Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold380
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: 373714
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 15429 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:6006 original size:16 final size:17
Alignment explanation
Indices: 5968--5999 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5958 AAAGTTTAGG
5968 GGGGAATAAAAAGTTTT
1 GGGGAATAAAAAGTTTT
5985 GGGGAAT-AAAAGTTT
1 GGGGAATAAAAAGTTT
6000 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (17 bp):
GGGGAATAAAAAGTTTT
Found at i:7189 original size:21 final size:21
Alignment explanation
Indices: 7151--7190 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7141 TTTAAAAAAT
**
7151 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
7172 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
7191 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:7197 original size:22 final size:20
Alignment explanation
Indices: 7150--7204 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
7140 ATTTAAAAAA
* *
7150 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
7170 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
7193 TATTTATTAAAA
1 TATTT-TTAAAA
7205 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:10141 original size:25 final size:26
Alignment explanation
Indices: 10093--10146 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
10083 CATAATTGAA
* *
10093 ATGAAAGAGATTGATTTTGTATAT-T
1 ATGAAAGAGATTGATTATGAATATAT
* *
10118 ATGAAATATATTGATTATGAATATAT
1 ATGAAAGAGATTGATTATGAATATAT
10144 ATG
1 ATG
10147 TATTGAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.43
Consensus pattern (26 bp):
ATGAAAGAGATTGATTATGAATATAT
Found at i:15710 original size:3 final size:3
Alignment explanation
Indices: 15702--15779 Score: 147
Period size: 3 Copynumber: 26.0 Consensus size: 3
15692 TGTATTTTAT
15702 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
15750 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15780 GTGCATTAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16605 original size:25 final size:25
Alignment explanation
Indices: 16557--16605 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16547 CATAATTGAA
* * *
16557 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
16582 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
16606 ATATCTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:20362 original size:50 final size:49
Alignment explanation
Indices: 20257--20402 Score: 157
Period size: 50 Copynumber: 2.9 Consensus size: 49
20247 TTATTGAGGT
* * *
20257 TATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGC-ATGGCACCGA
* * * *
20307 GATGAGAGGTCCCCCACAAGACCATGTCTGGGACATGGCATGGACACCTA
1 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATGG-CACCGA
** * * *
20357 TATGAGAACTCCCATATAAGACCATATCTGGGATATGGCATTGGCA
1 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCA-TGGCA
20403 GTACAAGAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.04
50 73 0.92
51 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.21
Consensus pattern (49 bp):
TATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATGGCACCGA
Found at i:20431 original size:49 final size:49
Alignment explanation
Indices: 20366--20500 Score: 216
Period size: 49 Copynumber: 2.8 Consensus size: 49
20356 ATATGAGAAC
*
20366 TCCCATATAAGACCATATCTGGGATATGGCATTGGCAGTACAAGAAACA
1 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGAAACA
* *
20415 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAGGAAACA
1 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGAAACA
* * *
20464 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
20501 TGTTATTATC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGAAACA
Found at i:26879 original size:25 final size:26
Alignment explanation
Indices: 26851--26903 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
26841 GTATATTTGT
26851 TTCCATATAACTAATTCATAT-ACCA
1 TTCCATATAACTAATTCATATAACCA
* * *
26876 TTCCGTATATCTATTTCATATAACCA
1 TTCCATATAACTAATTCATATAACCA
26902 TT
1 TT
26904 TCATTTTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.42
Consensus pattern (26 bp):
TTCCATATAACTAATTCATATAACCA
Found at i:50480 original size:21 final size:21
Alignment explanation
Indices: 50456--50496 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
50446 ATCATGAATG
50456 AATTGATAGAAATAATAAAGA
1 AATTGATAGAAATAATAAAGA
50477 AATTGATAGAAATAATAAAG
1 AATTGATAGAAATAATAAAG
50497 TTAGTGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (21 bp):
AATTGATAGAAATAATAAAGA
Found at i:50504 original size:21 final size:21
Alignment explanation
Indices: 50459--50505 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
50449 ATGAATGAAT
*
50459 TGATAGAAATAATAAAGAAAT
1 TGATAGAAATAATAAAGAAAG
**
50480 TGATAGAAATAATAAAGTTAG
1 TGATAGAAATAATAAAGAAAG
50501 TGATA
1 TGATA
50506 TGGATTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (21 bp):
TGATAGAAATAATAAAGAAAG
Found at i:55116 original size:51 final size:50
Alignment explanation
Indices: 55061--55245 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
55051 CCAGTTCACA
* * *
55061 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATAGACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTAGACG
* * * *
55112 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGCACG-CA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTA-GACG
* * * *
55163 TAATAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTAGACG
*
55213 TAGTAGGCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
55246 TAGCAACTTC
Statistics
Matches: 109, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 40 0.37
51 65 0.60
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTAGACG
Found at i:55240 original size:101 final size:101
Alignment explanation
Indices: 55059--55243 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
55049 ACCCAGTTCA
* * * *
55059 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATAGACGTAGTAGCCTGCA
1 CATAATAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
55124 CATAGTACTACACACGTGATCGAAGCTATCCGGCACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGCACG
* *
55161 CATAATAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGGCTGCA
1 CATAATAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
55225 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
55244 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (101 bp):
CATAATAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGCACG
Found at i:64363 original size:17 final size:18
Alignment explanation
Indices: 64327--64363 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
64317 CTGGAGCTAA
64327 TTGAAATGAAGTAAAATTT
1 TTGAAATGAAGT-AAATTT
64346 TTGAAATGAAGT-AATTT
1 TTGAAATGAAGTAAATTT
64363 T
1 T
64364 CATTTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (18 bp):
TTGAAATGAAGTAAATTT
Found at i:65810 original size:17 final size:17
Alignment explanation
Indices: 65788--65822 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65778 TAGGTTATAA
65788 ATAAGCATGCACCTTCC
1 ATAAGCATGCACCTTCC
65805 ATAAGCATGCACCTTCC
1 ATAAGCATGCACCTTCC
65822 A
1 A
65823 ATTATTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.23
Consensus pattern (17 bp):
ATAAGCATGCACCTTCC
Found at i:74400 original size:11 final size:11
Alignment explanation
Indices: 74384--74408 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
74374 CTTGAAAGCT
74384 AAAATTCTTAC
1 AAAATTCTTAC
74395 AAAATTCTTAC
1 AAAATTCTTAC
74406 AAA
1 AAA
74409 CATAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTCTTAC
Found at i:75937 original size:45 final size:44
Alignment explanation
Indices: 75831--76422 Score: 303
Period size: 44 Copynumber: 13.6 Consensus size: 44
75821 GTTTTAATCC
* * ** * *
75831 GCTCCACTGCAACTTCAAGGAGATAGGATTAT-CGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-TGCATCTTCAGTCT
* *
75875 GCTCCACTGTAACTTCAGTGAGATAAGATTTGTCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTG-CATCTTCAGTCT
* *
75920 GCTCCACTGCAATTTCAGGGAGATAAGATTTGCTTACTT-AGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCAT-CTTCAGTCT
75964 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTG-CATCTTCAGTCT
* * *
76009 GC-CTCACTGCCACTTCA-GGAGAATAAGACTTG-A--TGC-GATCT
1 GCTC-CACTGCAACTTCAGGGAG-ATAAGATTTGCATCTTCAG-TCT
* * * * * * *
76050 GCT-CTCTGTAACTTCAGAGAGATAAGA--TCCAAGGT-TTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTGC-A--TCTTCAGTCT
* * * ** * **
76093 ACTCCACTGCAACTTCAGGAAGATAGGATTAT-CGGCTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-TGCATCTTCAGTCT
76137 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTG-CATCTTCAGTCT
* * *
76182 GC-CTCACTGCCACTTCA-GGAGAATAAGACTTG-A--TGC-GATCT
1 GCTC-CACTGCAACTTCAGGGAG-ATAAGATTTGCATCTTCAG-TCT
* * * * * * *
76223 GCT-CTCTGTAACTTCAGAGAGATAAGA--TCCAAGGT-TTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTGC-A--TCTTCAGTCT
* * * * **
76266 ACTCCACTGCAACTTCAGGAAGATAGGATTAT-CGA-CTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-TGC-ATCTTCAGTCT
*
76310 GCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTTG-CATCTTCAGTCT
* * *
76355 GC-CTCACTGCCACTTCA-GGAGAATAAGACTTG-A--TGC-GATCT
1 GCTC-CACTGCAACTTCAGGGAG-ATAAGATTTGCATCTTCAG-TCT
*
76396 GCT-CTCTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
76423 CTAGATGCGA
Statistics
Matches: 423, Mismatches: 78, Indels: 98
0.71 0.13 0.16
Matches are distributed among these distances:
38 2 0.00
40 54 0.13
41 31 0.07
43 16 0.04
44 186 0.44
45 129 0.30
46 3 0.01
47 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTTGCATCTTCAGTCT
Found at i:75943 original size:89 final size:87
Alignment explanation
Indices: 75831--76422 Score: 437
Period size: 89 Copynumber: 6.8 Consensus size: 87
