Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 138 of 226
Found at i:46138420 original size:16 final size:16
Alignment explanation
Indices: 46138399--46138429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46138389 GGAGAGAAAT
46138399 AAACAATAAAATAATC
1 AAACAATAAAATAATC
*
46138415 AAACAATCAAATAAT
1 AAACAATAAAATAAT
46138430 AAATACGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
AAACAATAAAATAATC
Found at i:46150552 original size:15 final size:15
Alignment explanation
Indices: 46150532--46150563 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
46150522 TTTTGGAAAC
46150532 TTTTCACAAGTTACA
1 TTTTCACAAGTTACA
46150547 TTTTCACAAGTTACA
1 TTTTCACAAGTTACA
46150562 TT
1 TT
46150564 CACACGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (15 bp):
TTTTCACAAGTTACA
Found at i:46150567 original size:13 final size:14
Alignment explanation
Indices: 46150533--46150567 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
46150523 TTTGGAAACT
46150533 TTTCACAAGTTACA
1 TTTCACAAGTTACA
46150547 TTTTCACAAGTTACA
1 -TTTCACAAGTTACA
46150562 -TTCACA
1 TTTCACA
46150568 CGTTTAGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (14 bp):
TTTCACAAGTTACA
Found at i:46158767 original size:20 final size:18
Alignment explanation
Indices: 46158744--46158794 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
46158734 ATAGTTAAAA
*
46158744 TATAATTAATTTAAAATTG
1 TATAATTAA-ATAAAATTG
*
46158763 T-TATATGAAATAAAATTG
1 TATA-ATTAAATAAAATTG
*
46158781 TATAATTTAATAAA
1 TATAATTAAATAAA
46158795 TTAGATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
TATAATTAAATAAAATTG
Found at i:46160937 original size:15 final size:15
Alignment explanation
Indices: 46160904--46160946 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
46160894 GTAAAGAGGG
46160904 AAAAGCAAAAGG-AA
1 AAAAGCAAAAGGCAA
*
46160918 AAAAGCAAAAGGCCA
1 AAAAGCAAAAGGCAA
46160933 AAAAGCAAAAGGCA
1 AAAAGCAAAAGGCA
46160947 GAAGGGTGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.65, C:0.14, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAGCAAAAGGCAA
Found at i:46175953 original size:43 final size:42
Alignment explanation
Indices: 46175906--46176086 Score: 249
Period size: 43 Copynumber: 4.2 Consensus size: 42
46175896 GACTAATACA
46175906 TTTAGCGGCGTTTTTCG-TAAAAGCGCCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTCGCT--AAGCGCCGCTATAGATCAAGGTC
* *
46175949 TTTAGTGGCGTTTTTGCGCTAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTT-CGCTAAGCGCCGCTATAGATCAAGGTC
*
46175992 TTTAGCGGCGTTTTT-GGTAAAAGCGCCGCTATAGATCAAGGTC
1 TTTAGCGGCGTTTTTCGCT--AAGCGCCGCTATAGATCAAGGTC
* * *
46176035 TTTAGTGGCGTTTTGCGCTAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTCGCTAAGCGCCGCTATAGATCAAGGTC
46176077 TTTAGCGGCG
1 TTTAGCGGCG
46176087 NNNNNNNNNN
Statistics
Matches: 123, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.25
43 85 0.69
44 4 0.03
45 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTCGCTAAGCGCCGCTATAGATCAAGGTC
Found at i:46175998 original size:86 final size:85
Alignment explanation
Indices: 46175906--46176086 Score: 344
Period size: 86 Copynumber: 2.1 Consensus size: 85
46175896 GACTAATACA
46175906 TTTAGCGGCGTTTTTCGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTTGCGCTAA
1 TTTAGCGGCGTTTTTCGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCG-TTTTGCGCTAA
46175971 GCGCCGCTATAGATCAGGGTC
65 GCGCCGCTATAGATCAGGGTC
*
46175992 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTGCGCTAAG
1 TTTAGCGGCGTTTTTCGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTGCGCTAAG
46176057 CGCCGCTATAGATCAGGGTC
66 CGCCGCTATAGATCAGGGTC
46176077 TTTAGCGGCG
1 TTTAGCGGCG
46176087 NNNNNNNNNN
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 42 0.45
86 52 0.55
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTCGTAAAAGCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTTGCGCTAAG
CGCCGCTATAGATCAGGGTC
Found at i:46182281 original size:9 final size:9
Alignment explanation
Indices: 46182269--46182405 Score: 76
Period size: 9 Copynumber: 16.1 Consensus size: 9
46182259 CAAATTATGC
46182269 TATGTAAGT
1 TATGTAAGT
*
46182278 TATGTATGT
1 TATGTAAGT
** *
46182287 CGTATAAGT
1 TATGTAAGT
46182296 TATGTAAG-
1 TATGTAAGT
46182304 T-TGTAAGT
1 TATGTAAGT
46182312 TATGTAAGT
1 TATGTAAGT
*
46182321 TAT-TTA-T
1 TATGTAAGT
* *
46182328 TATGAAAAT
1 TATGTAAGT
*
46182337 TAAGTAAGT
1 TATGTAAGT
*
46182346 TATGTAATT
1 TATGTAAGT
*
46182355 TACG-AA-T
1 TATGTAAGT
* **
46182362 AAT-TAAAA
1 TATGTAAGT
*
46182370 AATTGTAAGT
1 TA-TGTAAGT
46182380 TATGTAAG-
1 TATGTAAGT
46182388 T-TGTAAGT
1 TATGTAAGT
46182396 TATGTAAGT
1 TATGTAAGT
46182405 T
1 T
46182406 GTANNNNNNN
Statistics
Matches: 95, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
7 20 0.21
8 11 0.12
9 60 0.63
10 4 0.04
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:46182312 original size:16 final size:16
Alignment explanation
Indices: 46182271--46182408 Score: 84
Period size: 16 Copynumber: 8.2 Consensus size: 16
46182261 AATTATGCTA
*
46182271 TGTAAGTTATGTATGT
1 TGTAAGTTATGTAAGT
*
46182287 CGTATAAGTTATGTAAGT
1 --TGTAAGTTATGTAAGT
46182305 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
* * * *
46182321 TATTTA-TTATGAAAAT
1 T-GTAAGTTATGTAAGT
*
46182337 TAAGTAAGTTATGTAATT
1 T--GTAAGTTATGTAAGT
** *
46182355 TACGAATAA-TTA-AAAAAT
1 T--G--TAAGTTATGTAAGT
46182373 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46182389 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
46182405 TGTA
1 TGTA
46182409 NNNNNNNNNN
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
14 3 0.03
15 3 0.03
16 49 0.52
17 5 0.05
18 29 0.31
19 3 0.03
20 3 0.03
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:46182591 original size:31 final size:31
Alignment explanation
Indices: 46182549--46182846 Score: 232
Period size: 31 Copynumber: 9.6 Consensus size: 31
46182539 TAATACTGAG
46182549 TAATTAATTAAGTTATGTAATTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
* *
46182580 TAACTAATTAAGTTATGTAATTTATGAATAAT
1 TAATTAATTAAGTTATGTAATTTATGTAT-AT
** * *
46182612 TAAAAAAATGTAAGTTATGTAAGTTATTTA-AGTT
1 T-AATTAAT-TAAGTTATGTAATTTATGTATA--T
*
46182646 GTAAGTT-ATGTAAG-T-TGTAAGTTATATGTATAA
1 -TAA-TTAAT-TAAGTTATGTAA-TT-TATGTATAT
* *
46182679 T-ATTAATTGCAATTTTTTGTAATTTATGTATCA-
1 TAATTAATT--AA-GTTATGTAATTTATGTAT-AT
*
46182712 T-ATTAATGTAAGTTATGTAACTTATGTATAT
1 TAATTAAT-TAAGTTATGTAATTTATGTATAT
46182743 TAATTAATTAAGTTATGTAATTTATG--TA-
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
46182771 TAA-T-ATT-A---ATGTAATTTATGTATGT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
46182796 TAATTAATTAAGTTATGTAACTTATGTATAT
1 TAATTAATTAAGTTATGTAATTTATGTATAT
*
46182827 TAATTAACTAAGTTATGTAA
1 TAATTAATTAAGTTATGTAA
46182847 CTTNNNNNNN
Statistics
Matches: 217, Mismatches: 21, Indels: 58
0.73 0.07 0.20
Matches are distributed among these distances:
22 12 0.06
24 1 0.00
25 4 0.02
26 4 0.02
27 4 0.02
28 4 0.02
29 2 0.01
30 4 0.02
31 97 0.45
32 20 0.09
33 21 0.10
34 37 0.17
35 7 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (31 bp):
TAATTAATTAAGTTATGTAATTTATGTATAT
Found at i:46182633 original size:9 final size:9
Alignment explanation
Indices: 46182619--46182670 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
46182609 AATTAAAAAA
46182619 ATGTAAGTT
1 ATGTAAGTT
46182628 ATGTAAGTT
1 ATGTAAGTT
*
46182637 ATTTAAG-T
1 ATGTAAGTT
46182645 -TGTAAGTT
1 ATGTAAGTT
46182653 ATGTAAG-T
1 ATGTAAGTT
46182661 -TGTAAGTT
1 ATGTAAGTT
46182669 AT
1 AT
46182671 ATGTATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 11 0.30
8 4 0.11
9 22 0.59
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:46182650 original size:16 final size:16
Alignment explanation
Indices: 46182619--46182670 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
46182609 AATTAAAAAA
46182619 ATGTAAGTTATGTAAGTT
1 ATGTAAG-T-TGTAAGTT
*
46182637 ATTTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
46182653 ATGTAAGTTGTAAGTT
1 ATGTAAGTTGTAAGTT
46182669 AT
1 AT
46182671 ATGTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 25 0.78
17 1 0.03
18 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (16 bp):
ATGTAAGTTGTAAGTT
Found at i:46182721 original size:22 final size:22
Alignment explanation
Indices: 46182696--46182793 Score: 82
Period size: 22 Copynumber: 4.6 Consensus size: 22
46182686 TGCAATTTTT
46182696 TGTAATTTATGTATCATATTAA
1 TGTAATTTATGTATCATATTAA
* * *
46182718 TGTAAGTTATGTAACTTATGTATA
1 TGTAATTTATGTATCATAT-TA-A
* *
46182742 T-TAATTAAT-TA--A-GTT-A
1 TGTAATTTATGTATCATATTAA
*
46182758 TGTAATTTATGTATAATATTAA
1 TGTAATTTATGTATCATATTAA
46182780 TGTAATTTATGTAT
1 TGTAATTTATGTAT
46182794 GTTAATTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
16 2 0.03
17 7 0.12
18 3 0.05
19 1 0.02
20 1 0.02
21 2 0.03
22 33 0.56
23 8 0.14
24 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
TGTAATTTATGTATCATATTAA
Found at i:46182843 original size:53 final size:53
Alignment explanation
Indices: 46182733--46182845 Score: 165
Period size: 53 Copynumber: 2.1 Consensus size: 53
46182723 GTTATGTAAC
* * *
46182733 TTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAT
1 TTATGTATATTAATTAATTAAGTTATGTAACTTATGTATAATATTAATCTAAG
* *
46182786 TTATGTATGTTAATTAATTAAGTTATGTAACTTATGTATATTAATTAA-CTAAG
1 TTATGTATATTAATTAATTAAGTTATGTAACTTATGTATAAT-ATTAATCTAAG
46182839 TTATGTA
1 TTATGTA
46182846 ACTTNNNNNN
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 49 0.91
54 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (53 bp):
TTATGTATATTAATTAATTAAGTTATGTAACTTATGTATAATATTAATCTAAG
Found at i:46182988 original size:27 final size:27
Alignment explanation
Indices: 46182950--46183086 Score: 122
Period size: 27 Copynumber: 5.0 Consensus size: 27
46182940 NNNNNNNNNN
*
46182950 GTAATTTATGTATATTAATTAATTAAT
1 GTAACTTATGTATATTAATTAATTAAT
46182977 GTAACTTATGTATATTAATTAATTAAGTTAT
1 GTAACTTATGTATATTAATTAATT-A---AT
*
46183008 GTAACTTATGTATATTAATTAACTAA-
1 GTAACTTATGTATATTAATTAATTAAT
* *
46183034 GTTA-TGTAAT-T-TATGT-ATCATATTAAT
1 GTAACT-T-ATGTATAT-TAATTA-ATTAAT
*
46183061 GTAATTTATGTATATTAATTAATTAA
1 GTAACTTATGTATATTAATTAATTAA
46183087 GTTATGTAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
25 7 0.08
26 12 0.13
27 37 0.41
28 8 0.09
30 1 0.01
31 25 0.28
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (27 bp):
GTAACTTATGTATATTAATTAATTAAT
Found at i:46183001 original size:31 final size:31
Alignment explanation
Indices: 46182950--46183125 Score: 166
Period size: 31 Copynumber: 6.1 Consensus size: 31
46182940 NNNNNNNNNN
*
46182950 GTAATTTATGTATATTAATTAATT-A---AT
1 GTAACTTATGTATATTAATTAATTAAGTTAT
46182977 GTAACTTATGTATATTAATTAATTAAGTTAT
1 GTAACTTATGTATATTAATTAATTAAGTTAT
*
46183008 GTAACTTATGTATATTAATTAACTAAGTTAT
1 GTAACTTATGTATATTAATTAATTAAGTTAT
* *
46183039 GTAATTTATG--TA-TCA-T-ATT-A---AT
1 GTAACTTATGTATATTAATTAATTAAGTTAT
*
46183061 GTAATTTATGTATATTAATTAATTAAGTTAT
