Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003230.1 Hibiscus syriacus cultivar Beakdansim tig00006800_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: 217729
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:7872 original size:134 final size:133
Alignment explanation
Indices: 7619--8305 Score: 808
Period size: 134 Copynumber: 5.1 Consensus size: 133
7609 GTTTAATTTG
* * *
7619 CAGATCTGATATTACCTTTAGAAGAAGCGGACCAAGTCCCTCTTTTCCAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCT
* * * *
7684 GAGTGACAGCGGAACAAGTCTGCCCTGATTCAATCTTCCCTGAGTGATAGCGGAATGGATCAACT
66 GAGTGACAGTGGAACAAGTTTTCCCTGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACT
7749 CCC
131 CCC
* * *
7752 CAAGATCTGATATTCCCTTCAGAAGAAGCAGATCATGTCCCTCTTTTCCAAGATTTGATATTCCC
1 C-AGATCTGATATTCCCTTTAGAAGAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
* * * * * *
7817 TGAGTAACAGTGGAACAAGTTTTCCCTGATTTAATATTCCCTGTGTGACAACGGAATGAATCAAC
65 TGAGTGACAGTGGAACAAGTTTTCCCTGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAAC
*
7882 TCCTT
130 TCC-C
* *
7887 CAGATCTGATATTGCCTTTAGAAGAAACGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCT
* * * * *
7952 GAGTGATAGTGGGACAAGTATTCCCCGATTCAATCTTCCCTAAGTGACAGCGGAATGGATCAACT
66 GAGTGACAGTGGAACAAGTTTTCCCTGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACT
8017 CCCC
131 -CCC
* * *
8021 CAGATCTGATATTCCCTTTAG-AGAAAGCGGAACATATCCCTCTTTACCAAGATTTGATATTCTC
1 CAGATCTGATATTCCCTTTAGAAG-AAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
* * * * ** * * *
8085 TGAGTGCCAGCGGAACAAG-TCTGCCTCGATTCAATCTTCTATGAATGACATGCTGAATGGGTCA
65 TGAGTGACAGTGGAACAAGTTTTCCCT-GATTCAATCTTCCCTGAGTGACA-GCGGAATGGATCA
8149 ACTCCCCC
128 ACT--CCC
* * * ** *
8157 CAGATTTGATATTCCCTTCAGAAGAAGTGGAACAAATCTCTC-TTT-CAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCT
* * * * * **
8220 GAGTGATAGTGGAACAAG-TCTGCCTCGATTCAATCTTCCCTGAGTAACAGTGGAATAAATCAAC
66 GAGTGACAGTGGAACAAGTTTTCCCT-GATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAAC
8284 ATCCC
130 -TCCC
8289 CAGATCTGATATTCCCT
1 CAGATCTGATATTCCCT
8306 AAGTGACAGC
Statistics
Matches: 473, Mismatches: 72, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
132 19 0.04
133 16 0.03
134 379 0.80
135 19 0.04
136 38 0.08
137 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (133 bp):
CAGATCTGATATTCCCTTTAGAAGAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCT
GAGTGACAGTGGAACAAGTTTTCCCTGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACT
CCC
Found at i:12058 original size:2 final size:2
Alignment explanation
Indices: 12051--12076 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12041 AAAACTTCTA
12051 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
12077 GGTAATTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16281 original size:33 final size:33
Alignment explanation
Indices: 16244--16437 Score: 180
Period size: 33 Copynumber: 5.9 Consensus size: 33
16234 AAAATTCATG
* * * *
16244 ACTTTTGGAGGTAACATTTGGTGAAGTGACATA
1 ACTTTTAGAGGCACCATTTGGTGAAGAGACATA
* *
16277 ACTTTTAGAGGCACCCTTTGGTGAAGTGACATA
1 ACTTTTAGAGGCACCATTTGGTGAAGAGACATA
*
16310 ACTTTTAGAGGCACCCTTTGGTGAAGAGACATA
1 ACTTTTAGAGGCACCATTTGGTGAAGAGACATA
** * * *
16343 ACTTTTAGAGTTACCATTTCGTGAAGAGATACA
1 ACTTTTAGAGGCACCATTTGGTGAAGAGACATA
* * *
16376 ACTTTTGGAGGCACC-TCTAGGTG-A-AGACATG
1 ACTTTTAGAGGCACCAT-TTGGTGAAGAGACATA
* **
16407 ACTTTTGGAGTTACC-TCTTGGTGAAGAGACA
1 ACTTTTAGAGGCACCAT-TTGGTGAAGAGACA
16438 CGACTATTGG
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
31 24 0.18
32 3 0.02
33 109 0.80
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (33 bp):
ACTTTTAGAGGCACCATTTGGTGAAGAGACATA
Found at i:16341 original size:66 final size:66
Alignment explanation
Indices: 16244--16458 Score: 231
Period size: 66 Copynumber: 3.3 Consensus size: 66
16234 AAAATTCATG
* * * * ** * *
16244 ACTTTTGGAGGTAACATTTGGTGAAGTGACATAACTTTTAGAGGCACCCTTTGGTGAAGTGACAT
1 ACTTTTGGAGGCACCCTTTGGTGAAGAGACATAACTTTTAGAGTTACCCTTTGGTGAAGAGACAC
16309 A
66 A
* * * *
16310 ACTTTTAGAGGCACCCTTTGGTGAAGAGACATAACTTTTAGAGTTACCATTTCGTGAAGAGATAC
1 ACTTTTGGAGGCACCCTTTGGTGAAGAGACATAACTTTTAGAGTTACCCTTTGGTGAAGAGACAC
16375 A
66 A
* * *
16376 ACTTTTGGAGGCA-CCTCTAGGTG-A-AGACATGACTTTTGGAGTTA-CCTCTTGGTGAAGAGAC
1 ACTTTTGGAGGCACCCT-TTGGTGAAGAGACATAACTTTTAGAGTTACCCT-TTGGTGAAGAGAC
*
16437 ACG
64 ACA
*
16440 ACTATTGGAGGCACCCTTT
1 ACTTTTGGAGGCACCCTTT
16459 TGGCGAAACA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 44 0.35
65 7 0.06
66 71 0.57
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (66 bp):
ACTTTTGGAGGCACCCTTTGGTGAAGAGACATAACTTTTAGAGTTACCCTTTGGTGAAGAGACAC
A
Found at i:16414 original size:31 final size:33
Alignment explanation
Indices: 16363--16454 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 33
16353 TTACCATTTC
* *
16363 GTGAAGAGATACAACTTTTGGAGGCACCTCTAG
1 GTGAAGAGACACGACTTTTGGAGGCACCTCTAG
* ** *
16396 GTG-A-AGACATGACTTTTGGAGTTACCTCTTG
1 GTGAAGAGACACGACTTTTGGAGGCACCTCTAG
*
16427 GTGAAGAGACACGACTATTGGAGGCACC
1 GTGAAGAGACACGACTTTTGGAGGCACC
16455 CTTTTGGCGA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 24 0.51
32 2 0.04
33 21 0.45
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (33 bp):
GTGAAGAGACACGACTTTTGGAGGCACCTCTAG
Found at i:16778 original size:2 final size:2
Alignment explanation
Indices: 16771--16840 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
16761 ATGCAACAAC
16771 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
16813 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
16841 GAGATGTATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16925 original size:4 final size:4
Alignment explanation
Indices: 16916--17303 Score: 767
Period size: 4 Copynumber: 97.0 Consensus size: 4
16906 ACTATATGAA
*
16916 ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
16964 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17012 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17060 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17108 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17156 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17204 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17252 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17300 ATAC
1 ATAC
17304 CACACATATA
Statistics
Matches: 382, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 382 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:17314 original size:2 final size:2
Alignment explanation
Indices: 17309--17350 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
17299 CATACCACAC
17309 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
17351 GAAGATCCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20999 original size:20 final size:20
Alignment explanation
Indices: 20974--21026 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
20964 CTTCAGACTT
20974 GCAAGATAAATCTTACCTTG
1 GCAAGATAAATCTTACCTTG
* *
20994 GCAAGATGAATCTTTCCTTG
1 GCAAGATAAATCTTACCTTG
*
21014 GAAAGATAAATCT
1 GCAAGATAAATCT
21027 ATTCCTCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
GCAAGATAAATCTTACCTTG
Found at i:22317 original size:32 final size:33
Alignment explanation
Indices: 22274--22424 Score: 105
Period size: 33 Copynumber: 4.6 Consensus size: 33
22264 AAAAGTCATG
*
22274 ACTTTTGGAGGCA-ACTTTGGTAAAGAGACATA
1 ACTTTTGGAGGCACACTTTGGTAAAGAGACACA
* * * *
22306 ACTTTTTGAGGCACCCTTTGGTGAAGAGTCACA
1 ACTTTTGGAGGCACACTTTGGTAAAGAGACACA
* * *
22339 ACTTTTAGAGACACCAC-TTGGAAAAGAG-CA-A
1 ACTTTTGGAGGCA-CACTTTGGTAAAGAGACACA
* * * *
22370 TGCTTTTGGAGGCAC-CTCTTGGTGAAGAGACGCG
1 -ACTTTTGGAGGCACACT-TTGGTAAAGAGACACA
* * *
22404 ACTCTTGGAGGAACATTTTGG
1 ACTTTTGGAGGCACACTTTGG
22425 CAAAACATCA
Statistics
Matches: 90, Mismatches: 21, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
30 1 0.01
31 2 0.02
32 33 0.37
33 51 0.57
34 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (33 bp):
ACTTTTGGAGGCACACTTTGGTAAAGAGACACA
Found at i:22325 original size:33 final size:31
Alignment explanation
Indices: 22274--22400 Score: 103
Period size: 32 Copynumber: 3.9 Consensus size: 31
22264 AAAAGTCATG
*
22274 ACTTTTGGAGGCAACTTTGGTAAAGAGACATA
1 ACTTTTGGAGGCACCTTTGGTAAAGAGACA-A
* * *
22306 ACTTTTTGAGGCACCCTTTGGTGAAGAGTCACA
1 ACTTTTGGAGGCA-CCTTTGGTAAAGAGACA-A
* * * *
22339 ACTTTTAGAGACACCACTTGGAAAAGAG-CAA
1 ACTTTTGGAGGCACC-TTTGGTAAAGAGACAA
* *
22370 TGCTTTTGGAGGCACCTCTTGGTGAAGAGAC
1 -ACTTTTGGAGGCACCT-TTGGTAAAGAGAC
22401 GCGACTCTTG
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
31 1 0.01
32 37 0.50
33 36 0.49
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
ACTTTTGGAGGCACCTTTGGTAAAGAGACAA
Found at i:30485 original size:20 final size:20
Alignment explanation
Indices: 30450--30504 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
30440 GAATGTTTAT
* *
30450 AAGTTTCAAAAGTTTC-TCA
1 AAGTTTCGAAACTTTCATCA
*
30469 ATATTTTCGAAACTTTCATCA
1 A-AGTTTCGAAACTTTCATCA
30490 AAGTTTCGAAACTTT
1 AAGTTTCGAAACTTT
30505 GGGTTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (20 bp):
AAGTTTCGAAACTTTCATCA
Found at i:32492 original size:40 final size:40
Alignment explanation
Indices: 32429--32510 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
32419 ATAGGAGTCA
* *
32429 AATATTGCACAATAGTGCAGAGGTCGAGCCTTGCTCACCT
1 AATAATGCACAATAGTGCAGAGGTCGAGCCTTGCCCACCT
* * * *
32469 AATAATGCACCATAGTGCTGAGGTCGGGCTTTGCCCACCT
1 AATAATGCACAATAGTGCAGAGGTCGAGCCTTGCCCACCT
32509 AA
1 AA
32511 CTTGTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
AATAATGCACAATAGTGCAGAGGTCGAGCCTTGCCCACCT
Found at i:41166 original size:38 final size:38
Alignment explanation
Indices: 41071--41166 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
41061 TATAAGACAT
*
41071 ATGATAGGTCC-TACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTA-GGGACACAGATGACATCCTTCGGG
* * * *
41109 ATGACAGGTCCTTAAGGACACATATGACATCCTTTGGG
1 ATGATAGGTCCTTAGGGACACAGATGACATCCTTCGGG
*
41147 ATGATAGGTCCTTTGGGACA
1 ATGATAGGTCCTTAGGGACA
41167 TTTGTACGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 47 0.96
39 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (38 bp):
ATGATAGGTCCTTAGGGACACAGATGACATCCTTCGGG
Found at i:48026 original size:38 final size:38
Alignment explanation
Indices: 47931--48026 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
47921 TATAAGACAT
*
47931 ATGATAGGTCC-TACGGGACACAAATTACATCCTTCGGG
1 ATGATAGGTCCTTA-GGGACACAAATGACATCCTTCGGG
* * * *
47969 ATGACAGGTCCTTAAGGACACATATGACATCCTTTGGG
1 ATGATAGGTCCTTAGGGACACAAATGACATCCTTCGGG
*
48007 ATGATAGGTCCTTTGGGACA
1 ATGATAGGTCCTTAGGGACA
48027 TTTGTACGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 47 0.96
39 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (38 bp):
ATGATAGGTCCTTAGGGACACAAATGACATCCTTCGGG
Found at i:59212 original size:3 final size:3
Alignment explanation
Indices: 59206--59279 Score: 89
Period size: 3 Copynumber: 24.0 Consensus size: 3
59196 ATTTGGTTTT
*
59206 TTA TTA TTTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
