Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_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: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:946 original size:3 final size:3
Alignment explanation
Indices: 938--977 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
928 GAGGGACATT
938 GAA GAA GAA GAA GAA GAA GAAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA
978 ATGAAGATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:963 original size:19 final size:19
Alignment explanation
Indices: 939--984 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
929 AGGGACATTG
939 AAGAAGAAGAAGAAGAAGA
1 AAGAAGAAGAAGAAGAAGA
958 AAGAAGAAGAAGAAGAAGA
1 AAGAAGAAGAAGAAGAAGA
977 AATGAAGA
1 AA-GAAGA
985 TAGAGAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (19 bp):
AAGAAGAAGAAGAAGAAGA
Found at i:998 original size:23 final size:19
Alignment explanation
Indices: 939--994 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
929 AGGGACATTG
*
939 AAGAAGAAGAAGAAGAAGA
1 AAGAAGAAGAAAAAGAAGA
*
958 AAGAAGAAGAAGAAGAAGA
1 AAGAAGAAGAAAAAGAAGA
*
977 AATGAAGATAGAGAAAGA
1 AA-GAAGA-AGAAAAAGA
995 GAAGTTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 21 0.64
20 5 0.15
21 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (19 bp):
AAGAAGAAGAAAAAGAAGA
Found at i:10344 original size:23 final size:22
Alignment explanation
Indices: 10318--10364 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
10308 ATAAAGTACA
*
10318 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGC-TAT
**
10341 ATAATGTAATAGGTAGCGCTAT
1 ATAACATAATAGGTAGCGCTAT
10363 AT
1 AT
10365 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (22 bp):
ATAACATAATAGGTAGCGCTAT
Found at i:10723 original size:20 final size:20
Alignment explanation
Indices: 10698--10736 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10688 TCCACAGTGA
* *
10698 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
10718 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
10737 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:11129 original size:18 final size:19
Alignment explanation
Indices: 11098--11133 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11088 TCCACAGTGA
*
11098 AAAAAGTATGGACACTTAT
1 AAAAAGGATGGACACTTAT
11117 AAAAAGGAT-GACACTTA
1 AAAAAGGATGGACACTTA
11134 CAATATAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AAAAAGGATGGACACTTAT
Found at i:14041 original size:180 final size:183
Alignment explanation
Indices: 13717--14415 Score: 1240
Period size: 180 Copynumber: 3.9 Consensus size: 183
13707 TTTTAAATGG
* *
13717 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
13782 TAAAACCGGTATATTTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGG-ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
13846 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
13900 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
13965 T-AAACCGG-TATTTATACCGG-TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 TAAAACCGGATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
14027 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
14080 TA-GGATATAAAGTACCGACACAATATTAAAAAGTGTCG--ATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
14142 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATC--TTACATTATAATTATGGGTTCC
66 TAAAACCGG-ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
14205 GATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
14258 TATGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTA-TCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
14322 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGG-ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
14387 GATGTGTAAAATGTCGACACTTTTGTAAA
130 GATGTGTAAAATGTCGACACTTTTTTAAA
14416 AGTGTCCATA
Statistics
Matches: 500, Mismatches: 5, Indels: 22
0.95 0.01 0.04
Matches are distributed among these distances:
177 25 0.05
178 42 0.08
179 121 0.24
180 159 0.32
181 33 0.07
182 49 0.10
183 71 0.14
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:14415 original size:19 final size:20
Alignment explanation
Indices: 14391--14436 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14381 GGTTCCGATG
*
14391 TGTAAAA-TGTCGACACTTT
1 TGTAAAAGTGTCCACACTTT
*
14410 TGTAAAAGTGTCCATACTTT
1 TGTAAAAGTGTCCACACTTT
*
14430 TATAAAA
1 TGTAAAA
14437 AGGATCGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTAAAAGTGTCCACACTTT
Found at i:15860 original size:3 final size:3
Alignment explanation
Indices: 15852--15925 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
15842 ACTTGTTTGG
* * * **
15852 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
15900 AGC TTC ATC GTC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
15926 TGTCATCTTC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:15919 original size:42 final size:42
Alignment explanation
Indices: 15860--15950 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
15850 GGATCATCAT
*
15860 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* ** * *
15902 CTTCATCGTCATCATCATCATCATTGTCATCTTCATTGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
15944 CTTCATC
1 CTTCATC
15951 TTCTGCGACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:15931 original size:9 final size:9
Alignment explanation
Indices: 15865--15932 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
15855 ATCATCTTCA
*
15865 TCATCATCA
1 TCATCATCG
15874 TCATCATCG
1 TCATCATCG
*
15883 TCATCATCT
1 TCATCATCG
**
15892 TCATCGCCAG
1 TCATCATC-G
*
15902 -CTTCATCG
1 TCATCATCG
*
15910 TCATCATCA
1 TCATCATCG
*
15919 TCATCATTG
1 TCATCATCG
15928 TCATC
1 TCATC
15933 TTCATTGTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
8 1 0.02
9 44 0.98
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:15953 original size:6 final size:6
Alignment explanation
Indices: 15856--15953 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
15846 GTTTGGATCA
* * * * * * * *
15856 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
15904 TCATCG TCATCA TCATCA TCAT-T GTCATCT TCAT-T GTCAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT -TCATCT TCATCT -TCATCT TCATCT
15952 TC
1 TC
15954 TGCGACCGAT
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
5 1 0.01
6 70 0.96
7 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:18044 original size:199 final size:199
Alignment explanation
Indices: 17173--18388 Score: 2227
Period size: 197 Copynumber: 6.1 Consensus size: 199
17163 TTTAAATTAG
17173 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
17238 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
*
17303 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GTAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
17366 AAAA
196 AAAA
17370 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
17435 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
* *
17500 CGACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTG-TTTTAATTCATTCTGGG-A
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
17562 AAAAA
195 AAAAA
17567 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
17632 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
**
17697 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
17761 AAAA
196 AAAA
17765 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
17830 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
* *
17894 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
17959 AAAAA
195 AAAAA
17964 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
18029 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
18094 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
18159 AAAA
196 AAAA
18163 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
18226 ATTGTACCGGTTAGATTGAAAAATTACATATTACA-TATTCTTTTGGGTTCGATGATTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGA-TTTTGGGA
18290 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
18355 AAAAA
195 AAAAA
*
18360 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
18389 TGACCCTTAA
Statistics
Matches: 986, Mismatches: 22, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
196 41 0.04
197 507 0.51
198 176 0.18
199 248 0.25
200 14 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
AAAA
Found at i:18299 original size:594 final size:592
Alignment explanation
Indices: 17173--18388 Score: 2217
Period size: 594 Copynumber: 2.0 Consensus size: 592
17163 TTTAAATTAG
17173 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
17238 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
17303 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
17368 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
17433 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
17498 ATCGACACTTTTTTATATATGGATCGACACTTATGGGTGCACCTTGTTTTAATTCATTCTGGGAA
326 ATCGACACTTTTTTATATATGGATCGACACTTATGGATGCACCTTGTTTTAATTCATTCTGGGAA
17563 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