1 GTAACTTATGTATATTAATTAATTAAGTTAT
* *
46183092 GTAATTTATGTATCA-T-ATTAATGTAATTTAT
1 GTAACTTATGTAT-ATTAATTAAT-TAAGTTAT
46183123 GTA
1 GTA
46183126 TCATATTATG
Statistics
Matches: 127, Mismatches: 7, Indels: 26
0.79 0.04 0.16
Matches are distributed among these distances:
22 12 0.09
24 2 0.02
25 3 0.02
26 3 0.02
27 27 0.21
28 4 0.03
29 2 0.02
30 6 0.05
31 67 0.53
32 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (31 bp):
GTAACTTATGTATATTAATTAATTAAGTTAT
Found at i:46183049 original size:9 final size:9
Alignment explanation
Indices: 46183035--46183223 Score: 65
Period size: 9 Copynumber: 20.8 Consensus size: 9
46183025 ATTAACTAAG
46183035 TTATGTAAT
1 TTATGTAAT
46183044 TTATGTATCAT
1 TTATGTA--AT
46183055 ATTAATGTAAT
1 -TT-ATGTAAT
46183066 TTATGT-A-
1 TTATGTAAT
46183073 -TAT-TAAT
1 TTATGTAAT
* *
46183080 TAAT-TAAG
1 TTATGTAAT
46183088 TTATGTAAT
1 TTATGTAAT
46183097 TTATGTATCAT
1 TTATGTA--AT
46183108 ATTAATGTAAT
1 -TT-ATGTAAT
46183119 TTATGTATCAT
1 TTATGTA--AT
46183130 ATTATGT-A-
1 -TTATGTAAT
*
46183138 TTATGTAAG
1 TTATGTAAT
* *
46183147 TTATTTAAA
1 TTATGTAAT
* *
46183156 TTATTTAAG
1 TTATGTAAT
* *
46183165 TTGTGTAAG
1 TTATGTAAT
* *
46183174 TTGTGTAAG
1 TTATGTAAT
* * *
46183183 ATATTTAAG
1 TTATGTAAT
46183192 TTATGTAAGT
1 TTATGTAA-T
46183202 TT-TGT-A-
1 TTATGTAAT
*
46183208 TTATGTAAG
1 TTATGTAAT
46183217 TTATGTA
1 TTATGTA
46183224 TGCTATGTAT
Statistics
Matches: 144, Mismatches: 15, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
5 1 0.01
6 6 0.04
7 9 0.06
8 12 0.08
9 80 0.56
10 6 0.04
11 10 0.07
12 10 0.07
13 10 0.07
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.51
Consensus pattern (9 bp):
TTATGTAAT
Found at i:46183062 original size:22 final size:23
Alignment explanation
Indices: 46183037--46183094 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
46183027 TAACTAAGTT
46183037 ATGTAATTTATGTATCA-T-ATTA
1 ATGTAATTTATGTAT-ATTAATTA
46183059 ATGTAATTTATGTATATTAATTA
1 ATGTAATTTATGTATATTAATTA
*
46183082 AT-TAAGTTATGTA
1 ATGTAATTTATGTA
46183095 ATTTATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 26 0.79
23 6 0.18
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (23 bp):
ATGTAATTTATGTATATTAATTA
Found at i:46183070 original size:53 final size:53
Alignment explanation
Indices: 46183006--46183126 Score: 224
Period size: 53 Copynumber: 2.3 Consensus size: 53
46182996 TAATTAAGTT
*
46183006 ATGTAACTTATGTATATTAATTAACTAAGTTATGTAATTTATGTATCATATTA
1 ATGTAATTTATGTATATTAATTAACTAAGTTATGTAATTTATGTATCATATTA
*
46183059 ATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATCATATTA
1 ATGTAATTTATGTATATTAATTAACTAAGTTATGTAATTTATGTATCATATTA
46183112 ATGTAATTTATGTAT
1 ATGTAATTTATGTAT
46183127 CATATTATGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (53 bp):
ATGTAATTTATGTATATTAATTAACTAAGTTATGTAATTTATGTATCATATTA
Found at i:46183115 original size:13 final size:12
Alignment explanation
Indices: 46183097--46183138 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
46183087 GTTATGTAAT
46183097 TTATGTATCATA
1 TTATGTATCATA
46183109 TTAATGTA--AT-
1 TT-ATGTATCATA
46183119 TTATGTATCATA
1 TTATGTATCATA
46183131 TTATGTAT
1 TTATGTAT
46183139 TATGTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 5 0.19
10 2 0.08
11 4 0.15
12 10 0.38
13 5 0.19
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (12 bp):
TTATGTATCATA
Found at i:46183115 original size:22 final size:21
Alignment explanation
Indices: 46183088--46183144 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 21
46183078 ATTAATTAAG
46183088 TTATGTAATTTATGTATCATA
1 TTATGTAATTTATGTATCATA
46183109 TTAATGTAATTTATGTATCATA
1 TT-ATGTAATTTATGTATCATA
46183131 TTATGT-A-TTATGTA
1 TTATGTAATTTATGTA
46183145 AGTTATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.20
20 1 0.03
21 6 0.17
22 21 0.60
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TTATGTAATTTATGTATCATA
Found at i:46183175 original size:27 final size:27
Alignment explanation
Indices: 46183138--46183232 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
46183128 ATATTATGTA
*
46183138 TTATGTAAGTTATTTAA-ATTATTTAAG
1 TTATGTAAGTTATGTAAGA-TATTTAAG
* *
46183165 TTGTGTAAGTTGTGTAAGATATTTAAG
1 TTATGTAAGTTATGTAAGATATTTAAG
* * *
46183192 TTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGTAAGTTATGTAAGATATTTAAG
* *
46183217 TTATGTATGCTATGTA
1 TTATGTAAGTTATGTA
46183233 TAATGTAAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
25 19 0.34
26 1 0.02
27 35 0.62
28 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAGATATTTAAG
Found at i:46183181 original size:36 final size:34
Alignment explanation
Indices: 46183134--46183220 Score: 111
Period size: 36 Copynumber: 2.5 Consensus size: 34
46183124 TATCATATTA
*
46183134 TGTATTATGTAAGTTATTTAAATTATTTAAGTTG
1 TGTATTATGTAAGTTATTTAAATTATGTAAGTTG
* * * *
46183168 TGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTT
1 TGT-A-TTATGTAAGTTATTTAAATTATGTAAGTTG
46183204 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
46183221 GTATGCTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 14 0.32
35 2 0.05
36 28 0.64
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (34 bp):
TGTATTATGTAAGTTATTTAAATTATGTAAGTTG
Found at i:46183182 original size:18 final size:18
Alignment explanation
Indices: 46183138--46183272 Score: 91
Period size: 18 Copynumber: 7.6 Consensus size: 18
46183128 ATATTATGTA
* *
46183138 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGTAAG
* *
46183156 TTATTTAAGTTGTGTAAG
1 TTATGTAAGTTATGTAAG
* * *
46183174 TTGTGTAAGATATTTAAG
1 TTATGTAAGTTATGTAAG
*
46183192 TTATGTAAGTTTTGT-A-
1 TTATGTAAGTTATGTAAG
*
46183208 TTATGTAAGTTATGTATG
1 TTATGTAAGTTATGTAAG
* *
46183226 CTATGT-A-TAATGTAAG
1 TTATGTAAGTTATGTAAG
*
46183242 TCCATATGTTA-TTATGTAAG
1 T---TATGTAAGTTATGTAAG
*
46183262 TTATGAAAGTT
1 TTATGTAAGTT
46183273 TAAATATAAG
Statistics
Matches: 88, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
16 21 0.24
17 7 0.08
18 45 0.51
19 5 0.06
20 10 0.11
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAG
Found at i:46183232 original size:25 final size:25
Alignment explanation
Indices: 46183188--46183242 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
46183178 GTAAGATATT
* * *
46183188 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGCTATGTATAATG
*
46183213 TAAGTTATGTATGCTATGTATAATG
1 TAAGTTATGTAAGCTATGTATAATG
46183238 TAAGT
1 TAAGT
46183243 CCATATGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTAAGCTATGTATAATG
Found at i:46183553 original size:29 final size:29
Alignment explanation
Indices: 46183520--46183590 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
46183510 AATATAATTT
46183520 TAATTATTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
*
46183549 TAATTAGTCATTATGTAAGTTAAGATCGA
1 TAATTATTCATTATGTAAGTTAAGATCGA
46183578 TAATTATTCATTA
1 TAATTATTCATTA
46183591 ATTTGAAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (29 bp):
TAATTATTCATTATGTAAGTTAAGATCGA
Found at i:46186118 original size:27 final size:27
Alignment explanation
Indices: 46186086--46186137 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
46186076 TCTTACTTTT
* *
46186086 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
46186113 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
46186138 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:46186222 original size:10 final size:10
Alignment explanation
Indices: 46186207--46186243 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
46186197 ATAACTATAT
46186207 ATATATATCC
1 ATATATATCC
*
46186217 ATATATATTC
1 ATATATATCC
46186227 ATATATATCC
1 ATATATATCC
46186237 ATATATA
1 ATATATA
46186244 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:46187464 original size:41 final size:41
Alignment explanation
Indices: 46187379--46187572 Score: 205
Period size: 41 Copynumber: 4.7 Consensus size: 41
46187369 AACACGAACT
* * * * *
46187379 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGAC-AAAAACGCCACTAATGATAC-GAGCA
* *
46187420 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* * * *
46187461 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-ACAGAGAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATAC-GAGCA
* *
46187502 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
* *
46187543 TTAGCGGCGCTTAGACAAAAACGCCGCTAA
1 TTAGCGGCGCTCAGACAAAAACGCCACTAA
46187573 AGGTTTAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.02
41 120 0.95
42 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (41 bp):
TTAGCGGCGCTCAGACAAAAACGCCACTAATGATACGAGCA
Found at i:46187516 original size:82 final size:82
Alignment explanation
Indices: 46187379--46187574 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
46187369 AACACGAACT
*
46187379 TTAGCGGCGCTTAG-CAAAAAATGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
1 TTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACG
46187443 CCACTAATGATACGAGCA
65 CCACTAATGATACGAGCA
46187461 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
46187526 CACTAATGATACGAGCA
66 CACTAATGATACGAGCA
46187543 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
46187575 GTTTAAAAAA
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 111 0.99
83 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (82 bp):
TTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGATAAAAACGC
CACTAATGATACGAGCA
Found at i:46196896 original size:9 final size:9
Alignment explanation
Indices: 46196868--46196907 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
46196858 AACATAAATC
46196868 AAATAAAC-
1 AAATAAACG
* *
46196876 AAATGAAGG
1 AAATAAACG
46196885 AAATAAACG
1 AAATAAACG
46196894 AAATAAACG
1 AAATAAACG
46196903 AAATA
1 AAATA
46196908 TATAGAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (9 bp):
AAATAAACG
Found at i:46197367 original size:9 final size:9
Alignment explanation
Indices: 46197330--46197388 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
46197320 CGATTTTTTA
46197330 AAAAATAAT
1 AAAAATAAT
46197339 -AAAATAA-
1 AAAAATAAT
* *
46197346 CAAGATAAT
1 AAAAATAAT
*
46197355 AAAAATCAT
1 AAAAATAAT
46197364 AAAAATAAT
1 AAAAATAAT
*
46197373 AATAATAAT
1 AAAAATAAT
46197382 AATAAAT
1 AA-AAAT
46197389 TAAAGCTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
8 13 0.32
9 24 0.60
10 3 0.08
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAAATAAT
Found at i:46198423 original size:44 final size:43
Alignment explanation
Indices: 46198365--46198635 Score: 192
Period size: 44 Copynumber: 6.1 Consensus size: 43
46198355 ACTAGATGCG
* *
46198365 ATCTTCGATATACTTCACCACTAGTATGGGAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACCACTA-TATGGAAGACAAGATCTGCT
* * * *
46198409 ATCTTTGATCTACTTCATGTCAATACAT-GAAGACAAGATCTG-T
1 ATCTTCGATCTACTTCA--CCACTATATGGAAGACAAGATCTGCT
* *
46198452 CATCTTCGATCTACTTCACGC-CAATACGTGAAGACAAGATCTGCT
1 -ATCTTCGATCTACTTCAC-CACTATATG-GAAGACAAGATCTGCT
* * * * *
