATAACAGAAGCAGTCTGGGCCTTAGCCCATTTCAGTAATAGTAA
18703046 CAG
66 CAG
* * * * *
18703049 TCTGGGCTTTAGCCCATTTCAGTAACAGAAGCAGTCT-GGCCTTTATCCCATTTCAGTAATAGTA
1 TCTGGGCCTAAGCCCATATCAATAACAGAAGCAGTCTGGGCC-TTAGCCCATTTCAGTAATAGTA
18703113 A
65 A
18703114 TTAGTGCAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 4 0.07
68 54 0.93
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (68 bp):
TCTGGGCCTAAGCCCATATCAATAACAGAAGCAGTCTGGGCCTTAGCCCATTTCAGTAATAGTAA
CAG
Found at i:18703157 original size:18 final size:18
Alignment explanation
Indices: 18703111--18703160 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
18703101 TCAGTAATAG
*
18703111 TAATTAGTGCAGTAACCA
1 TAATTAGTGCAGTAACAA
* * *
18703129 TCATCAATGCAGTAACAA
1 TAATTAGTGCAGTAACAA
18703147 TAATTAGTGCAGTA
1 TAATTAGTGCAGTA
18703161 TGCAAGCAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (18 bp):
TAATTAGTGCAGTAACAA
Found at i:18703288 original size:26 final size:26
Alignment explanation
Indices: 18703259--18703324 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
18703249 GCCAGACACA
*
18703259 CCAATATCAGTATCACAGCAAAGCTG
1 CCAATATCAGTATCACAGCAAACCTG
* *
18703285 CCAATAGCAGTATCGCAGCAAACCTG
1 CCAATATCAGTATCACAGCAAACCTG
18703311 CCAATAATCAGTAT
1 CCAAT-ATCAGTAT
18703325 AATGGCTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 28 0.80
27 7 0.20
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (26 bp):
CCAATATCAGTATCACAGCAAACCTG
Found at i:18703516 original size:27 final size:25
Alignment explanation
Indices: 18703470--18703586 Score: 99
Period size: 27 Copynumber: 4.4 Consensus size: 25
18703460 GAACAAATCT
* *
18703470 GTCATTTTACCTTACCGGGGTATTATA
1 GTCATTTTACCCTA-TGGGGTATT-TA
* *
18703497 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTT-A
* *
18703524 GTCATTCTACCTTATGGGCGTATTTA
1 GTCATTTTACCCTATGGG-GTATTTA
*
18703550 GGTTATTTTACCCTATGAGGGTATTTTA
1 -GTCATTTTACCCTATG-GGGTA-TTTA
18703578 GTCATTTTA
1 GTCATTTTA
18703587 TCACATAAGG
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
26 4 0.05
27 64 0.86
28 6 0.08
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (25 bp):
GTCATTTTACCCTATGGGGTATTTA
Found at i:18703582 original size:54 final size:54
Alignment explanation
Indices: 18703470--18703583 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
18703460 GAACAAATCT
* *
18703470 GTCATTTTACCTTACCGGGGTATTATAGTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTCTACCTTACCGGGGTATTATAGTCATTTTACCCTACAGGGGTATTTCA
* * * *
18703524 GTCATTCTACCTTA-TGGGCGTATT-TAGGTTATTTTACCCTA-TGAGGGTATTTTA
1 GTCATTCTACCTTACCGGG-GTATTATA-GTCATTTTACCCTACAG-GGGTATTTCA
18703578 GTCATT
1 GTCATT
18703584 TTATCACATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 6 0.12
54 45 0.88
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (54 bp):
GTCATTCTACCTTACCGGGGTATTATAGTCATTTTACCCTACAGGGGTATTTCA
Found at i:18703597 original size:27 final size:26
Alignment explanation
Indices: 18703578--18703786 Score: 301
Period size: 27 Copynumber: 7.8 Consensus size: 26
18703568 GGGTATTTTA
18703578 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGG-AAAATT
*
18703605 GTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGG-AAAATT
* *
18703632 GTCATTTCATCACATAAAGGTAAAATT
1 GTCATTTTATCACAT-AAGGGAAAATT
*
18703659 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-AAAATT
*
18703686 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-AAAATT
18703713 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGG-AAAATT
*
18703740 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-AAAATT
18703767 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
18703787 TTCAAGTACG
Statistics
Matches: 171, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
26 4 0.02
27 164 0.96
28 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (26 bp):
GTCATTTTATCACATAAGGGAAAATT
Found at i:18703612 original size:54 final size:54
Alignment explanation
Indices: 18703578--18703786 Score: 355
Period size: 54 Copynumber: 3.9 Consensus size: 54
18703568 GGGTATTTTA
* *
18703578 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATT
* * * * *
18703632 GTCATTTCATCACATAAAGGTAAAATTGTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATT
18703686 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATT
18703740 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
18703787 TTCAAGTACG
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 145 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (54 bp):
GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATT
Found at i:18703681 original size:81 final size:81
Alignment explanation
Indices: 18703578--18703786 Score: 364
Period size: 81 Copynumber: 2.6 Consensus size: 81
18703568 GGGTATTTTA
* * *
18703578 GTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCACATGAGGGCAAAATTGTCATTTCATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTCATC
*
18703643 ACATAAAGGTAAAATT
66 ACATAAAGGCAAAATT
*
18703659 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTCATC
*
18703724 ACATAAGGGCAAAATT
66 ACATAAAGGCAAAATT
18703740 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
18703787 TTCAAGTACG
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 122 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (81 bp):
GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTCATC
ACATAAAGGCAAAATT
Found at i:18712111 original size:43 final size:42
Alignment explanation
Indices: 18712063--18712261 Score: 154
Period size: 43 Copynumber: 4.7 Consensus size: 42
18712053 ATATGATTTC
* *
18712063 GTGTAAGACCATGTCTGGGACGTTGGCATTGACTTGAGATATT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGA-ATATT
** * **
18712106 GTGTAAGATTATGTCTAGGACACTGGCATCG-ATT-AATGATTAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGAAT-A-T-T
* ** * * *
18712149 GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTTT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGAATATT
* * * *
18712191 GTGTAAGACCCTGTCTGGAACAG-TGGCATCGAAATTGATTA-C
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCG-AATTGAATATT
*
18712233 ATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
18712262 TGTACGAGCT
Statistics
Matches: 121, Mismatches: 27, Indels: 17
0.73 0.16 0.10
Matches are distributed among these distances:
40 2 0.02
41 3 0.02
42 53 0.44
43 57 0.47
44 3 0.02
45 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGAATTGAATATT
Found at i:18712260 original size:42 final size:42
Alignment explanation
Indices: 18712063--18712261 Score: 161
Period size: 42 Copynumber: 4.7 Consensus size: 42
18712053 ATATGATTTC
* * *