391 AAAATATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
17628 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTG
455 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTG
*
17693 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGT
520 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
17757 AAAAAAAA
585 AAAAAAAA
17765 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
17830 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
17894 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC--TTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCT-GGAA
17959 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
193 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
* *
18024 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTT
258 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
18089 GGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
323 GGGATCGACACTTTTTTATATATGGATCGACAC-TTATGGATGCACCTTG-TTTTAATTCATTCT
18153 GGGAAAAAAATATCGACACAAAC-TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
386 GGG-AAAAAATATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
18217 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACA-TATTCTTTTGGGTTCGATGA
450 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGA
18281 TTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCA
515 -TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCA
*
18346 TTCTGGGAAAAAAA
579 TTCTGGAAAAAAAA
*
18360 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
18389 TGACCCTTAA
Statistics
Matches: 604, Mismatches: 12, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
591 14 0.02
592 119 0.20
593 91 0.15
594 294 0.49
595 67 0.11
596 19 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (592 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTTATATATGGATCGACACTTATGGATGCACCTTGTTTTAATTCATTCTGGGAA
AAAATATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGA
AAAAAAA
Found at i:18497 original size:19 final size:19
Alignment explanation
Indices: 18470--18514 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
18460 ATTCACATAA
*
18470 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
18489 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
18508 AAAATTA
1 AAAATTA
18515 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:20344 original size:32 final size:32
Alignment explanation
Indices: 20302--20362 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
20292 TTAATATCAC
*
20302 CCCTTAACACCGAAACTTCTTTCACCACTTCA
1 CCCTCAACACCGAAACTTCTTTCACCACTTCA
***
20334 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCGAAACTTCTTTCACCACT
20363 CCTTCTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.25, C:0.44, G:0.02, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCGAAACTTCTTTCACCACTTCA
Found at i:22683 original size:17 final size:18
Alignment explanation
Indices: 22661--22702 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
22651 ATATATCCGG
22661 TATCATT-TTACCGGTTT
1 TATCATTATTACCGGTTT
22678 TATCATTTATTACCGGTTT
1 TATCA-TTATTACCGGTTT
22697 TATCAT
1 TATCAT
22703 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 15 0.65
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (18 bp):
TATCATTATTACCGGTTT
Found at i:22720 original size:20 final size:19
Alignment explanation
Indices: 22666--22711 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
22656 TCCGGTATCA
22666 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
22685 TATTACCGGTTTTATCATAT
1 TTTTACCGGTTTTATCAT-T
22705 TTTTACC
1 TTTTACC
22712 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:22858 original size:20 final size:20
Alignment explanation
Indices: 22833--22877 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
22823 CACTTTTAAA
22833 TTACCGGTTTTATCAT-TTT
1 TTACCGGTTTTATCATATTT
22852 GTTACCGGTTTTATCATATTT
1 -TTACCGGTTTTATCATATTT
22873 TTACC
1 TTACC
22878 TGGTATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (20 bp):
TTACCGGTTTTATCATATTT
Found at i:26950 original size:20 final size:20
Alignment explanation
Indices: 26914--26951 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26904 ATCCTATTCC
**
26914 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
26934 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
26952 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:34858 original size:24 final size:24
Alignment explanation
Indices: 34831--34879 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
34821 ATAGGATGCA
*
34831 CTTGGCCCTTATAAGGGTTTAGTG
1 CTTGGCCCTTATAAGGGCTTAGTG
*
34855 CTTGGCCCTTATAGGGGCTTAGTG
1 CTTGGCCCTTATAAGGGCTTAGTG
34879 C
1 C
34880 ATTCGTCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.20, G:0.31, T:0.35
Consensus pattern (24 bp):
CTTGGCCCTTATAAGGGCTTAGTG
Found at i:38402 original size:2 final size:2
Alignment explanation
Indices: 38397--38423 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38387 ATTTTTTTAT
38397 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38424 TTTAGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38481 original size:2 final size:2
Alignment explanation
Indices: 38474--38517 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
38464 TTATCATTAT
38474 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38514 TA TA
1 TA TA
38518 CTTATTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38645 original size:21 final size:21
Alignment explanation
Indices: 38621--38660 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38611 TATTTTCCTA
38621 TTCTT-TATTTATTTATTTTGT
1 TTCTTGTATTTA-TTATTTTGT
*
38642 TTCTTGTCTTTATTATTTT
1 TTCTTGTATTTATTATTTT
38661 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (21 bp):
TTCTTGTATTTATTATTTTGT
Found at i:38677 original size:26 final size:26
Alignment explanation
Indices: 38621--38685 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
38611 TATTTTCCTA
*
38621 TTCTTTATT-TATTTATTTTGTTTCTT
1 TTCTTTATTAT-TTTATTTTATTTCTT
* *
38647 GTCTTTATTATTTTATTTTATTTTTT
1 TTCTTTATTATTTTATTTTATTTCTT
38673 TTCTTT-TTATTTT
1 TTCTTTATTATTTT
38686 GTTAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.21
26 26 0.76
27 1 0.03
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.78
Consensus pattern (26 bp):
TTCTTTATTATTTTATTTTATTTCTT
Found at i:38714 original size:9 final size:9
Alignment explanation
Indices: 38624--38726 Score: 58
Period size: 9 Copynumber: 11.9 Consensus size: 9
38614 TTTCCTATTC
38624 TTTA-TTTA
1 TTTATTTTA
*
38632 TTTATTTTG
1 TTTATTTTA
* * *
38641 TTTCTTGTC
1 TTTATTTTA
*
38650 TTTATTAT-
1 TTTATTTTA
38658 TTTATTTTA
1 TTTATTTTA
38667 TTT-TTTT-
1 TTTATTTTA
*
38674 TCT-TTTTA
1 TTTATTTTA
*
38682 TTT-TGTTAAA
1 TTTAT-TT-TA
38692 TTTA-TTTA
1 TTTATTTTA
*
38700 TTTATTTTC
1 TTTATTTTA
38709 TTTATTTTA
1 TTTATTTTA
38718 TTATATTTT
1 TT-TATTTT
38727 TGTATTTAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
7 6 0.08
8 23 0.31
9 35 0.47
10 10 0.14
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:38732 original size:18 final size:18
Alignment explanation
Indices: 38696--38733 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38686 GTTAAATTTA
*
38696 TTTATTTATTTTCTTTAT
1 TTTATTTATTTTCTGTAT
38714 TTTATTATATTTT-TGTAT
1 TTTATT-TATTTTCTGTAT
38732 TT
1 TT
38734 AACATGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTATTTATTTTCTGTAT
Found at i:48976 original size:125 final size:125
Alignment explanation
Indices: 48735--48978 Score: 341
Period size: 125 Copynumber: 1.9 Consensus size: 125
48725 TATTAATATA
** * *
48735 AATAAGATATTTACTTATTTAAAAATATCAGAAAATGGCTTCTAGGTGTTTTAAGACAGCTTTTT
1 AATAAGATATTTACTTATTTAAAAATATCAGAAAATGGCTTCTAGGTGCCTTAAGACAACTCTTT
***
48800 TCTTTGATATTAATAAATAAATAAATAACCAAAAGATTTTCTTAAAATAAAAATTTATTTC
66 TCTTTGATATTAATAAATAAATAAATAA-CAAAAGAAAATCTTAAAATAAAAATTTATTTC
48861 AATAAGATATTTA-TTATTTAAAAATATCAGAAAATGGCTTCTAGGTGCCTTAAGACAACTCTTT
1 AATAAGATATTTACTTATTTAAAAATATCAGAAAATGGCTTCTAGGTGCCTTAAGACAACTCTTT
* * *
48925 TCTTTGATATTGATAAATAAATAACTAA-AAATGTAAAAAT-TTAAAAGTAAAAAT
66 TCTTTGATATTAATAAATAAATAAATAACAAAAG--AAAATCTTAAAA-TAAAAAT
48979 AATTTAAGTA
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
123 4 0.04
124 6 0.06
125 82 0.78
126 13 0.12
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (125 bp):
AATAAGATATTTACTTATTTAAAAATATCAGAAAATGGCTTCTAGGTGCCTTAAGACAACTCTTT
TCTTTGATATTAATAAATAAATAAATAACAAAAGAAAATCTTAAAATAAAAATTTATTTC
Found at i:49150 original size:23 final size:22
Alignment explanation
Indices: 49108--49152 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
49098 AAAATTAATC
*
49108 AAATAATATATTAATAAAAATA
1 AAATAATATACTAATAAAAATA
*
49130 AAATAATAATACTAATTAAAATA
1 AAATAAT-ATACTAATAAAAATA
49153 TTAAACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATATACTAATAAAAATA
Found at i:49203 original size:22 final size:22
Alignment explanation
Indices: 49119--49217 Score: 64
Period size: 22 Copynumber: 4.4 Consensus size: 22
49109 AATAATATAT
