Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 209 of 322
Found at i:68782592 original size:29 final size:29
Alignment explanation
Indices: 68782555--68782630 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
68782545 TGAAACGAAT
*
68782555 TCTCGATGAACAAGTTCTTCACCATGAAC
1 TCTCAATGAACAAGTTCTTCACCATGAAC
68782584 TCTCAATGAACAAGTTCTTCACCATGAAC
1 TCTCAATGAACAAGTTCTTCACCATGAAC
68782613 TCTCAATGAACAAGTTCT
1 TCTCAATGAACAAGTTCT
68782631 CTACCTCTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
TCTCAATGAACAAGTTCTTCACCATGAAC
Found at i:68787610 original size:42 final size:42
Alignment explanation
Indices: 68787507--68787667 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 42
68787497 GATGCCAATG
* * * ** ** *
68787507 CCATATCCCAGATATGGCCTTACATGGGATCACATATCGATG
1 CCATATCCCAGACATGGTCTTACACGAAATCACATATTAATA
* ** * *
68787549 CCGATAGCCCAG-CTATGGTCTTACACGATGTCTCATATTGATA
1 CC-ATATCCCAGAC-ATGGTCTTACACGAAATCACATATTAATA
* * * *
68787592 CCATATCCCAGACATGGTCTTTCTCAAAATCACATATTAATG
1 CCATATCCCAGACATGGTCTTACACGAAATCACATATTAATA
*
68787634 CCATATCCCAGATATGGTCTTACACGAAATCACA
1 CCATATCCCAGACATGGTCTTACACGAAATCACA
68787668 CATAACCCTA
Statistics
Matches: 93, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 61 0.66
43 32 0.34
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
CCATATCCCAGACATGGTCTTACACGAAATCACATATTAATA
Found at i:68790961 original size:58 final size:56
Alignment explanation
Indices: 68790863--68791004 Score: 155
Period size: 57 Copynumber: 2.5 Consensus size: 56
68790853 TTGATATAGA
* * *
68790863 AAGGATTTAGCCTGGACGGGTAATCCTGATATAATACCTCTTGAGCATACGTTATGATT
1 AAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTC-TAAGCATACGTTAT-A-T
* *
68790922 AAGG-TTTAGCCTGGACTGGTAATCCTAAT-TGAGCT-CCTCTAAGCTTACGTTATAT
1 AAGGATTTAGCCTGGACTGGTAATCCTAATAT-A-ATACCTCTAAGCATACGTTATAT
*
68790977 AAGGGATTTAGCCTAGACTGGTAATCCT
1 AA-GGATTTAGCCTGGACTGGTAATCCT
68791005 GTTACACGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
55 3 0.04
56 3 0.04
57 34 0.47
58 28 0.38
59 5 0.07
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (56 bp):
AAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTAAGCATACGTTATAT
Found at i:68791939 original size:31 final size:32
Alignment explanation
Indices: 68791873--68791939 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
68791863 AGAATTGGGC
**
68791873 ACACGGGCGTGTGTCTCAGCCATGTGCGCCAT
1 ACACGGGCGTGTGTCTCAGCCATGTGAACCAT
* *
68791905 ACACGGGCG-GTGTCTTAGCCGTGTGAAACC-T
1 ACACGGGCGTGTGTCTCAGCCATGTG-AACCAT
68791936 ACAC
1 ACAC
68791940 CTAATTTCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (32 bp):
ACACGGGCGTGTGTCTCAGCCATGTGAACCAT
Found at i:68806193 original size:48 final size:48
Alignment explanation
Indices: 68806137--68806351 Score: 306
Period size: 48 Copynumber: 4.5 Consensus size: 48
68806127 TGAGATCCTA
* *
68806137 TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATATGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCTG
* *
68806185 TGTAAGACCATGTTTGCGACATGGCATCGGTGATGATATGTGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCTG
* *
68806233 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCTG
* * ** *
68806281 TGTAAGACCATGTCTAGGATATGGCATCGGTGATGATATGTG-GATTCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCT-G
*
68806329 TGTAAGACCATGTCGGGGACATG
1 TGTAAGACCATGTCTGGGACATG
68806352 ACATGGTACT
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 1 0.01
48 147 0.99
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCTG
Found at i:68813510 original size:17 final size:18
Alignment explanation
Indices: 68813488--68813556 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
68813478 GTGAGACCTC
68813488 TTAAATT-TTAAATTTTA
1 TTAAATTATTAAATTTTA
*
68813505 TTAAATTATTTAATTTT-
1 TTAAATTATTAAATTTTA
* *
68813522 TCAATTTATTAAATTATTA
1 TTAAATTATTAAATT-TTA
* *
68813541 GT-AATTTTTAAATTTT
1 TTAAATTATTAAATTTT
68813557 TGAGAAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 21 0.51
18 20 0.49
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
TTAAATTATTAAATTTTA
Found at i:68813519 original size:25 final size:27
Alignment explanation
Indices: 68813493--68813556 Score: 96
Period size: 25 Copynumber: 2.4 Consensus size: 27
68813483 ACCTCTTAAA
68813493 TTTTAAATTTTATTAAATTATT-TAAT
1 TTTTAAATTTTATTAAATTATTATAAT
*
68813519 TTTTCAA-TTTATTAAATTATTAGTAAT
1 TTTTAAATTTTATTAAATTATTA-TAAT
68813546 TTTTAAATTTT
1 TTTTAAATTTT
68813557 TGAGAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 14 0.42
26 6 0.18
27 10 0.30
28 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTAAATTTTATTAAATTATTATAAT
Found at i:68813555 original size:8 final size:8
Alignment explanation
Indices: 68813488--68813557 Score: 54
Period size: 8 Copynumber: 8.2 Consensus size: 8
68813478 GTGAGACCTC
68813488 TTAAA-TT
1 TTAAATTT
68813495 TTAAATTTT
1 TTAAA-TTT
68813504 ATTAAATTAT
1 -TTAAATT-T
68813514 TT-AATTT
1 TTAAATTT
*
68813521 TTCAATTT
1 TTAAATTT
*
68813529 ATTAAATTA
1 -TTAAATTT
68813538 TTAGTAATTT
1 TTA--AATTT
68813548 TTAAATTT
1 TTAAATTT
68813556 TT
1 TT
68813558 GAGAAAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
7 8 0.15
8 19 0.37
9 12 0.23
10 13 0.25
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:68817234 original size:58 final size:58
Alignment explanation
Indices: 68817144--68817259 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
68817134 CAATTAGATT
* *
68817144 TTCATAAGCCACCTTTATGGCCAAGGCCAACGAAGAACAAAGAACAGAGCAACTAGTC
1 TTCATAAGCCACCTTGATAGCCAAGGCCAACGAAGAACAAAGAACAGAGCAACTAGTC
* ***
68817202 TTCATAAGCCACCTTGATAGCCAAGGCCAACGAAGAATAAAGAGTGGAGCAACTAGTC
1 TTCATAAGCCACCTTGATAGCCAAGGCCAACGAAGAACAAAGAACAGAGCAACTAGTC
68817260 AAGTCACGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (58 bp):
TTCATAAGCCACCTTGATAGCCAAGGCCAACGAAGAACAAAGAACAGAGCAACTAGTC
Found at i:68836131 original size:24 final size:24
Alignment explanation
Indices: 68836071--68836136 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
68836061 CTTTCTCAAT
* *
68836071 TAAAAAAATCATTATAA-ATTTTAA
1 TAAAAAAA-CATTTTAATATCTTAA
* * *
68836095 TTAACAAATATTTTAATATCTTAA
1 TAAAAAAACATTTTAATATCTTAA
*
68836119 TAAAAAAACATTTAAATA
1 TAAAAAAACATTTTAATA
68836137 ACATTATACT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 6 0.19
24 26 0.81
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAAAAACATTTTAATATCTTAA
Found at i:68838993 original size:3 final size:3
Alignment explanation
Indices: 68838985--68839031 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
68838975 GTTGAAATTG
68838985 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
68839032 GCTATAGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:68841769 original size:40 final size:40
Alignment explanation
Indices: 68841714--68841796 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
68841704 CCTTTTCAAT
68841714 CATCCAGACATGGTAAACCTCATCATCATATCTCATGAAA
1 CATCCAGACATGGTAAACCTCATCATCATATCTCATGAAA
68841754 CATCCAGACATGGTAAACCTCATCATCATATCTCATGAAA
1 CATCCAGACATGGTAAACCTCATCATCATATCTCATGAAA
68841794 CAT
1 CAT
68841797 TTAAACATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.25
Consensus pattern (40 bp):
CATCCAGACATGGTAAACCTCATCATCATATCTCATGAAA
Found at i:68846785 original size:5 final size:5
Alignment explanation
Indices: 68846775--68846850 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
68846765 AATTTCTCCT
* *
68846775 TTTTC TTTTC TTTTC TTTTC TTCATTC -TTTC TATTTC GTTTC TTCTC
1 TTTTC TTTTC TTTTC TTTTC TT--TTC TTTTC T-TTTC TTTTC TTTTC
*
68846822 TGTTTC TTTTTC TTGT- TTTTC -TTTC TTTT
1 T-TTTC -TTTTC TTTTC TTTTC TTTTC TTTT
68846851 ATTTATTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
4 10 0.18
5 31 0.54
6 12 0.21
7 4 0.07
ACGTcount: A:0.03, C:0.20, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:68846803 original size:22 final size:21
Alignment explanation
Indices: 68846777--68846850 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 21
68846767 TTTCTCCTTT
68846777 TTCTTTTCTTTTCTTTTCTTC
1 TTCTTTTCTTTTCTTTTCTTC
*
68846798 ATTC-TTTCTATTTCGTTTCTTC
1 -TTCTTTTCT-TTTCTTTTCTTC
*
68846820 -TCTGTTTCTTTTTCTTGTTTTTC
1 TTCT-TTTC-TTTTCTT-TTCTTC
68846843 TTTCTTTT
1 -TTCTTTT
68846851 ATTTATTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.05
21 5 0.12
22 23 0.55
23 6 0.14
24 3 0.07
25 3 0.07
ACGTcount: A:0.03, C:0.20, G:0.04, T:0.73
Consensus pattern (21 bp):
TTCTTTTCTTTTCTTTTCTTC
Found at i:68847019 original size:3 final size:3
Alignment explanation
Indices: 68847011--68847044 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
68847001 CAATTAATTG
68847011 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
68847045 GTAAATATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:68853823 original size:84 final size:84
Alignment explanation
Indices: 68853729--68854041 Score: 617
Period size: 84 Copynumber: 3.7 Consensus size: 84
68853719 TCCCTTTCAT
*
