Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 176 of 295
Found at i:55826044 original size:94 final size:91
Alignment explanation
Indices: 55825879--55826096 Score: 235
Period size: 94 Copynumber: 2.4 Consensus size: 91
55825869 AATTTCTTGT
* ** *
55825879 GTGCCAGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTATAAGACCATA
* *
55825944 TCTGGGACATGGCATCGGC-ACAGAGACGA
66 TATGGGACA-CGCATCGGCTA-AGAG--GA
* * * * *
55825973 GTGCCAGAGTAAGACATGTCTGGGACATGCATTGGCCTCAACGATGA-TAGCCAGTGTAGGA-CA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTATAAGACCA
**
55826036 TATATGGGACACGCATCGGCTAAGAGTT
64 TATATGGGACACGCATCGGCTAAGAGGA
*
55826064 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
55826097 AGCACATATA
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
91 30 0.29
93 12 0.11
94 48 0.46
95 15 0.14
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTATAAGACCATA
TATGGGACACGCATCGGCTAAGAGGA
Found at i:55828630 original size:13 final size:13
Alignment explanation
Indices: 55828612--55828639 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55828602 ACATATTATA
55828612 AATATTTTGTGTT
1 AATATTTTGTGTT
55828625 AATATTTTGTGTT
1 AATATTTTGTGTT
55828638 AA
1 AA
55828640 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:55830099 original size:40 final size:40
Alignment explanation
Indices: 55830051--55830296 Score: 347
Period size: 40 Copynumber: 6.2 Consensus size: 40
55830041 AGACTAAGAT
55830051 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55830091 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55830131 CCGAAGGCATTTATGCTAGTTACTATATCCGGGCTAAGTTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TC
* *
55830172 CC-AAGGAATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55830211 CCGAAGGCATTTGTGCGAGTTG-CTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
* * *
55830251 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGTTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
55830290 CCGAAGG
1 CCGAAGG
55830297 TACTTGGGTT
Statistics
Matches: 191, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 18 0.09
40 167 0.87
41 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:55830257 original size:120 final size:120
Alignment explanation
Indices: 55830044--55830282 Score: 388
Period size: 120 Copynumber: 2.0 Consensus size: 120
55830034 GATAACCAGA
* * *
55830044 CTAAGATCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
1 CTAAGATCCCAAGGAATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
* *
55830109 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTACTATATCCGGG
66 GTTACTATATCCAGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTATATCCGGG
* *
55830164 CTAAGTTCCCAAGGAATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 CTAAGATCCCAAGGAATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
* * *
55830229 GTTGCTATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
66 GTTACTATATCCAGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTATATCCGG
55830283 TTAAATCCCG
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (120 bp):
CTAAGATCCCAAGGAATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
GTTACTATATCCAGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTATATCCGGG
Found at i:55836822 original size:13 final size:13
Alignment explanation
Indices: 55836804--55836831 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55836794 ACATATTATA
55836804 AATATTTTGTGTT
1 AATATTTTGTGTT
55836817 AATATTTTGTGTT
1 AATATTTTGTGTT
55836830 AA
1 AA
55836832 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:55838290 original size:40 final size:40
Alignment explanation
Indices: 55838242--55838487 Score: 354
Period size: 40 Copynumber: 6.2 Consensus size: 40
55838232 GGACTAAGAT
*
55838242 CCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55838282 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTGAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55838322 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55838362 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55838402 CCGAAGGCATTTGTACGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
* * * *
55838442 TCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGTTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
55838481 CCGAAGG
1 CCGAAGG
55838488 TACTTGGGTT
Statistics
Matches: 191, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.07
40 176 0.92
41 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:55842151 original size:46 final size:45
Alignment explanation
Indices: 55842084--55842255 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
55842074 TGGGCATCCA
*
55842084 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
55842130 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
*
55842177 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC-G
* *
55842223 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55842256 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 60 0.58
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:55842235 original size:93 final size:93
Alignment explanation
Indices: 55842076--55842248 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
55842066 GGGATATTTG
* *
55842076 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAG
55842141 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
55842169 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTC-GAACTCGTTGA
55842233 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
55842249 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:55847796 original size:47 final size:46
Alignment explanation
Indices: 55847679--55847849 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
55847669 GATTTCTTGT
* **
55847679 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACACGATGA
* * * * *
55847725 GTGCCAGTATAAGACCACGCCTGGGACATGCATCGGCCTCAACGATGA
1 GTGCCAGTGTAA-AACATGTCTGGGACATGCATCGGCCAC-ACGATGA
* * * *
55847773 -TAGCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTA-A-GA-GTT
1 GT-GCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACACGATG-A
* * *
55847817 GTGCTAGTGTAAGACAAGTCTGGGACATGCATC
1 GTGCCAGTGTAAAACATGTCTGGGACATGCATC
55847850 AGCATGTATA
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
43 1 0.01
44 28 0.29
45 2 0.02
46 11 0.11
47 42 0.43
48 14 0.14
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACACGATGA
Found at i:55849142 original size:35 final size:35
Alignment explanation
Indices: 55849099--55849174 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
55849089 TAAATTTTCT
* *
55849099 ATTAA-AATTTTAACTTTA-AAACTAAATATAA-AA
1 ATTAATAAATTTAAATTTATAAACTAAA-ATAATAA
**
55849132 ATTAATAAATTTAAATTTATAATTTAAAATAATAA
1 ATTAATAAATTTAAATTTATAAACTAAAATAATAA
55849167 ATTAATAA
1 ATTAATAA
55849175 CACAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 5 0.14
34 15 0.42
35 16 0.44
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (35 bp):
ATTAATAAATTTAAATTTATAAACTAAAATAATAA
Found at i:55849153 original size:14 final size:14
Alignment explanation
Indices: 55849130--55849169 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
55849120 CTAAATATAA
55849130 AAATTAATAAATTT
1 AAATTAATAAATTT
*
55849144 AAATTTAT-AATTT
1 AAATTAATAAATTT
*
55849157 AAAATAATAAATT
1 AAATTAATAAATT
55849170 AATAACACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTAATAAATTT
Found at i:55854964 original size:9 final size:8
Alignment explanation
Indices: 55854857--55854971 Score: 75
Period size: 7 Copynumber: 14.8 Consensus size: 8
55854847 AAATATGGAC
*
55854857 TAAAGTTT
1 TAAATTTT
*
55854865 TAAA-TAT
1 TAAATTTT
55854872 TAAATTTT
1 TAAATTTT
*
55854880 TAAGTTTT
1 TAAATTTT
*
55854888 TGAATTTT
1 TAAATTTT
55854896 T-AATTTT
1 TAAATTTT
55854903 T-AATTTT
1 TAAATTTT
*
55854910 T-AATCTT
1 TAAATTTT
55854917 T--ATTTT
1 TAAATTTT
55854923 TAAA-TTT
1 TAAATTTT
*
55854930 CAAA-TTT
1 TAAATTTT
55854937 TAAATTTTTT
1 TAAA--TTTT
55854947 TGAAGATTTT
1 T-AA-ATTTT
55854957 TATAATTTT
1 TA-AATTTT
55854966 TAAATT
1 TAAATT
55854972 AACATATAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
6 5 0.06
7 38 0.43
8 25 0.28
9 8 0.09
10 10 0.11
11 2 0.02
12 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (8 bp):
TAAATTTT
Found at i:55855598 original size:21 final size:21
Alignment explanation
Indices: 55855574--55855620 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
55855564 CCTAAACACC
55855574 AAACCCCAAATCCTAGA-TCAT
1 AAACCCCAAATCCTAGACT-AT
* *
55855595 AAACCCTAAATCTTAGACTAT
1 AAACCCCAAATCCTAGACTAT
55855616 AAACC
1 AAACC
55855621 TACACCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (21 bp):
AAACCCCAAATCCTAGACTAT
Found at i:55855940 original size:8 final size:7
Alignment explanation
Indices: 55855923--55856078 Score: 80
Period size: 7 Copynumber: 22.0 Consensus size: 7
55855913 ATTAATTAAT
55855923 CTAAACC
1 CTAAACC
55855930 CTAAACTC
1 CTAAAC-C
*
55855938 CTAATCC
1 CTAAACC
* *
55855945 TTAATCC
1 CTAAACC
55855952 CTAAACC
1 CTAAACC
* *
55855959 GTAAATC
1 CTAAACC
* *
55855966 TTAAATC
1 CTAAACC
*
55855973 CTAAAAC
1 CTAAACC
*
55855980 ATAAACC
1 CTAAACC
* *
55855987 ATGAACC
1 CTAAACC
*
55855994 CTGAACC
1 CTAAACC
*
55856001 TTAAACC
1 CTAAACC
* *
55856008 TTGAACC
1 CTAAACC
*
55856015 CTGAACC
1 CTAAACC
*
55856022 CTAAATCA
1 CTAAA-CC
*
55856030 CTAACCC
1 CTAAACC
55856037 CTAAACC
1 CTAAACC
*
55856044 TTAAACC
1 CTAAACC
*
55856051 C-CAACC
1 CTAAACC
55856057 CTTAAACC
1 C-TAAACC
* *
55856065 ATAATCC
1 CTAAACC
55856072 CTAAACC
1 CTAAACC
55856079 TATAATCATA
Statistics
Matches: 115, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
6 5 0.04
7 95 0.83
8 15 0.13
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:55856151 original size:14 final size:14
Alignment explanation
Indices: 55856134--55856160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55856124 TAACCATATG
55856134 CCCTAAACTATAAA
1 CCCTAAACTATAAA
55856148 CCCTAAACTATAA
1 CCCTAAACTATAA
55856161 TATAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAAACTATAAA
Found at i:55856657 original size:62 final size:65
Alignment explanation
Indices: 55856527--55856646 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 65
55856517 TGCCGCTAAA
**
55856527 GCCACTAAAAGCTCAATATAAAACGACGTAGTTTTGCAAAACTTTTTGCGGCGTTTTTAAAAAAG
1 GCCACTAAAAGCTCAATATAAAACGAC-TAGTGGTGCAAAACTTTTTGCGGCGTTTTTAAAAAAG
55856592 T
65 T
* *
55856593 GCCACTAAAAGCTCAATATAAAATGA-T-G-GGTGCAAAATTTTTTGCGGCGTTTTT
1 GCCACTAAAAGCTCAATATAAAACGACTAGTGGTGCAAAACTTTTTGCGGCGTTTTT
55856647 TGAAAGGTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
62 23 0.46
63 1 0.02