75821 GTTTTAATCC
* * * *
75831 GCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAACTTCAGTGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAT--GCTTTAATCTGCTCCACTGCAACTTCAGGGA
*
75896 GATAAGATTTGTCATCTTCAGTCT
64 GATAAGATTTGCCATCTTCAGTCT
* *
75920 GCTCCACTGCAATTTCAGGGAGATAAGATT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATGC-T--TTAATCTGCTCCACTGCAACTTCAGGG
75984 AGATAAGATTTGCCATCTTCAGTCT
63 AGATAAGATTTGCCATCTTCAGTCT
* * * * *
76009 GC-CTCACTGCCACTTCA-GGAGAATAAGACTTGATGC---GATCTGCT-CTCTGTAACTTCAGA
1 GCTC-CACTGCAACTTCAGGGAG-ATAAGA-TT-ATGCTTTAATCTGCTCCACTGCAACTTCAGG
* * *
76068 GAGATAAGA--T-CCAAGGT-TTTAATCC
62 GAGATAAGATTTGCC-A--TCTTCAGTCT
* * * *
76093 ACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAT--GCTTTAATCTGCTCCACTGCAACTTCAGGGA
76158 GATAAGATTTGCCATCTTCAGTCT
64 GATAAGATTTGCCATCTTCAGTCT
* * * * *
76182 GC-CTCACTGCCACTTCA-GGAGAATAAGACTTGATGC---GATCTGCT-CTCTGTAACTTCAGA
1 GCTC-CACTGCAACTTCAGGGAG-ATAAGA-TT-ATGCTTTAATCTGCTCCACTGCAACTTCAGG
* * *
76241 GAGATAAGA--T-CCAAGGT-TTTAATCC
62 GAGATAAGATTTGCC-A--TCTTCAGTCT
* * * * *
76266 ACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCTCCACTACAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAT-G-CTTTAATCTGCTCCACTGCAACTTCAGGGA
76331 GATAAGATTTGCCATCTTCAGTCT
64 GATAAGATTTGCCATCTTCAGTCT
* * *
76355 GC-CTCACTGCCACTTCA-GGAGAATAAGACTTGATGC---GATCTGCT-CTCTGCAACTTCAGG
1 GCTC-CACTGCAACTTCAGGGAG-ATAAGA-TT-ATGCTTTAATCTGCTCCACTGCAACTTCAGG
76414 GAGATAAGA
62 GAGATAAGA
76423 CTAGATGCGA
Statistics
Matches: 395, Mismatches: 62, Indels: 96
0.71 0.11 0.17
Matches are distributed among these distances:
82 8 0.02
83 9 0.02
84 49 0.12
85 74 0.19
86 20 0.05
87 13 0.03
88 57 0.14
89 143 0.36
90 11 0.03
91 8 0.02
92 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (87 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTATGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTGCCATCTTCAGTCT
Found at i:76145 original size:173 final size:173
Alignment explanation
Indices: 75962--76422 Score: 886
Period size: 173 Copynumber: 2.7 Consensus size: 173
75952 CTTACTTAGT
75962 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
76027 GAGAATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
66 GAGAATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
*
76092 CACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAAC
131 CACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAAC
76135 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
76200 GAGAATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
66 GAGAATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
76265 CACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAAC
131 CACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAAC
*
76308 CTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
* *
76373 GAGAATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGGGAGATAAGA
66 GAGAATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGA
76423 CTAGATGCGA
Statistics
Matches: 284, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 284 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (173 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCCACTTCAG
GAGAATAAGACTTGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
CACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAAC
Found at i:76410 original size:40 final size:40
Alignment explanation
Indices: 76352--76462 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
76342 CCATCTTCAG
* * *
76352 TCTGCCTCACTGCCACTTCA-GGAGAATAAGACTTGATGCGA
1 TCTG-CTCTCTGCAACTTCAGGGAG-ATAAGACTAGATGCGA
76393 TCTGCTCTCTGCAACTTCAGGGAGATAAGACTAGATGCGA
1 TCTGCTCTCTGCAACTTCAGGGAGATAAGACTAGATGCGA
**
76433 TCTGCTCTCTGCAACTTCAAAGAGATAAGA
1 TCTGCTCTCTGCAACTTCAGGGAGATAAGA
76463 TCCAAGGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 56 0.88
41 8 0.12
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (40 bp):
TCTGCTCTCTGCAACTTCAGGGAGATAAGACTAGATGCGA
Found at i:86703 original size:22 final size:22
Alignment explanation
Indices: 86660--86703 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
86650 AAAACAGGCT
*
86660 TTTAGCGGCATTTTTTTATGCC
1 TTTAGCGGCATCTTTTTATGCC
86682 TTTAGCGGCA-CTTTTTAGTGCC
1 TTTAGCGGCATCTTTTTA-TGCC
86704 GCTAAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (22 bp):
TTTAGCGGCATCTTTTTATGCC
Found at i:86853 original size:43 final size:42
Alignment explanation
Indices: 86791--87037 Score: 230
Period size: 43 Copynumber: 5.8 Consensus size: 42
86781 TTTTAGACAT
* *
86791 AAACGCCGCTA-A-AAGTCATGACCTTTAGCGGCGATTCTCTCAC
1 AAACGCCGCTATAGAA--CATGACCTTTAGCGGC-ATTTTCCCAC
* *
86834 AAACGCCGCTATAGATCATGACTTTTAGCGGCATTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCA-TTTTCCCAC
* * * *
86877 AAATGCCACTATAGACCATGACTTTTAGCGACGC-TTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCG--GCATTTTCCCAC
* * * *
86920 AAACGTCACTATAGAACATGAGCTTTAGCGGCACTTTACCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCA-TTTTCCCAC
* * *
86963 AAACGCCGCTATAAAACATGATCTTTAGCGGCATTTTACCCAA
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCATTTT-CCCAC
* * * *
87006 AAACGCTGCTAAAGAGCATGATCTTTAGCGGC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGC
87038 GCTTTTATCA
Statistics
Matches: 173, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 163 0.94
44 1 0.01
45 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCATTTTCCCAC
Found at i:88298 original size:40 final size:40
Alignment explanation
Indices: 88243--88319 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
88233 AGATCAATAC
* * *
88243 TTCAATATTTAATATGTAAGGAATTATCAAAAATCAACAT
1 TTCAATATTTAATATGCAAGAAATTAACAAAAATCAACAT
*
88283 TTCAATAATTT-ATATGCAAGAAATTAACACAAATCAA
1 TTCAAT-ATTTAATATGCAAGAAATTAACAAAAATCAA
88320 TCTTACAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (40 bp):
TTCAATATTTAATATGCAAGAAATTAACAAAAATCAACAT
Found at i:88645 original size:87 final size:87
Alignment explanation
Indices: 88395--88673 Score: 382
Period size: 86 Copynumber: 3.2 Consensus size: 87
88385 TCAATAGGGA
* * * *
88395 TAAATCTTCAATTTCTATAACGATTTATATGCAACAAATTA-ACAAAAATCAATGGTTCAAGTTC
1 TAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGACAAAAATCAATGGTTCAAGTTC
* * *
88459 ATGTATTTACCAAAAATCAGAC
66 ATGCATTTACCAACAACCAGAC
* * *
88481 TAATTTTTCAATATTTATAACAACTTATATGCAACAAATTAG-CAAAAATAAATGGTTCAAGTTC
1 TAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGACAAAAATCAATGGTTCAAGTTC
88545 ATGCATTTACCAACAACCAGAC
66 ATGCATTTACCAACAACCAGAC
* * ***
88567 TAAATTTTCAATTTTTATAACAACTTATGTGCAACAAATTAGAAAAAAATCAACAATTCAAGTTC
1 TAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGACAAAAATCAATGGTTCAAGTTC
* *
88632 ATGCACTCACCAACAACCAGAC
66 ATGCATTTACCAACAACCAGAC
*
88654 TAAATTTTCAACTTTTATAA
1 TAAATTTTCAATTTTTATAA
88674 AGTAGAAGGA
Statistics
Matches: 170, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
86 114 0.67
87 56 0.33
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (87 bp):
TAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGACAAAAATCAATGGTTCAAGTTC
ATGCATTTACCAACAACCAGAC
Found at i:92453 original size:15 final size:16
Alignment explanation
Indices: 92429--92461 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
92419 TAGTTAATCT
*
92429 AAACCCTAAACCC-TA
1 AAACCATAAACCCATA
92444 AAACCATAAACCCATA
1 AAACCATAAACCCATA
92460 AA
1 AA
92462 CCCTTAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (16 bp):
AAACCATAAACCCATA
Found at i:92462 original size:8 final size:7
Alignment explanation
Indices: 92427--92465 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
92417 ACTAGTTAAT
92427 CTAAACC
1 CTAAACC
92434 CTAAACC
1 CTAAACC
92441 CTAAAACC
1 CT-AAACC
*
92449 ATAAACC
1 CTAAACC
92456 CATAAACC
1 C-TAAACC
92464 CT
1 CT
92466 TAACACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:92462 original size:15 final size:14
Alignment explanation
Indices: 92428--92606 Score: 67
Period size: 14 Copynumber: 12.4 Consensus size: 14
92418 CTAGTTAATC
*
92428 TAAACCCTAAACCC
1 TAAACCCTAAACCA
*
92442 TAAAACCATAAACCCA
1 T-AAACCCTAAA-CCA
*
92458 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
* **
92473 T-AACCTTTAAACTT
1 TAAACC-CTAAACCA
* ** **
92487 TAAACCCCAGTCTT
1 TAAACCCTAAACCA
*
92501 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
92515 TAAATCATAACCCA
1 TAAACCCTAAACCA
*
92529 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
92544 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
92556 TGGTAACACCTAAACCT
1 T--AAAC-CCTAAACCA
*
92573 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
92587 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
92601 AAAACC
1 TAAACC
92607 TTAACCTATA
Statistics
Matches: 119, Mismatches: 35, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
12 2 0.02
14 65 0.55
15 48 0.40
16 3 0.03
17 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:92513 original size:7 final size:7
Alignment explanation
Indices: 92501--92554 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
92491 CCCCAGTCTT
92501 TAAACCA
1 TAAACCA
92508 TAAACCA
1 TAAACCA
*
92515 TAAATCA
1 TAAACCA
*
92522 TAACCCA
1 TAAACCA
92529 TAAACCCA
1 TAAA-CCA
*
92537 TAATCCA
1 TAAACCA
*
92544 TAAACCT
1 TAAACCA
92551 TAAA
1 TAAA
92555 ATGGTAACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:92768 original size:30 final size:30
Alignment explanation
Indices: 92733--92795 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
92723 CTTTAAAATT
92733 TTTTTAA-ATAATAGTATTTTAAT-TTTTTCA
1 TTTTTAACA-AATA-TATTTTAATGTTTTTCA
* *
92763 TTTTTAACAAATATTTTTTTATGTTTTTCA
1 TTTTTAACAAATATATTTTAATGTTTTTCA
92793 TTT
1 TTT
92796 CAAATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 21 0.72
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTTTAACAAATATATTTTAATGTTTTTCA