* *
49119 TAATAAAAATAAAA-TAATAATA
1 TAATTAAAATAAAATTAA-ACTA
49141 CTAATTAAAAT---ATTAAACATA
1 -TAATTAAAATAAAATTAAAC-TA
* *
49162 TAAAATTAAAATATATTTAAACTA
1 T--AATTAAAATAAAATTAAACTA
49186 TAATTAAAATAAAATTAAAACTA
1 TAATTAAAATAAAATT-AAACTA
49209 -AATATAAAA
1 TAAT-TAAAA
49218 AGTAATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.05
21 5 0.08
22 25 0.40
23 20 0.32
24 3 0.05
25 6 0.10
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATTAAAATAAAATTAAACTA
Found at i:50123 original size:29 final size:27
Alignment explanation
Indices: 50076--50131 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
50066 TTTTCTTTCG
50076 TTTTTTTTTCTTCTCTCTTTCTGTTTTT
1 TTTTTTTTTCTTCTCTCTTT-TGTTTTT
* *
50104 TTTTTCTTTTCTTTTTTCTTTTGTTTTT
1 TTTTT-TTTTCTTCTCTCTTTTGTTTTT
50132 CTCTGCTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (27 bp):
TTTTTTTTTCTTCTCTCTTTTGTTTTT
Found at i:50130 original size:5 final size:5
Alignment explanation
Indices: 50061--50118 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
50051 CGTTGGTAGT
* * *
50061 TTTTC TTTTC -TTTC GTTTTT TTTTC TTCTC TCTTTC TGTT- TTTT- TTTTC
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC
50110 TTTTC TTTT
1 TTTTC TTTT
50119 TTCTTTTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 11 0.26
5 25 0.58
6 7 0.16
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:50132 original size:18 final size:18
Alignment explanation
Indices: 50060--50133 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
50050 TCGTTGGTAG
*
50060 TTTTTCTTTTCTTTCGTTTT
1 TTTTTCTTTTCTTT--TTCT
* *
50080 TTTTTCTTCTCTCTTTCT
1 TTTTTCTTTTCTTTTTCT
*
50098 GTTTTTTTTTTC-TTTTCT
1 -TTTTTCTTTTCTTTTTCT
*
50116 TTTTTCTTTTGTTTTTCT
1 TTTTTCTTTTCTTTTTCT
50134 CTGCTCTCTG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.20
18 14 0.32
19 9 0.20
20 12 0.27
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTCT
Found at i:50133 original size:11 final size:11
Alignment explanation
Indices: 50066--50133 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
50056 GTAGTTTTTC
* *
50066 TTTTCTTTCGT
1 TTTTTTTTCTT
50077 TTTTTTTTCTT
1 TTTTTTTTCTT
* * *
50088 CTCTCTTTCTGTT
1 -T-TTTTTTTCTT
50101 TTTTTTTTCTT
1 TTTTTTTTCTT
50112 TTCTTTTTTCTT
1 TT-TTTTTTCTT
*
50124 TTGTTTTTCT
1 TTTTTTTTCT
50134 CTGCTCTCTG
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 25 0.56
12 13 0.29
13 7 0.16
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:50134 original size:44 final size:44
Alignment explanation
Indices: 50060--50146 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
50050 TCGTTGGTAG
*
50060 TTTTTCTTTTCTTTCGTTTTTTTTTCTTCTCT-CTTTCTGTTTTT
1 TTTTTCTTTTCTTTC-TTTTTTTTTCTTCTCTGCTCTCTGTTTTT
*
50104 TTTTTCTTTTCTTT-TTTCTTTTGTTTTTCTCTGCTCTCTGTTT
1 TTTTTCTTTTCTTTCTTT-TTTT-TTCTTCTCTGCTCTCTGTTT
50147 ATGTATCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
42 3 0.08
43 4 0.11
44 22 0.58
45 9 0.24
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (44 bp):
TTTTTCTTTTCTTTCTTTTTTTTTCTTCTCTGCTCTCTGTTTTT
Found at i:50563 original size:13 final size:12
Alignment explanation
Indices: 50545--50587 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
50535 TTTGGGCTTG
50545 TAATATTATTTAA
1 TAATA-TATTTAA
*
50558 TAATATATAATAA
1 TAATATAT-TTAA
50571 TAATATATTTAA
1 TAATATATTTAA
50583 TAATA
1 TAATA
50588 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATATATTTAA
Found at i:50583 original size:15 final size:15
Alignment explanation
Indices: 50555--50597 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
50545 TAATATTATT
50555 TAATAATATA--TAA
1 TAATAATATATTTAA
50568 TAATAATATATTTAA
1 TAATAATATATTTAA
*
50583 TAATAATAAATTTAA
1 TAATAATATATTTAA
50598 ATGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 10 0.37
15 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:50884 original size:75 final size:75
Alignment explanation
Indices: 50717--51952 Score: 1984
Period size: 74 Copynumber: 16.6 Consensus size: 75
50707 GATGGAAATG
* * *
50717 TTTGAAAACATCATGCACTGAAGG-CTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAGCT
50781 -CCGAAGGCTT
65 CCCGAAGGCTT
* * *
50791 TTTGGAAACATCATGCACTGTAGGAC-TACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCT
*
50855 CCCAAAGGCTT
65 CCCGAAGGCTT
*
50866 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
50931 CCGAAGGCTT
66 CCGAAGGCTT
*
50941 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
51006 CCGAAGGCTT
66 CCGAAGGCTT
* * * *
51016 TTT-G-AACATCATGCACTGTAGGCCTTACAGATGA-CCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCT
*
51078 CCTGAAGGCTT
65 CCCGAAGGCTT
*
51089 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCT
51154 CCCGAAGGCTT
65 CCCGAAGGCTT
*
51165 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC-TTTGAAAACATC-AAAAGC
*
51230 TCCCAAAGGCTT
64 TCCCGAAGGCTT
*
51242 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
51306 CCGAAGGCTT
66 CCGAAGGCTT
*
51316 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGGTTTG-AAACATCAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
51380 CCGAAGGCTT
66 CCGAAGGCTT
* *
51390 TTTGGAAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCT
51455 CCCGAAGGCTT
65 CCCGAAGGCTT
51466 TTTGGAAA-ATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
*
51529 CCAAAGGCTT
66 CCGAAGGCTT
*
51539 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCT
51604 CCCGAAGGCTT
65 CCCGAAGGCTT
* *
51615 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAGGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
51680 CCGAAGGCTT
66 CCGAAGGCTT
*
51690 TTTGG-AA-ATCATGCACTGAAGGACTT-CAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCT
*
51752 TCCGAAGGC-T
65 CCCGAAGGCTT
* * *
51762 TTTGGAAACATCATGCACTGTAGG-CTTACAGATGACCCTAAGGCCTTGAAAACATCAAAAGCTT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
51826 CCG-AGGCTT
66 CCGAAGGCTT
* *
51835 TTTGGAAACATCATGCACTGTAGGAC-TACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
51899 CCGAAGGCTT
66 CCGAAGGCTT
51909 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
51953 TTTTTAGGAC
Statistics
Matches: 1102, Mismatches: 38, Indels: 43
0.93 0.03 0.04
Matches are distributed among these distances:
72 57 0.05
73 199 0.18
74 304 0.28
75 257 0.23
76 210 0.19
77 75 0.07
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (75 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTC
CCGAAGGCTT
Found at i:51111 original size:223 final size:226
Alignment explanation
Indices: 50717--51952 Score: 2006
Period size: 223 Copynumber: 5.5 Consensus size: 226
50707 GATGGAAATG
* *
50717 TTTGAAAACATCATGCACTGAAGG-CTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAGCT
*
50781 -CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGAC-TACAGATGACCCGAAGGATTTGAAAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
* *
50844 ATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
130 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
50909 GCTTTGAAAACATCAAAAGCTCCCGAAGGCTT
195 GCTTTGAAAACATCAAAAGCTCCCGAAGGCTT
50941 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
* *
51006 CCGAAGGCTTTTT-G-AACATCATGCACTGTAGGCCTTACAGATGA-CCGAAGGATTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACA
*
51068 TCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
131 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
*
51133 TTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 CTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
51165 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATC-AAAAGC
* *
51230 TCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAA
64 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAA
51294 CATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
129 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
*
51358 GGGTTTG-AAACATCAAAAGCTCCCGAAGGCTT
194 GGCTTTGAAAACATCAAAAGCTCCCGAAGGCTT
* * *
51390 TTTGGAAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
*
51455 CCCGAAGGCTTTTTGGAAA-ATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
* *
51518 ATC-AAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
130 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
51582 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
195 GCTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
* * *
51615 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAGGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
* *
51680 CCGAAGGCTTTTTGG-AA-ATCATGCACTGAAGGACTT-CAGATGACCCTAAGGTTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACA
* *
51742 TCAAAAAGCTTCCGAAGGC-TTTTGGAAACATCATGCACTGTAGG-CTTACAGATGACCCTAAGG
131 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
* *
51805 CCTTGAAAACATCAAAAGCTTCCG-AGGCTT
196 CTTTGAAAACATCAAAAGCTCCCGAAGGCTT
* * *
51835 TTTGGAAACATCATGCACTGTAGGAC-TACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
*
51899 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
51953 TTTTTAGGAC
Statistics