59253 TTA TTTA TTA TTAA TT- TTA TTA -TA TTA
1 TTA -TTA TTA TT-A TTA TTA TTA TTA TTA
59280 CAGGCCCAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
2 4 0.06
3 47 0.75
4 12 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:59237 original size:19 final size:19
Alignment explanation
Indices: 59205--59279 Score: 93
Period size: 19 Copynumber: 4.0 Consensus size: 19
59195 CATTTGGTTT
59205 TTTATTATTTATTATTATTA
1 TTTATTA-TTATTATTATTA
59225 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
*
59244 -TTAATATTATTATTTATTA
1 TTTATTATTATTA-TTATTA
*
59263 TTAATT-TTATTA-TATTA
1 TTTATTATTATTATTATTA
59280 CAGGCCCAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
17 5 0.10
18 11 0.22
19 24 0.48
20 10 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTATTATTATTATTA
Found at i:60864 original size:20 final size:19
Alignment explanation
Indices: 60839--60880 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
60829 CTATTTTATA
60839 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
60859 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
60878 AAT
1 AAT
60881 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:60889 original size:122 final size:118
Alignment explanation
Indices: 60717--60980 Score: 293
Period size: 122 Copynumber: 2.2 Consensus size: 118
60707 TAATTACTTT
* *
60717 TAAATTAT-T-TTAATCATGTTTTAATATTTATTTATTTTTCAATATTAAGAAAGGA-CAGTCTT
1 TAAATTATATATTAAT-ATGTTTTAATATTTATTTATTTTTCAATATGAAGAAAAGAGCAGTCTT
* * * *
60779 AAAACAATTGGATGTCCATTTTCTGATATTTTTAAATAAATAAATATTCTCTATTTTA
65 AAAACAACTAGAAGT-CATTTTCTGATATTTCTAAATAAATAAATATT-T-TA-TTTA
* *
60837 TAAATTATATATTAAT-TGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCT
1 TAAATTATATATTAATATGTTTTAA-TATTTATTTATTTTTCAATAT-GAAGAAAAGAGCAGTCT
*** * *
60901 TAAGGTACCTAGAAGTCTTTTTCTGATATTTCTAAATAAATAAATATTTTATTTA
64 TAAAACAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATTTTATTTA
* *
60956 TAAATATATAAATTAATATTTTTTA
1 TAAAT-TATATATTAATATGTTTTA
60981 TAATTATAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
119 9 0.07
120 28 0.23
121 28 0.23
122 43 0.35
123 14 0.11
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.48
Consensus pattern (118 bp):
TAAATTATATATTAATATGTTTTAATATTTATTTATTTTTCAATATGAAGAAAAGAGCAGTCTTA
AAACAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATTTTATTTA
Found at i:61497 original size:17 final size:18
Alignment explanation
Indices: 61464--61504 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
61454 TTTCTTTTAA
*
61464 ATTTTT-TATTACTTATT
1 ATTTTTATATTACATATT
61481 ATTTTTATATTA-ATATT
1 ATTTTTATATTACATATT
61498 -TTTTTAT
1 ATTTTTAT
61505 TTTATTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATATTACATATT
Found at i:64809 original size:15 final size:15
Alignment explanation
Indices: 64789--64820 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64779 GATCAATACC
64789 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
64804 TTTTGCATACATTCA
1 TTTTGCATACATGCA
64819 TT
1 TT
64821 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:70767 original size:30 final size:30
Alignment explanation
Indices: 70733--70795 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
70723 CACCTTCAAT
70733 TATCTCCCTCGAGAAGAAAATCAAATGGCA
1 TATCTCCCTCGAGAAGAAAATCAAATGGCA
70763 TATCTCCCTCGAGAAGAAAATCAAATGGCA
1 TATCTCCCTCGAGAAGAAAATCAAATGGCA
70793 TAT
1 TAT
70796 GCTTTGGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (30 bp):
TATCTCCCTCGAGAAGAAAATCAAATGGCA
Found at i:72446 original size:19 final size:17
Alignment explanation
Indices: 72404--72452 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
72394 TATTTTCTCT
72404 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
72420 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
*
72438 AAAATTCAACTTATT
1 -AAATTCAATTTATT
72453 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 1 0.04
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:72987 original size:114 final size:114
Alignment explanation
Indices: 72782--73006 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 114
72772 TGCCACGTTA
* ** *
72782 TCATGGTAGAAATAAGGAGGTCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGAGTTCTTTGAGTTATCTGATCTGG
* * *
72847 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
66 TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGC
72896 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCT-GAAAGAGTTCTTTGAGTTATCTGATCTG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAG-AAGAGTTCTTTGAGTTATCTGATCTG
*
72960 GTTCGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAATT
65 GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATT
73007 GCATGATCGT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 1 0.01
114 101 0.99
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGAGTTCTTTGAGTTATCTGATCTGG
TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGC
Found at i:73902 original size:113 final size:113
Alignment explanation
Indices: 73735--74264 Score: 766
Period size: 113 Copynumber: 4.6 Consensus size: 113
73725 TACCAGGTCG
* *
73735 AGTTCATAATGATAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* **
73800 AACTTTTCACTTGAATTCATCATTTGATGGATCAGCATTTCCAG-GTCG
66 AACTTTTCACTTGAATTCATCACTTGATGGATCAGCATTTCCAGAG-AA
*
73848 AGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
73913 AACTTTTCGCTTGAATTCATCACTTGATGGATCAGCATTTCCAGAGAA
66 AACTTTTCACTTGAATTCATCACTTGATGGATCAGCATTTCCAGAGAA
73961 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* **
74025 AACCTTTTGCA--TG-ACTCTATCACAGAAGGAGATGGATCAGCATTTCCAGAGAA
66 AA-CTTTT-CACTTGAATTC-ATCAC-----TTGATGGATCAGCATTTCCAGAGAA
74078 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
74143 AATTTTTCGCTTGAATTCATCACTTGATGGATCAACATTTCCAGAGAA
66 AACTTTTCACTTGAATTCATCACTTGATGGATCAGCATTTCCAGAGAA
* * *
74191 AGTTCATAATGAGAAGAACTCATATGAAG-AGGAAGAAGAAGTTCATAATGAAAAAAAAACTTGT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG--AGAAGAACTTGT
74255 TCAACCTTTT
64 TCAA-CTTTT
74265 GCATGACTCT
Statistics
Matches: 379, Mismatches: 22, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
111 3 0.01
112 65 0.17
113 187 0.49
114 16 0.04
115 4 0.01
116 1 0.00
117 56 0.15
118 44 0.12
119 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCACTTGAATTCATCACTTGATGGATCAGCATTTCCAGAGAA
Found at i:74112 original size:230 final size:230
Alignment explanation
Indices: 73713--74333 Score: 893
Period size: 230 Copynumber: 2.7 Consensus size: 230
73703 CCATCATTCA
* ** * *
73713 ATGGATCAACATTACCAG-GTCGAGTTCATAATGATAAGAACTCATCTGAAGAAAGAAGAAGAAG
1 ATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAG
* ***
73777 TTCATAATGAGAAGAACTTGTTCAA-CTTTT-CACTTGA--AT-TCATC---ATTTGATGGATCA
64 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCA--TGACTCTATCA-CAGAAGGAGATGGATCA
** *
73834 GCATTTCCAG-GTCGAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
126 GCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
73898 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
190 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
*
73939 ATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
74004 CATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATGGATCAGCATT
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATGGATCAGCATT
74069 TCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
131 TCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
*
74134 AACTTGTTCAATTTTTCGCTTGAATTCATCACTTG
196 AACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
*
74169 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
* *
74234 CATAATGAAAAAAAAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATGGATC
66 CATAATG--AGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAA-G-G--AGATGGATC
* *
74299 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
125 AGCATTTCCAGAGAAAGTTCATAATGAGAAGAACT
74334 TGTTCAACCT
Statistics
Matches: 359, Mismatches: 20, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
225 39 0.11
226 49 0.14
227 5 0.01
228 3 0.01
230 179 0.50
231 1 0.00
232 39 0.11
233 1 0.00
234 1 0.00
236 42 0.12
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (230 bp):
ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATGGATCAGCATT
TCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
AACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
Found at i:74674 original size:3 final size:3
Alignment explanation
Indices: 74668--74725 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
74658 ATTTGGTTTT
* *
74668 TTA TTA TTTA TTA TTA TTA TTT TTA ATA TTA TTA TTTA TTA TTAA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
74715 TTA TTA -TA TTA
1 TTA TTA TTA TTA
74726 CAGGCCCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
2 4 0.09
3 33 0.72
4 9 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:74679 original size:7 final size:7
Alignment explanation
Indices: 74667--74710 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
74657 CATTTGGTTT
74667 TTTATTA
1 TTTATTA
74674 TTTATTA
1 TTTATTA
74681 -TTATTA
1 TTTATTA
74687 TTT-TTAA
1 TTTATT-A
74694 TATTATTA
1 T-TTATTA
74702 TTTATTA
1 TTTATTA
74709 TT
1 TT
74711 AATTTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 8 0.24
7 19 0.58
8 4 0.12
9 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:74697 original size:22 final size:21
Alignment explanation
Indices: 74665--74725 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 21
74655 TACATTTGGT
*
74665 TTTTTATTATTTATTATTATTA
1 TTTTTAATATTTATTA-TATTA
74687 TTTTTAATA-TTATTAT-TTA
1 TTTTTAATATTTATTATATTA
*
74706 TTATTAAT-TTTATTATATTA
1 TTTTTAATATTTATTATATTA
74726 CAGGCCCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 17 0.49
20 4 0.11
21 6 0.17
22 8 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTAATATTTATTATATTA
Found at i:74706 original size:25 final size:26
Alignment explanation
Indices: 74669--74725 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
74659 TTTGGTTTTT
*
74669 TATTATT-TATTATTATTATTTTTAA
1 TATTATTATATTATTATTAATTTTAA
*
74694 TATTATTAT-TTATTATTAATTTTAT
1 TATTATTATATTATTATTAATTTTAA
74719 TA-TATTA
1 TATTATTA
74726 CAGGCCCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.17
25 23 0.79
26 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTATTATATTATTATTAATTTTAA
Found at i:76309 original size:20 final size:19
Alignment explanation
Indices: 76284--76325 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
76274 CTATTTTATA
76284 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
76304 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
76323 AAT
1 AAT
76326 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:76316 original size:119 final size:119
Alignment explanation
Indices: 76180--76417 Score: 284
Period size: 120 Copynumber: 2.0 Consensus size: 119
76170 ATTTTAATCC
* * * * *
76180 TGTTTTAATATTTATTTATTTTTCAATAT-TAAGAAAGGA-CAGTCTTAAAACAATTGGATGTCC
1 TGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGT-C
* *