68853729 TTGTAATCACTCAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
1 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
68853794 TTGGTATGATTTTGCTTTC
66 TTGGTATGATTTTGCTTTC
68853813 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
1 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
68853878 TTGGTATGATTTTGCTTTC
66 TTGGTATGATTTTGCTTTC
68853897 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
1 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
68853962 TTGGTATGATTTTGCTTTC
66 TTGGTATGATTTTGCTTTC
68853981 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAA
1 TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAA
68854042 TATGGAAGTG
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 228 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (84 bp):
TTGTAATCACTTAGTTGTAACCTTTTAAAGTAATAGAGATATTTTAAGAGCATTTACTCAAATAC
TTGGTATGATTTTGCTTTC
Found at i:68855502 original size:29 final size:29
Alignment explanation
Indices: 68855412--68855504 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
68855402 CACTAGTTTT
* * *
68855412 CGGTGATTACAGTTTCAAATACTTTGTAC
1 CGGTGATTATAGTTTCAAGTACTATGTAC
* * * * *
68855441 CAGTG-TTATAGTTCCAAGCACTCTGTGC
1 CGGTGATTATAGTTTCAAGTACTATGTAC
* *
68855469 TGGTGATTATAGTTTCAGGTACTATGTAC
1 CGGTGATTATAGTTTCAAGTACTATGTAC
68855498 CGGTGAT
1 CGGTGAT
68855505 GGATACCATG
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
28 20 0.42
29 28 0.58
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (29 bp):
CGGTGATTATAGTTTCAAGTACTATGTAC
Found at i:68860046 original size:44 final size:45
Alignment explanation
Indices: 68859926--68860196 Score: 250
Period size: 44 Copynumber: 5.8 Consensus size: 45
68859916 CACTGCTGTT
*
68859926 ATGTGAGCCAGTGTCAGACATGTCTGGGACATGCATCGGCCT-CGAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAG
* * *
68859972 ATATAAGCCAGTGTAAGACATGTCTGGGACATACATCGGCTATGAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
* * *
68860018 ATGT-GCTAGTGTAAGACATGTCTAGGACATGTATCGGC-ACG-G
1 ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
*
68860060 ATGTGTGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAG
1 A--TGT---AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
* *
68860110 ATGT-GCTAGAGTAAGACATGTCTGGGACATGCATCGGC-AC-AG
1 ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
* *
68860152 ATGTGTGAGAACCAGTGTAAGACCATATCTGGGATATGGCATCGG
1 A--TGT-AG--CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
68860197 TATCGATATG
Statistics
Matches: 186, Mismatches: 22, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
42 5 0.03
43 3 0.02
44 68 0.37
45 2 0.01
46 42 0.23
48 43 0.23
49 14 0.08
50 9 0.05
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
Found at i:68860091 original size:92 final size:92
Alignment explanation
Indices: 68859977--68860185 Score: 346
Period size: 92 Copynumber: 2.3 Consensus size: 92
68859967 TCGAGATATA
*
68859977 AGCCAGTGTAAGACATGTCTGGGACATACATCGGCTATGAGATGTGCTAGTGTAAGACATGTCTA
1 AGCCAGTGTAAGACATGTCTGGGACATACATCGGCTATGAGATGTGCTAGAGTAAGACATGTCTA
* *
68860042 GGACATGTATCGGCACGGATGTGTGAG
66 GGACATGCATCGGCACAGATGTGTGAG
* *
68860069 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGCTAGAGTAAGACATGTCTG
1 AGCCAGTGTAAGACATGTCTGGGACATACATCGGCTATGAGATGTGCTAGAGTAAGACATGTCTA
68860134 GGACATGCATCGGCACAGATGTGTGAG
66 GGACATGCATCGGCACAGATGTGTGAG
* *
68860161 AACCAGTGTAAGACCATATCTGGGA
1 AGCCAGTGTAAGA-CATGTCTGGGA
68860186 TATGGCATCG
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 99 0.91
93 10 0.09
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.23
Consensus pattern (92 bp):
AGCCAGTGTAAGACATGTCTGGGACATACATCGGCTATGAGATGTGCTAGAGTAAGACATGTCTA
GGACATGCATCGGCACAGATGTGTGAG
Found at i:68874286 original size:17 final size:18
Alignment explanation
Indices: 68874264--68874303 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
68874254 AGGCCAAATT
*
68874264 GGGCATGT-AGGCCACAC
1 GGGCATGTGAGCCCACAC
68874281 GGGCATGTGAGCCCACAC
1 GGGCATGTGAGCCCACAC
*
68874299 AGGCA
1 GGGCA
68874304 CACCACACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (18 bp):
GGGCATGTGAGCCCACAC
Found at i:68892978 original size:52 final size:52
Alignment explanation
Indices: 68892900--68893013 Score: 201
Period size: 52 Copynumber: 2.2 Consensus size: 52
68892890 AAAATTATTT
* *
68892900 CCACATGGGTGGAGGACACGGGCGTGTCCCTTCATTGCCTAAGGCGTGTGAG
1 CCACATGGGTGGAAGACACGGGCGTGTCCCTTCATTGCCTAAGGCGTGTAAG
68892952 CCACATGGGTGGAAGACACGGGCGTGTCCCTTCATTGCCTAAGGCGTGTAAG
1 CCACATGGGTGGAAGACACGGGCGTGTCCCTTCATTGCCTAAGGCGTGTAAG
*
68893004 CCACACGGGT
1 CCACATGGGT
68893014 ATGTGCCCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.20
Consensus pattern (52 bp):
CCACATGGGTGGAAGACACGGGCGTGTCCCTTCATTGCCTAAGGCGTGTAAG
Found at i:68898938 original size:30 final size:30
Alignment explanation
Indices: 68898880--68898938 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
68898870 ATTTTCGGAC
* **
68898880 CTAGGGGTAAAATGATCATTTTGTCAAAGT
1 CTAGGGGCAAAATGATCATTTTACCAAAGT
* *
68898910 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGATCATTTTACCAAAG
68898939 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGATCATTTTACCAAAGT
Found at i:68899424 original size:46 final size:47
Alignment explanation
Indices: 68899323--68899495 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 47
68899313 TTATGAGAGC
*
68899323 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC--AAGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGTAAGT
* *
68899369 GCTATTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTAAGT
1 -C-AGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGTAAGT
* * *
68899417 CAGTGTAAGA-CATGTTTGGGACATGCAT-TG-ATTACGAGATGT--GT
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCA-T-CGAGACGTAAGT
* *
68899461 CAATGTAAGACCATGTCTGGGACATGGCATTGGCA
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
68899496 CATATATGCT
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 50 0.47
47 17 0.16
48 13 0.12
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGTAAGT
Found at i:68907044 original size:146 final size:146
Alignment explanation
Indices: 68906780--68907069 Score: 562
Period size: 146 Copynumber: 2.0 Consensus size: 146
68906770 AATTATGAAT
68906780 GTGTGAAAATTTCAAGCTTCAATTTGGTTGATTTCATGTGAATTTAGTCAATAGGACTTATGTGA
1 GTGTGAAAATTTCAAGCTTCAATTTGGTTGATTTCATGTGAATTTAGTCAATAGGACTTATGTGA
68906845 GAAAATTCTAAAATGTGATAGGTCAATGTGTGAGGACCTATTAGTGCATGTGGACAAAGGGGGGA
66 GAAAATTCTAAAATGTGATAGGTCAATGTGTGAGGACCTATTAGTGCATGTGGACAAAGGGGGGA
68906910 ATTGCATGTCAAATTC
131 ATTGCATGTCAAATTC
*
68906926 GTGTGAAAATTTCAAGCTTCAATTTGGTTGATTTCATGTGAATTTAGTGAATAGGACTTATGTGA
1 GTGTGAAAATTTCAAGCTTCAATTTGGTTGATTTCATGTGAATTTAGTCAATAGGACTTATGTGA
68906991 GAAAATTCTAAAATGTGATAGGTCAATGTGTGAGGACCTATTAGTGCATGTGGACAAAGGGGGGA
66 GAAAATTCTAAAATGTGATAGGTCAATGTGTGAGGACCTATTAGTGCATGTGGACAAAGGGGGGA
*
68907056 CTTGCATGTCAAAT
131 ATTGCATGTCAAAT
68907070 CCCCCCCCCT
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (146 bp):
GTGTGAAAATTTCAAGCTTCAATTTGGTTGATTTCATGTGAATTTAGTCAATAGGACTTATGTGA
GAAAATTCTAAAATGTGATAGGTCAATGTGTGAGGACCTATTAGTGCATGTGGACAAAGGGGGGA
ATTGCATGTCAAATTC
Found at i:68925687 original size:48 final size:48
Alignment explanation
Indices: 68925583--68925809 Score: 169
Period size: 48 Copynumber: 4.8 Consensus size: 48
68925573 ACATGGCAGG
* * * * * * * *
68925583 ATGCCAATGCCATATCCCGGATATGGCCTTACATAGGATTACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
* **
68925631 ATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
* * * *
68925679 ATGCCAATGCCATGACGCAAACATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
* * * * ** * * *
68925727 ATTCCGAT---A-G-CCTAG-CTATGGTCTTACACGAAATTACATATCG
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACAGATCA
**
68925770 ATGCCAAAACCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
68925810 GCACATAACC
Statistics
Matches: 136, Mismatches: 36, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 28 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.75
49 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
Found at i:68929992 original size:6 final size:6
Alignment explanation
Indices: 68929977--68930009 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
68929967 AATGTTTAAT
*
68929977 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTC TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
68930010 CATGTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:68933313 original size:68 final size:69
Alignment explanation
Indices: 68933241--68933388 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 69
68933231 CATCATGTGT
* * * *
68933241 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
68933303 ATGTAG
64 ATGTAG
* ** * *
68933309 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
68933372 GTAG
66 GTAG
68933376 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
