Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1053
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: 95805
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Found at i:2183 original size:22 final size:19
Alignment explanation
Indices: 2152--2193 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
2142 TATTTTTATT
2152 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
2173 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
2193 T
1 T
2194 TTTTTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:3460 original size:13 final size:12
Alignment explanation
Indices: 3432--3457 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3422 TTCTTTAAAG
3432 AATTAAAAAATA
1 AATTAAAAAATA
3444 AATTAAAAAATA
1 AATTAAAAAATA
3456 AA
1 AA
3458 ATTTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATTAAAAAATA
Found at i:7583 original size:11 final size:12
Alignment explanation
Indices: 7567--7596 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7557 TTAATTGTAT
7567 TATTTTTC-TTC
1 TATTTTTCATTC
7578 TATTTTTCATTC
1 TATTTTTCATTC
7590 TATTTTT
1 TATTTTT
7597 GCTTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTTCATTC
Found at i:12822 original size:52 final size:52
Alignment explanation
Indices: 12744--12924 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
12734 CGAGATATGA
12744 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
12796 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
12848 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
12900 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
12925 AAGATTAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:12951 original size:13 final size:13
Alignment explanation
Indices: 12933--12957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12923 CAAAGATTAG
12933 TGTATCGATACAA
1 TGTATCGATACAA
12946 TGTATCGATACA
1 TGTATCGATACA
12958 TTTGAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:12968 original size:104 final size:102
Alignment explanation
Indices: 12756--12980 Score: 285
Period size: 104 Copynumber: 2.2 Consensus size: 102
12746 ATTTGCCTGC
*
12756 ATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACA
1 ATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACA
** * **
12821 TTTCATAGTGTATCGATACATCTAGGCAAATTTGCCTGC
66 TAACATAGTGTATCGATACATCTACGCAAATTTG-C-AA
*
12860 ATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACA
* *
12925 -AAGATTAGTGTATCGATACAATGTATCG-ATACATTTG-AA
66 TAACA-TAGTGTATCGATAC-ATCTA-CGCA-A-ATTTGCAA
12964 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
12981 TTGGCAGTAG
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
103 1 0.01
104 94 0.88
105 5 0.05
106 2 0.02
107 5 0.05
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (102 bp):
ATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATCGATACA
TAACATAGTGTATCGATACATCTACGCAAATTTGCAA
Found at i:13041 original size:32 final size:32
Alignment explanation
Indices: 12996--13060 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
12986 AGTAGCTTAT
*
12996 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCAATACAAAACTTATGTATCGATAC
*
13028 ATTGTATCAATACAACACTTATGTATCGATAC
1 ATTGTATCAATACAAAACTTATGTATCGATAC
13060 A
1 A
13061 ACACTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (32 bp):
ATTGTATCAATACAAAACTTATGTATCGATAC
Found at i:13071 original size:20 final size:19
Alignment explanation
Indices: 12998--13081 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
12988 TAGCTTATAT
*
12998 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
13017 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
13030 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
13049 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
13069 TGTATCGATACAA
1 TGTATCGATACAA
13082 ATCGTTGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
13 8 0.15
14 1 0.02
16 5 0.09
18 1 0.02
19 24 0.44
20 16 0.29
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:14248 original size:49 final size:49
Alignment explanation
Indices: 13913--14437 Score: 540
Period size: 43 Copynumber: 11.1 Consensus size: 49
13903 CTTAGGAATG
* * *
13913 TTAAAGATGAAGGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*** * *
13962 TTAAAGATGACAAAGACCCCAATATGCTGATTTAGGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
14014 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
14066 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
14109 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
14159 TT---G--G-AGTTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
14202 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
14251 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
14294 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCGGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
14343 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
14386 TTAAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
14435 TTA
1 TTA
14438 GAAGGGTTGC
Statistics
Matches: 400, Mismatches: 48, Indels: 56
0.79 0.10 0.11
Matches are distributed among these distances:
43 149 0.37
44 1 0.00
45 2 0.00
46 2 0.00
47 2 0.00
48 3 0.01
49 120 0.30
50 38 0.09
52 83 0.21
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:14262 original size:92 final size:92
Alignment explanation
Indices: 13980--14442 Score: 701
Period size: 92 Copynumber: 5.0 Consensus size: 92
13970 GACAAAGACC
* * * * * *
13980 CCAATATGCTGATTTAGGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGAT
14045 TCAAGGCCAGCGATATTGGACTTAAAGGTG
63 TCAAGGCCAGCGATATTGGACTTAAAGGTG
* * *
14075 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATTC
** *
14140 AAGGCCAGCGATATTGGACTTGGAGTTG
65 AAGGCCAGCGATATTGGACTTAAAGGTG
* *
14168 CCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
*
14233 AGGCCAGTGATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
*
14260 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* *
14325 AGGCCGGCTATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
*
14352 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTAATTCA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
*
14417 AGGCCAGCGATATTGGGCTTAGAAGG
66 AGGCCAGCGATATTGGACTTA-AAGG
14443 GTTGCCACCG
Statistics
Matches: 337, Mismatches: 29, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
92 218 0.65
93 81 0.24
95 31 0.09
96 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGACTTAAAGGTG
Found at i:14388 original size:184 final size:185
Alignment explanation
Indices: 13915--14442 Score: 707
Period size: 184 Copynumber: 2.8 Consensus size: 185
13905 TAGGAATGTT
* * * * *
13915 AAAGATGAAGGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACC
1 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G----TG---
* * * * * *
13980 CCAATATGCTGATTTAGGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
57 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGAT
*
14045 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCT
119 TCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
14110 TA
184 TA
* * ** *
14112 AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
1 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
* * *
14177 TGATTCAAGGCTAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGTG
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
*
14242 ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-
131 ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
* *
14296 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCGGCTATATTGGACTTAAAGGTGCCAATGTGC
1 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
*
14361 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAGCG
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
*
14426 ATATTGGGCTTAGAAGG
131 ATATTGGACTTA-AAGG
14443 GTTGCCACCG
Statistics
Matches: 299, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
184 130 0.43
185 84 0.28
188 37 0.12
191 1 0.00
197 47 0.16
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (185 bp):
AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
Found at i:14516 original size:32 final size:33
Alignment explanation
Indices: 14437--14567 Score: 221
Period size: 32 Copynumber: 4.0 Consensus size: 33
14427 TATTGGGCTT
14437 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
14470 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
14503 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
14534 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
14567 A
1 A
14568 AGAGAAAAAG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
31 2 0.02
32 54 0.60
33 34 0.38
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:14615 original size:31 final size:31
Alignment explanation
Indices: 14579--14825 Score: 133
Period size: 31 Copynumber: 7.8 Consensus size: 31
14569 GAGAAAAAGA
* * *
14579 GTGCCACTGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
*** *
14610 GTGCCACGGAGTCACAGACTTTGAAAGGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* ** *
14641 GTGCCACGGAGTCATGGACTTAAAAGGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG
* * * *
14674 AGTGCCATGGAGTTGTGGGC-TT-AAACG--G