76243 ATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAAT-TATATATTAAT
65 ATTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAATATATAAATTAAT
* * *** *
76298 TGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGTACCTAGAAGTC
1 TGTTTTAA-TATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTC
* **
76363 TTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
65 ATTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATAAATTAAT
76418 ATTTTTTTTA
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 8 0.08
119 29 0.29
120 49 0.49
121 14 0.14
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (119 bp):
TGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCA
TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATAAATTAAT
Found at i:76411 original size:27 final size:27
Alignment explanation
Indices: 76381--76435 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
76371 ATATTTCTAA
76381 ATAAATAAATATTTTATTTATAAATAT
1 ATAAATAAATATTTTATTTATAAATAT
* * *
76408 ATAAATTAATATTTTTTTTATAATTAT
1 ATAAATAAATATTTTATTTATAAATAT
76435 A
1 A
76436 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATAAATAAATATTTTATTTATAAATAT
Found at i:78189 original size:33 final size:33
Alignment explanation
Indices: 78152--78216 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
78142 TCATCCTAAA
*
78152 ATTTTAATTTAATAATAAATAAAATATTAAAAT
1 ATTTTAATTCAATAATAAATAAAATATTAAAAT
* *
78185 ATTTTCATTCAATAATAAATAAAATCTTAAAA
1 ATTTTAATTCAATAATAAATAAAATATTAAAA
78217 GTTATTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (33 bp):
ATTTTAATTCAATAATAAATAAAATATTAAAAT
Found at i:80347 original size:22 final size:23
Alignment explanation
Indices: 80316--80358 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
80306 AATTTAAATA
80316 AAAATAATAACT-AATTAATAATT
1 AAAATAATAA-TAAATTAATAATT
80339 AAAAT-ATAATAAATTAATAA
1 AAAATAATAATAAATTAATAA
80359 CATAAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 13 0.68
23 5 0.26
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATAATAAATTAATAATT
Found at i:96238 original size:20 final size:20
Alignment explanation
Indices: 96210--96248 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96200 GAAATCTTGT
*
96210 TCTTCTCTTCTTTGTCTATC
1 TCTTCTCTTCTTCGTCTATC
*
96230 TCTTTTCTTCTTCGTCTAT
1 TCTTCTCTTCTTCGTCTAT
96249 TTTTCTTTTC
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:0.05, C:0.28, G:0.05, T:0.62
Consensus pattern (20 bp):
TCTTCTCTTCTTCGTCTATC
Found at i:107318 original size:29 final size:29
Alignment explanation
Indices: 107264--107320 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
107254 GAAAAAAAAT
** *
107264 TTAAGGACCATTTTGTAATTTTTGGAAAG
1 TTAAGGACCATTCAGTAATTTATGGAAAG
107293 TTAAGGACCTATTCAGTAA-TTATGGAAA
1 TTAAGGACC-ATTCAGTAATTTATGGAAA
107321 AATTGTGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (29 bp):
TTAAGGACCATTCAGTAATTTATGGAAAG
Found at i:113395 original size:47 final size:45
Alignment explanation
Indices: 113303--113427 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 45
113293 GTAAGTATGC
* *
113303 AAATAAGCTTACGAGCATAT-GAAT-AATGGCAAGTATAATGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAATGATA
** *
113346 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATAATGATA
* * *
113393 AAATAAGCTTATGAGTTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
113428 AGATTTTATA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 19 0.27
44 3 0.04
45 11 0.16
46 1 0.01
47 36 0.51
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAATGATA
Found at i:113826 original size:20 final size:20
Alignment explanation
Indices: 113801--113849 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
113791 AAGGGGTACT
*
113801 GATTCCCCCTACAGGGAAGC
1 GATTCCCCCTACAGGGAACC
113821 GATTCCCCCTACAGGGAACC
1 GATTCCCCCTACAGGGAACC
113841 GATTCCCCC
1 GATTCCCCC
113850 ACTGTTCACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.41, G:0.20, T:0.16
Consensus pattern (20 bp):
GATTCCCCCTACAGGGAACC
Found at i:115586 original size:21 final size:22
Alignment explanation
Indices: 115561--115606 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
115551 AATAGCTTGG
115561 TTTCATG-AAATTTATCCTTA-A
1 TTTCATGTAAATTTA-CCTTATA
*
115582 TTTCATGTTAATTTACCTTATA
1 TTTCATGTAAATTTACCTTATA
115604 TTT
1 TTT
115607 AAGCTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTCATGTAAATTTACCTTATA
Found at i:120951 original size:58 final size:56
Alignment explanation
Indices: 120852--121177 Score: 301
Period size: 58 Copynumber: 5.8 Consensus size: 56
120842 CCCAATCGAT
* ** * * * * *
120852 ATGAATTTT-AAAGAAGCTAGGTTTGATTTTTAGAGGCTTCTTGATATATTGCTTTCAA
1 ATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG--ATATT-ATTTCCA
* * * *
120910 ACGAA-TTTGAAAGAAGCTAA-CCATGATTTTTAGGGGTTTCTTGAT-GT-TTTCAA
1 ATGAATTTTGAAAGAAGCTAAGCC-TAATTTTTAGGGGTTTCTTGATATTATTTCCA
* *
120963 ATGAATTTTTGAAAGAATCTAAGCCTATTTTTTAGGGGTTTCTTGATGATTATTTCCA
1 ATGAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-ATTATTTCCA
* *
121021 ATGAACTTTCT-AAAAAAGGTAAGCCTAATTTTTA-GGGTTTCTTGATGATTATTTCCA
1 ATGAA-TTT-TGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-ATTATTTCCA
* * *
121078 ATGAACTTTTAAAAGAAGCTAAGCCTCATTTTCAGGGGTTTCTTGATAATTATTTCCA
1 ATGAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-ATTATTTCCA
*
121136 ATGAAGTTTT--AAGAAGCTAAGCCAAATTTTTAGGGGTTTCTT
1 ATGAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTT
121178 AATGATAACT
Statistics
Matches: 230, Mismatches: 27, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
53 10 0.04
55 35 0.15
56 34 0.15
57 55 0.24
58 95 0.41
59 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (56 bp):
ATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATATTATTTCCA
Found at i:121077 original size:57 final size:57
Alignment explanation
Indices: 120935--121183 Score: 319
Period size: 58 Copynumber: 4.4 Consensus size: 57
120925 GCTAACCATG
* * * *
120935 ATTTTTAGGGGTTTCTTGATG--T-TTTCAAATGAATTTTTGAAAGAATCTAAGCCTA
1 ATTTTTAGGGGTTTCTTGATGATTATTTCCAATGAACTTTT-AAAAAAGCTAAGCCTA
* *
120990 TTTTTTAGGGGTTTCTTGATGATTATTTCCAATGAACTTTCTAAAAAAGGTAAGCCTA
1 ATTTTTAGGGGTTTCTTGATGATTATTTCCAATGAACTTT-TAAAAAAGCTAAGCCTA
*
121048 ATTTTTA-GGGTTTCTTGATGATTATTTCCAATGAACTTTTAAAAGAAGCTAAGCCTC
1 ATTTTTAGGGGTTTCTTGATGATTATTTCCAATGAACTTTTAAAA-AAGCTAAGCCTA
* * * * *
121105 ATTTTCAGGGGTTTCTTGATAATTATTTCCAATGAAGTTTT-AAGAAGCTAAGCCAA
1 ATTTTTAGGGGTTTCTTGATGATTATTTCCAATGAACTTTTAAAAAAGCTAAGCCTA
*
121161 ATTTTTAGGGGTTTCTTAATGAT
1 ATTTTTAGGGGTTTCTTGATGAT
121184 AACTGTAAAC
Statistics
Matches: 170, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
55 20 0.12
56 35 0.21
57 51 0.30
58 63 0.37
59 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (57 bp):
ATTTTTAGGGGTTTCTTGATGATTATTTCCAATGAACTTTTAAAAAAGCTAAGCCTA
Found at i:121115 original size:115 final size:113
Alignment explanation
Indices: 120935--121183 Score: 335
Period size: 115 Copynumber: 2.2 Consensus size: 113
120925 GCTAACCATG
* * * *
120935 ATTTTTAGGGGTTTCTTGATG--TTTTCAAATGAATTTTTGAAAGAATCTAAGCCTATTTTTTAG
1 ATTTTTAGGGGTTTCTTGATGATTTTTCAAATGAACTTTTAAAAGAAGCTAAGCCTATTTTTCAG
* * *
120998 GGGTTTCTTGATGATTATTTCCAATGAACTTTCTAAAAAAGGTAAGCCTA
66 GGGTTTCTTGATAATTATTTCCAATGAACTTT-T-AAAAAGCTAAGCCAA
*
121048 ATTTTTA-GGGTTTCTTGATGATTATTTCCAATGAACTTTTAAAAGAAGCTAAGCCTCA-TTTTC
1 ATTTTTAGGGGTTTCTTGATGATT-TTTCAAATGAACTTTTAAAAGAAGCTAAGCCT-ATTTTTC
* *
121111 AGGGGTTTCTTGATAATTATTTCCAATGAAGTTTTAAGAAGCTAAGCCAA
64 AGGGGTTTCTTGATAATTATTTCCAATGAACTTTTAAAAAGCTAAGCCAA
*
121161 ATTTTTAGGGGTTTCTTAATGAT
1 ATTTTTAGGGGTTTCTTGATGAT
121184 AACTGTAAAC
Statistics
Matches: 120, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
112 13 0.11
113 26 0.22
114 16 0.13
115 64 0.53
116 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (113 bp):
ATTTTTAGGGGTTTCTTGATGATTTTTCAAATGAACTTTTAAAAGAAGCTAAGCCTATTTTTCAG
GGGTTTCTTGATAATTATTTCCAATGAACTTTTAAAAAGCTAAGCCAA
Found at i:121223 original size:114 final size:115
Alignment explanation
Indices: 120935--121243 Score: 301
Period size: 115 Copynumber: 2.7 Consensus size: 115
120925 GCTAACCATG
* * * * * * *
120935 ATTTTTAGGGGTTTCTTGATG-T--TTTCAAATGAATTTTTGAAAGAATCTAAGCCT-ATTTTTT
1 ATTTTTA-GGGTTTCTTAATGATAATGTCAAACGAACTTTTAAAAGAAACTAAGCCTCA-TTTTC
* *
120996 AGGGGTTTCTTGATGATTATTTCCAATGAACTTTCTAAAAAAGGTAAGCCTA
64 AGGGGTTTCTTGATGATTATTTCCAATGAACTTTCTAAAAAAGCTAAGCCAA
* * * * * *
121048 ATTTTTAGGGTTTCTTGATGATTATTTCCAATGAACTTTTAAAAGAAGCTAAGCCTCATTTTCAG
1 ATTTTTAGGGTTTCTTAATGATAATGTCAAACGAACTTTTAAAAGAAACTAAGCCTCATTTTCAG
* * *
121113 GGGTTTCTTGATAATTATTTCCAATGAAGTTT-T-AAGAAGCTAAGCCAA
66 GGGTTTCTTGATGATTATTTCCAATGAACTTTCTAAAAAAGCTAAGCCAA
* * ** *
121161 ATTTTTAGGGGTTTCTTAATGATAACTGT-AAACGAAAGTTTT-TAAGAAACTAAGTTTGATTTT
1 ATTTTTA-GGGTTTCTTAATGATAA-TGTCAAACG-AACTTTTAAAAGAAACTAAGCCTCATTTT
*
121224 CAAGGGTTTCTTGATGATTA
63 CAGGGGTTTCTTGATGATTA
121244 AGTCCTTCGG
Statistics
Matches: 166, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
112 13 0.08
113 27 0.16
114 53 0.32
115 72 0.43
116 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (115 bp):
ATTTTTAGGGTTTCTTAATGATAATGTCAAACGAACTTTTAAAAGAAACTAAGCCTCATTTTCAG
GGGTTTCTTGATGATTATTTCCAATGAACTTTCTAAAAAAGCTAAGCCAA
Found at i:123169 original size:20 final size:21
Alignment explanation
Indices: 123144--123199 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
123134 TTTCTTACTA
*
123144 AGTAAGTCCTTT-GGGCCATT
1 AGTAAGTCCTTTCGAGCCATT
123164 AGTAAGT-CTTTCGAGCCATT
1 AGTAAGTCCTTTCGAGCCATT
123184 AGTAAGT-CTTTCGAGC
1 AGTAAGTCCTTTCGAGC
123200 ATGAAGCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 4 0.12
20 30 0.88
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (21 bp):
AGTAAGTCCTTTCGAGCCATT
Found at i:123248 original size:261 final size:263
Alignment explanation
Indices: 122903--123442 Score: 701
Period size: 261 Copynumber: 2.1 Consensus size: 263
122893 TTTCTTAGTG
* * * **
122903 AGTAAGTCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGTTGCTTAAATCCTTCAGGTCATCTAT
1 AGTAAGTCTTTCGAGCCATCAGTAAGTCTTTCGAGCATGAAGCTTAAATCCTTCAGGTCATCTAT
* * *** * *
122968 AAGTCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTC-AGGCGGGATGTTTA
66 AAGTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACAAACGA-GCAGGATATTTA
* * *
123032 CACATGATTTTTAAAAAATGAGAAAGTGTTTTCAAAAGTTTCTCATATAAATATTTTCTGAAATA
130 CACATGATTTTTAAAAAATGAGAAAGTGATTTCAAAAGTTTCTCATATAAATATTTTCTAAAAGA
* * * *
123097 CCAAC-TTTCTTGAAAAGTAAGAAAACGCTTTCCAAAG-TTTCTTACTAAGTAAGTCCTTTGGGC
195 ACAACTTTTATTGAAAAGTAAGAAAACGATTTCCAAAGTTTTCTTACTAAGTAAGTCCTTCGGGC
*
123160 CATT
260 CATC
* *
123164 AGTAAGTCTTTCGAGCCATTAGTAAGTCTTTCGAGCATGAAGCTTAAATCCTT-TGGATCATCTA
1 AGTAAGTCTTTCGAGCCATCAGTAAGTCTTTCGAGCATGAAGCTTAAATCCTTCAGG-TCATCTA
* * *
123228 TAAGTCTTTCGAGAAAGATGATAAGTTCTTCGGGCCATCCATAAGACAAACGAGCATGATATTTT
65 TAAGTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACAAACGAGCAGGATATTTA
* * * * *
123293 TACATGATTTTTGAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAGA
130 CACATGATTTTTAAAAAATGAGAAAGTGATTTCAAAAGTTTCTCATATAAATATTTTCTAAAAGA