46198497 ACCTTTGATCTACTTCATGCCAATACAT-AAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCA--CCACTATATGGAAGACAAGATCTGCT
* * * * **
46198541 TTATTTGATCTACTTCACCACCAATATGGGAAGACAAGATCTATT
1 ATCTTCGATCTACTTCACCA-CTATAT-GGAAGACAAGATCTGCT
* * * *
46198586 ATCTTCGATCTACTTCACGCTAATACAT-GAAGACAATATCTACT
1 ATCTTCGATCTACTTCAC-C-ACTATATGGAAGACAAGATCTGCT
46198630 ATCTTC
1 ATCTTC
46198636 AGCCTGCTCC
Statistics
Matches: 176, Mismatches: 36, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
42 5 0.03
43 5 0.03
44 122 0.69
45 32 0.18
46 11 0.06
47 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (43 bp):
ATCTTCGATCTACTTCACCACTATATGGAAGACAAGATCTGCT
Found at i:46198514 original size:88 final size:87
Alignment explanation
Indices: 46198375--46198626 Score: 303
Period size: 88 Copynumber: 2.9 Consensus size: 87
46198365 ATCTTCGATA
* * *
46198375 TACTTCACCACTAGTATGGG-AGACAAGATCTGCTATCTTTGATCTACTTCATGTCAATACATGA
1 TACTTCACCACCAATACGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG-CAATACATGA
46198439 AGACAAGATCTG-TCATCTTCGATC
65 AGACAAGATCTGCTCAT-TT-GATC
* * * *
46198463 TACTTCA-CGCCAATACGTGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCAATACATAA
1 TACTTCACCACCAATACGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG-CAATACATGA
*
46198527 AGACAAGATCTGCTTTATTTGATC
65 AGACAAGATCTGC-TCATTTGATC
* ** * *
46198551 TACTTCACCACCAATATGGGAAGACAAGATCTATTATCTTCGATCTACTTCACGCTAATACATGA
1 TACTTCACCACCAATACGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGC-AATACATGA
*
46198616 AGACAATATCT
65 AGACAAGATCT
46198627 ACTATCTTCA
Statistics
Matches: 140, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
87 7 0.05
88 72 0.51
89 58 0.41
90 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (87 bp):
TACTTCACCACCAATACGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCAATACATGAA
GACAAGATCTGCTCATTTGATC
Found at i:46198732 original size:88 final size:88
Alignment explanation
Indices: 46198609--46198950 Score: 513
Period size: 88 Copynumber: 3.9 Consensus size: 88
46198599 TTCACGCTAA
* * * * * * * * *
46198609 TACATGAAGACAATATCTACTATCTTCAGCCTGCTCCGCTACAACTCAGGGAAGCAAGGCTGGTG
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
*
46198674 TCTTTGATCTGCTTCACTATCGG
66 TCTTCGATCTGCTTCACTATCGG
*
46198697 TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
46198762 TCTTCGATCTGCTTCACTATCGG
66 TCTTCGATCTGCTTCACTATCGG
* * * * * *
46198785 TACAAGAAGGCAAGATTTGTTATCTTCAACCTACTCCATTACAACTCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
*
46198850 TCTTCGATCTGCTTCACTGTCGG
66 TCTTCGATCTGCTTCACTATCGG
*
46198873 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
46198938 TCTTCGATCTGCT
66 TCTTCGATCTGCT
46198951 CCGCTACTGC
Statistics
Matches: 228, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 228 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (88 bp):
TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
TCTTCGATCTGCTTCACTATCGG
Found at i:46198752 original size:44 final size:43
Alignment explanation
Indices: 46198629--46198957 Score: 192
Period size: 43 Copynumber: 7.5 Consensus size: 43
46198619 CAATATCTAC
* * * *
46198629 TATCTTCAGCCTGCTCCGCTACAACTCAGGGAA-GCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACGACACA-GGAAGGCAAGGCTGG
* ** * * *** * *
46198672 TGTCTTTGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGC
1 TATCTTCAACCTGCTCCACTA-CGACACAGGAAGGCAAG-GCTGG
* * *
46198717 TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACGACACAGGAAGGCAAGGCTGG
* * * ** * ** *
46198760 TATCTTCGATCTGCTTCACTATCGGTACAAGAAGGCAAGATTTGT
1 TATCTTCAACCTGCTCCACTA-CGACACAGGAAGGCAAG-GCTGG
* * * * *
46198805 TATCTTCAACCTACTCCATTACAACTCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACGACACAGGAAGGCAAGGCTGG
* * * * ** * *
46198848 TATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGC
1 TATCTTCAACCTGCTCCACT-ACGACACAGGAAGGCAAG-GCTGG
* *
46198893 TATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACGACACAGGAAGGCAAGGCTGG
* * *
46198936 TATCTTCGATCTGCTCCGCTAC
1 TATCTTCAACCTGCTCCACTAC
46198958 TGCTTAGGGA
Statistics
Matches: 202, Mismatches: 77, Indels: 14
0.69 0.26 0.05
Matches are distributed among these distances:
43 78 0.39
44 67 0.33
45 57 0.28
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (43 bp):
TATCTTCAACCTGCTCCACTACGACACAGGAAGGCAAGGCTGG
Found at i:46199031 original size:176 final size:176
Alignment explanation
Indices: 46198674--46199202 Score: 631
Period size: 176 Copynumber: 3.0 Consensus size: 176
46198664 AAGGCTGGTG
* * *
46198674 TCTTTGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
* * * * * * ** *
46198739 AACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTA-TCGGTACAAGAAGGCAAGATTT
66 AACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACT-GCT-TAGGGAGATAAGATCT
* * * * * ** * ***
46198803 GTTATCTTCAACCTA-CTCCATTAC-AACTCAGGGAGGCA-AGG-CT-GGTA
129 GTAATTTTTAACCTATC-CCACTGCTGTC-CAGGGA-G-ATAGGATTCACAA
46198850 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
46198915 GACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGT
66 AACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGT
46198980 AATTTTTAACCTATCCCACTGCTGTCCAGGGAGATAGGATTCACAA
131 AATTTTTAACCTATCCCACTGCTGTCCAGGGAGATAGGATTCACAA
* * * * * *
46199026 TCTTCGATTTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGC
1 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
* * * *
46199091 CACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGT
66 AACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGT
* *
46199156 AA-TTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTCAA
131 AATTTTTAACCTATCCCACTGCTGTCCAGGGAGATAGGATTCACAA
46199201 TC
1 TC
46199203 CTCAACTTAT
Statistics
Matches: 311, Mismatches: 36, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
173 1 0.00
174 4 0.01
175 77 0.25
176 228 0.73
177 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (176 bp):
TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
AACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGT
AATTTTTAACCTATCCCACTGCTGTCCAGGGAGATAGGATTCACAA
Found at i:46199280 original size:218 final size:218
Alignment explanation
Indices: 46199028--46199597 Score: 969
Period size: 218 Copynumber: 2.6 Consensus size: 218
46199018 ATTCACAATC
* * * *
46199028 TTCGATTTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCA
1 TTCGATCTGCTTCACTGTCAGTACAGGGAGGCAAGATCTGCTATCTTTAGCCTGCTCCGCTGCCA
* *
46199093 CCGAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAA
66 CCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCGCTACTGCTTAGGGAAATAAGATCTGTAA
*
46199158 TTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGTTG
131 TTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGCTG
*
46199223 ACTAGGGAGATAAGGTTGGTTTT
196 ACTAGGGAGATAAGATTGGTTTT
*
46199246 TTCGATCTGCTTCACTGTCAGTACAGGGAGGCAAGATCTGCTATCTTTAGCCTGCTCCGCTGTCA
1 TTCGATCTGCTTCACTGTCAGTACAGGGAGGCAAGATCTGCTATCTTTAGCCTGCTCCGCTGCCA
* * *
46199311 CCGAGGGAGCCAAGGCTAGTGTCTTCGATCTTCTCCGCTACTACTTAGGGAAATAAGATCTGTAA
66 CCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCGCTACTGCTTAGGGAAATAAGATCTGTAA
*
46199376 TTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGCTG
131 TTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGCTG
46199441 ACTAGGGAGATAAGATTGGTTTT
196 ACTAGGGAGATAAGATTGGTTTT
46199464 TTCGATCTGCTTCACTGTCAGTACAGGGAGGCAAGATCTGCTATCTTTAGCCTGCTCCGCTGCCA
1 TTCGATCTGCTTCACTGTCAGTACAGGGAGGCAAGATCTGCTATCTTTAGCCTGCTCCGCTGCCA
** * * * *
46199529 CCGAGGGAGGCAAGGCTAGCATCTTCGATCTACTCCACTACTGCTTAGGGATATAAGATATGCAA
66 CCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCGCTACTGCTTAGGGAAATAAGATCTGTAA
46199594 TTTT
131 TTTT
46199598 TTTAACCTAC
Statistics
Matches: 329, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 329 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (218 bp):
TTCGATCTGCTTCACTGTCAGTACAGGGAGGCAAGATCTGCTATCTTTAGCCTGCTCCGCTGCCA
CCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCGCTACTGCTTAGGGAAATAAGATCTGTAA
TTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGCTG
ACTAGGGAGATAAGATTGGTTTT
Found at i:46201018 original size:15 final size:16
Alignment explanation
Indices: 46200983--46201012 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46200973 TTGGCCTCTC
46200983 CTTTTTCTTTTT-TTG
1 CTTTTTCTTTTTCTTG
46200998 CTTTTTCTTTTTCTT
1 CTTTTTCTTTTTCTT
46201013 TTTTTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 12 0.86
16 2 0.14
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (16 bp):
CTTTTTCTTTTTCTTG
Found at i:46205423 original size:6 final size:7
Alignment explanation
Indices: 46205406--46205432 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46205396 AACATTTTCA
46205406 AAAAAAT
1 AAAAAAT
46205413 AAAAAAT
1 AAAAAAT
46205420 AAAAAAT
1 AAAAAAT
46205427 AAAAAA
1 AAAAAA
46205433 ATAGATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:46205453 original size:2 final size:2
Alignment explanation
Indices: 46205448--46205481 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
46205438 TATATACGTG
46205448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46205482 AAAGAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46205668 original size:3 final size:3
Alignment explanation
Indices: 46205660--46205716 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
46205650 CTTTTTAAAA
* * * * *
46205660 AAT AAT AAT AA- AAT AAC AA- GAT AAT AAA AAT CAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46205706 AAT AAT AAT AA
1 AAT AAT AAT AA
46205717 ATTAAAGCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:46205697 original size:9 final size:9
Alignment explanation
Indices: 46205657--46205718 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
46205647 TCGCTTTTTA
46205657 AAAAATAAT
1 AAAAATAAT
*
46205666 AATAA-AAT
1 AAAAATAAT
46205674 AACAAGATAAT
1 AA-AA-ATAAT
*
46205685 AAAAATCAT
1 AAAAATAAT
46205694 AAAAATAAT
1 AAAAATAAT
*
46205703 AATAATAAT
1 AAAAATAAT
46205712 AATAAAT
1 AA-AAAT
46205719 TAAAGCTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 5 0.12
9 27 0.63
10 6 0.14
11 5 0.12
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAAATAAT
Found at i:46211978 original size:12 final size:12
Alignment explanation
Indices: 46211961--46211990 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46211951 TCAGGCAGTT
46211961 ACACGGCCTAGC
1 ACACGGCCTAGC
*
46211973 ACACGGCCTGGC
1 ACACGGCCTAGC
46211985 ACACGG
1 ACACGG
46211991 ACGTGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:46217907 original size:18 final size:19
Alignment explanation
Indices: 46217872--46217921 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
46217862 AATTTAATTT
46217872 TGTTTAAAATAATATGAAA
1 TGTTTAAAATAATATGAAA
*
46217891 TGTTTAAAAT-TTATGAAA
1 TGTTTAAAATAATATGAAA
46217909 TAG-TTAAAA-AATA
1 T-GTTTAAAATAATA
46217922 AGTATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TGTTTAAAATAATATGAAA
Found at i:46218062 original size:14 final size:14
Alignment explanation