1 -GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* * * * *
14702 GTGCCACGGAATTGTGGGCTTTAAAAAGGAAAAAT
1 GTGCCACGGAGTCGTGGACTTTGAAAA-G---AAG
* * * * *
14737 ATGCCACAGAGTTGTGGGCTTTGGAAAGAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
* *
14768 GTGCCACGGAGTCATGGACTTTAAAAAGAAAAAG
1 GTGCCACGGAGTCGTGGACTTTGAAAAG---AAG
14802 GTGCCACGGAGTCGTGGACTTTGA
1 GTGCCACGGAGTCGTGGACTTTGA
14826 TGCCACTGAG
Statistics
Matches: 163, Mismatches: 39, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
27 17 0.10
28 3 0.02
29 3 0.02
30 2 0.01
31 68 0.42
32 2 0.01
33 5 0.03
34 41 0.25
35 22 0.13
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (31 bp):
GTGCCACGGAGTCGTGGACTTTGAAAAGAAG
Found at i:14836 original size:23 final size:23
Alignment explanation
Indices: 14803--14848 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
14793 AAGAAAAAGG
14803 TGCCACGGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
*
14826 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
14849 GACTGTCGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (23 bp):
TGCCACGGAGTCGTGGACTTTGA
Found at i:17989 original size:52 final size:52
Alignment explanation
Indices: 17919--18039 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
17909 GAAAATTTAT
*
17919 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
17971 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
18023 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
18040 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:18225 original size:101 final size:98
Alignment explanation
Indices: 18050--18685 Score: 1002
Period size: 101 Copynumber: 6.3 Consensus size: 98
18040 AAGATCAGTG
*
18050 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
18115 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
18151 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
18216 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
18252 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
18317 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
18353 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
18418 CAGCTACATTGGACTTAAAGATGAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * * * *
18451 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAA
*
18516 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
63 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * * * *
18552 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAA
*
18617 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
63 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* *
18653 TATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTA
18686 GAAGGGTTGC
Statistics
Matches: 520, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
98 45 0.09
99 1 0.00
100 1 0.00
101 473 0.91
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (98 bp):
TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGGTGCCAA
Found at i:18502 original size:251 final size:251
Alignment explanation
Indices: 18052--18685 Score: 1121
Period size: 251 Copynumber: 2.5 Consensus size: 251
18042 GATCAGTGTA
* * * * *
18052 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAAGG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
*
18114 CCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
66 CCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
18179 ACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAA
128 ACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAA
18244 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
193 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
18303 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
* * *
18368 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
66 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
18433 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGT
131 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGT
18498 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
196 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
18554 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
* *
18619 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCT
66 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
18684 TA
131 TA
18686 GAAGGGTTGC
Statistics
Matches: 366, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
251 319 0.87
252 1 0.00
253 1 0.00
254 45 0.12
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (251 bp):
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGT
GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
Found at i:18729 original size:33 final size:33
Alignment explanation
Indices: 18685--18755 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
18675 TATTGGGCTT
*
18685 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
18718 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
18751 -GAAGG
1 AGAAGG
18756 AAAAAAGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:18951 original size:66 final size:66
Alignment explanation
Indices: 18756--20177 Score: 2136
Period size: 66 Copynumber: 21.5 Consensus size: 66
18746 TTTAGGAAGG
* * * *
18756 AAAA-AAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCT
18818 TTAA
63 TTAA
* * * * *
18822 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGC
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGC
18887 TTTAA
62 TTTAA
18892 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
18957 GAA
65 -AA
* *
18960 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19023 GAA
65 -AA
* *
19026 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19089 GAA
65 -AA
*
19092 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19157 A
66 A
19158 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19223 A
66 A
19224 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19289 GAA
65 -AA
* *
19292 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19355 GAA
65 -AA
* *
19358 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19421 GAA
65 -AA
*
19424 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19489 A
66 A
19490 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19555 A
66 A
19556 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19621 A
66 A
19622 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19687 GAA
65 -AA
* *
19690 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19753 GAA
65 -AA
* *
19756 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
19819 GAA
65 -AA
*
19822 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19887 A
66 A
19888 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
19953 A
66 A
19954 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
20019 GAA
65 -AA
* * *
20022 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-TAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
20086 A
66 A
* *
20087 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGTTGTGGAC-TT
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
20144 AA
65 AA
*
20146 AAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AA--AAGAAGGTGCCACGGAGTTGTGGGCTTT
20178 AAAGAAAAAA
Statistics
Matches: 1308, Mismatches: 28, Indels: 46
0.95 0.02 0.03
Matches are distributed among these distances:
59 6 0.00
60 46 0.04
61 1 0.00
62 3 0.00
63 1 0.00
65 3 0.00
66 902 0.69
67 39 0.03
68 236 0.18
69 32 0.02
70 39 0.03
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (66 bp):
AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
A
Found at i:18990 original size:100 final size:100
Alignment explanation
Indices: 18739--20180 Score: 2202
Period size: 100 Copynumber: 14.5 Consensus size: 100
18729 CACCAACTTG
* * * * *
18739 TGTGGGCTTTAGGAAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTT-GGAAAG-AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA---AAGAAG-GTGCC
* * *
18803 ACGGAGTTGTGGGCTTT-AAAAGAAAAAAGTGCCACGGAGT
60 ACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* * *
18843 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACG
1 TGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACG
18908 GAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
63 GAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
18946 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
19011 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
66 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* *
19046 TGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGG
19109 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
64 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* *
19146 TGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGG
*
19209 AGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGT
64 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
*
19244 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGG
*
19309 AGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGT
64 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
19344 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
19409 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
66 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