** * * * *
123358 ATGACTTTTATTGAAACGTAAGAAAGCGATTTCCAAAGTTTTTTTACTTAGTAAGTCCTTCGGGC
195 ACAACTTTTATTGAAAAGTAAGAAAACGATTTCCAAAGTTTTCTTACTAAGTAAGTCCTTCGGGC
123423 CATC
260 CATC
*
123427 GGTAAGTCTTTCGAGC
1 AGTAAGTCTTTCGAGC
123443 ATGATAATTA
Statistics
Matches: 238, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
260 2 0.01
261 166 0.70
262 29 0.12
263 41 0.17
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (263 bp):
AGTAAGTCTTTCGAGCCATCAGTAAGTCTTTCGAGCATGAAGCTTAAATCCTTCAGGTCATCTAT
AAGTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACAAACGAGCAGGATATTTAC
ACATGATTTTTAAAAAATGAGAAAGTGATTTCAAAAGTTTCTCATATAAATATTTTCTAAAAGAA
CAACTTTTATTGAAAAGTAAGAAAACGATTTCCAAAGTTTTCTTACTAAGTAAGTCCTTCGGGCC
ATC
Found at i:125507 original size:15 final size:14
Alignment explanation
Indices: 125474--125505 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
125464 TATTTTTACC
*
125474 CTTTATTTTTAGTA
1 CTTTAATTTTAGTA
125488 CTTTAATTTTAGTA
1 CTTTAATTTTAGTA
125502 CTTT
1 CTTT
125506 TATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (14 bp):
CTTTAATTTTAGTA
Found at i:130182 original size:59 final size:59
Alignment explanation
Indices: 130119--130480 Score: 222
Period size: 59 Copynumber: 6.2 Consensus size: 59
130109 ATGGCACTTT
* * * * *
130119 GTGTGCCAAAATGTTAAGGAAATCATACTGAGTGTATGGATTTCCATATAGAGCACTGA
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAATGTATGGATTTCCAGATAGAGCACTGA
* * * * * * *
130178 GTGTGCT-AAGTGGTAAGGGAATCATATTGAAA-ATATGGATTTCCAGATAGGGCATTTTA
1 GTGTGCTAAAATGGTAAGGAAATCATACT-AAATGTATGGATTTCCAGATAGAGCA-CTGA
* * * * * *
130237 -TGTTCTAAAATGGTAAAGG-AATCATACTAAGTATATGGATTTCTAGATAAAGCACTAA
1 GTGTGCTAAAATGGT-AAGGAAATCATACTAAATGTATGGATTTCCAGATAGAGCACTGA
* * * * * * * *
130295 GGGTGCTATGAA-GATAAGGAAATCATACT-AATGGTATGGATTTTCACATAGGGCATTTCA
1 GTGTGCTA-AAATGGTAAGGAAATCATACTAAAT-GTATGGATTTCCAGATAGAGCA-CTGA
** * ** * **
130355 -TGTGCTAAAATGGTAACAAAATCATACTAAATGTATGAATTT-TTGAATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAATGTATGGATTTCCAG-ATAGAGCACTGA
* * * *
130413 GTGTGCTAAAAT-GAAAGGGGAAGCATACTAAGTGTAT-GATCTTCCAGATAGAGCACTGA
1 GTGTGCTAAAATGGTAA-GGAAATCATACTAAATGTATGGAT-TTCCAGATAGAGCACTGA
*
130472 GAGTGCTAA
1 GTGTGCTAA
130481 TATTAAAAGG
Statistics
Matches: 227, Mismatches: 59, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
58 59 0.26
59 156 0.69
60 12 0.05
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (59 bp):
GTGTGCTAAAATGGTAAGGAAATCATACTAAATGTATGGATTTCCAGATAGAGCACTGA
Found at i:130612 original size:17 final size:18
Alignment explanation
Indices: 130587--130620 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
130577 ATTGTAGTAT
130587 ATTCATTGGA-ATTAAAG
1 ATTCATTGGAGATTAAAG
*
130604 ATTCCTTGGAGATTAAA
1 ATTCATTGGAGATTAAA
130621 TATCAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
ATTCATTGGAGATTAAAG
Found at i:132374 original size:44 final size:44
Alignment explanation
Indices: 132311--132398 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
132301 GAATCGCTTG
132311 AATCTTTTAAAGAACTTGGCCATATATTCTTCTTCATCATCATA
1 AATCTTTTAAAGAACTTGGCCATATATTCTTCTTCATCATCATA
132355 AATCTTTTAAAGAACTTGGCCATATATTCTTCTTCATCATCATA
1 AATCTTTTAAAGAACTTGGCCATATATTCTTCTTCATCATCATA
132399 TTCATCCACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (44 bp):
AATCTTTTAAAGAACTTGGCCATATATTCTTCTTCATCATCATA
Found at i:135105 original size:3 final size:3
Alignment explanation
Indices: 135061--135088 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
135051 TTTATTTTAT
135061 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
135089 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:135688 original size:37 final size:37
Alignment explanation
Indices: 135632--135717 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 37
135622 AGGGGTTCAA
*
135632 AAAAAG-AAAGAAAACAGAAAAAACACGAAA-AAATAG
1 AAAAAGAAAAGAAAACAGAAAAAA-ACGAAATAAAAAG
*
135668 AAAAAGAAAAGAGAAA-AGAAAGAAACGAAATAAAAAG
1 AAAAAGAAAAGA-AAACAGAAAAAAACGAAATAAAAAG
*
135705 AAGAAGAAGAAGA
1 AAAAAGAA-AAGA
135718 TAGTACTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
36 12 0.28
37 24 0.56
38 7 0.16
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (37 bp):
AAAAAGAAAAGAAAACAGAAAAAAACGAAATAAAAAG
Found at i:155067 original size:201 final size:200
Alignment explanation
Indices: 154717--155082 Score: 520
Period size: 201 Copynumber: 1.8 Consensus size: 200
154707 ATAAGCATCA
* * ** * *
154717 AGTATTGATACTTTTATTCAAGTATGCTTACCAAACAATTTGAATGCAAAAAGTATTGATACACT
1 AGTATCGATACTTTTAATCAAGTATGCTTACCAAACAATTTGAACACAAAAAGTATTGACACACA
* * *
154782 TACATAACGTACCAATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAA
66 TACATAAAGTACCAATACTAGGAATTTCAAAACCAATTACTTTAAAGTAATAGGTAAATTTACAA
* *
154847 TGTAAACGGTAAAAGTCTACAGGTATACTGATAATGGGTGTAGACATAAAGTATTTGTACTGTTT
131 TGTAAACGGTAAAAGTCTACAGATATAATGATAATGGGTGTAGACATAAAGTATTTGTACTGTTT
154912 ATATC
196 ATATC
* *
154917 AGTATCGATACTTTTAATCTAGTATGCTT-CTCAAACAATTTGTACACAACAAAGTATTGACAC-
1 AGTATCGATACTTTTAATCAAGTATGCTTAC-CAAACAATTTGAACACAA-AAAGTATTGACACA
* * * *
154980 CAATATATAAAGTATCGATACTAGTAATTTCAAAACCAATTACTTTAAAGTAATAGGTAAATTTA
64 C-ATACATAAAGTACCAATACTAGGAATTTCAAAACCAATTACTTTAAAGTAATAGGTAAATTTA
* *
155045 CAATGTAAATGGTAAAAGTCTACCGATATAATGATAAT
128 CAATGTAAACGGTAAAAGTCTACAGATATAATGATAAT
155083 AGGCATAAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
199 1 0.01
200 42 0.29
201 101 0.70
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (200 bp):
AGTATCGATACTTTTAATCAAGTATGCTTACCAAACAATTTGAACACAAAAAGTATTGACACACA
TACATAAAGTACCAATACTAGGAATTTCAAAACCAATTACTTTAAAGTAATAGGTAAATTTACAA
TGTAAACGGTAAAAGTCTACAGATATAATGATAATGGGTGTAGACATAAAGTATTTGTACTGTTT
ATATC
Found at i:155243 original size:380 final size:380
Alignment explanation
Indices: 154542--155260 Score: 964
Period size: 380 Copynumber: 1.9 Consensus size: 380
154532 ATACCCGTAC
* * * * *
154542 CGATACTTTTATTCCAGTATGGTTCTCAAACAACTTGCCCACAACAAAGAATCGATACCCATAAA
1 CGATACTTTTAATCCAGTATGCTTCTCAAACAACTTGCACACAACAAAGAATCGACACCAATAAA
* * * *
154607 TAAAGTATTGATACTGGGAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTTACAATGAA
66 TAAAGTATCGATACTAGGAATTTCAAAACCAATTACTTTAAAATAATAGGTAAATTTACAATGAA
*
154672 AATGGTAAAAGTCTACCAGTATAATGATAATAGACATAAGCATCAAGTATTGATACTTTTATTCA
131 AATGGTAAAAGTCTACCAGTATAATGATAATAGACATAAGCATCAAGTATCGATACTTTTATTCA
* * * *
154737 AGTATGCTTACCAAACAATTTGAATGCAAAAAGTATTGATACACTTACATAACGTACCAATACTT
196 AGTATGCTTACCAAACAATTTGAATGCAAAAAGTATTAATACACATACATAAAGTACCAAGACTT
* * *
154802 GGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTAC
261 AGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAAACAGTAAAAGTCTAC
*
154867 AGGTATACTGATAATGGGTGTAGACATAAAGTATTTGTACTGTTTATATCAGTAT
326 AGGTATAATGATAATGGGTGTAGACATAAAGTATTTGTACTGTTTATATCAGTAT
* * * * * *
154922 CGATACTTTTAATCTAGTATGCTTCTCAAACAATTTGTACACAACAAAGTATTGACACCAATATA
1 CGATACTTTTAATCCAGTATGCTTCTCAAACAACTTGCACACAACAAAGAATCGACACCAATAAA
* * *
154987 TAAAGTATCGATACTAGTAATTTCAAAACCAATTACTTTAAAGTAATAGGTAAATTTACAATGTA
66 TAAAGTATCGATACTAGGAATTTCAAAACCAATTACTTTAAAATAATAGGTAAATTTACAATGAA
* **
155052 AATGGTAAAAGTCTACC-GATATAATGATAATAGGCATAAATTAT-AAGTATCGATACTTTTATT
131 AATGGTAAAAGTCTACCAG-TATAATGATAATAGACAT-AAGCATCAAGTATCGATACTTTTATT
* * * * * * *
155115 CCAA-TATG-TTTCTTAAATAATTTGCATGCAAAATA-TATTAATACACATATATAAAGTATCGA
194 -CAAGTATGCTTAC-CAAACAATTTGAATGCAAAA-AGTATTAATACACATACATAAAGTACCAA
* * * *
155177 GATTTATAATTTCGAAAA-CTATTACTTTAAAGTAATAGTTTAATTTACAATGAAAACAGTAAAA
256 GACTTAGAATTTC-AAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAAACAGTAAAA
*
155241 GTCTACCGGTATAATGATAA
320 GTCTACAGGTATAATGATAA
155261 ATATCATCAT
Statistics
Matches: 291, Mismatches: 42, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
379 4 0.01
380 275 0.95
381 12 0.04
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (380 bp):
CGATACTTTTAATCCAGTATGCTTCTCAAACAACTTGCACACAACAAAGAATCGACACCAATAAA
TAAAGTATCGATACTAGGAATTTCAAAACCAATTACTTTAAAATAATAGGTAAATTTACAATGAA
AATGGTAAAAGTCTACCAGTATAATGATAATAGACATAAGCATCAAGTATCGATACTTTTATTCA
AGTATGCTTACCAAACAATTTGAATGCAAAAAGTATTAATACACATACATAAAGTACCAAGACTT
AGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGAAAACAGTAAAAGTCTAC
AGGTATAATGATAATGGGTGTAGACATAAAGTATTTGTACTGTTTATATCAGTAT
Found at i:156189 original size:226 final size:226
Alignment explanation
Indices: 155463--156192 Score: 973
Period size: 226 Copynumber: 3.2 Consensus size: 226
155453 AAACAAATCA
* * * * * * * *
155463 AGTAATTAACTTATTTTGTTACCGTCAGATTTTTAAGGCTACATCAACTTAAACTTTGGCAACAT
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTAGTAACAT
* * *
155528 TTTATGCGCTACCTAAAATGTTTATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTAT
66 TTTAGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTAT
* ** * * ** *
155593 CATTGGATTTTTAAGACCCCATCAA-CTTTAAACA-GGCACTACCTA-TATTGCATTATATAAGC
131 CGTCAGATTTATAAGGCCCCAT-AAGCTTTAAA-AGGGTGCTACCTATTA-TG--TTACATAAGC
* * * *
155655 GCTACTTGTTATGCTATTTTGGTTTATAATGTTTCT
191 GCTACCTGTTATGTTATTATGGTTGATAATGTTTCT
* * *
155691 AGTAATTAACCTATTTTGTTATCATCGGATTTCTAAGGCTCCATCTGCTTAAACTTTTGTAACAT
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTAGTAACAT
*
155756 TTTAGGCGCTACCTAATATGTTGATAATATTGAAAACAAATCAAGTAATTAACCTATTTTGTTAT
66 TTTAGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTAT
* * ** * * *
155821 CGTCATATTTCTAAGGCTTCATCAGCTTTAAAGGGGTGCTACCTATTACGTTACATAAGCGCTAC
131 CGTCAGATTTATAAGGCCCCATAAGCTTTAAAAGGGTGCTACCTATTATGTTACATAAGCGCTAC
155886 CTGTTATGTTATTATGGTTGATAATGTTTCT
196 CTGTTATGTTATTATGGTTGATAATGTTTCT
* *
155917 AGTAATTAACCTATTTTGTTATTG-CTGGATTTTTAAGGCTCCATCAGCTTAAACTTTAGTAACA
1 AGTAATTAACCTATTTTGTTATCGTC-GGATTTCTAAGGCTCCATCAGCTTAAACTTTAGTAACA
155981 TTTTAGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTA
65 TTTTAGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTA
* *
156046 TCGTCAGATTTATAAGGCCCCATAAGCTTTAAAAGGGTGCTATCTATTATGTTACATAAGTGCTA
130 TCGTCAGATTTATAAGGCCCCATAAGCTTTAAAAGGGTGCTACCTATTATGTTACATAAGCGCTA
*
156111 CCTGTTATGTTATTATGGTTGATAATGTTTCC
195 CCTGTTATGTTATTATGGTTGATAATGTTTCT
* * * * * *
156143 AGTAATTAACTTATTTTGTTGTTGTCGGATTCCTAAAGCCCCATCAGCTT
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTT
156193 TAAAAAGGAG
Statistics
Matches: 443, Mismatches: 54, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
225 1 0.00
226 291 0.66
227 2 0.00
228 147 0.33
229 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (226 bp):
AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTAGTAACAT
TTTAGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTAT
CGTCAGATTTATAAGGCCCCATAAGCTTTAAAAGGGTGCTACCTATTATGTTACATAAGCGCTAC
CTGTTATGTTATTATGGTTGATAATGTTTCT
Found at i:156197 original size:118 final size:118
Alignment explanation
Indices: 156025--156271 Score: 341
Period size: 118 Copynumber: 2.1 Consensus size: 118
156015 TAACAAATCA
* * * * *
156025 AGTAATTAACCTATTTTGTTATCGTCAGATTTATAAGGCCCCATAAGCTTTAAAAGGGTGCTATC