Matches: 962, Mismatches: 33, Indels: 36
0.93 0.03 0.03
Matches are distributed among these distances:
219 50 0.05
220 33 0.03
221 29 0.03
222 64 0.07
223 273 0.28
224 196 0.20
225 178 0.19
226 27 0.03
227 66 0.07
228 35 0.04
229 11 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (226 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACA
TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
CTTTGAAAACATCAAAAGCTCCCGAAGGCTT
Found at i:52640 original size:22 final size:22
Alignment explanation
Indices: 52615--52669 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
52605 CCATAAAGTT
*
52615 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
52637 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
52659 TCATCTTTGAA
1 TCATCTTTGAA
52670 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:53097 original size:50 final size:50
Alignment explanation
Indices: 53037--53135 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
53027 ACTGGTTCAT
* * *
53037 AAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTG-TCGAGATGTA
1 AAACACTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTC-AGATGTA
*
53087 AAACACTTGACAACACATTCATCTTTTTCTGTGGCTTCTGCTCAGATGT
1 AAACACTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGT
53136 TTGTAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (50 bp):
AAACACTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGTA
Found at i:53376 original size:151 final size:146
Alignment explanation
Indices: 53128--53424 Score: 533
Period size: 152 Copynumber: 2.0 Consensus size: 146
53118 TGGCTTCTGC
53128 TCAGATGTTTGTAAAAATTTGACACACATTCATCCTTTTTGGCTTCTGCCAAGATTTCTTAATCA
1 TCAGATGTTTGTAAAAATTTGACACACATTCATCCTTTTTGGCTTCTGCCAAGATTTCTTAATCA
53193 TTGAGCTCTTTGCCTAGTGTTCAAAGCTTTTGAATGATGTC-TAAGACCATTTGAGAGCAAAACT
66 TTGAGCTCTTTGCCTAGTGTTCAAAGCTTTTGAATGATGTCATAAGACCATTTGAGAGCAAAACT
53257 CAGTGGAGATTCAAGT
131 CAGTGGAGATTCAAGT
53273 TCAGATGTTTGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCCAAGATTTCTT
1 TCAGATGTTTGTAAAA-ATTTGAC-ACACATTCATCC-TTT-T-TGGCTTCTGCCAAGATTTCTT
53338 AATCATTGAAGCTCTTTGCCTAGTGTTCAAAGCTTTTGAATGATGTCATAAGACCATTTGAGAGC
61 AATCATTG-AGCTCTTTGCCTAGTGTTCAAAGCTTTTGAATGATGTCATAAGACCATTTGAGAGC
53403 AAAACTCAGTGGAGATTCAAGT
125 AAAACTCAGTGGAGATTCAAGT
53425 GTGATATTAG
Statistics
Matches: 145, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
145 16 0.11
146 7 0.05
147 12 0.08
148 3 0.02
149 1 0.01
150 29 0.20
151 38 0.26
152 39 0.27
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (146 bp):
TCAGATGTTTGTAAAAATTTGACACACATTCATCCTTTTTGGCTTCTGCCAAGATTTCTTAATCA
TTGAGCTCTTTGCCTAGTGTTCAAAGCTTTTGAATGATGTCATAAGACCATTTGAGAGCAAAACT
CAGTGGAGATTCAAGT
Found at i:55602 original size:114 final size:114
Alignment explanation
Indices: 55402--55629 Score: 375
Period size: 114 Copynumber: 2.0 Consensus size: 114
55392 ATGATCATGC
* * * *
55402 AATTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
55467 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
* * *
55516 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
55581 GAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
55630 CATGGCACTT
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
Found at i:58584 original size:7 final size:7
Alignment explanation
Indices: 58574--58603 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
58564 TAGTCAAAAA
58574 GTCAACG
1 GTCAACG
58581 GTCAA-G
1 GTCAACG
58587 GTCAACG
1 GTCAACG
58594 GTCAACG
1 GTCAACG
58601 GTC
1 GTC
58604 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:58592 original size:13 final size:14
Alignment explanation
Indices: 58574--58603 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
58564 TAGTCAAAAA
58574 GTCAACGGTCAA-G
1 GTCAACGGTCAACG
58587 GTCAACGGTCAACG
1 GTCAACGGTCAACG
58601 GTC
1 GTC
58604 GGGTCGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.17
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:58639 original size:17 final size:17
Alignment explanation
Indices: 58593--58647 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
58583 CAAGGTCAAC
58593 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
58610 GGTC-ACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
58626 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
58643 GGTCA
1 GGTCA
58648 CCCGGTTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 16 0.44
17 20 0.56
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:58664 original size:17 final size:18
Alignment explanation
Indices: 58643--58692 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
58633 AGTCGGGTCG
* *
58643 GGTCACCCGGTTCATACC
1 GGTCAACCGGTTCAGACC
*
58661 -GTCAATCGGTTCAGACC
1 GGTCAACCGGTTCAGACC
58678 GGTCAAACCGGTTCA
1 GGTC-AACCGGTTCA
58693 AAACTGGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 14 0.54
18 3 0.12
19 9 0.35
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (18 bp):
GGTCAACCGGTTCAGACC
Found at i:65801 original size:13 final size:14
Alignment explanation
Indices: 65783--65812 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
65773 GTCAAAGAAA
65783 GTCAACGGTCAA-G
1 GTCAACGGTCAACG
65796 GTCAACGGTCAACG
1 GTCAACGGTCAACG
65810 GTC
1 GTC
65813 GGGTCGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.17
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:65824 original size:17 final size:17
Alignment explanation
Indices: 65802--65859 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
65792 CAAGGTCAAC
65802 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
65819 GGTCAACGGTCGGTTCG
1 GGTCAACGGTCGGGTCG
*
65836 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
65853 GGTCAAC
1 GGTCAAC
65860 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.16, C:0.24, G:0.41, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:65829 original size:7 final size:7
Alignment explanation
Indices: 65783--65812 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
65773 GTCAAAGAAA
65783 GTCAACG
1 GTCAACG
65790 GTCAA-G
1 GTCAACG
65796 GTCAACG
1 GTCAACG
65803 GTCAACG
1 GTCAACG
65810 GTC
1 GTC
65813 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:65877 original size:19 final size:19
Alignment explanation
Indices: 65853--65923 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
65843 AGTCGGGTCG
*
65853 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
65872 GGTCAAATCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
65891 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
65911 GGTCAAACCGGTT
1 GGTCAAACCGGTT
65924 TTCCAGCAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 30 0.65
20 16 0.35
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:65893 original size:10 final size:10
Alignment explanation
Indices: 65855--65923 Score: 63
Period size: 9 Copynumber: 7.1 Consensus size: 10
65845 TCGGGTCGGG
*
65855 TCAACCCGGT
1 TCAAACCGGT
*
65865 TCAGACCGG-
1 TCAAACCGGT
*
65874 TCAAATCGGT
1 TCAAACCGGT
*
65884 TCAGACCGG-
1 TCAAACCGGT
65893 TCAAACCGGT
1 TCAAACCGGT
*
65903 TCAAAACTGG-
1 TC-AAACCGGT
65913 TCAAACCGGT
1 TCAAACCGGT
65923 T
1 T
65924 TTCCAGCAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 21 0.46
10 19 0.41
11 6 0.13
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:72815 original size:23 final size:23
Alignment explanation
Indices: 72789--72834 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
72779 AAAATTAATC
72789 AAATAATATATA-TAATAAAAATA
1 AAATAATA-ATACTAATAAAAATA
*
72812 AAATAATAATACTAATTAAAATA
1 AAATAATAATACTAATAAAAATA
72835 TTAAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAATAATACTAATAAAAATA
Found at i:72869 original size:11 final size:11
Alignment explanation
Indices: 72798--72887 Score: 62
Period size: 11 Copynumber: 8.1 Consensus size: 11
72788 CAAATAATAT
*
72798 ATATAATAAAA
1 ATATAATTAAA
*
72809 ATA-AAATAATA
1 ATATAATTAA-A
72820 ATACTAATT-AA
1 ATA-TAATTAAA
72831 A-AT-ATTAAA
1 ATATAATTAAA
72840 CATATAAAATTAAA
1 -ATAT--AATTAAA
*
72854 ATATATTTAAA
1 ATATAATTAAA
*
72865 CTATAATTAAA
1 ATATAATTAAA
*
72876 ATAAAATTAAA
1 ATATAATTAAA
72887 A
1 A
72888 CTAAATATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 6 0.10
11 36 0.58
12 1 0.02
13 7 0.11
14 6 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAATTAAA
Found at i:72885 original size:22 final size:22
Alignment explanation
Indices: 72799--72899 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 22
72789 AAATAATATA
* *
72799 TATAATAAAAATAAAA-TAATAA
1 TATAATTAAAATAAAATTAA-AC
72821 TACTAATTAAAAT---ATTAAAC
1 TA-TAATTAAAATAAAATTAAAC
* *
72841 ATATAAAATTAAAATATATTTAAAC
1 -TAT--AATTAAAATAAAATTAAAC
72866 TATAATTAAAATAAAATTAAAAC
1 TATAATTAAAATAAAATT-AAAC
72889 TA-AATATAAAA
1 TATAAT-TAAAA
72900 GTAATAAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
20 3 0.05
21 5 0.08
22 27 0.42
23 20 0.31
24 3 0.05
25 6 0.09
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TATAATTAAAATAAAATTAAAC
Found at i:72946 original size:26 final size:26