19444 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
19509 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
66 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* *
19544 TGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGG
*
19607 AGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGT
64 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
*
19642 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGG
*
19707 AGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGT
64 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
19742 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
19807 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
66 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
19842 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
19907 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
66 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* *
19942 TGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGG
20005 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
64 AGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* * *
20042 TGTGGGCTTT-TAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGA
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGGTGCCACGGA
20106 GTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGT
65 GTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
* * *
20135 TGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 TGTGGGCTTTGGAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
20181 GAAAAAATGC
Statistics
Matches: 1284, Mismatches: 32, Indels: 55
0.94 0.02 0.04
Matches are distributed among these distances:
92 5 0.00
93 48 0.04
94 1 0.00
95 3 0.00
96 1 0.00
98 217 0.17
99 3 0.00
100 865 0.67
101 38 0.03
102 22 0.02
103 42 0.03
104 16 0.01
105 17 0.01
106 6 0.00
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (100 bp):
TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
Found at i:19066 original size:166 final size:164
Alignment explanation
Indices: 18739--20177 Score: 2406
Period size: 166 Copynumber: 8.7 Consensus size: 164
18729 CACCAACTTG
* * * * * *
18739 TGTGGGCTTTAGGAAGGAAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTT-GGAAAG-AAGAAGGTGCCACGGAGTTGTGGGCTTTAAA--GAAGAAG-GTGCCA
* * * *
18804 CGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
61 CGGAGTTGTGGGCTTTAAAA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-G
*
18869 TGCCATGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
122 TGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
18912 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAGAAGGTGCCACGG
18977 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
64 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
19042 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
19078 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAGAAGGTGCCACGG
19143 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
64 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
19208 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
19244 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAGAAGGTGCCACGG
19309 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
64 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
19374 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
19410 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAGAAGGTGCCACGG
19475 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
64 AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
19540 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
*
19576 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAG
*
19641 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
66 TTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
19706 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
*
19742 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAG
*
19807 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
66 TTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
19872 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
*
19908 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAG
*
19973 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
66 TTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACG
20038 GAGTTGTGGGCTTTTAAAAAAGAAGGTGCCACGGAGT
129 GAGTTGTGGGC-TTTAAAAAAGAAGGTGCCACGGAGT
* *
20075 TGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--A-AAG-A-GTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAG
* *
20134 TTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
66 TTGTGGGCTTTAAAA--AAGAAGGTGCCACGGAGTTGTGGGCTTT
20178 AAAGAAAAAA
Statistics
Matches: 1241, Mismatches: 18, Indels: 27
0.97 0.01 0.02
Matches are distributed among these distances:
158 3 0.00
160 29 0.02
161 18 0.01
162 1 0.00
163 3 0.00
164 32 0.03
166 1010 0.81
167 41 0.03
169 30 0.02
170 26 0.02
171 30 0.02
172 5 0.00
173 13 0.01
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (164 bp):
TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAGGTGCCACGGAG
TTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGA
GTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
Found at i:20129 original size:27 final size:27
Alignment explanation
Indices: 20092--20182 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
20082 TTTAAAAGAA
20092 AAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
* *
20118 AAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
20145 AAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAA-G----A-GTGCCACGGAGTTGTGGGCTTT
20178 AAAGA
1 AAAGA
20183 AAAAATGCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.07
27 23 0.43
28 2 0.04
32 2 0.04
33 23 0.43
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:20219 original size:30 final size:31
Alignment explanation
Indices: 20186--20305 Score: 163
Period size: 31 Copynumber: 3.9 Consensus size: 31
20176 TTAAAGAAAA
20186 AATGCCACTGAGTCGTGGACTTTGAGACAA-
1 AATGCCACTGAGTCGTGGACTTTGAGACAAG
* *
20216 AATGCCACTGAGTCGTGGACTTTAAAGAGAAG
1 AATGCCACTGAGTCGTGGACTTT-GAGACAAG
* *
20248 GATGCCACTGCGTCGTGGACTTTGAG-CAGAG
1 AATGCCACTGAGTCGTGGACTTTGAGACA-AG
*
20279 ATTGCCACTGAGTCGTGGACTTTGAGA
1 AATGCCACTGAGTCGTGGACTTTGAGA
20306 AGAGATTTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
30 24 0.31
31 32 0.42
32 21 0.27
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (31 bp):
AATGCCACTGAGTCGTGGACTTTGAGACAAG
Found at i:20264 original size:62 final size:63
Alignment explanation
Indices: 20157--20310 Score: 197
Period size: 62 Copynumber: 2.4 Consensus size: 63
20147 AGGAACAAGG
* * *
20157 TGCCACGGAGTTGTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAA
** * *
20218 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
20281 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTT-A-AAGAGA
20311 TTTGAAGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
61 25 0.31
62 27 0.33
63 22 0.27
64 1 0.01
65 6 0.07
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
Found at i:25322 original size:21 final size:21
Alignment explanation
Indices: 25298--25340 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25288 ATCAAAATGA
25298 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
25319 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
25340 C
1 C
25341 TCCTGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
CATTCATTGCATGACGAGATG
Found at i:28632 original size:52 final size:52
Alignment explanation
Indices: 28562--28682 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
28552 GAAAATTTAT
*
28562 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
28614 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
28666 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
28683 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:28868 original size:101 final size:98
Alignment explanation
Indices: 28693--29227 Score: 827
Period size: 101 Copynumber: 5.3 Consensus size: 98
28683 AAGATCAGTG
*
28693 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
28758 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
28794 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
28859 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
28895 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
28960 CAGCTACATTGGACTTAAAGATGAAGGTGCCAA
66 CAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * * * *
28993 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAA
*
29058 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
63 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * * * *
29094 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAA
*
29159 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
63 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* *
29195 TATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTA
29228 GAAGGGTTGC
Statistics
Matches: 419, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
98 45 0.11
99 1 0.00
100 1 0.00
101 372 0.89
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (98 bp):
TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGGTGCCAA
Found at i:28971 original size:150 final size:147
Alignment explanation
Indices: 28695--29227 Score: 832
Period size: 150 Copynumber: 3.5 Consensus size: 147
28685 GATCAGTGTA
* * * * *
28695 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * * *
28760 GCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 GCTATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
28825 TAAAGATGAAGGTGCCAATG
128 TAAAGATGAAGGTGCCAATG
28845 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGG
28910 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
63 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
28975 TAAAGATGAAGGTGCCAATG
128 TAAAGATGAAGGTGCCAATG
28995 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGG
29060 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
63 CCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
*
29125 TAAAGATGGAAAAGGTGCCAATA
128 TAAAGAT-G--AAGGTGCCAATG
* * *
29148 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAGGGCCA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
*
29213 GCTATATTGGGCTTA
66 GCTATATTGGACTTA
29228 GAAGGGTTGC
Statistics
Matches: 363, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
150 269 0.74
151 2 0.01
152 2 0.01
153 90 0.25
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (147 bp):
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
GCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
AGATGAAGGTGCCAATG
Found at i:29145 original size:251 final size:251
Alignment explanation
Indices: 28693--29227 Score: 1016
Period size: 251 Copynumber: 2.1 Consensus size: 251
28683 AAGATCAGTG
*
28693 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
28758 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
66 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
28823 CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
131 CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
28888 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
196 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
* * *
28944 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
29009 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
66 CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
29074 CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
131 CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
29139 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
196 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
* *
29195 TATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 TATGCTGATTCAAGGCCAGCTATATTGGACTTA
29228 GAAGGGTTGC
Statistics
Matches: 275, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
251 275 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (251 bp):
TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGC
CAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
CTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAA
Found at i:29271 original size:33 final size:33
Alignment explanation
Indices: 29227--29297 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
29217 TATTGGGCTT
*
29227 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
29260 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
29293 -GAAGG
1 AGAAGG
29298 AAAAAAGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:29493 original size:66 final size:65
Alignment explanation
Indices: 29298--30186 Score: 1203
Period size: 66 Copynumber: 13.5 Consensus size: 65
29288 TTTAGGAAGG
* * * *
29298 AAAA-AAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTT
29361 TAA
63 TAA
* * * *
29364 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGC
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTG-AAA--GAAGAAG-GTGCCACGGAGTTGTGGGC
29429 TTTAA
61 TTTAA
29434 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
29499 A
65 A
29500 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
29565 A
65 A
29566 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
29631 A
65 A
*
29632 AAAAGAAAGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
29697 GAA
64 -AA
* *
29700 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
29764 AA
64 AA
* *
29766 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
29830 AA
64 AA
* *
29832 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
29896 AA
64 AA
* *
29898 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
29962 AA
64 AA
*
29964 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTT
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TTT
30029 AA
64 AA
* *
30031 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
* * *
30094 -AAAG-A-GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTA
30155 A
65 A
* * * *
30156 AGAAA-AA-ATGCCACTGAGTCGTGGACTTTGA
1 A-AAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
30187 GACAAAATGC
Statistics
Matches: 783, Mismatches: 23, Indels: 35
0.93 0.03 0.04
Matches are distributed among these distances:
59 6 0.01
60 46 0.06
61 1 0.00
62 4 0.01
64 20 0.03
65 6 0.01
66 511 0.65
67 39 0.05
68 77 0.10
69 34 0.04
70 39 0.05
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (65 bp):
AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
Found at i:29682 original size:232 final size:230
Alignment explanation
Indices: 29281--30153 Score: 1334
Period size: 232 Copynumber: 3.8 Consensus size: 230
29271 CACCAACTTG
* * * * *
29281 TGTGGGCTTTAGGAAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTT-GGAAAG-AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA---AAGAAG-GTGCC
* *
29345 ACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
60 ACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA---AAGAA-A
* *
29410 GTGCCATGGAGTTGTGGGCTTT-AAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGA
120 GTGCCACGGAGTTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGA
29474 AGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
185 AGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
29520 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
* *
29585 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAGTGCCACGGA
66 TTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAGTGCCACGGA
29650 GTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCAC
130 GTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCAC
29715 GGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
194 GGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
29752 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
* * *
29817 TTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGA
66 TTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAGTGCCACGGA
*
29882 GTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCAC
130 GTTGTGGGCTTT-GAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCAC
*
29945 GGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGT
194 GGAGTTGTGGGCTTT--AAAAAAGAAGGTGCCACGGAGT
29984 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTTAAAAAAGAAGGTGCCACGGA
1 TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TTTAAAAAAGAAGGTGCCACGGA
30049 GTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT---AAAG--AGTGCCACGGA
65 GTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAGTGCCACGGA
* * *
30109 GTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
130 GTTGTGGGCTTTGAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTT
30154 AAAGAAAAAA
Statistics
Matches: 606, Mismatches: 20, Indels: 29
0.93 0.03 0.04
Matches are distributed among these distances:
225 3 0.00
226 30 0.05
227 18 0.03
229 4 0.01
230 53 0.09
231 4 0.01
232 355 0.59
233 35 0.06
234 26 0.04
235 35 0.06
237 22 0.04
238 11 0.02
239 10 0.02
ACGTcount: A:0.30, C:0.12, G:0.37, T:0.21
Consensus pattern (230 bp):
TGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAG
TTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAAGTGCCACGGAG
TTGTGGGCTTTGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGG
AGTTGTGGGCTTTAAAAAAGAAGGTGCCACGGAGT
Found at i:30105 original size:27 final size:27
Alignment explanation
Indices: 30068--30158 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
30058 TTTAAAAGAA
30068 AAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
* *
30094 AAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
30121 AAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAA-G----A-GTGCCACGGAGTTGTGGGCTTT
30154 AAAGA
1 AAAGA
30159 AAAAATGCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.07
27 23 0.43
28 2 0.04
32 2 0.04
33 23 0.43
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:30195 original size:30 final size:31
Alignment explanation
Indices: 30162--30281 Score: 163
Period size: 31 Copynumber: 3.9 Consensus size: 31
30152 TTAAAGAAAA
30162 AATGCCACTGAGTCGTGGACTTTGAGACAA-
1 AATGCCACTGAGTCGTGGACTTTGAGACAAG
* *
30192 AATGCCACTGAGTCGTGGACTTTAAAGAGAAG
1 AATGCCACTGAGTCGTGGACTTT-GAGACAAG
* *
30224 GATGCCACTGCGTCGTGGACTTTGAG-CAGAG
1 AATGCCACTGAGTCGTGGACTTTGAGACA-AG
*
30255 ATTGCCACTGAGTCGTGGACTTTGAGA
1 AATGCCACTGAGTCGTGGACTTTGAGA
30282 AGAGATTTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
30 24 0.31
31 32 0.42
32 21 0.27
