Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A06
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: 121513442
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5870000 characters in sequence are not A, C, G, or T
File 167 of 366
Found at i:55837773 original size:40 final size:40
Alignment explanation
Indices: 55837666--55837882 Score: 237
Period size: 40 Copynumber: 5.5 Consensus size: 40
55837656 CGGATGATAA
* * *
55837666 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* * *
55837706 CCGGGCTAAG-CCCAAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
55837745 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
55837785 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
55837825 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
55837865 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55837883 TACTTGGCTT
Statistics
Matches: 151, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 45 0.30
40 106 0.70
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:55837878 original size:119 final size:119
Alignment explanation
Indices: 55837666--55837882 Score: 271
Period size: 119 Copynumber: 1.8 Consensus size: 119
55837656 CGGATGATAA
* * *
55837666 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCAAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCAAAGGCAATTGA
* *
55837731 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* * * *
55837785 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCAAAGGCAATT
* *
55837848 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
55837883 TACTTGGCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
118 2 0.02
119 61 0.73
120 20 0.24
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCAAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:55845824 original size:40 final size:40
Alignment explanation
Indices: 55845717--55845919 Score: 243
Period size: 40 Copynumber: 5.1 Consensus size: 40
55845707 CGGATGATAA
* * * *
55845717 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
55845757 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
55845796 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
55845836 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
55845876 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
55845916 CCGG
1 CCGG
55845920 TTAAATCCCA
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 32 0.22
40 111 0.78
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:55848725 original size:26 final size:26
Alignment explanation
Indices: 55848689--55848772 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
55848679 CATGAAATTC
55848689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
55848715 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
55848741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
55848767 TTATCA
1 TTATCA
55848773 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:55857031 original size:46 final size:46
Alignment explanation
Indices: 55856981--55857153 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
55856971 TGGTTGAGCA
*
55856981 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55857027 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55857074 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
55857120 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55857154 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55857137 original size:93 final size:93
Alignment explanation
Indices: 55856978--55857148 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55856968 GGATGGTTGA
* * *
55856978 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
55857043 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55857071 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
55857136 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55857149 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:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55857415 original size:19 final size:20
Alignment explanation
Indices: 55857378--55857415 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55857368 ATAAGGTGGT
55857378 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55857398 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55857416 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:55864152 original size:46 final size:45
Alignment explanation
Indices: 55864102--55864274 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
55864092 TGGTTGAGCA
*
55864102 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * * *
55864148 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* * *
55864195 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* *
55864241 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55864275 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:55864258 original size:93 final size:93
Alignment explanation
Indices: 55864099--55864269 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
55864089 GGATGGTTGA
* * *
55864099 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGTCCGAACTCATTGAGT
55864164 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
55864192 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATAGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGTCC-GAACTCATTGAG
55864256 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
55864270 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55864536 original size:19 final size:20
Alignment explanation
Indices: 55864499--55864536 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55864489 ATAAGGTGGT
55864499 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55864519 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55864537 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:55867860 original size:43 final size:42
Alignment explanation
Indices: 55867795--55867878 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
55867785 GAAATTTGAG
** * *
55867795 CTTGTTGAGCGGTCTGATTTCGTGATATATGTGAGAATCCGAA
1 CTTGTTGAGCGGTCCAACTTCGTAATATATGTG-GAATCCGAA
* *
55867838 CTTGTTGAGTGGTCCAACTTCGTAATATATGTGGCATCCGA
1 CTTGTTGAGCGGTCCAACTTCGTAATATATGTGGAATCCGA
55867879 GCCCGTTGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 7 0.20
43 28 0.80
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
CTTGTTGAGCGGTCCAACTTCGTAATATATGTGGAATCCGAA
Found at i:55882680 original size:43 final size:43
Alignment explanation
Indices: 55882632--55882715 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
55882622 ATATTAACGA
* * *
55882632 TATGTGATTATGTGTAAGACCATGTC-TGGGGCATTGGCATCAT
1 TATGTGATTATGTATAAGACCATG-CATGGGACATCGGCATCAT
55882675 TATGTGATTATGTATAAGACCATGCATGGGACATCGGCATC
1 TATGTGATTATGTATAAGACCATGCATGGGACATCGGCATC
55882716 GTTAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TATGTGATTATGTATAAGACCATGCATGGGACATCGGCATCAT
Found at i:55886114 original size:8 final size:8
Alignment explanation
Indices: 55886096--55886125 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
55886086 ATGAAAATTA
55886096 TGTGTATTT
1 TGTG-ATTT
55886105 TGTGATTT
1 TGTGATTT
55886113 TGTGATTT
1 TGTGATTT
55886121 TGTGA
1 TGTGA
55886126 ATTAGGGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (8 bp):
TGTGATTT
Found at i:55886584 original size:44 final size:42
Alignment explanation
Indices: 55886534--55886693 Score: 182
Period size: 44 Copynumber: 3.7 Consensus size: 42
55886524 ATATGGGTTA
55886534 TCATGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTT
*
55886578 TCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA-TT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTT
* * * *
55886620 TCATGTAAAACC-CTGTCTAGGACAGTGGCATCGATATTTGATTA
1 TCATGTAAGACCAC-GTCTGGGACATTGGCATCG--ATTTGATTT
* *
55886664 T-ATGTAAGACCATGTCTGGGACCTTGGCAT
1 TCATGTAAGACCACGTCTGGGACATTGGCAT
55886694 TGTATGAGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 30 0.30
43 33 0.33
44 36 0.36
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
TCATGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTT
Found at i:55886658 original size:43 final size:43
Alignment explanation
Indices: 55886534--55886693 Score: 209
Period size: 43 Copynumber: 3.7 Consensus size: 43
55886524 ATATGGGTTA
* *
55886534 TCATGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGA-TT
55886578 TCATGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * * *
55886620 TCATGTAAAACCCTGTCTAGGACAGTGGCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
*
55886663 AT-ATGTAAGACCATGTCTGGGACCTTGGCAT
1 -TCATGTAAGACCATGTCTGGGACATTGGCAT
55886694 TGTATGAGCT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 32 0.31
43 37 0.36
44 33 0.32
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
Found at i:55894276 original size:43 final size:43
Alignment explanation
Indices: 55894177--55894303 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 43
55894167 TTTGGAACGT
* * *
55894177 TGGCATCAACT-TATGATTTTCGTGTAAGACCATGTCTGGGGCAT
1 TGGCATCAA-TATTTGA-TTTCGTGTAAGACCATGTCTGGGACAG
* *
55894221 TGGCATC-GTATTTGATTTCGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCAATATTTGATTTCGTGTAAGACCATGTCTGGGACAG
* * * * *
55894263 TGGCATCAATATTTGACTACATGTAAGACCACGTTTGGGAC
1 TGGCATCAATATTTGATTTCGTGTAAGACCATGTCTGGGAC
55894304 CTTGGCATTG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 32 0.46
43 30 0.43
44 7 0.10
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TGGCATCAATATTTGATTTCGTGTAAGACCATGTCTGGGACAG
Found at i:55894310 original size:43 final size:43
Alignment explanation
Indices: 55894152--55894311 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
55894142 ATATGTGTCA
* * * * *
55894152 TCATGTAAGACCACATTTGGAACGTTGGCATCAACT-TATGATTT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCAA-TATTTGA-TT
* * * *
55894196 TCGTGTAAGACCATGTCTGGGGCATTGGCATC-GTATTTGATT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATT
* * *
55894238 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGACT
1 TCATGTAAGACCAC-GTCTGGGACATTGGCATCAATATTTGATT
* * *
55894281 ACATGTAAGACCACGTTTGGGACCTTGGCAT
1 TCATGTAAGACCACGTCTGGGACATTGGCAT
55894312 TGTATAGCTT
Statistics