Found at i:93027 original size:40 final size:41
Alignment explanation
Indices: 92983--93077 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
92973 GCACTTATTA
* * *
92983 AAAAATGCCACTAAA-AATAGAGCATTAGCGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACAGAGCATTAGCGGCGATTTTTT
** *
93022 CAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTT
1 -AAAAACGCCGCTAAAGAACAGAGCATTAGCGGCGATTTTTT
93064 AAAAACGCCGCTAA
1 AAAAACGCCGCTAA
93078 TGCCCTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 13 0.28
41 28 0.60
42 6 0.13
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAACAGAGCATTAGCGGCGATTTTTT
Found at i:93046 original size:41 final size:41
Alignment explanation
Indices: 93001--93082 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
92991 CACTAAAAAT
93001 AGAGCATTAGCGGC-ATTTTTTCAAAAACGCCGCTAAAGCCC
1 AGAGCATTAGCGGCGATTTTTT-AAAAACGCCGCTAAAGCCC
* *
93042 AGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAATGCCC
1 AGAGCATTAGCGGCGATTTTTTAAAAACGCCGCTAAAGCCC
93083 TGAAAAGCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 32 0.84
42 6 0.16
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
AGAGCATTAGCGGCGATTTTTTAAAAACGCCGCTAAAGCCC
Found at i:93368 original size:110 final size:111
Alignment explanation
Indices: 93223--93445 Score: 421
Period size: 110 Copynumber: 2.0 Consensus size: 111
93213 CTAGAAGCCC
*
93223 CGCTAATGCTCGATTTTTAGCGGCGTTTTTTGTCCAAACGCCGCTAAAAATGCCGCTAAAAACCT
1 CGCTAATGCTC-ATTTTTAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAATGCCGCTAAAAACCT
93288 GTTTTGCTATAGTGACATTATATATTCACACGCGACAACAACTCAAT
65 GTTTTGCTATAGTGACATTATATATTCACACGCGACAACAACTCAAT
93335 CGCTAATGCTC-TTTTTAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAATGCCGCTAAAAACCTG
1 CGCTAATGCTCATTTTTAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAATGCCGCTAAAAACCTG
93399 TTTTGCTATAGTGACATTATATATTCACACGCGACAACAACTCAAT
66 TTTTGCTATAGTGACATTATATATTCACACGCGACAACAACTCAAT
93445 C
1 C
93446 ATTCATTAAC
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
110 99 0.90
112 11 0.10
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (111 bp):
CGCTAATGCTCATTTTTAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAATGCCGCTAAAAACCTG
TTTTGCTATAGTGACATTATATATTCACACGCGACAACAACTCAAT
Found at i:94936 original size:10 final size:10
Alignment explanation
Indices: 94923--94949 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
94913 CTGTATTAAC
94923 CACATATAAG
1 CACATATAAG
94933 CACATATAAG
1 CACATATAAG
94943 CACATAT
1 CACATAT
94950 GATCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (10 bp):
CACATATAAG
Found at i:98644 original size:20 final size:20
Alignment explanation
Indices: 98619--98661 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
98609 AAAAGAAACG
98619 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
98639 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
98659 AAA
1 AAA
98662 ATAAGAGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:103729 original size:19 final size:19
Alignment explanation
Indices: 103671--103730 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
103661 ACTTATAAAA
*
103671 TTATATCGATACCTATTTT
1 TTATATCGATACCAATTTT
* **
103690 TT-TATCGGTACCCAA-AAT
1 TTATATCGATA-CCAATTTT
103708 TTATATCGATACCAATTTT
1 TTATATCGATACCAATTTT
103727 TTAT
1 TTAT
103731 TTTGTTTTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (19 bp):
TTATATCGATACCAATTTT
Found at i:105334 original size:81 final size:81
Alignment explanation
Indices: 105058--105364 Score: 345
Period size: 81 Copynumber: 3.8 Consensus size: 81
105048 GGTATAATAG
* * * *
105058 TCATTTTACCCTATGGAGGGTATTTCAGTGATTTTACCCTATG-GAGGTATTTCAGTCATTCTAC
1 TCATTCTACCCTAT-GAGGGTATTTCAGTCATTCTACCCTATGAG-GGTATTTCAGTCATTTTAC
*
105122 CCTATAGGGGTATTTCGA
64 CCTATGGGGGTATTTCGA
* * * * *
105140 TTATTTTACCCTACG-GGGTTATTTC-GATCATTCTACCCTAT-AGGGTATTTCGGTCATTTTAT
1 TCATTCTACCCTATGAGGG-TATTTCAG-TCATTCTACCCTATGAGGGTATTTCAGTCATTTTAC
105202 CCTATGGGGGTATTTCGA
64 CCTATGGGGGTATTTCGA
* * *
105220 TCATTCTATCCTATGAGGGTATTTCAGTCATTCTACTCTATGAGGGTCTTTCAGTCATTTTACCC
1 TCATTCTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACCC
* *
105285 TGTGGGGGTATTTCGG
66 TATGGGGGTATTTCGA
* * * * **
105301 TCATTCTACCCTATGAGGGTATTGT-GGTTATTCTACCATATGGGGGTATTTTGGTCATTTTACC
1 TCATTCTACCCTATGAGGGTATT-TCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
105365 TATTTTGGGG
Statistics
Matches: 191, Mismatches: 27, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
80 67 0.35
81 111 0.58
82 13 0.07
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (81 bp):
TCATTCTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACCC
TATGGGGGTATTTCGA
Found at i:105355 original size:27 final size:27
Alignment explanation
Indices: 105057--105364 Score: 305
Period size: 27 Copynumber: 11.4 Consensus size: 27
105047 GGGTATAATA
* *
105057 GTCATTTTACCCTATGGAGGGTATTTCA
1 GTCATTCTACCCTATGG-GGGTATTTCG
* * * *
105085 GTGATTTTACCCTATGGAGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
*
105112 GTCATTCTACCCTATAGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * * *
105139 ATTATTTTACCCTACGGGGTTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
105166 ATCATTCTACCCTAT-AGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
105192 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * *
105219 ATCATTCTATCCTATGAGGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * *
105246 GTCATTCTACTCTATGAGGGTCTTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
105273 GTCATTTTACCCTGTGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
105300 GTCATTCTACCCTATGAGGGTATTGT-G
1 GTCATTCTACCCTATGGGGGTATT-TCG
* * *
105327 GTTATTCTACCATATGGGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
105354 GTCATTTTACC
1 GTCATTCTACC
105365 TATTTTGGGG
Statistics
Matches: 233, Mismatches: 44, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
26 22 0.09
27 194 0.83
28 17 0.07
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTCTACCCTATGGGGGTATTTCG
Found at i:107320 original size:12 final size:12
Alignment explanation
Indices: 107303--107327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107293 ATGATGCACG
107303 CTTGGAAATGAA
1 CTTGGAAATGAA
107315 CTTGGAAATGAA
1 CTTGGAAATGAA
107327 C
1 C
107328 AACCCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (12 bp):
CTTGGAAATGAA
Found at i:109090 original size:6 final size:6
Alignment explanation
Indices: 109079--109158 Score: 63
Period size: 6 Copynumber: 13.5 Consensus size: 6
109069 GATATATAAA
* * * * *
109079 TTTTAT TTTTAT CTTTA- TTTTAA ATTTAT TTTTAT TTTCAT CTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * *
109126 CTTTAT CTTTAA TTTTAA TTTTAT TCTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
109159 ATTAGGGTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
5 4 0.07
6 56 0.93
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAT
Found at i:109097 original size:12 final size:11
Alignment explanation
Indices: 109078--109158 Score: 72
Period size: 12 Copynumber: 6.9 Consensus size: 11
109068 AGATATATAA
109078 ATTTTATTTTT
1 ATTTTATTTTT
*
109089 ATCTTTATTTTA
1 AT-TTTATTTTT
*
109101 AATTTATTTTT
1 ATTTTATTTTT
*
109112 ATTTTCATCTTT
1 ATTTT-ATTTTT
*
109124 ATCTTTATCTTTA
1 AT-TTTAT-TTTT
*
109137 ATTTTAATTTT
1 ATTTTATTTTT
109148 ATTCTTATTTT
1 ATT-TTATTTT
109159 ATTAGGGTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
11 20 0.36
12 28 0.51
13 7 0.13
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:109131 original size:41 final size:42
Alignment explanation
Indices: 109080--109158 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
109070 ATATATAAAT
* *
109080 TTTATTTTTATCTTT-ATTTTAAATTTATTTTTATTTTCATC
1 TTTATCTTTATCTTTAATTTTAAATTTATTCTTATTTTCATC
*
109121 TTTATCTTTATCTTTAATTTTAATTTTATTCTTATTTT
1 TTTATCTTTATCTTTAATTTTAAATTTATTCTTATTTT
109159 ATTAGGGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 14 0.41
42 20 0.59
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (42 bp):
TTTATCTTTATCTTTAATTTTAAATTTATTCTTATTTTCATC
Found at i:109160 original size:35 final size:34
Alignment explanation
Indices: 109085--109160 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 34
109075 TAAATTTTAT
*
109085 TTTTATCTTTATTTTAAATTTATTTTTATTTTCA
1 TTTTATCTTTATTTTAAATTTAATTTTATTTTCA
*
109119 TCTTTATCTTTATCTTTAATTTTAATTTTATTCTT-A
1 T-TTTATCTTTAT-TTTAAATTTAATTTTATT-TTCA
109155 TTTTAT
1 TTTTAT
109161 TAGGGTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
34 1 0.03
35 16 0.43
36 18 0.49
37 2 0.05
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (34 bp):
TTTTATCTTTATTTTAAATTTAATTTTATTTTCA
Found at i:111586 original size:43 final size:43
Alignment explanation
Indices: 111492--111679 Score: 220
Period size: 43 Copynumber: 4.3 Consensus size: 43
111482 TTTTTCCCCT
* *
111492 AAAACGCCGC-AATAGACCCTGATCTATAGCGGCG-TTTCGACCA
1 AAAACGCCGCTAA-AGACCATGATCTTTAGCGGCGCTTTC-ACCA
* * * *
111535 CAAAACGCCACTAAAGAACC-TAATCTTTAGCAGCGCTTTCCCCA
1 -AAAACGCCGCTAAAG-ACCATGATCTTTAGCGGCGCTTTCACCA
**
111579 AAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCA
1 AAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCA
* *
111622 CAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTGACCA
1 AAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCA
*
111665 AAAACGCCACTAAAG
1 AAAACGCCGCTAAAG
111680 GCCAACACCT
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
42 3 0.02
43 87 0.70
44 26 0.21
45 9 0.07
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (43 bp):
AAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCA
Found at i:111692 original size:43 final size:43
Alignment explanation
Indices: 111512--111698 Score: 189
Period size: 43 Copynumber: 4.3 Consensus size: 43
111502 AATAGACCCT
* *
