Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008492.1 Hibiscus syriacus cultivar Beakdansim tig00111334_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1113585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:650947 original size:12 final size:11
Alignment explanation
Indices: 650911--651027 Score: 62
Period size: 12 Copynumber: 10.2 Consensus size: 11
650901 AGATCCAATC
650911 AAAAA-CAAAG
1 AAAAAGCAAAG
*
650921 AAAAATCAAAGAG
1 AAAAAGC-AA-AG
650934 AAAAGAGCAAAG
1 AAAA-AGCAAAG
*
650946 AAAAAAACAAAG
1 -AAAAAGCAAAG
* *
650958 AGCAGAG-AGAA-
1 A-AAAAGCA-AAG
*
650969 AAAAATCAAAG
1 AAAAAGCAAAG
650980 CAAAAA-CAAAG
1 -AAAAAGCAAAG
*
650991 AAAAATCAAAG
1 AAAAAGCAAAG
*
651002 CAAAAGTCAAAG
1 AAAAAG-CAAAG
651014 AAAAAAGCAAAG
1 -AAAAAGCAAAG
651026 AA
1 AA
651028 CAAAAAGAGG
Statistics
Matches: 83, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
10 14 0.17
11 21 0.25
12 29 0.35
13 17 0.20
14 2 0.02
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.03
Consensus pattern (11 bp):
AAAAAGCAAAG
Found at i:650959 original size:19 final size:22
Alignment explanation
Indices: 650935--650979 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
650925 ATCAAAGAGA
650935 AAAGAGCA-A-AGAAAAAAA-C
1 AAAGAGCAGAGAGAAAAAAATC
650954 AAAGAGCAGAGAGAAAAAAATC
1 AAAGAGCAGAGAGAAAAAAATC
650976 AAAG
1 AAAG
650980 CAAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 9 0.39
22 5 0.22
ACGTcount: A:0.69, C:0.09, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAGAGCAGAGAGAAAAAAATC
Found at i:652235 original size:12 final size:12
Alignment explanation
Indices: 652212--652281 Score: 81
Period size: 12 Copynumber: 6.0 Consensus size: 12
652202 AAGAGTATAC
*
652212 ACATACATACAT
1 ACATATATACAT
*
652224 ACGTATATACAT
1 ACATATATACAT
* *
652236 ACGTACATACAT
1 ACATATATACAT
652248 ACATATATACAT
1 ACATATATACAT
*
652260 ACATACATACAT
1 ACATATATACAT
652272 --ATATATACAT
1 ACATATATACAT
652282 GATACATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.18
12 42 0.82
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (12 bp):
ACATATATACAT
Found at i:652278 original size:4 final size:4
Alignment explanation
Indices: 652212--652272 Score: 86
Period size: 4 Copynumber: 15.2 Consensus size: 4
652202 AAGAGTATAC
* * * *
652212 ACAT ACAT ACAT ACGT ATAT ACAT ACGT ACAT ACAT ACAT ATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
652260 ACAT ACAT ACAT A
1 ACAT ACAT ACAT A
652273 TATATACATG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (4 bp):
ACAT
Found at i:652608 original size:13 final size:13
Alignment explanation
Indices: 652590--652615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
652580 ATTGAAGTAA
652590 AATTCAGTCTCTT
1 AATTCAGTCTCTT
652603 AATTCAGTCTCTT
1 AATTCAGTCTCTT
652616 CAGACATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
AATTCAGTCTCTT
Found at i:652690 original size:36 final size:36
Alignment explanation
Indices: 652650--652747 Score: 187
Period size: 36 Copynumber: 2.7 Consensus size: 36
652640 GATTTTTCTA
*
652650 AAAACAAATTTTGTCTCTCTTGAGACAATTTATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
652686 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
652722 AAAACAAATTTTGTCTCGCTTGAGAC
1 AAAACAAATTTTGTCTCGCTTGAGAC
652748 CTTTTCCCTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
Found at i:652828 original size:35 final size:36
Alignment explanation
Indices: 652789--652917 Score: 101
Period size: 36 Copynumber: 3.7 Consensus size: 36
652779 GTTTCACATT
*
652789 AAACAAA-GTTGATCTCACTTGAGATC-GTTTCTC-AA
1 AAACAAACGTTG-TCTCACTTGAGA-CAATTTCTCTAA
* *
652824 AAACAAACTTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAACAAACGTTGTCTCACTTGAGACAATTTCTCTAA
** * *
652860 AAACAAATTTTGTCTCA-TCTGAGAC--TATATC-AA
1 AAACAAACGTTGTCTCACT-TGAGACAATTTCTCTAA
* *
652893 AAACAAACTTTGTCTCATTTGAGAC
1 AAACAAACGTTGTCTCACTTGAGAC
652918 TATATCTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
33 24 0.30
34 6 0.07
35 25 0.31
36 26 0.32
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (36 bp):
AAACAAACGTTGTCTCACTTGAGACAATTTCTCTAA
Found at i:652949 original size:34 final size:34
Alignment explanation
Indices: 652823--652951 Score: 129
Period size: 33 Copynumber: 3.8 Consensus size: 34
652813 TCGTTTCTCA
* *
652823 AAAACAAACTTTGTCTCGCTTGAGACAATTTCTCT
1 AAAACAAACTTTGTCTCGCTTGAGACTATATCT-T
* * *
652858 AAAAACAAATTTTGTCTC-ATCTGAGACTATATC-A
1 -AAAACAAACTTTGTCTCGCT-TGAGACTATATCTT
**
652892 AAAACAAACTTTGTCTCATTTGAGACTATATCTT
1 AAAACAAACTTTGTCTCGCTTGAGACTATATCTT
*
652926 AAAGCAAA-TTTCGTCTCGCTTGAGAC
1 AAAACAAACTTT-GTCTCGCTTGAGAC
652952 ATCATTTTCT
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
33 31 0.40
34 20 0.26
35 1 0.01
36 26 0.33
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (34 bp):
AAAACAAACTTTGTCTCGCTTGAGACTATATCTT
Found at i:653015 original size:206 final size:205
Alignment explanation
Indices: 652641--653019 Score: 434
Period size: 206 Copynumber: 1.8 Consensus size: 205
652631 AAATTTTGAG
* * * *
652641 ATTTTTCTAAAAACAAATTTTGTCTCTCTTGAGACAATTTATTTCAAAACAAATTTTGTCTCGCT
1 ATTTCTCTAAAAACAAATTTTGTCTCTCTTGAGAC-A--TATATCAAAACAAACTTTGTCTCACT
* * * *
652706 TGAGACAATTTATTTCAAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATT
63 TGAGAC-ATATATTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTATGAGATACAAATT
* * * *
652771 TCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTCTCAAAAACAAACTTTG
127 TCGAAGTTGTTTCACATTAAACAAAATTAATATCACTTGAGATCGTTTCTCAAAAACAAACTTTG
652836 TCTCGCTTGAGACA
192 TCTCGCTTGAGACA
*
652850 ATTTCTCTAAAAACAAATTTTGTCTCATC-TGAGAC-TATATCAAAAACAAACTTTGTCTCATTT
1 ATTTCTCTAAAAACAAATTTTGTCTC-TCTTGAGACATATATC-AAAACAAACTTTGTCTCACTT
* *
652913 GAGAC-TATATCTT-AAAGCAAATTTCGTCTCGCTTGAGACATCATTTTCTCTCAT-A-ATACAA
64 GAGACATATAT-TTCAAAACAAATTTCGTCTCGCTTGAGAC--C-TTTTCCCT-ATGAGATACAA
652974 ATTTC-AAGGTTGTTGT-AC-TTAAAGCAAAATTAATATCACTTGAGAT
124 ATTTCGAA-GTTGTT-TCACATTAAA-CAAAATTAATATCACTTGAGAT
653020 TTTCAAAGCT
Statistics
Matches: 145, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
204 28 0.19
205 14 0.10
206 60 0.41
207 9 0.06
208 1 0.01
209 31 0.21
210 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.37
Consensus pattern (205 bp):
ATTTCTCTAAAAACAAATTTTGTCTCTCTTGAGACATATATCAAAACAAACTTTGTCTCACTTGA
GACATATATTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTATGAGATACAAATTTCGA
AGTTGTTTCACATTAAACAAAATTAATATCACTTGAGATCGTTTCTCAAAAACAAACTTTGTCTC
GCTTGAGACA
Found at i:653233 original size:29 final size:27
Alignment explanation
Indices: 653200--653327 Score: 145
Period size: 29 Copynumber: 4.6 Consensus size: 27
653190 ATTTCTTTTG
653200 GAAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAAATCTTTGAGTTTGTTCCT-TT
*
653228 G-AAAAAATCTTCGAGTTTGTTCCTTTT
1 GAAAAAAATCTTTGAGTTTGTTCC-TTT
*
653255 GAATAAAAATCTTGGAGTTTGTTCCTTT
1 GAA-AAAAATCTTTGAGTTTGTTCCTTT
* *
653283 GGAATAAAAATCTGTGAG-TTGTTTCGTTT
1 -GAA-AAAAATCTTTGAGTTTG-TTCCTTT
653312 G-AAAAAATCTTTGAGT
1 GAAAAAAATCTTTGAGT
653328 CTATTTACTT
Statistics
Matches: 88, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.14
27 25 0.28
28 10 0.11
29 41 0.47
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (27 bp):
GAAAAAAATCTTTGAGTTTGTTCCTTT
Found at i:653264 original size:56 final size:56
Alignment explanation
Indices: 653194--653327 Score: 161
Period size: 56 Copynumber: 2.4 Consensus size: 56
653184 AAGACAATTT
653194 CTTTTGGAAAAAAATCTTTGAGTTTGTTCCTCTT-G-A-AAAAATCT-TCGAGTTTGTTC
1 CTTTT-GAAAAAAATCTTTGAGTTTGTTCCT-TTGGAATAAAAATCTGT-GAG-TTGTTC
* *
653250 CTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTT
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTC
*
653307 CGTTTG-AAAAAATCTTTGAGT
1 CTTTTGAAAAAAATCTTTGAGT
653328 CTATTTACTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
55 18 0.26
56 28 0.41
57 11 0.16
58 11 0.16
59 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (56 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTC
Found at i:653339 original size:27 final size:26
Alignment explanation
Indices: 653288--653342 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
653278 CCTTTGGAAT
*
653288 AAAAATCTGTGAGTTGTTTCGTTTGA
1 AAAAATCTGTGAGTTATTTCGTTTGA
*
653314 AAAAATCTTTGAGTCTATTTAC-TTTGA
1 AAAAATCTGTGAGT-TATTT-CGTTTGA
653341 AA
1 AA
653343 CAAAGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 11 0.44
28 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (26 bp):
AAAAATCTGTGAGTTATTTCGTTTGA
Found at i:653435 original size:92 final size:95
Alignment explanation
Indices: 653288--653506 Score: 258
Period size: 92 Copynumber: 2.3 Consensus size: 95
653278 CCTTTGGAAT
* * *
653288 AAAAATCTGTGAGTTGTTTCGTTTG--A-AAAAATCTTTGAGTCTATTTACTTTGAAACAAAGTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTACTTTGAAACAAAATT
*
653350 TTGTCTCTCTTGAGACAA-TT-TTGTG-A-
66 TTGTCTCTCTTAAGACAATTTCTTGTGAAC
*
653376 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGGT-TGTTT-CTTTGGAAACAAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAAATCTTTGA-GTCTATTTACTTT-GAAACAAA
* *
653439 ATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
63 ATTTTGTCTCTCTTAAGACAATTTCTTGTG-AAC
*
653473 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAA
653507 TTTTGTCTCT
Statistics
Matches: 111, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
88 12 0.11
89 11 0.10
91 5 0.05
92 42 0.38
93 4 0.04
94 4 0.04
96 1 0.01
97 32 0.29
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (95 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTACTTTGAAACAAAATT
TTGTCTCTCTTAAGACAATTTCTTGTGAAC
Found at i:653440 original size:29 final size:30
Alignment explanation
Indices: 653376--653506 Score: 127
Period size: 30 Copynumber: 4.1 Consensus size: 30
653366 AATTTTGTGA
*
653376 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
653406 AAAAATCTTTGAGGTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
* * ** *
653436 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTGGAAAC
*
653473 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
653503 AAAA
1 AAAA
653507 TTTTGTCTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
30 53 0.66
31 3 0.04
36 3 0.04
37 21 0.26
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.42
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:653473 original size:37 final size:37
Alignment explanation
Indices: 653423--653543 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 37
653413 TTTGAGGTTG
653423 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* * * * **
653460 TTTCTTTTGAAACAAAA------ATCT-TTGAGTTTG
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
653490 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
653527 TTTCTTCT-GAAACAAAA
1 TTTCTT-TGGAAACAAAA
653544 ATCTTTGAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
30 21 0.33
31 3 0.05
36 3 0.05
37 36 0.56
38 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:653479 original size:67 final size:67
Alignment explanation
Indices: 653393--653551 Score: 300
Period size: 67 Copynumber: 2.4 Consensus size: 67
653383 TTTGAGATTG
653393 TTTCTTTTGAAACAAAAATCTTTGAGGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
653458 AA
66 AA
*
653460 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
653525 AA
66 AA
*
653527 TTTCTTCTGAAACAAAAATCTTTGA
1 TTTCTTTTGAAACAAAAATCTTTGA
653552 ATATGTTTCT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 90 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:653856 original size:120 final size:120
Alignment explanation
Indices: 653662--653887 Score: 277
Period size: 120 Copynumber: 1.9 Consensus size: 120
653652 TTAACAAAAT
*
653662 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTGAGACAATTTCTAATTAAAAAC
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATTAAAAAC
653727 TAACTTTTGAGAT-TGTTTCATTT-GAAAC-AAATTTGGTCTCACTTAAGATGTAATC
66 -AACTTTTGAG-TCTGTTTC-TTTGGAAACAAAATTTGGTCTCACTTAAGATGTAATC
* ** *
653782 CATCTTTGAGTCTGTTTCTTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCT-TTTGAAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTAATT-AAA
*
653844 AA-AATCTCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTC
63 AACAA-CT-TTTGAGTCTGTTTCTTTGGAAACAAAATTTGGTCTC
653888 TCGAGACAAC
Statistics
Matches: 92, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
118 2 0.02
119 16 0.17
120 59 0.64
121 15 0.16
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (120 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATTAAAAAC
AACTTTTGAGTCTGTTTCTTTGGAAACAAAATTTGGTCTCACTTAAGATGTAATC
Found at i:653998 original size:31 final size:31
Alignment explanation
Indices: 653963--654037 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
653953 CCTTGAGGCA
653963 GTTTCTCTAT-AAATATAAA-ATCTTTGAGTTT
1 GTTTCTCT-TGAAATA-AAACATCTTTGAGTTT
*
653994 GTTTCTCTTGAAATAAAACCATCTTTGAG-TC
1 GTTTCTCTTGAAATAAAA-CATCTTTGAGTTT
*
654025 GTTTCCCTTGAAA
1 GTTTCTCTTGAAA
654038 CGAATTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 4 0.10
31 26 0.67
32 9 0.23
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (31 bp):