Alignment explanation
Indices: 72894--72947 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
72884 AAAACTAAAT
*
72894 ATAAAAGTAATAAAACTTGTAATTAA
1 ATAAAAGTAATAAAACTTGTAACTAA
* *
72920 ATAAAAGTATTAAAA-TTAGTGACTAA
1 ATAAAAGTAATAAAACTT-GTAACTAA
72946 AT
1 AT
72948 TATAACATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (26 bp):
ATAAAAGTAATAAAACTTGTAACTAA
Found at i:73784 original size:21 final size:21
Alignment explanation
Indices: 73749--73799 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
73739 TCGTTGGTAG
73749 TTTTTCTT-TTCTTTC-GTTT
1 TTTTTCTTCTTCTTTCTGTTT
73768 TTTTTCTTCTCTCTTTCTGTTT
1 TTTTTCTTCT-TCTTTCTGTTT
73790 TTTTT-TTCTT
1 TTTTTCTTCTT
73800 TTCTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.28
20 2 0.07
21 10 0.34
22 9 0.31
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTCTTCTTCTTTCTGTTT
Found at i:73785 original size:25 final size:24
Alignment explanation
Indices: 73756--73823 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
73746 TAGTTTTTCT
73756 TTTCTTTCGTTTTTTTTCTTCTCTC
1 TTTCTTTC-TTTTTTTTCTTCTCTC
73781 TTTCTGTT-TTTTTTTTCTT-T-TC
1 TTTCT-TTCTTTTTTTTCTTCTCTC
*
73803 TTT-TTTCTTTTGTTT-TTCTCT
1 TTTCTTTCTTTTTTTTCTTCTCT
73824 GCTCTCTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 6 0.16
23 1 0.03
24 11 0.29
25 5 0.13
26 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTCTTTCTTTTTTTTCTTCTCTC
Found at i:73797 original size:24 final size:23
Alignment explanation
Indices: 73756--73830 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 23
73746 TAGTTTTTCT
73756 TTTCTTTCGTTTTTTTTCTTCTCTC
1 TTTCTTT--TTTTTTTTCTTCTCTC
* *
73781 TTTCTGTTTTTTTTTTCTTTTCTTT
1 TTTCT-TTTTTTTTTTCTTCTC-TC
* *
73806 TTTCTTTTGTTTTTCTCTGCTCTC
1 TTTCTTTT-TTTTTTTCTTCTCTC
73830 T
1 T
73831 GTTTCTGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 18 0.44
25 21 0.51
26 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTCTTTTTTTTTTTCTTCTCTC
Found at i:73801 original size:11 final size:11
Alignment explanation
Indices: 73787--73821 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
73777 TCTCTTTCTG
73787 TTTTTTTTTTC
1 TTTTTTTTTTC
73798 TTTTCTTTTTTC
1 TTTT-TTTTTTC
*
73810 TTTTGTTTTTC
1 TTTTTTTTTTC
73821 T
1 T
73822 CTGCTCTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:73808 original size:12 final size:12
Alignment explanation
Indices: 73767--73819 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
73757 TTCTTTCGTT
*
73767 TTTTTTCTTCTC
1 TTTTTTCTTTTC
* *
73779 -TCTTTCTGTTTT
1 TTTTTTCT-TTTC
73791 TTTTTTCTTTTC
1 TTTTTTCTTTTC
*
73803 TTTTTTCTTTTG
1 TTTTTTCTTTTC
73815 TTTTT
1 TTTTT
73820 CTCTGCTCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 6 0.18
12 21 0.64
13 6 0.18
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:73811 original size:29 final size:27
Alignment explanation
Indices: 73765--73819 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
73755 TTTTCTTTCG
73765 TTTTTTTTCTTCTCTCTTTCTGTTTTTT
1 TTTTTTTTCTTCTCTCTTT-TGTTTTTT
* *
73793 TTTTCTTTTCTTTTTTCTTTTGTTTTT
1 TTTT-TTTTCTTCTCTCTTTTGTTTTT
73820 CTCTGCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.82
Consensus pattern (27 bp):
TTTTTTTTCTTCTCTCTTTTGTTTTTT
Found at i:73818 original size:5 final size:5
Alignment explanation
Indices: 73750--73806 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
73740 CGTTGGTAGT
* *
73750 TTTTC TTTTC -TTTC GTTTT- TTTTC TTCTC TCTTTC TGTT- TTTT- TTTTC
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC
73798 TTTTC TTTT
1 TTTTC TTTT
73807 TTCTTTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 15 0.35
5 21 0.49
6 7 0.16
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:74251 original size:3 final size:3
Alignment explanation
Indices: 74245--74305 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
74235 AATAATTATT
* *
74245 TAA TAA TAA T-A TAA TAA TAA TAA TATT TAA TAA TAA TAA TAA TATT
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
74291 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
74306 ATTTAAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.88
4 4 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:74253 original size:14 final size:13
Alignment explanation
Indices: 74234--74311 Score: 72
Period size: 13 Copynumber: 6.0 Consensus size: 13
74224 TTTGGGCTTG
74234 TAATAATTATTTAA
1 TAATAA-TATTTAA
*
74248 TAATAATATAATAA
1 TAATAATAT-TTAA
74262 TAATAATATTTAA
1 TAATAATATTTAA
*
74275 TAATAATA-ATAA
1 TAATAATATTTAA
* *
74287 TATTTAATA-ATAA
1 TA-ATAATATTTAA
74300 TAATAA-ATTTAA
1 TAATAATATTTAA
74312 ATGAAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
11 1 0.02
12 11 0.20
13 25 0.45
14 18 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:74258 original size:19 final size:19
Alignment explanation
Indices: 74255--74311 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
74245 TAATAATAAT
74255 ATAATAATAATAATATTTA
1 ATAATAATAATAATATTTA
74274 ATAATAATAATAATATTTA
1 ATAATAATAATAATATTTA
74293 ATAATAATAATAA-ATTTA
1 ATAATAATAATAATATTTA
74311 A
1 A
74312 ATGAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATAATAATATTTA
Found at i:74277 original size:16 final size:16
Alignment explanation
Indices: 74245--74304 Score: 79
Period size: 16 Copynumber: 3.7 Consensus size: 16
74235 AATAATTATT
74245 TAATAATAATA--TAA
1 TAATAATAATATTTAA
74259 TAATAATAATATTTAATAA
1 TAATAATAATA-TT--TAA
74278 TAATAATAATATTTAA
1 TAATAATAATATTTAA
74294 TAATAATAATA
1 TAATAATAATA
74305 AATTTAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.27
16 14 0.34
18 2 0.05
19 14 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAATATTTAA
Found at i:74302 original size:22 final size:22
Alignment explanation
Indices: 74234--74305 Score: 85
Period size: 22 Copynumber: 3.1 Consensus size: 22
74224 TTTGGGCTTG
74234 TAATAATTATTTAATAATAATATAA
1 TAATAA-TATTTAATAAT-A-ATAA
74259 TAATAATAATATT--TAATAATAA
1 TAATAAT-AT-TTAATAATAATAA
74281 TAATAATATTTAATAATAATAA
1 TAATAATATTTAATAATAATAA
74303 TAA
1 TAA
74306 ATTTAAATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 23 0.53
23 1 0.02
24 5 0.12
25 8 0.19
26 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAATATTTAATAATAATAA
Found at i:74501 original size:18 final size:18
Alignment explanation
Indices: 74478--74523 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
74468 GTCTTAAGTC
74478 AAAAGAAAAA-AAAAAGAA
1 AAAAGAAAAAGAAAAA-AA
*
74496 AAAAGAAAAAGAATAAAA
1 AAAAGAAAAAGAAAAAAA
*
74514 AAGAGAAAAA
1 AAAAGAAAAA
74524 TATTTAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAAAA
Found at i:74504 original size:16 final size:16
Alignment explanation
Indices: 74485--74523 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
74475 GTCAAAAGAA
74485 AAAAAAAAGAAAAAAG
1 AAAAAAAAGAAAAAAG
* *
74501 AAAAAGAATAAAAAAG
1 AAAAAAAAGAAAAAAG
74517 AGAAAAA
1 A-AAAAA
74524 TATTTAGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:76037 original size:110 final size:111
Alignment explanation
Indices: 75706--76021 Score: 388
Period size: 110 Copynumber: 2.8 Consensus size: 111
75696 TTCCCAGTTT
* * * * *
75706 CAGAGCCAATTTCAACTTCACAGAGAAGGATATTGGACTCAAGAAAACACAAGCTCAACTTCACA
1 CAGAGTCAATTTCAACTTCACAGCGAATGATATT-GACTCAAGACAACACAAGCTCAACTTTACA
* * * * *
75771 ACAAAGAGGGGCGACTGATTGTCAACAAATAACTTTTTAGTTTCATTTA
65 GC-GA-AGGGGCGACTGACTGTCAACAAAAAACTTTTCAGTTTCATTTA
* *
75820 GAGAGTCAATTTCAACTTCACAGCGAATGATATTAGACTCGAGACAACACAAGCTCAACTTCT-C
1 CAGAGTCAATTTCAACTTCACAGCGAATGATATT-GACTCAAGACAACACAAGCTCAACTT-TAC
*
75884 AGCGATGGGGCGACTGACTGTCAACAAAAAACTTTTCAGTTTCA-TT-
64 AGCGAAGGGGCGACTGACTGTCAACAAAAAACTTTTCAGTTTCATTTA
* * *
75930 CAGATTCAATCTCAACTTCACAGCGAATGATATTGTACTCAAGACAACACAAGCTTAACTTTACA
1 CAGAGTCAATTTCAACTTCACAGCGAATGATATTG-ACTCAAGACAACACAAGCTCAACTTTACA
*
75995 GCGAAGGGGCGGCT-AGCTGTCAACAAA
65 GCGAAGGGGCGACTGA-CTGTCAACAAA
76022 CAATTTCCCA
Statistics
Matches: 177, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
109 3 0.02
110 79 0.45
111 2 0.01
112 35 0.20
113 1 0.01
114 57 0.32
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (111 bp):
CAGAGTCAATTTCAACTTCACAGCGAATGATATTGACTCAAGACAACACAAGCTCAACTTTACAG
CGAAGGGGCGACTGACTGTCAACAAAAAACTTTTCAGTTTCATTTA
Found at i:78013 original size:3 final size:3
Alignment explanation
Indices: 77944--78026 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
77934 TTTTTTTACC
* * *
77944 TAT TA- TAT TA- TAT TTT TATT TGT TAT TAT T-T TCAT TAAT AAT TA-
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT T-AT TAT TAT
77988 TAT CTAT ATAT T-T TAT ATAT TAT TAT TAT TAT TAT TAT T
1 TAT -TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T
78027 TTTCTTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 10 0.16
3 38 0.60
4 15 0.24
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:78050 original size:11 final size:12
Alignment explanation
Indices: 78019--78053 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
78009 ATTATTATTA
78019 TTATTATTTTTCT
1 TTATT-TTTTTCT