111512 GATCTATAGCGGCG-TTTCGACCACAAAACGCCACTAAAGAACCTA
1 GATCTTTAGCGGCGCTTT-GACCA-AAAACGCCACTAAAG-ACCAA
* ** * *
111557 -ATCTTTAGCAGCGCTTTCCCCAAAAACGCCGCTAAAGACCAT
1 GATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
** * * *
111599 GATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAT
1 GATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
*
111642 GATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGCCAA
1 GATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* * *
111685 CACCTTTAGTGGCG
1 GATCTTTAGCGGCG
111699 TTTTTTTTAA
Statistics
Matches: 120, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.03
43 100 0.83
44 14 0.12
45 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
GATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:111692 original size:86 final size:87
Alignment explanation
Indices: 111532--111720 Score: 215
Period size: 86 Copynumber: 2.2 Consensus size: 87
111522 GGCGTTTCGA
* *
111532 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCAGCGCTTTCCCCAAAAACGCCGCTAAAGACC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCAGCGCTTTCACCAAAAACGCCACTAAAGACC
** *
111597 ATGATCTTTAGCGGCGCTTTTT
66 AACACCTTTAGCGGCGCTTTTT
* * * * *
111619 CCAC-AAACGCCGCTAAAG-ACCATGATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGC
1 CCACAAAACGCCACTAAAGAACC-TAATCTTTAGCAGCGCTTTCACCAAAAACGCCACTAAAGAC
*
111682 CAACACCTTTAGTGGCG-TTTTT
65 CAACACCTTTAGCGGCGCTTTTT
***
111704 -TTTAAAACGCCACTAAA
1 CCACAAAACGCCACTAAA
111721 TTTGGCAGAT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
85 20 0.24
86 61 0.72
87 4 0.05
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (87 bp):
CCACAAAACGCCACTAAAGAACCTAATCTTTAGCAGCGCTTTCACCAAAAACGCCACTAAAGACC
AACACCTTTAGCGGCGCTTTTT
Found at i:112049 original size:21 final size:21
Alignment explanation
Indices: 112023--112134 Score: 134
Period size: 21 Copynumber: 5.3 Consensus size: 21
112013 TTTGACGCTG
112023 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
112044 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
112065 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
112086 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
112107 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
112128 ATCTGCT
1 CTCTGCT
112135 CTAAGCTGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:112205 original size:65 final size:66
Alignment explanation
Indices: 112106--112251 Score: 224
Period size: 65 Copynumber: 2.2 Consensus size: 66
112096 CTCGCTGCCG
* * *
112106 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGTTGCTGGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTG
112170 AA
65 AA
* *
112172 CCTCAGCTTCTCTCGCTGCTG-ATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGA
112236 A
66 A
112237 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
112252 ATGTTGCCTC
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 52 0.70
66 22 0.30
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:113192 original size:43 final size:43
Alignment explanation
Indices: 113131--113276 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
113121 NNNNNNNNGA
*
113131 CCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCC
1 CCACAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCC
* * * **
113174 CCACAAACGCCGCGAAAG-ACCATGATCTTTAGGGGCGCTTTTT
1 CCACAAACGCCGCTAAAGAACC-TAATCTTTAGCGGCGCTTTCC
* **
113217 CCACAAACGCCGCTAAAGAACCTTATCTTTAGCGGCGCTTTTA
1 CCACAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCC
* *
113260 CCAAAAACGCCACTAAA
1 CCACAAACGCCGCTAAA
113277 TTTGGCAGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.03
43 83 0.93
44 3 0.03
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (43 bp):
CCACAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCC
Found at i:113622 original size:21 final size:21
Alignment explanation
Indices: 113596--113707 Score: 91
Period size: 21 Copynumber: 5.3 Consensus size: 21
113586 TTGACGCTGT
*
113596 TCTGCTTCCCTCACTGCAGCA
1 TCTGCTTCCCTCACTGCAGCC
* **
113617 TCTGCTTCCCTCGCTTTAGCC
1 TCTGCTTCCCTCACTGCAGCC
*
113638 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCACTGCAGCC
* * * *
113659 TGTACTTCTCT-AGCTGCCGCC
1 TCTGCTTCCCTCA-CTGCAGCC
* * * *
113680 TCTGCTTCTCTTACTGCCGCA
1 TCTGCTTCCCTCACTGCAGCC
113701 TCTGCTT
1 TCTGCTT
113708 TAAGCTGCTG
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
21 74 0.99
22 1 0.01
ACGTcount: A:0.08, C:0.41, G:0.16, T:0.35
Consensus pattern (21 bp):
TCTGCTTCCCTCACTGCAGCC
Found at i:113824 original size:66 final size:65
Alignment explanation
Indices: 113678--113848 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
113668 CTAGCTGCCG
* ** * *
113678 CCTCTGCTTCTCTTACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGA
113743 A
65 A
* *
113744 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTG
113808 AA
64 AA
* * * *
113810 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTG
113849 TAATTTGCTC
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAA
Found at i:123952 original size:47 final size:47
Alignment explanation
Indices: 123864--123955 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
123854 GTTAATTTCG
* **
123864 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
123911 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
123956 TATTTATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:124003 original size:10 final size:9
Alignment explanation
Indices: 123988--124021 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
123978 TATTTTTTGT
*
123988 AATTTTGAC
1 AATTTTTAC
123997 AATTTTTTAC
1 AA-TTTTTAC
124007 AATTTTTAC
1 AATTTTTAC
124016 AATTTT
1 AATTTT
124022 AAATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (9 bp):
AATTTTTAC
Found at i:124236 original size:96 final size:96
Alignment explanation
Indices: 124118--124302 Score: 237
Period size: 96 Copynumber: 1.9 Consensus size: 96
124108 TATAAAGAAC
* * * ** * * * *
124118 TTATTTAATATGTTAATTAAAAAGTACTAATTAATCCAAATCTTAATCCCTAACCCGA-CTCCAA
1 TTATTTAATATATAAAATAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCAATC-CCAA
*
124182 ATCCATAACCCCTAACCCCTAACCCCTAAACT
65 ACCCATAACCCCTAACCCCTAACCCCTAAACT
* *
124214 TTATTTAATATATAAAATAAAAAACACTAATTAATCTAAACCTTAAACCATAACCCAATCCCTAA
1 TTATTTAATATATAAAATAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCAATCCCAAA
*
124279 CCCCTAACCCCTAACCCCTAACCC
66 CCCATAACCCCTAACCCCTAACCC
124303 TTAACCCCTA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
96 74 0.99
97 1 0.01
ACGTcount: A:0.41, C:0.30, G:0.02, T:0.27
Consensus pattern (96 bp):
TTATTTAATATATAAAATAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCAATCCCAAA
CCCATAACCCCTAACCCCTAACCCCTAAACT
Found at i:124285 original size:7 final size:7
Alignment explanation
Indices: 124273--124376 Score: 111
Period size: 7 Copynumber: 14.9 Consensus size: 7
124263 ATAACCCAAT
124273 CCCTAAC
1 CCCTAAC
124280 CCCTAAC
1 CCCTAAC
124287 CCCTAAC
1 CCCTAAC
124294 CCCTAAC
1 CCCTAAC
*
124301 CCTTAAC
1 CCCTAAC
124308 CCCTAAC
1 CCCTAAC
*
124315 CCTTAAC
1 CCCTAAC
*
124322 CCTTAAC
1 CCCTAAC
*
124329 CCTTAA-
1 CCCTAAC
124335 CCCTAAAC
1 CCCT-AAC
*
124343 CCTTAAC
1 CCCTAAC
* **
124350 CCATGGC
1 CCCTAAC
*
124357 CTCTAAC
1 CCCTAAC
124364 CCCTAAC
1 CCCTAAC
124371 CCCTAA
1 CCCTAA
124377 AACTTATTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
6 3 0.04
7 76 0.93
8 3 0.04
ACGTcount: A:0.29, C:0.49, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:124492 original size:12 final size:12
Alignment explanation
Indices: 124475--124499 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
124465 CTCTTAACAT
124475 CTAACCCCTAAC
1 CTAACCCCTAAC
124487 CTAACCCCTAAC
1 CTAACCCCTAAC
124499 C
1 C
124500 CNNNNNNNNN
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:130228 original size:26 final size:26
Alignment explanation
Indices: 130191--130253 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
130181 ACATATTTTC
* * *
130191 TCAAAATCTTACTAGTGGAAAAATCT
1 TCAAAATTTTACTAATGGAAAAATCA
*
130217 TCAAAATTTTACTAATGGTAAAATCA
1 TCAAAATTTTACTAATGGAAAAATCA
*
130243 TCCAAATTTTA
1 TCAAAATTTTA
130254 TTGGGGGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACTAATGGAAAAATCA
Found at i:132761 original size:27 final size:27
Alignment explanation
Indices: 132731--132793 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
132721 ATCCTAGCTC
132731 GCCAAACAGACTAGAAAACCACACCTT
1 GCCAAACAGACTAGAAAACCACACCTT
* ** * *
132758 GCCAAACAGACTTGTGAACCCCAGCTT
1 GCCAAACAGACTAGAAAACCACACCTT
132785 GCCAAACAG
1 GCCAAACAG
132794 GTTGACAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.33, G:0.16, T:0.13
Consensus pattern (27 bp):
GCCAAACAGACTAGAAAACCACACCTT
Found at i:149948 original size:43 final size:43
Alignment explanation
Indices: 149860--149961 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
149850 AGATACAAGG
* * ***
149860 GACACACGGCCGTGTCACCTGGCCGTGTGTCACACATGGCAGA
1 GACACACGACCGTGTCACATGGCCGTGTGTCACACAAAACAGA
* * * *
149903 GACATACGACCGTGTCACATGGTCGTGTGTCACGCAAAACTGA
1 GACACACGACCGTGTCACATGGCCGTGTGTCACACAAAACAGA
149946 GACACACG-CTCGTGTC
1 GACACACGAC-CGTGTC
149962 CAAGCCAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (43 bp):
GACACACGACCGTGTCACATGGCCGTGTGTCACACAAAACAGA
Found at i:159162 original size:27 final size:27
Alignment explanation
Indices: 159131--159219 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
159121 GGGCATTCCA
*
159131 TTTCATTTCATGATTTGCCACAAAGGC
1 TTTCATTTCATGATTCGCCACAAAGGC
* *
159158 TTTCATTCCATGATTCGCCCCAAAGGC
1 TTTCATTTCATGATTCGCCACAAAGGC
* **
159185 TTTCATTTCATTATTCATCACAAAGGC
1 TTTCATTTCATGATTCGCCACAAAGGC
*
159212 TTCCATTT
1 TTTCATTT
159220 TATTTCATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (27 bp):
TTTCATTTCATGATTCGCCACAAAGGC
Found at i:164026 original size:3 final size:3