68933389 GAGATAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 20 0.30
65 7 0.11
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
GTAG
Found at i:68940907 original size:50 final size:52
Alignment explanation
Indices: 68940840--68940961 Score: 142
Period size: 50 Copynumber: 2.4 Consensus size: 52
68940830 CATTTAATAT
* * * *
68940840 AGTCATGAATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTA
1 AGTCATGCATTATGTAACTCCCATGTTAGTTAAAGTGTGCAACATTAAATTA
* * *
68940890 TGAT-ATGCATTATGTAACTCCCTTGTTATTTAAAGTGTGCAACATTAAATTA
1 AG-TCATGCATTATGTAACTCCCATGTTAGTTAAAGTGTGCAACATTAAATTA
*
68940942 AGTCATGCATTAAGTAACTC
1 AGTCATGCATTATGTAACTC
68940962 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
50 24 0.41
51 12 0.20
52 23 0.39
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (52 bp):
AGTCATGCATTATGTAACTCCCATGTTAGTTAAAGTGTGCAACATTAAATTA
Found at i:68941142 original size:40 final size:40
Alignment explanation
Indices: 68941087--68941169 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
68941077 TAAATTAAAG
68941087 TGTGTTTGTTTTCATTTTAAATAAGGTGATTTAAGTTGCA
1 TGTGTTTGTTTTCATTTTAAATAAGGTGATTTAAGTTGCA
68941127 TGTGTTTGTTTTCATTTTAAATAAGGTGATTTAAGTTGCA
1 TGTGTTTGTTTTCATTTTAAATAAGGTGATTTAAGTTGCA
68941167 TGT
1 TGT
68941170 TTATTTAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.51
Consensus pattern (40 bp):
TGTGTTTGTTTTCATTTTAAATAAGGTGATTTAAGTTGCA
Found at i:68941188 original size:18 final size:18
Alignment explanation
Indices: 68941165--68941199 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68941155 ATTTAAGTTG
*
68941165 CATGTTTATTTAATTCGT
1 CATGTTCATTTAATTCGT
68941183 CATGTTCATTTAATTCG
1 CATGTTCATTTAATTCG
68941200 CCTGCATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (18 bp):
CATGTTCATTTAATTCGT
Found at i:68948309 original size:19 final size:19
Alignment explanation
Indices: 68948287--68948325 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
68948277 AAAAATTATT
68948287 ATGAATTTTTAAAATCAGA
1 ATGAATTTTTAAAATCAGA
*
68948306 ATGAATTTTTAAAGTCAGA
1 ATGAATTTTTAAAATCAGA
68948325 A
1 A
68948326 CAGGGGATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (19 bp):
ATGAATTTTTAAAATCAGA
Found at i:68949258 original size:46 final size:46
Alignment explanation
Indices: 68949191--68949359 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
68949181 CGCCCCTAAG
* *
68949191 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAA
* * * *
68949237 TGAACTCGGGCTCAACTCAACGAGTTCGAATGCCCAG-TTACAT-C-T-TA
1 TGAACTCGGACTCAACTCAACGAGTTCG---G-AC-GTTTGCATCCATAAA
* * *
68949284 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAA
68949330 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
68949360 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 55 0.54
47 27 0.27
48 1 0.01
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAA
Found at i:68949301 original size:93 final size:93
Alignment explanation
Indices: 68949192--68949362 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
68949182 GCCCCTAAGT
* * *
68949192 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAATGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
68949257 CGAGTTCGAATGCCCAGTTACATCTTAC
66 CGAGTTCGAATGCCCAGTTACATCTTAC
* *
68949285 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
*
68949350 CGAGTTCGGATGC
66 CGAGTTCGAATGC
68949363 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCCAGTTACATCTTAC
Found at i:68949378 original size:46 final size:46
Alignment explanation
Indices: 68949189--68949378 Score: 126
Period size: 46 Copynumber: 4.1 Consensus size: 46
68949179 CCCGCCCCTA
* ***
68949189 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACCATCC-T
* * * * *
68949234 AAATGAACTCGGGCTCAACTCAACGAGTTCGAATGCCCAGTTA-CATCTT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA---ACCATCCT
* * * *
68949283 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
68949328 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
68949374 AGTGA
1 AGTGA
68949379 CATGTCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 60 0.54
47 29 0.26
48 3 0.03
49 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:68952218 original size:15 final size:15
Alignment explanation
Indices: 68952198--68952227 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68952188 CAAACTATGT
*
68952198 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
68952213 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
68952228 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:68956317 original size:24 final size:24
Alignment explanation
Indices: 68956281--68956442 Score: 78
Period size: 24 Copynumber: 6.8 Consensus size: 24
68956271 GAGCCAACAT
* *
68956281 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * **
68956305 TGGCACTATGTGTGCAAAATCGGT
1 TGGCACTATGTGTGCGAATTTGAA
* * *
68956329 TGGCACTATGTATACTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
68956353 TGTCAATAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
68956378 -AGCACTATGTGTGCG-GTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
68956401 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
68956425 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
68956443 ATCAGTTGAG
Statistics
Matches: 92, Mismatches: 41, Indels: 10
0.64 0.29 0.07
Matches are distributed among these distances:
23 5 0.05
24 82 0.89
25 5 0.05
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:68960695 original size:29 final size:28
Alignment explanation
Indices: 68960659--68960731 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
68960649 TCATGAGATT
*
68960659 GGCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGA-GTGTAAA--GTACA
68960689 -GCACTAAGTGTGCGAGTGTAAAGTACA
1 GGCACTAAGTGTGCGAGTGTAAAGTACA
68960716 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
68960732 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 5 0.13
29 33 0.85
30 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTGTAAAGTACA
Found at i:68960956 original size:145 final size:145
Alignment explanation
Indices: 68960714--68960987 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
68960704 GTGTAAAGTA
*
68960714 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
68960779 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
68960844 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
68960859 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
68960924 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
68960988 ACCTTGAGTT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:68962810 original size:15 final size:15
Alignment explanation
Indices: 68962790--68962819 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68962780 CAAACTATGT
*
68962790 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
68962805 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
68962820 GACACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:68963901 original size:43 final size:43
Alignment explanation
Indices: 68963839--68963978 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 43
68963829 TATCCTAGAT
* ** * * *
68963839 ATGGTCTTACATGTTATCATATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGAAATCATATATCAATGCCAATGTCCCAGAC
* * *
68963882 AGGGTCTTATACGAAATCATATAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCATATATCAATGCCAATGTCCCAGAC
* *
68963925 ATGGTCTTACACGTAATCACAATAT-AATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCA-TATATCAATGCCAATGTCCCAGAC
68963968 ATGGTCTTACA
1 ATGGTCTTACA
68963979 TGTAATCACA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 79 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCATATATCAATGCCAATGTCCCAGAC
Found at i:68965802 original size:32 final size:32
Alignment explanation
Indices: 68965764--68965862 Score: 173
Period size: 32 Copynumber: 3.1 Consensus size: 32
68965754 ATTTATGTCA
68965764 TTTTCAATCTAACAGAGTGACAGATTTCATGC
1 TTTTCAATCTAACAGAGTGACAGATTTCATGC
*
68965796 TTTTCAATCCAACAGAGTGACAGATTTCATG-
1 TTTTCAATCTAACAGAGTGACAGATTTCATGC
68965827 TTTTCCAATCTAACAGAGTGACAGATTTCATGC
1 TTTT-CAATCTAACAGAGTGACAGATTTCATGC
68965860 TTT
1 TTT
68965863 AAGGTTTATA
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
31 4 0.06
32 56 0.89
33 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (32 bp):
TTTTCAATCTAACAGAGTGACAGATTTCATGC
Found at i:68966027 original size:45 final size:45
Alignment explanation
Indices: 68965977--68966063 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 45
68965967 GGCCTACACG
* *
68965977 CCCAAAATTGCCTA-GCC-TGTGTGGCCTACACGGCCTAGCACATGA
1 CCCAAAATGGCCTAGGCCATGTGTCG-C-ACACGGCCTAGCACATGA
*
68966022 CCCAAAATGGCCTAGGCCATGTGTCGCACACGGCCTATCACA
1 CCCAAAATGGCCTAGGCCATGTGTCGCACACGGCCTAGCACA
68966064 CAGCTTGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 27 0.73
46 4 0.11
47 6 0.16
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.18
Consensus pattern (45 bp):
CCCAAAATGGCCTAGGCCATGTGTCGCACACGGCCTAGCACATGA