18712063 GTGTAAGACCATGTCTGGGACGTTGGCATTG-ACTTGAGATATT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTGA-TTA-T
** * **
18712106 GTGTAAGATTATGTCTAGGACACTGGCATCGATTAA-TGATTAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGA--AATTGATTAT
* ** * * * *
18712149 GTGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTTT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTGATTAT
* * *
18712191 GTGTAAGACCCTGTCTGGAACAG-TGGCATCGAAATTGATTAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCGAAATTGATTAT
*
18712233 ATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
18712262 TGTACGAGCT
Statistics
Matches: 119, Mismatches: 31, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.50
43 51 0.43
44 2 0.02
45 3 0.03
46 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTGATTAT
Found at i:18716645 original size:42 final size:43
Alignment explanation
Indices: 18716574--18716665 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 43
18716564 CCAAATATGA
* * * * * *
18716574 TCTTATACGAAAATCTTATTTCAATGCCATGTCCCAGACGTGG
1 TCTTACACGAAAATCTCATATCAACGCCATATCCCAGACATGG
*
18716617 TCTTACACG-AAATCTCATATCAACGCCATATCCCAGATATGG
1 TCTTACACGAAAATCTCATATCAACGCCATATCCCAGACATGG
18716659 TCTTACA
1 TCTTACA
18716666 TGATAACACA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 34 0.81
43 8 0.19
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
TCTTACACGAAAATCTCATATCAACGCCATATCCCAGACATGG
Found at i:18724780 original size:27 final size:27
Alignment explanation
Indices: 18724749--18724926 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18724739 TAAATTGTAC
18724749 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18724776 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18724802 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18724830 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18724858 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18724885 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18724912 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18724927 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18724863 original size:82 final size:81
Alignment explanation
Indices: 18724750--18724905 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18724740 AAATTGTACA
* *
18724750 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18724814 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18724831 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18724896 TGCGAGTTGA
65 TGCGAATTGA
18724906 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18724917 original size:82 final size:81
Alignment explanation
Indices: 18724746--18724926 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18724736 GATTAAATTG
* *
18724746 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18724811 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18724827 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18724891 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18724909 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18724927 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18726343 original size:42 final size:44
Alignment explanation
Indices: 18726297--18726381 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 44
18726287 ATGCCACTAT
*
18726297 CCTAGATATGTTCTTACACG-AAATCA-AA-TACGATGCCAACGC
1 CCTAGATATGATCTTACACGTAAATCATAAGT-CGATGCCAACGC
* *
18726339 CCTAGATGTGATCTTACATGTAAATCATAAGTCGATGCCAACG
1 CCTAGATATGATCTTACACGTAAATCATAAGTCGATGCCAACG
18726382 TCTCAGACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 17 0.46
43 6 0.16
44 13 0.35
45 1 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (44 bp):
CCTAGATATGATCTTACACGTAAATCATAAGTCGATGCCAACGC
Found at i:18726832 original size:17 final size:17
Alignment explanation
Indices: 18726810--18726855 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
18726800 TTTAGTCCTT
18726810 ATTTCACAAAATCAAAA
1 ATTTCACAAAATCAAAA
*
18726827 ATTTCACAAAATCACAA
1 ATTTCACAAAATCAAAA
18726844 ATTTCACAAAAT
1 ATTTCACAAAAT
18726856 TTGCATATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (17 bp):
ATTTCACAAAATCAAAA
Found at i:18739756 original size:42 final size:42
Alignment explanation
Indices: 18739653--18739814 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 42
18739643 AAAGCTCGTA
* * * * *
18739653 CAATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAA-GT
18739696 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATC-AAG-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAAGT
*
18739736 CATGATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCATAAGT
1 CA--ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCA-AAGT
18739782 CAATGCCAACGTCCCAGACGTGGTCTTACACGA
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGA
18739815 TAACACATAT
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 28 0.27
43 36 0.35
44 30 0.29
45 3 0.03
46 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAAGT
Found at i:18739807 original size:86 final size:85
Alignment explanation
Indices: 18739655--18739814 Score: 236
Period size: 86 Copynumber: 1.9 Consensus size: 85
18739645 AGCTCGTACA
18739655 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
18739720 CTTACACGAAATCAAGCATG
66 CTTACACGAAATCAAGCATG
* * *
18739740 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCATAA-GTCAATGCCAAC-GTCCCAGAC-G
1 ATGCCAACATCCCAAACGTGGTCTTACATGT-AATCA-AATATCAATGCC-ACTGTCCCAGACAG
18739802 TGGTCTTACACGA
63 -GGTCTTACACGA
18739815 TAACACATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
85 30 0.44
86 34 0.50
87 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCAAGCATG
Found at i:18743020 original size:40 final size:41
Alignment explanation
Indices: 18742976--18743082 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 41
18742966 GATAACTTCA
*
18742976 GCTATATAGAGCACTTAGTGTACGA-GTGG-GAATAGCTTTG
1 GCTATATAGAGCACTTAGTGTGCGAGGTGGAG-ATAGCTTTG
* * * *
18743016 GCTATTTATGA-AACTTAGTGTGCAAGGTTGAGATAGCTTTG
1 GCTATATA-GAGCACTTAGTGTGCGAGGTGGAGATAGCTTTG
*
18743057 GCTATGAAAG-GCACTTAGTGTGCGAG
1 GCTAT-ATAGAGCACTTAGTGTGCGAG
18743083 ATTATAATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
40 18 0.34
41 33 0.62
42 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (41 bp):
GCTATATAGAGCACTTAGTGTGCGAGGTGGAGATAGCTTTG
Found at i:18749447 original size:14 final size:13
Alignment explanation
Indices: 18749426--18749466 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
18749416 ACTTATTGCC
18749426 TATT-TTTTATAT
1 TATTATTTTATAT
18749438 TATATATTTT-TAT
1 TAT-TATTTTATAT
18749451 TATTATTTTATTAT
1 TATTATTTTA-TAT
18749465 TA