Alignment explanation
Indices: 164020--164049 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
164010 AGAAAAAGAA
164020 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
164050 AACAAACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:167196 original size:12 final size:12
Alignment explanation
Indices: 167174--167202 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
167164 TTGAGCAAAG
167174 AATGA-ATTTAA
1 AATGATATTTAA
167185 AATGATATTTAA
1 AATGATATTTAA
167197 AATGAT
1 AATGAT
167203 TTAATAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (12 bp):
AATGATATTTAA
Found at i:167206 original size:10 final size:11
Alignment explanation
Indices: 167174--167206 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
167164 TTGAGCAAAG
167174 AATGAATTTAA
1 AATGAATTTAA
167185 AATGATATTTAA
1 AATGA-ATTTAA
167197 AATG-ATTTAA
1 AATGAATTTAA
167207 TAAAAGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 5 0.24
12 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (11 bp):
AATGAATTTAA
Found at i:169227 original size:13 final size:13
Alignment explanation
Indices: 169209--169252 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
169199 AAGATTATTT
169209 ATTTAATGAATTA
1 ATTTAATGAATTA
*
169222 ATTTAATTAATTA
1 ATTTAATGAATTA
169235 GA-TTAACTGAATTA
1 -ATTTAA-TGAATTA
169249 ATTT
1 ATTT
169253 CTCAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (13 bp):
ATTTAATGAATTA
Found at i:171482 original size:40 final size:39
Alignment explanation
Indices: 171305--171483 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 39
171295 AATTATTAAA
* * * *
171305 TGATTGCACTTACATGTCCATGTTTGTACTTCGATACCCC
1 TGATTGCACTTACGTG-CCCTGTTTGTACTTTGGTACCCC
171345 TGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTG-CCCTGTTTGTACTTTGGTACCCC
* * *
171385 TGATTGTACTTACGTGGCCCTGTTTGTACTTTAGTACCCT
1 TGATTGCACTTACGT-GCCCTGTTTGTACTTTGGTACCCC
* *
171425 TGATTGCACTTATGTGCCTCTTTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCC-CTGTTTGTACTTTGGTACCCC
171465 TGATTGCACTTACGTGCCC
1 TGATTGCACTTACGTGCCC
171484 CTATCCTGAT
Statistics
Matches: 123, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 4 0.03
40 118 0.96
41 1 0.01
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (39 bp):
TGATTGCACTTACGTGCCCTGTTTGTACTTTGGTACCCC
Found at i:171497 original size:25 final size:25
Alignment explanation
Indices: 171463--171512 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
171453 CTTTGGTACC
171463 CCTGATTGCACTTACGTGCCCCTAT
1 CCTGATTGCACTTACGTGCCCCTAT
171488 CCTGATTGCACTTACGTGCCCCTAT
1 CCTGATTGCACTTACGTGCCCCTAT
171513 TTGTACTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (25 bp):
CCTGATTGCACTTACGTGCCCCTAT
Found at i:171507 original size:65 final size:65
Alignment explanation
Indices: 171425--171550 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
171415 TTAGTACCCT
* * * *
171425 TGATTGCACTTATGTGCCTCTTTTTGTACTTTGGTACCCCTGATTGCACTTACGTGCCCCTATCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTATCC
* *
171490 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTGCCCCTGATTGCACTTATGTGCCCCT
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCT
171551 GTTTGTACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.38
Consensus pattern (65 bp):
TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTATCC
Found at i:171547 original size:40 final size:40
Alignment explanation
Indices: 171488--171630 Score: 205
Period size: 40 Copynumber: 3.6 Consensus size: 40
171478 GTGCCCCTAT
*
171488 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTGCC
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACC
* * * *
171528 CCTGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACT
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACC
* *
171568 CCTAATTGCACTTACGTGCCCCTTTTTGTACTTCGGTACC
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACC
* *
171608 CCTGGTTGCACTTCCGTGCCCCT
1 CCTGATTGCACTTACGTGCCCCT
171631 GGTTATACTC
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.12, C:0.32, G:0.19, T:0.37
Consensus pattern (40 bp):
CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACC
Found at i:171565 original size:105 final size:105
Alignment explanation
Indices: 171383--171590 Score: 317
Period size: 105 Copynumber: 2.0 Consensus size: 105
171373 CTTTGGTACC
* * * * * * *
171383 CCTGATTGTACTTACGTGGCCCTGTTTGTACTTTAGTACCCTTGATTGCACTTATGTGCCTCTTT
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACTTATGTGCCCCTGT
*
171448 TTGTACTTTGGTACCCCTGATTGCACTTACGTGCCCCTAT
66 TTGTACTTTGGTACCCCTAATTGCACTTACGTGCCCCTAT
* *
171488 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTGCCCCTGATTGCACTTATGTGCCCCTGT
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACTTATGTGCCCCTGT
*
171553 TTGTACTTTGGTACTCCTAATTGCACTTACGTGCCCCT
66 TTGTACTTTGGTACCCCTAATTGCACTTACGTGCCCCT
171591 TTTTGTACTT
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 92 1.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (105 bp):
CCTGATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCCTGATTGCACTTATGTGCCCCTGT
TTGTACTTTGGTACCCCTAATTGCACTTACGTGCCCCTAT
Found at i:171606 original size:145 final size:145
Alignment explanation
Indices: 171343--171630 Score: 443
Period size: 145 Copynumber: 2.0 Consensus size: 145
171333 CTTCGATACC
* * * *
171343 CCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCCTGATTGTACTTACGTGGCCCTGT
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTGT
* * * *
171408 TTGTACTTTAGTACCCTTGATTGCACTTATGTGCCTCTTTTTGTACTTTGGTACCCCTGATTGCA
66 TTGTACTTTAGTACCCTTAATTGCACTTACGTGCCCCTTTTTGTACTTCGGTACCCCTGATTGCA
171473 CTTACGTGCCCCTAT
131 CTTACGTGCCCCTAT
* *
171488 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTGCCCCTGATTGCACTTATGTGCCCCTGT
1 CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTGT
* *
171553 TTGTACTTTGGTACTCC-TAATTGCACTTACGTGCCCCTTTTTGTACTTCGGTACCCCTGGTTGC
66 TTGTACTTTAGTAC-CCTTAATTGCACTTACGTGCCCCTTTTTGTACTTCGGTACCCCTGATTGC
*
171617 ACTTCCGTGCCCCT
130 ACTTACGTGCCCCT
171631 GGTTATACTC
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
145 127 0.98
146 2 0.02
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (145 bp):
CCTGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTGT
TTGTACTTTAGTACCCTTAATTGCACTTACGTGCCCCTTTTTGTACTTCGGTACCCCTGATTGCA
CTTACGTGCCCCTAT
Found at i:171634 original size:20 final size:20
Alignment explanation
Indices: 171305--171631 Score: 169
Period size: 20 Copynumber: 16.1 Consensus size: 20
171295 AATTATTAAA
* * *
171305 TGATTGCACTTACATGTCCA
1 TGATTGCACTTACGTGCCCC
* * *
171325 TGTTTGTACTT-CGATACCCC
1 TGATTGCACTTACG-TGCCCC
171345 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * ** *
171365 TGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
* *
171385 TGATTGTACTTACGTGGCCC
1 TGATTGCACTTACGTGCCCC
* * * *
171405 TGTTTGTACTTTA-GTACCCT
1 TGATTGCAC-TTACGTGCCCC
* *
171425 TGATTGCACTTATGTGCCTC
1 TGATTGCACTTACGTGCCCC
** * ** *
171445 TTTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
171465 TGATTGCACTTACGTGCCCCTATCC
1 TGATTGCACTTACGTG--CC---CC
171490 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
*
171510 T-ATTTGTACTT-CGGTGCCCC
1 TGA-TTGCACTTAC-GTGCCCC
*
171530 TGATTGCACTTATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * ** * *
171550 TGTTTGTACTTTGGTACTCC
1 TGATTGCACTTACGTGCCCC
*
171570 TAATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
** * *
171590 TTTTTGTACTT-CGGTACCCC
1 TGATTGCACTTAC-GTGCCCC
* *
171610 TGGTTGCACTTCCGTGCCCC
1 TGATTGCACTTACGTGCCCC
171630 TG
1 TG
171632 GTTATACTCT
Statistics
Matches: 227, Mismatches: 65, Indels: 30
0.70 0.20 0.09
Matches are distributed among these distances:
19 7 0.03
20 191 0.84
21 7 0.03
22 2 0.01
23 2 0.01
25 18 0.08
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.39
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCC
Found at i:174424 original size:4 final size:4
Alignment explanation
Indices: 174415--174448 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
174405 TTTATTTTTC
*
174415 TTTA TTTA TTTA TTTT TCTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA T
174449 AGTCCCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:174430 original size:17 final size:17
Alignment explanation
Indices: 174405--174446 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
174395 AATTCGTCTG
174405 TTTATTTTTCTTTATTTA
1 TTTATTTTTC-TTATTTA
174423 TTTATTTTTCTTATTTA
1 TTTATTTTTCTTATTTA
174440 TTTATTT
1 TTTATTT
174447 ATAGTCCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTCTTATTTA
Found at i:189371 original size:7 final size:7
Alignment explanation
Indices: 189359--189403 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
189349 TTTTTTTTGC
189359 GCTTTTT
1 GCTTTTT
189366 GCTTTTT
1 GCTTTTT
189373 -CTTTTT
1 GCTTTTT
*
189379 --TTTGT
1 GCTTTTT
189384 GCTTTTT
1 GCTTTTT
189391 GCTTTTT
1 GCTTTTT
189398 -CTTTTT
1 GCTTTTT
189404 TTTTGCTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 12 0.35
7 18 0.53
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.76
Consensus pattern (7 bp):
GCTTTTT
Found at i:189386 original size:18 final size:18
Alignment explanation
Indices: 189361--189418 Score: 68
Period size: 17 Copynumber: 3.2 Consensus size: 18
189351 TTTTTTGCGC
189361 TTTTTGCTTTTT-CTTTT
1 TTTTTGCTTTTTGCTTTT
189378 TTTTGTGCTTTTTGCTTTT
1 TTTT-TGCTTTTTGCTTTT
189397 TCTTTT--TTTTTGCTGTTT
1 T-TTTTGCTTTTTGCT-TTT
189415 TTTT
1 TTTT
189419 AAAGAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 15 0.41
18 12 0.32
19 7 0.19
20 3 0.08
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.79
Consensus pattern (18 bp):
TTTTTGCTTTTTGCTTTT
Found at i:189416 original size:26 final size:27
Alignment explanation
Indices: 189347--189417 Score: 112