64 1 0.02
66 25 0.50
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (65 bp):
GCCACTAAAAGCTCAATATAAAACGACTAGTGGTGCAAAACTTTTTGCGGCGTTTTTAAAAAAGT
Found at i:55859368 original size:54 final size:54
Alignment explanation
Indices: 55859286--55859493 Score: 274
Period size: 54 Copynumber: 3.9 Consensus size: 54
55859276 TGGCCATGGC
* *
55859286 AAGAAGACCATATAATGCAAGACCTAGTCTGGAACTATGACATCATATGGGGAA
1 AAGAAGACCATATAGTGTAAGACCTAGTCTGGAACTATGACATCATATGGGGAA
*
55859340 AAGAAGACCATATAGTGTAAGACCTAGTCTGAAACTATGACATCATATGGGGAA
1 AAGAAGACCATATAGTGTAAGACCTAGTCTGGAACTATGACATCATATGGGGAA
* * * * **
55859394 AAGAAGACCATATATTGTAAGACCTTGTCTGGGACTATCACATCATACAGGGAA
1 AAGAAGACCATATAGTGTAAGACCTAGTCTGGAACTATGACATCATATGGGGAA
* * * * *
55859448 ATGAAGACAACATAGTGTAAGACCTAGTTTGGGACTATCG-CATCAT
1 AAGAAGACCATATAGTGTAAGACCTAGTCTGGAACTAT-GACATCAT
55859494 GTTGGCAAAG
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
AAGAAGACCATATAGTGTAAGACCTAGTCTGGAACTATGACATCATATGGGGAA
Found at i:55859634 original size:30 final size:31
Alignment explanation
Indices: 55859597--55859684 Score: 103
Period size: 30 Copynumber: 2.9 Consensus size: 31
55859587 TGATTACCGA
* *
55859597 AATGTGGAATCCTGTGTAGGTGTTCT-TAGAT
1 AATGTGGAAGCCTTTGTAGGTGTTCTCTA-AT
55859628 -ATGTGGAAGCCTTTGT-GGTTGTTCTCTAAT
1 AATGTGGAAGCCTTTGTAGG-TGTTCTCTAAT
*
55859658 AAT-TGGAAGCCTTTGTAGATGTTCTCT
1 AATGTGGAAGCCTTTGTAGGTGTTCTCT
55859685 GTTATACGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
29 2 0.04
30 43 0.86
31 5 0.10
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.41
Consensus pattern (31 bp):
AATGTGGAAGCCTTTGTAGGTGTTCTCTAAT
Found at i:55861841 original size:68 final size:68
Alignment explanation
Indices: 55861769--55861920 Score: 168
Period size: 64 Copynumber: 2.2 Consensus size: 68
55861759 CATCATGTGT
* * * * *
55861769 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTA-A-ACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGAAGCTAGGTCGCATGCGTGATACCAGGTGAAGACACCA
55861832 TGTAG
64 TGTAG
* * * *
55861837 ACAAGAGAGCTACG-G-GATATATGAAGCTAGGTTGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGAAGCTAGGTCGCATGCGTGATACCAGGTGAA-GACACCAT
55861900 GTAG
65 GTAG
55861904 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
55861921 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 26 0.37
65 3 0.04
66 2 0.03
67 24 0.34
68 15 0.21
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGAAGCTAGGTCGCATGCGTGATACCAGGTGAAGACACCATG
TAG
Found at i:55866313 original size:64 final size:64
Alignment explanation
Indices: 55866233--55866414 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
55866223 AGACATTATG
* * *
55866233 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGATACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGATACGAGATAA
* * * * * *
55866297 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGATACGAGAT
55866362 AA
63 AA
* *
55866364 ACTG--GCTAGGTC-CATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
55866415 CCGAACTATA
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 18 0.19
63 1 0.01
64 24 0.25
65 11 0.11
66 10 0.10
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGATACGAGATAA
Found at i:55870282 original size:37 final size:37
Alignment explanation
Indices: 55870232--55870310 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55870222 TTATTACGAA
* * *
55870232 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55870269 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55870306 GTCTT
1 GTCTT
55870311 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55870507 original size:47 final size:47
Alignment explanation
Indices: 55870429--55871008 Score: 890
Period size: 47 Copynumber: 12.1 Consensus size: 47
55870419 CCCTTCGGGA
* * * * * *
55870429 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55870476 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55870523 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55870572 CTTATCTCGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55870619 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55870666 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55870715 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55870762 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55870809 CTTATCACATATCTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--A--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55870860 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
55870909 CTTATCAGGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55870956 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55871005 CTTA
1 CTTA
55871009 CTATCATTTC
Statistics
Matches: 497, Mismatches: 24, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
47 277 0.56
49 174 0.35
51 44 0.09
53 2 0.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55870604 original size:96 final size:97
Alignment explanation
Indices: 55870429--55871008 Score: 885
Period size: 96 Copynumber: 6.0 Consensus size: 97
55870419 CCCTTCGGGA
* * * * * * *
55870429 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
55870491 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55870523 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTC-GTATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
55870587 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
55870619 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
55870682 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55870715 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-GTATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
55870777 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
55870809 CTTATCACATATCTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATAT
1 CTTATCACATA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATAT
55870874 ATACACTTTCACATTCATCACATCGGCCATTAGGC
63 ATACACTTTCACATTCATCACATCGGCCATTAGGC
**
55870909 CTTAT--CAGGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
*
55870972 ACACTTTCATATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
55871005 CTTA
1 CTTA
55871009 CTATCATTTC
Statistics
Matches: 452, Mismatches: 24, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
94 99 0.22
95 1 0.00
96 262 0.58
98 47 0.10
100 43 0.10
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (97 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55870687 original size:143 final size:143
Alignment explanation
Indices: 55870429--55871008 Score: 989
Period size: 143 Copynumber: 4.0 Consensus size: 143
55870419 CCCTTCGGGA
* * * * * * * * * *
55870429 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
*
55870494 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
55870559 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
55870572 CTTATCTCGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
55870637 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
55870702 TCGGCCATTAGGC
131 TCGGCCATTAGGC
55870715 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
55870780 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATCTATATACACTTTCACATTCATCA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA--TATATACACTTTCACATTCATCA
55870845 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
* *
55870860 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAGGTATATAC
1 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATAC
*
55870925 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCATATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
55870990 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
55871005 CTTA
1 CTTA
55871009 CTATCATTTC
Statistics
Matches: 417, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
143 235 0.56
145 86 0.21
147 96 0.23
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (143 bp):
CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:55875760 original size:23 final size:23
Alignment explanation
Indices: 55875730--55875773 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
55875720 AAAATTTACC
*
55875730 GCACATATATTCTATAAAATTCA
1 GCACATATATCCTATAAAATTCA
55875753 GCACATATATCCTATAAAATT
1 GCACATATATCCTATAAAATT
55875774 TAGAATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (23 bp):
GCACATATATCCTATAAAATTCA
Found at i:55877459 original size:42 final size:42
Alignment explanation
Indices: 55877399--55877560 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
55877389 AGGGTTACTA
* *
55877399 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATACG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATACG
* * * ** *
55877441 AGACTACATGTAAAACCATATTTGGTATATGAAATCGATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATACG
* * * *
55877483 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACATGTAAGACCATATCTGGGATA-TGGCATCGATACG
*
55877526 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACATGTAAGACCATATCTGGGATATGGCAT
55877561 TGGTACGGTA
Statistics
Matches: 96, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 62 0.65
43 34 0.35
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (42 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCGATACG
Found at i:55877544 original size:85 final size:84
Alignment explanation
Indices: 55877399--55877556 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 84
55877389 AGGGTTACTA
* *
55877399 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATACGAGACTACATGTAAAACCATATTT
1 AGACTACGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTACATGTAAAACCATATCT
*
55877464 GGTATATGAAATCGATATG
66 GGGATATGAAATCGATATG
* * * * *
55877483 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGACCATATC
1 AGACTACGTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTACATGTAAAACCATATC
55877548 TGGGATATG
65 TGGGATATG
55877557 GCATTGGTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 26 0.40
85 39 0.60
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (84 bp):
AGACTACGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTACATGTAAAACCATATCT
GGGATATGAAATCGATATG
Found at i:55881630 original size:17 final size:17
Alignment explanation
Indices: 55881605--55881638 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55881595 AAGAATCCGT
*
55881605 CAAACCATAGATCTCAC
1 CAAAACATAGATCTCAC
*
55881622 CAAAACATAGATTTCAC
1 CAAAACATAGATCTCAC
55881639 TGCATACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (17 bp):
CAAAACATAGATCTCAC
Found at i:55887290 original size:40 final size:40
Alignment explanation
Indices: 55887192--55887454 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