Found at i:68968106 original size:40 final size:40
Alignment explanation
Indices: 68968059--68968262 Score: 173
Period size: 40 Copynumber: 5.1 Consensus size: 40
68968049 CGGGATTTAA
* * *
68968059 CCGGATATAGCT-ACTCACTCGAATATCTTCGGGACATAGC
1 CCGGATATAG-TAACTCACACAAATACCTTCGGGACATAGC
* * *
68968099 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATACCTTCGGGACATAGC
* * * *
68968139 CCGGA-ACTAGTAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTAACTCACACAAATACCTTCGGGACATAGC
* * * *
68968179 CCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATACCTTCGGGACATAGC
* * * * *
68968219 CCGGA-ACTAGTCACT-AGCGCAAATGCCTTCAGGACTTAGC
1 CCGGATA-TAGTAACTCA-CACAAATACCTTCGGGACATAGC
68968259 CCGG
1 CCGG
68968263 TTATCATCCA
Statistics
Matches: 145, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATACCTTCGGGACATAGC
Found at i:68968179 original size:80 final size:80
Alignment explanation
Indices: 68968085--68968262 Score: 293
Period size: 80 Copynumber: 2.2 Consensus size: 80
68968075 ACTCGAATAT
*
68968085 CTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
*
68968150 AACTCGCACAAATGC
66 AACTAGCACAAATGC
* *
68968165 CTTTGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
* *
68968230 CACTAGCGCAAATGC
66 AACTAGCACAAATGC
*
68968245 CTTCAGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
68968263 TTATCATCCA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 90 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
AACTAGCACAAATGC
Found at i:68972484 original size:27 final size:26
Alignment explanation
Indices: 68972454--68972518 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
68972444 ATATTTAAGT
68972454 ATTATAAAATAATTAAATTTTACTTAA
1 ATTATAAAATAATTAAATTTTACTT-A
* * *
68972481 ATTATTAACAT-GTTTAATTTTACTTA
1 ATTA-TAAAATAATTAAATTTTACTTA
*
68972507 ATTTTAAAATAA
1 ATTATAAAATAA
68972519 ATTTTGATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 5 0.17
26 4 0.13
27 16 0.53
28 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATAAAATAATTAAATTTTACTTA
Found at i:68973120 original size:24 final size:25
Alignment explanation
Indices: 68973074--68973121 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
68973064 AAACACATCA
68973074 CTTCACTCCTCTCTCATTTTTCTCT
1 CTTCACTCCTCTCTCATTTTTCTCT
68973099 CTTCACTCC-CT-TCCATTTTTCTC
1 CTTCACTCCTCTCT-CATTTTTCTC
68973122 CATTTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 12 0.55
25 9 0.41
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (25 bp):
CTTCACTCCTCTCTCATTTTTCTCT
Found at i:68980830 original size:43 final size:43
Alignment explanation
Indices: 68980772--68980923 Score: 241
Period size: 43 Copynumber: 3.5 Consensus size: 43
68980762 CATTATAGCA
* * *
68980772 TGCTAGGCTCAAAGGCCCGAATACACATCACCGGTACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
68980815 TGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAAGCT
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
68980858 TGCTAGGCACGAAGGCCCGAATACACATCACCAGCACAAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
68980901 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
68980924 TAATACCAGC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:68990005 original size:41 final size:41
Alignment explanation
Indices: 68989935--68990029 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
68989925 GTCAGCCTCG
* * *
68989935 AAGCTTGATATAACACACTAGCACAAAGCCTGCTAGGCACA
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
* * *
68989976 AAGCCTGATATAATACACCGGCACGAAGCCTACTAGGCACA
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
* *
68990017 GAGCCCGA-ATAAC
1 AAGCCTGATATAAC
68990030 GTTACGTTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 4 0.09
41 41 0.91
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (41 bp):
AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
Found at i:69004881 original size:12 final size:12
Alignment explanation
Indices: 69004866--69004898 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
69004856 TATATTAGAA
69004866 TTTTATTATATT
1 TTTTATTATATT
*
69004878 TTTTAATATATT
1 TTTTATTATATT
69004890 TTTT-TTATA
1 TTTTATTATA
69004899 ACTTTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTATATT
Found at i:69005721 original size:9 final size:9
Alignment explanation
Indices: 69005655--69005722 Score: 50
Period size: 10 Copynumber: 7.3 Consensus size: 9
69005645 CATATAGTTC
69005655 TTATAATTT
1 TTATAATTT
*
69005664 TCTATTAATAT
1 T-TA-TAATTT
*
69005675 TTAT-TTTT
1 TTATAATTT
69005683 TTAT-ATTT
1 TTATAATTT
*
69005691 TGTACAATTT
1 T-TATAATTT
69005701 TCTATAATTT
1 T-TATAATTT
*
69005711 TTATGATTT
1 TTATAATTT
69005720 TTA
1 TTA
69005723 AGAAATTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 10 0.21
9 14 0.30
10 17 0.36
11 6 0.13
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:69006168 original size:12 final size:11
Alignment explanation
Indices: 69006150--69006183 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
69006140 AATAGATAAG
69006150 TTTTAGTTTTT
1 TTTTAGTTTTT
69006161 TGTTTAGTTTTT
1 T-TTTAGTTTTT
69006173 TTTTAAGTTTT
1 TTTT-AGTTTT
69006184 GTTTATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (11 bp):
TTTTAGTTTTT
Found at i:69010935 original size:23 final size:25
Alignment explanation
Indices: 69010909--69010954 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69010899 TTGTATATCA
69010909 TGTATGTTT-T-TTTAACATGTTTG
1 TGTATGTTTGTCTTTAACATGTTTG
*
69010932 TGTATGTTTGTCTTTATCATGTT
1 TGTATGTTTGTCTTTAACATGTT
69010955 ATTCTTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (25 bp):
TGTATGTTTGTCTTTAACATGTTTG
Found at i:69016520 original size:23 final size:22
Alignment explanation
Indices: 69016468--69016520 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
69016458 ATGCATATTT
* *
69016468 GTATGATTTATTAATGCATGAT
1 GTATCATTTATTAATGCATGAA
* *
69016490 GATTTCATTTATTATTGGCATGAA
1 G-TATCATTTATTAAT-GCATGAA
69016514 GTATCAT
1 GTATCAT
69016521 AGAAATGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (22 bp):
GTATCATTTATTAATGCATGAA
Found at i:69025295 original size:44 final size:44
Alignment explanation
Indices: 69025231--69025390 Score: 136
Period size: 44 Copynumber: 3.7 Consensus size: 44
69025221 AGTTGGTATT
*
69025231 GATTTGAA-TTATAGTGTAAGACCGTGTCTGGGACACAGGCATC
1 GATTTGAATTTATAGTGTAAGACCATGTCTGGGACACAGGCATC
*
69025274 GATTTGAAATTTAT-GTGTAAGACCATGTCTAGGACATC-GGCATC
1 GATTTG-AATTTATAGTGTAAGACCATGTCTGGGACA-CAGGCATC
* ** * * * *
69025318 -ATATCTATTT-TCGTATAAGACCCTGTCTGGGACAGAGGCATC
1 GATTTGAATTTATAGTGTAAGACCATGTCTGGGACACAGGCATC
* * *
69025360 GATACTGAA-TTACA-TGTAAGACCACGTCTGG
1 GAT-TTGAATTTATAGTGTAAGACCATGTCTGG
69025391 CACGTCGGCA
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 27 0.29
44 30 0.33
45 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
GATTTGAATTTATAGTGTAAGACCATGTCTGGGACACAGGCATC
Found at i:69025358 original size:42 final size:44
Alignment explanation
Indices: 69025247--69025368 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 44
69025237 AATTATAGTG
* * *
69025247 TAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTATGTG
1 TAAGACCATGTCTGGGACACAGGCATCGATATGAAATTTATGTA
* **
69025291 TAAGACCATGTCTAGGACATC-GGCATC-ATAT-CTATTT-TCGTA
1 TAAGACCATGTCTGGGACA-CAGGCATCGATATGAAATTTAT-GTA
* *
69025333 TAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA
1 TAAGACCATGTCTGGGACACAGGCATCGATA-TGAA
69025369 TTACATGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
41 1 0.02
42 29 0.48
43 6 0.10
44 24 0.39
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACACAGGCATCGATATGAAATTTATGTA
Found at i:69027732 original size:60 final size:60
Alignment explanation
Indices: 69027639--69027778 Score: 244
Period size: 60 Copynumber: 2.3 Consensus size: 60
69027629 TAGGGTTTGA
* *
69027639 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTGAGAGTGTTTGTCGTTATAAGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGAGTGTTTGTCGTAATAAGGG
* *
69027699 ATTTAGCCTGGACTGGTAATTCAGATTCGAGCTCATTAAGAGTGTTTGTTGTAATAAGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGAGTGTTTGTCGTAATAAGGG
69027759 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
69027779 CCTGACATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (60 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGAGTGTTTGTCGTAATAAGGG
Found at i:69027838 original size:54 final size:54
Alignment explanation
Indices: 69027756--69028536 Score: 1478
Period size: 54 Copynumber: 14.5 Consensus size: 54
69027746 GTTGTAATAA
69027756 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69027810 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69027864 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69027918 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69027972 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028026 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028080 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028134 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028188 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028242 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028296 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028350 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