Period size: 25 Copynumber: 2.7 Consensus size: 27
189337 AGGTAGGCAA
189347 CTTTTTTTTTGC-GCTTTTTGCTTTTT
1 CTTTTTTTTTGCTGCTTTTTGCTTTTT
189373 C-TTTTTTTTG-TGCTTTTTGCTTTTT
1 CTTTTTTTTTGCTGCTTTTTGCTTTTT
*
189398 CTTTTTTTTTGCTGTTTTTT
1 CTTTTTTTTTGCTGCTTTTT
189418 TAAAGAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 24 0.59
26 10 0.24
27 7 0.17
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.76
Consensus pattern (27 bp):
CTTTTTTTTTGCTGCTTTTTGCTTTTT
Found at i:191861 original size:27 final size:27
Alignment explanation
Indices: 191754--191961 Score: 109
Period size: 27 Copynumber: 7.7 Consensus size: 27
191744 CCATCAGAAT
* ** * *
191754 ACTAAACACGGAGTAGTTTGCTGGGAT
1 ACTAAACACGGGGTAGTCCGCTAGGAC
* * **
191781 AATAAACACGGGGTAGTCCACCGGGAC
1 ACTAAACACGGGGTAGTCCGCTAGGAC
* *
191808 TCTAAACACGGGGTAGT-CGACTGGGAC
1 ACTAAACACGGGGTAGTCCG-CTAGGAC
*
191835 ACTAAACACGGGGTAGTCCGTTAGGAC
1 ACTAAACACGGGGTAGTCCGCTAGGAC
* * * * *
191862 ACTAAGCACAGAGTACTCTG-TCA-GACC
1 ACTAAACACGGGGTAGTCCGCT-AGGA-C
** ** *
191889 ACTAAATGCGACGTAGTCCG-TTGGTAC
1 ACTAAACACGGGGTAGTCCGCTAGG-AC
* ** *
191916 ACTAAATATAGGGTAGTCCGCTATGAC
1 ACTAAACACGGGGTAGTCCGCTAGGAC
*
191943 ATTAAACACGGGGTAGTCC
1 ACTAAACACGGGGTAGTCC
191962 ACCGAAACTA
Statistics
Matches: 135, Mismatches: 39, Indels: 14
0.72 0.21 0.07
Matches are distributed among these distances:
26 4 0.03
27 126 0.93
28 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (27 bp):
ACTAAACACGGGGTAGTCCGCTAGGAC
Found at i:207505 original size:13 final size:13
Alignment explanation
Indices: 207487--207512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
207477 GCCACACATG
207487 TGGCAAGTTTGAA
1 TGGCAAGTTTGAA
207500 TGGCAAGTTTGAA
1 TGGCAAGTTTGAA
207513 GGTTTCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
TGGCAAGTTTGAA
Found at i:210805 original size:3 final size:3
Alignment explanation
Indices: 210797--210830 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
210787 GAACCAAGCT
210797 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
210831 ATCATTGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:214095 original size:13 final size:13
Alignment explanation
Indices: 214077--214141 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
214067 CTTCTCTATC
214077 CATATAAACATTT
1 CATATAAACATTT
* *
214090 CATATACACAATT
1 CATATAAACATTT
214103 CATAT-AACTATTT
1 CATATAAAC-ATTT
* *
214116 CCATATAACCAATT
1 -CATATAAACATTT
*
214130 CATATAATCATT
1 CATATAAACATT
214142 ATGTATATCT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
12 2 0.05
13 29 0.71
14 8 0.20
15 2 0.05
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:214128 original size:27 final size:25
Alignment explanation
Indices: 214077--214141 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 25
214067 CTTCTCTATC
214077 CATATAAACATTTCATATACACAATT
1 CATAT-AACATTTCATATACACAATT
214103 CATATAACTATTTCCATATA-ACCAATT
1 CATATAAC-ATTT-CATATACA-CAATT
214130 CATATAATCATT
1 CATATAA-CATT
214142 ATGTATATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
25 3 0.09
26 10 0.29
27 21 0.60
28 1 0.03
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (25 bp):
CATATAACATTTCATATACACAATT
Found at i:214175 original size:13 final size:13
Alignment explanation
Indices: 214088--214176 Score: 67
Period size: 13 Copynumber: 6.7 Consensus size: 13
214078 ATATAAACAT
214088 TTCATATACAC-AA
1 TTCATATA-ACTAA
*
214101 TTCATATAACTAT
1 TTCATATAACTAA
*
214114 TTCCATATAACCAA
1 TT-CATATAACTAA
*
214128 TTCATATAA-TCA
1 TTCATATAACTAA
* *
214140 TT-ATGTATATCTAT
1 TTCA--TATAACTAA
214154 TTCCATATAACTAA
1 TT-CATATAACTAA
214168 TTCATATAA
1 TTCATATAA
214177 TCATTTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
11 1 0.02
12 5 0.08
13 29 0.49
14 23 0.39
16 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.01, T:0.40
Consensus pattern (13 bp):
TTCATATAACTAA
Found at i:214182 original size:27 final size:26
Alignment explanation
Indices: 214088--214188 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
214078 ATATAAACAT
* *
214088 TTCATATACA-CAATTCATATAACTAT
1 TTCATATA-ATCATTTCATATAACTAA
* * *
214114 TTCCATATAACCAATTCATATAA-TCA
1 TT-CATATAATCATTTCATATAACTAA
*
214140 TT-ATGTATATCTATTTCCATATAACTAA
1 TTCATATA-ATC-ATTT-CATATAACTAA
*
214168 TTCATATAATCATTTTATATA
1 TTCATATAATCATTTCATATA
214189 TTCATTTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
24 4 0.07
25 2 0.03
26 14 0.23
27 29 0.48
28 7 0.12
29 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.43
Consensus pattern (26 bp):
TTCATATAATCATTTCATATAACTAA
Found at i:214189 original size:40 final size:40
Alignment explanation
Indices: 214075--214189 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
214065 TACTTCTCTA
* *
214075 TCCATATAAACATTTCATATACA-CAATTCATATA-A-CTATT
1 TCCATATAACCAATTCATATA-ATC-ATT-ATATATATCTATT
*
214115 TCCATATAACCAATTCATATAATCATTATGTATATCTATT
1 TCCATATAACCAATTCATATAATCATTATATATATCTATT
* *
214155 TCCATATAACTAATTCATATAATCATTTTATATAT
1 TCCATATAACCAATTCATATAATCATTATATATAT
214190 TCATTTTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 4 0.06
39 5 0.08
40 57 0.86
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.42
Consensus pattern (40 bp):
TCCATATAACCAATTCATATAATCATTATATATATCTATT
Found at i:215847 original size:20 final size:20
Alignment explanation
Indices: 215824--215863 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
215814 GGTTTTCAAG
215824 TTAA-TTAAAATTTTGAAATA
1 TTAATTTAAAATTTT-AAATA
215844 TTAATTTAAAATTTTAAATA
1 TTAATTTAAAATTTTAAATA
215864 AGTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TTAATTTAAAATTTTAAATA
Found at i:216632 original size:31 final size:29
Alignment explanation
Indices: 216597--216673 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
216587 TTAATAGCTC
*
216597 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
216628 AGTGACAAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
216657 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
216674 CTAAAGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:224156 original size:45 final size:45
Alignment explanation
Indices: 224107--224261 Score: 226
Period size: 45 Copynumber: 3.5 Consensus size: 45
224097 GTACCGGGTG
*
224107 TGTGCTGATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTG
1 TGTGCTGATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTA
*
224152 TGTGCTGATTCCACCGGGTA-CTATTGATTATTAAGGTGGTTGCTA
1 TGTGCTGATTCCACCGGGTATC-ATTGATTATAAAGGTGGTTGCTA
* * *
224197 TGTGCTGATTCCACCGAGTATCATTGACTATAAGGGTGG-TGCTA
1 TGTGCTGATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTA
*
224241 TGTGCTGA-TCCACCGTGTATC
1 TGTGCTGATTCCACCGGGTATC
224262 TGTTATTATT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
43 12 0.12
44 14 0.14
45 74 0.73
46 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (45 bp):
TGTGCTGATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTA
Found at i:224850 original size:17 final size:17
Alignment explanation
Indices: 224828--224861 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
224818 TAGTGAAGAA
*
224828 AGGTCAGAACTGTCGAG
1 AGGTCAGAACTATCGAG
224845 AGGTCAGAACTATCGAG
1 AGGTCAGAACTATCGAG
224862 CAGTAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (17 bp):
AGGTCAGAACTATCGAG
Found at i:228788 original size:37 final size:37
Alignment explanation
Indices: 228738--228812 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
228728 AATTTCAATA
228738 TTACTTCAAACAAATTTTGATTACAAATATAATTACC
1 TTACTTCAAACAAATTTTGATTACAAATATAATTACC
228775 TTACTTCAAACAAATTTTGATTACAAATATAATTACC
1 TTACTTCAAACAAATTTTGATTACAAATATAATTACC
228812 T
1 T
228813 AACATGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.39
Consensus pattern (37 bp):
TTACTTCAAACAAATTTTGATTACAAATATAATTACC
Found at i:228798 original size:20 final size:20
Alignment explanation
Indices: 228737--228798 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
228727 AAATTTCAAT
228737 ATTACTTCAAACAAATTTTG
1 ATTACTTCAAACAAATTTTG
* **
228757 ATTA---CAAATATAA-TTAC
1 ATTACTTCAAACA-AATTTTG
*
228774 CTTACTTCAAACAAATTTTG
1 ATTACTTCAAACAAATTTTG
228794 ATTAC
1 ATTAC
228799 AAATATAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 10 0.34
18 2 0.07
19 2 0.07
20 15 0.52
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTACTTCAAACAAATTTTG
Found at i:246003 original size:24 final size:23
Alignment explanation
Indices: 245976--246026 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
245966 TGATAACAAT
*
245976 ATGCAAAAAATTCTGCAAGTAAAA
1 ATGCAAAAAAGT-TGCAAGTAAAA
* * *
246000 ATGCAGACAAGTTGCCAGTAAAA
1 ATGCAAAAAAGTTGCAAGTAAAA
246023 ATGC
1 ATGC
246027 GATAAATCGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (23 bp):
ATGCAAAAAAGTTGCAAGTAAAA
Found at i:246038 original size:22 final size:23
Alignment explanation
Indices: 245993--246038 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
245983 AAATTCTGCA
* *
245993 AGTAAAAATGCAGACAAGTTGCC
1 AGTAAAAATGCAGACAAATCGCC
*
246016 AGTAAAAATGC-GATAAATCGCC
1 AGTAAAAATGCAGACAAATCGCC
246038 A
1 A
246039 TTCCCCTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (23 bp):
AGTAAAAATGCAGACAAATCGCC
Found at i:248319 original size:22 final size:23
Alignment explanation
Indices: 248284--248326 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
248274 TTCTACTAGT
*
248284 AAAAATGTAGATAAGCTGTCAGC
1 AAAAATGCAGATAAGCTGTCAGC
*
248307 AAAAATGCA-ATAAGTTGTCA
1 AAAAATGCAGATAAGCTGTCA
248327 TTCCCTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (23 bp):
AAAAATGCAGATAAGCTGTCAGC
Found at i:253281 original size:51 final size:50
Alignment explanation
Indices: 253223--253405 Score: 226
Period size: 51 Copynumber: 3.6 Consensus size: 50
253213 GGTTCACATT
* * *
253223 GTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACACGTA
* * * *