1 TA
18749467 ACCTGTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.36
13 7 0.28
14 9 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:18749461 original size:11 final size:12
Alignment explanation
Indices: 18749426--18749466 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
18749416 ACTTATTGCC
18749426 TATT-TTTTATAT
1 TATTATTTT-TAT
18749438 TATATATTTTTAT
1 TAT-TATTTTTAT
18749451 TATTA-TTTTAT
1 TATTATTTTTAT
18749462 TATTA
1 TATTA
18749467 ACCTGTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.41
12 5 0.19
13 7 0.26
14 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTATTTTTAT
Found at i:18753244 original size:28 final size:28
Alignment explanation
Indices: 18753145--18753231 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
18753135 GCAATCAAAT
* *
18753145 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
18753173 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
18753201 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
18753229 ATG
1 ATG
18753232 ACATTTCGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:18753251 original size:28 final size:28
Alignment explanation
Indices: 18753145--18753251 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
18753135 GCAATCAAAT
* * *
18753145 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
18753173 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
18753201 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* * * *
18753229 ATGACATTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
18753252 CGAATGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:18753428 original size:44 final size:43
Alignment explanation
Indices: 18753363--18753491 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
18753353 TTTATAATGG
** * *
18753363 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTG-A-AA
* *
18753408 T-ATTATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAAA
* * *
18753451 TGATATCGGGCTTCAAGCCTAGCACGCGA-AATGTCGGTGAA
1 TGATATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAA
18753492 TGAGTTCAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
42 11 0.15
43 26 0.37
44 25 0.35
45 9 0.13
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAAA
Found at i:18755105 original size:49 final size:49
Alignment explanation
Indices: 18755028--18755272 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 49
18755018 TAGCCGAAGC
* *
18755028 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
18755077 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
18755127 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
18755178 TATCAGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
18755227 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
18755273 TCACAATAGC
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 47 0.28
51 38 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:18762561 original size:28 final size:28
Alignment explanation
Indices: 18762521--18762627 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
18762511 GCAATCAAAT
* *
18762521 ATGGTACTCAGTGTACAAAATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
*
18762549 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
* * * *
18762577 ATGGCACTTCGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
* * *
18762605 ATGACACTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTACAAAATAT
18762628 CGAATGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACAAAATATTGAGA
Found at i:18762840 original size:43 final size:43
Alignment explanation
Indices: 18762739--18762867 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
18762729 TTTATAATGG
* * * *
18762739 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
18762784 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
18762827 TGATATCGGGCTTCCAGCCTAGCAGGCGA-AATGCCGATGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
18762868 TGAGTTTAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 11 0.15
43 26 0.36
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:18762948 original size:40 final size:41
Alignment explanation
Indices: 18762800--18762947 Score: 129
Period size: 40 Copynumber: 3.6 Consensus size: 41
18762790 CGGGCTTCGG
**
18762800 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCCA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * ** *
18762843 GCCTAGCAGGCGAAATGCCGATGAATGAGTTTAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
18762884 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
18762924 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
18762948 TTTGATAAAA
Statistics
Matches: 79, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
40 30 0.38
41 27 0.34
42 10 0.13
43 12 0.15
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:18765192 original size:12 final size:13
Alignment explanation
Indices: 18765158--18765197 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
18765148 TTTTTTCAAG
18765158 TAGTTTATTGATA
1 TAGTTTATTGATA
18765171 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
18765185 TAGTTTATTGATA
1 TAGTTTATTGATA
18765198 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:18769421 original size:43 final size:43
Alignment explanation
Indices: 18769373--18769549 Score: 284
Period size: 43 Copynumber: 4.1 Consensus size: 43
18769363 ATGAAACTCA
* * *
18769373 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCTG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCG
18769416 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCG
*
18769459 ATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCG
* *
18769502 GTGATGTGTATTCGGGTCC-TCGTGCCTAGCAGGCTTAATGCCA
1 GTGATGTGTATTCGGG-CCTTCGTGCCTAGCAGGCTTCATGCCG
18769545 GTGAT
1 GTGAT
18769550 TCGAGCAAGG
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
43 124 0.98
44 2 0.02
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.31
Consensus pattern (43 bp):
GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCG
Found at i:18769739 original size:29 final size:29
Alignment explanation
Indices: 18769706--18769807 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
18769696 ATGATTAGAG
*
18769706 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
18769735 GCACTATGTGTGCGAGA-T-CAGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* * *
18769763 GGCCCTGTGTGTACAAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
*
18769793 TCACTATGTGTGCAA
1 GCACTATGTGTGCAA
18769808 GATCGGTAAT
Statistics
Matches: 51, Mismatches: 18, Indels: 8
0.66 0.23 0.10
Matches are distributed among these distances:
28 8 0.16
29 35 0.69