55887182 TCCTCGTTCA
* * * * *
55887192 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55887231 CATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55887271 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
55887311 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55887351 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
55887391 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55887431 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55887455 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 152 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55903874 original size:40 final size:40
Alignment explanation
Indices: 55903776--55904038 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
55903766 TCCTCGTTCA
* * * * *
55903776 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55903815 CATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55903855 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
55903895 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55903935 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
55903975 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55904015 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55904039 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 152 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55907139 original size:37 final size:37
Alignment explanation
Indices: 55907096--55907175 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
55907086 GAGTAATTGA
* * * *
55907096 CATGTTATTGGGTGGATTGGCTCTTATGAGCATTTGG
1 CATGTTATCGAGTGGATTAGCTCTTATGAGCATCTGG
*
55907133 CGTGTTATCGAGTGGATTAGCTCTTATGAGCATCTGG
1 CATGTTATCGAGTGGATTAGCTCTTATGAGCATCTGG
55907170 CATGTT
1 CATGTT
55907176 TTAGTTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.14, G:0.30, T:0.39
Consensus pattern (37 bp):
CATGTTATCGAGTGGATTAGCTCTTATGAGCATCTGG
Found at i:55909999 original size:43 final size:42
Alignment explanation
Indices: 55909940--55910035 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 42
55909930 TCCTAGACGT
* * * * *
55909940 GGTCTTACATGTAATCAAACATTGATGCCACTGTCCCATACAG
1 GGTCTTACACGAAATCAAACA-CGATGCCAATGTCCCAAACAG
* * * *
55909983 GGTCTTACACGAAATCAGATACGATGTCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAACACGATGCCAATGTCCCAAACAG
55910025 GGTCTTACACG
1 GGTCTTACACG
55910036 TAAAATAGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 27 0.61
43 17 0.39
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGATGCCAATGTCCCAAACAG
Found at i:55910063 original size:44 final size:42
Alignment explanation
Indices: 55909963--55910074 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 42
55909953 ATCAAACATT
* *
55909963 GATGCC-ACTGTCCCATACAGGGTCTTACACGAAATCAGATAC
1 GATGCCAAC-GTCCCAAACATGGTCTTACACGAAATCAGATAC
* *
55910005 GATGTCAATGTCCCAAACATGGTCTTACACGTAAAAT-AGA-AGTC
1 GATGCCAACGTCCCAAACATGGTCTTACACG--AAATCAGATA--C
* *
55910049 GATGCCAACGTCCCAGACGTGGTCTT
1 GATGCCAACGTCCCAAACATGGTCTT
55910075 TCACAAAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
42 26 0.46
43 4 0.07
44 27 0.47
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (42 bp):
GATGCCAACGTCCCAAACATGGTCTTACACGAAATCAGATAC
Found at i:55914002 original size:40 final size:40
Alignment explanation
Indices: 55913947--55914170 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
55913937 TATTCGGATG
55913947 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
55913987 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
55914030 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
55914070 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
55914110 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
55914149 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
55914171 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 14 0.09
39 7 0.04
40 104 0.64
41 1 0.01
43 37 0.23
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:55914090 original size:83 final size:80
Alignment explanation
Indices: 55913951--55914170 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
55913941 CGGATGATAT
* * *
55913951 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
55914016 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
55914034 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
55914099 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * * *
55914114 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT-TCGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGA-CCCGAAGG
55914171 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
77 1 0.01
78 14 0.11
79 6 0.05
80 39 0.31
81 1 0.01
83 63 0.51
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:55926655 original size:79 final size:81
Alignment explanation
Indices: 55926519--55926703 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
55926509 TTGAATGATG
* *
55926519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
55926583 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
55926598 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
55926660 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
55926678 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55926704 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:55926717 original size:40 final size:40
Alignment explanation
Indices: 55926520--55926703 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
55926510 TGAATGATGT
* * * *
55926520 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
55926560 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
55926600 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
55926638 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55926679 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55926704 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:55926725 original size:79 final size:79
Alignment explanation
Indices: 55926572--55926736 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
55926562 GGACTAAGAT
* * **
55926572 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
55926637 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
55926651 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
55926714 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
55926730 CCGAAGG
1 CCGAAGG
55926737 TACATGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55933664 original size:27 final size:27
Alignment explanation
Indices: 55933634--55933790 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 27
55933624 GTTTATAATT
* * *
55933634 TAAGGGCAAAACCATCATTTTATCATA
1 TAAGGGCAAAACTATCATTTTACCACA
* * *
55933661 TAAGGGCAAAATTATCATTTTGCCATA
1 TAAGGGCAAAACTATCATTTTACCACA
* *
55933688 TAAGGGCAAAACCATCATTTTAACACA
1 TAAGGGCAAAACTATCATTTTACCACA
*
55933715 TAAGGGCAAAA-TAGTCATTTTGCCACA
1 TAAGGGCAAAACTA-TCATTTTACCACA
* *
55933742 TAAGGGCAAAATTGTCATTTTA--ACA
1 TAAGGGCAAAACTATCATTTTACCACA
* *
55933767 CAAGGGCAAAACAATCATTTTACC
1 TAAGGGCAAAACTATCATTTTACC
55933791 TTATAGGGGT
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
25 21 0.19
26 1 0.01
27 85 0.79
28 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.27
Consensus pattern (27 bp):
TAAGGGCAAAACTATCATTTTACCACA
Found at i:55933718 original size:54 final size:53
Alignment explanation
Indices: 55933634--55933787 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 53
55933624 GTTTATAATT
* * *
55933634 TAAGGGCAAAACCATCATTTTATCATATAAGGGCAAAATTATCATTTTGCCATA
1 TAAGGGCAAAACCATCATTTTAACACATAAGGGCAAAA-TATCATTTTGCCACA
55933688 TAAGGGCAAAACCATCATTTTAACACATAAGGGCAAAATAGTCATTTTGCCACA
1 TAAGGGCAAAACCATCATTTTAACACATAAGGGCAAAATA-TCATTTTGCCACA
*** *
55933742 TAAGGGCAAAATTGTCATTTTAACAC--AAGGGCAAAACAATCATTTT
1 TAAGGGCAAAACCATCATTTTAACACATAAGGGCAAAA-TATCATTTT
55933788 ACCTTATAGG
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
52 17 0.19
53 3 0.03
54 71 0.78
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (53 bp):
TAAGGGCAAAACCATCATTTTAACACATAAGGGCAAAATATCATTTTGCCACA
Found at i:55933814 original size:79 final size:80
Alignment explanation
Indices: 55933634--55933788 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 80
55933624 GTTTATAATT
* ** * * * *
55933634 TAAGGGCAAAACCA-TCATTTTATCATATAAGGGCAAAATTATCATTTTGCCATATAAGGGCAAA
1 TAAGGGCAAAA-TAGTCATTTTGCCACATAAGGGCAAAATTATCATTTT-CAACACAAGGGCAAA
*
55933698 ACCATCATTTTAACACA
64 ACAATCATTTTAACACA
*
55933715 TAAGGGCAAAATAGTCATTTTGCCACATAAGGGCAAAATTGTCATTTT-AACACAAGGGCAAAAC
1 TAAGGGCAAAATAGTCATTTTGCCACATAAGGGCAAAATTATCATTTTCAACACAAGGGCAAAAC
55933779 AATCATTTTA
66 AATCATTTTA
55933789 CCTTATAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 22 0.34
80 1 0.02
81 41 0.64
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (80 bp):
TAAGGGCAAAATAGTCATTTTGCCACATAAGGGCAAAATTATCATTTTCAACACAAGGGCAAAAC
AATCATTTTAACACA
Found at i:55933920 original size:28 final size:27
Alignment explanation
Indices: 55933781--55934022 Score: 369
Period size: 27 Copynumber: 8.9 Consensus size: 27
55933771 GGCAAAACAA
* *
55933781 TCATTTTACCTTATAGGGGTATTAT-AG
1 TCATTTTACCCTATGGGGGTATT-TCAG
**
55933808 TCATTTTACCCTACAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
55933835 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
55933862 TCATTTTATCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
55933889 TCATTTTACCCTATGGGGGTATTTCCGG
1 TCATTTTACCCTATGGGGGTATTT-CAG
*
55933917 TCATTTTACCCTATGGGGGTATTTCCGG
1 TCATTTTACCCTATGGGGGTATTT-CAG
*
55933945 TCATTTTACCCTATGGGGGTATTCCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
55933972 TCATTTTACCCTATAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
55933999 TCATTTTACCCTATGGGGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
55934023 TGGTTATTGT
Statistics
Matches: 201, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
26 1 0.00
27 147 0.73
28 53 0.26
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:55942521 original size:27 final size:27
Alignment explanation
Indices: 55942489--55942886 Score: 402
Period size: 27 Copynumber: 14.9 Consensus size: 27
55942479 AAACATACAT
* **
55942489 CACATAAGGGCAAAACAGTTATCCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
55942516 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
**
55942543 CTTATAAGGGCAAAATC-GTCATTTTAC
1 CACATAAGGGCAAAA-CAGTCATTTTAC
*
55942570 CACATAAGGGCAAAACCGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
55942597 CACATAAGGGCAAAACCGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
55942624 CACATAAGGG-AAAACCTGTCATTTTA-
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* * *
55942650 -ACACAAGGGCAAAATAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * * *
55942676 CTCATAATGGAAAAATC-GTTATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* * *
55942703 CACATAAGGGCAAAACAATCAATTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
55942730 CACATAAAGGCAAAACTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
55942757 CACATAAGGGAAAAATTGTCATTTTA-
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
55942783 -ACACAAGGG-AAAACAGTCACTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
55942808 CACATAAGGGCAAAATC-GTCATTTTAT
1 CACATAAGGGCAAAA-CAGTCATTTTAC
*
55942835 CACATAAGGGCAAAATCA-TCATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
*
55942862 CACATAAGGGAAAAACAGTCATTTT
1 CACATAAGGGCAAAACAGTCATTTT
55942887 TTAAAATTTA
Statistics
Matches: 308, Mismatches: 49, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.04
25 24 0.08
26 20 0.06
27 252 0.82
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:55942759 original size:133 final size:132
Alignment explanation
Indices: 55942521--55942886 Score: 518
Period size: 133 Copynumber: 2.8 Consensus size: 132
55942511 CCTACCACAT
* * *
55942521 AAGGGCAAAATAGTCATTTTACCTTATAAGGGCAAAATCGTCATTTTACCACATAAGGGCAAAAC
1 AAGGGCAAAATAGTCATTTTGCCTCATAAGGGCAAAATCGTCATTTTAACACATAAGGGCAAAA-
* * *
55942586 CGTCATTTTACCACATAAGGGCAAAACCGTCATTTTACCACATAAGGGAAAACCTGTCATTTTAA
65 CATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACTGTCATTTTAA
55942651 CAC
130 CAC
* * *
55942654 AAGGGCAAAATAGTCATTTTGCCTCATAATGGAAAAATCGTTATTTTAACACATAAGGGCAAAAC
1 AAGGGCAAAATAGTCATTTTGCCTCATAAGGGCAAAATCGTCATTTTAACACATAAGGGCAAAAC
* * * * *
55942719 AATCAATTTGCCACATAAAGGCAAAACTGTCATTTTACCACATAAGGGAAAAATTGTCATTTTAA
66 -ATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACTGTCATTTTAA
55942784 CAC
130 CAC
* * * *
55942787 AAGGG-AAAACAGTCACTTTGCCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAAT
1 AAGGGCAAAATAGTCATTTTGCCTCATAAGGGCAAAATCGTCATTTTAACACATAAGGGCAAAA-
* *
55942851 CATCATTTTAACACATAAGGGAAAAACAGTCATTTT
65 CATCATTTTACCACATAAGGGCAAAACAGTCATTTT
55942887 TTAAAATTTA
Statistics
Matches: 205, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
132 81 0.40
133 124 0.60
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (132 bp):
AAGGGCAAAATAGTCATTTTGCCTCATAAGGGCAAAATCGTCATTTTAACACATAAGGGCAAAAC
ATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGAAAAACTGTCATTTTAAC
AC
Found at i:55943594 original size:40 final size:40
Alignment explanation
Indices: 55943530--55943710 Score: 154
Period size: 40 Copynumber: 4.5 Consensus size: 40
55943520 TAATAACACA
* * * * *
55943530 CTAGT-TTGTGGAAAACCCATCAATATTGCAGATAAATTG
1 CTAGTATTGTGGACAAGCCACCAATATTGCAGACAAACTG
* * *
55943569 CTAGTATTGTGGACAAGCCACCAATAATGCTGATAAACTG
1 CTAGTATTGTGGACAAGCCACCAATATTGCAGACAAACTG
* * * *
55943609 CTAGTATTATGGACAAGCCACTAGTGTT--ATGAACAAACTG
1 CTAGTATTGTGGACAAGCCACCAATATTGCA-G-ACAAACTG
* * * *
55943649 CCAATATTGTGGACAAGCCACCAATATTACAGACAAGCTG
1 CTAGTATTGTGGACAAGCCACCAATATTGCAGACAAACTG
*
55943689 -TCAGTATTGTAGACAAGCCACC
1 CT-AGTATTGTGGACAAGCCACC
55943711 GGTGTTGCAG
Statistics
Matches: 113, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
39 6 0.05
40 105 0.93
41 1 0.01
42 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (40 bp):
CTAGTATTGTGGACAAGCCACCAATATTGCAGACAAACTG
Found at i:55948130 original size:38 final size:38
Alignment explanation
Indices: 55948074--55948153 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
55948064 GATGTGTATT
* * *
55948074 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
55948112 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
55948150 CGGG
1 CGGG
55948154 CCTTTGTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:55948199 original size:43 final size:43
Alignment explanation
Indices: 55948146--55948300 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
55948136 GCTGGTATTA
* * * *
55948146 TATTCGGGCCTTTGTGCTTAGCAGGCTTAGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
55948189 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
55948232 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
55948275 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
55948301 GTAATGCCAG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.10, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:55948697 original size:45 final size:42
Alignment explanation
Indices: 55948630--55948737 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
55948620 TTGACTTGAT
* * *
55948630 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGACATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCAGTG--A-AC
**
55948675 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCAGTGAAC
55948717 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
55948738 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 12 0.21
44 7 0.12
45 34 0.61
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCAGTGAAC
Found at i:55951797 original size:14 final size:16
Alignment explanation
Indices: 55951773--55951804 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55951763 GAGATGATAA
55951773 GTTGAATTATAT-TTG
1 GTTGAATTATATCTTG
55951788 GTTG-ATTATATCTTG
1 GTTGAATTATATCTTG
55951803 GT
1 GT
55951805 ATGTGAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (16 bp):
GTTGAATTATATCTTG
Found at i:55954543 original size:46 final size:46
Alignment explanation
Indices: 55954410--55954584 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
55954400 TGATATGTGT
* * *
55954410 GCTAGTGTAAGACATGTCTAGGACATGCATC-GACCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CCTCGA-GATGAGA
* * * * *
55954456 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGA
* *
55954502 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCTCGAGATAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT-GA-GA
* *
55954550 GCTAGTGTAAGACCTGTCTGAGACATGGCATCAGC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGC
55954585 TTGTTGAGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
46 71 0.66
47 4 0.04
48 25 0.23
49 7 0.07
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGA
Found at i:55956645 original size:20 final size:20
Alignment explanation
Indices: 55956620--55956666 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
55956610 GTTATAAGTT
*
55956620 TATATATGTGAATAATTTGA
1 TATATATATGAATAATTTGA
* *
55956640 TATATATATGATTATTTTGA
1 TATATATATGAATAATTTGA
55956660 TGATATA
1 T-ATATA
55956667 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (20 bp):
TATATATATGAATAATTTGA
Found at i:55957091 original size:50 final size:50
Alignment explanation
Indices: 55957010--55957403 Score: 400
Period size: 50 Copynumber: 7.9 Consensus size: 50
55957000 TTCATTGTGA
* *
55957010 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* ** * * *
55957060 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * ** * *
55957111 ATCACATGTGTAGTACTAAGTGCAGGTTACTACATGTATCAGATTGTTAAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGAT-AG
* *
55957162 G-CACGTGTTTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * *
55957211 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * *
55957262 ATCACATGTGTAGTACTAAGTGCATGCTACTATGGGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* ** *
55957312 GTCACGTGTGTAGTACTAA-TGCAGGCTACTACATGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * *
55957361 GTCACATGTTTAGTACTAAGTGCAGGTTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
55957404 GAGCTTCGGT
Statistics
Matches: 271, Mismatches: 64, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
49 47 0.17
50 147 0.54
51 74 0.27
52 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:55957191 original size:101 final size:100
Alignment explanation
Indices: 55957011--55957403 Score: 393
Period size: 101 Copynumber: 3.9 Consensus size: 100
55957001 TCATTGTGAG
* * *
55957011 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTAC
* *
55957076 TAAGTGCAGGCTACTATGCATACCCG-TTAACTTCGA
66 TAAGTGCAGGCTACTATGCATACCAGATTAA--TAGA
* * * * *
55957112 TCACATGTGTAGTACTAAGTGCAGGTTACTACATGTATCAGATTGTTAAGG-CACGTGTTTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGAT-AGGTCACATGTGTAGTA
** * *
55957176 CTAAGTGCAGGCTACTATGTGTACCAGATTGATAGG
65 CTAAGTGCAGGCTACTATGCATACCAGATTAATAGA
* *** * * * *
55957212 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGATCACATGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGA--TAGGTCACATGTGTAGT
* ** * *
55957276 ACTAAGTGCATGCTACTATGGGTATCAGATGGTTA-AG-
64 ACTAAGTGCAGGCTACTATGCATACCAGAT--TAATAGA
* * *
55957313 TCACGTGTGTAGTACTAA-TGCAGGCTACTACATGTACTAGATTGATAGGTCACATGTTTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTAC
* *
55957377 TAAGTGCAGGTTACTATGCGTACCAGA
66 TAAGTGCAGGCTACTATGCATACCAGA
55957404 GAGCTTCGGT
Statistics
Matches: 238, Mismatches: 46, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
99 41 0.17
100 54 0.23
101 133 0.56
102 8 0.03
103 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCAGATTAATAGA
Found at i:55957293 original size:151 final size:151
Alignment explanation
Indices: 55957012--55957400 Score: 627
Period size: 151 Copynumber: 2.6 Consensus size: 151
55957002 CATTGTGAGT
55957012 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* *
55957077 AAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGTTACT
66 AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACT
* *
55957142 ACATGTATCAGATTGTTAAGG
131 ACAGGTATCAGATGGTTAAGG
* *
55957163 CACGTGTTTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* *
55957228 AAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGTACTAAGTGCATGCTACT
66 AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACT
** *
55957293 ATGGGTATCAGATGGTTAAGT
131 ACAGGTATCAGATGGTTAAGG
* * * *
55957314 CACGTGTGTAGTACTAA-TGCAGGCTACTACATGTACTAGATTGATAGGTCACATGTTTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
*
55957378 AAGTGCAGGTTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
55957401 AGAGAGCTTC
Statistics
Matches: 220, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
150 64 0.29
151 156 0.71
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (151 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACT
ACAGGTATCAGATGGTTAAGG
Found at i:55960599 original size:15 final size:15
Alignment explanation
Indices: 55960579--55960617 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
55960569 TATGATATTG
55960579 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
55960593 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
55960609 TATCTTGGA
1 TATCTTGGA
55960618 GATCCTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:55963230 original size:18 final size:20