253274 GTAGCCTGCACATTGTACTACACACGTGATCGA-AGCTATCCGGTACACATA
1 GTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTACACGTA
* * *
253325 GTAGCTTGCACATAGTACTACACATGTGACC-TATCATTCTGGTACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTACACGTA
253375 GTAGCCTGCACATAGTACTACACACGTGACC
1 GTAGCCTGCACATAGTACTACACACGTGACC
253406 TAACAACTTC
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 44 0.39
51 65 0.58
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
GTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACACGTA
Found at i:253402 original size:101 final size:101
Alignment explanation
Indices: 253217--253403 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 101
253207 ATACCTGGTT
* *
253217 CACATTGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGATACACGTAGTAGCCTG
*
253282 CACATTGTACTACACACGTGATCGAAGCTATCCGGTA
65 CACATAGTACTACACACGTGATCGAAGCTATCCGGTA
* * *
253319 CACATAGTAGCTTGCACATAGTACTACACATGTGACC-TATCATTCTGGTACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGATACACGTAGTAGCCTG
253383 CACATAGTACTACACACGTGA
65 CACATAGTACTACACACGTGA
253404 CCTAACAACT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 4 0.05
101 39 0.50
102 35 0.45
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGATCGAAGCTATCCGGTA
Found at i:259190 original size:22 final size:21
Alignment explanation
Indices: 259159--259200 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
259149 TTGAACTTCT
259159 TTGATTTCATTTGCAT-TGTAG
1 TTGATTTCATTT-CATATGTAG
259180 TTGATCTTCATTTCATATGTA
1 TTGAT-TTCATTTCATATGTA
259201 AGCAAGGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.52
Consensus pattern (21 bp):
TTGATTTCATTTCATATGTAG
Found at i:267128 original size:25 final size:24
Alignment explanation
Indices: 267100--267151 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 24
267090 TGAACAACAC
*
267100 TAAGCTCATACGAGCTGAGTATTGG
1 TAAGCTCATACGAGCTGA-AATTGG
267125 TAAGCTCATACGAGCTGAAATTGG
1 TAAGCTCATACGAGCTGAAATTGG
267149 TAA
1 TAA
267152 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (24 bp):
TAAGCTCATACGAGCTGAAATTGG
Found at i:279463 original size:13 final size:13
Alignment explanation
Indices: 279445--279472 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
279435 TATGTATATT
279445 AAAATAATGAAAA
1 AAAATAATGAAAA
279458 AAAATAATGAAAA
1 AAAATAATGAAAA
279471 AA
1 AA
279473 TAAAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAATAATGAAAA
Found at i:281373 original size:56 final size:56
Alignment explanation
Indices: 281306--281418 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
281296 TTTTGGAAAG
281306 TAAGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCATGAT
1 TAAGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCATGAT
*
281362 TAAGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTCGGGGAAGCATGAT
1 TAAGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCATGAT
281418 T
1 T
281419 CGCTGTTGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (56 bp):
TAAGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCATGAT
Found at i:281428 original size:50 final size:53
Alignment explanation
Indices: 281308--281437 Score: 176
Period size: 56 Copynumber: 2.5 Consensus size: 53
281298 TTGGAAAGTA
281308 AGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCATGATT
1 AGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCA--ATT
*
281363 AAGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTCGGGGAAGC-A-T
1 -AGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCAATT
** *
281415 -GATTCGCTGTTGTGCCTTTAATC
1 AGATTCGCCATTGTGGCTTTAATC
281438 TGTTCCACTG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
50 20 0.29
52 1 0.01
53 1 0.01
56 48 0.69
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (53 bp):
AGATTCGCCATTGTGGCTTTAATCCTTTTAACTGCAATGTAGGGGAAGCAATT
Found at i:281594 original size:44 final size:44
Alignment explanation
Indices: 281488--281740 Score: 169
Period size: 44 Copynumber: 5.6 Consensus size: 44
281478 TTCAGTTTAT
* * * * *
281488 TCCACTGTAATCTCAGGGAGATAAGA--CCTGA-TGTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTTAATCTGC
* *
281529 TCTACTGTAA-CTTCAGAGAGATAAGATTCTTTATTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTCTTTATTTTAATCTGC
** *
281573 TCCACTGTAATCTCAGGGAGATAAGATTTCTAGATTCAATCTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGA-TTCT---TT--AT-T--T-TAATCTGC
* * * *
281627 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTCTTTATTTTAATCTGC
* * *
281671 TCCACTGTAATCTCAGGGAGATAAGATTAC--TAGCTTCAGTCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATT-CTTTA-TTTTAATCTGC
*
281715 TCCGCTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
281741 CCTGCAATTT
Statistics
Matches: 166, Mismatches: 27, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 22 0.13
43 5 0.03
44 88 0.53
45 8 0.05
47 1 0.01
48 4 0.02
50 4 0.02
51 1 0.01
53 5 0.03
54 27 0.16
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTTAATCTGC
Found at i:281684 original size:98 final size:98
Alignment explanation
Indices: 281515--281713 Score: 344
Period size: 98 Copynumber: 2.0 Consensus size: 98
281505 GAGATAAGAC
* * *
281515 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
281580 TAATCTCAGGGAGATAAGATTTCTAGATTCAAT
66 TAATCTCAGGGAGATAAGATTACTAGATTCAAT
281613 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
281678 TAATCTCAGGGAGATAAGATTACTAGCTTCAGT
66 TAATCTCAGGGAGATAAGATTACTAGATTCAAT
281711 CTG
1 CTG
281714 CTCCGCTGTA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAAGATTACTAGATTCAAT
Found at i:281930 original size:131 final size:131
Alignment explanation
Indices: 281737--282052 Score: 499
Period size: 131 Copynumber: 2.4 Consensus size: 131
281727 TCAGGGAGAT
* * * * * * *
281737 AAGACCTGCAATTTCCAACCTATTCCTCTACTGGCCAGGGACATAGGACGTGTGGCATAAATCTA
1 AAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCATAAATCTA
*
281802 TTTCCCTACTCCTTGGGAAGGTAAGATTCAT-CGTCTTCGATCTGCTCCGCTACTGCTCAAGGAA
66 TTTCCCTACTCCTGGGGAAGGTAAGATTC-TCCGTCTTCGATCTGCTCCGCTACTGCTCAAGGAA
281866 AC
130 AC
* * *
281868 AAGATCTGTAATTTCCAATCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTG
1 AAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCATAAATCTA
*
281933 TTTCCCTACTCCTGGGGAAGGTAAGATTCTCCGTCTTCGATCTGCTCCGCTACTGCTCAGGGAAA
66 TTTCCCTACTCCTGGGGAAGGTAAGATTCTCCGTCTTCGATCTGCTCCGCTACTGCTCAAGGAAA
281998 C
131 C
*
281999 AAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGATATAGGACTTGTG
1 AAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTG
282053 ATTTCACCGA
Statistics
Matches: 170, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.01
131 169 0.99
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (131 bp):
AAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCATAAATCTA
TTTCCCTACTCCTGGGGAAGGTAAGATTCTCCGTCTTCGATCTGCTCCGCTACTGCTCAAGGAAA
C
Found at i:294118 original size:22 final size:21
Alignment explanation
Indices: 294082--294127 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
294072 TCAGTAGCAC
* *
294082 AAAAATAAAATAAAAAAGGAG
1 AAAAAGAAAATAAAAAACGAG
294103 AAAAAGAAAATAAAAAAACGAG
1 AAAAAGAAAAT-AAAAAACGAG
294125 AAA
1 AAA
294128 TCTGTGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAATAAAAAACGAG
Found at i:294277 original size:6 final size:7
Alignment explanation
Indices: 294262--294287 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
294252 GAGAGAAAGG
294262 AAAATAA
1 AAAATAA
294269 AAAATAA
1 AAAATAA
294276 AAAATAA
1 AAAATAA
294283 AAAAT
1 AAAAT
294288 GTTGCCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:305764 original size:21 final size:21
Alignment explanation
Indices: 305738--305777 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
305728 ATCAATAACC
305738 AAATGTTCACACAAACAGAAA
1 AAATGTTCACACAAACAGAAA
**
305759 AAATGTTCTGACAAACAGA
1 AAATGTTCACACAAACAGA
305778 CGTATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.17
Consensus pattern (21 bp):
AAATGTTCACACAAACAGAAA
Found at i:306561 original size:24 final size:24
Alignment explanation
Indices: 306534--306607 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
306524 GATGCTGATT
*
306534 TTTAAAGGATGTATAATGCTCTCC
1 TTTAAATGATGTATAATGCTCTCC
306558 TTTAAATGATG--TAATAG--CTCC
1 TTTAAATGATGTATAAT-GCTCTCC
*
306579 TTTAAATGATGTATAATTCTCTCC
1 TTTAAATGATGTATAATGCTCTCC
306603 TTTAA
1 TTTAA
306608 TTAATGTAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
21 15 0.35
22 4 0.09
23 5 0.12
24 19 0.44
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (24 bp):
TTTAAATGATGTATAATGCTCTCC
Found at i:306601 original size:45 final size:45
Alignment explanation
Indices: 306534--306625 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
306524 GATGCTGATT
* * *
306534 TTTAAAGGATGTATAATGCTCTCCTTTAAATGATGTAATAGCTCC
1 TTTAAAGGATGTATAATGCTCTCCTTTAAATAATGTAACAGCCCC
* * *
306579 TTTAAATGATGTATAATTCTCTCCTTTAATTAATGTAACAGCCCC
1 TTTAAAGGATGTATAATGCTCTCCTTTAAATAATGTAACAGCCCC
306624 TT
1 TT
306626 GTATGTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (45 bp):
TTTAAAGGATGTATAATGCTCTCCTTTAAATAATGTAACAGCCCC
Found at i:306865 original size:46 final size:46
Alignment explanation
Indices: 306794--306917 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 46
306784 TTTATTCCAA
*
306794 CAATTAATTAACTAAAAATGAGTTTAATAAAAATAAAGCCCAGCAACT
1 CAATT-ATTAACT-AAGATGAGTTTAATAAAAATAAAGCCCAGCAACT
*
306842 CAATTATTAACTAAGATGAG-TT--T---AATAAAGTCCAGCAACT
1 CAATTATTAACTAAGATGAGTTTAATAAAAATAAAGCCCAGCAACT
* *
306882 CAATTATTAACTAAGATGAGTTAAATAAAATTAAAG
1 CAATTATTAACTAAGATGAGTTTAATAAAAATAAAG
306918 TTTAGCTTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
40 36 0.55
41 1 0.02
43 2 0.03
45 2 0.03
46 13 0.20
47 7 0.11
48 5 0.08
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.28
Consensus pattern (46 bp):