Matches: 93, Mismatches: 19, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.33
43 36 0.39
44 26 0.28
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATT
Found at i:55900955 original size:49 final size:51
Alignment explanation
Indices: 55900875--55901005 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 51
55900865 TGTCACTAGT
*
55900875 GACT-CAAGTGTGGTACTATGTGAAGACCACTTTGAGAAG-AGATAGCTTG
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * * * *
55900924 GTC-ACAAGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAGCTAGCTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * *
55900974 GACTACATGGGTGGTACTATGTGCAGGCCACT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACT
55901006 AGGTATCCGT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 34 0.50
50 10 0.15
51 24 0.35
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
Found at i:55903550 original size:43 final size:43
Alignment explanation
Indices: 55903489--55903570 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
55903479 TATTAACGAG
* *
55903489 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATCATT
55903532 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCAT
1 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCAT
55903571 TGTTAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:55903592 original size:43 final size:43
Alignment explanation
Indices: 55903489--55903596 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
55903479 TATTAACGAG
* *
55903489 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
* * **
55903532 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATTGTT
1 ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
55903575 AAT-TAATT-TCGTGTAAGACCAT
1 -ATGTAATTAT-GTGTAAGACCAT
55903597 AGCTAGGCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.02
43 54 0.95
44 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (43 bp):
ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:55910506 original size:23 final size:23
Alignment explanation
Indices: 55910476--55910533 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
55910466 AACAATTAAT
55910476 TAAT-TTTTTAAAAAATTTAAAA
1 TAATATTTTTAAAAAATTTAAAA
* * **
55910498 TATTATTTTTATAATTTTTAAAA
1 TAATATTTTTAAAAAATTTAAAA
*
55910521 TAATATTTATAAA
1 TAATATTTTTAAA
55910534 TTTTTCAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATATTTTTAAAAAATTTAAAA
Found at i:55910513 original size:21 final size:20
Alignment explanation
Indices: 55910488--55910536 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
55910478 ATTTTTTAAA
*
55910488 AAATTTAAAATATTATTTTTAT
1 AAATTTAAAATA--ATATTTAT
*
55910510 AATTTTTAAAATAATATTTAT
1 AA-ATTTAAAATAATATTTAT
55910531 AAATTT
1 AAATTT
55910537 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 2 0.09
23 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTAAAATAATATTTAT
Found at i:55910538 original size:23 final size:23
Alignment explanation
Indices: 55910491--55910538 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
55910481 TTTTAAAAAA
* *
55910491 TTTAAAATATTATTTTTATAATT
1 TTTAAAATAATATTTATATAATT
55910514 TTTAAAATAATATTTATA-AATT
1 TTTAAAATAATATTTATATAATT
55910536 TTT
1 TTT
55910539 CAATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAAAATAATATTTATATAATT
Found at i:55911144 original size:29 final size:30
Alignment explanation
Indices: 55911084--55911149 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
55911074 ATTGGATTTG
* *
55911084 AATTTTAAAATATAAAAAATAGACAGATTA
1 AATTTTAAAATATAAAAAATAAACAGACTA
*
55911114 AATTTCTAAAA-AT-AAAAATAAATAGACTA
1 AATTT-TAAAATATAAAAAATAAACAGACTA
55911143 AATTTTA
1 AATTTTA
55911150 TATACGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.56
30 7 0.22
31 5 0.16
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (30 bp):
AATTTTAAAATATAAAAAATAAACAGACTA
Found at i:55921778 original size:30 final size:29
Alignment explanation
Indices: 55921742--55921802 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
55921732 AAATGGAAGT
*
55921742 TTTGGCACTATGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
55921772 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
55921801 TT
1 TT
55921803 CAGCTATTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:55934385 original size:19 final size:19
Alignment explanation
Indices: 55934361--55934402 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
55934351 CAATTATGAT
*
55934361 TAAAATCAGCT-ACAATACA
1 TAAAATAAGCTGA-AATACA
55934380 TAAAATAAGCTGAAATACA
1 TAAAATAAGCTGAAATACA
55934399 -AAAA
1 TAAAA
55934403 CATAATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 16 0.76
20 1 0.05
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (19 bp):
TAAAATAAGCTGAAATACA
Found at i:55944217 original size:59 final size:59
Alignment explanation
Indices: 55944125--55944240 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
55944115 TTTATCGAAA
*
55944125 ATAAGCAAACCGATTGAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
1 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
*
55944184 ATAAGCAATCCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATT
1 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATT
55944241 TTTTGTTCTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (59 bp):
ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
Found at i:55946470 original size:47 final size:47
Alignment explanation
Indices: 55946411--55946579 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
55946401 ATCCATAAGT
*
55946411 GAACTCGGACTCATCTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * *
55946458 GAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T---C
*
55946504 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
55946551 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
55946580 CATTCGCATC
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 26 0.26
47 53 0.54
49 1 0.01
50 8 0.08
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55946473 original size:93 final size:93
Alignment explanation
Indices: 55946365--55946629 Score: 460
Period size: 93 Copynumber: 2.8 Consensus size: 93
55946355 GCCCATAAGT
* *
55946365 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCATCTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55946429 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
55946458 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55946523 CGAGCTTGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
55946551 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55946616 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55946630 CAAACATCCT
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 2 0.01
93 160 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55946625 original size:46 final size:45
Alignment explanation
Indices: 55946357--55946624 Score: 258
Period size: 46 Copynumber: 5.8 Consensus size: 45
55946347 TGTAACCCGC
*
55946357 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* * *
55946403 CCATAAGTGAACTCGGACTCATCTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** * *
55946449 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
*
55946496 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGCATTCGC-A--T
* ***
55946542 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
55946589 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55946625 ATGCCCAAAC
Statistics
Matches: 179, Mismatches: 27, Indels: 32
0.75 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 2 0.01
46 97 0.54
47 62 0.35
49 7 0.04
50 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:55950218 original size:27 final size:26
Alignment explanation
Indices: 55950162--55950218 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
55950152 CAACCTTAAC
* * *
55950162 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
55950188 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
55950215 CCTA
1 CCTA
55950219 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:55957235 original size:19 final size:18
Alignment explanation
Indices: 55957211--55957280 Score: 88
Period size: 19 Copynumber: 3.8 Consensus size: 18
55957201 TAAGAATATT
55957211 CAATCTTAGATATGACATG
1 CAATCTTAGATATGA-ATG
*
55957230 CAATCTTAGATGTGATATG
1 CAATCTTAGATATGA-ATG
* *
55957249 AAATCTTAGATATG-ATA
1 CAATCTTAGATATGAATG
55957266 CAATCTTAGATATGA
1 CAATCTTAGATATGA
55957281 TATGATATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.34
19 29 0.66
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (18 bp):
CAATCTTAGATATGAATG
Found at i:55957262 original size:14 final size:15
Alignment explanation
Indices: 55957243--55957280 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
55957233 TCTTAGATGT
55957243 GATATGA-AATCTTA
1 GATATGACAATCTTA
55957257 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
55957274 GATATGA
1 GATATGA
55957281 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
16 1 0.05
17 13 0.62
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:55957270 original size:36 final size:37
Alignment explanation
Indices: 55957212--55957285 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
55957202 AAGAATATTC
* *
55957212 AATCTTAGATATGACATGCAATCTTAGATGTGATATGA
1 AATCTTAGATATGA-ATACAATCTTAGATATGATATGA
55957250 AATCTTAGATATG-ATACAATCTTAGATATGATATGA
1 AATCTTAGATATGAATACAATCTTAGATATGATATGA
55957286 TATGATATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 21 0.62
38 13 0.38
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (37 bp):
AATCTTAGATATGAATACAATCTTAGATATGATATGA
Found at i:55957282 original size:5 final size:5
Alignment explanation
Indices: 55957274--55957299 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55957264 TACAATCTTA
55957274 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
55957300 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:55962513 original size:8 final size:8
Alignment explanation
Indices: 55962475--55962539 Score: 60
Period size: 8 Copynumber: 7.6 Consensus size: 8
55962465 TTCTATTTCA
55962475 AAAAAAAG
1 AAAAAAAG
*
55962483 GAAAAAAG
1 AAAAAAAG
55962491 TAAAAAAAG
1 -AAAAAAAG
55962500 AGAGAAAAA-