Alignment explanation
Indices: 55963194--55963240 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55963184 AGTTGTAAGT
55963194 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
55963214 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
55963233 ATGATATA
1 AT-ATATA
55963241 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:55963660 original size:50 final size:50
Alignment explanation
Indices: 55963585--55963881 Score: 362
Period size: 50 Copynumber: 5.9 Consensus size: 50
55963575 TGATCTGTTG
* *
55963585 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGT
* * * * *
55963635 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGA
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGT
* * * * * **
55963685 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACT
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGT
* * *
55963736 T-TGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGT
1 TAAG-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGT
* * *
55963786 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGT
* * *
55963836 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
55963882 GAGCTTCGGT
Statistics
Matches: 211, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
50 172 0.82
51 39 0.18
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
TAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGT
Found at i:55963868 original size:151 final size:151
Alignment explanation
Indices: 55963589--55963878 Score: 508
Period size: 151 Copynumber: 1.9 Consensus size: 151
55963579 CTGTTGTAAG
* * *
55963589 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAAGTCACATGTGTAGTAC
*
55963654 TAAGTGCAGGCTACTACATGTACTAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
55963719 ATGCGTACCTGTTAACTTTGA
131 ATGCGTACCTGTTAACTTTGA
55963740 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAAGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAAGTCACATGTGTAGTAC
** *
55963805 TAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
*
55963870 ATGTGTACC
131 ATGCGTACC
55963879 AGAGAGCTTC
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 131 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
ATGCGTACCTGTTAACTTTGA
Found at i:55963874 original size:26 final size:26
Alignment explanation
Indices: 55963794--55963876 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
55963784 GTTAAGTCAC
55963794 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * *
55963820 A--TGT-GTACCAGATTGATAGG-T-CGC
1 ATGTGTAGTACTA-AGTG-CAGGCTAC-T
55963844 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
55963870 ATGTGTA
1 ATGTGTA
55963877 CCAGAGAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
23 6 0.15
24 8 0.20
25 6 0.15
26 15 0.37
27 6 0.15
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:55964102 original size:16 final size:16
Alignment explanation
Indices: 55964081--55964112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55964071 AGAATGGAGT
55964081 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
55964097 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
55964113 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:55965850 original size:13 final size:13
Alignment explanation
Indices: 55965832--55965857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55965822 ACGGTCAGCC
55965832 CCATGGGCGTGTT
1 CCATGGGCGTGTT
55965845 CCATGGGCGTGTT
1 CCATGGGCGTGTT
55965858 GTTCAACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.38, T:0.31
Consensus pattern (13 bp):
CCATGGGCGTGTT
Found at i:55968263 original size:12 final size:12
Alignment explanation
Indices: 55968246--55968271 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55968236 CATTCCGAAG
55968246 TATATATATACA
1 TATATATATACA
55968258 TATATATATACA
1 TATATATATACA
55968270 TA
1 TA
55968272 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:55968782 original size:27 final size:27
Alignment explanation
Indices: 55968751--55968927 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
55968741 TAAATTGTAC
*
55968751 AGCACTAAGTGTGCGATTTTACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55968778 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55968804 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55968832 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
55968860 AGCACTAAGTGTGCGATTTGA-TACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55968886 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55968913 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55968928 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 24 0.19
27 80 0.63
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55968893 original size:81 final size:81
Alignment explanation
Indices: 55968752--55968906 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
55968742 AAATTGTACA
* * *
55968752 GCACTAAGTGTGCGATTTTACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
55968817 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
55968833 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
55968896 GTGCGAGTTGA
64 GTGCGAATTGA
55968907 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 38 0.58
82 27 0.41
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55968918 original size:81 final size:81
Alignment explanation
Indices: 55968748--55968927 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
55968738 GATTAAATTG
* * *
55968748 TACAGCACTAAGTGTGCGATTTTACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55968813 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
55968829 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55968892 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55968910 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55968928 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 55 0.66
82 27 0.33
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55971333 original size:29 final size:29
Alignment explanation
Indices: 55971288--55971346 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
55971278 CCACACTTAG
* * *
55971288 AAAATTTTTTCATAAAATAGGGGACACAC
1 AAAATTTTTACACAAAACAGGGGACACAC
55971317 AAAATTTTTACACAAAACAGGGGACACAC
1 AAAATTTTTACACAAAACAGGGGACACAC
55971346 A
1 A
55971347 CCCGTGTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (29 bp):
AAAATTTTTACACAAAACAGGGGACACAC
Found at i:55973368 original size:20 final size:21
Alignment explanation
Indices: 55973343--55973387 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
55973333 TAACTTAACA
55973343 AAACTTCTATAA-CTATCATC
1 AAACTTCTATAATCTATCATC
* *
55973363 AAACTTTTATAATCTATCATT
1 AAACTTCTATAATCTATCATC
55973384 AAAC
1 AAAC
55973388 ACTCATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (21 bp):
AAACTTCTATAATCTATCATC
Found at i:55976308 original size:39 final size:39
Alignment explanation
Indices: 55976191--55976399 Score: 323
Period size: 39 Copynumber: 5.3 Consensus size: 39
55976181 GCTCCTCGTT
* *
55976191 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
55976231 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
55976271 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
55976310 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
55976349 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
55976388 CAAATGCCTTCG
1 CAAATGCCTTCG
55976400 AATCTTAGTC
Statistics
Matches: 161, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 113 0.70
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:55976436 original size:78 final size:78
Alignment explanation
Indices: 55976191--55976452 Score: 302
Period size: 78 Copynumber: 3.3 Consensus size: 78
55976181 GCTCCTCGTT
* * * *
55976191 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGAG-CTTAGCCC
* * *
55976254 GGATTTAGTAACTCGCA
62 GGAATTAGTATCTAGCA
*
55976271 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAGCTTAGCCCGGAA
*
55976336 TTAGTATCTCGCA
66 TTAGTATCTAGCA
* *
55976349 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCG-AGCTTAGCCCGGA
55976414 TATT-GTCA-CTTAGCA
65 -ATTAGT-ATC-TAGCA
55976429 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
55976453 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
78 84 0.51
79 58 0.35
80 24 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAGCTTAGCCCGGAA
TTAGTATCTAGCA
Found at i:55984336 original size:39 final size:39
Alignment explanation
Indices: 55984215--55984437 Score: 224
Period size: 39 Copynumber: 5.6 Consensus size: 39
55984205 GCTCCTCGTT
* *
55984215 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * * *
55984255 CAAATGCCTTCCGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTT-CGGGCTTAGCCCGGAATTAGTATCTCGCA
55984295 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
55984334 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
55984373 CAAATGCCTTTGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
55984414 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
55984438 CATCATTCAA
Statistics
Matches: 158, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 93 0.59
40 51 0.32
41 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:55984392 original size:79 final size:79
Alignment explanation
Indices: 55984215--55984437 Score: 233
Period size: 79 Copynumber: 2.8 Consensus size: 79
55984205 GCTCCTCGTT
* * * * * * *
55984215 CAAATGCCTTCGGGACATAGCCCGGTTATAGT-AATTCGCACAAATGCCTTCCGGACTTAACCCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATTGTCACTTCGCACAAATGCCTT-CGGGCTTAGCCCG
*
55984279 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
55984295 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGT-A-TCTCGCACAAATGCCTTCGGGCTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATATT-GTCACT-TCGCACAAATGCCTTCGGGCTTAGCCCG
*
55984357 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * *
55984373 CAAATGCCTTTGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATTGTCACTTCGCACAAATGCCTTCGGG-CTTAGCCCG
55984436 GA
64 GA
55984438 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 48 0.39
79 52 0.42
80 23 0.19
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATTGTCACTTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:55988161 original size:27 final size:27
Alignment explanation
Indices: 55988128--55988183 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
55988118 CGGTAAGTTT
*
55988128 ATTTTCCATTATATGAACTTACTAAGC
1 ATTTTCCATTATACGAACTTACTAAGC
55988155 ATTTTCCATTATACGAACTTACTAAGC
1 ATTTTCCATTATACGAACTTACTAAGC
55988182 AT
1 AT
55988184 AAAATACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (27 bp):