GTTTCTCTTGAAATAAAACATCTTTGAGTTT
Found at i:654096 original size:32 final size:32
Alignment explanation
Indices: 653982--654103 Score: 79
Period size: 32 Copynumber: 3.8 Consensus size: 32
653972 TAAATATAAA
* * *
653982 ATCTTTGAGTTTGTTTCTCTTGAAATAAAACC
1 ATCTTTGAGTTTGTTTCTCTTAAAACAAAATC
* * * **
654014 ATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTC
1 ATCTTTGAGTTTGTTTCTCTTAAAAC-AA-AATC
** *
654047 A-CTCTTGAGACAT-TTTCTCTTAAAACAAGATC
1 ATCT-TTGAG-TTTGTTTCTCTTAAAACAAAATC
*
654079 ATCTTTGAGTTTGTTTCTCTGAAAA
1 ATCTTTGAGTTTGTTTCTCTTAAAA
654104 AAATGTTTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
31 14 0.21
32 32 0.47
33 11 0.16
34 11 0.16
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (32 bp):
ATCTTTGAGTTTGTTTCTCTTAAAACAAAATC
Found at i:654328 original size:28 final size:28
Alignment explanation
Indices: 654278--654331 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
654268 TCAAAATCCA
* *
654278 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
654306 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
654332 CATTATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:654451 original size:40 final size:40
Alignment explanation
Indices: 654396--654730 Score: 249
Period size: 40 Copynumber: 8.0 Consensus size: 40
654386 CTTTAGATGG
*
654396 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCC-CGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCTAGA
*
654436 CCAGATCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGATAA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTAG---A
* * * * *
654478 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCATC-CC--TAGA
*
654521 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCC-CGA
1 ---CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCTAGA
*
654564 CCAGATCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGATAA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTAG---A
* * * *
654606 CCAG--CGTCCTCATCACGTAGGAAACCGTGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTATG-AGCCGTGTCATC-CC--TAGA
654649 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCTCC--GA
1 ---CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TC-CCTAGA
*
654692 CCAGATCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTAGA
654731 TAACCAGCCG
Statistics
Matches: 238, Mismatches: 25, Indels: 65
0.73 0.08 0.20
Matches are distributed among these distances:
37 2 0.01
38 7 0.03
39 4 0.02
40 94 0.39
41 14 0.06
42 39 0.16
43 8 0.03
44 4 0.02
46 45 0.19
47 20 0.08
48 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTAGA
Found at i:654545 original size:88 final size:87
Alignment explanation
Indices: 654436--654802 Score: 291
Period size: 88 Copynumber: 4.3 Consensus size: 87
654426 CATTCCCCGA
*
654436 CCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTAGATAACCAG-CCGTCCTCATCACGTAGG
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCACCCTAGATAACCAGACC-TCCTCATCACGTAGG
654500 AACCGTGTTATCACCTTTAGATGG
65 AACCGTGTTATCACC-TTAGATGG
* * * *
654524 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCC-CG---ACCAGATCTCTTCATCACGTAT
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA--CCCTAGATAACCAGACCTCCTCATCACGTAG
* * **
654585 GAGCCGTG---TCACCCTAGATAA
64 GAACCGTGTTATCACCTTAGATGG
* * * * ** * *
654606 CCAG--CGTCCTCATCACGTAGGAAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCAC
1 CCAGAAC-TCTTCATCACGTATG-AGCCGTG---TCACC-CTAGATAACCAGACCTCCTCATCAC
* * * *
654669 GTATGAGCCGTGTCATTCTCC---GA---
60 GTAGGAACCGTGTTA-TCACCTTAGATGG
*
654692 CCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTAGATAACCAG-CCGTCCTCATCACGTAGG
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCACCCTAGATAACCAGACC-TCCTCATCACGTAGG
654756 AACCGTGTTATCACCTTTAGATGG
65 AACCGTGTTATCACC-TTAGATGG
*
654780 CCAGAACTCTTCATCATGTATGA
1 CCAGAACTCTTCATCACGTATGA
654803 ACAGTGTCGT
Statistics
Matches: 221, Mismatches: 31, Indels: 54
0.72 0.10 0.18
Matches are distributed among these distances:
80 1 0.00
81 18 0.08
82 45 0.20
83 12 0.05
85 6 0.03
86 34 0.15
87 14 0.06
88 81 0.37
89 3 0.01
90 3 0.01
92 4 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (87 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCACCCTAGATAACCAGACCTCCTCATCACGTAGGA
ACCGTGTTATCACCTTAGATGG
Found at i:654810 original size:128 final size:128
Alignment explanation
Indices: 654344--654802 Score: 884
Period size: 128 Copynumber: 3.6 Consensus size: 128
654334 TTATCCCTAG
654344 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
654409 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
654472 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
654537 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
654600 AGATAACCAG-CGTCCTCATCACGTAGGAAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTC
1 AGATAACCAGCCGTCCTCATCACGTAGG-AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTC
*
654664 ATCACGTATGAGCCGTGTCATTCTCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
65 ATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
654728 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
654793 TCATGTATGA
66 TCACGTATGA
654803 ACAGTGTCGT
Statistics
Matches: 327, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
127 17 0.05
128 293 0.90
129 17 0.05
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (128 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
Found at i:654979 original size:3 final size:3
Alignment explanation
Indices: 654966--655029 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
654956 GTTTTTTCCG
** *
654966 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
655011 TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA
655030 CAATTTTTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:655007 original size:32 final size:32
Alignment explanation
Indices: 654964--655027 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
654954 GGGTTTTTTC
*
654964 CGTTATTTTATTATTATTATTATTA-TTATTAT
1 CGTTATCTTATTATT-TTATTATTATTTATTAT
654996 CGTTATCTTATTATTTTATTATTATTTATTAT
1 CGTTATCTTATTATTTTATTATTATTTATTAT
655028 TACAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (32 bp):
CGTTATCTTATTATTTTATTATTATTTATTAT
Found at i:655531 original size:11 final size:12
Alignment explanation
Indices: 655514--655546 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
655504 GGTTCAGGGA
655514 GAGAAAAAAAAC
1 GAGAAAAAAAAC
655526 -AGAAAAAAAAAC
1 GAG-AAAAAAAAC
655538 GAGAAAAAA
1 GAGAAAAAA
655547 GAGATCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (12 bp):
GAGAAAAAAAAC
Found at i:655535 original size:13 final size:13
Alignment explanation
Indices: 655512--655546 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
655502 CGGGTTCAGG
655512 GAGAGAAAAAAAAC
1 GAGA-AAAAAAAAC
655526 -AGAAAAAAAAAC
1 GAGAAAAAAAAAC
655538 GAGAAAAAA
1 GAGAAAAAA
655547 GAGATCTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (13 bp):
GAGAAAAAAAAAC
Found at i:656186 original size:19 final size:19
Alignment explanation
Indices: 656140--656186 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
656130 CATTAATTTG
*
656140 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
656160 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
656180 TATATTT
1 TATATTT
656187 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:659442 original size:20 final size:19
Alignment explanation
Indices: 659417--659466 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
659407 TGAAAAGATT
659417 TAATAAAATAAAATA-GATAA
1 TAATAAAATAAAA-AGGA-AA
659437 TAAT-AAATAAAAAGGGAAA
1 TAATAAAATAAAAA-GGAAA
659456 TAATAAAATAA
1 TAATAAAATAA
659467 TAAATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAATAAAATAAAAAGGAAA
Found at i:660236 original size:75 final size:76
Alignment explanation
Indices: 660139--660347 Score: 377
Period size: 75 Copynumber: 2.8 Consensus size: 76
660129 TCTTAAATCC
*
660139 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
660203 TATCCTA-AACT
65 TATCCTACAACT
*
660214 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAGTAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
660279 ATCCTACAACT
66 ATCCTACAACT
660290 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
660348 TATTTAAAAT
Statistics
Matches: 130, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
74 5 0.04
75 63 0.48
76 62 0.48
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.26
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTACAACT
Found at i:660245 original size:24 final size:24
Alignment explanation
Indices: 660218--660332 Score: 72
Period size: 25 Copynumber: 4.6 Consensus size: 24
660208 TAAACTTAAT
660218 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
** ** *
660242 TAAAATACCTAAAACAAAGATAAAA
1 TAAAATA-CTAAAACCTATTTAAAC
* * * *
660267 TATAAA-AGTAATATCCTACAACTT-AAT
1 TA-AAATACTAA-AACCT---ATTTAAAC
660294 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
660318 TAAAATACCTAAAAC
1 TAAAATA-CTAAAAC
660333 AAAGATAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
23 3 0.05
24 19 0.29
25 24 0.36
26 10 0.15
27 8 0.12
28 2 0.03
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.26
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:661128 original size:21 final size:21
Alignment explanation
Indices: 661098--661147 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
661088 GGGATAAGGC
*
661098 CGAAAAAAAGGTTTAAAATAT
1 CGAAACAAAGGTTTAAAATAT
*
661119 TGAAACAAAGGTTTAAAATAT
1 CGAAACAAAGGTTTAAAATAT
661140 CGAAACAA
1 CGAAACAA
661148 GAGATCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (21 bp):
CGAAACAAAGGTTTAAAATAT
Found at i:661502 original size:5 final size:5
Alignment explanation
Indices: 661492--661577 Score: 59
Period size: 5 Copynumber: 16.8 Consensus size: 5
661482 TATTCGGAGA
* * * *
661492 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT -AAAT AGAAT GAAAAT AAAGTTT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA--AT
** *
661544 GCTAA- AAAAT AAAAT GAAAT AAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
661578 ATAGAACGAA
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
4 6 0.10
5 49 0.80
6 4 0.07
7 1 0.02
8 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:665099 original size:40 final size:40
Alignment explanation
Indices: 665020--665099 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
665010 ATAGGAGCCA
* * *
665020 AATATTGCACCGAAGTGCTGAGGTCGAGTTTTTCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGTTTTACCCACCT
* * *
665060 AATAATGCACCGTAGTGCTGAGGTTGGGTTTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGTTTTACCCACCT
665100 TGTACACTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCGAGTTTTACCCACCT
Found at i:668850 original size:6 final size:6
Alignment explanation
Indices: 668839--668970 Score: 85
Period size: 6 Copynumber: 21.8 Consensus size: 6
668829 AATCTCATTT
* * *
668839 TTTTTC TTTTTC -TTTTC TTTTTT TTATTTT TTTCTTC GTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTT-TTC TTTTTC TTTTTC
* * * * **
668888 TTTTTA TTCTTT- TTTTTC ATCTATC ATTTT- TTCCTC TTTTTC -TTTTC
1 TTTTTC TT-TTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
668935 TTTTTC TATTTT- TTTCTTC GTTTTC TTTTTC TTTTT
1 TTTTTC T-TTTTC TTT-TTC TTTTTC TTTTTC TTTTT
668971 TTAGCTCTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 17 0.17
6 58 0.59
7 23 0.23
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:668987 original size:79 final size:78
Alignment explanation
Indices: 668833--668988 Score: 226
Period size: 78 Copynumber: 2.0 Consensus size: 78
668823 TTTTTAAATC
* *
668833 TCATTTTTTTTCTTTTTCTTTTCTTTTTTTTATTTTTTTCTTCGTTTTCTTTTTCTTTTTATTCT
1 TCATTTTTTCTCTTTTTCTTTTCTTTTTTCTATTTTTTTCTTCGTTTTCTTTTTCTTTTTATTCT
* * *
668898 TTTTTTTCATCTA
66 CTTATGTCATCTA
668911 TCATTTTTTCCTCTTTTTCTTTTC-TTTTTCTATTTTTTTCTTCGTTTTCTTTTTCTTTTT-TTA
1 TCATTTTTT-CTCTTTTTCTTTTCTTTTTTCTATTTTTTTCTTCGTTTTCTTTTTCTTTTTATT-
668974 GCTCTTATGTCATCT
64 -CTCTTATGTCATCT
668989 GTCGAGACAA
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
77 2 0.03
78 44 0.63
79 24 0.34
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (78 bp):
TCATTTTTTCTCTTTTTCTTTTCTTTTTTCTATTTTTTTCTTCGTTTTCTTTTTCTTTTTATTCT
CTTATGTCATCTA
Found at i:672615 original size:105 final size:105
Alignment explanation
Indices: 672433--672751 Score: 602
Period size: 105 Copynumber: 3.0 Consensus size: 105
672423 GTTGTCCACA
* *
672433 ATATACCCTTTTTATACTTGACTTACTTCAATCGCAAATCAATCATGATCTGTATAAATCACAAA
1 ATATACCTTTTTTATACTTGACTTACTTCAATCGAAAATCAATCATGATCTGTATAAATCACAAA
*
672498 TTAATAACGATACATATGTTAGTATTGTACTAACATAAAC
66 TTGATAACGATACATATGTTAGTATTGTACTAACATAAAC
672538 ATATACCTTTTTTATACTTGACTTACTTCAATCGAAAATCAATCATGATCTGTATAAATCACAAA
1 ATATACCTTTTTTATACTTGACTTACTTCAATCGAAAATCAATCATGATCTGTATAAATCACAAA
672603 TTGATAACGATACATATGTTAGTATTGTACTAACATAAAC
66 TTGATAACGATACATATGTTAGTATTGTACTAACATAAAC
*
672643 ATATACCTTTTTTATACTTGACTTACTTCAATCAAAAATCAATCATGATCTGTATAAATCACAAA
1 ATATACCTTTTTTATACTTGACTTACTTCAATCGAAAATCAATCATGATCTGTATAAATCACAAA