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (31 bp):
AATGCCACTGAGTCGTGGACTTTGAGACAAG
Found at i:30240 original size:62 final size:63
Alignment explanation
Indices: 30133--30286 Score: 197
Period size: 62 Copynumber: 2.4 Consensus size: 63
30123 AGGAACAAGG
* * *
30133 TGCCACGGAGTTGTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAA
** * *
30194 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
30257 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTT-A-AAGAGA
30287 TTTGAAGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
61 25 0.31
62 27 0.33
63 22 0.27
64 1 0.01
65 6 0.07
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
Found at i:31146 original size:33 final size:33
Alignment explanation
Indices: 31050--31165 Score: 137
Period size: 33 Copynumber: 3.5 Consensus size: 33
31040 TATGCCACTA
31050 AGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGG
1 AGTCGTGGACTTAAAAGGAAC-AAG-GTGCCACGG
* ** *
31085 AGTCGTGGGCTTTGAA--AAGAAGGTGCCACGG
1 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
*
31116 AGTCGTGCACTTAAAAGGAACAAGGTGCCACGG
1 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
*
31149 AGTTGTGGACTTTAAAA
1 AGTCGTGGAC-TTAAAA
31166 AGGTATTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
31 21 0.31
32 3 0.04
33 24 0.36
34 6 0.09
35 13 0.19
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (33 bp):
AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG
Found at i:32111 original size:1 final size:1
Alignment explanation
Indices: 32107--32166 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
32097 TGAAAAAGGG
* * * * * * *
32107 TTTTTTCTTTTTTTTTTGTTTTTGTTTTGTTTTTTTTATTTTTTATTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
32167 GTGAAGATTA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.03, C:0.03, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:39374 original size:52 final size:52
Alignment explanation
Indices: 39226--39351 Score: 243
Period size: 52 Copynumber: 2.4 Consensus size: 52
39216 CGAAATATGA
39226 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
39278 AAATTTGCCTGCATGTATCTATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
39330 AAATTTGCCTGCATGTATCGAT
1 AAATTTGCCTGCATGTATCGAT
39352 GCAAAGATCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:39381 original size:13 final size:13
Alignment explanation
Indices: 39363--39387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39353 CAAAGATCAG
39363 TGTATCGATACAA
1 TGTATCGATACAA
39376 TGTATCGATACA
1 TGTATCGATACA
39388 TTTGAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:39452 original size:19 final size:18
Alignment explanation
Indices: 39428--39525 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
39418 TAGCTTATAT
39428 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
39447 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
39460 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
39479 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
39492 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
39512 TGTGTCGATACAAA
1 TGTATCGATACAAA
39526 TCGTTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.37
20 12 0.18
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:39465 original size:13 final size:13
Alignment explanation
Indices: 39447--39503 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
39437 ACAAAACTTA
39447 TGTATCGATACAT
1 TGTATCGATACAT
39460 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
39478 ATGTATCGATACAT
1 -TGTATCGATACAT
39492 TGTATCGATACA
1 TGTATCGATACA
39504 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:39467 original size:32 final size:32
Alignment explanation
Indices: 39426--39523 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
39416 AATAGCTTAT
*
39426 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
39458 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
39490 ATTGTATCGATACAACACTTTATGTGTCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
39523 A
1 A
39524 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.78
33 14 0.22
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:39867 original size:18 final size:18
Alignment explanation
Indices: 39836--39886 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
39826 ATAATTAACT
39836 TAAACAAATATAAATTATA
1 TAAA-AAATATAAATTATA
* *
39855 TAAAAATTATAAA-AATA
1 TAAAAAATATAAATTATA
39872 TAAAAAAT-TAAATTA
1 TAAAAAATATAAATTA
39887 ATTTTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 8 0.30
19 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAATATAAATTATA
Found at i:42798 original size:34 final size:35
Alignment explanation
Indices: 42760--42832 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
42750 TAAAAATCCA
*
42760 AAAAATCAAAAATTTTGAAAAAAA-A-TAAAAA-AAT
1 AAAAATCAAAAA-TCT-AAAAAAATATTAAAAATAAT
*
42794 AAAAATCTAAAATCTAAAAAAATATTAAAAATAAT
1 AAAAATCAAAAATCTAAAAAAATATTAAAAATAAT
42829 AAAA
1 AAAA
42833 TAAAGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 7 0.21
33 3 0.09
34 17 0.50
35 7 0.21
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (35 bp):
AAAAATCAAAAATCTAAAAAAATATTAAAAATAAT
Found at i:42798 original size:35 final size:33
Alignment explanation
Indices: 42745--42832 Score: 79
Period size: 34 Copynumber: 2.5 Consensus size: 33
42735 ATTAAAAATT
*** *
42745 AAAAATAAAAATCCAAAAAATCAAAAATTTTGAAA
1 AAAAATAAAAAAATAAAAAATCAAAAA-TCT-AAA
*
42780 AAAAATAAAAAAAT-AAAAATCTAAAATCTAAA
1 AAAAATAAAAAAATAAAAAATCAAAAATCTAAA
42812 AAAATATTAAAAATAATAAAA
1 AAAA-A-TAAAAA-AATAAAA
42833 TAAAGAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 7 0.16
33 3 0.07
34 17 0.39
35 14 0.32
36 3 0.07
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.20
Consensus pattern (33 bp):
AAAAATAAAAAAATAAAAAATCAAAAATCTAAA
Found at i:42814 original size:43 final size:43
Alignment explanation
Indices: 42745--42842 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
42735 ATTAAAAATT
* *
42745 AAAAATAAAAATCCAAAAAAT-CAAAAATTTTGAAAAAAAATAA
1 AAAAATAAAAATCCAAAAAATAAAAAAATATT-AAAAAAAATAA
* ** *
42788 AAAAATAAAAATCTAAAATCTAAAAAAATATTAAAAATAATAA
1 AAAAATAAAAATCCAAAAAATAAAAAAATATTAAAAAAAATAA
*
42831 AATAAAGAAAAA
1 AA-AAATAAAAA
42843 AACGTGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 30 0.65
44 16 0.35
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.19
Consensus pattern (43 bp):
AAAAATAAAAATCCAAAAAATAAAAAAATATTAAAAAAAATAA
Found at i:42832 original size:17 final size:18
Alignment explanation
Indices: 42785--42834 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
42775 TGAAAAAAAA
42785 TAAAAA-AATAAAA-ATC
1 TAAAAATAATAAAATATC
* *
42801 TAAAATCTAAAAAAATAT-
1 TAAAA-ATAATAAAATATC
42819 TAAAAATAATAAAATA
1 TAAAAATAATAAAATA
42835 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 11 0.41
19 2 0.07
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAATAATAAAATATC
Found at i:43097 original size:26 final size:26
Alignment explanation
Indices: 43057--43111 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
43047 AAAGAGGAAC
*
43057 GAACGGGAGCTCGAGCAAGGAAGAAT
1 GAACGGGAGCCCGAGCAAGGAAGAAT
*
43083 GAACGGTAGCCCGAGCAAGGAAGAAT
1 GAACGGGAGCCCGAGCAAGGAAGAAT
43109 GAA
1 GAA
43112 TAGCAGCTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.16, G:0.36, T:0.07
Consensus pattern (26 bp):
GAACGGGAGCCCGAGCAAGGAAGAAT
Found at i:43123 original size:26 final size:26
Alignment explanation
Indices: 43064--43126 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
43054 AACGAACGGG
* *
43064 AGCTCGAGCAAGGAAGAATGAACGGT
1 AGCTCGAGCAAGGAAGAATGAACAGC
* *
43090 AGCCCGAGCAAGGAAGAATGAATAGC
1 AGCTCGAGCAAGGAAGAATGAACAGC
43116 AGCTCGAGCAA
1 AGCTCGAGCAA
43127 AGAGCAAGAG
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:0.40, C:0.19, G:0.32, T:0.10
Consensus pattern (26 bp):
AGCTCGAGCAAGGAAGAATGAACAGC
Found at i:46208 original size:9 final size:10
Alignment explanation
Indices: 46185--46211 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
46175 AAAATATTTC
46185 AAAAATCTAG
1 AAAAATCTAG
46195 AAAAATCTAG
1 AAAAATCTAG
46205 AAAAATC
1 AAAAATC
46212 GTTTTCTAGG
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:0.63, C:0.11, G:0.07, T:0.19
Consensus pattern (10 bp):
AAAAATCTAG
Found at i:46395 original size:10 final size:11
Alignment explanation
Indices: 46373--46401 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
46363 GAAGTTTTTA
46373 TGAAAAATGTT
1 TGAAAAATGTT
46384 TGAAAAAT-TT
1 TGAAAAATGTT
46394 TGAAAAAT
1 TGAAAAAT
46402 CATCTAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:47596 original size:18 final size:18
Alignment explanation
Indices: 47567--47620 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
47557 TACCTTTTTG
*
47567 TTTCTATTTCT-TCTCTTT
1 TTTCT-TTTCTCTTTCTTT
47585 TTTC-TTTCTC-TT-TTT
1 TTTCTTTTCTCTTTCTTT
*
47600 TTTCTTTTTTCTTTCTTT
1 TTTCTTTTCTCTTTCTTT
47618 TTT
1 TTT
47621 TTAGTTGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 7 0.23
16 11 0.37
17 2 0.07
18 10 0.33
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTCTCTTTCTTT
Found at i:47603 original size:11 final size:11
Alignment explanation