1 A-A-AAAAAG
*
55962509 AAGAAAAAT
1 AA-AAAAAG
55962518 AAAAAAGAG
1 AAAAAA-AG
55962527 AAAAAAAG
1 AAAAAAAG
55962535 AAAAA
1 AAAAA
55962540 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
8 26 0.53
9 18 0.37
10 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:55962521 original size:23 final size:23
Alignment explanation
Indices: 55962494--55962540 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
55962484 AAAAAAGTAA
55962494 AAAAAGAGAGAAAAAAAGAAAAAT
1 AAAAA-AGAGAAAAAAAGAAAAAT
55962518 AAAAAAGAGAAAAAAAGAAAAAT
1 AAAAAAGAGAAAAAAAGAAAAAT
55962541 GGAGAGGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAAGAAAAAT
Found at i:55963585 original size:41 final size:41
Alignment explanation
Indices: 55963539--55964175 Score: 174
Period size: 41 Copynumber: 15.3 Consensus size: 41
55963529 ATCTTATCTA
*
55963539 CCTAAGTAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
* * **
55963580 CCTAAGCAGTAG-GGTAACAGGTTAAATTTGTAAAT---CTT-ATCTC
1 CCTAAGCAGTAGTGG-AGCAGATCGAA---G--AATCGCCTTAATC-C
*
55963623 CCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
* * * * *
55963664 CCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCTC
1 CCTAAGCAGTAGTGG-AGCAGATCGAAGA-AT-C-G-CCTTAATC-C
* *
55963707 CCTAAGCAGCAGTGGAGCAGATCGAAGACTCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
** * *
55963748 CCTAAATAGTAG-GGTAAG-AGGTTCGCAG-AT---CTT-ATCTC
1 CCTAAGCAGTAGTGG--AGCA-GATCGAAGAATCGCCTTAATC-C
* * *
55963786 CCTAAGCAGTAGCGGAGTAGATCGACGACGACTCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGA--A-GAATCGCCTTAATCC
* * * * * *
55963830 CCTAAGTAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCTC
1 CCTAAGCAGTAGTGG-AGCAGATCGAAGA-AT-C-G-CCTTAATC-C
**
55963873 CCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
* * * * * * *
55963914 CTTAAGCGGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCTC
1 CCTAAGCAGTAGTGG-AGCAGATCGAAGA-AT-C-G-CCTTAATC-C
*
55963957 CCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
* * * *
55963998 CCTAAGCAGTAAG-GTAACAGGTTCGCAG-AT---CTT-ATCTC
1 CCTAAGCAGT-AGTGGAGCA-GATCGAAGAATCGCCTTAATC-C
** *
55964036 CCTAAGCAGTAGCAGAGCAGATCGACGACGACTCGCCTTAATCC
1 CCTAAGCAGTAGTGGAGCAGATCGA--A-GAATCGCCTTAATCC
* * ** *
55964080 CCTAAGCAGTAG-GGTAACAGGTTAAATTTGAA--G-ATCTAATCTC
1 CCTAAGCAGTAGTGG-AGCAGATCGAA---GAATCGCCT-TAATC-C
* *
55964123 CCTAAGCAGTAGTGGAGCAAATCGAAG-ATGCGCCTTAACCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGAAT-CGCCTTAATCC
55964164 CCTAAGCAGTAG
1 CCTAAGCAGTAG
55964176 GGTAAAAGGT
Statistics
Matches: 431, Mismatches: 87, Indels: 156
0.64 0.13 0.23
Matches are distributed among these distances:
37 18 0.04
38 34 0.08
39 8 0.02
40 18 0.04
41 112 0.26
42 58 0.13
43 109 0.25
44 62 0.14
45 9 0.02
46 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTAAGCAGTAGTGGAGCAGATCGAAGAATCGCCTTAATCC
Found at i:55963626 original size:43 final size:42
Alignment explanation
Indices: 55963495--55963715 Score: 122
Period size: 43 Copynumber: 5.2 Consensus size: 42
55963485 CGCCTTAATC
* *
55963495 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTG-AAATCTTATCT
* * * * **
55963538 ACCTAAGTAGTAGTGG-AGCAGATCGAA---G-AATCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGAAAT---CTT-ATCT
55963579 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAAATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTG-AAATCTTATCT
* * * * * *
55963622 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACTCG---CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGAAATCTT-ATCT
*
55963663 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTG-AAATCTTATCT
55963706 CCCTAAGCAG
1 CCCTAAGCAG
55963716 CAGTGGAGCA
Statistics
Matches: 130, Mismatches: 26, Indels: 44
0.65 0.13 0.22
Matches are distributed among these distances:
38 2 0.02
39 3 0.02
40 7 0.05
41 42 0.32
42 12 0.09
43 51 0.39
44 7 0.05
45 3 0.02
46 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAATCTTATCT
Found at i:55963627 original size:84 final size:84
Alignment explanation
Indices: 55963485--55964189 Score: 1027
Period size: 84 Copynumber: 8.4 Consensus size: 84
55963475 CAAAATTCAG
* * * *
55963485 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCTACCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
55963550 GTGGAGCAGATCGAAGAAT
66 GTGGAGCAGATCGAAGACT
* *
55963569 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
55963634 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
55963653 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
55963718 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
** * *
55963737 CGCCTTAATCCCCTAAATAGTAGGGTAAGAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
55963797 GCGGAGTAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
*
55963819 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
55963884 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* *
55963903 CGCCTTAATCCCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
55963968 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
55963987 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
**
55964047 GCAGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* *
55964069 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCTAATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
55964134 GTGGAGCAAATCGAAGA-T
66 GTGGAGCAGATCGAAGACT
* *
55964152 GCGCCTTAACCCCCTAAGCAGTAGGGTAAAAGGTTAAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
55964190 GTATAGCAGA
Statistics
Matches: 564, Mismatches: 40, Indels: 34
0.88 0.06 0.05
Matches are distributed among these distances:
79 77 0.14
81 2 0.00
82 69 0.12
83 1 0.00
84 338 0.60
85 2 0.00
87 75 0.13
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:55963884 original size:43 final size:43
Alignment explanation
Indices: 55963829--55963968 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
55963819 CGCCTTAATC
*
55963829 CCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * ** *** * *
55963872 CCCTAAGCAGTAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTT-ATCT
* *
55963913 CCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
55963956 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
55963969 TGGAGCAGAT
Statistics
Matches: 68, Mismatches: 23, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
40 2 0.03
41 21 0.31
42 10 0.15
43 33 0.49
44 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:55964022 original size:250 final size:250
Alignment explanation
Indices: 55963485--55964189 Score: 1112
Period size: 250 Copynumber: 2.8 Consensus size: 250
55963475 CAAAATTCAG
* * * *
55963485 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCTACCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
* *
55963550 GTGGAGCAGATCGA--A-GAATCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTA
61 GCGGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTG-A
*
55963612 A-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAG
125 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAG
55963676 GGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACT
190 GGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACT
** * *
55963737 CGCCTTAATCCCCTAAATAGTAGGGTAAGAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
* * *
55963802 GTAGATCGACGACGACTCGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCT
66 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCT
* *
55963867 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCTTAAGCGGTAGGGTAAC
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
*
55963932 AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT
196 AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACT
*
55963987 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAGA
1 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
55964052 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCT
66 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCT
* * ** * *
55964117 AATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGCGCCTTAACCCCCTAAGCAGTAGGGTAAA
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
55964182 AGGTTAAA
196 AGGTTAAA
55964190 GTATAGCAGA
Statistics
Matches: 416, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
247 36 0.09
249 2 0.00
250 350 0.84
252 28 0.07
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (250 bp):
CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACT
Found at i:55964159 original size:334 final size:330
Alignment explanation
Indices: 55963484--55964189 Score: 1017
Period size: 334 Copynumber: 2.1 Consensus size: 330
55963474 ACAAAATTCA
* * *
55963484 GCGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCTACCTAAGTAGT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTACCTAAGCAGT
* *
55963549 AGTGGAGCAGATCGAAGAATCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAAA
66 AGTGGAGCAGATCGAAGAACCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
*
55963614 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGT
131 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
* **
55963679 AACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACTCGCCTTA
196 AACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGCAGCAGAGCAGATCGAAGACTCGCCTTA
* * * * * *
55963744 ATCCCCTAAATAGTAGGGTAAGAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGTAGATC
257 ATCCCCTAAACAGTAGGGTAACAGGTTCGAAGATCTAATCTCCCTAAGCAGTAGCGGAGCAAATC
55963809 GACGACGACT
322 GAC-ACGACT
* *
55963819 -CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTACCTAAGCAGT
* * * *
55963883 AGTGGAGCAGATCGAAGACCCGCCTTAATCCCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGA
66 AGTGGAGCAGATCGAAGAACCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
55963948 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
131 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
*
55964013 AACAGG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGACGACGACTCGCCTTAA
196 AACAGGATTCGCAGATCTTATCTCCCTAAGCAGCAGCAGAGCAGATCGA--A-GACTCGCCTTAA
* * *
55964077 TCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGAAGATCTAATCTCCCTAAGCAGTAGTGGAGCA