672708 TTGATAACGATACATATGTTAGTATTGTACTAACATAAAC
66 TTGATAACGATACATATGTTAGTATTGTACTAACATAAAC
672748 ATAT
1 ATAT
672752 CCCGAAATAA
Statistics
Matches: 210, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 210 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (105 bp):
ATATACCTTTTTTATACTTGACTTACTTCAATCGAAAATCAATCATGATCTGTATAAATCACAAA
TTGATAACGATACATATGTTAGTATTGTACTAACATAAAC
Found at i:675958 original size:24 final size:23
Alignment explanation
Indices: 675931--676057 Score: 87
Period size: 24 Copynumber: 5.3 Consensus size: 23
675921 TAAATCTCAT
675931 TTTTTTTCTTTTTCTTTTCTTTTC
1 TTTTTTT-TTTTTCTTTTCTTTTC
*
675955 TTTTTCTATTTTTTC-TTTGTTTTC
1 TTTTT-T-TTTTTTCTTTTCTTTTC
* *
675979 TTTTTATTTTATTT-TTTTCATCTC
1 TTTTT-TTTT-TTTCTTTTCTTTTC
* **
676003 TCATTTTTTTCCTCTTTTTCTTTTC
1 T-TTTTTTTTTTTC-TTTTCTTTTC
* * *
676028 TATTTCTTTGTTTGTTTTCTTTTC
1 T-TTTTTTTTTTTCTTTTCTTTTC
676052 TTTTTT
1 TTTTTT
676058 AGCTCTTATG
Statistics
Matches: 78, Mismatches: 18, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
23 8 0.10
24 44 0.56
25 25 0.32
26 1 0.01
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTTTTTTTCTTTTCTTTTC
Found at i:681304 original size:20 final size:19
Alignment explanation
Indices: 681279--681328 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
681269 TTAAAAGATT
*
681279 TAATAAAATAAAATAGATAA
1 TAATAAAATAAAAGAGA-AA
*
681299 TAAT-AAATATAAAGGGAAA
1 TAATAAAATA-AAAGAGAAA
681318 TAATAAAATAA
1 TAATAAAATAA
681329 TAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
TAATAAAATAAAAGAGAAA
Found at i:685515 original size:73 final size:74
Alignment explanation
Indices: 685390--686169 Score: 303
Period size: 74 Copynumber: 10.4 Consensus size: 74
685380 ATTTAATACA
* * * * * *
685390 AAGATTTATCTC-CTTGATATTATTTTTCTTAAAACAATATTTTATATCGCTTGAGATAGTTTCA
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGACTTCATCTCGCTTGAGATAGTTTCA
685454 CTCGAAATAG
66 CTCGAAA-AG
**
685464 AAGATTTAGGTCACTTGAGATTGTTTTT-TTAAAACAAGA-TTCATCTCGCTTGAGATAGTTTCA
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGACTTCATCTCGCTTGAGATAGTTTCA
*
685527 CTCGAAACAT
66 CTCGAAA-AG
* * ** * *
685537 AA-ATTTTATCTCACTTGAGATTGTTTTTCCTAAAATAA-ACTTTGTCTCGCTTGAGACGATTTT
1 AAGA-TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGACTTCATCTCGCTTGAGA-TAGTTT
*
685600 TACTCGAAGCAAG
64 CACTCGAA--AAG
* * ** * *
685613 -ACATTTCATTTCACTCCATATTGTTTTTCTTAAAACAAGA-TTCATCTCGCCTGAGATAGTTTC
1 AAGATTT-ATCTCACTTGAGATTGTTTTTCTTAAAACAAGACTTCATCTCGCTTGAGATAGTTTC
* *
685676 AATCAAAAGAG
65 ACTCGAAA-AG
* ** * * * * * * * *
685687 AAGATTTTATATTGCTTGAGATAGTTTCAATC-GAAACAGAAGA-TTTAGCTCACTTGAGATTGT
1 AAGA-TTTATCTCACTTGAGATTGTTT--TTCTTAAA-ACAAGACTTCATCTCGCTTGAGATAGT
** * *
685750 TTTTCT-TAAAAC
62 TTCACTCGAAAAG
* * * *** * * * * * *
685762 AAGATTCATCTCGCTTGAGATAGTTTCAATAAAAATATAATATTTTATCTCGCTTGAGATAATTT
1 AAGATTTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAAGACTTCATCTCGCTTGAGATAGTTT
* *
685827 CACTAGAAACAT
64 CACTCGAAA-AG
* * * * * * ** * * *
685839 AATATTTTATATCGCTTAATATAGTTTCACTCAAAACAAAAGA-TTCTATCTTGCTTGAGACAGT
1 AAGA-TTTATCTCACTTGAGATTGTTTTTCTTAAAAC--AAGACTTC-ATCTCGCTTGAGATAGT
* *
685903 TTCATTCAGAACAG
62 TTCACTC-GAAAAG
* * * * * * * *
685917 AAGATTTATCTCACTTGATATTGTTTTTCTTTAAACCATA-TTTATCTCACTCGAGATAGTTTCC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGACTTCATCTCGCTTGAGATAGTTTCA
685981 CTCGAAACAG
66 CTCGAAA-AG
* * * ** * * * * *
685991 AAGATTTTATATCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTTATCACGCTTGAGATAGTT
1 AAGA-TTTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAAGACTTCATCTCGCTTGAGATAGTT
* *
686056 CCACTTGAAACAG
63 TCACTCGAAA-AG
* * * * * ** *
686069 AAGATTTTATCTCGCTTGAGATAGTTTCGTTC-GAAATAGAAGA-TTTATCTCATTTGAGATTGT
1 AAGA-TTTATCTCACTTGAGATTGTTT--TTCTTAAA-ACAAGACTTCATCTCGCTTGAGATAGT
* * *
686132 TTTACT-TAAAAC
62 TTCACTCGAAAAG
* *
686144 AAGATTTATCTCTCTTGAGATAGTTT
1 AAGATTTATCTCACTTGAGATTGTTT
686170 AACTCAAAAC
Statistics
Matches: 536, Mismatches: 137, Indels: 66
0.73 0.19 0.09
Matches are distributed among these distances:
72 1 0.00
73 59 0.11
74 114 0.21
75 105 0.20
76 58 0.11
77 83 0.15
78 112 0.21
79 3 0.01
80 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (74 bp):
AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGACTTCATCTCGCTTGAGATAGTTTCA
CTCGAAAAG
Found at i:685590 original size:36 final size:35
Alignment explanation
Indices: 685477--685592 Score: 99
Period size: 38 Copynumber: 3.2 Consensus size: 35
685467 ATTTAGGTCA
* * *
685477 CTTGAGATTGTTTTT-TTAAAACAAGATTCATCTCG
1 CTTGAGATTGTTTTTCCTAAAATAA-ATTTATCTCG
* ** * *
685512 CTTGAGATAGTTTCACTCGAAACATAAATTTTATCTCA
1 CTTGAGATTGTTTTTC-CTAAA-ATAAA-TTTATCTCG
*
685550 CTTGAGATTGTTTTTCCTAAAATAAACTTTGTCTCG
1 CTTGAGATTGTTTTTCCTAAAATAAA-TTTATCTCG
685586 CTTGAGA
1 CTTGAGA
685593 CGATTTTTAC
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
35 12 0.19
36 19 0.31
37 8 0.13
38 23 0.37
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (35 bp):
CTTGAGATTGTTTTTCCTAAAATAAATTTATCTCG
Found at i:685661 original size:76 final size:74
Alignment explanation
Indices: 685412--685676 Score: 223
Period size: 73 Copynumber: 3.6 Consensus size: 74
685402 CTTGATATTA
* * * * * * **
685412 TTTTTCTTAAAACAATATTTTATATCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT-AGGTC
1 TTTTTCTTAAAACAAGA-TTCATCTCGCTTGAGAGAGTTTCACTCGAAACATAA-ATTTCATCTC
**
685476 ACTTGAGATTG
64 ACTCCAGATTG
* *
685487 TTTTT-TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAATTTTATCTCAC
1 TTTTTCTTAAAACAAGATTCATCTCGCTTGAGAGAGTTTCACTCGAAACATAAATTTCATCTCAC
**
685551 TTGAGATTG
66 TCCAGATTG
* * ** * * * *
685560 TTTTTCCTAAAATAA-ACTTTGTCTCGCTTGAGACGATTTTTACTCGAAGCA-AGACATTTCATT
1 TTTTTCTTAAAACAAGA-TTCATCTCGCTTGAGA-GAGTTTCACTCGAAACATA-A-ATTTCATC
*
685623 TCACTCCATATTG
62 TCACTCCAGATTG
* *
685636 TTTTTCTTAAAACAAGATTCATCTCGCCTGAGATAGTTTCA
1 TTTTTCTTAAAACAAGATTCATCTCGCTTGAGAGAGTTTCA
685677 ATCAAAAGAG
Statistics
Matches: 155, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
72 4 0.03
73 52 0.34
74 32 0.21
75 24 0.15
76 42 0.27
77 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (74 bp):
TTTTTCTTAAAACAAGATTCATCTCGCTTGAGAGAGTTTCACTCGAAACATAAATTTCATCTCAC
TCCAGATTG
Found at i:685718 original size:39 final size:39
Alignment explanation
Indices: 685656--686202 Score: 393
Period size: 39 Copynumber: 14.4 Consensus size: 39
685646 AACAAGATTC
* * *
685656 ATCTCGCCTGAGATAGTTTCAATCAAAAGAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * *
685695 ATATTGCTTGAGATAGTTTCAATCGAAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * ** * *
685733 AGCTCACTTGAGATTGTTTTTCTTAAAAC--AAGA-TTC
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * * *
685769 ATCTCGCTTGAGATAGTTTCAATAAAAATATAATATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * *
685808 ATCTCGCTTGAGATAATTTCACT-AGAAACATAATATTTT
1 ATCTCGCTTGAGATAGTTTCACTCA-AAACAGAAGATTTT
* * * * *
685847 ATATCGCTTAATATAGTTTCACTCAAAACAAAAGATTCT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * *
685886 ATCTTGCTTGAGACAGTTTCATTCAGAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * ** ** * *
685924 ATCTCACTTGATATTGTTTTTCTTTAAAC--CATA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * *
685960 ATCTCACTCGAGATAGTTTCCCTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * *
685999 ATATCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * **
686038 ATCACGCTTGAGATAGTTCCACTTGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
** * *
686077 ATCTCGCTTGAGATAGTTTCGTTCGAAATAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
** * * *
686115 ATCTCATTTGAGATTGTTTTACTTAAAAC--AAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * * *
686151 ATCTCTCTTGAGATAGTTTAACTCAAAACATAATA-TAT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
*
686189 ATCTCACTTGAGAT
1 ATCTCGCTTGAGAT
686203 TGTATTTCTT
Statistics
Matches: 398, Mismatches: 100, Indels: 21
0.77 0.19 0.04
Matches are distributed among these distances:
36 85 0.21
38 89 0.22
39 223 0.56
40 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
Found at i:685755 original size:113 final size:113
Alignment explanation
Indices: 685632--685837 Score: 322
Period size: 113 Copynumber: 1.8 Consensus size: 113
685622 TTCACTCCAT
*
685632 ATTGTTTTTCTTAAAACAAGATTCATCTCGCCTGAGATAGTTTCAATCAAAAGAGAAGATTTTAT
1 ATTGTTTTTCTTAAAACAAGATTCATCTCGCCTGAGATAGTTTCAATAAAAAGAGAAGATTTTAT
* * *
685697 ATTGCTTGAGATAGTTTCAATCGAAACAGAAGATTTAGCTCACTTGAG
66 ATCGCTTGAGATAATTTCAATAGAAACAGAAGATTTAGCTCACTTGAG
* * * *
685745 ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAATAAAAATATAATATTTTAT
1 ATTGTTTTTCTTAAAACAAGATTCATCTCGCCTGAGATAGTTTCAATAAAAAGAGAAGATTTTAT
* *
685810 CTCGCTTGAGATAATTTCACTAGAAACA
66 ATCGCTTGAGATAATTTCAATAGAAACA
685838 TAATATTTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 83 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (113 bp):
ATTGTTTTTCTTAAAACAAGATTCATCTCGCCTGAGATAGTTTCAATAAAAAGAGAAGATTTTAT
ATCGCTTGAGATAATTTCAATAGAAACAGAAGATTTAGCTCACTTGAG
Found at i:685820 original size:152 final size:149
Alignment explanation
Indices: 685664--686219 Score: 411
Period size: 152 Copynumber: 3.7 Consensus size: 149
685654 TCATCTCGCC
* * * *
685664 TGAGATAGTTTCAATCAAAAGAGAAGATTTTATATTGCTTGAGATAGTTTCAATCGAAACAGAAG
1 TGAGATAGTTTCACT-AAAACAGAAGATTTTATATCGCTTGAGATAGTTTCAATCAAAACAGAAG
* * *
685729 ATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAATAA
65 ATTTATCTCACTTGAGATAGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTCAAT-A
* *
685794 AAATATAATATTTTATCTCGCT
129 AAATACAATA-TTTATCTCACT
* * * * * * *
685816 TGAGATAATTTCACTAGAAACATAATATTTTATATCGCTTAATATAGTTTCACTCAAAACAAAAG
1 TGAGATAGTTTCACTA-AAACAGAAGATTTTATATCGCTTGAGATAGTTTCAATCAAAACAGAAG
** * ** * * * * * ***
685881 ATTCTATCTTGCTTGAGACAGTTTCATTCAGAACAGAAGATTTATCTCACTTGATATTGTTTTTC
65 ATT-TATCTCACTTGAGATAGTTT--TTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTCAA
** *
685946 TTTAA-ACCATATTTATCTCACT
127 TAAAATACAATATTTATCTCACT
* * * * * *
685968 CGAGATAGTTTCCCTCGAAACAGAAGATTTTATATCGCTTGAGATAGTTTCACTCGAAATAGAAG
1 TGAGATAGTTTCACT-AAAACAGAAGATTTTATATCGCTTGAGATAGTTTCAATCAAAACAGAAG
* * *** * *
686033 ATTTTATCACGCTTGAGATAGTTCCACTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCG
65 A-TTTATCTCACTTGAGATAGTTTTTCTT-AAA-ACAAGA-TTTATCTCGCTTGAGATAGTTTCA
* * * * *
686098 TTCGAAATAGAAGATTTATCTCATT
126 AT-AAAATACAATATTTATCTCACT
* * * * *
686123 TGAGATTGTTTTACTTAAAAC--AAGA-TTTATCTCTCTTGAGATAGTTT-AACTCAAAACATAA
1 TGAGATAGTTTCAC-TAAAACAGAAGATTTTATATCGCTTGAGATAGTTTCAA-TCAAAACAGAA
* * * *
686184 TATATATCTCACTTGAGATTGTATTTCTTAAAACAA
64 GATTTATCTCACTTGAGATAGTTTTTCTTAAAACAA
686220 ACTATGTCTC
Statistics
Matches: 306, Mismatches: 85, Indels: 29
0.73 0.20 0.07
Matches are distributed among these distances:
149 3 0.01
150 4 0.01
151 23 0.08
152 170 0.56
153 45 0.15
154 4 0.01
155 56 0.18
156 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (149 bp):
TGAGATAGTTTCACTAAAACAGAAGATTTTATATCGCTTGAGATAGTTTCAATCAAAACAGAAGA
TTTATCTCACTTGAGATAGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTCAATAAA
ATACAATATTTATCTCACT
Found at i:685918 original size:191 final size:191
Alignment explanation
Indices: 685666--686202 Score: 650
Period size: 191 Copynumber: 2.8 Consensus size: 191
685656 ATCTCGCCTG
* * * *
685666 AGATAGTTTCAATCAAAAGAGAAGATTTTATATTGCTTGAGATAGTTTCAATCGAAACAGAAGAT
1 AGATAGTTTCACTCAAAACAGAAGATTTTATCTTGCTTGAGATAGTTTCATTCGAAACAGAAGAT
* * * *
685731 TTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAATAAAA
66 TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAGATAGTTTCAATCAAA
* * *
685796 ATATAATATTTTATCTCGCTTGAGATAATTTCACTAGAAACATAATATTTTAT-ATCGCTTA
131 ACATAATATTTTATCTCGCTTGAGATAATTTCACTAGAAACAGAAGATTTTATCA-CGCTTA
* * * *
685857 ATATAGTTTCACTCAAAACAAAAGATTCTATCTTGCTTGAGACAGTTTCATTC-AGAACAGAAGA
1 AGATAGTTTCACTCAAAACAGAAGATTTTATCTTGCTTGAGATAGTTTCATTCGA-AACAGAAGA
* * * * * ** *
685921 TTTATCTCACTTGATATTGTTTTTCTTTAAACCATATTTATCTCACTCGAGATAGTTTCCCTCGA
65 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAGATAGTTTCAATCAA
* * * * * * *
685986 AACAGAAGATTTTATATCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTTATCACGCTTG
130 AACATAATATTTTATCTCGCTTGAGATAATTTCACTAGAAACAGAAGATTTTATCACGCTTA
* ** * * *
686048 AGATAGTTCCACTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCGTTCGAAATAGAAGAT
1 AGATAGTTTCACTCAAAACAGAAGATTTTATCTTGCTTGAGATAGTTTCATTCGAAACAGAAGAT
* * *
686113 TTATCTCATTTGAGATTGTTTTACTTAAAACAAGATTTATCTCTCTTGAGATAGTTT-AACTCAA
66 TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAGATAGTTTCAA-TCAA
* *
686177 AACATAATA-TATATCTCACTTGAGAT
130 AACATAATATTTTATCTCGCTTGAGAT
686203 TGTATTTCTT
Statistics
Matches: 286, Mismatches: 56, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
190 15 0.05
191 269 0.94
192 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (191 bp):
AGATAGTTTCACTCAAAACAGAAGATTTTATCTTGCTTGAGATAGTTTCATTCGAAACAGAAGAT
TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAGATAGTTTCAATCAAA
ACATAATATTTTATCTCGCTTGAGATAATTTCACTAGAAACAGAAGATTTTATCACGCTTA
Found at i:686217 original size:38 final size:35
Alignment explanation
Indices: 686114--686236 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 35
686104 ATAGAAGATT
*
686114 TATCTCATTTGAGATTGTTTTACTTAAAACAAGATT-
1 TATCTCACTTGAGATTGTTTT-CTTAAAACAA-ATTA
* * * *
686150 TATCTCTCTTGAGATAGTTTAACTCAAAACATAATATA
1 TATCTCACTTGAGATTGTTT-TCTTAAAACA-AAT-TA
*
686188 TATCTCACTTGAGATTGTATTTCTTAAAACAAACTA
1 TATCTCACTTGAGATTGT-TTTCTTAAAACAAATTA
*
686224 TGTCTCACTTGAG
1 TATCTCACTTGAG
686237 GGATTAACAT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
36 41 0.58
37 4 0.06
38 24 0.34
39 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (35 bp):
TATCTCACTTGAGATTGTTTTCTTAAAACAAATTA
Found at i:686327 original size:59 final size:59
Alignment explanation
Indices: 686235--686346 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
686225 GTCTCACTTG
* * *
686235 AGGGATTAACATTTATTTTGCTCGATTCACAACACTTCGAATCATCAATGCCTTACGTA
1 AGGGATAAACATTTATTTTGCTCGATTCACAACACTTCGAATCAACAACGCCTTACGTA
*
686294 AGGGATAAACATTTCCTTTT-CTCGATTCACAACACTTCGAATCAACAACGCCT
1 AGGGATAAACATTT-ATTTTGCTCGATTCACAACACTTCGAATCAACAACGCCT
686347 CACTCGAGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 44 0.92
60 4 0.08
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (59 bp):
AGGGATAAACATTTATTTTGCTCGATTCACAACACTTCGAATCAACAACGCCTTACGTA
Found at i:686364 original size:59 final size:58
Alignment explanation
Indices: 686227--686368 Score: 162
Period size: 59 Copynumber: 2.4 Consensus size: 58
686217 CAAACTATGT
* * *
686227 CTCACTTGAGGGATTAACATTT-ATTTTGCTCGATTCACAACACTTCGAATCATCAATGC
1 CTCAC-TGAGGG-TTAACATTTCCTTTTGCTCGATTCACAACACTTCGAATCAACAACGC
* * *
686286 CTTACGTAAGGGATAAACATTTCCTTTT-CTCGATTCACAACACTTCGAATCAACAACGC
1 CTCAC-TGAGGG-TTAACATTTCCTTTTGCTCGATTCACAACACTTCGAATCAACAACGC
686345 CTCACTCGAGGGTTCAACATTTCC
1 CTCACT-GAGGGTT-AACATTTCC
686369 ACTGGAAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 2 0.03
59 64 0.91
60 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (58 bp):
CTCACTGAGGGTTAACATTTCCTTTTGCTCGATTCACAACACTTCGAATCAACAACGC
Found at i:687229 original size:22 final size:22
Alignment explanation
Indices: 687199--687250 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
687189 GTGTAGATCA
* * *
687199 GAGTTACCTTGGGTCGTTGGAG
1 GAGTCACCTTGGGTCGTCGAAG
*
687221 GAGTCACCTTGGGTTGTCGAAG
1 GAGTCACCTTGGGTCGTCGAAG
687243 GAGTCACC
1 GAGTCACC
687251 AGAGCCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.37, T:0.27
Consensus pattern (22 bp):
GAGTCACCTTGGGTCGTCGAAG
Found at i:688006 original size:25 final size:24
Alignment explanation
Indices: 687963--688011 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
687953 TTATGTTTAC
*
687963 TTTATTTTTATTTTATGTTTTTTT
1 TTTATTTTTATTTTATGTTATTTT
687987 TTTACTTTTTATTATT-TGTTATTTT
1 TTTA-TTTTTATT-TTATGTTATTTT
688012 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 16 0.73
26 2 0.09
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTATTTTTATTTTATGTTATTTT
Found at i:690956 original size:74 final size:70
Alignment explanation
Indices: 690877--691108 Score: 218
Period size: 74 Copynumber: 3.2 Consensus size: 70
690867 TTTTGTCTCC
* * *
690877 CTTGAGACA-TTCTCATTTAATACGAAGATTTATCTTACTTGAGATTATTTTTCTTAAAATAAGA
1 CTTGAGACAGTT-TCATTCAA-AC-AAGATTTATCTCACTTGAGATT-TTTTTCTTAAAACAAGA
690941 TTTTATCTTG
62 -TTTATCTTG
* * * *
690951 CTTGAGATAGTTTCACTCGAAACATAGATTTAGCTCACTTGAGATTGTTTT-TTAAAACAAGATT
1 CTTGAGACAGTTTCATTC-AAACA-AGATTTATCTCACTTGAGATTTTTTTCTTAAAACAAGATT
* *
691015 CATCTCG
64 TATCTTG
* * *
691022 CTTGAGATAGTTTCACTCAAAACAAAAATTTTATCTCACTTGAGATTTTTTTTCTTAAAACAA-A
1 CTTGAGACAGTTTCATTC-AAAC-AAGA-TTTATCTCACTTGAGA-TTTTTTTCTTAAAACAAGA
*
691086 CTTATTCTTG
62 TTTA-TCTTG
691096 CTTGAGACAGTTT
1 CTTGAGACAGTTT
691109 TTGCTAAAAG
Statistics
Matches: 133, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
71 31 0.23
72 26 0.20
73 14 0.11
74 58 0.44
75 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (70 bp):
CTTGAGACAGTTTCATTCAAACAAGATTTATCTCACTTGAGATTTTTTTCTTAAAACAAGATTTA
TCTTG
Found at i:691045 original size:71 final size:73
Alignment explanation
Indices: 690901--691523 Score: 289
Period size: 74 Copynumber: 8.3 Consensus size: 73
690891 ATTTAATACG
* * * *
690901 AAGATTTATCTTACTTGAGATTATTTTTCTTAAAATAAGATTTTATCTTGCTTGAGATAGTTTCA
1 AAGATTTATCTCACTTGAGATT-TTTTTCTTAAAACAAGATTTCATCTCGCTTGAGATAGTTTCA
*
690966 CTCGAAACA
65 CTCAAAACA
* * *
690975 TAGATTTAGCTCACTTGAGATTGTTTT-TTAAAACAAGA-TTCATCTCGCTTGAGATAGTTTCAC
1 AAGATTTATCTCACTTGAGATTTTTTTCTTAAAACAAGATTTCATCTCGCTTGAGATAGTTTCAC
691038 TCAAAACA
66 TCAAAACA
* * * *
691046 AAAATTTTATCTCACTTGAGATTTTTTTTCTTAAAACAA-ACTT-ATTCTTGCTTGAGACAGTTT
1 AAGA-TTTATCTCACTTGAGA-TTTTTTTCTTAAAACAAGATTTCA-TCTCGCTTGAGATAG-TT
**
691109 TTGCT-AAAAGCAA
62 TCACTCAAAA-C-A
* * * ** * * *
691122 AACATTTCATTTCAGTCCAGATTTTTTTTTCTTAAAACAAGA-TTCGTCTTGCCTGAGATAGTTT
1 AAGATTT-ATCTCACTTGAGA--TTTTTTTCTTAAAACAAGATTTCATCTCGCTTGAGATAGTTT
* *
691186 CACTCGAAAGA
63 CACTCAAAACA
* * * ** * * * ** *
691197 GAATATTTTATCTTC-CTTGATATAATTTCACTCGAAACAAAAGATTT-AGCTCAATTGAGATTG
1 -AAGA-TTTATC-TCACTTGAGAT-TTTTTTCT-TAAA-ACAAGATTTCATCTCGCTTGAGATAG
** *
691260 TTTTTCTTAAAAC-
60 TTTCACTCAAAACA
* * ** * * *
691273 AAGATTCATCTCGCTTGAGA-TAGTTTCACTAGAAACAAAACATTTTATCTCGCTTGAGATAGTT
1 AAGATTTATCTCACTTGAGATTTTTTTC-TTA-AAAC--AAGATTTCATCTCGCTTGAGATAGTT
*
691337 TCACTCGAAACA
62 TCACTCAAAACA
* * * * *
691349 AAAAGTTTATCTTAGTTGAGATTGTTTTTCTTAAAACCATATTT-ATCTCGCTTGAGATTA-TTT
1 AAGA-TTTATCTCACTTGAGATT-TTTTTCTTAAAACAAGATTTCATCTCGCTTGAGA-TAGTTT
* *
691412 CGCTCGAAACAA
63 CACTCAAAAC-A
* * * * ** * * *
691424 AAAATTTTATTTCGCTTGAGATAGTTTCACTTGAAACATAAGATTTTATCTTGCTTGAGATAGTT
1 AAGA-TTTATCTCACTTGAGAT-TTTTTTCTT-AAA-ACAAGATTTCATCTCGCTTGAGATAGTT
* * *
691489 CCACTCGAAATA
62 TCACTCAAAACA
**
691501 GAAGATGTTATCTTGCTTGAGAT
1 -AAGAT-TTATCTCACTTGAGAT
691524 AGTTTCGCTT
Statistics
Matches: 410, Mismatches: 100, Indels: 74
0.70 0.17 0.13
Matches are distributed among these distances:
71 32 0.08
72 29 0.07
73 16 0.04
74 90 0.22
75 70 0.17
76 35 0.09
77 89 0.22
78 45 0.11
79 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (73 bp):
AAGATTTATCTCACTTGAGATTTTTTTCTTAAAACAAGATTTCATCTCGCTTGAGATAGTTTCAC
TCAAAACA
Found at i:691172 original size:77 final size:75
Alignment explanation
Indices: 690918--691190 Score: 240
Period size: 71 Copynumber: 3.7 Consensus size: 75
690908 ATCTTACTTG
* * * * * *
690918 AGATTATTTTTCTTAAAATAAGATTTTATCTTGCTTGAGATAG-TTTCACTCGAAACATAGATTT
1 AGATTTTTTTTCTTAAAACAAGA-TTCATCTTGCTTGAGATAGTTTTCACTCAAAACAAAAATTT
* **
690982 -AGCTCACTTG
65 CATCTCACTCC
* * *
690992 AGA-TTGTTTT-TTAAAACAAGATTCATCTCGCTTGAGATAG-TTTCACTCAAAACAAAAATTTT
1 AGATTTTTTTTCTTAAAACAAGATTCATCTTGCTTGAGATAGTTTTCACTCAAAACAAAAATTTC
**
691054 ATCTCACTTG
66 ATCTCACTCC
* **
691064 AGATTTTTTTTCTTAAAACAA-ACTT-ATTCTTGCTTGAGACAGTTTTTGCT-AAAAGCAAAACA
1 AGATTTTTTTTCTTAAAACAAGA-TTCA-TCTTGCTTGAGATAGTTTTCACTCAAAA-CAAAA-A
* *
691126 TTTCATTTCAGTCC
62 TTTCATCTCACTCC
* *
691140 AGATTTTTTTTTCTTAAAACAAGATTCGTCTTGCCTGAGATAG-TTTCACTC
1 AGA-TTTTTTTTCTTAAAACAAGATTCATCTTGCTTGAGATAGTTTTCACTC
691191 GAAAGAGAAT
Statistics
Matches: 163, Mismatches: 24, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
71 35 0.21
72 22 0.13
73 13 0.08
74 31 0.19
75 10 0.06
76 18 0.11
77 33 0.20
78 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (75 bp):
AGATTTTTTTTCTTAAAACAAGATTCATCTTGCTTGAGATAGTTTTCACTCAAAACAAAAATTTC
ATCTCACTCC
Found at i:691270 original size:113 final size:114
Alignment explanation
Indices: 691147--691469 Score: 422
Period size: 113 Copynumber: 2.9 Consensus size: 114
691137 TCCAGATTTT
* * * * * *
691147 TTTTTCTTAAAACAAGATTCGTCTTGCCTGAGATAGTTTCACTCGAAAGAGAATATTTTATCTTC
1 TTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAAATTTTATCTTC
* *
691212 -CTTGATATAATTTCACTCGAAACAAAAGATTTAGCTCAATTGAGATTG
66 GCTTGAGATAGTTTCACTCGAAACAAAAGATTTAGCTCAATTGAGATTG
* *
691260 TTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTAGAAACAAAACATTTTATC-TC
1 TTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAAATTTTATCTTC
* * *
691324 GCTTGAGATAGTTTCACTCGAAACAAAA-AGTTTATCTTAGTTGAGATTG
66 GCTTGAGATAGTTTCACTCGAAACAAAAGA-TTTAGCTCAATTGAGATTG
* * * *
691373 TTTTTCTTAAAACCATATTTATCTCGCTTGAGATTA-TTTCGCTCGAAACAAAAAATTTTAT-TT
1 TTTTTCTTAAAACAAGATTCATCTCGCTTGAGA-TAGTTTCACTCGAAACAAAAAATTTTATCTT
* *
691436 CGCTTGAGATAGTTTCACTTGAAACATAAGATTT
65 CGCTTGAGATAGTTTCACTCGAAACAAAAGATTT
691470 TATCTTGCTT
Statistics
Matches: 185, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
112 3 0.02
113 179 0.97
114 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (114 bp):
TTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAAATTTTATCTTC
GCTTGAGATAGTTTCACTCGAAACAAAAGATTTAGCTCAATTGAGATTG
Found at i:691329 original size:39 final size:39
Alignment explanation
Indices: 691175--691625 Score: 306
Period size: 39 Copynumber: 11.9 Consensus size: 39
691165 TCGTCTTGCC
* * *
691175 TGAGATAGTTTCACTCGAAAGAGAATATTTTATCTTC-CT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATC-TCGCT
* * * **
691214 TGATATAATTTCACTCGAAACAAAAGA-TTTAGCTCAAT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* ** * * *
691252 TGAGATTGTTTTTCT-TAAA-ACAAGA-TTCATCTCGCT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* *
691288 TGAGATAGTTTCACTAGAAACAAAACATTTTATCTCGCT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* *
691327 TGAGATAGTTTCACTCGAAACAAAA-AGTTTATCTTAG-T
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATC-TCGCT
* ** * ** *
691365 TGAGATTGTTTTTCT-TAAA-ACCATA-TTTATCTCGCT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* * *
691401 TGAGATTA-TTTCGCTCGAAACAAAAAATTTTATTTCGCT
1 TGAGA-TAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* * *
691440 TGAGATAGTTTCACTTGAAACATAAGATTTTATCTTGCT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* * * * *
691479 TGAGATAGTTCCACTCGAAATAGAAGATGTTATCTTGCT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* * * *
691518 TGAGATAGTTTCGCTTGAAACAGAAGA-TTTATCTCACT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
** * ** * *
691556 TGCTATTGTTTTTCT-TAAAC--AAGA-TTTATCTGGCT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
* * *
691591 TCAGATAGCTTCACTCGAAACAGAAGA-TTTATCTC
1 TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTC
691626 ATCTGAGATT
Statistics
Matches: 319, Mismatches: 78, Indels: 31
0.75 0.18 0.07
Matches are distributed among these distances:
35 23 0.07
36 47 0.15
37 20 0.06
38 74 0.23
39 155 0.49
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (39 bp):
TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCT
Found at i:691331 original size:152 final size:151
Alignment explanation
Indices: 691175--691625 Score: 442
Period size: 152 Copynumber: 3.0 Consensus size: 151
691165 TCGTCTTGCC
* * * * *
691175 TGAGATAGTTTCACTCGAAAGAGAATATTTTATCTTCCTTGATATAATTTCACTCGAAACAAAAG
1 TGAGATAGTTTCACTCGAAACAGAAAATTTTATCTTACTTGAGATAGTTTCACT-GAAACAAAAG
* * *
691240 ATTTAGCTCAATTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTAG
65 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTCACTAG
*
691305 AAACAAAACATTTTATCTCGCT
130 AAACAAAAGATTTTATCTCGCT
* * * ** * ** *
691327 TGAGATAGTTTCACTCGAAACA-AAAAGTTTATCTTAGTTGAGATTGTTTTTCTTAAA-ACCATA
1 TGAGATAGTTTCACTCGAAACAGAAAATTTTATCTTACTTGAGATAGTTTCACTGAAACAAAAGA
* * ** * * * *
691390 TTTATCTCGCTTGAGATTATTTCGCTCGAAACAAAAAATTTTATTTCGCTTGAGATAGTTTCACT
66 TTTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAAGA-TTTATCTCGCTTGAGATAGTTTCACT
* * *
691455 TGAAACATAAGATTTTATCTTGCT
128 AGAAACAAAAGATTTTATCTCGCT
* * * * * * *
691479 TGAGATAGTTCCACTCGAAATAGAAGATGTTATCTTGCTTGAGATAGTTTCGCTTGAAACAGAAG
1 TGAGATAGTTTCACTCGAAACAGAAAATTTTATCTTACTTGAGATAGTTTCAC-TGAAACAAAAG
** * * * *
691544 ATTTATCTCACTTGCTATTGTTTTTCTT-AAACAAGATTTATCTGGCTTCAGATAGCTTCACTCG
65 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTCACTAG
*
691608 AAACAGAAGA-TTTATCTC
130 AAACAAAAGATTTTATCTC
691626 ATCTGAGATT
Statistics
Matches: 234, Mismatches: 59, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
149 23 0.10
150 13 0.06
151 58 0.25
152 89 0.38
153 24 0.10
154 4 0.02
155 23 0.10
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (151 bp):
TGAGATAGTTTCACTCGAAACAGAAAATTTTATCTTACTTGAGATAGTTTCACTGAAACAAAAGA
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTCACTAGA
AACAAAAGATTTTATCTCGCT
Found at i:691637 original size:73 final size:74
Alignment explanation
Indices: 691223--691647 Score: 205
Period size: 73 Copynumber: 5.6 Consensus size: 74
691213 TTGATATAAT
* * * * * *
691223 TTCACTCGAAACAAAAGATTTAGCTCAATTGAGATTGTTTTTCTTAAAACAAGAT-TCATCTCGC
1 TTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTCTCTT-AAACAAGATGTTATCTGGC
* *
691287 TTGAGATAGT
65 TTCAGATAGC
* * * * * * * * *
691297 TTCACTAGAAACAAAACATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAAGTTTATCTT
1 TTCACTCGAAACAGAAGA-TTTATCTCACTTGAGATTGTTTCTCT-TAAACAAGATG-TTATC-T
* * * *
691362 AG-TTGAGATTGT