** * *
69028404 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTAGTGTTTGTCGTTATAA---
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTA-TGAGT-TC-ATAAAATTG
69028458 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
69028512 GGGATTTAGCCTGGACTGGTAATCC
1 GGGATTTAGCCTGGACTGGTAATCC
69028537 CGCCATAAGA
Statistics
Matches: 713, Mismatches: 8, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
51 4 0.01
52 2 0.00
53 3 0.00
54 695 0.97
55 3 0.00
56 2 0.00
57 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTCATAAAATTG
Found at i:69045493 original size:20 final size:20
Alignment explanation
Indices: 69045468--69045514 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
69045458 GTTTTGATAT
69045468 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
69045488 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69045508 AAATGAT
1 ACATGAT
69045515 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69045641 original size:25 final size:25
Alignment explanation
Indices: 69045563--69045643 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
69045553 GGAAGTGCAA
* * *
69045563 AAAGGGC-TATGCCCTAGTTTACCG
1 AAAGGGCTTTTGCCCCAGTTTATCG
**
69045587 AAAAGGGCTTTTGCCCCAGTTTATTA
1 -AAAGGGCTTTTGCCCCAGTTTATCG
69045613 AAAGGGCTTTTGCCCCAGTTTATCG
1 AAAGGGCTTTTGCCCCAGTTTATCG
69045638 AAAGGG
1 AAAGGG
69045644 ATTTGTCCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 36 0.75
26 12 0.25
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTTGCCCCAGTTTATCG
Found at i:69045913 original size:31 final size:31
Alignment explanation
Indices: 69045878--69045972 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
69045868 CATTTACAGT
**
69045878 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
* *
69045909 AAAGGCTTCAGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
* *
69045940 AAAGGCTTCGACCCGGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
69045971 AA
1 AA
69045973 TATGAAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGTTATGAAATATGA
Found at i:69054966 original size:39 final size:39
Alignment explanation
Indices: 69054906--69054984 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
69054896 TATGTTACCG
69054906 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
* *
69054945 GCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA
1 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69054984 G
1 G
69054985 TGTCTTGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
Found at i:69065424 original size:47 final size:47
Alignment explanation
Indices: 69065358--69065831 Score: 903
Period size: 47 Copynumber: 10.1 Consensus size: 47
69065348 GAAATGATAG
69065358 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065405 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065452 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065499 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065546 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065593 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065640 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065687 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065734 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
69065781 TAAGGCCTAATAGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69065828 TAAG
1 TAAG
69065832 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 422 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:69066068 original size:41 final size:41
Alignment explanation
Indices: 69066011--69066092 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
69066001 TTGCTTATAA
69066011 ATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAG
1 ATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAG
69066052 ATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAG
1 ATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAG
69066093 TTTATATGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (41 bp):
ATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAG
Found at i:69072087 original size:37 final size:37
Alignment explanation
Indices: 69072037--69072115 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
69072027 TTATTACGAA
* * *
69072037 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
69072074 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
69072111 GTCTT
1 GTCTT
69072116 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:69073114 original size:49 final size:48
Alignment explanation
Indices: 69072234--69074102 Score: 3211
Period size: 49 Copynumber: 38.8 Consensus size: 48
69072224 CCCTTCGGGA
* * * * *
69072234 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69072281 CCTGTCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072328 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072375 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072422 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072469 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072516 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072563 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072610 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072657 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072704 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072751 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072798 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072845 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072892 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072939 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69072986 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073033 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073080 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69073129 CTTATCACATATATACACATATATACACTTTCACATTCATCACATCGGCTATTAAGC
1 CTTATCAC----AT-----TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69073186 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073235 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073284 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073333 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073382 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073431 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073480 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073529 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073578 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073627 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073676 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073725 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073774 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073823 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073872 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
69073921 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69073970 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-TTATATACACTTTCACATTCATCACATCGGCCATTAGGC
69074019 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
69074068 CTTATCTCA-TATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATTATATACACT-TTCACATTCATCACAT
69074103 AGAATCCTAA
Statistics
Matches: 1786, Mismatches: 22, Indels: 28
0.97 0.01 0.02
Matches are distributed among these distances:
46 2 0.00
47 819 0.46
49 917 0.51
53 4 0.00
57 44 0.02
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (48 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69078591 original size:40 final size:40
Alignment explanation
Indices: 69078400--69078584 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
69078390 TTGAATGATG
* * * * *
69078400 TCCGGGCTAAGTCCCGAAGGC-TTTGT-CTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
69078439 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
69078479 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69078519 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
69078560 -CCGGGCTATGTCCCGAGGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
69078585 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 19 0.15
40 107 0.83
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69078591 original size:80 final size:79
Alignment explanation
Indices: 69078452--69078616 Score: 208
Period size: 80 Copynumber: 2.1 Consensus size: 79
69078442 GGACTAAGAT
* * **
69078452 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGACATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
69078516 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