78032 TTATTTTTTTCT
1 TTATTTTTTTCT
78044 TTATTTTTTT
1 TTATTTTTTT
78054 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (12 bp):
TTATTTTTTTCT
Found at i:78148 original size:2 final size:2
Alignment explanation
Indices: 78141--78180 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
78131 TTTTTATCAT
78141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78181 CTTTTTGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78309 original size:21 final size:21
Alignment explanation
Indices: 78285--78324 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
78275 TATTTCCCTA
78285 TTCTT-TATTTATTTATTTTGT
1 TTCTTGTATTTA-TTATTTTGT
*
78306 TTCTTGTCTTTATTATTTT
1 TTCTTGTATTTATTATTTT
78325 ATTATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (21 bp):
TTCTTGTATTTATTATTTTGT
Found at i:78325 original size:26 final size:25
Alignment explanation
Indices: 78286--78335 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
78276 ATTTCCCTAT
*
78286 TCTTTATTTATTTATTTTGTTTCTTG
1 TCTTTATTTATTTATTAT-TTTCTTG
78312 TCTTTA-TTATTTTATTATTTTCTT
1 TCTTTATTTA-TTTATTATTTTCTT
78336 TTTATTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.14, C:0.08, G:0.04, T:0.74
Consensus pattern (25 bp):
TCTTTATTTATTTATTATTTTCTTG
Found at i:89726 original size:22 final size:22
Alignment explanation
Indices: 89701--89755 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
89691 ACGAGGTGCC
89701 GTTGAGAGGAAGAAGATAGAAG
1 GTTGAGAGGAAGAAGATAGAAG
89723 GTTGAGAGGAAGAAGATAGAAG
1 GTTGAGAGGAAGAAGATAGAAG
89745 GTTGAGAGGAA
1 GTTGAGAGGAA
89756 AAAACAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.15
Consensus pattern (22 bp):
GTTGAGAGGAAGAAGATAGAAG
Found at i:90553 original size:17 final size:17
Alignment explanation
Indices: 90528--90578 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
90518 CCGGTTTCAG
90528 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
90545 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
90560 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
90577 TT
1 TT
90579 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:90775 original size:21 final size:21
Alignment explanation
Indices: 90751--90803 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
90741 ACACATAGGG
90751 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
90772 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
90793 TACCGATTCCC
1 AACCGATTCCC
90804 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:91021 original size:13 final size:13
Alignment explanation
Indices: 91000--91054 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
90990 AAGTTCGATA
*
91000 AATTCAAATACTT
1 AATTGAAATACTT
91013 AATTGAAATACTT
1 AATTGAAATACTT
* *
91026 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
91040 AATTGAAATACTT
1 AATTGAAATACTT
91053 AA
1 AA
91055 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:91136 original size:32 final size:33
Alignment explanation
Indices: 91040--91138 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
91030 AACTCAACAT
* * *
91040 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
91073 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
91106 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
91138 A
1 A
91139 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:91157 original size:21 final size:21
Alignment explanation
Indices: 91133--91172 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
91123 ACTTCAAGTT
91133 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
91154 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
91173 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:93494 original size:11 final size:12
Alignment explanation
Indices: 93473--93518 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
93463 TCCGGATAAA
93473 AACCGGTTTTTT
1 AACCGGTTTTTT
93485 AACCGGTTTTTTT
1 AACCGG-TTTTTT
93498 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
93512 ATCCGGT
1 AACCGGT
93519 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:93503 original size:15 final size:14
Alignment explanation
Indices: 93472--93511 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
93462 TTCCGGATAA
93472 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
93485 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
93498 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
93512 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:104872 original size:29 final size:29
Alignment explanation
Indices: 104836--104904 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
104826 TTTCGTATTT
104836 TCATTGAACTTAATACATTTGATTTTTTG
1 TCATTGAACTTAATACATTTGATTTTTTG
104865 TCATTGAACTTAATACATTTGATTTTTTG
1 TCATTGAACTTAATACATTTGATTTTTTG
104894 TCATTGAACTT
1 TCATTGAACTT
104905 TACTCTCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.51
Consensus pattern (29 bp):
TCATTGAACTTAATACATTTGATTTTTTG
Found at i:111800 original size:56 final size:55
Alignment explanation
Indices: 111721--111834 Score: 156
Period size: 56 Copynumber: 2.1 Consensus size: 55
111711 AGTCTGGTGA
* * * *
111721 TCTTGGCAAGCCTGATATCTATCTTGAACATCCCTATCAGACACTTGCACTAATG
1 TCTTAGCAAGCCCGACATCTATCTTGAACATCCCTATCAGACACTTGCACCAATG
* * *
111776 TCTTAGCAAGCCCGACACTCTATCTTGAACCTCCCTGTCGGACACTTGCACCAATG
1 TCTTAGCAAGCCCGACA-TCTATCTTGAACATCCCTATCAGACACTTGCACCAATG
111832 TCT
1 TCT
111835 CAGACCCAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 14 0.27
56 37 0.73
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (55 bp):
TCTTAGCAAGCCCGACATCTATCTTGAACATCCCTATCAGACACTTGCACCAATG
Found at i:114752 original size:22 final size:22
Alignment explanation
Indices: 114727--114775 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
114717 ACCGACGATG
114727 CTCTCGAGCCCACCGGACTCTC
1 CTCTCGAGCCCACCGGACTCTC
*
114749 CTCTCGAGCCCATCGGACTCTC
1 CTCTCGAGCCCACCGGACTCTC
114771 CTCTC
1 CTCTC
114776 ATTTCCCACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.49, G:0.16, T:0.22
Consensus pattern (22 bp):
CTCTCGAGCCCACCGGACTCTC
Found at i:120837 original size:21 final size:21
Alignment explanation
Indices: 120811--120850 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
120801 TATTGAATTT
120811 GTATATAAAT-AATTTTTTTGA
1 GTATAT-AATGAATTTTTTTGA
120832 GTATATAATGAATTTTTTT
1 GTATATAATGAATTTTTTT
120851 ACACTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
GTATATAATGAATTTTTTTGA
Found at i:122238 original size:23 final size:23
Alignment explanation
Indices: 122186--122249 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
122176 CATTTGTATT
* *
122186 TAATGTTTCTATTTAATTATTTT
1 TAATGTTTTTATTTAATTATTTG
* *
122209 TATTGTTTTTA-TTATTTAGTTTG
1 TAATGTTTTTATTTAATTA-TTTG
*
122232 TAATGTTTTTACTTAATT
1 TAATGTTTTTATTTAATT
122250 TTCACTTGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 6 0.18
23 22 0.67
24 5 0.15
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.66
Consensus pattern (23 bp):
TAATGTTTTTATTTAATTATTTG
Found at i:125619 original size:24 final size:23
Alignment explanation
Indices: 125590--125682 Score: 89
Period size: 24 Copynumber: 4.0 Consensus size: 23
125580 GCCATGTAAA
* *
125590 ATTTGTCCCGAAGGAGCGCGTAG
1 ATTTGTCCCGAAGGACCACGTAG
*
125613 ATTTTGTCCTGAAGGACCACGTAG
1 A-TTTGTCCCGAAGGACCACGTAG
** * * *
125637 AAATATCCCGAAGGATCACATAG
1 ATTTGTCCCGAAGGACCACGTAG
*
125660 A-TTGTCCCGAAGGACCGCGTAG
1 ATTTGTCCCGAAGGACCACGTAG
125682 A
1 A
125683 ACCCTCGACT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
22 17 0.31
23 18 0.33
24 20 0.36
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (23 bp):
ATTTGTCCCGAAGGACCACGTAG
Found at i:125660 original size:23 final size:22
Alignment explanation
Indices: 125623--125675 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
125613 ATTTTGTCCT
*
125623 GAAGGACCACGTAGAAATATCCC
1 GAAGGACCACATAG-AATATCCC
* * *
125646 GAAGGATCACATAGATTGTCCC
1 GAAGGACCACATAGAATATCCC
125668 GAAGGACC
1 GAAGGACC
125676 GCGTAGAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (22 bp):
GAAGGACCACATAGAATATCCC
Found at i:126271 original size:18 final size:21
Alignment explanation
Indices: 126224--126272 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 21
126214 TCTCCCTACA
126224 GTACCGATACTTCCCTTTGATG
1 GTACCGATACTTCCCTTT-ATG
*
126246 GTATCGATAC-TCCC-TT-TG
1 GTACCGATACTTCCCTTTATG
126264 GTACCGATA
1 GTACCGATA
126273 TCATTTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
20 2 0.08
21 4 0.16
22 9 0.36
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (21 bp):
GTACCGATACTTCCCTTTATG
Found at i:129596 original size:36 final size:36
Alignment explanation
Indices: 129555--129626 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
129545 GTGAAATCAA
129555 ACACATATGACGTGAGGGTAATAAGTTGACAAACTT
1 ACACATATGACGTGAGGGTAATAAGTTGACAAACTT
129591 ACACATATGACGTGAGGGTAATAAGTTGACAAACTT
1 ACACATATGACGTGAGGGTAATAAGTTGACAAACTT
129627 TGCAGCGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (36 bp):