258 TCCCCTAAACAGTAGGGTAACAGG-----TTCGAAGATCTAATCTCCCTAAGCAGTAGCGGAGCA
55964142 AATCGA-A-GA-T
318 AATCGACACGACT
* *
55964152 GCGCCTTAACCCCCTAAGCAGTAGGGTAAAAGGTTAAA
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
55964190 GTATAGCAGA
Statistics
Matches: 334, Mismatches: 28, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
329 38 0.11
331 1 0.00
332 33 0.10
333 1 0.00
334 224 0.67
335 1 0.00
337 36 0.11
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (330 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTACCTAAGCAGT
AGTGGAGCAGATCGAAGAACCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGT
AACAGGATTCGCAGATCTTATCTCCCTAAGCAGCAGCAGAGCAGATCGAAGACTCGCCTTAATCC
CCTAAACAGTAGGGTAACAGGTTCGAAGATCTAATCTCCCTAAGCAGTAGCGGAGCAAATCGACA
CGACT
Found at i:55964410 original size:81 final size:79
Alignment explanation
Indices: 55964308--55964455 Score: 197
Period size: 81 Copynumber: 1.8 Consensus size: 79
55964298 ATTTGACGGA
* * * * *
55964308 GAGCAGATCAAAGACATAGCAGATCTGACCTTCAGATATTTTCACATTGAAGTAGATCCAAGATG
1 GAGCAAATCAAAGACATAGCAGATCTAACCTTCAGAT-GTTT-ACACTGAAGCAGATCCAAGATG
55964373 ATTTAGCGTTTACAAG
64 ATTTAGCGTTTACAAG
* * * *
55964389 GAGCAAATCGAAGACATAGCAGATCTAACCTTTAGGTGTTTACGCTGAAGCAGATCCAAGATGAT
1 GAGCAAATCAAAGACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
55964454 TT
66 TT
55964456 GGCAACCCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 23 0.40
80 3 0.05
81 32 0.55
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (79 bp):
GAGCAAATCAAAGACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTAGCGTTTACAAG
Found at i:55965109 original size:19 final size:19
Alignment explanation
Indices: 55965085--55965164 Score: 128
Period size: 19 Copynumber: 4.3 Consensus size: 19
55965075 AATCTTTAAG
*
55965085 GATATGCAACCTTAGATAT
1 GATATGCAATCTTAGATAT
*
55965104 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
55965123 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55965142 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55965159 GATATG
1 GATATG
55965165 ATATGATATG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:55965142 original size:14 final size:15
Alignment explanation
Indices: 55965123--55965160 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
55965113 TCTTAGATGT
55965123 GATATG-CAATCTTA
1 GATATGACAATCTTA
55965137 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
55965154 GATATGA
1 GATATGA
55965161 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:55965190 original size:21 final size:22
Alignment explanation
Indices: 55965164--55965209 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
55965154 GATATGATAT
55965164 GATATGA-TATGTAATCTTGAA
1 GATATGATTATGTAATCTTGAA
* *
55965185 GATATGATTTTGTAATCTTGGA
1 GATATGATTATGTAATCTTGAA
55965207 GAT
1 GAT
55965210 TTAATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (22 bp):
GATATGATTATGTAATCTTGAA
Found at i:55965216 original size:22 final size:22
Alignment explanation
Indices: 55965173--55965216 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55965163 TGATATGATA
*
55965173 TGTAATCTTGAAGATATGATTT
1 TGTAATCTTGAAGATATAATTT
* *
55965195 TGTAATCTTGGAGATTTAATTT
1 TGTAATCTTGAAGATATAATTT
55965217 GTAGATATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (22 bp):
TGTAATCTTGAAGATATAATTT
Found at i:55969483 original size:22 final size:22
Alignment explanation
Indices: 55969449--55969492 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
55969439 CAAATTTGTG
* *
55969449 AAAATTTATTATAAAAATAATT
1 AAAATTAAATATAAAAATAATT
**
55969471 AAAATTAAATATATTAATAATT
1 AAAATTAAATATAAAAATAATT
55969493 TAAGTGCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAAATATAAAAATAATT
Found at i:55971987 original size:43 final size:41
Alignment explanation
Indices: 55971919--55972015 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 41
55971909 ATGAGTTTAC
* * * * *
55971919 GTGTAAGACCATATCCAGTATATGGCATCGTTATGAAAATTTT
1 GTGTAAGACCATATCCAGGACATGGCACCGATATGAAAA--TA
* * *
55971962 GTGTAAGACCATGTCTAGGACATGGCACCGATATGAGAATA
1 GTGTAAGACCATATCCAGGACATGGCACCGATATGAAAATA
55972003 GTGTAAGACCATA
1 GTGTAAGACCATA
55972016 GTGAGCTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 13 0.29
43 32 0.71
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATATCCAGGACATGGCACCGATATGAAAATA
Found at i:55973169 original size:13 final size:13
Alignment explanation
Indices: 55973147--55973177 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55973137 ATCGAGAGTT
*
55973147 ACACGGGCTGAGA
1 ACACGAGCTGAGA
55973160 ACACGAGCTGAGA
1 ACACGAGCTGAGA
55973173 ACACG
1 ACACG
55973178 GGCGTGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.32, T:0.06
Consensus pattern (13 bp):
ACACGAGCTGAGA
Found at i:55979212 original size:11 final size:11
Alignment explanation
Indices: 55979196--55979220 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55979186 GCTTTATCAA
55979196 TCTATATATAG
1 TCTATATATAG
55979207 TCTATATATAG
1 TCTATATATAG
55979218 TCT
1 TCT
55979221 TTATCAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (11 bp):
TCTATATATAG
Found at i:55981811 original size:70 final size:70
Alignment explanation
Indices: 55981698--55981847 Score: 282
Period size: 70 Copynumber: 2.1 Consensus size: 70
55981688 CATGATTTTC
*
55981698 TTTCTTCAGATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
1 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
55981763 AGTTA
66 AGTTA
*
55981768 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAATTTTCTTCCTCCTTC
1 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
55981833 AGTTA
66 AGTTA
55981838 TTTCTTCAAA
1 TTTCTTCAAA
55981848 CCATTATTAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (70 bp):
TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
AGTTA
Found at i:55983722 original size:12 final size:12
Alignment explanation
Indices: 55983705--55983745 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
55983695 GGGTGCCTGA
55983705 AAAGGTACTTGT
1 AAAGGTACTTGT
55983717 AAAGGTACTTGT
1 AAAGGTACTTGT
*
55983729 AAAGGTAATTGT
1 AAAGGTACTTGT
55983741 AAAGG
1 AAAGG
55983746 GAAACTAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (12 bp):
AAAGGTACTTGT
Found at i:55984985 original size:21 final size:21
Alignment explanation
Indices: 55984959--55984998 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55984949 CTACTAGAAA
55984959 ACAATT-TTTTGCTTGATTTCC
1 ACAATTGTTTT-CTTGATTTCC
*
55984980 ACAATTGTTTTCTTTATTT
1 ACAATTGTTTTCTTGATTT
55984999 GAGGCTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (21 bp):
ACAATTGTTTTCTTGATTTCC
Found at i:55987080 original size:336 final size:337
Alignment explanation
Indices: 55986455--55987129 Score: 1102
Period size: 336 Copynumber: 2.0 Consensus size: 337
55986445 TGGTACTAGA
* * *
55986455 TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTGTACTTACT
1 TAAGAGCTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTACT
*
55986520 CTTCAAACTTTGATAAGGTGATGAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
66 CTTCAAACTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
*
55986585 TGCCTCCTGGCACAGCGAAAAAATAATTTCGGTGATCACAACCCATGGTATAAGCAAGTGACATA
131 TGCCTCCTGGCACAACGAAAAAATAATTTCGGTGATCACAACCCATGGTATAAGCAAGTGACATA
* *
55986650 TTAAGAATATGAGCACCACCATAATGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
196 TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
* *
55986715 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTTCAGCCCATCCAATGGAACCAAGTCAA
261 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACGGAACCAAGTCAA
55986780 CC-AAAAATTGT
326 CCAAAAAATTGT
*
55986791 TAAGAGCTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTATT
1 TAAGAGCTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTACT
* * * * * * * *
55986856 CTTCAAGCTTTGCTGAGGTGATAAAATGTCTTGCAGTGGGCATGGGTTCTATTGGAATATCGGTA
66 CTTCAAACTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
* * *
55986921 TGCCTCGTGGCACAACGATAAAATAA-TTCTGGTGATCATAACCCATGGTATAAGCAAGTGACAT
131 TGCCTCCTGGCACAACGAAAAAATAATTTC-GGTGATCACAACCCATGGTATAAGCAAGTGACAT
* *
55986985 ATTAAGAATACGAGCACCACCATAAGGTAATAGTAAACCCACAATCAAGCCTTCATCCTAACAAG
195 ATTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAG
* *
55987050 AACCATCAACACTCAATAGCTCATTGAACTCCATATCTTCCAGCCTATCCAACGGAACCAAGTCA
260 AACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACGGAACCAAGTCA
55987115 ACCAAAAAATTGT
325 ACCAAAAAATTGT
55987128 TA
1 TA
55987130 TCACAAAAAA
Statistics
Matches: 312, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
335 3 0.01
336 298 0.96
337 11 0.04
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (337 bp):
TAAGAGCTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTATACCTACT
CTTCAAACTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
TGCCTCCTGGCACAACGAAAAAATAATTTCGGTGATCACAACCCATGGTATAAGCAAGTGACATA
TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACGGAACCAAGTCAA
CCAAAAAATTGT
Found at i:55988264 original size:20 final size:20
Alignment explanation
Indices: 55988239--55988277 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55988229 CTCAATTTAG
**
55988239 GATAATTAATTATTTAATTA
1 GATAATTAAAGATTTAATTA
55988259 GATAATTAAAGATTTAATT
1 GATAATTAAAGATTTAATT
55988278 GATCATAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
GATAATTAAAGATTTAATTA
Found at i:55988737 original size:17 final size:17
Alignment explanation
Indices: 55988715--55988748 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
55988705 TCTACCTTTA
55988715 TCTACTTTAAGAAAAAC
1 TCTACTTTAAGAAAAAC
55988732 TCTACTTTAAGAAAAAC
1 TCTACTTTAAGAAAAAC
55988749 ACACTTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
TCTACTTTAAGAAAAAC
Found at i:55988754 original size:16 final size:17
Alignment explanation
Indices: 55988716--55988754 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
55988706 CTACCTTTAT
*
55988716 CTACTTTAAGAAAAACT
1 CTACTTTAAGAAAAACA
55988733 CTACTTTAAGAAAAACA
1 CTACTTTAAGAAAAACA
55988750 C-ACTT
1 CTACTT
55988755 AGGGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (17 bp):
CTACTTTAAGAAAAACA
Found at i:55993688 original size:11 final size:11
Alignment explanation