69078532 CCGAAGACATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAGGGCATTTGAACGAGTAGCT
1 CCGAAGACATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
69078596 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
69078611 CCGAAG
1 CCGAAG
69078617 GTACGTGATT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 15 0.20
80 57 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGACATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:69081492 original size:39 final size:39
Alignment explanation
Indices: 69081443--69081755 Score: 608
Period size: 39 Copynumber: 8.0 Consensus size: 39
69081433 TATGTTACCG
*
69081443 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081482 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081521 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081560 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081599 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081638 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081677 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
*
69081716 GCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
69081755 G
1 G
69081756 TGTCTTGCTT
Statistics
Matches: 272, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 272 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.21
Consensus pattern (39 bp):
GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
Found at i:69081920 original size:43 final size:43
Alignment explanation
Indices: 69081859--69081944 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
69081849 CACCTACCCT
69081859 TTAACTTTCGGTTCAATAATCATACACAAGGAACAAAAATGTC
1 TTAACTTTCGGTTCAATAATCATACACAAGGAACAAAAATGTC
*
69081902 TTAACTTTCGGTTCAATAATCATACACAAGGAACACAAATGTC
1 TTAACTTTCGGTTCAATAATCATACACAAGGAACAAAAATGTC
69081945 GGAATCCTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (43 bp):
TTAACTTTCGGTTCAATAATCATACACAAGGAACAAAAATGTC
Found at i:69084122 original size:26 final size:26
Alignment explanation
Indices: 69084097--69084146 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
69084087 ATTAAAAATA
* *
69084097 ATAAATATT-TTAATTATATTTTAAT
1 ATAAATATTATTAAATATAATTTAAT
*
69084122 ATAATTATTATTAAATATAATTTAA
1 ATAAATATTATTAAATATAATTTAA
69084147 CATCATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAATATTATTAAATATAATTTAAT
Found at i:69086114 original size:79 final size:80
Alignment explanation
Indices: 69086018--69086173 Score: 260
Period size: 79 Copynumber: 2.0 Consensus size: 80
69086008 TTAGGCTCAG
* * * *
69086018 GGACTACATTGAAGAAAAGTAAAATTTTAGGGGTAATTTTGTAAAAATATCAAAA-ATGACTAAT
1 GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
69086082 TTGCATAAAATATAT
66 TTGCATAAAATATAT
69086097 GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
1 GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
*
69086162 TTGCGTAAAATA
66 TTGCATAAAATA
69086174 CATTATTTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
79 53 0.75
80 18 0.25
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (80 bp):
GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
TTGCATAAAATATAT
Found at i:69087781 original size:15 final size:15
Alignment explanation
Indices: 69087761--69087814 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
69087751 TACTGACTTG
69087761 GTGTGTCACCTAACC
1 GTGTGTCACCTAACC
*
69087776 GTGTGTCA-C-ACACG
1 GTGTGTCACCTA-ACC
69087790 GCTGTGTCACCTAACC
1 G-TGTGTCACCTAACC
69087806 GTGTGTCAC
1 GTGTGTCAC
69087815 ACACGACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 1 0.03
14 4 0.12
15 23 0.70
16 4 0.12
17 1 0.03
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (15 bp):
GTGTGTCACCTAACC
Found at i:69087796 original size:30 final size:30
Alignment explanation
Indices: 69087762--69087819 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
69087752 ACTGACTTGG
69087762 TGTGTCACCTAACCGTGTGTCACACACGGC
1 TGTGTCACCTAACCGTGTGTCACACACGGC
69087792 TGTGTCACCTAACCGTGTGTCACACACG
1 TGTGTCACCTAACCGTGTGTCACACACG
69087820 ACTGAGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (30 bp):
TGTGTCACCTAACCGTGTGTCACACACGGC
Found at i:69102760 original size:17 final size:17
Alignment explanation
Indices: 69102740--69102773 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
69102730 TGACTTGAGA
69102740 TCTTGCATGTGTTGAAG
1 TCTTGCATGTGTTGAAG
69102757 TCTTGCATGTGTTGAAG
1 TCTTGCATGTGTTGAAG
69102774 AAAGGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (17 bp):
TCTTGCATGTGTTGAAG
Found at i:69118958 original size:27 final size:27
Alignment explanation
Indices: 69118928--69119079 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
69118918 ATATTAAGTC
* *
69118928 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
69118955 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
69118983 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
69119010 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
69119037 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
69119065 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69119080 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:69118996 original size:55 final size:54
Alignment explanation
Indices: 69118928--69119079 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
69118918 ATATTAAGTC
* *
69118928 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
69118983 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
69119037 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
69119080 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:69119065 original size:82 final size:82
Alignment explanation
Indices: 69118928--69119079 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
69118918 ATATTAAGTC
* *
69118928 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
69118993 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
69119010 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
69119075 GTGCT
66 GTGCT
69119080 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:69119098 original size:55 final size:54
Alignment explanation
Indices: 69118930--69119107 Score: 205
Period size: 55 Copynumber: 3.2 Consensus size: 54
69118920 ATTAAGTCCG
* * *
69118930 CACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC-CA
* * * ** *
69118985 CACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACCA
* *
69119039 CACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCTGTACA-ATTTAAACCCA
1 CACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGC--TACATAATCAAA-CCA
69119096 CACACTTAGTGC
1 CACACTTAGTGC
69119108 CAATCTCATG
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
54 22 0.21
55 63 0.60
56 4 0.04
57 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (54 bp):
CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACCA
Found at i:69119098 original size:82 final size:84
Alignment explanation
Indices: 69118930--69119107 Score: 220
Period size: 82 Copynumber: 2.1 Consensus size: 84
69118920 ATTAAGTCCG
* * *
69118930 CACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
1 CACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
* *
69118995 GCTACATAGTCAAT--TCG
66 GCTACATAGTCAATACCCA
* * *
69119012 CACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGT
1 CACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
* *
69119077 GCTGTACA-ATTTAA-ACCCA
66 GC--TACATAGTCAATACCCA
69119096 CACACTTAGTGC
1 CACACTTAGTGC
69119108 CAATCTCATG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
82 61 0.74
83 4 0.05
84 17 0.21
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (84 bp):
CACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
GCTACATAGTCAATACCCA
Found at i:69122319 original size:28 final size:28
Alignment explanation
Indices: 69122286--69122357 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
69122276 TGTGAATCTT
* *
69122286 GCACTAAGTGTGCAAATGTGATTATTGA
1 GCACTAAGTGTGCAAATGTAAATATTGA
* * *
69122314 GCACTAAGTGTGCGAGTTTAAATATTGA
1 GCACTAAGTGTGCAAATGTAAATATTGA
69122342 GCACTAAGTGTGCAAA
1 GCACTAAGTGTGCAAA
69122358 ATCGATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCAAATGTAAATATTGA
Found at i:69124164 original size:27 final size:27
Alignment explanation
Indices: 69124134--69124264 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
69124124 AATTGTAAAA
*
69124134 TACCTTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
69124161 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
69124188 TACCATCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
69124215 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
69124242 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
69124265 AAAATACCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:69124272 original size:27 final size:27
Alignment explanation
Indices: 69124242--69124515 Score: 175
Period size: 27 Copynumber: 10.2 Consensus size: 27
69124232 ATTACTGTTT
* *