1 AGTAATTAACCTATTTTGTTATCGTCAGATTCATAAAGCCCCATAAGCTTTAAAAAGGAGATATC
* ** *
156090 TATTATGTTACATAAGTGCTACCTGTTATGTTATTATGGTTGATAATGTTTCC
66 TATTACGTTACATAAACGCTACCAGTTATGTTATTATGGTTGATAATGTTTCC
* * * * * * *
156143 AGTAATTAACTTATTTTGTTGTTGTCGGATTCCTAAAGCCCCATCAGCTTTAAAAAGGAGATGTC
1 AGTAATTAACCTATTTTGTTATCGTCAGATTCATAAAGCCCCATAAGCTTTAAAAAGGAGATATC
*
156208 TATTACGTTACATAAACGCTACCAGTTATGTTATTATGGTTGATAATGTTTCT
66 TATTACGTTACATAAACGCTACCAGTTATGTTATTATGGTTGATAATGTTTCC
156261 AGTAATTAACC
1 AGTAATTAACC
156272 GGTTATGTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (118 bp):
AGTAATTAACCTATTTTGTTATCGTCAGATTCATAAAGCCCCATAAGCTTTAAAAAGGAGATATC
TATTACGTTACATAAACGCTACCAGTTATGTTATTATGGTTGATAATGTTTCC
Found at i:157276 original size:30 final size:31
Alignment explanation
Indices: 157234--157303 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
157224 CTATTTCATT
157234 TTTTATTTTATTTCG-ATTTGCTTTTTTGTTA
1 TTTTATTTTATTTCGAATTTG-TTTTTTGTTA
* *
157265 TTTTA-TTTATTTTGAATTTGTTTTTTTTTA
1 TTTTATTTTATTTCGAATTTGTTTTTTGTTA
157295 TGTTT-TTTT
1 T-TTTATTTT
157304 GTTATATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.13, C:0.03, G:0.09, T:0.76
Consensus pattern (31 bp):
TTTTATTTTATTTCGAATTTGTTTTTTGTTA
Found at i:158073 original size:2 final size:2
Alignment explanation
Indices: 158066--158097 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
158056 AAAGATATTA
158066 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
158098 TTAAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158345 original size:14 final size:15
Alignment explanation
Indices: 158313--158345 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
158303 TACTAATAAT
*
158313 AATAAATATATTGAA
1 AATAAACATATTGAA
158328 AATAAACATATT-AA
1 AATAAACATATTGAA
158342 AATA
1 AATA
158346 TATTTAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (15 bp):
AATAAACATATTGAA
Found at i:159755 original size:3 final size:3
Alignment explanation
Indices: 159747--159805 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
159737 ATTAATTATT
*
159747 TAA TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA -AA CAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
159791 TAA TAAA TAA -AA TAA
1 TAA T-AA TAA TAA TAA
159806 ATGAAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
2 10 0.20
3 37 0.74
4 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:159773 original size:13 final size:13
Alignment explanation
Indices: 159749--159805 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
159739 TAATTATTTA
159749 ATAATAATAATAAT
1 ATAAT-ATAATAAT
159763 ATAATATAATAAT
1 ATAATATAATAAT
* * *
159776 AAAACAAAATAAT
1 ATAATATAATAAT
*
159789 AATAATA-AATAAA
1 -ATAATATAATAAT
159802 ATAA
1 ATAA
159806 ATGAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 4 0.11
13 23 0.64
14 9 0.25
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:159773 original size:19 final size:17
Alignment explanation
Indices: 159748--159801 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 17
159738 TTAATTATTT
159748 AATAATAATAATAATATA
1 AATAATAATAATAA-ATA
159766 ATATAATAATAA-AACA-A
1 A-ATAATAATAATAA-ATA
159783 AATAATAATAATAAATA
1 AATAATAATAATAAATA
159800 AA
1 AA
159802 ATAAATGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 11 0.34
17 7 0.22
18 4 0.12
19 10 0.31
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATAATAATAAATA
Found at i:160271 original size:124 final size:114
Alignment explanation
Indices: 160049--161121 Score: 1195
Period size: 112 Copynumber: 9.2 Consensus size: 114
160039 ATTCTTCTCT
** * *
160049 TTCAGATGAGTTCTTCTCATTATGAACACTTCTGGCAATGTTAATGCTGATCTATCTCATTCTGT
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGG-AA---AAATGCTG----ATC-CATCCTGT
* *
160114 GATAGAA-TCATGCAAAACGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
57 GAT-GAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* *
160172 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTCTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGG-AAAA---ATGCTGATCCA--T-C--CTG
* * * *
160237 TGAT-AGAGTGATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTC
56 TGATGA-ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* *
160296 TTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGAAAAATTGATGCTGATCTATCTCCTCCT-
1 TTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGG-AAAA---ATGCTGATCCA--TCCT-GTG
* * * *
160360 ATGATTGAGTCACGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
58 ATGA---ATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
**
160420 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAT--TGATCCATCGAGTGATGAATT
1 TTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGGAAAAATGCTGATCCATCCTGTGATGAATT
* * * *
160483 CAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCATTC
65 CAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
** * * *
160533 TTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG--CAATGTTGATCCATCGTGTGATGAATT
1 TTCAGATGAGTTCTTCTCATTATGAACT-TTTCTGGAAAAATGCTGATCCATCCTGTGATGAATT
* **
160596 CAAGAAAAATATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
65 CAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* ***
160646 TTCAGATGAGTTCTTCTCATTATGAACTCTTCTGG--AAATGCTGATCCATCGAATGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAATGCTGATCCATCCTGTGATGAATTC
**
160709 AAGCAAAATATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
66 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
***
160758 TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGG--AAATGCTGATCCATCAAATGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAATGCTGATCCATCCTGTGATGAATTC
*
160821 AAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
66 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* * ***
160870 TTCAGATGAGTTCTTCTCATTATGAACTCTTCTGG--AAATGCTAATCCATCGAATGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAATGCTGATCCATCCTGTGATGAATTC
** * *
160933 AAGCAAAATATTGAACAAGTTCTTCTCATCATGAACTTTTTCTTCCTTC
66 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* * ***
160982 TTCAGATGAGTTCTTCTCATTATGAACTCTTCTGG--AAATGCTAATCCATCGAATGATGAATTC
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAATGCTGATCCATCCTGTGATGAATTC
* * *
161045 AAGCAAAAAGTTGAACAAGTTATTCTCATTTTGAACTTCTTCTTCCTTC
66 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
*
161094 TTCAGGTGAGTTCTTCTCATTATGAACT
1 TTCAGATGAGTTCTTCTCATTATGAACT
161122 CTACCTGGAA
Statistics
Matches: 867, Mismatches: 64, Indels: 49
0.88 0.07 0.05
Matches are distributed among these distances:
111 3 0.00
112 424 0.49
113 168 0.19
114 1 0.00
115 1 0.00
116 6 0.01
118 6 0.01
119 1 0.00
120 5 0.01
121 6 0.01
122 3 0.00
123 34 0.04
124 209 0.24
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (114 bp):
TTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAATGCTGATCCATCCTGTGATGAATTC
AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
Found at i:161278 original size:76 final size:76
Alignment explanation
Indices: 161146--161327 Score: 283
Period size: 76 Copynumber: 2.4 Consensus size: 76
161136 TTTACGAAAA
* * * * * *
161146 AAACATTATGCACTGTAGGGCTTACAGCTGACCCAAAGGTTTTGAAAATATTAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGA
161211 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
161222 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGA
161287 AGGCTTTTTGG
66 AGGCTTTTTGG
*
161298 AAACATCATGCATTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
161328 TGAGAAATAG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 97 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:162182 original size:22 final size:22
Alignment explanation
Indices: 162157--162255 Score: 171
Period size: 22 Copynumber: 4.5 Consensus size: 22
162147 GATAAAGCTT
162157 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
162179 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
**
162201 TCATCTTTGAAGGGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
162223 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
162245 TCATCTTTGAA
1 TCATCTTTGAA
162256 GAATGTAGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:162719 original size:54 final size:54
Alignment explanation
Indices: 162630--162778 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 54
162620 GACTGGTTCG
* * * *
162630 TAAAACATTTGTCAATACATTCATCATCTCATGTGGTTTATGCTCAGATGCTAA
1 TAAAACATTTGACAACACATTCATCATCTCATGTGGCTTATGCACAGATGCTAA
* * * *
162684 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGATGC---
1 TAAAACATTTGACAACACATTCATCATCTCATGTGGCTTATGCACAGATGCTAA
* * *
162735 T-----ATTTGACAACACATTCATTATTTCATGTGACTTATGCACAGAT
1 TAAAACATTTGACAACACATTCATCATCTCATGTGGCTTATGCACAGAT
162779 TTATGGTCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
46 38 0.46
51 1 0.01
54 43 0.52
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCATCTCATGTGGCTTATGCACAGATGCTAA
Found at i:162774 original size:46 final size:46
Alignment explanation
Indices: 162690--162778 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
162680 CTAATAAAAC
* * * *
162690 ATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGATGCT
1 ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGATGCT
*
162736 ATTTGACAACACATTCATTATTTCATGTGACTTATGCACAGAT
1 ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGAT
162779 TTATGGTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (46 bp):
ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGATGCT
Found at i:164784 original size:114 final size:114
Alignment explanation
Indices: 164584--164803 Score: 377
Period size: 114 Copynumber: 1.9 Consensus size: 114
164574 GATCATAAAG
* * *
164584 TTCATCTTCCTAATCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
164649 ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
164698 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
164763 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTA
164804 CGAGAACGTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (114 bp):
TTCATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:166886 original size:15 final size:14
Alignment explanation
Indices: 166874--166920 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
166864 TTTTTTTTCC
*
166874 TTTTTTCTTTTTTT
1 TTTTTTCCTTTTTT
166888 CTTTTTTCCTTCTTTT
1 -TTTTTTCCTT-TTTT
*
166904 TTTCTT-CTTTTTT
1 TTTTTTCCTTTTTT
166917 TTTT
1 TTTT
166921 CAAGCATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 14 0.50
16 4 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCCTTTTTT
Found at i:166892 original size:23 final size:22
Alignment explanation
Indices: 166866--166916 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
166856 TGGTTCAATT
* *
166866 TTTTTTCCTTTTTTCTTTTTTTC
1 TTTTTTCCTTCTTT-TTTTCTTC
166889 TTTTTTCCTTCTTTTTTTCTTC
1 TTTTTTCCTTCTTTTTTTCTTC
166911 TTTTTT
1 TTTTTT
166917 TTTTCAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCCTTCTTTTTTTCTTC
Found at i:166908 original size:8 final size:8
Alignment explanation
Indices: 166865--166920 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 8