Indices: 55993672--55993701 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
55993662 AAATGAGCCT
*
55993672 TTTACCACAAG
1 TTTACCAAAAG
55993683 TTTACCAAAAG
1 TTTACCAAAAG
55993694 TTTACCAA
1 TTTACCAA
55993702 CCCTGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (11 bp):
TTTACCAAAAG
Found at i:55995507 original size:5 final size:5
Alignment explanation
Indices: 55995499--55995551 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
55995489 CTTTATGTTT
55995499 TATTA TATTA TATTA TATTA T-TATA TTATTA TATTA -A-TA TATTA -A-TA
1 TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA TATTA TATTA TATTA
55995546 TATTA T
1 TATTA T
55995552 TATAATGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
3 4 0.10
4 5 0.12
5 28 0.68
6 3 0.07
7 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:55995520 original size:8 final size:8
Alignment explanation
Indices: 55995498--55995555 Score: 80
Period size: 8 Copynumber: 7.0 Consensus size: 8
55995488 ACTTTATGTT
55995498 TTATTATA
1 TTATTATA
55995506 TTATATTATA
1 -T-TATTATA
55995516 TTATTATA
1 TTATTATA
55995524 TTATTATA
1 TTATTATA
*
55995532 TTAATATA
1 TTATTATA
*
55995540 TTAATATA
1 TTATTATA
55995548 TTATTATA
1 TTATTATA
55995556 ATGTATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
8 37 0.80
9 2 0.04
10 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTATA
Found at i:55996357 original size:43 final size:41
Alignment explanation
Indices: 55996275--55996355 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
55996265 CTAATTATGG
*
55996275 GCACTTAGTGTGCGAGATTGAGATAGCTTTGGTTATATATT
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGTTATATATT
* *
55996316 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGTTATATAT
55996356 ATACATTGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATTGAGATAGCTTCGGTTATATATT
Found at i:55998956 original size:43 final size:43
Alignment explanation
Indices: 55998851--55998957 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
55998841 TAGCCTAGCT
* *
55998851 ATGGTCTT-TCACAAAATCAAATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTAT-ACATAATCACATAATGATGCCAATGTCCCAAAC
* *
55998894 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTATACATAATCACATAATGATGCCAATGTCCCAAAC
*
55998937 GTGGTCTTATACATAATCACA
1 ATGGTCTTATACATAATCACA
55998958 ACTCATCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (43 bp):
ATGGTCTTATACATAATCACATAATGATGCCAATGTCCCAAAC
Found at i:56004492 original size:15 final size:17
Alignment explanation
Indices: 56004459--56004492 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56004449 TTATTTAAGT
*
56004459 TATATATAAGTATTATA
1 TATATATAAATATTATA
56004476 TATATATAAATATTATA
1 TATATATAAATATTATA
56004493 ATTATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATATATAAATATTATA
Found at i:56004524 original size:3 final size:3
Alignment explanation
Indices: 56004518--56004550 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
56004508 TATGGTTTTA
56004518 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56004551 AAAATAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:56005994 original size:23 final size:23
Alignment explanation
Indices: 56005967--56006048 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
56005957 AGCTTTGCCG
56005967 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
56005990 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * * * *
56006013 TTTAGGCACTTCATGCGTGGT-T
1 ATCAGGCACTTTATGTGTCGTAT
56006035 -TCAGGCAC-TTATGT
1 ATCAGGCACTTTATGT
56006049 AACACCCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.08
21 7 0.14
22 1 0.02
23 39 0.76
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:56007630 original size:28 final size:28
Alignment explanation
Indices: 56007590--56007659 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
56007580 ATAGTAAGTC
*
56007590 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
56007618 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
56007646 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56007660 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:56023801 original size:7 final size:7
Alignment explanation
Indices: 56023786--56023830 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
56023776 TCAAATATAC
56023786 ATTATAAA
1 ATTA-AAA
56023794 ATTAAAA
1 ATTAAAA
56023801 ATTAAAA
1 ATTAAAA
*
56023808 ATAAAAA
1 ATTAAAA
*
56023815 ATTTAAA
1 ATTAAAA
*
56023822 ATTTAAA
1 ATTAAAA
56023829 AT
1 AT
56023831 AGAAATCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATTAAAA
Found at i:56023815 original size:21 final size:21
Alignment explanation
Indices: 56023791--56023831 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56023781 TATACATTAT
56023791 AAAATTAAAAATTAAAAATAA
1 AAAATTAAAAATTAAAAATAA
* *
56023812 AAAATTTAAAATTTAAAATA
1 AAAATTAAAAATTAAAAATA
56023832 GAAATCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTAAAAATTAAAAATAA
Found at i:56032007 original size:37 final size:37
Alignment explanation
Indices: 56031948--56032056 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
56031938 AGCTCAGACG
* *
56031948 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56031985 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56032022 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56032057 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:56032257 original size:48 final size:48
Alignment explanation
Indices: 56032203--56032581 Score: 584
Period size: 48 Copynumber: 7.8 Consensus size: 48
56032193 GCACATCGCC
56032203 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
56032251 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
56032301 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
56032349 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
56032397 TATATATTTGACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56032445 TACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
56032495 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56032543 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
56032582 TGCATGTTCA
Statistics
Matches: 303, Mismatches: 18, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
47 2 0.01
48 207 0.68
49 10 0.03
50 84 0.28
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:56032356 original size:98 final size:98
Alignment explanation
Indices: 56032206--56032581 Score: 677
Period size: 98 Copynumber: 3.9 Consensus size: 98
56032196 CATCGCCTAC
*
56032206 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
56032270 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
56032304 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
56032369 TTCGGCTTTACCACATATACATATCTC--ATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
56032400 ATATTTGACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
56032465 TTCGCCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
56032498 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
56032563 TTCGGCTTTACCACATATA
66 TTCGGCTTTACCACATATA
56032582 TGCATGTTCA
Statistics
Matches: 268, Mismatches: 7, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
96 94 0.35
98 173 0.65
99 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (98 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:56032549 original size:194 final size:194
Alignment explanation
Indices: 56032220--56032581 Score: 697
Period size: 194 Copynumber: 1.9 Consensus size: 194
56032210 TTCACACTAG
*
56032220 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
56032285 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
66 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
56032350 ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTGACATTGA
131 ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTGACATTGA
56032414 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
*
56032479 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCAT
66 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
*
56032544 ACATATTTCACATTAGCCATTCGGCTTTACCACATATA
131 ACATATTTCACACTAGCCATTCGGCTTTACCACATATA
56032582 TGCATGTTCA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 165 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (194 bp):
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
ACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTGACATTGA
Found at i:56032630 original size:47 final size:47
Alignment explanation
Indices: 56032551--56032744 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
56032541 CATACATATT
* * * *
56032551 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
56032598 TCACATTGGCCATTCGGCCTTATCACACATATGCTTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
56032645 TCACATTGGCCATTCGGCCTTATCACATATATGGATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
56032692 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56032739 TCACAT
1 TCACAT
56032745 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:56035386 original size:40 final size:40
Alignment explanation
Indices: 56035342--56035571 Score: 361
Period size: 40 Copynumber: 5.8 Consensus size: 40
56035332 AGCATGATTA
* * * *
56035342 CTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
56035382 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
56035422 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
56035462 CTCTTCGGGAATTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
56035502 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
56035542 TTCTTCGGGATTTAGCCCGGATACATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
56035572 CTCAATTCTC
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:56036901 original size:37 final size:37
Alignment explanation
Indices: 56036842--56036950 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
56036832 AGCTCAGACG
* *
56036842 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56036879 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56036916 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56036951 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56037151 original size:48 final size:48
Alignment explanation