Indices: 47548--47622 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 11
47538 GCTAGCCTTA
47548 TTTTTTTTCTACC
1 TTTTTTTTCT--C
*
47561 TTTTTGTT-TC
1 TTTTTTTTCTC
* *
47571 TATTTCTTCTC
1 TTTTTTTTCTC
47582 TTTTTTCTTTCTC
1 -TTTTT-TTTCTC
47595 TTTTTTTTCT-
1 TTTTTTTTCTC
47605 TTTTTCTTTCT-
1 TTTTT-TTTCTC
47616 TTTTTTT
1 TTTTTTT
47623 AGTTGAACCT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
10 14 0.26
11 17 0.32
12 10 0.19
13 12 0.23
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:47620 original size:22 final size:22
Alignment explanation
Indices: 47550--47622 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
47540 TAGCCTTATT
* *
47550 TTTTTTCTACCTTTTTGTTTCTA
1 TTTTTTCT-CTTTTTTCTTTCTA
* *
47573 TTTCTTCTCTTTTTTCTTTCTC
1 TTTTTTCTCTTTTTTCTTTCTA
* *
47595 TTTTTTTTCTTTTTTCTTTCTT
1 TTTTTTCTCTTTTTTCTTTCTA
47617 TTTTTT
1 TTTTTT
47623 AGTTGAACCT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 36 0.84
23 7 0.16
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTTTTCTCTTTTTTCTTTCTA
Found at i:49179 original size:118 final size:115
Alignment explanation
Indices: 49017--49656 Score: 425
Period size: 114 Copynumber: 5.6 Consensus size: 115
49007 GACTTGTGTG
* *
49017 GACTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AGAGAAGGGTGCCACTAACTTGTGGG
1 GACTTTGAAAAGGG-TGCCACTGACTTGT-T-GGCTTTGA-AGAAGGATGCCACTAACTTGTGGG
* *
49081 CTTTAAAAGGATGCCACGGAGTTGTCGAC-TT-AAAATTGATGCCACTGACTTGTA
62 CTTTAAAAGGATGCCACGGACTTGTCGACTTTGAAAA--GATGCCACTGACTGGTA
* * * * *
49135 GACTTTGAAAAGGGTGCCACTGACTTGTTAGCTTTGAAAAAGAAGATGCCACTAACTTATAGACT
1 GACTTTGAAAAGGGTGCCACTGACTTGTTGGCTTTGAAGAAG--GATGCCACTAACTTGTGGGC-
* * *
49200 TTTGAAAA-GATGCCACTGACTTGTGGACTTTGAAAAGATGCCACTGACTGGTG
63 TTT-AAAAGGATGCCACGGACTTGTCGACTTTGAAAAGATGCCACTGACTGGTA
* * * * *
49253 GGCTTTG-AAAGGGTGCCATTAACTTGTTGGCTTTG-A-AAGGTTGCCACTGACTTGTGGGCTTT
1 GACTTTGAAAAGGGTGCCACTGACTTGTTGGCTTTGAAGAAGGATGCCACTAACTTGTGGGCTTT
* * * * * * * * * * ** *
49315 GAAAGGGTGCCACTGACCTATGGGCTTTGAAAGGGTGCCACTGATTTCTG
66 AAAAGGATGCCACGGACTTGTCGACTTTGAAAAGATGCCACTGACTGGTA
* * * * **
49365 GGCTTTG-GAAGGGTGCCACTGATTTGTGTGGGCTTTG-A-AAGGGTGCCACCGACTTGTGGGCT
1 GACTTTGAAAAGGGTGCCACTGACTTGT-T-GGCTTTGAAGAAGGATGCCACTAACTTGTGGGCT
** * * * * *
49427 TTGAAAA-GATGCCACTCACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTG
64 TT-AAAAGGATGCCACGGACTTGTCGACTTTGAAAAGATGCCACTGACTGGTA
** * * *
49479 GGTTTTGAAAA-GATGCCACTGATTTGTGTGGGCTTTG-AGAAGGATGCCACTGACTTGTGGGCT
1 GACTTTGAAAAGGGTGCCACTGACTTGT-T-GGCTTTGAAGAAGGATGCCACTAACTTGTGGGCT
** * ** * * *
49542 TTAAGAAAAATGCTATTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGT-
64 TTAA-AAGGATGCCACGGACTTGTCGACTTTGAAAA-GATGCCACTGACTGGTA
** * * * * *
49594 GAGCTTTG-AAAGAATGTCACTGACTTGTGGGCTTTG-A-AATGATGCCACTAACCTATGGGCTT
1 GA-CTTTGAAAAGGGTGCCACTGACTTGTTGGCTTTGAAGAAGGATGCCACTAACTTGTGGGCTT
49656 T
65 T
49657 GAAGAGATGA
Statistics
Matches: 439, Mismatches: 65, Indels: 41
0.81 0.12 0.08
Matches are distributed among these distances:
111 3 0.01
112 62 0.14
113 38 0.09
114 112 0.26
115 50 0.11
116 55 0.13
117 54 0.12
118 55 0.13
119 6 0.01
120 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (115 bp):
GACTTTGAAAAGGGTGCCACTGACTTGTTGGCTTTGAAGAAGGATGCCACTAACTTGTGGGCTTT
AAAAGGATGCCACGGACTTGTCGACTTTGAAAAGATGCCACTGACTGGTA
Found at i:49642 original size:258 final size:256
Alignment explanation
Indices: 49045--49642 Score: 668
Period size: 258 Copynumber: 2.3 Consensus size: 256
49035 CACCGACTTG
* * * * * *
49045 TGTGGGCTTTAGAGAAGGGTGCCACTAACTTGTGGGCTTTAAAAGGATGCCACGGAGTTGTCGAC
1 TGTGGGCTTTA-A-AAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
49110 -TTAAAATTGATGCCACTGACTTGTAGACTTTGAAAAGGGTGCCACTGACTTGTTAGCTTTGAAA
64 TTTGAAA-TGATGCCACTGACTTGTAGACTTTGAAAAGGGTGCCACCGACTTGTGAGCTTTG--A
49174 AAGAAGATGCCACTAACTTATAGACTTTTGAAAAGATGCCACTGACTTGTGGACTTTGAAAAGAT
126 AAGAAGATGCCACTAACTTATAGACTTTTGAAAAGATGCCACTGACTTGTGGACTTTGAAAAGAT
* * * **
49239 GCCACTGACTGGTGGGCTTTGAAAGGGTGCCATTAACTTGTTGGCTTTGAAAGGTTGCCACTGAC
191 GCCACTGACTGGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGAATGCCACTGAC
49304 T
256 T
* * * * * *
49305 TGTGGGCTTTGAAAGGGTGCCACTGACCTATGGGCTTTGAAAGGGTGCCACTGATTTCTGGGCTT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* * * * * * *
49370 TGGAAGGGTGCCACTGATTTGTGTGGGCTTTG-AAAGGGTGCCACCGACTTGTGGGCTTTG-AA-
66 TGAAATGATGCCACTGA-CT-TGTAGACTTTGAAAAGGGTGCCACCGACTTGTGAGCTTTGAAAG
* * * * * **
49432 AAGATGCCACTCACTTGTGGGC-TTTGAAAGGATGCCACTGACTTGTGGGTTTTGAAAAGATGCC
129 AAGATGCCACTAACTTATAGACTTTTGAAAAGATGCCACTGACTTGTGGACTTTGAAAAGATGCC
* * * *
49496 ACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTAAGAAA-AATGCTATTG
194 ACTGA-CTG-GTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTT--GAAAGAATGCCACTG
49560 ACT
254 ACT
* * * *
49563 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGAGCTTTGAAAGAATGTCACTGACTTGTGGGCTT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
49628 TGAAATGATGCCACT
66 TGAAATGATGCCACT
49643 AACCTATGGG
Statistics
Matches: 280, Mismatches: 50, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
254 44 0.16
255 20 0.07
256 13 0.05
257 22 0.08
258 127 0.45
259 35 0.12
260 19 0.07
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (256 bp):
TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TGAAATGATGCCACTGACTTGTAGACTTTGAAAAGGGTGCCACCGACTTGTGAGCTTTGAAAGAA
GATGCCACTAACTTATAGACTTTTGAAAAGATGCCACTGACTTGTGGACTTTGAAAAGATGCCAC
TGACTGGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGAATGCCACTGACT
Found at i:49665 original size:28 final size:28
Alignment explanation
Indices: 48981--49659 Score: 590
Period size: 28 Copynumber: 23.5 Consensus size: 28
48971 CACAAACTTG
* *
48981 TGTGGGCTTTGAAGGGGGTTGCCA-TCGACT
1 TGTGGGCTTTGAA--AGGATGCCACT-GACT
* *
49011 TGTGTGGACTTTGAAAAGGGTTGCCACCGACTT
1 TGTG-GG-CTTTG-AAA-GGATGCCACTGAC-T
* *
49044 GTGTGGGCTTTAGAGAAGGGTGCCACTAACT
1 -TGTGGGCTTT-GA-AAGGATGCCACTGACT
* * *
49075 TGTGGGCTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
49103 TGTCGAC-TTAAAATTGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
49131 TGTAGACTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
** *
49160 TGTTAGCTTTGAAAAAGAAGATGCCACTAACT
1 TGTGGGCTTTG--AAAG--GATGCCACTGACT
* * * *
49192 TATAGACTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
49221 TGTGGACTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
49249 GGTGGGCTTTGAAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
49277 TGTTGGCTTTGAAAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
49305 TGTGGGCTTTGAAAGGGTGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
49333 TATGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
49361 TCTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* *
49390 GTGTGGGCTTTGAAAGGGTGCCACCGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
49419 TGTGGGCTTTGAAAAGATGCCACTCACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
49447 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
49475 TGTGGGTTTTGAAAAGATGCCACTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
49504 GTGTGGGCTTTGAGAAGGATGCCACTGACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACT
* * *
49534 TGTGGGCTTTAAGAAA-AATGCTATTGACT
1 TGTGGGCTTT--GAAAGGATGCCACTGACT
*
49563 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
49591 TGTGAGCTTTGAAAGAATGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
49619 TGTGGGCTTTGAAATGATGCCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
49647 TATGGGCTTTGAA
1 TGTGGGCTTTGAA
49660 GAGATGAACG
Statistics
Matches: 540, Mismatches: 85, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
27 9 0.02
28 316 0.59
29 74 0.14
30 59 0.11
31 21 0.04
32 45 0.08
33 12 0.02
34 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:51793 original size:55 final size:55
Alignment explanation
Indices: 51708--52658 Score: 1619
Period size: 55 Copynumber: 17.3 Consensus size: 55
51698 TCCACTTTTT
*
51708 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* **
51763 GGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCCTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
51818 AGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
51873 AGTCCTCAAAGTGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
51928 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
51983 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
52038 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
52093 AGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
52148 AGTCCTCAAAGGGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
52203 AGTCCTCAAAGGGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
52258 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
52313 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
52368 AGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
52423 AGTCCTCAAAGGGCAGGACACCTCTCAGAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
52478 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
52533 CGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
52588 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
52643 AGTCCTCAAAGAGCAG