69124242 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69124269 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
69124296 TACCCTTGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
69124323 TACCCTAG-TCTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69124349 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
69124376 TACCTTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69124403 TACCCATAG-TTTGTAAAATTACCGAAA
1 TACCC-TCGATTTATAAAATTACCAAAA
* * * * * *
69124430 TGCCACT-GGTTTGTGAAATTATCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
69124457 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69124484 TACCC-CTAATTTACAAAGTTA-CAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
69124510 TACCCT
1 TACCCT
69124516 TGACTTTCTA
Statistics
Matches: 201, Mismatches: 35, Indels: 22
0.78 0.14 0.09
Matches are distributed among these distances:
26 35 0.17
27 163 0.81
28 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:69124300 original size:54 final size:54
Alignment explanation
Indices: 69124242--69124599 Score: 233
Period size: 54 Copynumber: 6.6 Consensus size: 54
69124232 ATTACTGTTT
** * *
69124242 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* ** * ** *
69124296 TACCCTTGATCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * **
69124349 TACCC-CTGGTTTGTAAAATTACCGAAATA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTT-AGTTTACAAAATTACCAAAA
* * * * *** * *
69124403 TACCCATAG-TTTGTAAAATTACCGAAATGCCAC-TGGTTTGTGAAATTATCGAAA
1 TACCC-TCGATTTGTAAAATTACCAAAATACC-CTTAGTTTACAAAATTACCAAAA
* * * *
69124457 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * *** * * **
69124510 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * *
69124566 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTT
69124600 GTAGGATGAA
Statistics
Matches: 233, Mismatches: 59, Indels: 24
0.74 0.19 0.08
Matches are distributed among these distances:
52 2 0.01
53 53 0.23
54 133 0.57
55 33 0.14
56 12 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:69124456 original size:81 final size:80
Alignment explanation
Indices: 69124256--69124488 Score: 297
Period size: 81 Copynumber: 2.9 Consensus size: 80
69124246 CTCGATTTAC
* ** * ** **
69124256 AAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTTGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
69124320 AAATACCCTAGTCTGT
65 AAATACCCTAGTCTGT
* * *
69124336 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
69124401 AATACCCATAGTTTGT
66 AATACCC-TAGTCTGT
* * * *
69124417 AAAATTACCGAAATGCCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
69124482 AATACCC
66 AATACCC
69124489 CTAATTTACA
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 62 0.46
81 73 0.54
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:69124559 original size:27 final size:27
Alignment explanation
Indices: 69124526--69124577 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
69124516 TGACTTTCTA
69124526 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
69124553 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
69124578 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:69124722 original size:27 final size:27
Alignment explanation
Indices: 69124631--69124722 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
69124621 ACCCCAATTA
*
69124631 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
69124658 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
69124685 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
69124712 GGTAAAATGAC
1 GGTAAAATGAC
69124723 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:69125585 original size:26 final size:26
Alignment explanation
Indices: 69125523--69125670 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
69125513 GACGACGTGC
69125523 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
69125549 -AAAGGGCTTATGTCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
69125574 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
69125600 AAAAGGGGTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
**
69125626 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
69125651 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
69125671 ATTAAAGAGG
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
25 53 0.49
26 55 0.51
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:69125599 original size:51 final size:51
Alignment explanation
Indices: 69125523--69125670 Score: 219
Period size: 51 Copynumber: 2.9 Consensus size: 51
69125513 GACGACGTGC
*
69125523 AAAAGGGCTTATGCCCCAGTTTACTGAAAGGGCTTATGTCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTGAAAGGGCTTATGCCCTAGTTTATTG
* *
69125574 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGGTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG-AAAGGGCTTATGCCCTAGTTTATTG
**
69125626 AAAAGGGCTT-TGCCCCAGTTTACCAAAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTTTA-CTGAAAGGGCTTATGCCCTAGTT
69125671 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
50 9 0.10
51 46 0.52
52 33 0.38
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACTGAAAGGGCTTATGCCCTAGTTTATTG
Found at i:69125874 original size:42 final size:42
Alignment explanation
Indices: 69125815--69125906 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
69125805 TAGTCTCCCC
* ** * *
69125815 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
69125857 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
69125899 AAATGGGC
1 AAATGGGC
69125907 CTAACGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
Found at i:69125965 original size:31 final size:31
Alignment explanation
Indices: 69125930--69126006 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
69125920 CGTTTACAGT
69125930 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* * *
69125961 AAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
69125992 AAAGGCTTCGCCCCA
1 AAAGGCTTCGGCCCA
69126007 GTATATGTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:69130794 original size:5 final size:5
Alignment explanation
Indices: 69130784--69130808 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
69130774 TTTTCTTGCA
69130784 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
69130809 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:69132698 original size:263 final size:262
Alignment explanation
Indices: 69132232--69132759 Score: 995
Period size: 263 Copynumber: 2.0 Consensus size: 262
69132222 TAATACTGAA
69132232 CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGAA
1 CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGAA
69132297 GCCAAAATTATAGCAAGACAACGCGATGAACAAAGTCGAGAAGAGGTAAATGACGGTGATCCTAA
66 GCCAAAATTATAGCAAGACAACGCGATGAACAAAGTCGAGAAGAGGTAAATGACGGTGATCCTAA
*
69132362 TCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAATAG
131 TCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAACAG
*
69132427 AAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAGGAAATTACATATTAACTTACCCTTTATTGAA
196 AAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTGAA
69132492 GT
261 GT
*
69132494 CCTAATCAAAGGGAACACCTCAATGCAATTAGTACTCAAAATAAGGAAGGATTCATTGCACC-AG
1 CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGA-
*
69132558 AGCCAGAATTATAGCAAGACAACGCGATGAACAAAGGTCGAGAAGAGGTAAATGACGGTGATCCT
65 AGCCAAAATTATAGCAAGACAACGCGATGAACAAA-GTCGAGAAGAGGTAAATGACGGTGATCCT
69132623 AATCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAAC
129 AATCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAAC
69132688 AGAAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTG
194 AGAAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTG
69132753 AAGT
259 AAGT
69132757 CCT
1 CCT
69132760 GTCGCAGATG
Statistics
Matches: 260, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
261 1 0.00
262 95 0.37
263 164 0.63
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (262 bp):
CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGAA
GCCAAAATTATAGCAAGACAACGCGATGAACAAAGTCGAGAAGAGGTAAATGACGGTGATCCTAA
TCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAACAG
AAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTGAA
GT
Found at i:69135998 original size:11 final size:11
Alignment explanation
Indices: 69135984--69136032 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
69135974 CTTTTTATTC
69135984 TTATTTTTTAT
1 TTATTTTTTAT
*
69135995 TTATTTTAT-T
1 TTATTTTTTAT
69136005 TTA-TTTTTAT
1 TTATTTTTTAT
*
69136015 TTTTCTTTTTAT
1 TTAT-TTTTTAT
69136027 TT-TTTT
1 TTATTTT
69136033 ATTTCAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
9 4 0.12
10 10 0.31
11 9 0.28
12 9 0.28
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (11 bp):
TTATTTTTTAT
Found at i:69136014 original size:6 final size:6
Alignment explanation
Indices: 69135975--69136030 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
69135965 TCCTCCTATC
* * *
69135975 TTTTTA TTCTTA TTTTT- TATTTA -TTTTA -TTTTA TTTTTA TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