30 8 0.16
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:18769772 original size:58 final size:58
Alignment explanation
Indices: 18769703--18769868 Score: 246
Period size: 58 Copynumber: 2.9 Consensus size: 58
18769693 CGAATGATTA
18769703 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
* * * * *
18769761 GAGGCCCTGTGTGTACAAATTCCTTTAACCGATCACTATGTGTGCAAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
* *
18769819 GAGGCACTGTGTGTGCGAGTT--TTTCAACCGAGCACTATGTGTGCGAGATC
1 GAGGCACTGTGTGTGCAAATTCCTTT-AACCGAGCACTATGTGTGCGAGATC
18769869 GGTCAGTGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 3 0.03
57 23 0.24
58 70 0.73
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
Found at i:18771781 original size:40 final size:40
Alignment explanation
Indices: 18771718--18771943 Score: 362
Period size: 40 Copynumber: 5.7 Consensus size: 40
18771708 ATTGGAATGC
* * *
18771718 GCCTTCGGAACTTGACCCGGATATAACAACCAGCACGAAC
1 GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
* * *
18771758 GCCTTCAGGACTTAGCCCAGATATAACAACCAGCACGAAT
1 GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
*
18771798 GCCTTCGGGACTTAACCCAGATATAACAACCAGCACGAAT
1 GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
18771838 GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
1 GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
* * *
18771878 TCCTTCGGGACTTAACCTGGATATAACAACCAGCACGAAA
1 GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
18771918 GCCTTCGGGACTTAACCCGGATATAA
1 GCCTTCGGGACTTAACCCGGATATAA
18771944 TCCTCAATTA
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAAT
Found at i:18779600 original size:40 final size:40
Alignment explanation
Indices: 18779535--18779801 Score: 354
Period size: 40 Copynumber: 6.7 Consensus size: 40
18779525 AATTGGAATG
* ** *
18779535 TGCCTTCGGAACTTGGCTCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* * * *
18779575 TGCCTTCAGGACTTAGCCCGAATATAACAACTAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* * * * *
18779615 TGACTTCAGGACTTAGCCCGGATATAACAGCCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
18779655 TGCCTTCGGGACTTAACCCGGATATAACAACTAGCATGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
18779695 TACCTTCGGGACTTAAACCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
18779735 TGCCTTCGGAACTTAACCCAGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
18779775 AGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
18779802 TCCTCAATTA
Statistics
Matches: 198, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 198 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:18785185 original size:12 final size:14
Alignment explanation
Indices: 18785150--18785190 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18785140 GATTTTTTTA
18785150 AGTAGTTATTGATAT
1 AGTA-TTATTGATAT
18785165 AGTCATTATT-ATAT
1 AGT-ATTATTGATAT
18785179 AGT-TTATTGATA
1 AGTATTATTGATA
18785191 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 3 0.12
14 7 0.29
15 8 0.33
16 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (14 bp):
AGTATTATTGATAT
Found at i:18792350 original size:37 final size:37
Alignment explanation
Indices: 18792291--18792399 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
18792281 AGCTCAGATG
* *
18792291 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
18792328 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
18792365 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18792400 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:18792670 original size:48 final size:48
Alignment explanation
Indices: 18792546--18792885 Score: 565
Period size: 48 Copynumber: 7.0 Consensus size: 48
18792536 ACACATCGCC
* *
18792546 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
18792596 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
18792644 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
18792692 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
*
18792744 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
18792792 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
18792840 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
18792886 TATGCATCAA
Statistics
Matches: 276, Mismatches: 8, Indels: 14
0.93 0.03 0.05
Matches are distributed among these distances:
48 186 0.67
49 2 0.01
50 41 0.15
52 47 0.17
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18792790 original size:100 final size:96
Alignment explanation
Indices: 18792546--18792885 Score: 565
Period size: 100 Copynumber: 3.5 Consensus size: 96
18792536 ACACATCGCC
* * *
18792546 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
*
18792611 -GACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCGGCTTTACCACATATACATATCTCA
18792644 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
18792709 CCATTCGGCTTTACCACATATACATATCTCATATA
66 CCATTCGGCTTTACCACATATACATATCTC----A
*
18792744 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
18792809 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
18792840 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
18792886 TATGCATCAA
Statistics
Matches: 231, Mismatches: 6, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
96 90 0.39
97 1 0.00
98 45 0.19
100 95 0.41
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:18792798 original size:148 final size:146
Alignment explanation
Indices: 18792546--18792885 Score: 619
Period size: 148 Copynumber: 2.3 Consensus size: 146
18792536 ACACATCGCC
* *
18792546 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
18792611 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
66 GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
18792676 ACATATACATATCTCA
131 ACATATACATATCTCA
18792692 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATATTTCACA
18792757 TT-AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
64 TTGA-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
18792821 ACCACATATACATATCTCA
128 ACCACATATACATATCTCA
18792840 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
18792886 TATGCATCAA
Statistics
Matches: 188, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
146 45 0.24
147 1 0.01
148 142 0.76
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCA
Found at i:18795866 original size:20 final size:21
Alignment explanation
Indices: 18795838--18795876 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18795828 TGAGCCCATA
18795838 AGCCCATTG-GGCCCAATTTT
1 AGCCCATTGAGGCCCAATTTT
*
18795858 AGCCTATTGAGGCCCAATT
1 AGCCCATTGAGGCCCAATT
18795877 ACCGAAGTGC