1 AGTCCTCAAAGAGCAG
52659 AATACACTTT
Statistics
Matches: 861, Mismatches: 30, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
54 6 0.01
55 850 0.99
56 5 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:53506 original size:19 final size:19
Alignment explanation
Indices: 53482--53549 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
53472 AATTCAACAA
53482 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
53501 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
53516 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
53533 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
53550 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:53521 original size:13 final size:13
Alignment explanation
Indices: 53503--53527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53493 ACATAAGTTT
53503 TGTATCGATACAA
1 TGTATCGATACAA
53516 TGTATCGATACA
1 TGTATCGATACA
53528 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:53525 original size:32 final size:32
Alignment explanation
Indices: 53484--53546 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
53474 TTCAACAATT
*
53484 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
53516 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
53547 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:53607 original size:13 final size:13
Alignment explanation
Indices: 53589--53614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53579 CATTTTTCTG
53589 TGTATCGATACAT
1 TGTATCGATACAT
53602 TGTATCGATACAT
1 TGTATCGATACAT
53615 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53611 original size:33 final size:33
Alignment explanation
Indices: 53569--53635 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
53559 GCCAAGGAAA
***
53569 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
53602 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
53635 T
1 T
53636 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:56154 original size:28 final size:27
Alignment explanation
Indices: 56090--56158 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
56080 TCACAATCGA
*
56090 GGATACTCCAACCCCGTTAATCATCGG
1 GGATACTCCAACCCCGTTAATCATAGG
* *
56117 GGATACTCCAATCCCGTTATTTC-TGAGG
1 GGATACTCCAACCCCGTTA-ATCAT-AGG
56145 GGATACTCCAACCC
1 GGATACTCCAACCC
56159 TGATTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 19 0.53
28 17 0.47
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTAATCATAGG
Found at i:56209 original size:52 final size:50
Alignment explanation
Indices: 56143--56313 Score: 148
Period size: 52 Copynumber: 3.3 Consensus size: 50
56133 TTATTTCTGA
56143 GGGGATACTCCAACCCTGATTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCC-GATTTTATT-CTAAAACACTAATTTTTCCACAATC
* * * ** * **
56195 GGGGATATTCCAACCCCGGTTTTATTTTCAAAACGTTAA-TTTCCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTCT-AAAACACTAATTTTTCC-ACAATC
* * *
56247 GGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGATTTTA--TTCTAAAACACTAATTTTTCCACAATC
*
56299 GAGGATACTCCAACC
1 GGGGATACTCCAACC
56314 TCGTTATTTC
Statistics
Matches: 92, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
51 8 0.09
52 69 0.75
53 10 0.11
54 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTCTAAAACACTAATTTTTCCACAATC
Found at i:56296 original size:104 final size:103
Alignment explanation
Indices: 55975--56313 Score: 287
Period size: 104 Copynumber: 3.2 Consensus size: 103
55965 CTCAATTCTC
* * * * * * *
55975 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTT-TCTATAATCGGGGAT
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAAC-TTAATTTCCCTTTAATCGGGGAT
*
56039 ACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC--AAAAACACCAATTT-TT
* ** * * * * *
56081 CACAATCGAGGATACTCCAACCCC-G-TTAATCATCGGGGATACTCCAA--TCCCGTTATTTCTG
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTC---AAAACT-TAATTTCCCTTTA-ATC--
* * *
56142 AGGGGATACTCCAAC-CCTGATTTTA-TTGCTAAAACACTAATTTTT
59 -GGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTT
* *
56187 CCACAATCGGGGATATTCCAACCCCGGTTTTATTTTCAAAACGTTAATTTCCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAAC-TTAATTTCCCTTTAATCGGGGA
* *
56252 TACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
56292 CACAATCGAGGATACTCCAACC
1 CACAATCGAGGATACTCCAACC
56314 TCGTTATTTC
Statistics
Matches: 180, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
104 47 0.26
105 19 0.11
106 31 0.17
107 44 0.24
108 8 0.04
109 11 0.06
110 20 0.11
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACTTAATTTCCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:56333 original size:28 final size:28
Alignment explanation
Indices: 56301--56372 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
56291 TCACAATCGA
* *
56301 GGATACTCCAACCTCGTTATTTCATC-A-G
1 GGATACTCCAACCCCGTTACTTC--CGAGG
56329 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
56357 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
56373 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 38 0.95
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Found at i:56363 original size:212 final size:212
Alignment explanation
Indices: 55973--56370 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
55963 TTCTCAATTC
* *
55973 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACTAATTTCCTATAATCGGGGA
*
56038 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * * *
56103 CCGTTAATCATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTAT
130 CCGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCTGATTTTAT
56168 TGCTAAAACACTAATTTT
195 TGCTAAAACACTAATTTT
* ** *
56186 TCCACAATCGGGGATATTCCAACCCCGGTTTTATTTTCAAAACGTTAATTTCCCTTTAATCGGGG
1 TCCACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACTAATTT-CCTATAATCGGGG
* *
56251 ATACTCCAACTCCGATTTTATTTTC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* *
56314 TCGTTATTTCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCC
130 CCGTTA-ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCC
56371 CGGCTTTATT
Statistics
Matches: 168, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.17
212 58 0.35
213 47 0.28
214 34 0.20
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACTAATTTCCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCTGATTTTATT
GCTAAAACACTAATTTT
Found at i:56438 original size:28 final size:29
Alignment explanation
Indices: 56406--56460 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
56396 TATCATATTT
56406 GGGGATACTCCAACCCCG-TTATTTTCGA
1 GGGGATACTCCAACCCCGATTATTTTCGA
* *
56434 GGGGATACTCCAATCCCGATTTTTTTC
1 GGGGATACTCCAACCCCGATTATTTTC
56461 TCTAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTCGA
Found at i:56472 original size:79 final size:79
Alignment explanation
Indices: 56328--56527 Score: 222
Period size: 79 Copynumber: 2.5 Consensus size: 79
56318 TATTTCATCA
* * *
56328 GGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTG
* ***
56393 ATTTATCATATTTG
66 ATTTATCACAACCG
* * * * *
56407 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTCTC-TAATCATT
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATT
*
56471 GATTTCTCACAACCG
65 GATTTATCACAACCG
* * * * *
56486 GGGATGCTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACC
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
56528 TCGTTATTAT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 3 0.03
79 98 0.97
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTG
ATTTATCACAACCG
Found at i:68749 original size:19 final size:19
Alignment explanation
Indices: 68725--68790 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
68715 TTTCAACGAT
68725 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
68744 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
68758 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
68776 TTGTATCGATACATA
1 TTGTATCGATACATA
68791 TGAAGCTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:68762 original size:32 final size:32
Alignment explanation
Indices: 68726--68788 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
68716 TTCAACGATT
68726 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
68758 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
68789 TATGAAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:68763 original size:13 final size:13
Alignment explanation
Indices: 68745--68769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68735 ACATAAGTGT
68745 TGTATCGATACAA
1 TGTATCGATACAA
68758 TGTATCGATACA
1 TGTATCGATACA
68770 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:68909 original size:52 final size:52
Alignment explanation
Indices: 68865--68993 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
68855 CACTGATCTT
68865 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
* *
68917 TATATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
*
68969 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
68994 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
Found at i:74755 original size:2 final size:2
Alignment explanation
Indices: 74748--74772 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
74738 ACAAACTTGA