Indices: 56037097--56037475 Score: 566
Period size: 48 Copynumber: 7.8 Consensus size: 48
56037087 GCACATCGCC
56037097 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
56037145 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
56037195 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56037243 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
56037291 TATATATTTGACA-TTGACCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56037339 TACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
56037389 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56037437 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
56037476 TGCATGTTCA
Statistics
Matches: 299, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
47 2 0.01
48 203 0.68
49 10 0.03
50 84 0.28
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:56037250 original size:98 final size:98
Alignment explanation
Indices: 56037100--56037475 Score: 659
Period size: 98 Copynumber: 3.9 Consensus size: 98
56037090 CATCGCCTAC
*
56037100 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
56037164 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
56037198 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
56037263 TTCGACTTTACCACATATACATATCTC--ATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
56037294 ATATTTGACATTGACCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
56037359 TTCGCCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
56037392 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
56037457 TTCGGCTTTACCACATATA
66 TTCGGCTTTACCACATATA
56037476 TGCATGTTCA
Statistics
Matches: 265, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
96 93 0.35
98 171 0.65
99 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:56037457 original size:194 final size:194
Alignment explanation
Indices: 56037114--56037475 Score: 679
Period size: 194 Copynumber: 1.9 Consensus size: 194
56037104 TTCACACTAG
* *
56037114 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
56037179 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
66 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
56037244 ACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTGACATTGA
131 ACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTGACATTGA
56037308 CCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
1 CCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
*
56037373 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCAT
66 ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
* *
56037438 ACATATTTCACATTAGCCATTCGGCTTTACCACATATA
131 ACATATTTCACACTAGCCATTCGACTTTACCACATATA
56037476 TGCATGTTCA
Statistics
Matches: 163, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
194 163 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (194 bp):
CCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCAC
ATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCAT
ACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTGACATTGA
Found at i:56037524 original size:47 final size:47
Alignment explanation
Indices: 56037445--56037638 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
56037435 CATACATATT
* * * *
56037445 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
56037492 TCACATTGGCCATTCGGCCTTATCACACATATGCTTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
56037539 TCACATTGGCCATTCGGCCTTATCACATATATGTATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
56037586 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56037633 TCACAT
1 TCACAT
56037639 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:56042297 original size:37 final size:36
Alignment explanation
Indices: 56042227--56042298 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
56042217 AAAAATGTAC
* * *
56042227 TCCAACCGAAACATGGCAAACGTTCATAAGAGCTAA
1 TCCAACCGAAACACGCCAAACGCTCATAAGAGCTAA
* *
56042263 TCCAACCGATAACACGCCAAATGCTCATATGAGCTA
1 TCCAACCGA-AACACGCCAAACGCTCATAAGAGCTA
56042299 TATATCCGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (36 bp):
TCCAACCGAAACACGCCAAACGCTCATAAGAGCTAA
Found at i:56043736 original size:15 final size:15
Alignment explanation
Indices: 56043716--56043755 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
56043706 TAATTTCATG
*
56043716 AAATTTACTTGTTTA
1 AAATTTAATTGTTTA
56043731 AAATTTAATTGTTTA
1 AAATTTAATTGTTTA
56043746 AAATTTAATT
1 AAATTTAATT
56043756 TGTCTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (15 bp):
AAATTTAATTGTTTA
Found at i:56052236 original size:21 final size:21
Alignment explanation
Indices: 56052212--56052271 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
56052202 GGATCACATG
56052212 CCCGTGTGGCCATGGGACGCA
1 CCCGTGTGGCCATGGGACGCA
*
56052233 CCCGTGTGGCCATGAGACGCA
1 CCCGTGTGGCCATGGGACGCA
56052254 CCCGTGTGGCCATGGGAC
1 CCCGTGTGGCCATGGGAC
56052272 ACGCCCTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (21 bp):
CCCGTGTGGCCATGGGACGCA
Found at i:56053553 original size:33 final size:32
Alignment explanation
Indices: 56053516--56053592 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
56053506 TGGCCTTGCC
* *
56053516 ATGGTCTTACACTCGTAGTGCCATAACCCAATT
1 ATGGTCTTACACTCG-AATGCCATAACCCAACT
* * * *
56053549 ATGGTCTTATCATTTGAATGCCATATCCCAGCT
1 ATGGTCTTA-CACTCGAATGCCATAACCCAACT
56053582 ATGGTCTTACA
1 ATGGTCTTACA
56053593 TACAAATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACACTCGAATGCCATAACCCAACT
Found at i:56053586 original size:66 final size:66
Alignment explanation
Indices: 56053467--56053592 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
56053457 ATCATTTTTT
** * **
56053467 GTGCCATAGTCCAACTATGGTCTTACATGTGAATTGCCATGGCCTTGCCATGGTCTTACACTCGT
1 GTGCCATAACCCAACTATGGTCTTACATGTGAATTGCCATAGCCCAGCCATGGTCTTACACTCGT
56053532 A
66 A
* * * *
56053533 GTGCCATAACCCAATTATGGTCTTATCATTTGAA-TGCCATATCCCAGCTATGGTCTTACA
1 GTGCCATAACCCAACTATGGTCTTA-CATGTGAATTGCCATAGCCCAGCCATGGTCTTACA
56053593 TACAAATATT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 43 0.86
67 7 0.14
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (66 bp):
GTGCCATAACCCAACTATGGTCTTACATGTGAATTGCCATAGCCCAGCCATGGTCTTACACTCGT
A
Found at i:56060520 original size:21 final size:21
Alignment explanation
Indices: 56060496--56060548 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
56060486 GTTCGGATTA
*
56060496 TATCGGTAGAACCAAAAGTTG
1 TATCGGTAGAACCAAAAGTTC
* * ***
56060517 TATCTGTATAACTTCAAGTTC
1 TATCGGTAGAACCAAAAGTTC
56060538 TATCGGTAGAA
1 TATCGGTAGAA
56060549 TTCTGTAGCC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (21 bp):
TATCGGTAGAACCAAAAGTTC
Found at i:56060971 original size:17 final size:16
Alignment explanation
Indices: 56060946--56060985 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
56060936 TAGAATTTAG
*
56060946 TTGAGAAAATTATTTAA
1 TTGA-AAAATTAATTAA
56060963 TTAGAAAAATTAATTAA
1 TT-GAAAAATTAATTAA
56060980 TTGAAA
1 TTGAAA
56060986 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 15 0.71
18 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
TTGAAAAATTAATTAA
Found at i:56067336 original size:10 final size:10
Alignment explanation
Indices: 56067321--56067370 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
56067311 TTAATAAATG
56067321 TTTTATATAT
1 TTTTATATAT
56067331 TTTTATAT-T
1 TTTTATATAT
*
56067340 TTTTGTAT-T
1 TTTTATATAT
*
56067349 TTTT-TATAA
1 TTTTATATAT
56067358 TTTTATA-AT
1 TTTTATATAT
56067367 TTTT
1 TTTT
56067371 GCAAGTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 3 0.09
9 22 0.63
10 10 0.29
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTATATAT
Found at i:56067360 original size:11 final size:10
Alignment explanation
Indices: 56067321--56067370 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
56067311 TTAATAAATG
*
56067321 TTTTATATAT
1 TTTTATATTT
56067331 TTTTATA-TT
1 TTTTATATTT
*
56067340 TTTTGTATTT
1 TTTTATATTT
*
56067350 TTTTATAATT
1 TTTTATATTT
*
56067360 TTATA-ATTT
1 TTTTATATTT
56067369 TT
1 TT
56067371 GCAAGTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 12 0.36
10 21 0.64
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTATATTT
Found at i:56067361 original size:27 final size:27
Alignment explanation
Indices: 56067321--56067398 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
56067311 TTAATAAATG
* * * * *
56067321 TTTTATATATTTTTATATTTTTTGTAT
1 TTTTTTATAATTTTATAATTTTTGCAA
56067348 TTTTTTATAATTTTATAATTTTTGCAA
1 TTTTTTATAATTTTATAATTTTTGCAA
* * *
56067375 GTATTTATAATTTTAATACTTTTT
1 TTTTTTATAATTTT-ATAATTTTT
56067399 AAATAAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 34 0.81
28 8 0.19
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTTATAATTTTATAATTTTTGCAA
Found at i:56076838 original size:31 final size:31
Alignment explanation
Indices: 56076786--56076860 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
56076776 TAAAAACTTA
* * * *
56076786 AATATAATAAATAAATTATATTTATATTATTT
1 AATATAAT-GATAAATGATATTTAAATAATTT
56076818 AATATAATGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
*
56076849 GATATAATGATA
1 AATATAATGATA
56076861 CATAAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 30 0.79
32 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (31 bp):
AATATAATGATAAATGATATTTAAATAATTT
Found at i:56076851 original size:23 final size:23
Alignment explanation
Indices: 56076813--56076860 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
56076803 ATATTTATAT
56076813 TATTTAATATAATGATA-AATGA
1 TATTTAATATAATGATATAATGA
56076835 TATTTAA-ATAATTTGATATAATGA
1 TATTTAATATAA--TGATATAATGA
56076859 TA
1 TA
56076861 CATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 5 0.22
24 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
TATTTAATATAATGATATAATGA
Found at i:56076874 original size:31 final size:31
Alignment explanation
Indices: 56076786--56076885 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
56076776 TAAAAACTTA
* * * * *
56076786 AATATAATAAATAAATTATATTTATATTATTT
1 AATATAAT-GATAAATGAAATTTAAATAATTT
*
56076818 AATATAATGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGAAATTTAAATAATTT
* * *
56076849 GATATAATGATACAT-AAATTATAAATTAATCT