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:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTTT
Found at i:18798073 original size:19 final size:19
Alignment explanation
Indices: 18798045--18798084 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18798035 AGAGCGAAAG
18798045 AAACGAG-AAATAGGCCAA
1 AAACGAGAAAATAGGCCAA
*
18798063 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAATAGGCCAA
18798083 AA
1 AA
18798085 TATGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 12 0.63
ACGTcount: A:0.55, C:0.15, G:0.25, T:0.05
Consensus pattern (19 bp):
AAACGAGAAAATAGGCCAA
Found at i:18827874 original size:28 final size:28
Alignment explanation
Indices: 18827811--18827988 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
18827801 ATAATAAGTC
* *
18827811 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18827838 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18827866 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18827894 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
18827922 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
18827949 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
18827978 CGCACACTTAG
1 CGCACACTTAG
18827989 CGCCAATCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 43 0.32
28 80 0.59
29 13 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:18829200 original size:60 final size:60
Alignment explanation
Indices: 18829125--18829244 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
18829115 ACTCCTTCTT
18829125 CCCTCCTTATTAAGCATTCAAACTCCCTCATTTTCATGCCACAACATCAAACACTCCTCC
1 CCCTCCTTATTAAGCATTCAAACTCCCTCATTTTCATGCCACAACATCAAACACTCCTCC
18829185 CCCTCCTTATTAAGCATTCAAACTCCCTCATTTTCATGCCACAACATCAAACACTCCTCC
1 CCCTCCTTATTAAGCATTCAAACTCCCTCATTTTCATGCCACAACATCAAACACTCCTCC
18829245 TAGATACAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.28, C:0.40, G:0.03, T:0.28
Consensus pattern (60 bp):
CCCTCCTTATTAAGCATTCAAACTCCCTCATTTTCATGCCACAACATCAAACACTCCTCC
Found at i:18829947 original size:30 final size:30
Alignment explanation
Indices: 18829892--18829949 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18829882 CCGAGCCTTG
*
18829892 GGGAAAAAGTGTAAATATGTAAAAGTTTAA
1 GGGAAAAAGTGTAAATATGCAAAAGTTTAA
* * *
18829922 GGGAAAAAGTGTAATTTTGCCAAAGTTT
1 GGGAAAAAGTGTAAATATGCAAAAGTTT
18829950 GAGTCAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGAAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:18830394 original size:55 final size:52
Alignment explanation
Indices: 18830286--18830519 Score: 201
Period size: 55 Copynumber: 4.4 Consensus size: 52
18830276 ATTAGGGTTT
* * * *
18830286 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGT-A-GTTTATAAGGC
*
18830341 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATATGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-G-T-TTATAAGGC
* * * * ** *
18830396 AAAGG-TCCCATGTAAGATCACG-CTAAGGCATGGCATTGGTGAGTCCATAAGGA
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGGT-AGTTTATAAGGC
* * *
18830449 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT-AGTTTATAAGGC
18830498 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
18830520 AAAAATCGTG
Statistics
Matches: 148, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
49 22 0.15
52 6 0.04
53 38 0.26
54 9 0.06
55 68 0.46
56 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAGTTTATAAGGC
Found at i:18833756 original size:39 final size:40
Alignment explanation
Indices: 18833711--18833878 Score: 104
Period size: 40 Copynumber: 4.2 Consensus size: 40
18833701 CGGGGTTTAG
* * *
18833711 CCGGATATAACCACTTGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
18833750 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * * * **
18833790 CCGGATATAGTCGCTAGCACAAATGCCTTTGGGTCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
* ** * * * *
18833830 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
18833871 CCGGATAT
1 CCGGATAT
18833879 CATTCGAGTA
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 15 0.14
40 63 0.59
41 29 0.27
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:18833869 original size:41 final size:40
Alignment explanation
Indices: 18833734--18833878 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
18833724 CTTGCACAAG
* * * * *
18833734 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
18833774 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * * *
18833814 GCCTTTGGGTCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
18833855 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
18833879 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 61 0.68
41 29 0.32
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:18841785 original size:39 final size:40
Alignment explanation
Indices: 18841740--18841850 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
18841730 CGGGGTTTAG
* * *
18841740 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
18841779 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
18841819 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
18841851 ATCTTAGTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:18841810 original size:40 final size:41
Alignment explanation
Indices: 18841763--18841948 Score: 223
Period size: 41 Copynumber: 4.6 Consensus size: 41
18841753 CTCGCACAAG
* * * * *
18841763 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
18841803 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* ** *
18841843 GCCTTCGGATCTTAGTTCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
18841884 GCCTTCGGGTCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
18841925 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
18841949 CATTCGAGTA
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 60 0.47
41 68 0.53
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:18845634 original size:27 final size:27
Alignment explanation
Indices: 18845604--18845655 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
18845594 AATCTCATAT
* *
18845604 CTGTAAGCTAGCATTGCTGAAATACTC
1 CTGTAAGCTAGAATTACTGAAATACTC
* *
18845631 CTGTAGGGTAGAATTACTGAAATAC
1 CTGTAAGCTAGAATTACTGAAATAC
18845656 CCTTGATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (27 bp):
CTGTAAGCTAGAATTACTGAAATACTC
Found at i:18845672 original size:27 final size:27
Alignment explanation
Indices: 18845642--18845883 Score: 199
Period size: 27 Copynumber: 9.0 Consensus size: 27
18845632 TGTAGGGTAG
*
18845642 AATTACTGAAATACCCTTGATTTGTGA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
18845669 AATTACAGAAATA-CCTTCGACTTGTAA
1 AATTACTGAAATACCCTT-GATTTGTAA
*
18845696 AATTA-TCGAAATACCCTCGATTTGTAA