ATTTTCCATTATACGAACTTACTAAGC
Found at i:55990432 original size:27 final size:27
Alignment explanation
Indices: 55990385--55990458 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
55990375 TTTAGAGTGT
* * *
55990385 GCCACAAAGACATTCC-CTTCATAGATC
1 GCCACAAAGGC-TTCCTTTTCAAAGATC
* *
55990412 GCCCCGAAGGCTTCCTTTTCAAAGATC
1 GCCACAAAGGCTTCCTTTTCAAAGATC
*
55990439 GCCACAAAGGCTTTCTTTTC
1 GCCACAAAGGCTTCCTTTTC
55990459 CTGGCGTGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTCAAAGATC
Found at i:56012278 original size:7 final size:7
Alignment explanation
Indices: 56012266--56012338 Score: 128
Period size: 7 Copynumber: 10.4 Consensus size: 7
56012256 AGTGATTTTC
56012266 CCCTAAA
1 CCCTAAA
56012273 CCCTAAA
1 CCCTAAA
56012280 CCCTAAA
1 CCCTAAA
*
56012287 CTCTAAA
1 CCCTAAA
56012294 CCCTAAA
1 CCCTAAA
56012301 CCCTAAA
1 CCCTAAA
56012308 CCCTAAA
1 CCCTAAA
*
56012315 CTCTAAA
1 CCCTAAA
56012322 CCCTAAA
1 CCCTAAA
56012329 CCCTAAA
1 CCCTAAA
56012336 CCC
1 CCC
56012339 GCACCAACTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.41, C:0.42, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAA
Found at i:56012306 original size:28 final size:28
Alignment explanation
Indices: 56012266--56012338 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
56012256 AGTGATTTTC
56012266 CCCTAAACCCTAAACCCTAAACTCTAAA
1 CCCTAAACCCTAAACCCTAAACTCTAAA
56012294 CCCTAAACCCTAAACCCTAAACTCTAAA
1 CCCTAAACCCTAAACCCTAAACTCTAAA
56012322 CCCTAAACCCTAAACCC
1 CCCTAAACCCTAAACCC
56012339 GCACCAACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.41, C:0.42, G:0.00, T:0.16
Consensus pattern (28 bp):
CCCTAAACCCTAAACCCTAAACTCTAAA
Found at i:56019407 original size:3 final size:3
Alignment explanation
Indices: 56019399--56019431 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
56019389 GTAGAAAAAG
56019399 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
56019432 TTTGGCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:56023878 original size:23 final size:22
Alignment explanation
Indices: 56023829--56023878 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
56023819 TTTCTTAAAG
*
56023829 GTTTAATTATGTTTTAAAGAAT
1 GTTTTATTATGTTTTAAAGAAT
*
56023851 TTTTTATTATGTTCTTAAATG-AT
1 GTTTTATTATGTT-TTAAA-GAAT
56023874 GTTTT
1 GTTTT
56023879 CTTAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 11 0.48
24 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (22 bp):
GTTTTATTATGTTTTAAAGAAT
Found at i:56024623 original size:21 final size:20
Alignment explanation
Indices: 56024583--56024623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56024573 TTCTTTAGCT
*
56024583 TAGAAACAATTCTTTTAAAA
1 TAGAAACAATTCTATTAAAA
*
56024603 TAGAAGCAATTCCTATTAAAA
1 TAGAAACAATT-CTATTAAAA
56024624 ATTTATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
TAGAAACAATTCTATTAAAA
Found at i:56028845 original size:18 final size:18
Alignment explanation
Indices: 56028822--56028860 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
56028812 CTAATTACTC
56028822 TTTT-AAATTTTATATTAA
1 TTTTAAAATTTTATA-TAA
56028840 TTTTAAAATTTTATATAA
1 TTTTAAAATTTTATATAA
56028858 TTT
1 TTT
56028861 ATATTGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTTTATATAA
Found at i:56029129 original size:16 final size:16
Alignment explanation
Indices: 56029108--56029140 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56029098 TATTTTAAAC
56029108 CAGATCAATGATTGAA
1 CAGATCAATGATTGAA
56029124 CAGATCAATGATTGAA
1 CAGATCAATGATTGAA
56029140 C
1 C
56029141 CGATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (16 bp):
CAGATCAATGATTGAA
Found at i:56029642 original size:20 final size:18
Alignment explanation
Indices: 56029604--56029642 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
56029594 TAATATTAAT
*
56029604 TTATTAAATATATATTTG
1 TTATTAAATATAAATTTG
56029622 TTATTAATATAATAAATTTG
1 TTATTAA-AT-ATAAATTTG
56029642 T
1 T
56029643 GCATCGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTATTAAATATAAATTTG
Found at i:56032978 original size:66 final size:66
Alignment explanation
Indices: 56032872--56032996 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
56032862 TGATGAGCTT
* * *
56032872 AAAATGAGATGAAGCATATTCTTGCTTTACAATTCAATTCAAACACGTAAGTACAATACCGAGGG
1 AAAATAAGATGAAGCATATTCTTGCTTGACAATTCAATTCAAACACATAAGTACAATACCGAGGG
56032937 A
66 A
* * * *
56032938 AAAATAAGATGAGGTATATTCTTGCCTTGA-AATTCAATTCAAACCCATAATTACAATAC
1 AAAATAAGATGAAGCATATTCTTG-CTTGACAATTCAATTCAAACACATAAGTACAATAC
56032997 TAAGGGAACC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 47 0.92
67 4 0.08
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (66 bp):
AAAATAAGATGAAGCATATTCTTGCTTGACAATTCAATTCAAACACATAAGTACAATACCGAGGG
A
Found at i:56034053 original size:24 final size:24
Alignment explanation
Indices: 56034026--56034072 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
56034016 GGGCTTGGAT
*
56034026 TGGGATAAATATAAAATTGGTATA
1 TGGGATAAATATAAAATTAGTATA
*
56034050 TGGGTTAAATATAAAATTAGTAT
1 TGGGATAAATATAAAATTAGTAT
56034073 TTAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (24 bp):
TGGGATAAATATAAAATTAGTATA
Found at i:56035244 original size:15 final size:15
Alignment explanation
Indices: 56035216--56035247 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
56035206 AGATAAGGGT
56035216 AGGAAAAAGAAAAAA
1 AGGAAAAAGAAAAAA
56035231 AGGAGAAAAGAAAAAA
1 AGGA-AAAAGAAAAAA
56035247 A
1 A
56035248 ATGATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGGAAAAAGAAAAAA
Found at i:56035277 original size:21 final size:19
Alignment explanation
Indices: 56035218--56035263 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
56035208 ATAAGGGTAG
*
56035218 GAAAAAG-AAAAAAAGGA-
1 GAAAAAGAAAAAAAATGAT
56035235 G-AAAAGAAAAAAAATGAT
1 GAAAAAGAAAAAAAATGAT
56035253 GAAAAAGAAAA
1 GAAAAAGAAAA
56035264 TAGAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 1 0.04
19 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (19 bp):
GAAAAAGAAAAAAAATGAT
Found at i:56041432 original size:28 final size:29
Alignment explanation
Indices: 56041392--56041457 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
56041382 ATTGCATGAC
*
56041392 TATGAATATGA-TTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
56041420 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
56041449 TATGTATGT
1 TATGAATGT
56041458 ATGTAGACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:56044661 original size:27 final size:27
Alignment explanation
Indices: 56044617--56044997 Score: 103
Period size: 27 Copynumber: 14.1 Consensus size: 27
56044607 TATTGAAATG
* *
56044617 CCCTCAAATTGTAAAATTACCAAAGTA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * ****
56044644 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAAAGTA
****
56044671 CCCTCAATTTATAAAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAAAGTA
** * * *****
56044698 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * * * *
56044725 CCCTCGATTTACAAAATCACTAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* *** * *
56044752 CCATTGGTTTACAAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * * *
56044779 CCTTCGA-TCAGTAAAATTACCAAAATA
1 CCCTCAATTTA-TAAAATTACCAAAGTA
* * * * *
56044806 CCCT-AGTATATAAAATTGCTAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
** *
56044832 CCCAT-GGTTTGTAAAATTACCGAAA-TA
1 CCC-TCAATTTATAAAATTACC-AAAGTA
* *
56044859 CCCTCAATTTATCAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * *
56044886 CCC-CTAGTTTGTAAAATTACCAAAATA
1 CCCTC-AATTTATAAAATTACCAAAGTA
** * * *
56044913 CCACT-GGTTTGTGAAATTA-CAGAAATA
1 CC-CTCAATTTATAAAATTACCA-AAGTA
* * *
56044940 CCTTCAATTTGTAAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * *
56044967 CCC-CTAATTTACAAAATTACAAAAATA
1 CCCTC-AATTTATAAAATTACCAAAGTA
56044994 CCCT
1 CCCT
56044998 TGACTTTCTA
Statistics
Matches: 279, Mismatches: 61, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
26 28 0.10
27 245 0.88
28 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
CCCTCAATTTATAAAATTACCAAAGTA
Found at i:56044676 original size:54 final size:54
Alignment explanation
Indices: 56044617--56044729 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
56044607 TATTGAAATG
* *
56044617 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
* **** * *
56044671 CCCTCAATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
56044725 CCCTC
1 CCCTC
56044730 GATTTACAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (54 bp):
CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
Found at i:56044763 original size:54 final size:54
Alignment explanation
Indices: 56044629--56044772 Score: 135
Period size: 54 Copynumber: 2.7 Consensus size: 54
56044619 CTCAAATTGT
* * * * * *
56044629 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAT
1 AAAATCACCAAAATACCATTGATTTACAGAATTACCGTTTTACCCTCAATTTAC
* **** * * *
56044683 AAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATCACCAAAATACCATTGATTTACAGAATTACCGTTTTACCCTCAATTTAC
* * *
56044737 AAAATCACTAAAATACCATTGGTTTACAAAATTACC
1 AAAATCACCAAAATACCATTGATTTACAGAATTACC
56044773 AAAATACCTT
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (54 bp):
AAAATCACCAAAATACCATTGATTTACAGAATTACCGTTTTACCCTCAATTTAC
Found at i:56044808 original size:81 final size:79
Alignment explanation
Indices: 56044723--56044995 Score: 264
Period size: 81 Copynumber: 3.4 Consensus size: 79
56044713 ATTACTGTTT
* ** * *
56044723 TACCCTCGATTTACAAAATCACTAAAATACCATTGGTTTACAAAATTACCAAAATACCTTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCA-TGGTTTGTAAAATTACCAAAATACCTTCAATT
56044788 AGTAAAATTACCAAAA
64 AGTAAAATTACCAAAA
* * * * * *
56044804 TA-CCCTAGTATATAAAATTGCTAAAATACCCATGGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATA-CCATGGTTTGTAAAATTACCAAAATACCTTCAA-T
*
56044868 TA-TCAAATTACCAAAA
63 TAGTAAAATTACCAAAA
* ** * *
56044884 TACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTA-CAGAAATACCTTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCA-TGGTTTGTAAAATTACCA-AAATACCTTCAAT
*
56044948 TTGTAAAATTACCAAAA
63 TAGTAAAATTACCAAAA
* *
56044965 TACCCCTAATTTACAAAATTACAAAAATACC
1 TACCCC-GATTTACAAAATTACTAAAATACC
56044996 CTTGACTTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.01
80 64 0.40
81 92 0.58
82 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACTAAAATACCATGGTTTGTAAAATTACCAAAATACCTTCAATTAG
TAAAATTACCAAAA
Found at i:56044897 original size:54 final size:53
Alignment explanation
Indices: 56044789--56044996 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 53
56044779 CCTTCGATCA
* * * * * *
56044789 GTAAAATTACCAAAATACCCTAGTATATAAAATTGCTAAAATACCCATGGTTT