1 AATATAATGATAAATGAAATT-TAAA-TAATTT
56076881 AATAT
1 AATAT
56076886 TTTTTTAGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 4 0.07
31 36 0.63
32 17 0.30
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (31 bp):
AATATAATGATAAATGAAATTTAAATAATTT
Found at i:56077199 original size:118 final size:118
Alignment explanation
Indices: 56076991--56077228 Score: 350
Period size: 118 Copynumber: 2.0 Consensus size: 118
56076981 ACACTTGAAT
* * *
56076991 GAAAAAAAAACTTTTTCATCACAATTTTGACCCCAAAAGCCAGATGTCCTTCATTGCCCTTGCAG
1 GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCCCATGCAG
56077056 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
66 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
* * * * * * **
56077109 GAAAAAGACACTTTTTCACCCCAATTTTGACCCCAAAAACTAGATGTCTTTCATTGCTCATGTGG
1 GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCCCATGCAG
* * *
56077174 TGAAAATCTACTTTTGGCTTCTCAAATGCAATGAAGAATGTGACTTTAGTAAA
66 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
56077227 GA
1 GA
56077229 CAACGACGAC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 106 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (118 bp):
GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCCCATGCAG
TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
Found at i:56088444 original size:24 final size:24
Alignment explanation
Indices: 56088387--56088459 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
56088377 TCTCGATTAC
56088387 GGCTCT-TCGTGAGCTTCCT-ATTAATT
1 GGCTCTAT-GTGAGCTTCCTGA-T-A-T
56088413 GGCTCTATGTGAGCTTCCTGATAT
1 GGCTCTATGTGAGCTTCCTGATAT
* *
56088437 GGCTCTAT-TGAACTTTCTGATAT
1 GGCTCTATGTGAGCTTCCTGATAT
56088460 ATGGATATCC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
23 13 0.30
24 9 0.21
25 1 0.02
26 18 0.42
27 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (24 bp):
GGCTCTATGTGAGCTTCCTGATAT
Found at i:56090868 original size:48 final size:48
Alignment explanation
Indices: 56090791--56091168 Score: 307
Period size: 48 Copynumber: 7.9 Consensus size: 48
56090781 GGGTAAATTA
* *
56090791 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACAT-GTCGAGA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAAT-GAGG
* * * * *
56090839 CCGATGCCATGTCCCAGACGTAGTTTTACACTGACTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
* * * *
56090887 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-GTCGAGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAAT-GAGG
* * * *
56090935 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
* * ** * * *
56090983 CCGATGCCATGTCCCAAACATGGTCTTACACTAACACACAT-ATCAATG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAAT-GAGG
* * * * * * * **
56091031 TCGACGCCATGTCCCAAATATGGTCTTACACTAG-TACACAT-ATCAACA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCT-CACATAAT-GAGG
* * * ** *
56091079 CCGATGCCATGTCCCAAACATGGTCTTACACTGCCTCTTATAATGTGG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
* * * *
56091127 CCGATTCCATGTCCCAGACATGGTCTTACACTAGCACACATA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATA
56091169 TCACCCAATT
Statistics
Matches: 267, Mismatches: 56, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
47 3 0.01
48 259 0.97
49 5 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATGAGG
Found at i:56090964 original size:96 final size:96
Alignment explanation
Indices: 56090791--56091158 Score: 411
Period size: 96 Copynumber: 3.8 Consensus size: 96
56090781 GGGTAAATTA
* * * * *
56090791 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATGTCGAGACCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
* * *
56090856 ACGTAGTTTTACACTGACTCTCATAATGTGG
66 ACATGGTCTTACACTGACTCTCATAATGTGG
*
56090887 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
* *
56090952 ACATGGTCTTACATTGGCTCTCATAATGTGG
66 ACATGGTCTTACACTGACTCTCATAATGTGG
* * * * * * *
56090983 CCGATGCCATGTCCCAAACATGGTCTTACACTAACACACATATCAATGTCGACGCCATGTCCCAA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
* * * ****
56091048 ATATGGTCTTACACT-AGTACACAT-ATCAACA
66 ACATGGTCTTACACTGACT-CTCATAAT-GTGG
** * *
56091079 CCGATGCCATGTCCCAAACATGGTCTTACACT-GCCTCTTATAAT-GTGGCCGATTCCATGTCCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCACAT-ATCGAGGCCGATGCCATGTCCC
56091142 AGACATGGTCTTACACT
64 AGACATGGTCTTACACT
56091159 AGCACACATA
Statistics
Matches: 230, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
95 3 0.01
96 225 0.98
97 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTCTCATAATGTGG
Found at i:56091054 original size:144 final size:145
Alignment explanation
Indices: 56090790--56091171 Score: 470
Period size: 144 Copynumber: 2.6 Consensus size: 145
56090780 AGGGTAAATT
* * * * *
56090790 ACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACAT-GTCGAGACCGATGCCATGTCCC
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCC
* * * * * * *
56090854 AGACGTAGTTTTACACTGACTCTC--AT-AATGTGGCCGATGCCATGTCCCAAACATGGTCTTAC
65 AGACATGGTCTTACACTAACACACATATCAATGT-G-CGACGCCATGTCCCAAACATGGTCTTAC
* * *
56090916 ACTAGCT-CACATGTCGAG
128 ACTAG-TACACATATCAAC
* *
56090934 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
* *
56090999 AACATGGTCTTACACTAACACACATATCAATGT-CGACGCCATGTCCCAAATATGGTCTTACACT
66 GACATGGTCTTACACTAACACACATATCAATGTGCGACGCCATGTCCCAAACATGGTCTTACACT
56091063 AGTACACATATCAAC
131 AGTACACATATCAAC
* * * *
56091078 ACCGATGCCATGTCCCAAACATGGTCTTACACTGCCTCTTATAATGTGGCCGATTCCATGTCCCA
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
*
56091143 GACATGGTCTTACACTAGCACACATATCA
66 GACATGGTCTTACACTAACACACATATCA
56091172 CCCAATTGTC
Statistics
Matches: 206, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
143 1 0.00
144 197 0.96
145 1 0.00
146 2 0.01
147 5 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (145 bp):
ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCA
GACATGGTCTTACACTAACACACATATCAATGTGCGACGCCATGTCCCAAACATGGTCTTACACT
AGTACACATATCAAC
Found at i:56093406 original size:47 final size:47
Alignment explanation
Indices: 56093354--56093543 Score: 163
Period size: 47 Copynumber: 4.1 Consensus size: 47
56093344 TGGTTGGACG
* * * * *
56093354 ATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCGATGTGATATGTG-CTTCCATATAAGACCATAGCTGAGAT
* * * *
56093401 ATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGAGAT
1 ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
* * * * *
56093448 ATGGCATCGGTATGATATGTGCTTCTATGTAAGACCATATCT-AGGAT
1 ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGA-GAT
* * * *
56093495 ATGGCATC-AGTGTGATATGTG-ATCCATGTAAGACCATGGCTGAGCT
1 ATGGCATCGA-TGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
56093541 ATG
1 ATG
56093544 ACTTCAGTGT
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 22 0.18
47 88 0.73
48 10 0.08
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (47 bp):
ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
Found at i:56100082 original size:49 final size:49
Alignment explanation
Indices: 56100026--56100121 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
56100016 TATTCATGAG
56100026 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
1 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
56100075 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGT
1 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGT
56100122 CACATAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (49 bp):
CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
Found at i:56100362 original size:47 final size:49
Alignment explanation
Indices: 56100293--56100555 Score: 243
Period size: 47 Copynumber: 5.6 Consensus size: 49
56100283 GTAAGGTTCT
56100293 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
* * * *
56100340 GATGCCATGTACTAGACATGGTCTTACACTGACT-ATCATCTCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
* * * *
56100388 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATTTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
* * *
56100434 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTC--AGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT--C
* * * *
56100480 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGT-G--GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATCTCGAAGTC
56100528 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
56100556 AGCACACACA
Statistics
Matches: 181, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
46 72 0.40
47 77 0.43
48 26 0.14
50 2 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGTC
Found at i:56100535 original size:94 final size:93
Alignment explanation
Indices: 56100293--56100561 Score: 309
Period size: 94 Copynumber: 2.9 Consensus size: 93
56100283 GTAAGGTTCT
* * * * *
56100293 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATATCTCAAGTCGATGCCATGTACTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATATGT--GGCCGATG-CATGTCCCAGAC
*
56100357 ATGGTCTTACACT-G-ACTATCATCTCGTAGTC
63 AT-GTCTTACACTAGCAC-ATCATCTCGTAGCC
* *
56100388 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATTTCGAGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATAT-GTGGCCGATGCATGTCCCAGACA
*
56100451 TGTCTTACACTAGCAC-TCGTCTCAGT-GCC
64 TGTCTTACACTAGCACATCATCTC-GTAGCC
*
56100480 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CAT-ATGTGGCCGATGCATGTCCCAGACA
56100545 TGTCTTACACTAGCACA
64 TGTCTTACACTAGCACA
56100562 CACAAGTGAC
Statistics
Matches: 151, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
92 22 0.15
93 42 0.28
94 78 0.52
95 9 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATATGTGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACATCATCTCGTAGCC
Found at i:56100550 original size:140 final size:141
Alignment explanation
Indices: 56100293--56100555 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 141
56100283 GTAAGGTTCT
* * *
56100293 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTACTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTACCAGACA
* *
56100358 TGGTCTTACACTGACTATCATCTCGTAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
66 TGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
56100423 ATTTCGAGGCC
131 ATTTCGAGGCC
* *