1 AATTACT-GAAATACCCTTGATTTGTAA
** * *
18845723 AATTACAAAAATACCCCTGATTTGAAA
1 AATTACTGAAATACCCTTGATTTGTAA
18845750 AATTA-TCGAAATACCCTTGATTTGTAA
1 AATTACT-GAAATACCCTTGATTTGTAA
** * **
18845777 AATTACAAAAATACCCCTGATTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * **
18845804 ATTTA-TAAAATACCCTTGACTTTCAAA
1 AATTACTGAAATACCCTTGA-TTTGTAA
* *
18845831 AATTA-TAGAAATACCAC-TGGTTTGCAA
1 AATTACT-GAAATACC-CTTGATTTGTAA
* *
18845858 AATTACTAAAATACCCTTGGTTTGTA
1 AATTACTGAAATACCCTTGATTTGTA
18845884 GATTTACCAA
Statistics
Matches: 172, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
26 17 0.10
27 141 0.82
28 13 0.08
29 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGTAA
Found at i:18845707 original size:54 final size:54
Alignment explanation
Indices: 18845649--18845883 Score: 235
Period size: 54 Copynumber: 4.4 Consensus size: 54
18845639 TAGAATTACT
* * * *
18845649 GAAATACCCTTGATTTGTGAAATTACAGAAATA-CCTTCGACTTGTAAAATTATC
1 GAAATACCCTTGATTTGTAAAATTACAAAAATACCCCT-GACTTGAAAAATTATC
* *
18845703 GAAATACCCTCGATTTGTAAAATTACAAAAATACCCCTGATTTGAAAAATTATC
1 GAAATACCCTTGATTTGTAAAATTACAAAAATACCCCTGACTTGAAAAATTATC
* *
18845757 GAAATACCCTTGATTTGTAAAATTACAAAAATACCCCTGA-TTTACAAATTTAT-
1 GAAATACCCTTGATTTGTAAAATTACAAAAATACCCCTGACTTGA-AAAATTATC
* ** * * * ** *
18845810 AAAATACCCTTGACTTTCAAAAATTATAGAAATACCACTGGTTTGCAAAATTA-C
1 GAAATACCCTTGA-TTTGTAAAATTACAAAAATACCCCTGACTTGAAAAATTATC
* *
18845864 TAAAATACCCTTGGTTTGTA
1 -GAAATACCCTTGATTTGTA
18845884 GATTTACCAA
Statistics
Matches: 153, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
53 15 0.10
54 121 0.79
55 17 0.11
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (54 bp):
GAAATACCCTTGATTTGTAAAATTACAAAAATACCCCTGACTTGAAAAATTATC
Found at i:18845964 original size:27 final size:27
Alignment explanation
Indices: 18845934--18846009 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
18845924 CCCCTAATAA
*
18845934 GTAAAAAGACCGTAATGCCCCTGTAGC
1 GTAAAATGACCGTAATGCCCCTGTAGC
** * *
18845961 GTAAAATGACAATAAAGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGC
* *
18845988 GTAAAGTGACCGTAATACCCCT
1 GTAAAATGACCGTAATGCCCCT
18846010 TCTCTCTTTC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGC
Found at i:18847944 original size:17 final size:16
Alignment explanation
Indices: 18847904--18847968 Score: 51
Period size: 18 Copynumber: 3.9 Consensus size: 16
18847894 AGTCTAGGAA
18847904 AACACGAGTTTTTAAG
1 AACACGAGTTTTTAAG
*
18847920 ATAGCACGATTTTTTAAAG
1 A-A-CACGAGTTTTT-AAG
* * *
18847939 AACACGAGCTTTCAAC
1 AACACGAGTTTTTAAG
*
18847955 AACA-AAGTTTTTAA
1 AACACGAGTTTTTAA
18847969 AATGTTTCCG
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
15 7 0.18
16 7 0.18
17 9 0.24
18 11 0.29
19 4 0.11
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (16 bp):
AACACGAGTTTTTAAG
Found at i:18850450 original size:55 final size:54
Alignment explanation
Indices: 18850362--18850616 Score: 183
Period size: 55 Copynumber: 4.8 Consensus size: 54
18850352 ATTAGGGTTT
* * **
18850362 AAGGATACCTTGAAAGACCATGCCAAGGTATGGCAATTGGTAAGGTTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGA
* * * * *
18850417 AAGGATACCATGTAAGACCATGTCAAGAAATGGC-ATTGATAAGTTACTATAATGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGA
* * * *
18850473 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGTTGAG-TTCATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGG-A
* * *
18850526 AA-GATACCATTTAAGTCCATG-TAGAGACATGGCAA-TGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCA-AGACATGGCAATTGGTAAGTTTCTAAGGA
* * * *
18850574 AAGGATACCACGTAAAACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
18850617 GTACCCGTGT
Statistics
Matches: 160, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
48 3 0.02
49 32 0.20
50 1 0.01
51 1 0.01
52 4 0.03
53 36 0.22
54 12 0.08
55 65 0.41
56 6 0.04
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGA
Found at i:18850557 original size:53 final size:54
Alignment explanation
Indices: 18850411--18850569 Score: 153
Period size: 53 Copynumber: 2.9 Consensus size: 54
18850401 GTAAGGTTTC
*
18850411 TAAGG-AAAGGATACCATGTAAGACCATGTCAAGAAATGGCATTGATAAGTTACTA
1 TAAGGCAAA-GATACCATGTAAGACCATGT-AAGACATGGCATTGATAAGTTACTA
* * * * * * *
18850466 TAATGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGTTGAGTT-C-A
1 TAAGGCAAAGATACCATGTAAGACCATG-TAAGACATGGCATTGATAAGTTACTA
* * * *
18850519 TAAGGCAAAGATACCATTTAAGTCCATGTAGAGACATGGCAATGGTAAGTT
1 TAAGGCAAAGATACCATGTAAGACCATGTA-AGACATGGCATTGATAAGTT
18850570 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
52 1 0.01
53 40 0.48
54 1 0.01
55 38 0.46
56 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (54 bp):
TAAGGCAAAGATACCATGTAAGACCATGTAAGACATGGCATTGATAAGTTACTA
Found at i:18852461 original size:46 final size:46
Alignment explanation
Indices: 18852411--18852582 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
18852401 TGAGCATCCA
18852411 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
18852457 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
** * *
18852504 AACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
18852550 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18852583 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.54
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:18852563 original size:93 final size:93
Alignment explanation
Indices: 18852404--18852575 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
18852394 GGATGGTTGA
* *
18852404 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
18852469 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
18852497 GCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18852562 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18852576 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18861099 original size:24 final size:24
Alignment explanation
Indices: 18861072--18861126 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
18861062 TTCAGAGAGT
18861072 ATTTTGCTAAACGGCTGCTAGACC
1 ATTTTGCTAAACGGCTGCTAGACC
18861096 ATTTTGCTAAACGGCTGCTAGACC
1 ATTTTGCTAAACGGCTGCTAGACC
18861120 ATTTTGC
1 ATTTTGC
18861127 ATATTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
ATTTTGCTAAACGGCTGCTAGACC
Found at i:18866757 original size:47 final size:47
Alignment explanation
Indices: 18866703--18866990 Score: 423
Period size: 47 Copynumber: 6.1 Consensus size: 47
18866693 TTAGGATTTT
** *
18866703 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18866750 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