62 GGCTTCAGATAGC
** * ** * * * * * * * * *
691374 TTTTCT-TAAA-ACCATATTTATCTCGCTTGAGATTATTTCGCTCGAAACAAAAAATTTTATTTC
1 TTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTCTCT-TAAAC--AAGATGTTATCTG
* *
691437 GCTTGAGATAGT
63 GCTTCAGATAGC
* * ** * * ** *
691449 TTCACTTGAAACATAAGATTTTATCTTGCTTGAGATAGTTCCACTCGAAATAGAAGATGTTATCT
1 TTCACTCGAAACAGAAGA-TTTATCTCACTTGAGATTGTT--TCTCTTAA-ACAAGATGTTATCT
* * *
691514 TGCTTGAGATAGT
62 GGCTTCAGATAGC
* * ** *
691527 TTCGCTTGAAACAGAAGATTTATCTCACTTGCTATTGTTTTTCTTAAACAAGAT-TTATCTGGCT
1 TTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTCTCTTAAACAAGATGTTATCTGGCT
691591 TCAGATAGC
66 TCAGATAGC
691600 TTCACTCGAAACAGAAGATTTATCTCA-TCTGAGATTGTTTCTCTTAAA
1 TTCACTCGAAACAGAAGATTTATCTCACT-TGAGATTGTTTCTCTTAAA
691648 ACAAAATACG
Statistics
Matches: 270, Mismatches: 66, Indels: 31
0.74 0.18 0.08
Matches are distributed among these distances:
72 1 0.00
73 57 0.21
74 53 0.20
75 51 0.19
76 10 0.04
77 36 0.13
78 57 0.21
79 2 0.01
80 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (74 bp):
TTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTCTCTTAAACAAGATGTTATCTGGCT
TCAGATAGC
Found at i:693830 original size:29 final size:29
Alignment explanation
Indices: 693798--694098 Score: 416
Period size: 29 Copynumber: 10.5 Consensus size: 29
693788 CATAAATTAA
* * * *
693798 TTACAAAACTAACACCCTGTTAAAAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
*
693827 TTACGAAACTAGCA-CTCTTTTAA-AGATAT
1 TTACGAAACTAACACCT-TTTTAACA-ATAT
*
693856 TTACAAAACTAACA-CTTTTTAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
693884 TTACGAAACTAACACC-TTTTAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
*
693912 TTACGAAGCTAACA-CTTTTTAACAAT-T
1 TTACGAAACTAACACCTTTTTAACAATAT
* *
693939 TTACGAAACAAACACCTTCTTAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
**
693968 TTACGAAACTAACACCTTCATAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
*
693997 TTACGAAACTAACACCTTCTTAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
* *
694026 TTACGAAACTAACACATTCTTAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
694055 TTACGAAACTAACACCTTTTTAACAATAT
1 TTACGAAACTAACACCTTTTTAACAATAT
694084 TTACGAAACTAACAC
1 TTACGAAACTAACAC
694099 ATTCTATAAT
Statistics
Matches: 248, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
27 14 0.06
28 71 0.29
29 163 0.66
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (29 bp):
TTACGAAACTAACACCTTTTTAACAATAT
Found at i:698194 original size:29 final size:29
Alignment explanation
Indices: 698161--698459 Score: 410
Period size: 29 Copynumber: 10.4 Consensus size: 29
698151 ATTAACTACA
* * *
698161 AAACTAACACCATGTTAAAAATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
* *
698190 AAACTAGCA-CTCTTTTAAAAATATTTACG
1 AAACTAACACCT-TTTTAACAATATTTACG
* *
698219 AAACTAACA-CTTTTTAACTATATTTATG
1 AAACTAACACCTTTTTAACAATATTTACG
698247 AAACTAACA-CTTTTTAACAATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
*
698275 ATACTAACA-CTTTTTAACAATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
*
698303 AAAGTAACA-CTTTTTAACAATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
*
698331 AAACTAACACCTTCTTAACAATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
* * *
698360 AAACTAACATCTTCTTAACAATATTTAGG
1 AAACTAACACCTTTTTAACAATATTTACG
* * *
698389 AATCTAACACCTTCTTAACGATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
698418 AAACTAACACCTTTTTAACAATATTTACG
1 AAACTAACACCTTTTTAACAATATTTACG
698447 AAACTAACACCTT
1 AAACTAACACCTT
698460 CTATAATATG
Statistics
Matches: 245, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
28 102 0.42
29 143 0.58
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (29 bp):
AAACTAACACCTTTTTAACAATATTTACG
Found at i:701579 original size:18 final size:18
Alignment explanation
Indices: 701546--701596 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
701536 TAAAGCTTGG
*
701546 TATTTTGATAAAAATAAAA
1 TATTTT-ATTAAAATAAAA
701565 TATTTTATTAAAATAAAA
1 TATTTTATTAAAATAAAA
701583 TATTTTATTAAAAT
1 TATTTTATTAAAAT
701597 CACCCGGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TATTTTATTAAAATAAAA
Found at i:703034 original size:27 final size:29
Alignment explanation
Indices: 703004--703066 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 29
702994 TAAAGTAGGA
** *
703004 ATATTTATTTTAG-TTCTTTATT-ATAAG
1 ATATTTATAATAGTTTCTTTATTAACAAG
*
703031 ATA-TTATAATAGTTTTTTTATTAACAAG
1 ATATTTATAATAGTTTCTTTATTAACAAG
703059 ATATTTAT
1 ATATTTAT
703067 GTTAATCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 11 0.38
28 7 0.24
29 4 0.14
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (29 bp):
ATATTTATAATAGTTTCTTTATTAACAAG
Found at i:703271 original size:43 final size:44
Alignment explanation
Indices: 703206--703297 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 44
703196 CAAGAATGTT
*
703206 TTTAATATGTTAGTTTGATGTATTTGTGGATTCTTACATTGGA-
1 TTTAATATGTTAGTTTGATGTATTTGTGAATTCTTACATTGGAG
* * *
703249 TTTAATATGTTAGTTTGGTGTATTTGTGAATTGTTACTTTGGAG
1 TTTAATATGTTAGTTTGATGTATTTGTGAATTCTTACATTGGAG
703293 TTTAA
1 TTTAA
703298 ATTTTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 39 0.89
44 5 0.11
ACGTcount: A:0.23, C:0.03, G:0.22, T:0.52
Consensus pattern (44 bp):
TTTAATATGTTAGTTTGATGTATTTGTGAATTCTTACATTGGAG
Found at i:719058 original size:6 final size:6
Alignment explanation
Indices: 719049--719097 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
719039 GAAAAAATTA
* *
719049 TTTATG TTTATG TTTATG TTT-T- TATATG TTTATT TTTAT- TTTAT-
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
719093 TTTAT
1 TTTAT
719098 AAAGATTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
4 2 0.05
5 12 0.32
6 24 0.63
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (6 bp):
TTTATG
Found at i:719096 original size:16 final size:17
Alignment explanation
Indices: 719049--719097 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
719039 GAAAAAATTA
719049 TTTATGTTTATGTTTATG
1 TTTAT-TTTATGTTTATG
* *
719067 TTT-TTATATGTTTATT
1 TTTATTTTATGTTTATG
719083 TTTATTTTAT-TTTAT
1 TTTATTTTATGTTTAT
719098 AAAGATTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 18 0.67
17 6 0.22
18 3 0.11
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (17 bp):
TTTATTTTATGTTTATG
Found at i:719576 original size:677 final size:670
Alignment explanation
Indices: 718294--720317 Score: 3712
Period size: 677 Copynumber: 3.0 Consensus size: 670
718284 TTTATTTTAA
* *
718294 TATTTCATTGTTTTACTATTTTTGTTATTTTTTTCTTATAAAAAACAAACAGAAAAAAAA-GTGA
1 TATTTCATTGTTTTACTATTTTTGTCATTTTTTTCTTATAAAAAACAAACGGAAAAAAAAGGTGA
718358 AAAAATAAAAGAAAAAATTATTTATGTTTATGTTTTTATATGTTTACTTTTATTTTATTTTATAA
66 AAAAATAAAAGAAAAAATTATTTATGTTTATGTTTTTATATGTTTACTTTTATTTTATTTTATAA
718423 AAATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACCGATCATCATGGCCTTTTCCCT
131 AAATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACCGATCATCATGGCCTTTTCCCT
718488 ACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTGATTATTGCATTATATTCATTT
196 ACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTGATTATTGCATTATATTCATTT
718553 TTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAGTTTGAGT
261 TTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAGTTTGAGT
*
718618 GATCTCATTTTACCCTAAACAGTTTGAGTGAATATGTGTGAATCTCTGTGAGGTATTGAGCTATG
326 GATCTCATTTTACCCTAAACAGTTTGAGTGAATATGTGTGAATCTCTGTGAGGTATTGAGTTATG
* *
718683 TTTTATTGATGTTGGGAAATAATTGGGATATCATGCCTGCTTAAAGTTATCCTTAGTTATATCTT
391 TTTTATTGATGTTGGCAAATAATTGGGATATCTTGCCTGCTTAAAGTTATCCTTAGTTATATCTT
* * *
718748 AGCTTTATTTTATTTTGAATTCAGTAATTGTCATGAATTTAGTTCGATTGGAAGTTTGAGGAATA
456 AGCTTTATTATACTTTGAATTCAGTAATTTTCATGAATTTAGTTCGATTGGAAGTTTGAGGAATA
718813 AATTGAAATTGAAGAAAGGCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATTGAATAAG
521 AATTGAAATTGAAGAAAGGCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATTGAATAAG
*
718878 TGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTTTTCTTTTAAATTACTATTTAGT
586 TGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTTTTCTTTTAAATTGCTATTTAGT
718943 TGTTATTTTTGTGGATGATT
651 TGTTATTTTTGTGGATGATT
*
718963 TATTTCATTGTTTTACTATTTTTGTCATTTGTTTTCTTATAAAAAACAAATGGAAAAAAAAGGTG
1 TATTTCATTGTTTTACTATTTTTGTCATTT-TTTTCTTATAAAAAACAAACGGAAAAAAAAGGTG
*
719028 AAAAAATAAAAGAAAAAATTATTTATGTTTATGTTTATGTTTTTATATGTTTATTTTTATTTTAT
65 AAAAAATAAAAG-AAAAA--A-TTA--TTTATGTTTATGTTTTTATATGTTTACTTTTATTTTAT
* *
719093 TTTATAAAGATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACTGATCATCATGGCCT
124 TTTATAAAAATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACCGATCATCATGGCCT
719158 TTTCCCTACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTGATTATTGCATTATA
189 TTTCCCTACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTGATTATTGCATTATA
719223 TTCATTTTTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAG
254 TTCATTTTTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAG
*
719288 TTTGAGTGATCTCATTTTACCCTAAACAGTTTGAGTGAATATGTGTGAATCTCTATGAGGTATTG
319 TTTGAGTGATCTCATTTTACCCTAAACAGTTTGAGTGAATATGTGTGAATCTCTGTGAGGTATTG
719353 AGTTATGTTTTATTGATGTTGGCAAATAATTGGGATATCTTGCCTGCTTAAAGTTATCCTTAGTT
384 AGTTATGTTTTATTGATGTTGGCAAATAATTGGGATATCTTGCCTGCTTAAAGTTATCCTTAGTT
719418 ATATCTTAGCTTTATTATACTTTGAATTCAGTAATTTTCATGAATTTAGTTCGATTGGAAGTTTG
449 ATATCTTAGCTTTATTATACTTTGAATTCAGTAATTTTCATGAATTTAGTTCGATTGGAAGTTTG
*
719483 AGGAATAAATTGAAATTGAAGAAAGCCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATT
514 AGGAATAAATTGAAATTGAAGAAAGGCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATT
*
719548 GAATAAGTGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTATTCTTTTAAATTGCT
579 GAATAAGTGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTTTTCTTTTAAATTGCT
719613 ATTTAGTTGTTATTTTTGTGGATGATT
644 ATTTAGTTGTTATTTTTGTGGATGATT
*
719640 TATTTCATTGTTTTTCTATTTTTGTCATTTTTTTTCTTATAAAAAACAAACGG-AAAAAAAGGTG
1 TATTTCATTGTTTTACTATTTTTGTCA-TTTTTTTCTTATAAAAAACAAACGGAAAAAAAAGGTG
*
719704 AAAAAATAAAAGAAAAAATTATTTATGTTTATGTTTTTATATGTTTACTTTTATTTTATTTTTTA
65 AAAAAATAAAAGAAAAAATTATTTATGTTTATGTTTTTATATGTTTACTTTTATTTTATTTTATA
*
719769 AATATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACCGATCATCATGGCCTTTTCCC
130 AAAATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACCGATCATCATGGCCTTTTCCC
*
719834 TACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTAATTATTGCATTATATTCATT
195 TACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTGATTATTGCATTATATTCATT
*
719899 TTTAGTAGTGGAGACTTGATTAGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAGTTTGAG
260 TTTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAGTTTGAG
*
719964 TGATCTCATTTTACTCTAAACAGTTTGAGTGAATATGTGTGAATCTCTGTGAGGTATTGAGTTAT
325 TGATCTCATTTTACCCTAAACAGTTTGAGTGAATATGTGTGAATCTCTGTGAGGTATTGAGTTAT
*
720029 GTTTTATTGATGTTGGCAAATAATTGGGATATCTTGCCTGCTTAAAGTTATCCTTAGTTATAACT
390 GTTTTATTGATGTTGGCAAATAATTGGGATATCTTGCCTGCTTAAAGTTATCCTTAGTTATATCT
* * *
720094 TAGCTTTATTGTACTTTGAATTCAGTAAATTTCATGAACTTAGTTCGATTGGAAGTTTGAGGAAT
455 TAGCTTTATTATACTTTGAATTCAGTAATTTTCATGAATTTAGTTCGATTGGAAGTTTGAGGAAT
720159 AAATTGAAATTGAAGAAAGGCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATTGAATAA
520 AAATTGAAATTGAAGAAAGGCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATTGAATAA
720224 GTGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTTTTCTTTTAAATTGCTATTTAG
585 GTGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTTTTCTTTTAAATTGCTATTTAG
*
720289 TTCTTATTTTTGTGGATGATT
650 TTGTTATTTTTGTGGATGATT
720310 TA-TTCATT
1 TATTTCATT
720318 TTGATTAATT
Statistics
Matches: 1313, Mismatches: 33, Indels: 18
0.96 0.02 0.01
Matches are distributed among these distances:
669 35 0.03
670 600 0.46
671 15 0.01
672 8 0.01
673 1 0.00
674 1 0.00
675 8 0.01
676 23 0.02
677 619 0.47
678 3 0.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (670 bp):
TATTTCATTGTTTTACTATTTTTGTCATTTTTTTCTTATAAAAAACAAACGGAAAAAAAAGGTGA
AAAAATAAAAGAAAAAATTATTTATGTTTATGTTTTTATATGTTTACTTTTATTTTATTTTATAA
AAATTAGAAATAATTTGTACATCTCTTGTATTGTTACTTAAACCGATCATCATGGCCTTTTCCCT
ACCCTAACATAAGCCCCATTACACCCTGATTTAAAGACCCTTTGATTATTGCATTATATTCATTT
TTAGTAGTGGAGACTTGATTGGATTCCAAGCCTATGGTAATATCTTGGTTAGTTCCAGTTTGAGT
GATCTCATTTTACCCTAAACAGTTTGAGTGAATATGTGTGAATCTCTGTGAGGTATTGAGTTATG
TTTTATTGATGTTGGCAAATAATTGGGATATCTTGCCTGCTTAAAGTTATCCTTAGTTATATCTT
AGCTTTATTATACTTTGAATTCAGTAATTTTCATGAATTTAGTTCGATTGGAAGTTTGAGGAATA
AATTGAAATTGAAGAAAGGCAACTTGTGATTTTGATATGTTAATTGAGGACAAACATTGAATAAG
TGATGGGGAATTTGATAGATGGTTTACTTAGTTATTATTATTTTTCTTTTAAATTGCTATTTAGT
TGTTATTTTTGTGGATGATT
Found at i:721452 original size:18 final size:18
Alignment explanation
Indices: 721429--721471 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
721419 AATTATTTAA
721429 TTATTTTA-TCTGTATCTT
1 TTATTTTATTCT-TATCTT
721447 TTATTTTATTCTTATCTT
1 TTATTTTATTCTTATCTT
721465 TTATTTT
1 TTATTTT
721472 TAAAACAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (18 bp):
TTATTTTATTCTTATCTT
Found at i:721797 original size:21 final size:22
Alignment explanation
Indices: 721772--721838 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