ACACATATGACGTGAGGGTAATAAGTTGACAAACTT
Found at i:132053 original size:28 final size:28
Alignment explanation
Indices: 132011--132065 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
132001 GTTAGAGCCC
* *
132011 TATATGGGGATTTTTTTTTCCAACGCCT
1 TATATGAGGAATTTTTTTTCCAACGCCT
*
132039 TATATGAGGAATTTTTTTTTCAACGCC
1 TATATGAGGAATTTTTTTTCCAACGCC
132066 CTACATGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (28 bp):
TATATGAGGAATTTTTTTTCCAACGCCT
Found at i:134160 original size:20 final size:23
Alignment explanation
Indices: 134118--134168 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
134108 AGAGTAAATG
*
134118 AAATAAAGAAAATAGAATGGAAA
1 AAATAAAAAAAATAGAATGGAAA
134141 AAATAAAAAAAAT-G-AT-GAAA
1 AAATAAAAAAAATAGAATGGAAA
*
134161 AACTAAAA
1 AAATAAAA
134169 GAGGAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 1 0.04
23 12 0.46
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.14
Consensus pattern (23 bp):
AAATAAAAAAAATAGAATGGAAA
Found at i:134656 original size:50 final size:51
Alignment explanation
Indices: 134600--134709 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
134590 ACATATAATG
*
134600 ATAATAATAGTAGCAAAAGAG-AAAATATATTTATATACGTTAATTGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
134650 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
134701 ATAATAATA
1 ATAATAATA
134710 AATATAATAG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 21 0.36
51 37 0.64
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.31
Consensus pattern (51 bp):
ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
Found at i:135287 original size:35 final size:36
Alignment explanation
Indices: 135217--135316 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
135207 GTGCTTGTGG
* * *
135217 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
135254 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
135289 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
135317 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:136079 original size:106 final size:104
Alignment explanation
Indices: 135777--136501 Score: 688
Period size: 109 Copynumber: 6.9 Consensus size: 104
135767 AATATTGTTC
* * * * *
135777 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAAT-TGAAAATGTTTGTTGACA
** * * * *
135842 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
135883 CGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AA-CG-AAAT-CTTGTTGACAAT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
135944 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
135983 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTG-AAAATGTTTGTTGACA
136048 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * ** * *
136089 CGAGTGGCACGATATCCTCCGTCATG-G-AGTT-AAAATCGCGGATGAAACTGAAAAGTTGTTCG
1 CGAGT--C-CAATATCCTTCG-C-TGTGAAGTTGAAATTGGC-TCTGAAATTGAAAA--TGTTTG
136151 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
58 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * *
136198 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATT--GAAAATGTTTGTT
* * *
136262 GACAACCAACCATCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
60 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * **
136307 CGAGTCCAATATCCTTCACTGTGAAGTTGAGATTGGCTCCGAAATT-----T-CTTGTCGACAGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
* * * *
136366 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
136405 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCCCTGAAACTAGGAAAT-TATTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGAAAATGT-TTGTTGACA
136469 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
136502 ACTCTAGCTA
Statistics
Matches: 515, Mismatches: 76, Indels: 57
0.79 0.12 0.09
Matches are distributed among these distances:
98 79 0.15
99 2 0.00
100 82 0.16
101 5 0.01
102 1 0.00
103 1 0.00
104 2 0.00
105 41 0.08
106 120 0.23
107 7 0.01
108 10 0.02
109 152 0.30
110 7 0.01
111 6 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (104 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:137177 original size:63 final size:63
Alignment explanation
Indices: 137104--137226 Score: 171
Period size: 61 Copynumber: 2.0 Consensus size: 63
137094 AGACAAAGAT
* *
137104 TTGTGTTCAAGAGAAACTGTCTCATGGGAGACAAAA-TTTG-TTCGAGGGAAA-CATCTCAAAGG
1 TTGTGTTC-A-AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATCATCTCAAAGG
*
137166 TTGTGTTTCAAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATCTCAA
1 TTGTG-TTCAAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATCATCTCAA
137227 GAGAGACGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
61 24 0.44
62 10 0.19
63 13 0.24
64 7 0.13
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (63 bp):
TTGTGTTCAAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATCATCTCAAAGG
Found at i:137233 original size:37 final size:36
Alignment explanation
Indices: 137184--137254 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
137174 CAAGAAACTG
* **
137184 TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTA
1 TCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAATTA
*
137221 TCTCAAGAGAGACGAAATTCATTTCAAGGGAAAT
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAAT
137255 GTTTCAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGGGAAATTA
Found at i:137301 original size:98 final size:99
Alignment explanation
Indices: 137169--137548 Score: 454
Period size: 98 Copynumber: 3.9 Consensus size: 99
137159 TCAAAGGTTG
* *
137169 TGTTTC-A-AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAA-GGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
137232 ACGAAATTCATTTCAAGGGAAATGTTTCAATGTGTA
65 ACG-AATTCATTTCAAGGGAAATGTTTCAATGTTTA
* *
137268 TGTTTC-AG-GAAACTGTCTCAAGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
137331 CAAAACTTCATTTCAA-GGAAATGTTTCCAATGTTTA
66 C-GAA-TTCATTTCAAGGGAAATGTTT-CAATGTTTA
*
137367 TGTTTCAAGAGAAACTGTCTCAAAGGAGAAAAAATTTTGTTTCAAAGGAAACTATCTC-A-AGAG
1 TGTTTCAAGAGAAACTGTCTC-AAGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
137430 A-G-A--CA----AAGGAAAATGTTTTCAATGTTTA
65 ACGAATTCATTTCAAGGGAAATG-TTTCAATGTTTA
*
137458 TGTTTCAAGAGAAACTGTCTCAA--AGAAAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
** *
137521 C-AATTTGTTTCAAGGGAAACTGTCTCAA
66 CGAATTCATTTCAAGGGAAA-TGTTTCAA
137549 GAGAGACAAT
Statistics
Matches: 246, Mismatches: 15, Indels: 42
0.81 0.05 0.14
Matches are distributed among these distances:
88 30 0.12
89 1 0.00
90 9 0.04
91 37 0.15
92 3 0.01
94 2 0.01
97 13 0.05
98 55 0.22
99 44 0.18
100 7 0.03
101 12 0.05
102 33 0.13
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (99 bp):
TGTTTCAAGAGAAACTGTCTCAAGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CGAATTCATTTCAAGGGAAATGTTTCAATGTTTA
Found at i:137351 original size:36 final size:35
Alignment explanation
Indices: 137270--137351 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
137260 AATGTGTATG
* * **
137270 TTTC-AGGAAACTGTCTCAAGGAGACAAAATTTTG
1 TTTCAAGGAAACTATCTCAAGGAGACAAAACTTCA
*
137304 TTTAAAGGGAAACTATCTCAAGAGAGACAAAACTTCA
1 TTTCAA-GGAAACTATCTCAAG-GAGACAAAACTTCA
137341 TTTCAAGGAAA
1 TTTCAAGGAAA
137352 TGTTTCCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.08
35 1 0.03
36 19 0.49
37 16 0.41
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (35 bp):
TTTCAAGGAAACTATCTCAAGGAGACAAAACTTCA
Found at i:137456 original size:91 final size:87
Alignment explanation
Indices: 137345--137523 Score: 295
Period size: 88 Copynumber: 2.0 Consensus size: 87
137335 ACTTCATTTC
137345 AAGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGAAAAAATTTTGTTTC
1 AAGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTC-AA--AGAAAAAATTTTGTTTC
137410 AAAGGAAACTATCTCAAGAGAGACA
63 AAAGGAAACTATCTCAAGAGAGACA
*
137435 AAGGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGAAAAAATTTTGTTTCAA
1 AAGG-AAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGAAAAAATTTTGTTTCAA
* *
137500 GGGAAACTGTCTCAAGAGAGACA
65 AGGAAACTATCTCAAGAGAGACA
137523 A
1 A
137524 TTTGTTTCAA
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
88 41 0.48
90 6 0.07
91 38 0.45
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (87 bp):
AAGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGAAAAAATTTTGTTTCAAA
GGAAACTATCTCAAGAGAGACA
Found at i:137553 original size:34 final size:34
Alignment explanation
Indices: 137458--137558 Score: 159
Period size: 34 Copynumber: 3.0 Consensus size: 34
137448 TCAATGTTTA
* * *
137458 TGTTTCAAGAGAAACTGTCTCAA-AGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-TT
137492 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAATT
137526 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAT
137559 GGTGAGCATG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
34 57 0.90
35 6 0.10
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (34 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAATT
Found at i:137792 original size:18 final size:18
Alignment explanation