56100434 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTC-AGTGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACAT-ATCTCAAGT--CGATGCCATGTACCAG
*
56100495 ACATGGTCTTACACT-AGCT-TCCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
63 ACATGGTCTTACACTGA-CTAT-CAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
56100556 AGCACACACA
Statistics
Matches: 108, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
138 4 0.04
139 19 0.18
140 80 0.74
141 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTACCAGACA
TGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
ATTTCGAGGCC
Found at i:56103391 original size:28 final size:29
Alignment explanation
Indices: 56103341--56103395 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
56103331 CTAAGGTACA
*
56103341 GGGGACACACGGCCAGACAACATGCCCAT
1 GGGGACACACAGCCAGACAACATGCCCAT
56103370 GGGG-CACACAGCCTAGAC-ACATGCCC
1 GGGGACACACAGCC-AGACAACATGCCC
56103396 GTGTGTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.29, C:0.36, G:0.27, T:0.07
Consensus pattern (29 bp):
GGGGACACACAGCCAGACAACATGCCCAT
Found at i:56107659 original size:30 final size:30
Alignment explanation
Indices: 56107625--56107682 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
56107615 TAGGCACTTC
*
56107625 CACACAGGT-GATCCACACGTCCGGGTGTGA
1 CACACAGGTAGA-CCACACGCCCGGGTGTGA
* *
56107655 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACAGGTAGACCACACGCCCGGGTGT
56107683 CATGGTCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (30 bp):
CACACAGGTAGACCACACGCCCGGGTGTGA
Found at i:56112330 original size:15 final size:15
Alignment explanation
Indices: 56112290--56112339 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
56112280 CTTGCTCTCT
*
56112290 TTCTCTTCTTCGTTCCC
1 TTCTCTT-TTC-TTTCC
56112307 TTCTC-TTTCTTTCC
1 TTCTCTTTTCTTTCC
*
56112321 TTCTCTTTTCTTTCT
1 TTCTCTTTTCTTTCC
56112336 TTCT
1 TTCT
56112340 TTCCTCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 9 0.30
15 15 0.50
16 1 0.03
17 5 0.17
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (15 bp):
TTCTCTTTTCTTTCC
Found at i:56112366 original size:21 final size:19
Alignment explanation
Indices: 56112286--56112377 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 19
56112276 TCTTCTTGCT
56112286 CTCTTTCTCTTC-TTCGTTCC
1 CTCTTTCT-TTCTTTC-TTCC
* *
56112306 CT-TCTCTTTCTTTCCTTCT
1 CTCTTTCTTTCTTT-CTTCC
*
56112325 CT-TTTCTTTCTTTCTTTC
1 CTCTTTCTTTCTTTCTTCC
56112343 CTCTTTCTTTCACTTTCTTCC
1 CTCTTTCTTT--CTTTCTTCC
*
56112364 CTCTCCTCTTTCTT
1 CTCT-TTCTTTCTT
56112378 CCCCATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
18 8 0.14
19 28 0.47
20 6 0.10
21 12 0.20
22 5 0.08
ACGTcount: A:0.01, C:0.37, G:0.01, T:0.61
Consensus pattern (19 bp):
CTCTTTCTTTCTTTCTTCC
Found at i:56114980 original size:30 final size:30
Alignment explanation
Indices: 56114945--56115002 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
56114935 TAGGCACTTC
56114945 CACACGGGT-GATCCACATGCCCGTGTGTGA
1 CACACGGGTAGA-CCACATGCCCGTGTGTGA
* *
56114975 CACACGGGTAGACCACATGTCGGTGTGT
1 CACACGGGTAGACCACATGCCCGTGTGT
56115003 CATAGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (30 bp):
CACACGGGTAGACCACATGCCCGTGTGTGA
Found at i:56121455 original size:51 final size:49
Alignment explanation
Indices: 56121335--56121569 Score: 180
Period size: 49 Copynumber: 4.9 Consensus size: 49
56121325 TATTGTGAGG
* * * *
56121335 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * * *
56121384 TCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCTGATAACTTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA--TTGA
* ** * * ** *
56121435 TCACGTGTGTAGTACTAAGTGCAGGCTACGACATGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT-GA
*
56121485 TCACGTGTGTAGTACTAAGTGCAGG----T----GTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * * *
56121526 TCGCATGTGTAGTACTAAGTGAAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
56121570 GCTTTGGCTA
Statistics
Matches: 145, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
41 24 0.17
42 9 0.06
45 1 0.01
49 48 0.33
50 26 0.18
51 37 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:56124225 original size:2 final size:2
Alignment explanation
Indices: 56124218--56124242 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56124208 AACTGATTAT
56124218 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
56124243 TATATATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:56126928 original size:49 final size:49
Alignment explanation
Indices: 56126867--56127041 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
56126857 TGAGGTCACG
*
56126867 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * * * *
56126916 AGTGTAGTACTAAGTGCAGTCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
* *
56126967 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
56127016 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
56127042 TGCGTACCAG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 63 0.60
50 4 0.04
51 38 0.36
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:56127040 original size:100 final size:100
Alignment explanation
Indices: 56126862--56127054 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
56126852 TATTGTGAGG
* *
56126862 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCAAGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCAAGTGTAGTACT
* *
56126927 AAGTGCAGTCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* *
56126962 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGTATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCAAGTGTAGTACT
56127027 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
56127055 GCTTTGGCTG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCAAGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:56128564 original size:48 final size:48
Alignment explanation
Indices: 56128488--56128675 Score: 268
Period size: 48 Copynumber: 3.9 Consensus size: 48
56128478 GGTAAATTAT
* * * * *
56128488 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGC
* * *
56128536 CGATGCCATGTCCTAGACATGGTATTACACTAGCATACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGC
* * * *
56128584 CAATTCCATGTCTCAGACATGGTTTTACACTAGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGC
56128632 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
56128676 CCCAATTGTC
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 122 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGC
Found at i:56130280 original size:25 final size:25
Alignment explanation
Indices: 56130245--56130321 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
56130235 GCCTAGCCTC
56130245 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
56130269 TTTTAATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** * *
56130294 TTTCGGTAAACTGGGGGATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
56130319 TTT
1 TTT
56130322 AGCACTTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.15
25 40 0.85
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:56131193 original size:27 final size:27
Alignment explanation
Indices: 56131131--56131208 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
56131121 GGGCATATTC
* *
56131131 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
56131158 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
56131185 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-TAGGGGTATT
56131209 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:56131279 original size:27 final size:27
Alignment explanation
Indices: 56131249--56131300 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56131239 GTAAATCTAC
56131249 AAACCAAAGGTATTTCAATAATTTTGT
1 AAACCAAAGGTATTTCAATAATTTTGT
* *
56131276 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCAATAATTTT
56131301 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAATAATTTTGT
Found at i:56131352 original size:27 final size:27
Alignment explanation
Indices: 56131298--56131435 Score: 129
Period size: 27 Copynumber: 5.1 Consensus size: 27
56131288 TTTCTATAAT
* *
56131298 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
56131326 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
56131353 TTTTAAAAAT-TGAGGGTATTTTGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * *
56131380 TTTCACAAACCAGTGGTATTTCGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
56131407 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
56131434 TT
1 TT
56131436 CTACCCTATA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.03
27 80 0.88
28 8 0.09
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:56131451 original size:81 final size:81
Alignment explanation
Indices: 56131313--56131468 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
56131303 GAAAGTCAAG
* ** * * **
56131313 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTAAAAATAGAGGGTATTTCAGT
56131378 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
***
56131394 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTCA
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTA-AAAATAGAGGGTATTTCA
56131457 GTAATTTCACAA
64 GTAATTTCACAA
56131469 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.02
81 59 0.94
82 3 0.05
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTAAAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:56131475 original size:27 final size:26
Alignment explanation
Indices: 56131312--56131468 Score: 100
Period size: 27 Copynumber: 5.8 Consensus size: 26
56131302 AGAAAGTCAA
* ***
56131312 GGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTCGGTAATTTCACAAA-CAG
* * * **
56131339 GGGTATTTTGGTAATTTTAAAAATTG
1 GGGTATTTCGGTAATTTCACAAACAG
*
56131365 AGGGTATTTTGGTAATTTCACAAACCAG
1 -GGGTATTTCGGTAATTTCACAAA-CAG
* *
56131393 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAAC-AG
* ** *
56131420 GGGTATTTTGGTAA-TTCTACCCTATAG
1 GGGTATTTCGGTAATTTC-A-CAAACAG
*
56131447 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
56131469 TCGAGGGTAA
Statistics
Matches: 101, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
26 5 0.05
27 90 0.89
28 6 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTCACAAACAG
Done.