1 GTAAAATTACCAAAATACCCTAATTTATCAAATTACCAAAATACCCATAGTTT
* *
56044842 GTAAAATTACCGAAATACCCTCAATTTATCAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCT-AATTTATCAAATTACCAAAATACCCATAGTTT
** * *
56044896 GTAAAATTACCAAAATACCACTGGTTTGTGAAATTA-CAGAAATACCTTCA-A-TTT
1 GTAAAATTACCAAAATACC-CTAATTTATCAAATTACCA-AAATACC--CATAGTTT
*
56044950 GTAAAATTACCAAAATACCCCTAATTTA-CAAAATTACAAAAATACCC
1 GTAAAATTACCAAAATA-CCCTAATTTATC-AAATTACCAAAATACCC
56044997 TTGACTTTCT
Statistics
Matches: 128, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 22 0.17
54 98 0.77
55 6 0.05
56 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTAATTTATCAAATTACCAAAATACCCATAGTTT
Found at i:56045048 original size:27 final size:27
Alignment explanation
Indices: 56044723--56045058 Score: 175
Period size: 27 Copynumber: 12.4 Consensus size: 27
56044713 ATTACTGTTT
* * * *
56044723 TACCCTCGATTTACAAAATCACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
56044750 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
56044777 TA-CCTTCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * * * *
56044804 TACCC-TAGTATATAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** *
56044830 TACCCATGGTTTGTAAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
***
56044857 TACCCTCAATTTATC-AAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * **
56044884 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
***
56044911 TACCAC-TGGTTTGTGAAATTA-CAGAAA
1 TACC-CTTGGTTTACAAAATTACCA-AAA
** **
56044938 TA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GGTTTACAAAATTACCAAAA
* ** *
56044965 TACCCCTAATTTACAAAATTACAAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
56044992 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* *
56045021 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
56045048 TACCCTTGGTT
1 TACCCTTGGTT
56045059 AGTAGATTTA
Statistics
Matches: 242, Mismatches: 50, Indels: 34
0.74 0.15 0.10
Matches are distributed among these distances:
25 1 0.00
26 27 0.11
27 179 0.74
28 17 0.07
29 18 0.07
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:56045144 original size:27 final size:27
Alignment explanation
Indices: 56045114--56045173 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
56045104 CCCCTAATAC
56045114 GTAAAAAGACCGTAA-AGCCCCTGTAGG
1 GTAAAAAGACCGTAATA-CCCCTGTAGG
** *
56045141 GTAAAGTGACCGTAATACCCCTGTATG
1 GTAAAAAGACCGTAATACCCCTGTAGG
56045168 GTAAAA
1 GTAAAA
56045174 TGATGAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GTAAAAAGACCGTAATACCCCTGTAGG
Found at i:56046016 original size:26 final size:26
Alignment explanation
Indices: 56045987--56046110 Score: 146
Period size: 26 Copynumber: 4.8 Consensus size: 26
56045977 GAGGAAGTGC
* **
56045987 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56046013 AAAAGCGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
56046039 AAAA-GGCATTATGCCCCAGTTTATTG
1 AAAAGGGC-TTATGCCCCAGTTTACCG
* *
56046065 AAAAGGTC-TCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
56046090 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
56046111 GCCTCCAGAT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
25 34 0.41
26 47 0.57
27 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:56046065 original size:52 final size:51
Alignment explanation
Indices: 56045987--56046110 Score: 182
Period size: 52 Copynumber: 2.4 Consensus size: 51
56045977 GAGGAAGTGC
*
56045987 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGCG-CTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GTC-TATGCCCCAGTTTACCG
*
56046039 AAAA-GGCATTATGCCCCAGTTTATTGAAAAGGTCTCTGCCCCAGTTTACCG
1 AAAAGGGC-TTATGCCCCAGTTTATTGAAAAGGTCTATGCCCCAGTTTACCG
56046090 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
56046111 GCCTCCAGAT
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
50 11 0.16
51 26 0.39
52 30 0.45
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGTCTATGCCCCAGTTTACCG
Found at i:56048635 original size:27 final size:27
Alignment explanation
Indices: 56048605--56048662 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
56048595 AATTGTAAAG
56048605 TTACCAAAGTACCCTCAATTTATAGAA
1 TTACCAAAGTACCCTCAATTTATAGAA
**** *
56048632 TTACCGTTTTACCCTCGATTTATAGAA
1 TTACCAAAGTACCCTCAATTTATAGAA
56048659 TTAC
1 TTAC
56048663 TGTTTTACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
TTACCAAAGTACCCTCAATTTATAGAA
Found at i:56048667 original size:27 final size:27
Alignment explanation
Indices: 56048614--56048717 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 27
56048604 GTTACCAAAG
* *
56048614 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
56048641 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
56048668 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
56048695 TACCCTCGATTTATTA-AATTACT
1 TACCCTCGATTTA-TAGAATTACT
56048718 AAAATACCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:56048725 original size:27 final size:27
Alignment explanation
Indices: 56048695--56048969 Score: 114
Period size: 27 Copynumber: 10.2 Consensus size: 27
56048685 ATTACTGTTT
** *
56048695 TACCCTCGATTTATTAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
56048722 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
56048749 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * * ** * *
56048776 TACCTTAG-TCTGTAAAATTTCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* ** *
56048802 TACCC-CTAGTTTGTAAAATTA-TAGAAA
1 TACCCTCGA-TTTACAAAATTACCA-AAA
* * **
56048829 TACCCGCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
56048856 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** * *
56048883 TACCAC-AGGTTTGTGAAATTATCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* **
56048910 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
**
56048937 TACCC-CTGATTTACAAAATTACGGAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
56048964 TACCCT
1 TACCCT
56048970 TGACTTTCTA
Statistics
Matches: 195, Mismatches: 41, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
26 24 0.12
27 167 0.86
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:56048726 original size:54 final size:54
Alignment explanation
Indices: 56048622--56048744 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
56048612 AGTACCCTCA
* ****
56048622 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAAAATACCCTTG
*
56048676 ATTTACAGAATTACTGTTTTACCCTCGATTTATTA-AATTACTAAAATACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTA-TAGAATTACTAAAATACCCTTG
* *
56048730 GTTTACAAAATTACC
1 ATTTACAGAATTACC
56048745 AAAATACCCT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (54 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAAAATACCCTTG
Found at i:56048753 original size:54 final size:55
Alignment explanation
Indices: 56048695--56049054 Score: 236
Period size: 54 Copynumber: 6.7 Consensus size: 55
56048685 ATTACTGTTT
* * *
56048695 TACCCTCGA-TTTATTAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
** * * ** * *
56048749 TACCCTCGA-TCAGTAAAATTACCAAAATA-CCTTAGTCTGTAAAATTTCTAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * **** **
56048802 TACCC-CTAGTTTGTAAAATTA-TAGAAATACCCGCAATTTGTAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
* * *** * *
56048856 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-AGGTTTGTGAAATTATCGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAA
* * * **
56048910 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACGGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * * * **
56048964 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGAGTTTGT-AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
* * * *
56049020 TACCCTTG-GTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTG
56049055 TAGGATGAAA
Statistics
Matches: 244, Mismatches: 51, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
52 3 0.01
53 39 0.16
54 147 0.60
55 14 0.06
56 41 0.17
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (55 bp):
TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:56048801 original size:26 final size:27
Alignment explanation
Indices: 56048736--56048943 Score: 176
Period size: 27 Copynumber: 7.7 Consensus size: 27
56048726 CTTGGTTTAC
* *
56048736 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTAG-TCTGT
*
56048763 AAAATTACCAAAATA-CCTTAGTCTGT
1 AAAATTACCAAAATACCCCTAGTCTGT
* * *
56048789 AAAATTTCTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTCTGT
* * *
56048816 AAAATTA-TAGAAATACCCGC-AATTTGT
1 AAAATTACCA-AAATACCC-CTAGTCTGT
*
56048843 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTCTGT
* *
56048870 AAAATTACCAAAATACCAC-AGGTTTGT
1 AAAATTACCAAAATACCCCTA-GTCTGT
* * * * *
56048897 GAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTCTGT
56048924 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
56048944 GATTTACAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
26 23 0.15
27 122 0.80
28 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTCTGT
Found at i:56048902 original size:81 final size:81
Alignment explanation
Indices: 56048761--56048943 Score: 271
Period size: 81 Copynumber: 2.3 Consensus size: 81
56048751 CCCTCGATCA
* * * *
56048761 GTAAAATTACCAAAATA-CCTTAGTCTGTAAAATTTCTAAAATACCCCTAGTTTGTAAAATTATA
1 GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATA
56048825 GAAATACCCGCAATTT
66 GAAATACCCGCAATTT
* *
56048841 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-AGGTTTGTGAAATTAT
1 GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTA-GTTTGTAAAATTAT
* *
56048905 CGAAATACCCTCAATTT
65 AGAAATACCCGCAATTT
56048922 GTAAAATTACCAAAATACCCCT
1 GTAAAATTACCAAAATACCCCT
56048944 GATTTACAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 18 0.19
81 75 0.81
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATA
GAAATACCCGCAATTT
Found at i:56048955 original size:81 final size:81
Alignment explanation
Indices: 56048761--56048967 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 81
56048751 CCCTCGATCA
* * ** * * *
56048761 GTAAAATTACCAAAATA-CCTTAGTCTGTAAAATTTCTAAAATACCCCTA-GTTTGTAAAATTAT
1 GTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCAC-AGGTTTGTAAAATTAT
56048824 AGAAATACCCGCAATTT
65 AGAAATACCCGCAATTT
** * *
56048841 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACAGGTTTGTGAAATTATC
1 GTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACAGGTTTGTAAAATTATA
*
56048906 GAAATACCCTCAATTT
66 GAAATACCCGCAATTT
**
56048922 GTAAAATTACCAAAATACCCCT-GATTTACAAAATTACGGAAATACC
1 GTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACCAAAATACC
56048968 CTTGACTTTC
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 19 0.17