Indices: 137769--137804 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
137759 TGAAGTGTAG
137769 CTTCTTGCTGCTGAGTTA
1 CTTCTTGCTGCTGAGTTA
137787 CTTCTTGCTGCTGAGTTA
1 CTTCTTGCTGCTGAGTTA
137805 AGCAACCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (18 bp):
CTTCTTGCTGCTGAGTTA
Found at i:138460 original size:22 final size:22
Alignment explanation
Indices: 138435--138485 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
138425 TTGTGTTTGG
138435 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
138457 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
138479 TCAAAGG
1 TCAAAGG
138486 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:139119 original size:14 final size:14
Alignment explanation
Indices: 139102--139139 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
139092 CCTTTTTTTA
139102 TTTTTGTTCTTTCT
1 TTTTTGTTCTTTCT
*
139116 TTTTTGTTC-TTGT
1 TTTTTGTTCTTTCT
139129 TTTTT-TTCTTT
1 TTTTTGTTCTTT
139140 TTGCTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 10 0.45
14 9 0.41
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (14 bp):
TTTTTGTTCTTTCT
Found at i:139128 original size:20 final size:19
Alignment explanation
Indices: 139094--139160 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
139084 TTTTGTCCCC
* *
139094 TTTTTTTATTTTTGTTCTT
1 TTTTTTTGTTCTTGTTCTT
*
139113 TCTTTTTTGTTCTTGTTTTTT
1 T-TTTTTTGTTCTTG-TTCTT
139134 TTCTTTTTGCTTCTT-TTCTT
1 TT-TTTTTG-TTCTTGTTCTT
139154 TTTTTTT
1 TTTTTTT
139161 TTGCCCTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.15
20 18 0.45
21 11 0.28
22 5 0.12
ACGTcount: A:0.01, C:0.10, G:0.06, T:0.82
Consensus pattern (19 bp):
TTTTTTTGTTCTTGTTCTT
Found at i:139140 original size:21 final size:22
Alignment explanation
Indices: 139111--139164 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
139101 ATTTTTGTTC
139111 TTTCTTTTTTG-TTCTTGTT-TTT
1 TTTC-TTTTTGCTTCTT-TTCTTT
139133 TTTCTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTGCTTCTTTTCTTT
139155 TTT-TTTTTGC
1 TTTCTTTTTGC
139165 CCTTTTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTCTTTTTGCTTCTTTTCTTT
Found at i:139171 original size:21 final size:22
Alignment explanation
Indices: 139130--139170 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
139120 TGTTCTTGTT
*
139130 TTTTTTCTTTTTGCTTCTTTTC
1 TTTTTTCTTTTTGCCTCTTTTC
139152 TTTTTT-TTTTTGCC-CTTTT
1 TTTTTTCTTTTTGCCTCTTTT
139171 TGTTCTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (22 bp):
TTTTTTCTTTTTGCCTCTTTTC
Found at i:139171 original size:36 final size:35
Alignment explanation
Indices: 139096--139171 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 35
139086 TTGTCCCCTT
***
139096 TTTTTATTTTTGTTCTTTCTTTTTTGTTCTTGTTT
1 TTTTTATTTTTGTTCTTTCTTTTTTGTTCTTGCCC
* *
139131 TTTTTCTTTTTGCTTCTTTTCTTTTTT-TTTTTGCCC
1 TTTTTATTTTTG-TTC-TTTCTTTTTTGTTCTTGCCC
139167 TTTTT
1 TTTTT
139172 GTTCTGATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 11 0.32
36 13 0.38
37 10 0.29
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.79
Consensus pattern (35 bp):
TTTTTATTTTTGTTCTTTCTTTTTTGTTCTTGCCC
Found at i:142516 original size:16 final size:16
Alignment explanation
Indices: 142495--142532 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
142485 AAAAATAATT
142495 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
142511 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
142527 T-ATAAA
1 TAATAAA
142533 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:142708 original size:48 final size:51
Alignment explanation
Indices: 142654--142761 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
142644 ACATATAATG
*
142654 ATAATAATAGTAGC-AAATAGAAAAATATA-TT-TATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
142702 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
142753 ATAATAATA
1 ATAATAATA
142762 AATATAATAG
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
48 14 0.25
49 14 0.25
50 2 0.04
51 26 0.46
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.31
Consensus pattern (51 bp):
ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
Found at i:143338 original size:35 final size:36
Alignment explanation
Indices: 143268--143366 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 36
143258 GTGCTTGTGG
* * *
143268 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
143305 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
* *
143340 ATCATATTTTTGAGAGTTTGAATCCTA
1 ATCCTATTTTAG-GAGTTTGAATCCTA
143367 ATAGGACGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
35 26 0.48
36 11 0.20
37 17 0.31
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:145859 original size:25 final size:26
Alignment explanation
Indices: 145814--145879 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 26
145804 TGTTGGATTC
*
145814 GTGAAGAAGATGAACGAGGGGAA-AG
1 GTGAAGAAGAAGAACGAGGGGAATAG
*
145839 GTGAAGAAAAAGAA-GATGGGGAATAG
1 GTGAAGAAGAAGAACGA-GGGGAATAG
145865 GTTGAAGAAGAAGAA
1 G-TGAAGAAGAAGAA
145880 AAGCCAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.06
25 18 0.51
26 3 0.09
27 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.39, T:0.11
Consensus pattern (26 bp):
GTGAAGAAGAAGAACGAGGGGAATAG
Found at i:147867 original size:2 final size:2
Alignment explanation
Indices: 147860--147931 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
147850 CTTTGGTTAA
147860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
147902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
147932 TTTTTTTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:150967 original size:13 final size:11
Alignment explanation
Indices: 150937--150961 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
150927 CGATGGAGTT
150937 TTTTGAAATGA
1 TTTTGAAATGA
150948 TTTTGAAATGA
1 TTTTGAAATGA
150959 TTT
1 TTT
150962 ATTGAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTTGAAATGA
Found at i:159955 original size:59 final size:59
Alignment explanation
Indices: 159888--160008 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
159878 GGAGGGTTGG
* ** * **
159888 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTTTGATTAGGAGGGTTTGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTACCTTTTCATTGCGAATAGGAGGGTTCAATAGGACAC
159947 TTAGAGCCATATTATCGAGTTTACCTTTTCATTGCGAATAGGAGGGTTCAATAGGACAC
1 TTAGAGCCATATTATCGAGTTTACCTTTTCATTGCGAATAGGAGGGTTCAATAGGACAC
160006 TTA
1 TTA
160009 TCCATCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTACCTTTTCATTGCGAATAGGAGGGTTCAATAGGACAC
Found at i:160112 original size:17 final size:17
Alignment explanation
Indices: 160087--160125 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
160077 CCTTCTCCTA
*
160087 TTCAT-CCCCTTTTTTC
1 TTCATCCCCCTTTGTTC
160103 TTCATCCCCCTTTGTTC
1 TTCATCCCCCTTTGTTC
160120 TTCATC
1 TTCATC
160126 AAGTCTAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51
Consensus pattern (17 bp):
TTCATCCCCCTTTGTTC
Found at i:161136 original size:295 final size:295
Alignment explanation
Indices: 160606--161194 Score: 1106
Period size: 295 Copynumber: 2.0 Consensus size: 295
160596 CGATCTTTGT
*
160606 TTGGGTGATTCTGGAATTTACGTGTGTATCATGCGTGCGTATGATTCTATTGTTTGATAGTTTGA
1 TTGGGTGATTCTGGAATTTACGTGTATATCATGCGTGCGTATGATTCTATTGTTTGATAGTTTGA
160671 TGATCGGTGAGCCGTTGGATTGGGTTAGATCCAACGATCATGCCTTGGCTGTGCATATCTCTTCG
66 TGATCGGTGAGCCGTTGGATTGGGTTAGATCCAACGATCATGCCTTGGCTGTGCATATCTCTTCG
*
160736 TTTAGGGTTACAAAAGCCTTCTATATTAATGTAATATGGACCATTGGATTGTTTCAGATCCAACG
131 TTTAGGGTTACAAAAGCCTTCTACATTAATGTAATATGGACCATTGGATTGTTTCAGATCCAACG
160801 GTCAGTATGCAGTTACTTGATCTGACTTGATTAGGGTTATGATGAAACTCTACTTTGCTTACAAT
196 GTCAGTATGCAGTTACTTGATCTGACTTGATTAGGGTTATGATGAAACTCTACTTTGCTTACAAT
*
160866 CTGGACCGTTGGATTGGATCAGATCCAACGACTGG
261 CTGGACCGTTAGATTGGATCAGATCCAACGACTGG
* *
160901 TTGGGTGATTCTGGAATTTACGTGTATATCATGTGTGCTTATGATTCTATTGTTTGATAGTTTGA
1 TTGGGTGATTCTGGAATTTACGTGTATATCATGCGTGCGTATGATTCTATTGTTTGATAGTTTGA
160966 TGATCGGTGAGCCGTTGGATTGGGTTAGATCCAACGATCATGCCTTGGCTGTGCATATCTCTTCG
66 TGATCGGTGAGCCGTTGGATTGGGTTAGATCCAACGATCATGCCTTGGCTGTGCATATCTCTTCG
* * *
161031 TTTAGGGTTACAAAAGCCTTCTACATTAATGTAATCTGGACCGTTGGATTGTTTTAGATCCAACG
131 TTTAGGGTTACAAAAGCCTTCTACATTAATGTAATATGGACCATTGGATTGTTTCAGATCCAACG
161096 GTCAGTATGCAGTTACTTGATCTGACTTGATTAGGGTTATGATGAAACTCTACTTTGCTTACAAT
196 GTCAGTATGCAGTTACTTGATCTGACTTGATTAGGGTTATGATGAAACTCTACTTTGCTTACAAT
161161 CTGGACCGTTAGATTGGATCAGATCCAACGACTG
261 CTGGACCGTTAGATTGGATCAGATCCAACGACTG
161195 CCCCTTAGCT
Statistics
Matches: 286, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
295 286 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (295 bp):
TTGGGTGATTCTGGAATTTACGTGTATATCATGCGTGCGTATGATTCTATTGTTTGATAGTTTGA
TGATCGGTGAGCCGTTGGATTGGGTTAGATCCAACGATCATGCCTTGGCTGTGCATATCTCTTCG
TTTAGGGTTACAAAAGCCTTCTACATTAATGTAATATGGACCATTGGATTGTTTCAGATCCAACG
GTCAGTATGCAGTTACTTGATCTGACTTGATTAGGGTTATGATGAAACTCTACTTTGCTTACAAT
CTGGACCGTTAGATTGGATCAGATCCAACGACTGG
Done.