74748 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
74773 CATGCTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78210 original size:19 final size:19
Alignment explanation
Indices: 78186--78251 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
78176 TTTCAAAGAT
78186 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
78205 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
78219 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
78237 TTGTATCGATACATA
1 TTGTATCGATACATA
78252 TGAAGCTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:78224 original size:13 final size:13
Alignment explanation
Indices: 78206--78230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78196 ACATAAGTGT
78206 TGTATCGATACAA
1 TGTATCGATACAA
78219 TGTATCGATACA
1 TGTATCGATACA
78231 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:78228 original size:32 final size:32
Alignment explanation
Indices: 78187--78249 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
78177 TTCAAAGATT
78187 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
78219 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
78250 TATGAAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:78311 original size:13 final size:13
Alignment explanation
Indices: 78293--78317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78283 AATACTCAAA
78293 TGTATCGATACAT
1 TGTATCGATACAT
78306 TGTATCGATACA
1 TGTATCGATACA
78318 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:78367 original size:52 final size:52
Alignment explanation
Indices: 78326--78454 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
78316 CACTGATCTT
78326 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
* *
78378 TATATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
* *
78430 TGTATCGATATATGCAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
78455 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
Found at i:80848 original size:21 final size:22
Alignment explanation
Indices: 80803--80856 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
80793 TGGACATGTT
80803 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
80825 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
80846 AAAAATGCATG
1 AAAAATGCATG
80857 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:81742 original size:20 final size:20
Alignment explanation
Indices: 81695--81769 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
81685 AAAAAGACAT
*
81695 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
81714 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
81735 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
81755 AATGTATCGATACAT
1 AATGTATCGATACAT
81770 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:81763 original size:40 final size:39
Alignment explanation
Indices: 81692--81769 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
81682 GGTAAAAAGA
* *
81692 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
81731 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
81770 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:87684 original size:2 final size:2
Alignment explanation
Indices: 87677--87713 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
87667 ACAAACTTGA
87677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87714 CACATGCTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88479 original size:3 final size:3
Alignment explanation
Indices: 88471--88519 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
88461 TTTAAAATCG
88471 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
88519 A
1 A
88520 AGATTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:91751 original size:32 final size:32
Alignment explanation
Indices: 91710--91787 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
91700 TACATTGAAG
91710 AATGTATCGATACATTTAGATTAAAAATCCAT
1 AATGTATCGATACATTTAGATTAAAAATCCAT
91742 AATGTATCGATACATTTAGATTAAAAATCCAT
1 AATGTATCGATACATTTAGATTAAAAATCCAT
91774 AATGTATCGATACA
1 AATGTATCGATACA
91788 AAGCAACTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATTTAGATTAAAAATCCAT
Found at i:93325 original size:36 final size:35
Alignment explanation
Indices: 93285--93369 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 35
93275 ATTATTATTT
*
93285 TTAATAAAATAATT-TTTTTAAATTTAATTATAAATA
1 TTAATAAAATAATTATATTTAAATTT-ATTA-AAATA
* *
93321 TTAATTTAAA-AATTATATTTAAATTTTTTAAAATA
1 TTAA-TAAAATAATTATATTTAAATTTATTAAAATA
*
93356 ATAATATAAATAAT
1 TTAATA-AAATAAT
93370 GAGTCAATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
34 1 0.03
35 11 0.28
36 14 0.35
37 14 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (35 bp):
TTAATAAAATAATTATATTTAAATTTATTAAAATA
Found at i:93330 original size:12 final size:12
Alignment explanation
Indices: 93301--93344 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
93291 AAATAATTTT
93301 TTTAAAT-TTAA
1 TTTAAATATTAA
93312 TTATAAATATTAA
1 TT-TAAATATTAA
*
93325 TTTAAAAATTATA
1 TTTAAATATTA-A
93338 TTTAAAT
1 TTTAAAT
93345 TTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 2 0.07
12 13 0.46
13 13 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTAAATATTAA
Found at i:93353 original size:21 final size:21
Alignment explanation
Indices: 93293--93354 Score: 54
Period size: 25 Copynumber: 2.8 Consensus size: 21
93283 TTTTAATAAA
* *
93293 ATAATTTTTTTAAATTTAATT
1 ATAAATTTTTTAAAATTAATT
93314 ATAAATATTAATTTAAAAATTATATT
1 ATAAAT-TT--TTT-AAAATTA-ATT
93340 -TAAATTTTTTAAAAT
1 ATAAATTTTTTAAAAT
93355 AATAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 10 0.29
22 5 0.15
24 5 0.15
25 11 0.32
26 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATTTTTTAAAATTAATT
Found at i:93840 original size:17 final size:16
Alignment explanation
Indices: 93814--93869 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 16
93804 TAATAATATG
93814 AATATAATATAATAAA
1 AATATAATATAATAAA
93830 AATAGTAATATTATATAAA
1 AATA-TAATA-TA-ATAAA
* *
93849 TATATAA-AT-ATATA
1 AATATAATATAATAAA
93863 AATATAA
1 AATATAA
93870 ATTAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
16 5 0.15
17 6 0.18
18 5 0.15
19 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AATATAATATAATAAA
Found at i:93854 original size:8 final size:8
Alignment explanation
Indices: 93841--93868 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
93831 ATAGTAATAT
93841 TATATAAA
1 TATATAAA
93849 TATATAAA
1 TATATAAA
93857 TATATAAA
1 TATATAAA
93865 TATA
1 TATA
93869 AATTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATATAAA
Found at i:93855 original size:35 final size:34
Alignment explanation
Indices: 93815--93903 Score: 83
Period size: 36 Copynumber: 2.6 Consensus size: 34
93805 AATAATATGA
93815 ATATAATATAATAAAAATAGTAATATTATATAAAT
1 ATATAATATAATAAAAATAGTAAT-TTATATAAAT
* * *
93850 ATATAA-ATATATAAATATAAATTAATTTTTATAAAT
1 ATATAATATA-ATAAA-A-ATAGTAATTTATATAAAT
* *
93886 ACATAATA-AATTAAAATA
1 ATATAATATAATAAAAATA
93904 ATAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
33 2 0.05
34 4 0.09
35 15 0.34
36 16 0.36
37 7 0.16
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (34 bp):
ATATAATATAATAAAAATAGTAATTTATATAAAT
Found at i:94090 original size:21 final size:23
Alignment explanation
Indices: 94052--94093 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
94042 TAGGTATAAT
*
94052 TAAAGGTTAAAGAGTTTATTTGG
1 TAAAGGTTAAAGAATTTATTTGG
94075 TAAAGG-T-AAGAATTTATTT
1 TAAAGGTTAAAGAATTTATTT
94094 TAGTGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (23 bp):
TAAAGGTTAAAGAATTTATTTGG
Found at i:94221 original size:20 final size:20
Alignment explanation
Indices: 94196--94244 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
94186 ATTATTTTAA
94196 ATATAATTATAATAAAAAAT
1 ATATAATTATAATAAAAAAT
** * *
94216 ATATAAAAATAATATAAATT
1 ATATAATTATAATAAAAAAT
94236 AT-TAATTAT
1 ATATAATTAT
94245 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAATTATAATAAAAAAT
Found at i:94483 original size:24 final size:24
Alignment explanation
Indices: 94443--94489 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
94433 TATACTATTT
* *
94443 TAAATATAATTTTAATAAAAAATA
1 TAAATATAATATAAATAAAAAATA
*
94467 TAAATATAATATAAATATAAAAT
1 TAAATATAATATAAATAAAAAAT
94490 TTTTATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAATATAATATAAATAAAAAATA
Found at i:94557 original size:16 final size:16
Alignment explanation
Indices: 94536--94597 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
94526 AATATATATA
*
94536 TAATTAAAATTTAATT
1 TAATTAATATTTAATT
*
94552 TAATTAATTTATTAA-T
1 TAATTAATAT-TTAATT
94568 TAATTAATATTTAA-T
1 TAATTAATATTTAATT
*
94583 AAATTTAATATTTAA
1 TAA-TTAATATTTAA
94598 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.17
16 29 0.73
17 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTAATATTTAATT
Found at i:94606 original size:16 final size:16
Alignment explanation
Indices: 94569--94606 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
94559 TTTATTAATT
*
94569 AATTAATATTTAATAA
1 AATTAATATTTAAAAA
*
94585 ATTTAATATTTAAAAA
1 AATTAATATTTAAAAA
94601 AATTAA
1 AATTAA
94607 AAATTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAATATTTAAAAA
Done.