81 93 0.83
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACAGGTTTGTAAAATTATA
GAAATACCCGCAATTT
Found at i:56049019 original size:27 final size:27
Alignment explanation
Indices: 56048924--56049031 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
56048914 CTCAATTTGT
** * *
56048924 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
56048951 AAAATTACGGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
56048978 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
56049007 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
56049032 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:56049115 original size:27 final size:27
Alignment explanation
Indices: 56049072--56049145 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
56049062 AAATGACTAA
*
56049072 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
56049099 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
56049126 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
56049146 TGATGAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:56049987 original size:26 final size:26
Alignment explanation
Indices: 56049957--56050080 Score: 171
Period size: 26 Copynumber: 4.8 Consensus size: 26
56049947 GAGGAAGTGC
**
56049957 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56049983 AAAAGGGTTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
56050009 AAAAGGCCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56050035 AAAAGGGC-TCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
56050060 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
56050081 GCCTCCAGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
25 33 0.38
26 53 0.62
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:56050014 original size:52 final size:51
Alignment explanation
Indices: 56049957--56050080 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
56049947 GAGGAAGTGC
*
56049957 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGG-CTATGCCCCAGTTTACCG
* *
56050009 AAAAGGCCTTATGCCCCAGTTTATTGAAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTATGCCCCAGTTTACCG
56050060 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
56050081 GCCTCCAGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 11 0.16
51 25 0.37
52 32 0.47
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTATGCCCCAGTTTACCG
Found at i:56050269 original size:42 final size:41
Alignment explanation
Indices: 56050211--56050297 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 41
56050201 TAGTCTCCCA
* ** *
56050211 AAATAGGTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATAGGTTGCATACATCCATTGACATTACATATGATATTG
*
56050252 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGG-TTGCATACATCCATTGACATTACATATGATATTG
56050294 AAAT
1 AAAT
56050298 GGGCCTATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 7 0.17
42 33 0.82
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (41 bp):
AAATAGGTTGCATACATCCATTGACATTACATATGATATTG
Found at i:56056445 original size:20 final size:20
Alignment explanation
Indices: 56056420--56056458 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
56056410 GTTGACTACG
56056420 AGATGGTACAGGTACGTACA
1 AGATGGTACAGGTACGTACA
56056440 AGATGGTACAGGTACGTAC
1 AGATGGTACAGGTACGTAC
56056459 GATAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
AGATGGTACAGGTACGTACA
Found at i:56059492 original size:22 final size:22
Alignment explanation
Indices: 56059464--56059505 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
56059454 ACCATCTGGG
56059464 TAAGGCTAATGTGGTAGCTAGA
1 TAAGGCTAATGTGGTAGCTAGA
56059486 TAAGGCTAATGTGGTAGCTA
1 TAAGGCTAATGTGGTAGCTA
56059506 ATGCCCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (22 bp):
TAAGGCTAATGTGGTAGCTAGA
Found at i:56064075 original size:42 final size:42
Alignment explanation
Indices: 56064016--56064100 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
56064006 GAAAGATATG
56064016 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
1 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
*
56064058 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCATTCTCA
1 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
56064100 A
1 A
56064101 CTCTGACTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.41
Consensus pattern (42 bp):
ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
Found at i:56067347 original size:37 final size:37
Alignment explanation
Indices: 56067297--56067375 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56067287 TTATTACGAA
* * *
56067297 GTCTTACCCGGACATAATCTACACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
* *
56067334 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
56067371 GTCTT
1 GTCTT
56067376 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
Found at i:56067581 original size:47 final size:47
Alignment explanation
Indices: 56067494--56067941 Score: 662
Period size: 47 Copynumber: 9.4 Consensus size: 47
56067484 CCTTTCGGGA
* * * * * * * *
56067494 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56067541 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56067588 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56067635 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56067682 CTTATTACATATATACACTTTCACATTCATCACCTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56067729 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56067776 CTCATCACACATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56067823 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
56067874 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
56067923 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56067942 CTCTAGGCTG
Statistics
Matches: 370, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 272 0.74
49 56 0.15
51 42 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56071176 original size:40 final size:40
Alignment explanation
Indices: 56071131--56071406 Score: 279
Period size: 40 Copynumber: 6.9 Consensus size: 40
56071121 CGAATACACG
* * * * *
56071131 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
56071171 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
56071211 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
56071251 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
**
56071291 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * **
56071331 GTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
* *
56071372 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
56071407 CATCATTCGA
Statistics
Matches: 200, Mismatches: 33, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
40 184 0.92
41 16 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:56071756 original size:29 final size:28
Alignment explanation
Indices: 56071722--56071795 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
56071712 TAATCAACCA
*
56071722 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
*
56071750 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
56071779 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
56071796 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:56071842 original size:43 final size:43
Alignment explanation
Indices: 56071781--56071965 Score: 343
Period size: 43 Copynumber: 4.3 Consensus size: 43
56071771 TTTCAAGCCT
56071781 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
1 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
* *
56071824 GCACACTTAGTGCCAATCTCACAACTGCGAACACTTATTGCCC
1 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
56071867 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
1 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
*
56071910 GCACACTTAGTGCCCATCTCACAACCGTGAACACTTATTGCCC
1 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
56071953 GCACACTTAGTGC
1 GCACACTTAGTGC
56071966 TGAAAACCAA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 137 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
Found at i:56073865 original size:37 final size:37
Alignment explanation
Indices: 56073815--56073893 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56073805 TTATTACGAA
* * *
56073815 GTCTTACCCGGACATAATCTCCACACGAAGTTATAGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
* *
56073852 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
56073889 GTCTT
1 GTCTT
56073894 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
Found at i:56074099 original size:47 final size:47
Alignment explanation
Indices: 56074012--56074510 Score: 710
Period size: 47 Copynumber: 10.4 Consensus size: 47
56074002 CCTTTCGGGA
* * * * * * * *
56074012 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56074059 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56074106 CTTAACACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56074153 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56074200 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56074247 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
56074294 CTCATCACACATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56074341 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
56074392 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
56074443 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
56074492 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56074511 CTCTTGGCTG
Statistics
Matches: 416, Mismatches: 30, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
47 268 0.64
48 1 0.00
49 60 0.14
50 1 0.00
51 86 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56079765 original size:23 final size:24
Alignment explanation
Indices: 56079732--56079819 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
56079722 CCGTTACATT
56079732 GCTCTTTGTGAGCTTCCTGATA-G
1 GCTCTTTGTGAGCTTCCTGATATG
* *
56079755 GCTCTTCGTGAGCTTCTTGATATG
1 GCTCTTTGTGAGCTTCCTGATATG
* * **
56079779 GTTCTTTGTGAACTTCCCAATAATG
1 GCTCTTTGTGAGCTTCCTGAT-ATG
*
56079804 GCTC-TTATGAGCTTCC
1 GCTCTTTGTGAGCTTCC
56079820 CGTTATATAG
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
23 20 0.38
24 26 0.50
25 6 0.12
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.40
Consensus pattern (24 bp):
GCTCTTTGTGAGCTTCCTGATATG
Found at i:56085380 original size:16 final size:16
Alignment explanation
Indices: 56085359--56085390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56085349 GATGTAACGC
*
56085359 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
56085375 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
56085391 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Done.