166855 TTGGTTCAAT
166865 TTTTTTTC
1 TTTTTTTC
*
166873 CTTTTTTC
1 TTTTTTTC
166881 TTTTTTTC
1 TTTTTTTC
166889 TTTTTTCCTTC
1 -TTTTT--TTC
166900 TTTTTTTC
1 TTTTTTTC
166908 TTCTTTTT-
1 TT-TTTTTC
166916 TTTTT
1 TTTTT
166921 CAAGCATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
7 3 0.07
8 21 0.50
9 10 0.24
10 5 0.12
11 3 0.07
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:166917 original size:11 final size:11
Alignment explanation
Indices: 166865--166917 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
166855 TTGGTTCAAT
*
166865 TTTTTTTCCTTT
1 TTTTTTT-CTTC
*
166877 TTTCTTTTTTTC
1 TTT-TTTTCTTC
*
166889 TTTTTTCCTTC
1 TTTTTTTCTTC
166900 TTTTTTTCTTC
1 TTTTTTTCTTC
166911 TTTTTTT
1 TTTTTTT
166918 TTTCAAGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 23 0.66
12 8 0.23
13 4 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:166917 original size:23 final size:24
Alignment explanation
Indices: 166865--166917 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
166855 TTGGTTCAAT
* *
166865 TTTTTTTCCTTTTTTCTTTTTTTC
1 TTTTTTTCCTTCTTTCTTTTCTTC
166889 -TTTTTTCCTTCTTT-TTTTCTTC
1 TTTTTTTCCTTCTTTCTTTTCTTC
166911 TTTTTTT
1 TTTTTTT
166918 TTTCAAGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTTCCTTCTTTCTTTTCTTC
Found at i:169706 original size:12 final size:12
Alignment explanation
Indices: 169686--169735 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
169676 TGGAAATATG
169686 CAAATGTAAATA
1 CAAATGTAAATA
* *
169698 CAAACGTAAAAATG
1 CAAATGT--AAATA
*
169712 CAAATGTAAATG
1 CAAATGTAAATA
169724 CAAATGTAAATA
1 CAAATGTAAATA
169736 TATGAATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (12 bp):
CAAATGTAAATA
Found at i:169716 original size:26 final size:26
Alignment explanation
Indices: 169683--169733 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
169673 TTATGGAAAT
169683 ATGCAAATGTAAATACAAACGTAAAA
1 ATGCAAATGTAAATACAAACGTAAAA
* *
169709 ATGCAAATGTAAATGCAAATGTAAA
1 ATGCAAATGTAAATACAAACGTAAA
169734 TATATGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.22
Consensus pattern (26 bp):
ATGCAAATGTAAATACAAACGTAAAA
Found at i:169743 original size:26 final size:25
Alignment explanation
Indices: 169687--169746 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
169677 GGAAATATGC
169687 AAATGTAAATACAAACGTAAAAATG
1 AAATGTAAATACAAACGTAAAAATG
* *
169712 CAAATGTAAATGCAAATGTAAATATATG
1 -AAATGTAAATACAAACGTAAA-A-ATG
169740 -AATGTAA
1 AAATGTAA
169747 CAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 26 0.87
27 1 0.03
28 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (25 bp):
AAATGTAAATACAAACGTAAAAATG
Found at i:169827 original size:7 final size:7
Alignment explanation
Indices: 169793--169834 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
169783 ATAAGAGTAT
169793 AAATGCA
1 AAATGCA
* *
169800 CAATGAA
1 AAATGCA
169807 AAATGCA
1 AAATGCA
169814 AAGATGCA
1 AA-ATGCA
169822 AAATGC-
1 AAATGCA
169828 AAATGCA
1 AAATGCA
169835 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:172178 original size:14 final size:15
Alignment explanation
Indices: 172146--172178 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
172136 TACTAATAAT
*
172146 AATAAATATATTGAA
1 AATAAACATATTGAA
172161 AATAAACATATT-AA
1 AATAAACATATTGAA
172175 AATA
1 AATA
172179 TATTTAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (15 bp):
AATAAACATATTGAA
Found at i:173527 original size:3 final size:3
Alignment explanation
Indices: 173519--173579 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
173509 ATTAATTATT
*
173519 TAA TAA TAA T-A TAA T-A TAA T-A TAA TAA TAA -AA CAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
173562 TAA TAA TAAA TAA -AA TAA
1 TAA TAA T-AA TAA TAA TAA
173580 ATGAAATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
2 12 0.24
3 36 0.71
4 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:173539 original size:13 final size:13
Alignment explanation
Indices: 173521--173579 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
173511 TAATTATTTA
173521 ATAATAATATAAT
1 ATAATAATATAAT
173534 ATAAT-ATAATAAT
1 ATAATAAT-ATAAT
* * *
173547 AAAACAAAATAAT
1 ATAATAATATAAT
173560 AATAATAATA-AAT
1 -ATAATAATATAAT
*
173573 AAAATAA
1 ATAATAA
173580 ATGAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
12 8 0.22
13 21 0.58
14 7 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:173545 original size:21 final size:21
Alignment explanation
Indices: 173519--173579 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
173509 ATTAATTATT
*
173519 TAATAATAATATAATATAAT-A
1 TAATAATAA-ATAAAATAATAA
*
173540 TAATAATAAAACAAAATAATAA
1 TAATAAT-AAATAAAATAATAA
173562 TAATAATAAATAAAATAA
1 TAATAATAAATAAAATAA
173580 ATGAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 25 0.71
22 10 0.29
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATAATAAATAAAATAATAA
Found at i:173579 original size:5 final size:5
Alignment explanation
Indices: 173523--173590 Score: 50
Period size: 5 Copynumber: 13.4 Consensus size: 5
173513 ATTATTTAAT
* * * *
173523 AATAA TATAA TATAA TATAA TAATAA AACAA AATAA TAATAA TAAT-A
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA -AATAA -AATAA
*
173570 AATAA AAT-A AATGA AATAA AA
1 AATAA AATAA AATAA AATAA AA
173591 ACTAGTGTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
4 7 0.13
5 34 0.63
6 13 0.24
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (5 bp):
AATAA
Found at i:175233 original size:20 final size:20
Alignment explanation
Indices: 175210--175286 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
175200 TACAAAAAAT
*
175210 AATAAAATATTAAATATAAA
1 AATAAAATAATAAATATAAA
175230 AATAAAATAATAAAT-TAAA
1 AATAAAATAATAAATATAAA
* *
175249 ATTAAAATATAAAAAATATAAA
1 AAT-AAA-ATAATAAATATAAA
175271 AGA-AAAATAATAAATA
1 A-ATAAAATAATAAATA
175287 GTGAATGATG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.12
20 26 0.54
21 11 0.23
22 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (20 bp):
AATAAAATAATAAATATAAA
Found at i:175248 original size:13 final size:12
Alignment explanation
Indices: 175210--175262 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
175200 TACAAAAAAT
175210 AATAAAATATTAA
1 AATAAAA-ATTAA
175223 ATATAAAAA-TAA
1 A-ATAAAAATTAA
175235 AATAATAAATTAA
1 AATAA-AAATTAA
*
175248 AATTAAAATATAA
1 AATAAAAAT-TAA
175261 AA
1 AA
175263 AATATAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 4 0.11
12 11 0.31
13 14 0.40
14 6 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAAAAATTAA
Found at i:175339 original size:2 final size:2
Alignment explanation
Indices: 175332--175387 Score: 60
Period size: 2 Copynumber: 27.0 Consensus size: 2
175322 AATAAAAATA
* *
175332 AT AT AT AT AT AT AT AT AT AT AT AA AT AC AT AT AT A- 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
175373 GAT AT GAT AT GAT AT
1 -AT AT -AT AT -AT AT
175388 GATACAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
1 1 0.02
2 39 0.85
3 6 0.13
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:175756 original size:6 final size:6
Alignment explanation
Indices: 175738--175771 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
175728 AAGAAAACAC
*
175738 AAAAAT -AAAAT AAAGAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
175772 GTGTTTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:178748 original size:131 final size:129
Alignment explanation
Indices: 178519--178887 Score: 470
Period size: 131 Copynumber: 2.8 Consensus size: 129
178509 ATATTTTTAA
* * * * *
178519 GAAAGAAAACGACAATATCTAATTATTTTCAATCGAGAATAAATGACATCTCATGCCTTAAAACA
1 GAAAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *** * **
178584 ACCATTTATTACTCCGATCGAAATGAGGGGATATCACTATTTCGTCTTAAAATTCAATATTGATT
66 GCCATTTATTACTCC-AACGAAA-CAAAAGATATTACTATTTAATCTTAAAATTCAATATTGATT
178649 C
129 C
* *
178650 GAAAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCATTGAAGCA
1 GAAAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
*
178715 GCCATTTATTACTCCAACGGAAACAATAAGATATTACTATTTAATCTTTAAATTCAATATTGATT
66 GCCATTTATTACTCCAAC-GAAACAA-AAGATATTACTATTTAATCTTAAAATTCAATATTGATT
178780 C
129 C
* * *
178781 -AAACAAAAACCATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTTAAGC
1 GAAA-GAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGC
* *
178845 AGTCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTT
65 AGCCATTTATTACTCCAA-CGAAA-CAAAAGATATTACTATTT
178888 TCAATATTAA
Statistics
Matches: 210, Mismatches: 23, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
130 6 0.03
131 201 0.96
132 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (129 bp):
GAAAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
GCCATTTATTACTCCAACGAAACAAAAGATATTACTATTTAATCTTAAAATTCAATATTGATTC
Found at i:179585 original size:51 final size:51
Alignment explanation
Indices: 179530--179627 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
179520 AGATAAAAAG
* *
179530 AAATAGCCAAATCCGAAATAGAAAGTAACTAAAATGCAGAAAATAAAGGAA
1 AAATAGCCAAATCAGAAATAAAAAGTAACTAAAATGCAGAAAATAAAGGAA
* * * * *
179581 AAATAGCTAAATCATAAATAAAAAGTGACTAAAATGCATAAATTAAA
1 AAATAGCCAAATCAGAAATAAAAAGTAACTAAAATGCAGAAAATAAA
179628 AATACATCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.18
Consensus pattern (51 bp):
AAATAGCCAAATCAGAAATAAAAAGTAACTAAAATGCAGAAAATAAAGGAA
Found at i:182403 original size:36 final size:37
Alignment explanation
Indices: 182345--182439 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 37
182335 TTATATATAT
***
182345 AAATATTTTCCAAAAACCTATATAATATATATTTTCAA
1 AAATATTTT-CAAAATTATATATAATATATATTTTCAA
* * * *
182383 AAGTATTTT-AAAATTATATATTATATATTTTTTTAA
1 AAATATTTTCAAAATTATATATAATATATATTTTCAA
*
182419 AAATGTTTTCAAAATTATATA
1 AAATATTTTCAAAATTATATA
182440 GTTTTCAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 28 0.60
37 11 0.23
38 8 0.17
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (37 bp):
AAATATTTTCAAAATTATATATAATATATATTTTCAA
Found at i:182445 original size:17 final size:17
Alignment explanation
Indices: 182423--182478 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
182413 TTTTAAAAAT
182423 GTTTTCAAAATTATATA
1 GTTTTCAAAATTATATA
182440 GTTTTC-AAA--A-AT-
1 GTTTTCAAAATTATATA
182452 GTTTTCAAAATTATATA
1 GTTTTCAAAATTATATA
182469 GTTTTCAAAA
1 GTTTTCAAAA
182479 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 1 0.03
15 1 0.03
16 5 0.15
17 16 0.47
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (17 bp):
GTTTTCAAAATTATATA
Found at i:182454 original size:29 final size:29
Alignment explanation
Indices: 182402--182497 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
182392 AAAATTATAT
* *
182402 ATTATATATTTTTTTAAAAATGTTTTCAAA
1 ATTATATA-GTTTTCAAAAATGTTTTCAAA
182432 ATTATATAGTTTTCAAAAATGTTTTCAAA
1 ATTATATAGTTTTCAAAAATGTTTTCAAA
* *
182461 ATTATATAGTTTTCAAAAATATTTTTAAA
1 ATTATATAGTTTTCAAAAATGTTTTCAAA
*
182490 ACTATATA
1 ATTATATA
182498 TTATATAAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 53 0.87
30 8 0.13