Indices: 46218045--46218096 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
46218035 ATTTAATGCA
*
46218045 TTAATTTTTAATAC
1 TTAATTTTTAGTAC
*
46218059 TTAATTTTTTAGCAC
1 TTAA-TTTTTAGTAC
*
46218074 TTATTTTTTAGTAC
1 TTAATTTTTAGTAC
46218088 TTAATTTTT
1 TTAATTTTT
46218097 CAATTTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (14 bp):
TTAATTTTTAGTAC
Found at i:46218390 original size:20 final size:20
Alignment explanation
Indices: 46218365--46218402 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
46218355 CCAAGGATTT
46218365 TAGAATAATAATGAAGCTGA
1 TAGAATAATAATGAAGCTGA
46218385 TAGAATAATAATGAAGCT
1 TAGAATAATAATGAAGCT
46218403 CACAAGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
TAGAATAATAATGAAGCTGA
Found at i:46224620 original size:13 final size:13
Alignment explanation
Indices: 46224602--46224632 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46224592 TTTCGACTGT
46224602 GTGTGGCTTGGCC
1 GTGTGGCTTGGCC
46224615 GTGTGGCTTGGCC
1 GTGTGGCTTGGCC
*
46224628 ATGTG
1 GTGTG
46224633 TCCCAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.03, C:0.19, G:0.45, T:0.32
Consensus pattern (13 bp):
GTGTGGCTTGGCC
Found at i:46225198 original size:68 final size:68
Alignment explanation
Indices: 46225115--46225378 Score: 357
Period size: 68 Copynumber: 3.9 Consensus size: 68
46225105 CACCATCTTG
*
46225115 GCGGACTTCATTTGTTGCCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTATTGTC
1 GCGGACTTCATTTGTTGCCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTAATGTC
*
46225180 CTG
66 CTA
* * *
46225183 GCGGACTTTATTTGTTGTCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTACTGTC
1 GCGGACTTCATTTGTTGCCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTAATGTC
46225248 CTA
66 CTA
* * * ** * * *
46225251 GCGCACTTTATTTGTTGCCATAGCCTAACTATGGTCTTACGCAATATGAACTCATGTTTAATATC
1 GCGGACTTCATTTGTTGCCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTAATGTC
46225316 CTA
66 CTA
* * * * **
46225319 GCAGACTTCATTTGTTGTCATAGCCTAGATATGGTCTTACACAATATGAAATCATGTTTA
1 GCGGACTTCATTTGTTGCCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTA
46225379 CTATCTTGGC
Statistics
Matches: 175, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 175 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (68 bp):
GCGGACTTCATTTGTTGCCATAGCCCAGTTATGGTCTTACACAATATGAACCCATGTTTAATGTC
CTA
Found at i:46227467 original size:23 final size:24
Alignment explanation
Indices: 46227441--46227493 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
46227431 TTGGTGGGAA
*
46227441 CATTTTGGT-ACTTCAATGCATAT
1 CATTTTGGTCAATTCAATGCATAT
* *
46227464 CATTCT-GTCAATTCAGTGCATAT
1 CATTTTGGTCAATTCAATGCATAT
46227487 CATTTTG
1 CATTTTG
46227494 ACATTTTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (24 bp):
CATTTTGGTCAATTCAATGCATAT
Found at i:46232652 original size:22 final size:22
Alignment explanation
Indices: 46232598--46232654 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
46232588 GAATTTGCGT
* *
46232598 CTGTATCTAATATGTTCTGCAT
1 CTGTATCTGATATGTTCTGCAA
*
46232620 CTGTATCTGATATGTTTTGCAA
1 CTGTATCTGATATGTTCTGCAA
*
46232642 CTGTATTTGATAT
1 CTGTATCTGATAT
46232655 CCTCTATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (22 bp):
CTGTATCTGATATGTTCTGCAA
Found at i:46233975 original size:13 final size:13
Alignment explanation
Indices: 46233957--46234059 Score: 109
Period size: 13 Copynumber: 7.9 Consensus size: 13
46233947 AGTTCTTCAT
46233957 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46233970 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
46233983 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
46233996 TGTTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
46234009 TG-TTGTGGAAAAA
1 TGCTT-TTGAAAAG
* *
46234022 TGTTTTTAAAAAG
1 TGCTTTTGAAAAG
*
46234035 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
46234048 TGCTTTTGAAAA
1 TGCTTTTGAAAA
46234060 ATTTAAGTGT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
12 2 0.03
13 68 0.94
14 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:46238035 original size:11 final size:10
Alignment explanation
Indices: 46238019--46238054 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
46238009 AAATTTTTCA
46238019 TTGTTGCTTTG
1 TTGTTG-TTTG
46238030 TTGTTGTTTTG
1 TTGTTG-TTTG
46238041 TTGTTGTTTG
1 TTGTTGTTTG
46238051 TTGT
1 TTGT
46238055 CATTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.00, C:0.03, G:0.28, T:0.69
Consensus pattern (10 bp):
TTGTTGTTTG
Found at i:46238060 original size:21 final size:22
Alignment explanation
Indices: 46238013--46238070 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
46238003 TTGCCTAAAT
* **
46238013 TTTTCATTGTTGCTTTGTTGTTG
1 TTTTGATTGTTG-TTTGTTGTCA
46238036 TTTTG-TTGTTGTTTGTTGTCA
1 TTTTGATTGTTGTTTGTTGTCA
46238057 TTTTGATT-TTGTTT
1 TTTTGATTGTTGTTT
46238071 TGAAATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 19 0.61
22 8 0.26
23 4 0.13
ACGTcount: A:0.05, C:0.05, G:0.21, T:0.69
Consensus pattern (22 bp):
TTTTGATTGTTGTTTGTTGTCA
Found at i:46243176 original size:31 final size:31
Alignment explanation
Indices: 46243082--46243185 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
46243072 AATAATTCAA
* * *
46243082 CATTAAACTATAAATAAATTTACCTTTTTAT
1 CATTAAACTATTAATAAATTTACATTTTGAT
* * **
46243113 CATTAAA-TTTTAAAAAATTATA-A-AATGAT
1 CATTAAACTATTAATAAATT-TACATTTTGAT
*
46243142 CATTAAATTATTAATAAATTTACATTTTGAT
1 CATTAAACTATTAATAAATTTACATTTTGAT
46243173 CATTAAACTATTA
1 CATTAAACTATTA
46243186 GTAATTATCT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
29 12 0.21
30 20 0.35
31 25 0.44
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (31 bp):
CATTAAACTATTAATAAATTTACATTTTGAT
Found at i:46244384 original size:16 final size:16
Alignment explanation
Indices: 46244337--46244387 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
46244327 TTTAAAATGG
* *
46244337 AAAATTTTCAATTTAG
1 AAAATTTTAAATTTAT
**
46244353 ATTATTTTATAATTTAT
1 AAAATTTTA-AATTTAT
46244370 AAAATTTTAAATTTAT
1 AAAATTTTAAATTTAT
46244386 AA
1 AA
46244388 TGATAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AAAATTTTAAATTTAT
Found at i:46253791 original size:13 final size:13
Alignment explanation
Indices: 46253752--46253817 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
46253742 AGTTCTTCAT
*
46253752 TGCTTTTCAAAAG
1 TGCTTTTGAAAAG
* *
46253765 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
46253778 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
46253791 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
46253804 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46253817 T
1 T
46253818 TCGGTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 1 0.02
13 41 0.93
14 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:46256163 original size:25 final size:25
Alignment explanation
Indices: 46256129--46256180 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
46256119 TAGCTACGTT
46256129 CCGACCCACAACTCT-TATGAGCATA
1 CCGACCCACAACT-TATATGAGCATA
* * *
46256154 CCGACTCACAGCTTATGTGAGCATA
1 CCGACCCACAACTTATATGAGCATA
46256179 CC
1 CC
46256181 AATTCATAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (25 bp):
CCGACCCACAACTTATATGAGCATA
Found at i:46256191 original size:25 final size:25
Alignment explanation
Indices: 46256146--46256229 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
46256136 ACAACTCTTA
* * * *
46256146 TGAGCATACCGACTCACAGCTTATG
1 TGAGCATACCAATTCATAGCTCATG
*
46256171 TGAGCATACCAATTCATAGCTCGTG
1 TGAGCATACCAATTCATAGCTCATG
* *
46256196 TGAGCACACCAATTCATAGCTCATA
1 TGAGCATACCAATTCATAGCTCATG
46256221 TGAGCATAC
1 TGAGCATAC
46256230 ATGTACAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (25 bp):
TGAGCATACCAATTCATAGCTCATG
Found at i:46257217 original size:25 final size:25
Alignment explanation
Indices: 46257156--46257222 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
46257146 TCCGACCTAT
46257156 AGCTCGTGTGAGCATACCAATTCAC
1 AGCTCGTGTGAGCATACCAATTCAC
* * * * *
46257181 AGCCCATTTGAGCATATCGATTCAC
1 AGCTCGTGTGAGCATACCAATTCAC
46257206 AGCTCGTGTGAGCATAC
1 AGCTCGTGTGAGCATAC
46257223 ACGTACAAGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCAATTCAC
Found at i:46268891 original size:29 final size:29
Alignment explanation
Indices: 46268844--46269096 Score: 258
Period size: 29 Copynumber: 8.8 Consensus size: 29
46268834 CTCGATGCCG
* ** *
46268844 ATCGAATATGAAAAAGGATGGTTTCCACT
1 ATCGAATATGAAAAGGGATGGTGACAACT
* *
46268873 ATCAAATATGGAAAGGGATGGTGACAACT
1 ATCGAATATGAAAAGGGATGGTGACAACT
* * *
46268902 ATCGCATATGAAAAGGGGTGGTGACGA-T
1 ATCGAATATGAAAAGGGATGGTGACAACT
*
46268930 CATCGAATATGAAAAGGGATGGTGACAACC
1 -ATCGAATATGAAAAGGGATGGTGACAACT
****
46268960 ATCGAATATGAAAAGGGATGGTTTTGACT
1 ATCGAATATGAAAAGGGATGGTGACAACT
* ** *
46268989 ACCGAATATGAAAA-GGATGGTGATGACA
1 ATCGAATATGAAAAGGGATGGTGACAACT
* * *
46269017 ATCGATTATGAATAGGGATGGTGACAACC
1 ATCGAATATGAAAAGGGATGGTGACAACT
* * * *
46269046 ATCGATTATGAAAAGAGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACAACT
46269075 ATCGAATATGAAAAGGGATGGT
1 ATCGAATATGAAAAGGGATGGT
46269097 TTCAGCCATC
Statistics
Matches: 186, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
28 23 0.12
29 163 0.88
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACAACT
Found at i:46269040 original size:86 final size:87
Alignment explanation
Indices: 46268844--46269096 Score: 276
Period size: 86 Copynumber: 2.9 Consensus size: 87
46268834 CTCGATGCCG
* ** * * * * * * * * *
46268844 ATCGAATATGAAAAAGGATGGTTTCCACTATCAAATATGGAAAGGGATGGTGACAACTATCGCAT
1 ATCGAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACGACCACCGAAT
*
46268909 ATGAAAAGGGGTGGTGACGATC
66 ATGAAAAGGGATGGTGACGATC
* *** *
46268931 ATCGAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGGGATGGTTTTGACTACCGAAT
1 ATCGAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACGACCACCGAAT
*
46268996 ATGAAAA-GGATGGTGATGA-C
66 ATGAAAAGGGATGGTGACGATC
* * * *
46269016 AATCGATTATGAATAGGGATGGTGACAACCATCGATTATGAAAAGAGATGGTGACGACCATCGAA
1 -ATCGAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACGACCACCGAA
46269081 TATGAAAAGGGATGGT
65 TATGAAAAGGGATGGT
46269097 TTCAGCCATC
Statistics
Matches: 140, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
85 1 0.01
86 73 0.52
87 66 0.47
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACGACCACCGAAT
ATGAAAAGGGATGGTGACGATC
Found at i:46269050 original size:115 final size:116
Alignment explanation
Indices: 46268844--46269099 Score: 345
Period size: 115 Copynumber: 2.2 Consensus size: 116
46268834 CTCGATGCCG
* * * *
46268844 ATCGAATATGAAAAAGGATGGTTTCCACTATCAAATATGGAAAGGGATGGTGACAACTATCGCAT
1 ATCGAATATGAAAAGGGATGGTTTCCACTACCAAATATGGAAAAGGATGGTGACAACAATCGCAT
* * * *
46268909 ATGAAAAGGGGTGGTGACGATCATCGAATATGAAAAGGGATGGTGACAACC
66 ATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACAACC
** * **
46268960 ATCGAATATGAAAAGGGATGGTTTTGACTACCGAATAT-GAAAAGGATGGTGATGACAATCG-AT