721762 TACTACTAAC
721772 CAAACCCACACTATAGACCTTA
1 CAAACCCACACTATAGACCTTA
* ** *
721794 -AAA-CCACCAATAATACCCCTAA
1 CAAACCCA-CACT-ATAGACCTTA
721816 CCAAACCCACACTATAGACCTTA
1 -CAAACCCACACTATAGACCTTA
721839 TAGAATACCA
Statistics
Matches: 32, Mismatches: 8, Indels: 9
0.65 0.16 0.18
Matches are distributed among these distances:
20 3 0.09
21 6 0.19
22 7 0.22
23 7 0.22
24 6 0.19
25 3 0.09
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.16
Consensus pattern (22 bp):
CAAACCCACACTATAGACCTTA
Found at i:723827 original size:4 final size:4
Alignment explanation
Indices: 723818--723843 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
723808 TATTACTGTC
723818 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
723844 AGAAGAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:728426 original size:3 final size:3
Alignment explanation
Indices: 728415--728452 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
728405 TTTTCATTTA
*
728415 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
728453 AAAATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:729813 original size:3 final size:3
Alignment explanation
Indices: 729807--729838 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
729797 TTTTGTAATA
*
729807 TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
729839 CAAATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:730630 original size:29 final size:26
Alignment explanation
Indices: 730598--730655 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
730588 TGTCAAAATT
730598 TTTATATATACTTATTATTTTTCATAATA
1 TTTATATATAC--ATTATTTTTCAT-ATA
* *
730627 TTTATATGTACATTATTTTTTATATA
1 TTTATATATACATTATTTTTCATATA
730653 TTT
1 TTT
730656 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 11 0.41
29 10 0.37
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTATATATACATTATTTTTCATATA
Found at i:733990 original size:15 final size:15
Alignment explanation
Indices: 733970--734001 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
733960 GATCAATACC
733970 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
733985 TTTTGCATACATTCA
1 TTTTGCATACATGCA
734000 TT
1 TT
734002 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:741310 original size:16 final size:18
Alignment explanation
Indices: 741284--741326 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
741274 TTATGCTTGA
* *
741284 AGAAAAAAAAGAAATAAAG
1 AGAAAAAGAAGAAA-AAGG
741303 AGAAAAAGAAGAAAAAGG
1 AGAAAAAGAAGAAAAAGG
741321 AGAAAA
1 AGAAAA
741327 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (18 bp):
AGAAAAAGAAGAAAAAGG
Found at i:741721 original size:19 final size:19
Alignment explanation
Indices: 741673--741750 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 19
741663 ATTTATTAAT
741673 AAATTCTAAGTTTATTTTCTCT-
1 AAATTC-AA-TTTATTTT-T-TG
741695 AAATTCAATTTATTTTTTG
1 AAATTCAATTTATTTTTTG
* *
741714 AGATTCAATTTA-TTTTCG
1 AAATTCAATTTATTTTTTG
741732 AAATTCAATTTATTCTTTT
1 AAATTCAATTTATT-TTTT
741751 ATTTTGTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 17 0.35
19 13 0.27
20 11 0.22
21 2 0.04
22 6 0.12
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTCAATTTATTTTTTG
Found at i:743101 original size:113 final size:113
Alignment explanation
Indices: 742889--743338 Score: 676
Period size: 113 Copynumber: 4.0 Consensus size: 113
742879 TAGCAAAGAT
* *
742889 TCAAATCCATCAC--AATGGATCA-ATATTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATAT
1 TCAAATCCATCACTTGATGGATCAGAT-TTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCT
742950 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
64 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
*
743000 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
743065 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
*
743113 TCAAATCCATCACTTGATGGATTAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* ** * *
743178 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * *
743226 TTGAATTCATCACTCGATGGATCA-ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGA-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
** * *
743290 AAGAAGGAAGAAGAAGTTTGTAATGAGAAGAGCTTGTTCGACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
743339 ATGACCCTAT
Statistics
Matches: 312, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
111 13 0.04
112 1 0.00
113 295 0.95
114 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:743669 original size:3 final size:3
Alignment explanation
Indices: 743663--743700 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
743653 TTCATTTAAT
743663 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
743701 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:747150 original size:9 final size:9
Alignment explanation
Indices: 747136--747163 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
747126 GAAATCGGTT
747136 AATTAACCG
1 AATTAACCG
747145 AATTAACCG
1 AATTAACCG
747154 AATTAACCG
1 AATTAACCG
747163 A
1 A
747164 TAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:747459 original size:27 final size:29
Alignment explanation
Indices: 747408--747463 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
747398 TAATACTTTA
*
747408 AAAAAAATTCGATTCATTTAACAATTAAAT
1 AAAAAAATTCGATTCAATT-ACAATTAAAT
747438 AAAAAAATTCGATT-AATT-CAATTAAA
1 AAAAAAATTCGATTCAATTACAATTAAA
747464 AATATTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
29 3 0.12
30 14 0.56
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAAAATTCGATTCAATTACAATTAAAT
Found at i:758309 original size:12 final size:12
Alignment explanation
Indices: 758292--758336 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
758282 TTTAAAGTGG
758292 AAAATGATTGAT
1 AAAATGATTGAT
*
758304 AAAATGTTTG--
1 AAAATGATTGAT
758314 AAAATGATTGAT
1 AAAATGATTGAT
*
758326 AAAATGTTTGA
1 AAAATGATTGA
758337 AAAGATTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 9 0.32
12 19 0.68
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.36
Consensus pattern (12 bp):
AAAATGATTGAT
Found at i:758316 original size:22 final size:22
Alignment explanation
Indices: 758291--758352 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
758281 TTTTAAAGTG
758291 GAAAATGATTGATAAAATGTTT
1 GAAAATGATTGATAAAATGTTT
758313 GAAAATGATTGATAAAATGTTT
1 GAAAATGATTGATAAAATGTTT
*
758335 GAAAA-GATTTGTTAAAAT
1 GAAAATGA-TTGATAAAAT
758353 TTAATCACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 2 0.05
22 36 0.95
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (22 bp):
GAAAATGATTGATAAAATGTTT
Found at i:767128 original size:17 final size:17
Alignment explanation
Indices: 767108--767140 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
767098 TTCAATTTAT
*
767108 TTAATACCTAGAAATAA
1 TTAATACATAGAAATAA
767125 TTAATACATAGAAATA
1 TTAATACATAGAAATA
767141 TAACTAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (17 bp):
TTAATACATAGAAATAA
Found at i:767707 original size:17 final size:18
Alignment explanation
Indices: 767665--767707 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
767655 TTTATTTTGA
* *
767665 TTTTCAAAATACAAGTTT
1 TTTTCAAAATACAAATTG
767683 TCTTTCAAAATA-AAATTG
1 T-TTTCAAAATACAAATTG
767701 TTTTCAA
1 TTTTCAA
767708 CTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTCAAAATACAAATTG
Found at i:775760 original size:14 final size:14
Alignment explanation
Indices: 775725--775776 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
775715 TTGACCCAAT
* *
775725 TGAGTCAACATGAAC
1 TGAGTCAA-ATCATC
775740 TGAGTCAAATCAT-
1 TGAGTCAAATCATC
*
775753 TCGAGTCAACTCATC
1 T-GAGTCAAATCATC
775768 TGAGTCAAA
1 TGAGTCAAA
775777 CCGTTGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 1 0.03
14 21 0.68
15 9 0.29
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (14 bp):
TGAGTCAAATCATC
Found at i:783135 original size:15 final size:15
Alignment explanation
Indices: 783090--783135 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
783080 AAGATAATTA
*
783090 AAATCATATATATATC
1 AAATC-TATATATATT
* *
783106 AAATATACATATATT
1 AAATCTATATATATT
783121 AAATCTATATATATT
1 AAATCTATATATATT
783136 TTAGTAACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATCTATATATATT
Found at i:785185 original size:19 final size:19
Alignment explanation
Indices: 785163--785224 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
785153 AGTACTTTTG
*
785163 TGTACTTGGAGTAGTTCTT
1 TGTACTTGGAGTAGTACTT
*
785182 TGTACTATGGCAAG-AGTACTC
1 TGTACT-TGG--AGTAGTACTT
*
785203 TGTACTTGTAGTAGTACTT
1 TGTACTTGGAGTAGTACTT
785222 TGT
1 TGT
785225 GTACTATGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 5 0.14
21 11 0.31
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (19 bp):
TGTACTTGGAGTAGTACTT
Found at i:785944 original size:141 final size:138
Alignment explanation
Indices: 785688--785965 Score: 520
Period size: 141 Copynumber: 2.0 Consensus size: 138
785678 AACTTAAACT
*
785688 TACTATTTGATTGATTTTAACATTATTATATATTTATTTGAAGAATGTTTAATAAACTATATTAC
1 TACTATTTGATGGATTTTAACATTATTATATATTTATTTGAAGAATGTTTAATAAACTATATTAC
785753 TAAATTGTTTATTTAAAGAAAGAAAATTTTTCTGGTATTCAAGTACAAAAATATTTTGAATGTCA
66 TAAATTGTTTATTTAAAGAAAGAAAATTTTTCTGGTATTCAAGTACAAAAATATTTTGAATGTCA
785818 TGTGACAC
131 TGTGACAC
785826 TACTATTTGATGGATTTTAACATTATTATATATATTTATTTGAAGAATGTTTAATAAACTATATT
1 TACTATTTGATGGATTTTAACATTA-T-TATATATTTATTTGAAGAATGTTTAATAAACTATATT
785891 ACTAAATTGTTTTATTTAAAGAAAGAAAATTTTTCTGGTATTCAAGTACAAAAATATTTTGAATG
64 ACTAAATTG-TTTATTTAAAGAAAGAAAATTTTTCTGGTATTCAAGTACAAAAATATTTTGAATG
785956 TCATGTGACA
128 TCATGTGACA
785966 TCTGTGACAT
Statistics
Matches: 136, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
138 24 0.18
139 1 0.01
140 46 0.34
141 65 0.48
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (138 bp):
TACTATTTGATGGATTTTAACATTATTATATATTTATTTGAAGAATGTTTAATAAACTATATTAC
TAAATTGTTTATTTAAAGAAAGAAAATTTTTCTGGTATTCAAGTACAAAAATATTTTGAATGTCA
TGTGACAC
Found at i:795816 original size:13 final size:13
Alignment explanation
Indices: 795798--795823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
795788 ATGGGAATGG
795798 ACAATAATAATAC
1 ACAATAATAATAC
795811 ACAATAATAATAC
1 ACAATAATAATAC
795824 GCTTAAGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ACAATAATAATAC
Found at i:803054 original size:77 final size:79
Alignment explanation
Indices: 802902--803055 Score: 190
Period size: 77 Copynumber: 2.0 Consensus size: 79
802892 ATATAGTAAG
* *
802902 TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATAATTCGGAATAATTT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTGATATATAATTCGGAATAATTA
802967 AATAAGTTTTTAAA
66 AATAAGTTTTTAAA
* * * * *
802981 TAAACATTAAAA-ATTGTAATTCAGATTATAAGTC-TTTAA-TGTATATTTAA-TCTGAATTAAT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTG-ATATATAATTCGGAA-TAAT
*
803042 TAAATAATTTTTTA
64 TAAATAAGTTTTTA
803056 TTTATTAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 7 0.11
77 28 0.43
78 18 0.28
79 12 0.18
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.43
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTTAATTGATATATAATTCGGAATAATTA
AATAAGTTTTTAAA
Found at i:813924 original size:96 final size:96
Alignment explanation
Indices: 813753--813929 Score: 223
Period size: 96 Copynumber: 1.8 Consensus size: 96
813743 ATCACTAATT
* * * *
813753 TACTGGTTTATGAACTATAATTACTTGAAATATGTTCACTGGTTACCTATTTTTACTGGAAATTA
1 TACTGGTTTATAAACTATAATTACCTGAAATATGTTCACTGGTTACCTATTTTCACTGGAAAATA
*
813818 TGTTCATTCCTGATTTATGGATCATAGAATC
66 TGCTCATTCCTGATTTATGGATCATAGAATC
** * * *
813849 TACTGGTTTATAAACTATGGTTACCTGAAATGTGTT-ATCTGGTTTA-TTGTTTTCACTGGAAAA
1 TACTGGTTTATAAACTATAATTACCTGAAATATGTTCA-CTGG-TTACCTATTTTCACTGGAAAA
*
813912 TATGCTCGTTCCTGATTT
64 TATGCTCATTCCTGATTT
813930 TTTGGCTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
95 1 0.01
96 64 0.94
97 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (96 bp):
TACTGGTTTATAAACTATAATTACCTGAAATATGTTCACTGGTTACCTATTTTCACTGGAAAATA
TGCTCATTCCTGATTTATGGATCATAGAATC
Found at i:827779 original size:58 final size:57
Alignment explanation
Indices: 827620--827786 Score: 194
Period size: 57 Copynumber: 2.9 Consensus size: 57
827610 TTCATGTTTT
* * *
827620 CAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTT-GATAATTATTTC
1 CAAA-GAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAG-TGATTATTCC
* * * *
827678 CAATA-TATTTTTAAAGAAGCTAAGCCTAATTTTCAGAGTTTTCTTAGTGATTATTCC
1 CAA-AGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAGTGATTATTCC
* * *
827735 CAAAGAATTTTTAAAAGAAACTAAACCTAATTTTTAGGGGTTTCTTAATGAT
1 CAAAGAATTTTT-AAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAGTGAT
827787 ATCTGTAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 52 0.57
58 37 0.41
59 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (57 bp):
CAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAGTGATTATTCC
Found at i:828396 original size:42 final size:41
Alignment explanation
Indices: 828333--828422 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 41
828323 ACTTAGTAAG
* * * *