CAATTATTAACTAAGATGAGTTTAATAAAAATAAAGCCCAGCAACT
Found at i:306869 original size:40 final size:40
Alignment explanation
Indices: 306824--306910 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
306814 AGTTTAATAA
306824 AAATAAAGCCCAGCAACTCAATTATTAACTAAGATGAGTT
1 AAATAAAGCCCAGCAACTCAATTATTAACTAAGATGAGTT
* *
306864 TAATAAAGTCCAGCAACTCAATTATTAACTAAGATGAGTT
1 AAATAAAGCCCAGCAACTCAATTATTAACTAAGATGAGTT
306904 AAATAAA
1 AAATAAA
306911 ATTAAAGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (40 bp):
AAATAAAGCCCAGCAACTCAATTATTAACTAAGATGAGTT
Found at i:325033 original size:20 final size:20
Alignment explanation
Indices: 324990--325033 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
324980 TTAAGTCCAA
* * *
324990 AAAAATAATAAAAATAAACC
1 AAAAATAAGAAAAAGAAAAC
*
325010 AAAAATAAGAAAAAGAAAAT
1 AAAAATAAGAAAAAGAAAAC
325030 AAAA
1 AAAA
325034 TGGAGAGGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAAATAAGAAAAAGAAAAC
Found at i:326421 original size:88 final size:88
Alignment explanation
Indices: 326272--326658 Score: 546
Period size: 88 Copynumber: 4.4 Consensus size: 88
326262 AACCATAAAT
* * *
326272 CTTATCTCCCTGAGCAGTAATGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCTG
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAG
* *
326337 CGAAGTAGATCAAAGACCTCATC
66 CGAAGTAGATCGAAGACCTCAGC
* *
326360 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTTCTTGTATTGGCAG
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAG
* * * *
326425 CAAAGTGGGTCGAATACCTCAGC
66 CGAAGTAGATCGAAGACCTCAGC
* *
326448 CTTA--TCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATATTGGCAG
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAG
* * *
326511 CGAAGTAGATTGAAGATAC-CATC
66 CGAAGTAGATCGAAGA-CCTCAGC
* * * * *
326534 CTTTTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGTAGATCTTGTCTTCTTGTACTGGCAG
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAG
326599 CGAAGTAGATCGAAGACCTCAGC
66 CGAAGTAGATCGAAGACCTCAGC
*
326622 CTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAAT
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT
326659 GTGATTTTTT
Statistics
Matches: 262, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
86 72 0.27
87 2 0.01
88 188 0.72
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAG
CGAAGTAGATCGAAGACCTCAGC
Found at i:326572 original size:174 final size:175
Alignment explanation
Indices: 326272--326658 Score: 571
Period size: 174 Copynumber: 2.2 Consensus size: 175
326262 AACCATAAAT
* * * *
326272 CTTATCTCCCTGAGCAGTAATGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCTG
1 CTTA-CTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAG
* *
326337 CGAAGTAGATCAAAGACCTCATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAG
65 CGAAGTAGATCAAAGAACTCATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAG
* * * *
326402 ATCTTATCTTCTTGTATTGGCAGCAAAGTGGGTCGAATACCTCAGC
130 ATCTTATCTTCTTGTACTGGCAGCAAAGTAGATCGAAGACCTCAGC
*
326448 CTTA-TCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATATTGGCAGC
1 CTTACTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGC
** * *
326512 GAAGTAGATTGAAGATAC-CATCCTTTTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGTAG
66 GAAGTAGATCAAAGA-ACTCATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAG
* *
326576 ATCTTGTCTTCTTGTACTGGCAGCGAAGTAGATCGAAGACCTCAGC
130 ATCTTATCTTCTTGTACTGGCAGCAAAGTAGATCGAAGACCTCAGC
*
326622 CTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAAT
1 CTTA-CTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT
326659 GTGATTTTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
174 155 0.82
175 1 0.01
176 33 0.17
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (175 bp):
CTTACTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTGGCAGC
GAAGTAGATCAAAGAACTCATCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGA
TCTTATCTTCTTGTACTGGCAGCAAAGTAGATCGAAGACCTCAGC
Found at i:333782 original size:40 final size:40
Alignment explanation
Indices: 333645--333894 Score: 288
Period size: 40 Copynumber: 6.2 Consensus size: 40
333635 GATAATTATA
* *
333645 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACA
1 CCTGAATTGCACATACATGCCCCTG-TTGTACTTCGGTACC
* *
333686 CTTGAATTGCACATA-ACTGCCCCTGTTGTACTTTGGTACCC
1 CCTGAATTGCACATACA-TGCCCCTGTTGTACTTCGGTA-CC
* * * *
333727 CCTAAATTGCACATACATGGCCCTGTTTGTACTTCAGTACT
1 CCTGAATTGCACATACATGCCCCTG-TTGTACTTCGGTACC
* * *
333768 CCT-AATTGCACATACATACCCCTGTTGTTCTTTGGTACC
1 CCTGAATTGCACATACATGCCCCTGTTGTACTTCGGTACC
* *
333807 CCTGAATTGTATATACATGCCCCTGTTGTACTTCGGTACC
1 CCTGAATTGCACATACATGCCCCTGTTGTACTTCGGTACC
* * **
333847 CCTGAATTGCACATGCGTGCCCCTGTTTGTACTTCAATACC
1 CCTGAATTGCACATACATGCCCCTG-TTGTACTTCGGTACC
333888 CCTGAAT
1 CCTGAAT
333895 AGCATTTATG
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
39 14 0.08
40 83 0.47
41 67 0.38
42 12 0.07
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (40 bp):
CCTGAATTGCACATACATGCCCCTGTTGTACTTCGGTACC
Found at i:333832 original size:121 final size:121
Alignment explanation
Indices: 333649--333882 Score: 319
Period size: 121 Copynumber: 1.9 Consensus size: 121
333639 ATTATACCTG
* * *
333649 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACACTTGAATTGCACATAACTGCCCCTGTTG
1 AATTGCACATACATACCCCTGTTTGTACTTCGGTACACCTGAATTGCACATAACTGCCCCTGTTG
* *
333714 TACTTTGGTACCCCCTAAATTGCACATACATGGCCCTGTTTGTACTTCAGTACTCCT
66 TACTTCGGTA-CCCCTAAATTGCACATACATGCCCCTGTTTGTACTTCAGTACTCCT
* * * * *
333771 AATTGCACATACATACCCCTG-TTGTTCTTTGGTACCCCTGAATTGTATAT-ACATGCCCCTGTT
1 AATTGCACATACATACCCCTGTTTGTACTTCGGTACACCTGAATTGCACATAAC-TGCCCCTGTT
* * *
333834 GTACTTCGGTACCCCTGAATTGCACATGCGTGCCCCTGTTTGTACTTCA
65 GTACTTCGGTACCCCTAAATTGCACATACATGCCCCTGTTTGTACTTCA
333883 ATACCCCTGA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
120 36 0.37
121 43 0.44
122 19 0.19
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (121 bp):
AATTGCACATACATACCCCTGTTTGTACTTCGGTACACCTGAATTGCACATAACTGCCCCTGTTG
TACTTCGGTACCCCTAAATTGCACATACATGCCCCTGTTTGTACTTCAGTACTCCT
Found at i:333913 original size:81 final size:80
Alignment explanation
Indices: 333645--333914 Score: 301
Period size: 81 Copynumber: 3.3 Consensus size: 80
333635 GATAATTATA
* * *
333645 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACACTTGAATTGCACATAACTGCCCCT
1 CCTGAATTGCATATACATGCCCCTGTTTGTACTTCGGTACACCTGAATTGCACAT-ACTGCCCCT
333710 GTTGTACTTTGGTACCC
65 GTTGTACTTTGGTA-CC
* * * * * *
333727 CCTAAATTGCACATACATGGCCCTGTTTGTACTTCAGTACTCCT-AATTGCACATACATACCCCT
1 CCTGAATTGCATATACATGCCCCTGTTTGTACTTCGGTACACCTGAATTGCACATAC-TGCCCCT
*
333791 GTTGTTCTTTGGTACC
65 GTTGTACTTTGGTACC
* * *
333807 CCTGAATTGTATATACATGCCCCTG-TTGTACTTCGGTACCCCTGAATTGCACATGCGTGCCCCT
1 CCTGAATTGCATATACATGCCCCTGTTTGTACTTCGGTACACCTGAATTGCACATAC-TGCCCCT
***
333871 GTTTGTACTTCAATACC
65 G-TTGTACTTTGGTACC
* * **
333888 CCTGAATAGCATTTATGTGCCCCTGTT
1 CCTGAATTGCATATACATGCCCCTGTT
333915 CATGATCTAA
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
79 16 0.10
80 43 0.27
81 60 0.38
82 39 0.25
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (80 bp):
CCTGAATTGCATATACATGCCCCTGTTTGTACTTCGGTACACCTGAATTGCACATACTGCCCCTG
TTGTACTTTGGTACC
Found at i:335309 original size:39 final size:40
Alignment explanation
Indices: 335246--335332 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
335236 GCGTTATACT
* *
335246 TTCTGTTCGGCGTGATTCGAGTGGATCAGCTCTTATGAGC
1 TTCTGTTCGGCGTGATTCGAGTGGACCAGCTCTTATAAGC
* *
335286 TTCTGTT-GGCGTGTTTCGGGTGGACCAGCTCTTATAAGC
1 TTCTGTTCGGCGTGATTCGAGTGGACCAGCTCTTATAAGC
335325 TTCTGTTC
1 TTCTGTTC
335333 AGCTCTTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.83
40 7 0.17
ACGTcount: A:0.13, C:0.21, G:0.29, T:0.38
Consensus pattern (40 bp):
TTCTGTTCGGCGTGATTCGAGTGGACCAGCTCTTATAAGC
Found at i:335337 original size:21 final size:21
Alignment explanation
Indices: 335311--335352 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
335301 TCGGGTGGAC
335311 CAGCTCTTATAAGCTTCTGTT
1 CAGCTCTTATAAGCTTCTGTT
335332 CAGCTCTTATAAGCTTCTGTT
1 CAGCTCTTATAAGCTTCTGTT
335353 TGGCCTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
CAGCTCTTATAAGCTTCTGTT
Found at i:335385 original size:61 final size:60
Alignment explanation
Indices: 335271--335392 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 60
335261 TTCGAGTGGA
* * *
335271 TCAGCTCTTATGAGCTTCTGTTGGCGTGTTTCGGGTGGACCAGCTCTTATAAGCTTCTGT
1 TCAGCTCTTATAAGCTTCTGTTGGCCTGTTTCGAGTGGACCAGCTCTTATAAGCTTCTGT
* * * *
335331 TCAGCTCTTATAAGCTTCTGTTTGGCCTGTTTTGATTGGATCATCTCTTATAAGCTTCTGT
1 TCAGCTCTTATAAGCTTCTG-TTGGCCTGTTTCGAGTGGACCAGCTCTTATAAGCTTCTGT
335392 T
1 T
335393 TGGTGTGTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 19 0.35
61 35 0.65
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (60 bp):
TCAGCTCTTATAAGCTTCTGTTGGCCTGTTTCGAGTGGACCAGCTCTTATAAGCTTCTGT
Found at i:335436 original size:40 final size:39
Alignment explanation
Indices: 335331--335447 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 39
335321 AAGCTTCTGT
* *
335331 TCAGCTCTTATAAGCTTCTGTTTGGCCTGT-TTTGATTGGA
1 TCAGCTCTTATAAGCTTCTGTTTGG--TGTGTTCGGTTGGA
*
335371 TCATCTCTTATAAGCTTCTGTTTGGTGTGTTCCGGTTGGA
1 TCAGCTCTTATAAGCTTCTGTTTGGTGTGTT-CGGTTGGA
*
335411 TCAGCTCTTATGAGCTTCTGTTTGGTGTGTTCGGTTG
1 TCAGCTCTTATAAGCTTCTGTTTGGTGTGTTCGGTTG
335448 ATCTGAGGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.04
39 8 0.11
40 59 0.84
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (39 bp):
TCAGCTCTTATAAGCTTCTGTTTGGTGTGTTCGGTTGGA
Found at i:346492 original size:3 final size:3
Alignment explanation
Indices: 346484--346509 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
346474 AAATTAGATA
346484 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
346510 AAGGTGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Done.