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (29 bp):
ATTATATAGTTTTCAAAAATGTTTTCAAA
Found at i:182501 original size:36 final size:34
Alignment explanation
Indices: 182461--182541 Score: 65
Period size: 36 Copynumber: 2.3 Consensus size: 34
182451 TGTTTTCAAA
*
182461 ATTATATAGTTTTCAAAAATATTTTTAAAACTATAT
1 ATTATATA-TTTTC-AAAATATTTTAAAAACTATAT
* * *
182497 ATTATATAAGCTTTCAAAATGA-TTTCAAATCTATAT
1 ATTATAT-A-TTTTCAAAAT-ATTTTAAAAACTATAT
*
182533 AATATATAT
1 ATTATATAT
182542 ATATGTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 1 0.03
36 30 0.79
37 7 0.18
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (34 bp):
ATTATATATTTTCAAAATATTTTAAAAACTATAT
Found at i:182548 original size:94 final size:93
Alignment explanation
Indices: 182370--182552 Score: 210
Period size: 94 Copynumber: 2.0 Consensus size: 93
182360 ACCTATATAA
* * *** *
182370 TATATATTTTCAAAAGTATTTTAAAATTATATATTATATATTTTTTTAAAAATGTTTTCAAAATT
1 TATATATTTTCAAAAATATTTTAAAACTATATATTATATATAGCTTTAAAAATGATTTCAAAATT
* *
182435 ATATAGTTTTCAAAAATGTTTTCAAAAT
66 ATATAATTATCAAAAATGTTTTCAAAAT
*
182463 TATATAGTTTTCAAAAATATTTTTAAAACTATATATTATATA-AGCTTTCAAAATGATTTC-AAA
1 TATATA-TTTTCAAAAATA-TTTTAAAACTATATATTATATATAGCTTTAAAAATGATTTCAAAA
* *
182526 TCTATATAATATAT-ATATATGTTTTCA
64 T-TATATAAT-TATCAAAAATGTTTTCA
182553 TTTTTTTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
93 10 0.13
94 42 0.56
95 23 0.31
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (93 bp):
TATATATTTTCAAAAATATTTTAAAACTATATATTATATATAGCTTTAAAAATGATTTCAAAATT
ATATAATTATCAAAAATGTTTTCAAAAT
Found at i:182551 original size:29 final size:29
Alignment explanation
Indices: 182519--182603 Score: 80
Period size: 31 Copynumber: 2.9 Consensus size: 29
182509 TTCAAAATGA
182519 TTTCAAATCTATATAATATATATATATGT
1 TTTCAAATCTATATAATATATATATATGT
** * * * *
182548 TTTCATTTTTTTTAAAACTATATATATTTGT
1 TTTCA-AATCTATATAA-TATATATATATGT
* *
182579 TTTGAAAACTATATAATATATATAT
1 TTTCAAATCTATATAATATATATAT
182604 TTACAAAAAT
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 14 0.34
30 11 0.27
31 16 0.39
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (29 bp):
TTTCAAATCTATATAATATATATATATGT
Found at i:182586 original size:22 final size:21
Alignment explanation
Indices: 182552--182593 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
182542 ATATGTTTTC
*
182552 ATTTTTTTTAAAACTATATAT
1 ATTTTTTTGAAAACTATATAT
182573 ATTTGTTTTGAAAACTATATA
1 ATTT-TTTTGAAAACTATATA
182594 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
ATTTTTTTGAAAACTATATAT
Found at i:182656 original size:36 final size:36
Alignment explanation
Indices: 182576--182824 Score: 313
Period size: 36 Copynumber: 6.8 Consensus size: 36
182566 TATATATATT
* * *
182576 TGTTTTGAAAACTATATAATATATATATTTACAAAAA
1 TGTTTTAAAAACTATATATTATATATATTTTC-AAAA
*
182613 TGTTTTAAAAACTATATATTATATTTATTTTCAAAA
1 TGTTTTAAAAACTATATATTATATATATTTTCAAAA
*
182649 TGTTTTAAAAACTATATATTATATTTATTTTCAAAA
1 TGTTTTAAAAACTATATATTATATATATTTTCAAAA
* * *
182685 TATTTAAAAAACTATATAATATATATATATTTCCAAAAA
1 TGTTTTAAAAACTATAT-AT-TATATATATTTTC-AAAA
*
182724 TGTTTTAAAAACTATATATTATATTTATTTTCAAAA
1 TGTTTTAAAAACTATATATTATATATATTTTCAAAA
* *
182760 TGTTTTAAAAACTATATAATATATAAATGCTTTCAAACA
1 TGTTTTAAAAACTATATATTATATATAT--TTTCAAA-A
*
182799 TGTTTTCAAAA-T-TATATTATATATAT
1 TGTTTTAAAAACTATATATTATATATAT
182825 ATATATATAT
Statistics
Matches: 188, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
36 84 0.45
37 53 0.28
38 21 0.11
39 30 0.16
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (36 bp):
TGTTTTAAAAACTATATATTATATATATTTTCAAAA
Found at i:182726 original size:111 final size:112
Alignment explanation
Indices: 182583--182828 Score: 372
Period size: 111 Copynumber: 2.2 Consensus size: 112
182573 ATTTGTTTTG
182583 AAAACTATATA-ATATATATATTTACAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAA
1 AAAACTATATATATATATATATTTACAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAA
* **
182647 AATGTTTTAAAAACTATATATTATATTTAT-TTTCAAA-ATATTTAA
66 AATGTTTTAAAAACTATATAATATATAAATCTTTCAAACATATTTAA
*
182692 AAAACTATATAATATATATATATTTCCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCA
1 AAAACTATAT-ATATATATATATTTACAAAAATGTTTTAAAAACTATATATTATATTTATTTTCA
* **
182757 AAATGTTTTAAAAACTATATAATATATAAATGCTTTCAAACATGTTTTC
65 AAATGTTTTAAAAACTATATAATATATAAAT-CTTTCAAACATATTTAA
*
182806 AAAATTATATTATATATATATAT
1 AAAACTATA-TATATATATATAT
182829 ATATATATAT
Statistics
Matches: 123, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
109 10 0.08
110 1 0.01
111 79 0.64
113 7 0.06
114 25 0.20
115 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (112 bp):
AAAACTATATATATATATATATTTACAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAA
AATGTTTTAAAAACTATATAATATATAAATCTTTCAAACATATTTAA
Found at i:182739 original size:75 final size:74
Alignment explanation
Indices: 182576--182820 Score: 327
Period size: 75 Copynumber: 3.3 Consensus size: 74
182566 TATATATATT
* * * * * *
182576 TGTTTTGAAAACTATATAATATATATATTTACAAAAATGTTTTAAAAACTATATATTATATTTAT
1 TGTTTTAAAAACTATATATTATATTTATTTTC-AAAATGTTTTAAAAACTATATAATATATATAT
182641 -TTTC-AAAA
65 ATTTCAAAAA
* *
182649 TGTTTTAAAAACTATATATTATATTTATTTTCAAAATATTTAAAAAACTATATAATATATATATA
1 TGTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATA
182714 TTTCCAAAAA
66 TTT-CAAAAA
*
182724 TGTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATAAATG
1 TGTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATAT-
* *
182789 CTTTCAAACA
65 ATTTCAAAAA
*
182799 TGTTTTCAAAA-T-TATATTATAT
1 TGTTTTAAAAACTATATATTATAT
182821 ATATATATAT
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
72 28 0.18
73 41 0.27
74 2 0.01
75 80 0.52
76 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (74 bp):
TGTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATA
TTTCAAAAA
Found at i:182823 original size:2 final size:2
Alignment explanation
Indices: 182811--182892 Score: 75
Period size: 2 Copynumber: 43.0 Consensus size: 2
182801 TTTTCAAAAT
*
182811 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
182850 AA TG T- TT TCA -A TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
182891 TA
1 TA
182893 AAATAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
1 5 0.07
2 63 0.93
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:182859 original size:53 final size:53
Alignment explanation
Indices: 182772--182892 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 53
182762 TTTTAAAAAC
* * *
182772 TATATA-ATATATAAATGCTTTCAAACATGTTTTCAAAATTATATTATATATATA
1 TATATATATATATATATGATTTCAAACATGTTTTCAAAA-TACA-TATATATATA
* *
182826 TATATATATATATATAT-ATTTTAAA-ATGTTTTCAATATACATATATATATA
1 TATATATATATATATATGATTTCAAACATGTTTTCAAAATACATATATATATA
182877 TATATATATATATATA
1 TATATATATATATATA
182893 AAATAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 26 0.43
52 3 0.05
53 11 0.18
54 12 0.20
55 9 0.15
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (53 bp):
TATATATATATATATATGATTTCAAACATGTTTTCAAAATACATATATATATA
Found at i:183940 original size:168 final size:168
Alignment explanation
Indices: 183494--184818 Score: 1913
Period size: 168 Copynumber: 7.9 Consensus size: 168
183484 GCTATACAGT
* * * *
183494 AAATGAGGTGCCTTGGAGCTGAGCGTAGTCGAACTCTAAGGTCTTTGATTGGCAAATAACCCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-TTGGCAGATAACCCTTC
* *
183559 TAGCCTTGAGTTATGCTG-AAATGATGTGCCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTT
65 TAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
* * * *
183623 TGGTTCGCATATAACCTTTCTCGACTTAAGCTATGCTGT
130 TGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
*
183662 AAATGATGTGCCTTTGAGCTGAGC-TAGACGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * *
183726 AGCTTTGAATTATGCTGCAAATGATTTGCCCTCGAAGCTGAGTGTAATAGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* *
183791 GGTTGGTAGATAACCCTTCTCGACTTAAACTATGCTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* * * *
183829 AAATAATGTTCCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGTTGG-AAATTAACCCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGA-TAACCCTTC
* ** *
183893 TAGCCTTGAGTTATACTGCAAATGATGTAACCTTGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
65 TAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
183958 TGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
130 TGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
*
183997 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * *
184062 AGCCTTGAGTTATGCTACAAATTATGTACCATCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* *
184127 GGTTGGCAGATAACCCTTCTCGACTTAAGTTATGTTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* *
184165 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTATTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* *
184230 AGCCTTGAGTTATGCTGCAAATGATGTGACCTCGAAGTTGAGTGTAATCGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* * *
184295 GGTTGGAAGATAGA-CCTTCTCGACTTAAGTTATACTGC
131 GGTTGGCAGATA-ACCCTTCTCGACTTAAGCTATGCTGC
* * * *
184333 AAATGATGTGGCTTTGAGCTGAGCGTAGTCGAACTTGAAGGCCTTTATTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * *
184398 AACCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* * * *
184463 GGTTTGCAGATAGCCTTTCTCGAGTTAAGCTATGCTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* * * *
184501 AAATGATGTGCCTTTGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGTTGGTAGATAACTCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * * * *
184566 AGCCTTGAGTTATGTTGCAAATGATGGGCCCTCAAAGCTGAGTATAATTGAACTCGAAGGTATTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* ** *
184631 GGTTGGAAGATAACCCTTCTTAACTTAAGCTATGTTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* * *
184669 AAATGATGTGCCTTTGAGCTGAGCGTAGTCAAACTC-ATAGGTCTTTGTTGGTAGATAACTCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGA-AGGTCTTTGTTGGCAGATAACCCTTC
* * * * *
184733 TTGCCTTGAGTTATGCTGCAAATGATGTTCCCTCAAAGCTGAGTGTAATCAAACTCGAAAGTCTT
65 TAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
* *
184798 TTGTTGGCAGCTAACCCTTCT
130 TGGTTGGCAGATAACCCTTCT
184819 AGCCTTGAGT
Statistics
Matches: 1042, Mismatches: 108, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
166 32 0.03
167 120 0.12
168 887 0.85
169 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (168 bp):
AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
Found at i:186116 original size:95 final size:95
Alignment explanation
Indices: 185921--186183 Score: 307
Period size: 95 Copynumber: 2.7 Consensus size: 95
185911 GGCTAGTTGA
* * * ** * *
185921 ATCCATAAAGCTGGGGCGTTTGACCAATTGCTCTAGAGGGACAGCTTAA--TATCATTGTAGAGA
1 ATCCATAAAGCCGGGTCGTTTAACCAATTGCTCTAGAGGGACAAATCAAGCT-TTATTGT----A
185984 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
61 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
* *
186019 ATCCATAAAGCCGAGG-CGTTTAACCAATTTCTCTAGAGGGAGAAATCAAGCTTTATTGTATATT
1 ATCCATAAAGCCG-GGTCGTTTAACCAATTGCTCTAGAGGGACAAATCAAGCTTTATTGTATATT
*
186083 ATAATCACCTTTATCAGGCTAGCTGAATCTT
65 ATAATCACCTTTATCAGGCTAGCTGAATATT