1 ATCGAATATGAAAAGGGATGGTTTCCACTACCAAATATGGAAAAGGATGGTGACAACAATCGCA-
* * *
46269023 TATGAATAGGGATGGTGACAACCATCGATTATGAAAAGAGATGGTGACGACC
65 TATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACAACC
46269075 ATCGAATATGAAAAGGGATGGTTTC
1 ATCGAATATGAAAAGGGATGGTTTC
46269100 AGCCATCGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
114 1 0.01
115 88 0.72
116 33 0.27
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (116 bp):
ATCGAATATGAAAAGGGATGGTTTCCACTACCAAATATGGAAAAGGATGGTGACAACAATCGCAT
ATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGAGATGGTGACAACC
Found at i:46271215 original size:41 final size:40
Alignment explanation
Indices: 46271137--46271217 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
46271127 GTAACAGTTT
* *
46271137 GGGCCTTAGCCCATCTCAGTACAGTAGAAAATATGCAGTA
1 GGGCCTTAGCCCATCACAGTACAGTAGAAAACATGCAGTA
* *
46271177 GGGCCTTAGCCCATCACAGTATCAGTAGCAACCATGCAGTA
1 GGGCCTTAGCCCATCACAGTA-CAGTAGAAAACATGCAGTA
46271218 TTCAGTAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 20 0.56
41 16 0.44
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (40 bp):
GGGCCTTAGCCCATCACAGTACAGTAGAAAACATGCAGTA
Found at i:46274226 original size:50 final size:49
Alignment explanation
Indices: 46274133--46274231 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 49
46274123 AGATGTTGGA
* **
46274133 AATGAATGATTTGAGTTATGTTTTTACGGTAATGCTCTGTAACCCTATTC
1 AATGAATGAGTTGAGTTATGTTTTTACGGTAATAATCTGTAA-CCTATTC
* * *
46274183 AATGAATGAGTTGAGTTCTGTTTTTACGGTAATAATTTTTAACCTATTC
1 AATGAATGAGTTGAGTTATGTTTTTACGGTAATAATCTGTAACCTATTC
46274232 TGGTGGCGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 7 0.16
50 36 0.84
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (49 bp):
AATGAATGAGTTGAGTTATGTTTTTACGGTAATAATCTGTAACCTATTC
Found at i:46281914 original size:64 final size:64
Alignment explanation
Indices: 46281764--46282000 Score: 237
Period size: 64 Copynumber: 3.7 Consensus size: 64
46281754 AATGACTACA
* ** * * *
46281764 AGCCATAAGT-ACAGTAATGTGATTGGCACAATGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAACATGATCGACACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
** * * *
46281827 AGCCATCAGTAATGGTAACATGATCGATACAAAGCCATCAGTGGTAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAACATGATCGACACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
* * * * *
46281891 AGCCATCAGTAACAGTGAA-ATGATCGGCACAAAGCTATCAGTAACAGT-ACTATGATTGACACA
1 AGCCATCAGTAACAGT-AACATGATCGACACAAAGCCATCAGTAGCAGTGA-TATGATCGGCACA
*
46281954 A
64 C
** * **
46281955 AGCCATCAGTAACAGTATTATGATCGGCACAAATTCATCAGTAGCA
1 AGCCATCAGTAACAGTAACATGATCGACACAAAGCCATCAGTAGCA
46282001 TTGCAACAAA
Statistics
Matches: 143, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
63 11 0.08
64 130 0.91
65 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (64 bp):
AGCCATCAGTAACAGTAACATGATCGACACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
Found at i:46281955 original size:96 final size:96
Alignment explanation
Indices: 46281783--46281986 Score: 252
Period size: 96 Copynumber: 2.1 Consensus size: 96
46281773 TACAGTAATG
* * * * **
46281783 TGATTGGCACAATGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAATGGTAACAT
1 TGATCGGCACAATGCCATCAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACAGTAACAT
*
46281848 GATCGATACAAAGCCATCAGTGGTAGTGATA
66 GATCGACACAAAGCCATCAGTGGTAGTGATA
*
46281879 TGATCGGCACACA-GCCATCAGTAACAGTGAAATGATCGGCACAAAGCTATCAGTAACAGT-ACT
1 TGATCGGCACA-ATGCCATCAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACAGTAAC-
* ***
46281942 ATGATTGACACAAAGCCATCAGTAACAGT-ATTA
64 ATGATCGACACAAAGCCATCAGTGGTAGTGA-TA
46281975 TGATCGGCACAA
1 TGATCGGCACAA
46281987 ATTCATCAGT
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
95 4 0.04
96 88 0.95
97 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (96 bp):
TGATCGGCACAATGCCATCAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACAGTAACAT
GATCGACACAAAGCCATCAGTGGTAGTGATA
Found at i:46281987 original size:32 final size:31
Alignment explanation
Indices: 46281763--46281997 Score: 211
Period size: 32 Copynumber: 7.4 Consensus size: 31
46281753 GAATGACTAC
* * *
46281763 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGT-ATATGATCGGCACA
* *
46281794 ATGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGT-ATATGATCGGCACA
* ** * **
46281826 CAGCCATCAGTAATGGTAACATGATCGATACA
1 AAGCCATCAGTAACAGT-ATATGATCGGCACA
***
46281858 AAGCCATCAGTGGTAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGT-ATATGATCGGCACA
* *
46281890 CAGCCATCAGTAACAGTGAAATGATCGGCACA
1 AAGCCATCAGTAACAGT-ATATGATCGGCACA
* * *
46281922 AAGCTATCAGTAACAGTACTATGATTGACACA
1 AAGCCATCAGTAACAGTA-TATGATCGGCACA
46281954 AAGCCATCAGTAACAGTATTATGATCGGCACA
1 AAGCCATCAGTAACAGTA-TATGATCGGCACA
**
46281986 AATTCATCAGTA
1 AAGCCATCAGTA
46281998 GCATTGCAAC
Statistics
Matches: 163, Mismatches: 39, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
31 10 0.06
32 153 0.94
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (31 bp):
AAGCCATCAGTAACAGTATATGATCGGCACA
Found at i:46281994 original size:96 final size:94
Alignment explanation
Indices: 46281763--46281997 Score: 249
Period size: 96 Copynumber: 2.4 Consensus size: 94
46281753 GAATGACTAC
* * * * * *
46281763 AAGCCATAAGTACAGTAATGTGATTGGCAC-AATGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AAGCCATCAGTACAGT-ATATGATCGGCACAAAT-CCATCAGTAACAGTGAAATGATCGGCACAA
** *
46281827 AGCCATCAGTAATGGTAACATGATCGATACA
64 AGCCATCAGTAACAGTAACATGATCGACACA
** * *
46281858 AAGCCATCAGTGGTAGTGATATGATCGGCACACAGCCATCAGTAACAGTGAAATGATCGGCACAA
1 AAGCCATCAGT-ACAGT-ATATGATCGGCACAAATCCATCAGTAACAGTGAAATGATCGGCACAA
* *
46281923 AGCTATCAGTAACAGT-ACTATGATTGACACA
64 AGCCATCAGTAACAGTAAC-ATGATCGACACA
*
46281954 AAGCCATCAGTAACAGTATTATGATCGGCACAAATTCATCAGTA
1 AAGCCATCAGT-ACAGTA-TATGATCGGCACAAATCCATCAGTA
46281998 GCATTGCAAC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
95 13 0.11
96 100 0.88
97 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (94 bp):
AAGCCATCAGTACAGTATATGATCGGCACAAATCCATCAGTAACAGTGAAATGATCGGCACAAAG
CCATCAGTAACAGTAACATGATCGACACA
Found at i:46282304 original size:26 final size:26
Alignment explanation
Indices: 46282271--46282335 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
46282261 GGCAAAAATA
46282271 GTCA-TTTACCCACCAGGGCATTACG
1 GTCATTTTACCCACCAGGGCATTACG
** * *
46282296 GTCATTTTACCCTATTAGGGTATTTCG
1 GTCATTTTACCC-ACCAGGGCATTACG
*
46282323 ATCATTTTACCCA
1 GTCATTTTACCCA
46282336 TTGAGGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 4 0.12
26 8 0.24
27 21 0.64
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCCACCAGGGCATTACG
Found at i:46284026 original size:28 final size:28
Alignment explanation
Indices: 46283990--46284043 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
46283980 CAGTAACAAT
* *
46283990 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGCGTGGGCCTAAGCCCAATACAGAA
*
46284018 ACAGCGTGGGCCTAAGCCCGATACAG
1 ACAGCGTGGGCCTAAGCCCAATACAG
46284044 TATCAGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (28 bp):
ACAGCGTGGGCCTAAGCCCAATACAGAA
Found at i:46284247 original size:21 final size:22
Alignment explanation
Indices: 46284223--46284268 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
46284213 CTAAGAGTCG
* * *
46284223 TAAACAGGAT-GCTATAAGCTA
1 TAAACAGAATGGCTACAAGCCA
46284244 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATGGCTACAAGCCA
46284266 TAA
1 TAA
46284269 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (22 bp):
TAAACAGAATGGCTACAAGCCA
Found at i:46284330 original size:32 final size:32
Alignment explanation
Indices: 46284263--46284418 Score: 111
Period size: 32 Copynumber: 4.9 Consensus size: 32
46284253 TGGCTACAAG
* * * * *
46284263 CCATAAGTA-CAGTAATGTGATTGGCACAAAG
1 CCATCAGTAGCAGTGATATGATCGGCACAAAA
* **
46284294 CCATCAATAGCAGTGATATGATCGGCACGCAA
1 CCATCAGTAGCAGTGATATGATCGGCACAAAA
* * * *
46284326 CCATCAGTAACGGTAACATGATCGGCACAAAA
1 CCATCAGTAGCAGTGATATGATCGGCACAAAA
* * * *
46284358 CCATCAGT-GACAGTGATATGATCGGTATATAG
1 CCATCAGTAG-CAGTGATATGATCGGCACAAAA
* *
46284390 CCATC-GATAACAGTGAAATGATCGGCACA
1 CCATCAG-TAGCAGTGATATGATCGGCACA
46284419 TAGCCATCGA
Statistics
Matches: 94, Mismatches: 27, Indels: 7
0.73 0.21 0.05
Matches are distributed among these distances:
31 8 0.09
32 86 0.91
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (32 bp):
CCATCAGTAGCAGTGATATGATCGGCACAAAA
Found at i:46284394 original size:64 final size:64
Alignment explanation
Indices: 46284280--46284418 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 64
46284270 TACAGTAATG
* * * *
46284280 TGATTGGCACAAAGCCATCAATAGCAGTGATATGATCGGCACGCAACCATC-AGTAACGGT-AAC
1 TGATCGGCACAAAACCATCAATAGCAGTGATATGATCGGCACACAACCATCGA-TAACAGTGAA-
46284343 A
64 A
* * * * *
46284344 TGATCGGCACAAAACCATCAGT-GACAGTGATATGATCGGTATATAGCCATCGATAACAGTGAAA
1 TGATCGGCACAAAACCATCAATAG-CAGTGATATGATCGGCACACAACCATCGATAACAGTGAAA
46284408 TGATCGGCACA
1 TGATCGGCACA
46284419 TAGCCATCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
63 1 0.02
64 59 0.94
65 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (64 bp):
TGATCGGCACAAAACCATCAATAGCAGTGATATGATCGGCACACAACCATCGATAACAGTGAAA
Found at i:46284422 original size:32 final size:31
Alignment explanation
Indices: 46284280--46284432 Score: 121
Period size: 32 Copynumber: 4.8 Consensus size: 31
46284270 TACAGTAATG
* * *
46284280 TGATTGGCACAAAGCCATCAATAGCAGTGATA
1 TGATCGGCACAAAGCCATC-ATAACAGTGAAA
* *
46284312 TGATCGGCACGCAA-CCATCAGTAACGGT-AACA
1 TGATCGGCAC-AAAGCCATCA-TAACAGTGAA-A
* * *
46284344 TGATCGGCACAAAACCATCAGTGACAGTGATA
1 TGATCGGCACAAAGCCATCA-TAACAGTGAAA
* * *
46284376 TGATCGGTATATAGCCATCGATAACAGTGAAA
1 TGATCGGCACAAAGCCATC-ATAACAGTGAAA
*
46284408 TGATCGGCACATAGCCATCGATAAC
1 TGATCGGCACAAAGCCATC-ATAAC
46284433 GGTAATGTAA
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
31 4 0.04
32 90 0.92
33 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (31 bp):
TGATCGGCACAAAGCCATCATAACAGTGAAA
Found at i:46284520 original size:32 final size:32
Alignment explanation
Indices: 46284285--46284525 Score: 114
Period size: 32 Copynumber: 7.6 Consensus size: 32
46284275 TAATGTGATT
* * * * * *
46284285 GGCACAAAGCCATCAATAGCAGTGATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATAACC
* * * *
46284317 GGCACGCAA-CCATCAGTAACGGTAACATGATC
1 GGCAC-AAAGCCATCAGTAACGGTAATATAACC
* * * * * *
46284349 GGCACAAAACCATCAGTGACAGTGATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATAACC
* * * * * *
46284381 GGTATATAGCCATC-GATAACAGTGAA-ATGATC
1 GGCACAAAGCCATCAG-TAACGGT-AATATAACC
* * *
46284413 GGCACATAGCCATC-GATAACGGTAATGTAATC
1 GGCACAAAGCCATCAG-TAACGGTAATATAACC
* * * * *
46284445 GACACAAAGCC-TCAATAACGGTATTATGAGC
1 GGCACAAAGCCATCAGTAACGGTAATATAACC
* * *
46284476 GGTACAATGCCATCAGTAACGGTACTATAACC
1 GGCACAAAGCCATCAGTAACGGTAATATAACC
46284508 GGCACAAAGCCATCAGTA
1 GGCACAAAGCCATCAGTA
46284526 GTATCACAGC
Statistics