828333 TCCTTCGGGTCATCAATAAGTCTTTCGAGCATGATGTATAAA
1 TCCTTCGAGTCATCAACAAGTCTTTCAAGCAAGATG-ATAAA
* *
828375 TCCTTCGAGTCATCTACAAGTCTTTCAAGCAAGATGATAAG
1 TCCTTCGAGTCATCAACAAGTCTTTCAAGCAAGATGATAAA
828416 TCCTTCG
1 TCCTTCG
828423 GGCATGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 11 0.26
42 31 0.74
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (41 bp):
TCCTTCGAGTCATCAACAAGTCTTTCAAGCAAGATGATAAA
Found at i:828398 original size:243 final size:239
Alignment explanation
Indices: 827865--828421 Score: 681
Period size: 243 Copynumber: 2.3 Consensus size: 239
827855 AGGAAATAAG
827865 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGTTCATCTATAAGTCTTTCGAGCAAGATGATA
1 TAAGTCTTTCGAGCATGATG-TTAAATCCTTCGG-TCATCTATAAGTCTTTCGAGCAAGATGATA
** ** ** * *
827930 AGTCCTTTGGGCCATCCATATGACTTTTGAGCAGGATGTTTTCACATGATTTTTGAAAAATTAGA
64 AGTCCTTCAGGCCATCCATAAAACTTCAGAGCAGGATGTTTTCACATGATTTTTAAAAAATGAGA
* * * * *
827995 AGGCAATTTCCGAAGTTTCCATTCAAATCTTTTATGAAAGATTGATTTTTCTTGAAAAGTAAGAA
129 AAGCAATTTCCAAAATTACCATTCAAATCTTTTATGAAAGACTGATTTTTCTTGAAAAGTAAGAA
* * * * *
828060 AGTGATTTCCAAAGTTTCGTTTTGAGTAAGTCCTTTGGGCCATCAG
194 AGCGATTTCCAAAGTTTCATCTTGAGTAAGTCCTTCGGGCCATCAA
* ** * *
828106 TAAGTTTTTTTAGCATGATATTTAAATCCTTCTGGCCATCTATAAGTCTTTCGAGCAAGATGATA
1 TAAGTCTTTCGAGCATGAT-GTTAAATCCTTC-GGTCATCTATAAGTCTTTCGAGCAAGATGATA
*
828171 AGTCCTTCAGGCCATCCATAAAACCTTCAG-GTAGGATGTTTTCACATG-TTTTTCAAAAAATGA
64 AGTCCTTCAGGCCATCCATAAAA-CTTCAGAGCAGGATGTTTTCACATGATTTTT-AAAAAATGA
** * * *
828234 GAAATTAATTTCCAAAATTACTCATTTAAATCTTTTTCTGAAAGACT-ATTTTTTCTTGATAAGT
127 GAAAGCAATTTCCAAAATTAC-CATTCAAATC-TTTTATGAAAGACTGA-TTTTTCTTGAAAAGT
* *
828298 AAGAAAGCGATTTCTAAAGTTTCATACTT-AGTAAGTCCTTCGGGTCATCAA
189 AAGAAAGCGATTTCCAAAGTTTCAT-CTTGAGTAAGTCCTTCGGGCCATCAA
* *
828349 TAAGTCTTTCGAGCATGATGTATAAATCCTTCGAGTCATCTACAAGTCTTTCAAGCAAGATGATA
1 TAAGTCTTTCGAGCATGATGT-TAAATCCTTCG-GTCATCTATAAGTCTTTCGAGCAAGATGATA
828414 AGTCCTTC
64 AGTCCTTC
828422 GGGCATGATG
Statistics
Matches: 268, Mismatches: 38, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
240 5 0.02
241 114 0.43
242 18 0.07
243 129 0.48
244 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (239 bp):
TAAGTCTTTCGAGCATGATGTTAAATCCTTCGGTCATCTATAAGTCTTTCGAGCAAGATGATAAG
TCCTTCAGGCCATCCATAAAACTTCAGAGCAGGATGTTTTCACATGATTTTTAAAAAATGAGAAA
GCAATTTCCAAAATTACCATTCAAATCTTTTATGAAAGACTGATTTTTCTTGAAAAGTAAGAAAG
CGATTTCCAAAGTTTCATCTTGAGTAAGTCCTTCGGGCCATCAA
Found at i:830259 original size:26 final size:26
Alignment explanation
Indices: 830210--830260 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
830200 TCCTTTGTGG
**
830210 TAATGTTCACAAAAAGAATTTTTATT
1 TAATGTTCACAAAAAGAAGGTTTATT
* *
830236 TAATGTTCATAAAAATAAGGTTTAT
1 TAATGTTCACAAAAAGAAGGTTTAT
830261 GAGGCTTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (26 bp):
TAATGTTCACAAAAAGAAGGTTTATT
Found at i:835360 original size:22 final size:20
Alignment explanation
Indices: 835334--835390 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
835324 CTCATTCAAT
835334 AAAGAGAAAAAAATAGAAAGAA
1 AAAGAGAAAAAAA-AGAAA-AA
* *
835356 GAAGA-AAAAGAAAGAAAAA
1 AAAGAGAAAAAAAAGAAAAA
835375 AAAGAGGAAAAGAAAA
1 AAAGA-GAAAA-AAAA
835391 AAGCGAGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 6 0.21
20 5 0.18
21 10 0.36
22 7 0.25
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAGAAAAAAAAGAAAAA
Found at i:835367 original size:16 final size:17
Alignment explanation
Indices: 835334--835377 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
835324 CTCATTCAAT
835334 AAAG-AGAAAAAAATAG
1 AAAGAAGAAAAAAATAG
*
835350 AAAGAAGAAGAAAA-AG
1 AAAGAAGAAAAAAATAG
835366 AAAGAA-AAAAAA
1 AAAGAAGAAAAAA
835378 GAGGAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 12 0.48
17 8 0.32
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAGAAGAAAAAAATAG
Found at i:835384 original size:16 final size:14
Alignment explanation
Indices: 835338--835392 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 14
835328 TTCAATAAAG
*
835338 AGAAAAAAATAGAA
1 AGAAAAAAAAAGAA
835352 AGAAGAAGAAAAAGAA
1 AGAA-AA-AAAAAGAA
835368 AGAAAAAAAAGAGGAAA
1 AGAAAAAAAA-A-G-AA
835385 AGAAAAAA
1 AGAAAAAA
835393 GCGAGAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 8 0.23
15 5 0.14
16 12 0.34
17 10 0.29
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (14 bp):
AGAAAAAAAAAGAA
Found at i:837632 original size:42 final size:41
Alignment explanation
Indices: 837570--837658 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 41
837560 AATTGGTAAG
* * * *
837570 TCCTTCAGTCCATCATTAAGTCTTTCGAGTATGATGATTAAA
1 TCCTTCAGTCCATCATTAAGTATTTCGAGCAAGAAGA-TAAA
837612 TCCTTCAGGT-CATC-TGTAAGTATTTCGAGCAAGAAGATAAA
1 TCCTTCA-GTCCATCAT-TAAGTATTTCGAGCAAGAAGATAAA
837653 TCCTTC
1 TCCTTC
837659 GGGCCATCCG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 11 0.27
42 28 0.68
43 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (41 bp):
TCCTTCAGTCCATCATTAAGTATTTCGAGCAAGAAGATAAA
Found at i:845307 original size:26 final size:26
Alignment explanation
Indices: 845271--845322 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
845261 TAAAGTGCAT
*
845271 TGGTGGGAACGACCTTATGTGTATTA
1 TGGTGGGAACGACCTTATCTGTATTA
845297 TGGTGGGAACGACCTTATCTGTATTA
1 TGGTGGGAACGACCTTATCTGTATTA
845323 GCACTTCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (26 bp):
TGGTGGGAACGACCTTATCTGTATTA
Found at i:845988 original size:21 final size:20
Alignment explanation
Indices: 845940--845988 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
845930 ATATTTATCT
*
845940 CAAGGCTTTGGTATGGATAA
1 CAAGCCTTTGGTATGGATAA
* * *
845960 GAAACCTTTCGGTATGGATAC
1 CAAGCCTTT-GGTATGGATAA
845981 CAAGCCTT
1 CAAGCCTT
845989 CGTTACAGAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (20 bp):
CAAGCCTTTGGTATGGATAA
Found at i:885078 original size:50 final size:50
Alignment explanation
Indices: 885001--885106 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
884991 TTGCAAGTTT
*
885001 TGATATTTTGAAACAATTCTAACTTTGAGAAATATTATTAATTATATGAA
1 TGATATTTTGAAACAATTCTAACTTTGAGAAATATTATAAATTATATGAA
*
885051 TTATATTTTGAAACAATTCTAACTTTGAGAAATATTATAAATTATATGAA
1 TGATATTTTGAAACAATTCTAACTTTGAGAAATATTATAAATTATATGAA
885101 TGATAT
1 TGATAT
885107 AATTTTTACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (50 bp):
TGATATTTTGAAACAATTCTAACTTTGAGAAATATTATAAATTATATGAA
Found at i:886153 original size:29 final size:29
Alignment explanation
Indices: 886100--886159 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 29
886090 CATACTTAGC
*
886100 ATAAAAATAAAACTTGAAAATAAAGA-AAA
1 ATAAAAAT-AAACTTGAAAAAAAAGAGAAA
886129 ATAAAAAT-AACTTGAAAAGGAAAAGAGAAA
1 ATAAAAATAAACTTGAAAA--AAAAGAGAAA
886159 A
1 A
886160 CTTTTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 10 0.37
29 13 0.48
30 4 0.15
ACGTcount: A:0.70, C:0.03, G:0.12, T:0.15
Consensus pattern (29 bp):
ATAAAAATAAACTTGAAAAAAAAGAGAAA
Found at i:887259 original size:21 final size:20
Alignment explanation
Indices: 887216--887264 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
887206 CTTTCATGTC
* *
887216 TTTTTTTTTCGAACAGTTTT
1 TTTTTTTTTCGAACAGCTAT
*
887236 TTTTCTTTTTCGAACTGCTAT
1 TTTT-TTTTTCGAACAGCTAT
887257 TTTTTTTT
1 TTTTTTTT
887265 CAACATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTTTTTTCGAACAGCTAT
Found at i:891050 original size:14 final size:15
Alignment explanation
Indices: 891031--891060 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
891021 TAATAAAGTG
891031 ATTAAA-TAAAAATA
1 ATTAAAGTAAAAATA
891045 ATTAAAGTAAAAATA
1 ATTAAAGTAAAAATA
891060 A
1 A
891061 GAAGATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
ATTAAAGTAAAAATA
Found at i:899377 original size:21 final size:21
Alignment explanation
Indices: 899344--899466 Score: 122
Period size: 21 Copynumber: 5.7 Consensus size: 21
899334 TTTTCGTAAG
*
899344 AGTAATTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
* *
899365 AGTACTTTATGTATTATGGCAAG-
1 AGTACTTTGTGTACT-TGG--AGT
*
899388 AGTACTTTGTGTACTTGGCGT
1 AGTACTTTGTGTACTTGGAGT
* *
899409 AGTACTTTGTGTATTATGGCAAT
1 AGTACTTTGTGTACT-TGG-AGT
* *
899432 AGTACTTTATGTACTTGTAGT
1 AGTACTTTGTGTACTTGGAGT
899453 AGTACTTTGTGTAC
1 AGTACTTTGTGTAC
899467 AATGGCACTT
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.01
21 41 0.50
22 11 0.13
23 27 0.33
24 2 0.02
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:899391 original size:23 final size:23
Alignment explanation
Indices: 899365--899444 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
899355 TACTTGGAGT
899365 AGTACTTTATGTATTATGGCAAG
1 AGTACTTTATGTATTATGGCAAG
* *
899388 AGTACTTTGTGTACT-TGGC--G
1 AGTACTTTATGTATTATGGCAAG
* *
899408 TAGTACTTTGTGTATTATGGCAAT
1 -AGTACTTTATGTATTATGGCAAG
899432 AGTACTTTATGTA
1 AGTACTTTATGTA
899445 CTTGTAGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
22 8 0.17
23 25 0.52
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (23 bp):
AGTACTTTATGTATTATGGCAAG
Found at i:899473 original size:44 final size:44
Alignment explanation
Indices: 899341--899465 Score: 196
Period size: 44 Copynumber: 2.8 Consensus size: 44
899331 GCATTTTCGT
* *
899341 AAGAGTAATTTGTGTACTTGGAGTAGTACTTTATGTATTATGGC
1 AAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTATTATGGC
*
899385 AAGAGTACTTTGTGTACTTGGCGTAGTACTTTGTGTATTATGGC
1 AAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTATTATGGC
* * *
899429 AATAGTACTTTATGTACTTGTAGTAGTACTTTGTGTA
1 AAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTA
899466 CAATGGCACT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (44 bp):
AAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTATTATGGC
Found at i:901177 original size:34 final size:33
Alignment explanation
Indices: 901100--901177 Score: 77
Period size: 34 Copynumber: 2.3 Consensus size: 33
901090 AAACCAAGGA
* * *
901100 AATAAATGAAACCAATAATAATAAACATAAAAT
1 AATAAATGAAACAAATAATAAAAAAAATAAAAT
**
901133 AATTGGATGAAACAAAT-ATAAAAAAAATAAAATT
1 AA-TAAATGAAACAAATAATAAAAAAAATAAAA-T
901167 GAATAAATGAA
1 -AATAAATGAA
901178 GAAAAAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
33 15 0.43
34 18 0.51
35 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (33 bp):
AATAAATGAAACAAATAATAAAAAAAATAAAAT
Found at i:901308 original size:17 final size:16
Alignment explanation
Indices: 901278--901332 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
901268 AAACATAATG
901278 AAAAT-AAATAAATAGTA
1 AAAATAAAAT-AATA-TA
901295 AAAATAAAATAATA-A
1 AAAATAAAATAATATA
901310 AACAA-AAAATATATATA
1 AA-AATAAAATA-ATATA
901327 AAAATA
1 AAAATA
901333 TAAAAATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 9 0.27
16 7 0.21
17 13 0.39
18 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAAAATAATATA
Found at i:901308 original size:21 final size:20
Alignment explanation
Indices: 901278--901339 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
901268 AAACATAATG
901278 AAAATAAATAAATAGTAAAAAT
1 AAAAT-AATAAATA-TAAAAAT
*
901300 AAAATAATAAA-ACAAAAAAT
1 AAAATAATAAATA-TAAAAAT
*
901320 ATATATAA-AAATATAAAAAT
1 A-AAATAATAAATATAAAAAT
901340 GTATGTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAATAATAAATATAAAAAT
Found at i:901544 original size:2 final size:2
Alignment explanation
Indices: 901537--901577 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
901527 AAAACAAATA
901537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
901578 ATTATAGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:901602 original size:10 final size:11
Alignment explanation
Indices: 901534--901583 Score: 72
Period size: 10 Copynumber: 4.9 Consensus size: 11
901524 ATAAAAACAA
901534 ATAATATATAT
1 ATAATATATAT
901545 AT-ATATATAT
1 ATAATATATAT
901555 AT-ATATATAT
1 ATAATATATAT
901565 AT-ATATATAT
1 ATAATATATAT
901575 ATAAT-TATA
1 ATAATATATA
901584 GGAAAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 34 0.89
11 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATAATATATAT
Found at i:902137 original size:36 final size:37
Alignment explanation
Indices: 902055--902157 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 37
902045 ATGCTTGTGG
* * ** *
902055 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
902092 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
902128 ATCCTATTTTTAGAAG-TTGAAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTG-AATCCTAGTA
902158 GGACGAAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 3 0.05
36 28 0.50
37 25 0.45
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:903092 original size:106 final size:106
Alignment explanation
Indices: 902901--903463 Score: 634
Period size: 106 Copynumber: 5.4 Consensus size: 106
902891 GTAAGTAGCA
* * *
902901 TTGTTTCGAGTCCAATATCC-TCTG-TCGTGAAGTTGAAATTGGCTCTGGAACTT-GGAAATTGT
1 TTGTCTCGAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTAT
* *
902963 TTGTTAACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
63 TTGTTGACAACTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* *
903007 TTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCT-AAATTGGGAAATTATTT