** * **
186114 ATCCATAAAGTTGGGTCGTTTAACCAATTGCTTTAGAGGGACATCTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGTCGTTTAACCAATTGCTCTAGAGGGACAAATCAAGCTTTATTGTATAT-T
186179 ATAAT
65 ATAAT
186184 ATTATAATAT
Statistics
Matches: 144, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
94 2 0.01
95 88 0.61
96 6 0.04
98 39 0.27
99 8 0.06
100 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCCGGGTCGTTTAACCAATTGCTCTAGAGGGACAAATCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGCTGAATATT
Found at i:188936 original size:15 final size:15
Alignment explanation
Indices: 188916--188946 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
188906 GAATGATGAT
*
188916 AACAAAATTAAAAAG
1 AACAAAAATAAAAAG
188931 AACAAAAATAAAAAG
1 AACAAAAATAAAAAG
188946 A
1 A
188947 GTTAGTGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (15 bp):
AACAAAAATAAAAAG
Found at i:189266 original size:37 final size:37
Alignment explanation
Indices: 189213--189317 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
189203 CCTTTTCGTC
189213 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
189250 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
189287 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
189318 CCACAAACAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:189844 original size:22 final size:21
Alignment explanation
Indices: 189819--189859 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
189809 CATATATTTT
189819 TTATTTATTT-ATATTCATTTGG
1 TTATTT-TTTAATATT-ATTTGG
189841 TTATTTTTTAATATTATTT
1 TTATTTTTTAATATTATTT
189860 ATATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTTTTTAATATTATTTGG
Found at i:190203 original size:11 final size:10
Alignment explanation
Indices: 190186--190234 Score: 62
Period size: 10 Copynumber: 4.6 Consensus size: 10
190176 TAATATTTCA
190186 TTTATTTATT
1 TTTATTTATT
190196 TATTATTTATT
1 T-TTATTTATT
*
190207 TTTCCTTTTATT
1 TTT--ATTTATT
190219 TTTATTTATT
1 TTTATTTATT
190229 TTTATT
1 TTTATT
190235 CTTTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 15 0.44
11 10 0.29
12 9 0.26
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTATT
Found at i:190221 original size:6 final size:6
Alignment explanation
Indices: 190194--190244 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
190184 CATTTATTTA
**
190194 TTTATT ATTTATT TTTCCT TTTATT TTTA-- TTTATT TTTATT CTTTATT
1 TTTATT -TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT
190242 TTT
1 TTT
190245 TTCATTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.11
6 21 0.57
7 12 0.32
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:190243 original size:22 final size:22
Alignment explanation
Indices: 190190--190244 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
190180 ATTTCATTTA
*
190190 TTTATTTATTATTTATTTTTCCT
1 TTTATTT-TTATTTATTTTTACT
*
190213 TTTATTTTTATTTATTTTTATT
1 TTTATTTTTATTTATTTTTACT
190235 CTTTATTTTT
1 -TTTATTTTT
190245 TTCATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTATTTTTATTTATTTTTACT
Found at i:194679 original size:16 final size:16
Alignment explanation
Indices: 194656--194727 Score: 60
Period size: 16 Copynumber: 4.5 Consensus size: 16
194646 TCCAATCAAG
194656 AACAAAAAAG-AAAATA
1 AACAAAAAAGCAAAA-A
*
194672 AGCAAAAAAGCAAAAA
1 AACAAAAAAGCAAAAA
* *
194688 AACAAAAAAACAAAGA
1 AACAAAAAAGCAAAAA
*
194704 AA-AAAAGAG-AAACAA
1 AACAAAAAAGCAAA-AA
194719 TAACAAAAA
1 -AACAAAAA
194728 TCAAAAAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
14 3 0.07
15 6 0.14
16 27 0.61
17 8 0.18
ACGTcount: A:0.79, C:0.10, G:0.08, T:0.03
Consensus pattern (16 bp):
AACAAAAAAGCAAAAA
Found at i:194684 original size:8 final size:8
Alignment explanation
Indices: 194658--194701 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
194648 CAATCAAGAA
194658 CAAAAAAG
1 CAAAAAAG
194666 -AAAATAAG
1 CAAAA-AAG
194674 CAAAAAAG
1 CAAAAAAG
*
194682 CAAAAAAA
1 CAAAAAAG
*
194690 CAAAAAAA
1 CAAAAAAG
194698 CAAA
1 CAAA
194702 GAAAAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.80, C:0.11, G:0.07, T:0.02
Consensus pattern (8 bp):
CAAAAAAG
Found at i:196537 original size:106 final size:106
Alignment explanation
Indices: 196393--197754 Score: 1932
Period size: 106 Copynumber: 12.9 Consensus size: 106
196383 CAAGATAACA
* *
196393 CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
196458 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * *
196499 CAAGTTCAACTTCACGACGAAGGGACCGTTGATTGTCAATAAATAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
196564 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
196605 CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAACCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
196670 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAAAG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * * *
196711 CAAGTTCAAATTCACGACGAAGGGACCACTGGTTGTCAATAAATAATTTCCCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
** *
196776 ATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
196817 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
196882 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
196923 CAAGTTCAACTTAACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
196988 ATTTCAACTAT-ACAACGAAGGATATTGTACTCAAGACAACG
66 ATTTCAACT-TCACAACGAAGGATATTGGACTCCAGACAACG
197029 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * **
197094 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAAAA
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
197135 CAAGTTCAACTTCAC-ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
197199 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * *
197240 CAAGTTCAACTTCATGACGAAGAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGATCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
197305 ATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAATG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
197346 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * ** *
197411 ATTTCAACTTCACAGCGTAGGATATCGGACTTAAGACAGCG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * *
197452 CAAGTTCAACTTCACGACGAAGGAACCACTAGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
197517 ATTTCAACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACA
66 ATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACG
* * *** * ** *
197558 CAAGCTCAACTTCACGATGAAGGGGTGGCTGATTGTCAAC-AA-AA-TT--TTA-TTCAGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
197617 ATTTCAACTTCACAGCAAAGGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * ** *
197658 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGGTTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
197723 ATTTCAACTTCACGACGGAGGATATTGGACTC
66 ATTTCAACTTCACAACGAAGGATATTGGACTC
197755 AGAACAATTC
Statistics
Matches: 1123, Mismatches: 122, Indels: 22
0.89 0.10 0.02
Matches are distributed among these distances:
100 78 0.07
101 4 0.00
102 2 0.00
103 4 0.00
104 2 0.00
105 103 0.09
106 929 0.83
107 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
Found at i:198589 original size:37 final size:37
Alignment explanation
Indices: 198487--198591 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
198477 CCTTTTCATC
*
198487 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
198524 TTTCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
198561 CTACTATGATTTAAACTCCTGAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
198592 CCACAAACAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:199137 original size:2 final size:2
Alignment explanation
Indices: 199132--199165 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
199122 TATTATTATT
199132 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
199166 CTTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:199442 original size:2 final size:2
Alignment explanation
Indices: 199435--199460 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
199425 TATTTTACTC
199435 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
199461 TTAATATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:199478 original size:4 final size:4
Alignment explanation
Indices: 199465--199496 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
199455 ATATATTTAA
199465 TATT TCATT TATT TATT TATT TATT TATT TAT
1 TATT T-ATT TATT TATT TATT TATT TATT TAT
199497 ATTGCCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:200705 original size:2 final size:2
Alignment explanation
Indices: 200698--200751 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
200688 ATAAATTAAG
200698 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
200740 AT AT AT AT AT AT
1 AT AT AT AT AT AT
200752 TAATAAATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:200826 original size:11 final size:10
Alignment explanation
Indices: 200798--200831 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
200788 ATGTCAAAGG
200798 AAAAGAATAA
1 AAAAGAATAA
200808 AAAA-AATAA
1 AAAAGAATAA
200817 AAATAGAATAA
1 AAA-AGAATAA
200828 AAAA
1 AAAA
200832 TATATATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.36
10 6 0.27
11 8 0.36
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (10 bp):
AAAAGAATAA
Found at i:200885 original size:13 final size:15
Alignment explanation
Indices: 200824--200891 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
200814 TAAAAATAGA
*
200824 ATAAAAAATATATAT
1 ATAAAAAATATAAAT
*
200839 ATCAAAGAAA-ACAAA-
1 AT-AAA-AAATATAAAT
200854 A-AAAAAATATAAAT
1 ATAAAAAATATAAAT
* *
200868 ATAAAACATATAATT
1 ATAAAAAATATAAAT
*
200883 AAAAAAAAT
1 ATAAAAAAT
200892 GTAACAACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
12 3 0.07
13 7 0.17
14 1 0.02
15 21 0.51
16 6 0.15
17 3 0.07
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (15 bp):
ATAAAAAATATAAAT
Found at i:202062 original size:17 final size:17
Alignment explanation
Indices: 202036--202070 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
202026 AAATGAAAAT
* *
202036 AAAATTAATAAAGATAA
1 AAAATAAATAAAAATAA
202053 AAAATAAATAAAAATAA
1 AAAATAAATAAAAATAA
202070 A
1 A
202071 TAACTATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:202255 original size:38 final size:37
Alignment explanation
Indices: 202177--202336 Score: 169
Period size: 36 Copynumber: 4.5 Consensus size: 37
202167 TTTTCAAAAT
202177 TATATA-GTTTTCAAAAATGTTTTTAAAACTATAT-AT-
1 TATATATGTTTTC-AAAATG-TTTTAAAACTATATAATA
* *
202213 TATATATGCTTTCAAAATGATTTCAAAACTATATAATA
1 TATATATGTTTTCAAAATG-TTTTAAAACTATATAATA
* *
202251 TATATATGTTTTCAAAATGTTTT-TAA--A-A-ACTA
1 TATATATGTTTTCAAAATGTTTTAAAACTATATAATA
202283 TATATA--TTTTCAAAATGTTTTAAAAACTATATAATA
1 TATATATGTTTTCAAAATGTTTT-AAAACTATATAATA
*
202319 TATAAATGTTTTCAAAAT
1 TATATATGTTTTCAAAAT
202337 TATATATATT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
30 15 0.15
32 11 0.11
33 1 0.01
34 2 0.02
35 1 0.01
36 35 0.34
37 10 0.10
38 28 0.27
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (37 bp):
TATATATGTTTTCAAAATGTTTTAAAACTATATAATA
Done.