Matches: 164, Mismatches: 38, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
31 27 0.16
32 134 0.82
33 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAACGGTAATATAACC
Found at i:46284554 original size:26 final size:26
Alignment explanation
Indices: 46284525--46284581 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
46284515 AGCCATCAGT
*
46284525 AGTATCACAGCAAAGCTGCCAGTAAC
1 AGTATCACAACAAAGCTGCCAGTAAC
** *
46284551 AGTATTGCAACAAAGCTGCCAGTAAT
1 AGTATCACAACAAAGCTGCCAGTAAC
46284577 AGTAT
1 AGTAT
46284582 ATGTGGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AGTATCACAACAAAGCTGCCAGTAAC
Found at i:46284832 original size:26 final size:26
Alignment explanation
Indices: 46284799--46284970 Score: 105
Period size: 27 Copynumber: 6.4 Consensus size: 26
46284789 GGCAAAAATA
46284799 GTCA-TTTACCTACCA-GGGCATTACG
1 GTCATTTTACCTA-CAGGGGCATTACG
* *
46284824 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTA-CCTACAGGGGCATTACG
* * *** *
46284851 ATCATTTTACCCTATATAAGCATTATG
1 GTCATTTTA-CCTACAGGGGCATTACG
* * *
46284878 ATTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTA-CCTACAGGGGCATTACG
* *
46284905 GTCATTTTACCCCTTCAGGGGCATTACT
1 GTCATTTTA--CCTACAGGGGCATTACG
* * *
46284933 ATTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTA-CCTACAGGGGCATTACG
* *
46284960 GTTAGTTTACC
1 GTCATTTTACC
46284971 CTATGGGGGT
Statistics
Matches: 116, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
25 4 0.03
26 7 0.06
27 83 0.72
28 22 0.19
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGCATTACG
Found at i:46284848 original size:27 final size:27
Alignment explanation
Indices: 46284818--46284996 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
46284808 CTACCAGGGC
*
46284818 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
*** *
46284845 ATTACGATCATTTTACCCTATATAAGC
1 ATTACGATCATTTTACCCTATAGGGGT
* * *
46284872 ATTATGATTATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
* *
46284899 ATTACGGTCATTTTACCCCT-TCAGGGGC
1 ATTACGATCATTTTA-CCCTAT-AGGGGT
* * *
46284927 ATTACTATTATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
* * * *
46284954 ATTACGGTTAGTTTACCCTATGGGGGT
1 ATTACGATCATTTTACCCTATAGGGGT
*
46284981 ATTTCGATCATTTTAC
1 ATTACGATCATTTTAC
46284997 ACATCGAGGG
Statistics
Matches: 118, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
27 97 0.82
28 21 0.18
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTATAGGGGT
Found at i:46284885 original size:54 final size:55
Alignment explanation
Indices: 46284827--46284974 Score: 194
Period size: 55 Copynumber: 2.7 Consensus size: 55
46284817 CATTACGGTC
* * *
46284827 ATTTTACCCTATAGGGGTATTACGATCATTTTACCCTAT-ATAAGCATTA-TGATT
1 ATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATCAGAAGCATTACT-ATT
**
46284881 ATTTTACCCTACAGGGGTATTACGGTCATTTTACCCCT-TCAGGGGCATTACTATT
1 ATTTTACCCTACAGGGGTATTACGGTCATTTTA-CCCTATCAGAAGCATTACTATT
* *
46284936 ATTTTACCCTACAGGGGTATTACGGTTAGTTTACCCTAT
1 ATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAT
46284975 GGGGGTATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
54 36 0.43
55 46 0.55
56 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (55 bp):
ATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATCAGAAGCATTACTATT
Found at i:46284969 original size:82 final size:82
Alignment explanation
Indices: 46284818--46284996 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 82
46284808 CTACCAGGGC
* * * *
46284818 ATTACGGTCATTTTA-CCCTATAGGGGTATTACGATCATTTTACCCTATATAAGCATTATGATTA
1 ATTACGGTCATTTTACCCCTATAGGGGCATTACGATCATTTTACCCTACAGAAGCATTACGATTA
*
46284882 TTTTACCCTACAGGGGT
66 GTTTACCCTACAGGGGT
* * ** * *
46284899 ATTACGGTCATTTTACCCCT-TCAGGGGCATTACTATTATTTTACCCTACAGGGGTATTACGGTT
1 ATTACGGTCATTTTACCCCTAT-AGGGGCATTACGATCATTTTACCCTACAGAAGCATTACGATT
**
46284963 AGTTTACCCTATGGGGGT
65 AGTTTACCCTACAGGGGT
* *
46284981 ATTTCGATCATTTTAC
1 ATTACGGTCATTTTAC
46284997 ACATCGAGGG
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 16 0.20
82 65 0.80
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (82 bp):
ATTACGGTCATTTTACCCCTATAGGGGCATTACGATCATTTTACCCTACAGAAGCATTACGATTA
GTTTACCCTACAGGGGT
Found at i:46285358 original size:9 final size:9
Alignment explanation
Indices: 46285329--46285422 Score: 118
Period size: 9 Copynumber: 10.4 Consensus size: 9
46285319 TTTGGATAAA
46285329 AATTAACCG
1 AATTAACCG
* *
46285338 AATTATCTG
1 AATTAACCG
46285347 AATTAACCG
1 AATTAACCG
46285356 AATTAACCG
1 AATTAACCG
46285365 AATTAACCG
1 AATTAACCG
46285374 AA-TAACCCG
1 AATTAA-CCG
46285383 AATTAACCG
1 AATTAACCG
* **
46285392 AGTTCCCCG
1 AATTAACCG
*
46285401 AATTACCCG
1 AATTAACCG
46285410 AATTAACCG
1 AATTAACCG
46285419 AATT
1 AATT
46285423 GAATCAATAC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 3 0.04
9 67 0.92
10 3 0.04
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:46290745 original size:23 final size:22
Alignment explanation
Indices: 46290719--46290784 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
46290709 ATCCAGATCT
*
46290719 CGCCTCAAGGGCATTACAGAATA
1 CGCCACAA-GGCATTACAGAATA
*
46290742 CGCCACACAGGCATTAAAGAATA
1 CGCCACA-AGGCATTACAGAATA
* *
46290765 TGCCACAAAGGCTTTACAGA
1 CGCCAC-AAGGCATTACAGA
46290785 CCATGCCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 34 0.94
24 2 0.06
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (22 bp):
CGCCACAAGGCATTACAGAATA
Found at i:46291263 original size:16 final size:17
Alignment explanation
Indices: 46291242--46291281 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
46291232 ACAAGGCGTG
46291242 CTCTTCATTT-GTCGTA
1 CTCTTCATTTAGTCGTA
*
46291258 CTCTTCCTTTAAGTCGTA
1 CTCTTCATTT-AGTCGTA
46291276 CTCTTC
1 CTCTTC
46291282 CTTCAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.12, C:0.30, G:0.10, T:0.47
Consensus pattern (17 bp):
CTCTTCATTTAGTCGTA
Found at i:46295753 original size:23 final size:23
Alignment explanation
Indices: 46295691--46295787 Score: 88
Period size: 23 Copynumber: 4.2 Consensus size: 23
46295681 TGATAGGATC
* *
46295691 TATTTTGTGATGCCTTTGTGGCA
1 TATTCTGTGATGCCTTTATGGCA
** * * *
46295714 TATTCTGCAATTG-CTTTTTAGCG
1 TATTCTGTGA-TGCCTTTATGGCA
46295737 TATTCTGTGATGCCTTTATGGCA
1 TATTCTGTGATGCCTTTATGGCA
* * *
46295760 TATTTTGTGATACCTTTGTGGCA
1 TATTCTGTGATGCCTTTATGGCA
46295783 TATTC
1 TATTC
46295788 CTGTAATGTC
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
22 2 0.04
23 53 0.93
24 2 0.04
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.47
Consensus pattern (23 bp):
TATTCTGTGATGCCTTTATGGCA
Found at i:46295787 original size:46 final size:46
Alignment explanation
Indices: 46295691--46295787 Score: 104
Period size: 46 Copynumber: 2.1 Consensus size: 46
46295681 TGATAGGATC
* * ** * *
46295691 TATTTTGTGATGCCTTTGTGGCATATTCTGCAATTGCTTTTTAGCG
1 TATTCTGTGATGCCTTTATGGCATATTCTGCAATACCTTTGTAGCA
* ** *
46295737 TATTCTGTGATGCCTTTATGGCATATTTTGTGATACCTTTGTGGCA
1 TATTCTGTGATGCCTTTATGGCATATTCTGCAATACCTTTGTAGCA
46295783 TATTC
1 TATTC
46295788 CTGTAATGTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.47
Consensus pattern (46 bp):
TATTCTGTGATGCCTTTATGGCATATTCTGCAATACCTTTGTAGCA
Found at i:46302123 original size:12 final size:12
Alignment explanation
Indices: 46302108--46302135 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46302098 TACTTACTCT
46302108 CTTACTTGTTTA
1 CTTACTTGTTTA
46302120 CTTACTTGTTTA
1 CTTACTTGTTTA
46302132 CTTA
1 CTTA
46302136 AATAACTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (12 bp):
CTTACTTGTTTA
Found at i:46302462 original size:50 final size:49
Alignment explanation
Indices: 46302399--46302531 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 49
46302389 AAATGTCATA
* * ** *
46302399 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATG-CCATG
1 TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGT-ACCA-GACCATG
* * *
46302449 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAGCACCATG
1 TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAG-ACCATG
*
46302499 TCCCAGACATGGTCTTAC-GTGGGACCTCTCATA
1 TCCCAGACATGGTCTTACAG-GAGACCTCTCATA
46302532 ACCTCAATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.01
49 4 0.06
50 66 0.93
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAGACCATG
Found at i:46317338 original size:31 final size:31
Alignment explanation
Indices: 46317300--46317361 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
46317290 TGTTCAGCCA
46317300 CTATTTTTCTTATTCTTTTCCCTCTTTTCCT
1 CTATTTTTCTTATTCTTTTCCCTCTTTTCCT
46317331 CTATTTTTCTTATTCTTTTCCCTCTTTTCCT
1 CTATTTTTCTTATTCTTTTCCCTCTTTTCCT
46317362 TTCTTTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (31 bp):
CTATTTTTCTTATTCTTTTCCCTCTTTTCCT
Found at i:46328736 original size:5 final size:5
Alignment explanation
Indices: 46328721--46328756 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
46328711 CTACGATTAT
46328721 TTTTAA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
46328757 ACCGTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:46333283 original size:38 final size:38
Alignment explanation
Indices: 46333229--46333325 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 38
46333219 AACCAACCAA
* * *
46333229 AACACGCCAGCTTGCTCGTAAGAGTTATTCCATCCGAT
1 AACACGCCAGTTTGCTCATAAGAGTTATTACATCCGAT
* *
46333267 AATACGCCAGTTTGCTCATAAGAGTTATTACATCTGAT
1 AACACGCCAGTTTGCTCATAAGAGTTATTACATCCGAT
*
46333305 AACACGCCACTTTGCTCATAA
1 AACACGCCAGTTTGCTCATAA
46333326 CAACCATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
AACACGCCAGTTTGCTCATAAGAGTTATTACATCCGAT
Found at i:46344631 original size:27 final size:27
Alignment explanation
Indices: 46344560--46344631 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
46344550 TCGGGTGGCG
* *
46344560 CCTCATAGGGAGGCACCATTAAAAGTG
1 CCTCATAGGGAGGCGCCATTAAAAGTC
* * *
46344587 CCTTATAAGGAGGTGCCATTAAAAGTC
1 CCTCATAGGGAGGCGCCATTAAAAGTC
46344614 CCTCATAGGGAGGCGCCA
1 CCTCATAGGGAGGCGCCA
46344632 ATGGGTAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (27 bp):
CCTCATAGGGAGGCGCCATTAAAAGTC
Found at i:46344685 original size:19 final size:19
Alignment explanation
Indices: 46344636--46345214 Score: 198
Period size: 19 Copynumber: 28.3 Consensus size: 19
46344626 GCGCCAATGG
*
46344636 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
46344655 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
46344676 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
46344695 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
46344718 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
46344738 GT-ATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
46344756 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
46344777 GTAATTTTTTATGAATATT
1 GTAATTTTGTATGAATATT
*
46344796 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
46344812 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
46344834 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
*