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-CTGAAATTGGGAAATTATTT
* * *
903071 GTTGACAACTAGCCATACCTTCATTGTGAAGTTGAACTTGTG
65 GTTGACAACTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* *
903113 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTG
*
903178 TTGACAACCAGCCGTCCCTTCGTTTGTGAAGTTG-ACTTGTG
66 TTGACAACTAGCCGTCCCTTCG-TTGTGAAGTTGAACTTGTG
* * * *
903219 CTGTCTCGAGTCTAATATCCTTCCCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTG
* * *
903278 TTGACAA-TCAGTCGCCCCTTC-TTCGTGAAGTTGAGCTTGTG
66 TTGACAACT-AGCCGTCCCTTCGTT-GTGAAGTTGAACTTGTG
* * * * * * *
903319 TTGTCTTGGGTCCAAGATCCTTCACTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTATTTG
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTG
* * ** *
903384 TTGA-TAGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTG
66 TTGACAACT-AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* *
903425 CTGTCTCGAGTCTAATATCCTTCG-TCGTGAAGTTGAAAT
1 TTGTCTCGAGTCCAATATCCTTCGCT-GTGAAGTTGAAAT
903464 CCAATCTAAA
Statistics
Matches: 390, Mismatches: 49, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
98 2 0.01
99 9 0.02
100 65 0.17
101 3 0.01
102 4 0.01
104 4 0.01
105 11 0.03
106 276 0.71
107 16 0.04
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (106 bp):
TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTG
TTGACAACTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
Found at i:903378 original size:206 final size:210
Alignment explanation
Indices: 902929--903463 Score: 674
Period size: 206 Copynumber: 2.6 Consensus size: 210
902919 CCTCTGTCGT
* * * *
902929 GAAGTTGAAATTGGCTCTGGAACTT-GGAAATTGTTTGTTAACAACCAGCCGTCCCTTCGTTGTG
1 GAAGTTGAAATTGGCTCT-GAAATTGGGAAGTTATTTGTTGACAACCAGCCGTCCCTTCGTTGTG
* * ** *
902993 AAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCTAAAT
65 AAGTTGAACTTGTGCTGTCTCGAGTCTAATATCC-TTCCTGTGAAGTTGAAATTGACTCCTAAAT
*
903058 TGGGAAATTATTTGTTGACAACTAGCCATACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAG
129 T-GGAAATTATTTGTTGACAACTAGCCACACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAG
* * *
903123 TCCAATATCCTTCGCTGT
193 TCCAAGATCCTTCACTGA
*
903141 GAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGTCCCTTCGTTTGTG
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGTCCCTTCG-TTGTG
*
903206 AAGTTG-ACTTGTGCTGTCTCGAGTCTAATATCCTTCCCTGTGAAGTTGAAATTGACT-CTGAA-
65 AAGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTT-CCTGTGAAGTTGAAATTGACTCCTAAAT
* * * * * *
903268 T-GAAA-T-TTTGTTGACAA-TCAGTCGCCCCTTC-TTCGTGAAGTTGAGCTTGTGTTGTCTTGG
129 TGGAAATTATTTGTTGACAACT-AGCCACACCTTCATT-GTGAAGTTGAACTTGTGTTGTCTCGA
903328 GTCCAAGATCCTTCACTGA
192 GTCCAAGATCCTTCACTGA
* * ** ** *
903347 GAAGTTGAAATTGGTTCTGAAATTGGGAAGTTATTTGTTGATAGTCAGCCACCCCTTCGCTGTGA
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
*
903412 AGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCGTCGTGAAGTTGAAAT
66 AGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCCT-GTGAAGTTGAAAT
903464 CCAATCTAAA
Statistics
Matches: 286, Mismatches: 30, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
205 15 0.05
206 152 0.53
207 1 0.00
208 4 0.01
210 1 0.00
211 11 0.04
212 91 0.32
213 11 0.04
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (210 bp):
GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
AGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCCTGTGAAGTTGAAATTGACTCCTAAATTG
GAAATTATTTGTTGACAACTAGCCACACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
AAGATCCTTCACTGA
Found at i:903799 original size:106 final size:105
Alignment explanation
Indices: 903608--904166 Score: 661
Period size: 106 Copynumber: 5.3 Consensus size: 105
903598 AGCATTGTTC
* ** * *
903608 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTAGAACCGGGAAATTGTTTGTTAAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTA-AATTGGGAAATTATTTGTTGAC
*
903672 AACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 AACTAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
903714 CAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCTAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-CTAAATTGGGAAATTATTTGTTGACA
*
903779 ACTAGCCATCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
65 ACTAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
903820 CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AAATTGGGAAATTATTTGTTGACA
* * *
903885 ACCAGCCGTCCCTTCGTTTGTGAAGTTG-ACTTGTGCTGTCT
65 ACTAGCCATCCCTTCG-TTGTGAAGTTGAACTTGTGTTGTCT
* * * *
903926 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA-T--GAAA-T-TTTGTTTACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAATTGGGAAATTATTTGTTGACAA
** *
903986 -TCAGCCGCCCCTTC-TTCGTGAAGTTGAGCTTGTGTTGTCT
66 CT-AGCCATCCCTTCGTT-GTGAAGTTGAACTTGTGTTGTCT
* * * * * * * *
904026 TGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTGTTGA-T
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AAATTGGGAAATTATTTGTTGACA
* * * *
904090 AGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
65 ACT-AGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
904132 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
904167 ACTCCGAATG
Statistics
Matches: 392, Mismatches: 46, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.01
99 9 0.02
100 65 0.17
101 3 0.01
102 4 0.01
104 4 0.01
105 6 0.02
106 283 0.72
107 16 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAATTGGGAAATTATTTGTTGACAA
CTAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:904076 original size:206 final size:206
Alignment explanation
Indices: 903608--904182 Score: 737
Period size: 206 Copynumber: 2.8 Consensus size: 206
903598 AGCATTGTTC
* * * ** * *
903608 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCT-AGAACCGGGAAATTGTTTGTTAA
1 CGAGTCCAAGATCCTTCGCT-GAGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGA
* * * *
903671 CAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCAAGTCCAATATCCTTCGTTGT
64 CAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGT
* * *
903736 GAAGTTGAAATTGGCTCCTAAATTGGGAAATTATTTGTTGACAACTAGCCATCCCTTCATTGTGA
129 GAAGTTGAAATTGACT-CTGAA-T--GAAA-T-TTTGTTGACAACTAGCCACCCCTTCATTGTGA
903801 AGTTGAACTTGTGTTGTCT
188 AGTTGAACTTGTGTTGTCT
* * * *
903820 CGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACA
1 CGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
903885 ACCAGCCGTCCCTTCGTTTGTGAAGTTG-ACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTG
66 ACCAGCCATCCCTTCG-TTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTG
* *
903949 AAGTTGAAATTGACTCTGAATGAAATTTTGTTTACAA-TCAGCCGCCCCTTC-TTCGTGAAGTTG
130 AAGTTGAAATTGACTCTGAATGAAATTTTGTTGACAACT-AGCCACCCCTTCATT-GTGAAGTTG
*
904012 AGCTTGTGTTGTCT
193 AACTTGTGTTGTCT
* * * *
904026 TGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTGTTGATA
1 CGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** * *
904091 GTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGA
66 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGA
*
904156 AGTTGAAATTGACTCCGAATGAAATTT
131 AGTTGAAATTGACTCTGAATGAAATTT
904183 GAAAAAGTTA
Statistics
Matches: 325, Mismatches: 32, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
205 13 0.04
206 174 0.54
207 1 0.00
208 4 0.01
210 1 0.00
211 4 0.01
212 115 0.35
213 13 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (206 bp):
CGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGA
AGTTGAAATTGACTCTGAATGAAATTTTGTTGACAACTAGCCACCCCTTCATTGTGAAGTTGAAC
TTGTGTTGTCT
Found at i:904087 original size:701 final size:701
Alignment explanation
Indices: 902738--904164 Score: 2685
Period size: 701 Copynumber: 2.0 Consensus size: 701
902728 TTTGAGTTGG
902738 ATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAGATGATGCTTGTGTGCATGATTCCCT
1 ATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAGATGATGCTTGTGTGCATGATTCCCT
*
902803 TCGTCGTGAAGTTGAAACCGCGGGTGGCCCCTTCGTCGTGAGGTTGAGCCTGGAATTAGATATCC
66 TCGTCGTGAAGTTGAAACCGCGGGTGGCCCCTTCATCGTGAGGTTGAGCCTGGAATTAGATATCC
* *
902868 TTCGTCGTGAAGTTGAAATCCAAGTAAGTAGCATTGTTTCGAGTCCAATATCCTCTGTCGTGAAG
131 TTCGTCGTGAAGTTGAAATCCAAGTAAGTAGCATTGTTCCGAGTCCAATATCCTCCGTCGTGAAG
* ** *
902933 TTGAAATTGGCTCTGGAACTTGGAAATTGTTTGTTAACAACCAGCCGTCCCTTCGTTGTGAAGTT
196 TTGAAATTGGCTCTAGAACCGGGAAATTGTTTGTTAACAACCAGCCATCCCTTCGTTGTGAAGTT
* *
902998 GAACTTGTGTTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCTAAATTGGGA
261 GAACTTGTGTTGTCTCAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCTAAATTGGGA
903063 AATTATTTGTTGACAACTAGCCATACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
326 AATTATTTGTTGACAACTAGCCATACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
903128 TATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGT
391 TATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGT
903193 CCCTTCGTTTGTGAAGTTGACTTGTGCTGTCTCGAGTCTAATATCCTTCCCTGTGAAGTTGAAAT
456 CCCTTCGTTTGTGAAGTTGACTTGTGCTGTCTCGAGTCTAATATCCTTCCCTGTGAAGTTGAAAT
*
903258 TGACTCTGAATGAAATTTTGTTGACAATCAGTCGCCCCTTCTTCGTGAAGTTGAGCTTGTGTTGT
521 TGACTCTGAATGAAATTTTGTTGACAATCAGCCGCCCCTTCTTCGTGAAGTTGAGCTTGTGTTGT
903323 CTTGGGTCCAAGATCCTTCACTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTATTTGTTGA
586 CTTGGGTCCAAGATCCTTCACTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTATTTGTTGA
903388 TAGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTA
651 TAGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTA
903439 ATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAGATGATGCTTGTGTGCATGATTCCCT
1 ATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAGATGATGCTTGTGTGCATGATTCCCT
* *
903504 TCGTCGTGAAGTTGAAATCGCGGGTGGCCCCTTCATCGTGAGGTTGAGCCTGGAATTGGATATCC
66 TCGTCGTGAAGTTGAAACCGCGGGTGGCCCCTTCATCGTGAGGTTGAGCCTGGAATTAGATATCC
903569 TTCGTCGTGAAGTTGAAATCCAAGTAAGTAGCATTGTTCCGAGTCCAATATCCTCCGTCGTGAAG
131 TTCGTCGTGAAGTTGAAATCCAAGTAAGTAGCATTGTTCCGAGTCCAATATCCTCCGTCGTGAAG
903634 TTGAAATTGGCTCTAGAACCGGGAAATTGTTTGTTAACAACCAGCCATCCCTTCGTTGTGAAGTT
196 TTGAAATTGGCTCTAGAACCGGGAAATTGTTTGTTAACAACCAGCCATCCCTTCGTTGTGAAGTT
903699 GAACTTGTGTTGTCTCAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCTAAATTGGGA
261 GAACTTGTGTTGTCTCAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCTAAATTGGGA
*
903764 AATTATTTGTTGACAACTAGCCATCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
326 AATTATTTGTTGACAACTAGCCATACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
903829 TATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGT
391 TATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGT
*
903894 CCCTTCGTTTGTGAAGTTGACTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTGAAAT
456 CCCTTCGTTTGTGAAGTTGACTTGTGCTGTCTCGAGTCTAATATCCTTCCCTGTGAAGTTGAAAT
*
903959 TGACTCTGAATGAAATTTTGTTTACAATCAGCCGCCCCTTCTTCGTGAAGTTGAGCTTGTGTTGT
521 TGACTCTGAATGAAATTTTGTTGACAATCAGCCGCCCCTTCTTCGTGAAGTTGAGCTTGTGTTGT
* *
904024 CTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTGTTGA
586 CTTGGGTCCAAGATCCTTCACTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTATTTGTTGA
904089 TAGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTA
651 TAGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTA
904140 ATATCCTTCG-CTGTGAAGTTGAAAT
1 ATATCCTTCGTC-GTGAAGTTGAAAT
904165 TGACTCCGAA
Statistics
Matches: 708, Mismatches: 17, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
700 1 0.00
701 707 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (701 bp):
ATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATAGATGATGCTTGTGTGCATGATTCCCT
TCGTCGTGAAGTTGAAACCGCGGGTGGCCCCTTCATCGTGAGGTTGAGCCTGGAATTAGATATCC
TTCGTCGTGAAGTTGAAATCCAAGTAAGTAGCATTGTTCCGAGTCCAATATCCTCCGTCGTGAAG
TTGAAATTGGCTCTAGAACCGGGAAATTGTTTGTTAACAACCAGCCATCCCTTCGTTGTGAAGTT
GAACTTGTGTTGTCTCAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCTAAATTGGGA
AATTATTTGTTGACAACTAGCCATACCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
TATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCCGT
CCCTTCGTTTGTGAAGTTGACTTGTGCTGTCTCGAGTCTAATATCCTTCCCTGTGAAGTTGAAAT
TGACTCTGAATGAAATTTTGTTGACAATCAGCCGCCCCTTCTTCGTGAAGTTGAGCTTGTGTTGT
CTTGGGTCCAAGATCCTTCACTGAGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTATTTGTTGA
TAGTCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCTA
Found at i:905297 original size:18 final size:18
Alignment explanation
Indices: 905270--905305 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
905260 TGTTGAATCC
* *
905270 CCAAAGATGCCCCGATAT
1 CCAAAAATGCCCCAATAT
905288 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
905306 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.33, G:0.11, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:905525 original size:25 final size:23
Alignment explanation
Indices: 905492--905557 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
905482 TATCAAAAAA
905492 AAGAGTTTTGAAAGATATTTAATC
1 AAGAGTTTTGAAA-ATATTTAATC
* * *
905516 AAGAGTTTTTAAATATGTTTAATT
1 AAGAGTTTTGAAA-ATATTTAATC
*
905540 AAAAGTTTTGAAAATATT
1 AAGAGTTTTGAAAATATT
905558 ATCCCTTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (23 bp):
AAGAGTTTTGAAAATATTTAATC
Done.