18866797 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGACCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18866844 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18866891 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
18866938 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCTGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18866985 ATGTGA
1 ATGTGA
18866991 AATATATATA
Statistics
Matches: 215, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 215 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18866805 original size:25 final size:25
Alignment explanation
Indices: 18866730--18866805 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
18866720 GTGTATATAT
18866730 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
18866755 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
18866777 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
18866802 GTGA
1 GTGA
18866806 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:18866925 original size:141 final size:141
Alignment explanation
Indices: 18866702--18866967 Score: 505
Period size: 141 Copynumber: 1.9 Consensus size: 141
18866692 TTTAGGATTT
** *
18866702 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
18866767 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
18866832 GCCGAATGACC
131 GCCGAATGACC
18866843 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
18866908 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTG
18866968 GTAAAGCTGA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 122 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGACC
Found at i:18866946 original size:25 final size:25
Alignment explanation
Indices: 18866871--18866946 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
18866861 ATGCATATAT
18866871 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
18866896 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
18866918 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
18866943 GTGA
1 GTGA
18866947 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:18867041 original size:94 final size:90
Alignment explanation
Indices: 18866725--18867046 Score: 304
Period size: 94 Copynumber: 3.4 Consensus size: 90
18866715 TGAATGTGTA
* * * * * *
18866725 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGA
1 TATATGTGGTAAGGCCGAATGG-CTATGTG-TGAATATGAACATGCATATATGTGATAAAGCCGA
* *
18866790 ATGGCCAATGTGGTGAATATGAACATG
64 ATGGCCAATGTGATGAATATGAGCATG
* * * *
18866817 CATATATGTGATAAGGCCGAATGACCTATGTGATGAATGTGAACATGCATATATGTGATAAGGCC
1 --TATATGTGGTAAGGCCGAATG-GCTATGTG-TGAATATGAACATGCATATATGTGATAAAGCC
*
18866882 GAATGGCCAATGTGATGAATGTGAGCATG
62 GAATGGCCAATGTGATGAATATGAGCATG
* * * *
18866911 CATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCT
1 TATATGTG-G-TAAGGCCGAATGG-CTATGT-GTGAATATGAACATGCATATATGTGATAAAGCC
* * *
18866976 GAATGGTCAATGTGAAATATATATATGAGATATG
62 GAATGGCCAATGTG--AT-GA-ATATGAG-CATG
*
18867010 TATATGTGGTAAAGCCGAATGGCTA-GTGTGAAATATG
1 TATATGTGGTAAGGCCGAATGGCTATGTGTG-AATATG
18867047 TAGGCGATGT
Statistics
Matches: 195, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
92 7 0.04
94 145 0.74
95 9 0.05
96 4 0.02
97 13 0.07
98 7 0.04
99 10 0.05
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (90 bp):
TATATGTGGTAAGGCCGAATGGCTATGTGTGAATATGAACATGCATATATGTGATAAAGCCGAAT
GGCCAATGTGATGAATATGAGCATG
Found at i:18867303 original size:37 final size:37
Alignment explanation
Indices: 18867195--18867303 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
18867185 GGAAATATAT
* *
18867195 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
18867232 TCCAGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* **
18867269 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
18867304 CGTCTGAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:18871484 original size:67 final size:67
Alignment explanation
Indices: 18871381--18871513 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
18871371 AATATCCCAT
*
18871381 TAATAAGTAAGTGGGACGGCATAAGATATAAGTTACATGGTTTTTCTATTATATTAGTAAAGATA
1 TAATAAGTAAGTGGGAAGGCATAAGATATAAGTTACATGGTTTTTCTATTATATTAGTAAAGATA
18871446 TC
66 TC
18871448 TAATAAGTAAGTGGGAAGGCATAAGATATAAGTTACATGGTTTTTCTATTATATTAGTAAAGATA
1 TAATAAGTAAGTGGGAAGGCATAAGATATAAGTTACATGGTTTTTCTATTATATTAGTAAAGATA
18871513 T
66 T
18871514 ATAAGTAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (67 bp):
TAATAAGTAAGTGGGAAGGCATAAGATATAAGTTACATGGTTTTTCTATTATATTAGTAAAGATA
TC
Found at i:18896043 original size:62 final size:62
Alignment explanation
Indices: 18895941--18896058 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
18895931 CATAAATTAG
18895941 TTTGAAACTAACTCAACAATATAATGGTATAATTGGTTATAAAATGCATTGAATAAGAAAGT
1 TTTGAAACTAACTCAACAATATAATGGTATAATTGGTTATAAAATGCATTGAATAAGAAAGT
* * * * *
18896003 TTTGGAACTAACTCAATAATATATTGGTATATTTGGTTATAAGATGCATTGAATAA
1 TTTGAAACTAACTCAACAATATAATGGTATAATTGGTTATAAAATGCATTGAATAA
18896059 CAAAATTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (62 bp):
TTTGAAACTAACTCAACAATATAATGGTATAATTGGTTATAAAATGCATTGAATAAGAAAGT
Found at i:18922104 original size:43 final size:42
Alignment explanation
Indices: 18921983--18922139 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 42
18921973 TGTGTTATCG
* * *
18921983 TGTAAGACCATGTTTGGGACATTGGCATCGACT-TATGATTTACA
1 TGTAAGACCATGTCTGGGAC-GTGGCATCGA-TATTTGATTT-CA
* * * *
18922027 TGTAAGACCATGTCTAGGACGTGGGAATTG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGT-GGCATCGATATTTGATTTCA
* *
18922069 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTGGCATCGATATTTGATTTCA
*
18922112 TGTAAGACCAAGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACG-TGGCAT
18922140 TGTACTAGAT
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 26 0.28
43 44 0.47
44 23 0.25
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTGGCATCGATATTTGATTTCA
Found at i:18922152 original size:85 final size:86
Alignment explanation
Indices: 18921980--18922152 Score: 233
Period size: 85 Copynumber: 2.0 Consensus size: 86
18921970 ATATGTGTTA
* * *
18921980 TCGTGTAAGACCATGTTTGGGACATTGGCATCGACTTATGATTTACATGTAAGACCATGTCTAGG
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCAAGTCTAGG
* *
18922045 ACGTGGGAATTGTATTTGATT
66 ACGTGGGAATTGTACTAGATT
* * *
18922066 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA-TATTTGA-TTACATGTAAGACCAAGTCTGG
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACT-TATGATTTACATGTAAGACCAAGTCTAG
* *
18922129 GACGTTGGCATTGTACTAGATT
65 GACGTGGGAATTGTACTAGATT
18922151 TC
1 TC
18922153 AGAGCTATCC
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
85 41 0.54
86 35 0.46
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (86 bp):
TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCAAGTCTAGG
ACGTGGGAATTGTACTAGATT
Found at i:18938292 original size:27 final size:26
Alignment explanation
Indices: 18938270--18938360 Score: 137
Period size: 27 Copynumber: 3.3 Consensus size: 26
18938260 ATTTACTAAA
18938270 ATACCCCTAAGTATAGCAATTACCATT
1 ATACCCCTAAGTAT-GCAATTACCATT
18938297 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCCTAAGTATG-CAATTACCATT
*
18938324 ATACCCCTAAGTATGCAAAATTACCACT
1 ATACCCCTAAGTATGC--AATTACCATT
18938352 ATACCCCTA
1 ATACCCCTA
18938361 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
26 2 0.03
27 40 0.67
28 18 0.30
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (26 bp):
ATACCCCTAAGTATGCAATTACCATT
Found at i:18938535 original size:27 final size:26
Alignment explanation
Indices: 18938463--18938578 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 26
18938453 ATGGAGGAAG
18938463 TGTTCTGGTGGCTATGCCACAATTATC
1 TGTTCTGGTGGCTATGCCACAA-TATC
18938490 TGTTTCTGGTGGCTATGCCACAGATATC
1 TG-TTCTGGTGGCTATGCCACA-ATATC
* *
18938518 TGTTCTGGTCGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * *
18938544 T-TTAACTGGTGACTCTGTCACAATATC
1 TGTT--CTGGTGGCTATGCCACAATATC
18938571 TGTTCTGG
1 TGTTCTGG
18938579 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
25 2 0.03
26 10 0.13
27 39 0.49
28 27 0.34
29 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:18942845 original size:29 final size:29
Alignment explanation
Indices: 18942811--18942884 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
18942801 TAATCAACCG
*
18942811 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
18942840 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
18942869 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
18942885 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:18948723 original size:29 final size:29
Alignment explanation
Indices: 18948664--18948734 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
18948654 GTTGTGAGAT
* *
18948664 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAATACA
* *
18948693 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAA-TACA
18948722 TGGCACTAAGTGT
1 TGGCACTAAGTGT
18948735 ACGNNNNNNN
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 6 0.16
29 31 0.84
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAATACA
Found at i:18952676 original size:72 final size:72
Alignment explanation
Indices: 18952555--18952703 Score: 246
Period size: 72 Copynumber: 2.1 Consensus size: 72
18952545 ACTAGACTCG
* *
18952555 ATAA-AAAATATGTACATATAAAATACGACCTCTAATTATCTCGATAAAATTTACGGTGAATTTT
1 ATAACAAAATATGTACATATAAAACACAACCTCTAATTATCTCGATAAAATTTACGGTGAATTTT
18952619 CTAAGTC
66 CTAAGTC
* * *
18952626 ATAACAAAATCTGTACATATAAGACACAACCTCTAATTATCTTGATAAAATTTACGGTGAATTTT
1 ATAACAAAATATGTACATATAAAACACAACCTCTAATTATCTCGATAAAATTTACGGTGAATTTT
18952691 CTAAGTC
66 CTAAGTC
18952698 ATAACA
1 ATAACA
18952704 GGGGATCCAG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
71 4 0.06
72 68 0.94
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (72 bp):
ATAACAAAATATGTACATATAAAACACAACCTCTAATTATCTCGATAAAATTTACGGTGAATTTT
CTAAGTC
Found at i:18956134 original size:40 final size:40
Alignment explanation
Indices: 18956081--18956229 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
18956071 ACTACTTGCT
*
18956081 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
18956121 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18956161 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
18956201 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
18956230 CATCCGAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:18958150 original size:31 final size:31
Alignment explanation
Indices: 18958115--18958176 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
18958105 AGAGTCTCAA
* *
18958115 GTACTTGTTGACTCAGAAGGAGTTGAACCTT
1 GTACTTGCTGAATCAGAAGGAGTTGAACCTT
18958146 GTACTTGCTGAATCAGAAGGAGTTGAACCTT
1 GTACTTGCTGAATCAGAAGGAGTTGAACCTT
18958177 AAGCAACGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (31 bp):
GTACTTGCTGAATCAGAAGGAGTTGAACCTT
Found at i:18961550 original size:26 final size:27
Alignment explanation
Indices: 18961515--18961602 Score: 142
Period size: 26 Copynumber: 3.3 Consensus size: 27
18961505 ATTTACAAAA
18961515 ATACCCCTAAGTATGACAATTACCA-T
1 ATACCCCTAAGTATGACAATTACCACT
*
18961541 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCCTAAGTATGACAATTACCACT
*
18961568 ATACCCCTAAGTATGCAAAATTACCACT
1 ATACCCCTAAGTATG-ACAATTACCACT
18961596 ATACCCC
1 ATACCCC
18961603 AAGGGTTAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.43
27 16 0.28
28 17 0.29
ACGTcount: A:0.38, C:0.30, G:0.07, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGTATGACAATTACCACT
Found at i:18961749 original size:28 final size:27
Alignment explanation
Indices: 18961709--18961774 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
18961699 GGAGGAAGCG
18961709 TTCTGGTGGCTATGCCACA-ATTATCTA
1 TTCTGGTGGCTATGCCACAGA-TATCTA
*
18961736 TTTCTGGTGGCTATGCCATAGATATCTA
1 -TTCTGGTGGCTATGCCACAGATATCTA
18961764 TTCTGGTGGCT
1 TTCTGGTGGCT
18961775 CTGTGACAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 11 0.31
28 24 0.67
29 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAGATATCTA
Found at i:18962711 original size:40 final size:40
Alignment explanation
Indices: 18962651--18962832 Score: 219
Period size: 40 Copynumber: 4.5 Consensus size: 40
18962641 TATTCGAATG
*
18962651 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
18962691 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCT-AG-TGACT
* * * *
18962731 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
18962771 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
18962811 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGATCCGAAG
18962833 CCCTTGTGCG
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.02
40 116 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:18962784 original size:80 final size:80
Alignment explanation
Indices: 18962651--18962832 Score: 244
Period size: 80 Copynumber: 2.3 Consensus size: 80
18962641 TATTCGAATG
* * *
18962651 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
18962715 ATTTGTG-TGAGTTG-CT
65 ATTTATGCT-AG-TGACC
* * *
18962731 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
18962796 TTTATGCTAGTGACC
66 TTTATGCTAGTGACC
18962811 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
18962833 CCCTTGTGCG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
79 3 0.03
80 87 0.96
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCTAGTGACC
Done.