46344857 GTAATTTTG--T-AATTTT
1 GTAATTTTGTATGAATATT
* *
46344873 GTATGAATATTG--T-AATTTT
1 G--T-AATTTTGTATGAATATT
46344892 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
46344911 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
46344927 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
46344949 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
*
46344972 GTAATGTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
46344991 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
46345014 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
46345034 GT-ATTTTGTATGAATATTGTAATTTT
1 GTAATTTTGTATG-A-A---T-A--TT
46345060 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
46345079 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
46345102 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
*
46345125 GTAATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
46345144 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
46345167 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
46345190 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
46345209 GTAATT
1 GTAATT
46345215 ATTTTATAAC
Statistics
Matches: 444, Mismatches: 40, Indels: 152
0.70 0.06 0.24
Matches are distributed among these distances:
14 4 0.01
15 12 0.03
16 20 0.05
17 12 0.03
18 8 0.02
19 144 0.32
20 36 0.08
21 48 0.11
22 18 0.04
23 93 0.21
24 6 0.01
25 9 0.02
26 8 0.02
27 26 0.06
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:46344814 original size:101 final size:101
Alignment explanation
Indices: 46344639--46345130 Score: 528
Period size: 101 Copynumber: 4.6 Consensus size: 101
46344629 CCAATGGGTA
* * * *
46344639 ATTTTGTATGTATATTGTAACTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
*
46344704 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
66 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
*
46344740 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
46344805 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
66 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
46344841 ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGA
1 ATTTTGTATGAATATTGTAA---T-T--TTTTGTATGAATATTGTAA-----T--TTTT-TATGA
46344906 ATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
52 ATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
* *
46344956 ATTTTGTATGAATATTGTAA--TGTTGTATGAATATTGTAATTATTTTAT-AATTAATTTTGTAT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATT-TTTTATGAA-T-A--TTGTAA
* ** * * *
46345018 TTATAGTTT-TGGATTAGTATTTTGTATGAATA--TTGTAATTTTGT
61 TTAT--TTTAT-AATTA--ATTTTGTATTTATAGTTTTTGA-TTAGT
46345062 AATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGT
1 -ATTTTGTATGAATATTGTAAT-TT-TTTGTATGAATATTGT-A-ATT-TTT-TATGAATATTGT
46345127 AATT
59 AATT
46345131 TTGTATGGAT
Statistics
Matches: 339, Mismatches: 18, Indels: 58
0.82 0.04 0.14
Matches are distributed among these distances:
99 2 0.01
100 5 0.01
101 118 0.35
102 1 0.00
103 9 0.03
104 2 0.01
105 12 0.04
106 4 0.01
107 69 0.20
110 1 0.00
111 22 0.06
112 2 0.01
113 7 0.02
114 8 0.02
115 77 0.23
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (101 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
Found at i:46344868 original size:8 final size:8
Alignment explanation
Indices: 46344855--46344902 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
46344845 TGTATGAATA
46344855 TTGTAATT
1 TTGTAATT
46344863 TTGTAATT
1 TTGTAATT
*
46344871 TTGTATGAATA
1 TTG--T-AATT
46344882 TTGTAATT
1 TTGTAATT
46344890 TTGTAATT
1 TTGTAATT
46344898 TTGTA
1 TTGTA
46344903 TGAATATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 27 0.77
9 1 0.03
10 1 0.03
11 6 0.17
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (8 bp):
TTGTAATT
Found at i:46344871 original size:27 final size:27
Alignment explanation
Indices: 46344841--46345135 Score: 183
Period size: 27 Copynumber: 11.0 Consensus size: 27
46344831 TTTGATTAGT
46344841 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
46344868 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
46344895 ATTTTGTATGAATATTGTAATTATTTTATA
1 ATTTTGTATGAATATTGT-A--ATTTTGTA
* * *
46344925 ATTAATT-T-TGTAT-TTATAGTTTTTGATTA
1 ATT--TTGTATGAATATTGTA-ATTTTG--TA
*
46344954 GTATTTTGTATGAATATTGTAATGTTGTATGA
1 --ATTTTGTATGAATATTGTAAT-TT-TGT-A
* * * **
46344986 ATATTGTA--ATTATT-TTATAAT-TA
1 ATTTTGTATGAATATTGTAATTTTGTA
** * * *
46345009 ATTTTGTATTTATAGTTTTGGA-TTAGT-
1 ATTTTGTATGAATA-TTGT-AATTTTGTA
46345036 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
46345063 ATTTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
*
46345088 --TTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
46345111 --TTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
46345136 TGGATATTGT
Statistics
Matches: 214, Mismatches: 29, Indels: 52
0.73 0.10 0.18
Matches are distributed among these distances:
23 53 0.25
24 1 0.00
25 4 0.02
26 9 0.04
27 89 0.42
28 9 0.04
29 7 0.03
30 22 0.10
31 10 0.05
32 9 0.04
33 1 0.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTGTA
Found at i:46344915 original size:115 final size:115
Alignment explanation
Indices: 46344775--46344982 Score: 398
Period size: 115 Copynumber: 1.8 Consensus size: 115
46344765 TGTATGAATA
*
46344775 TTGTAATTTTTTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
1 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
*
46344840 TATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATT
66 TATTTTGTATGAATATTGTAATGTTGTAATTTTGTATGAATATTGTAATT
46344890 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
1 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
46344955 TATTTTGTATGAATATTGTAATGTTGTA
66 TATTTTGTATGAATATTGTAATGTTGTA
46344983 TGAATATTGT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 91 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (115 bp):
TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
TATTTTGTATGAATATTGTAATGTTGTAATTTTGTATGAATATTGTAATT
Found at i:46344927 original size:65 final size:64
Alignment explanation
Indices: 46344640--46345214 Score: 264
Period size: 65 Copynumber: 8.9 Consensus size: 64
46344630 CAATGGGTAA
* * *
46344640 TTTTGTATGTATATTGTAACTT-TTTGTATGAATATTATAATTTTGTATGAATATTGTAATTAT-
1 TTTTGTATGAATATTGTAA-TTGTTT-TATGAATATTGTAATTTTGTATGAATATTGTAATTTTG
46344703 T
64 T
* * * * * * * * *
46344704 TTAT-AATTAATTTTGTATTTATAGTTT-TGGAT-TAGT-ATTTTGTATGAATAGTGTAA---T-
1 TTTTGTATGAATATTGTAATTGT--TTTATGAATATTGTAATTTTGTATGAATATTGTAATTTTG
46344761 T
64 T
*
46344762 TTTTGTATGAATATTGTAATT-TTTTATGAATATTGTAATTATTTTAT-AATTAATTTTGT-ATT
1 TTTTGTATGAATATTGTAATTGTTTTATGAATATTGTAATT-TTGTATGAA-T-A--TTGTAATT
46344824 TATAGT
61 T-T-GT
* * ** *
46344830 TTTTG-ATTAGTATTTTGT-A-TG-AATATTGTAATTTTGTAATTTTGTATGAATATTGTAATTT
1 TTTTGTA-T-GAATATTGTAATTGTTTTA-TG-AATATTGTAATTTTGTATGAATATTGTAATTT
46344891 TGT
62 TGT
* ** * *
46344894 AATTTTGTATGAATATTGTAATTATTTTAT--A-A-T-TAATTTTGTATTTATAGTTTTTGA-TT
1 --TTTTGTATGAATATTGTAATTGTTTTATGAATATTGTAATTTTGTATGAATA--TTGTAATTT
*
46344953 AGT
62 TGT
* *
46344956 ATTTTGTATGAATATTGTAA-TGTTGTATGAATATTGTAATTATTTTAT-AATTAATTTTGT-AT
1 -TTTTGTATGAATATTGTAATTGTTTTATGAATATTGTAATT-TTGTATGAA-T-A--TTGTAAT
46345018 TTATAG-
60 TT-T-GT
* * * ** * *
46345024 TTTTGGATTAGTATTTTGT-A-TG-AATATTGTAATTTTGTAATTTTGTATGAATATTGTAATAT
1 TTTTGTA-T-GAATATTGTAATTGTTTTA-TG-AATATTGTAATTTTGTATGAATATTGTAATTT
46345086 TG-
62 TGT
* *
46345088 -TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATTTTGTATGGATATTGTAATATT
1 TTTTGTATGAATATTGT-A-ATTGTTT-TATGAATATTGTAATTTTGTATGAATATTGTAATTTT
46345152 G-
63 GT
46345153 -TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGT-A-ATTGTTT-TATGAATATTGTAATTTTGTATGAATATTGTAATT
46345215 ATTTTATAAC
Statistics
Matches: 395, Mismatches: 60, Indels: 111
0.70 0.11 0.20
Matches are distributed among these distances:
56 3 0.01
57 4 0.01
58 9 0.02
59 17 0.04
60 12 0.03
61 61 0.15
62 12 0.03
63 27 0.07
64 10 0.03
65 119 0.30
66 24 0.06
67 26 0.07
68 30 0.08
69 41 0.10
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (64 bp):
TTTTGTATGAATATTGTAATTGTTTTATGAATATTGTAATTTTGTATGAATATTGTAATTTTGT
Found at i:46344982 original size:80 final size:80
Alignment explanation
Indices: 46344890--46345062 Score: 328
Period size: 80 Copynumber: 2.2 Consensus size: 80
46344880 TATTGTAATT
*
46344890 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
1 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
46344955 TATTTTGTATGAATA
66 TATTTTGTATGAATA
*
46344970 TTGTAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
1 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
46345035 TATTTTGTATGAATA
66 TATTTTGTATGAATA
46345050 TTGTAATTTTGTA
1 TTGTAATTTTGTA
46345063 ATTTTGTATG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 90 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (80 bp):
TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
TATTTTGTATGAATA
Found at i:46345095 original size:23 final size:23
Alignment explanation
Indices: 46345038--46345213 Score: 242
Period size: 23 Copynumber: 7.8 Consensus size: 23
46345028 GGATTAGTAT
*
46345038 TTTGTATGAATATTGTAATTTTG
1 TTTGTATGAATATTGTAATATTG
46345061 TAATTTTGTATGAATATTGTAATATTG
1 ----TTTGTATGAATATTGTAATATTG
46345088 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
46345111 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
*
46345130 TTTGTATGGATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
46345153 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
46345176 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
46345195 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
46345214 TATTTTATAA
Statistics
Matches: 140, Mismatches: 3, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
19 31 0.22
20 4 0.03
21 3 0.02
22 3 0.02
23 77 0.55
27 22 0.16
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (23 bp):
TTTGTATGAATATTGTAATATTG
Found at i:46345104 original size:42 final size:46
Alignment explanation
Indices: 46345038--46345213 Score: 242
Period size: 42 Copynumber: 3.9 Consensus size: 46
46345028 GGATTAGTAT
*
46345038 TTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG----TTTGTATGAATATTGTAATATTG
46345088 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
*
46345130 TTTGTATGGATATTGTAATATTGTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
46345176 TTTGTATGAATATTGT-A-A-T-TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAAT
46345214 TATTTTATAA
Statistics
Matches: 119, Mismatches: 3, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
42 57 0.48
43 3 0.03
44 3 0.03
45 3 0.03
46 31 0.26
50 22 0.18
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (46 bp):
TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
Found at i:46345104 original size:88 final size:92
Alignment explanation
Indices: 46344966--46345214 Score: 267
Period size: 88 Copynumber: 2.8 Consensus size: 92
46344956 ATTTTGTATG
* * * * *
46344966 AATATTGTAATGTTGTATGAATATTGTAATTATT-TTAT-AATTAATTTTGTATTTATAG-TT-T
1 AATATTGTAATTTTGTATGAATATTGTAA-TATTGTT-TGTATGAATATTGTA-ATATAGTTTGT
*
46345027 -TGGAT-TAGT-ATTTTGTATGAATATTGT
63 ATGAATATAGTAATTTTGTATGAATATTGT
* *
46345054 AATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTGTTTGTATG
1 AATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATAGTTTGTATG
* *
46345119 AATATTGTAATTTTGTATGGATATTGT
66 AATATAGTAATTTTGTATGAATATTGT
46345146 AATATTG----TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGT-A-AT--TTTGTATG
1 AATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATAGTTTGTATG
*
46345203 AATATTGTAATT
66 AATATAGTAATT
46345215 ATTTTATAAC
Statistics
Matches: 143, Mismatches: 11, Indels: 18
0.83 0.06 0.10
Matches are distributed among these distances:
84 20 0.14
86 2 0.01
87 10 0.07
88 80 0.56
89 1 0.01
90 4 0.03
91 3 0.02
92 23 0.16
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (92 bp):
AATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATAGTTTGTATG
AATATAGTAATTTTGTATGAATATTGT
Found at i:46345159 original size:195 final size:195
Alignment explanation
Indices: 46344740--46345195 Score: 597
Period size: 195 Copynumber: 2.4 Consensus size: 195
46344730 TTGGATTAGT
*
46344740 ATTTTGTATGAATAG-TGT-AAT--T-TTTTGTATGAATATTGT-A-ATT-TTT-TATGAATATT
1 ATTTTGTATGGATAGTTGTGAATAGTATTTTGTATGAATATTGTAATATTGTTTGTATGAATATT
*
46344796 GTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAA
66 GTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAA
*
46344861 TTTTGTAATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATTATTTTATAA
131 TTTTGTAATTTTGTATGAATATTGTAATATTG--A-TTTGTATGAATATTGTAATTATTTTATAA
46344926 TTA
193 TTA
** * *
46344929 ATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGT-A-A-TG-TTGTATGAATAT
1 ATTTTGTATGGATAG-TTGTGAATAGTATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
46344990 TGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
65 TGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
*
46345055 ATTTTGTAATTTTGTATGAATATTGTAATATTG-TTTGTATGAATATTGTAATATTGTTTGTATG
130 ATTTTGTAATTTTGTATGAATATTGTAATATTGATTTGTATGAATATTGT-A-ATTATTT-TAT-
46345119 AATATTGTA
191 -A-A-T-TA
46345128 ATTTTGTATGGATA-TTGT-AATA-T-TGTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
1 ATTTTGTATGGATAGTTGTGAATAGTAT-TTTGTATGAATATTGTAATATTGTTTGTATGAATAT
46345189 TGTAATT
65 TGTAATT
46345196 TTGTATGAAT
Statistics
Matches: 235, Mismatches: 11, Indels: 32
0.85 0.04 0.12
Matches are distributed among these distances:
189 13 0.06
191 18 0.08
192 3 0.01
193 6 0.03
194 8 0.03
195 141 0.60
196 5 0.02
197 5 0.02
198 3 0.01
199 33 0.14
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (195 bp):
ATTTTGTATGGATAGTTGTGAATAGTATTTTGTATGAATATTGTAATATTGTTTGTATGAATATT
GTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAA
TTTTGTAATTTTGTATGAATATTGTAATATTGATTTGTATGAATATTGTAATTATTTTATAATTA
Found at i:46345289 original size:60 final size:60
Alignment explanation
Indices: 46345207--46345328 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
46345197 TGTATGAATA
* * * * *
46345207 TTGTAATTATTTTATAACTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAACTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
46345267 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTTAAAA-CTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
46345327 TT
1 TT
46345329 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTTAAAACTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:46345482 original size:15 final size:16
Alignment explanation
Indices: 46345446--46345482 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46345436 CTCATTTAAT
46345446 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
46345462 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
46345477 TTTTAT
1 TTTTAT
46345483 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:46346770 original size:17 final size:17
Alignment explanation
Indices: 46346748--46346788 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 17
46346738 GAGAAAAAAA
46346748 AAGAGAGAAAGGAGAAG
1 AAGAGAGAAAGGAGAAG
46346765 -A-AGAG-AAGGAGAAG
1 AAGAGAGAAAGGAGAAG
46346779 AAGA-AGAAAG
1 AAGAGAGAAAG
46346789 AAAAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
14 9 0.43
15 7 0.33
16 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (17 bp):
AAGAGAGAAAGGAGAAG
Found at i:46346981 original size:22 final size:21
Alignment explanation
Indices: 46346955--46347041 Score: 90
Period size: 22 Copynumber: 4.2 Consensus size: 21
46346945 TAGATTAGAA
*
46346955 TTTTGTATGAATATTTTAACTT
1 TTTTGTATGAATATTATAA-TT
46346977 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTATAATT
*
46346998 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
* * *
46347016 TGTTGTATTAATATTGTAATT
1 TTTTGTATGAATATTATAATT
46347037 ATTTT
1 -TTTT
46347042 ATAATTAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.05
19 13 0.23
20 13 0.23
21 6 0.11
22 21 0.38
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTGTATGAATATTATAATT
Found at i:46347005 original size:20 final size:20
Alignment explanation
Indices: 46346955--46347043 Score: 90
Period size: 20 Copynumber: 4.4 Consensus size: 20
46346945 TAGATTAGAA
* *
46346955 TTTTGTATGAATATTTTAACT
1 TTTTTTATGAATATTGTAA-T
*
46346976 TTTTTGTATGAATATTATAAT
1 TTTTT-TATGAATATTGTAAT
46346997 TTTTTTATGAATATTGTAA-
1 TTTTTTATGAATATTGTAAT
* * *
46347016 TGTTGTATTAATATTGTAAT
1 TTTTTTATGAATATTGTAAT
*
46347036 TATTTTAT
1 TTTTTTAT
46347044 AATTAAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.28
20 19 0.33
21 10 0.17
22 13 0.22
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.58
Consensus pattern (20 bp):
TTTTTTATGAATATTGTAAT
Found at i:46347046 original size:19 final size:19
Alignment explanation
Indices: 46346986--46347046 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
46346976 TTTTTGTATG
* *
46346986 AATATTATAATTTTTTTAT
1 AATATTGTAATTATTTTAT
* *
46347005 GAATATTGTAA-TGTTGTATT
1 -AATATTGTAATTATTTTA-T
46347025 AATATTGTAATTATTTTAT
1 AATATTGTAATTATTTTAT
46347044 AAT
1 AAT
46347047 TAAATTTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
AATATTGTAATTATTTTAT
Found at i:46347533 original size:15 final size:15
Alignment explanation
Indices: 46347492--46347533 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
46347482 GTTAACTCAT
*
46347492 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
46347507 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
46347523 TTAAATTTTAT
1 TTAAATTTTAT
46347534 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:46352534 original size:22 final size:21
Alignment explanation
Indices: 46352499--46352543 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
46352489 TACCTAATTT
*
46352499 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
46352520 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
46352542 TT
1 TT
46352544 ATTTCTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:46352647 original size:27 final size:28
Alignment explanation
Indices: 46352609--46352679 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 28
46352599 AAAATAACAG
*
46352609 CATTGGCGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
46352636 CATTGGCGCCTCCCAG-GTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
46352663 CATTGGCGCCTCCCAGA
1 CATTGGCGCCTCCCAGA
46352680 TAGACGCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:46353082 original size:29 final size:30
Alignment explanation
Indices: 46353050--46353106 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46353040 ATAGTTACCC
* * *
46353050 AACTTT-GAAAAGTTATAACTCAGTCACTA
1 AACTTTAGAAAAATAATAAATCAGTCACTA
46353079 AACTTTAGAAAAATAATAAATCAGTCAC
1 AACTTTAGAAAAATAATAAATCAGTCAC
46353107 CCGTAACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (30 bp):
AACTTTAGAAAAATAATAAATCAGTCACTA
Found at i:46360726 original size:29 final size:29
Alignment explanation
Indices: 46360692--46360749 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
46360682 AATGGCAATG
*
46360692 GCAACACTGATGGTCATTGTAGAAAATAA
1 GCAACACTAATGGTCATTGTAGAAAATAA
46360721 GCAACACTAATGGTCATTGTAGAAAATAA
1 GCAACACTAATGGTCATTGTAGAAAATAA
46360750 ATCATTTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (29 bp):
GCAACACTAATGGTCATTGTAGAAAATAA
Found at i:46364748 original size:30 final size:30
Alignment explanation
Indices: 46364712--46364771 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
46364702 TAAAAAAATA
46364712 AAATTATTATTGGTTCTATTTTAGATTATT
1 AAATTATTATTGGTTCTATTTTAGATTATT
46364742 AAATTATTATTGGTTCTATTTTAGATTATT
1 AAATTATTATTGGTTCTATTTTAGATTATT
46364772 TTACTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (30 bp):
AAATTATTATTGGTTCTATTTTAGATTATT
Found at i:46369313 original size:17 final size:18
Alignment explanation
Indices: 46369291--46369328 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
46369281 ATAAATTATT
46369291 AAAAATACA-TAAAAATA
1 AAAAATACATTAAAAATA
*
46369308 AAAAATATATTTAAAAATA
1 AAAAATACA-TTAAAAATA
46369327 AA
1 AA
46369329 GAAAACTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATACATTAAAAATA
Found at i:46369607 original size:10 final size:10
Alignment explanation
Indices: 46369592--46369636 Score: 67
Period size: 9 Copynumber: 4.7 Consensus size: 10
46369582 GAAAAATAGA
*
46369592 AAAAGAAAGT
1 AAAAGAAAAT
46369602 AAAAGAAAAT
1 AAAAGAAAAT
46369612 -AAAGAAAAT
1 AAAAGAAAAT
46369621 -AAAGAAAAT
1 AAAAGAAAAT
46369630 AAAAGAA
1 AAAAGAA
46369637 TTAAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (10 bp):
AAAAGAAAAT
Found at i:46369624 original size:24 final size:23
Alignment explanation
Indices: 46369579--46369633 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
46369569 CAGGAAGAAG
*
46369579 AAAGAAAAATAGAAAAAGAAAGTA
1 AAAGAAAAAAAGAAAAAGAAAG-A
*
46369603 AAAGAAAATAAAG-AAAATAAAGA
1 AAAGAAAA-AAAGAAAAAGAAAGA
*
46369626 AAATAAAA
1 AAAGAAAA
46369634 GAATTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.30
24 16 0.59
25 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (23 bp):
AAAGAAAAAAAGAAAAAGAAAGA
Found at i:46369634 original size:19 final size:20
Alignment explanation
Indices: 46369592--46369636 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
46369582 GAAAAATAGA
*
46369592 AAAAGAAAGTAAAAGAAAAT
1 AAAAGAAAATAAAAGAAAAT
46369612 -AAAGAAAAT-AAAGAAAAT
1 AAAAGAAAATAAAAGAAAAT
46369630 AAAAGAA
1 AAAAGAA
46369637 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (20 bp):
AAAAGAAAATAAAAGAAAAT
Found at i:46369761 original size:19 final size:20
Alignment explanation
Indices: 46369725--46369771 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
46369715 GTGTAAAATG
* *
46369725 GGTACCAAAAGAATAGTTTA
1 GGTACCAAAAAAAAAGTTTA
46369745 GGTA-CAAAAAAAAAGTTTA
1 GGTACCAAAAAAAAAGTTTA
*
46369764 GATACCAA
1 GGTACCAA
46369772 CTTGAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (20 bp):
GGTACCAAAAAAAAAGTTTA
Done.