69136020 TTTTTA TTTTT
1 TTTTTA TTTTT
69136031 TTATTTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 13 0.31
6 29 0.69
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:69136014 original size:27 final size:26
Alignment explanation
Indices: 69135975--69136036 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
69135965 TCCTCCTATC
*
69135975 TTTTTATTCTTATTTTT-TATTTATTT
1 TTTTTATTTTTATTTTTCTATTTA-TT
*
69136001 TATTTTATTTTTATTTTTCTTTTTATT
1 T-TTTTATTTTTATTTTTCTATTTATT
69136028 TTTTTATTT
1 TTTTTATTT
69136037 CAATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.28
27 18 0.56
28 5 0.16
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTATTTTTATTTTTCTATTTATT
Found at i:69136031 original size:20 final size:20
Alignment explanation
Indices: 69135976--69136046 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
69135966 CCTCCTATCT
69135976 TTTTATTCTTATTTTTTATTTA
1 TTTTATT-TT-TTTTTTATTTA
*
69135998 TTTTATTTTATTTTTATTT-
1 TTTTATTTTTTTTTTATTTA
69136017 TTCTT-TTTATTTTTTTATTTCAA
1 TT-TTATTT-TTTTTTTATTT--A
69136040 TTTTATT
1 TTTTATT
69136047 ACTTTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.12
20 21 0.51
21 2 0.05
22 9 0.22
23 4 0.10
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTTTTTATTTA
Found at i:69136042 original size:26 final size:27
Alignment explanation
Indices: 69135986--69136052 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 27
69135976 TTTTATTCTT
**
69135986 ATTTTTTATTTATTTTATTTTATTTTT
1 ATTTTTTATTTATTTTATTTTATTTCA
*
69136013 ATTTTTCTTTTTA-TTT-TTTTATTTCA
1 ATTTTT-TATTTATTTTATTTTATTTCA
69136039 ATTTTATTACTTTA
1 ATTTT-TTA-TTTA
69136053 ATTTGAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 14 0.42
27 14 0.42
28 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (27 bp):
ATTTTTTATTTATTTTATTTTATTTCA
Found at i:69141834 original size:27 final size:27
Alignment explanation
Indices: 69141804--69141892 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
69141794 TATTTACTTA
69141804 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * * *
69141831 AAAATGATCGAAATA-CTCGAGTAGGAT
1 AAAATGACCGAAATACCCCCA-TAGGGT
* ** * *
69141858 AAAATGACTGTTATACCCCTATAAGGT
1 AAAATGACCGAAATACCCCCATAGGGT
69141885 AAAATGAC
1 AAAATGAC
69141893 TATTTTGCTC
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 3 0.06
27 42 0.88
28 3 0.06
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:69141914 original size:27 final size:27
Alignment explanation
Indices: 69141882--69142017 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
69141872 ACCCCTATAA
* *
69141882 GGTAAAATGACTATTTTGCTCTTTTGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * * *
69141909 GATAAATTGACTATTTTTCCCTCATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
69141936 GGTAAAATGAC-AGTTTTGCCCTTATAT
1 GGTAAAATGACTA-TTTTGCCCTTATGT
* *
69141963 GGTAAAATGACTAATTTGCCCTTAGGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * *
69141990 GGTAAGATGACTGTTTTGCCCCTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
69142017 G
1 G
69142018 ATGTATGTGT
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:69142017 original size:81 final size:81
Alignment explanation
Indices: 69141857--69142017 Score: 182
Period size: 81 Copynumber: 2.0 Consensus size: 81
69141847 TCGAGTAGGA
* * * **
69141857 TAAAATGACTGTTATACCCCTATAAGGTAAAATGACTATTTTGCTCTTTTGTGATAAATTGACTA
1 TAAAATGACAGTTATACCCCTATAAGGTAAAATGACTAATTTGCCCTTAGGTGATAAATTGACTA
*
69141922 TTTTTCCCTCATGTGG
66 TTTTCCCCTCATGTGG
* * * * *
69141938 TAAAATGACAGTTTTGCCCTTATATGGTAAAATGACTAATTTGCCCTTAGGTGGTAAGA-TGACT
1 TAAAATGACAGTTATACCCCTATAAGGTAAAATGACTAATTTGCCCTTAGGTGATAA-ATTGACT
*
69142002 GTTTTGCCCCT-ATGTG
65 ATTTT-CCCCTCATGTG
69142018 ATGTATGTGT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
81 61 0.92
82 5 0.08
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (81 bp):
TAAAATGACAGTTATACCCCTATAAGGTAAAATGACTAATTTGCCCTTAGGTGATAAATTGACTA
TTTTCCCCTCATGTGG
Found at i:69145765 original size:29 final size:29
Alignment explanation
Indices: 69145701--69145818 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
69145691 TACATACATG
* * *
69145701 CATAT-GCCCACTGGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
69145728 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* *
69145757 CTTATGGCCCACTAGGCCCAATTC-TAATT
1 CATATGGCCCATTAGGCCCAATTCAT-ATT
*
69145786 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
69145815 -ATAT
1 CATAT
69145819 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
27 4 0.05
28 17 0.23
29 52 0.70
30 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:69145798 original size:58 final size:57
Alignment explanation
Indices: 69145706--69145814 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
69145696 ACATGCATAT
* * * **
69145706 GCCCACTGGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTAATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
*
69145763 GCCCACTAGGCCCAATTCTAATTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAA-TCTAATTCAAATGGCCCATTAGGCCCAAATCATATT
69145815 ATATTCATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 14 0.31
58 31 0.69
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTAATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
Found at i:69146061 original size:24 final size:23
Alignment explanation
Indices: 69146026--69146070 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
69146016 CCGCAGCCCA
69146026 ACTTTTAGCTTTTCGACATTTTG
1 ACTTTTAGCTTTTCGACATTTTG
* *
69146049 ACTTTTTGACTTTTCGGCATTT
1 ACTTTTAG-CTTTTCGACATTT
69146071 CGGCTTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (23 bp):
ACTTTTAGCTTTTCGACATTTTG
Found at i:69153766 original size:43 final size:43
Alignment explanation
Indices: 69153717--69154633 Score: 1674
Period size: 43 Copynumber: 21.3 Consensus size: 43
69153707 ATGGTAGGCT
* * * *
69153717 CAAAGGCCCGAATGCACATCACCGGCACGAAGCCTGCTAGGCA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
* *
69153760 CGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69153803 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69153846 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69153889 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69153932 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69153975 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154018 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154061 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154104 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154147 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154190 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154233 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154276 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154319 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154362 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154405 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154448 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
69154491 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
* *
69154534 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAAGCA
1 CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
* * * * * *
69154577 CGAAGGCCCGAATACACATCA-CATGCACAAAGCATGCTAGGCA
1 CAAAGGCCTGAATACACATCATC-GGCACGAAGCCTGCTAGGTA
* *
69154620 CGAAGGCCCGAATA
1 CAAAGGCCTGAATA
69154634 TAATACCAGC
Statistics
Matches: 859, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
42 1 0.00
43 858 1.00
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.15
Consensus pattern (43 bp):
CAAAGGCCTGAATACACATCATCGGCACGAAGCCTGCTAGGTA
Found at i:69160058 original size:43 final size:43
Alignment explanation
Indices: 69159996--69160151 Score: 231
Period size: 43 Copynumber: 3.6 Consensus size: 43
69159986 CCGGTATTAT
* * * *
69159996 AGCATGGTAGGCTCAAAGGCCCGAATACACATCACCGGCACGA
1 AGCATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
* **
69160039 AGCCTGCTAGGCACGAAGGCCTAAATACACATCACCGGCACAA
1 AGCATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
* *
69160082 AGCTTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACAA
1 AGCATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
69160125 AGCATGCTAGGCACGAAGGCCCGAATA
1 AGCATGCTAGGCACGAAGGCCCGAATA
69160152 TAATACTAGC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.33, C:0.30, G:0.24, T:0.12
Consensus pattern (43 bp):
AGCATGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
Found at i:69163630 original size:12 final size:12
Alignment explanation
Indices: 69163613--69163640 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
69163603 TTGATCCAGT
69163613 CATCGATAATGG
1 CATCGATAATGG
69163625 CATCGATAATGG
1 CATCGATAATGG
69163637 CATC
1 CATC
69163641 AGTGTGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (12 bp):
CATCGATAATGG
Found at i:69164597 original size:20 final size:20
Alignment explanation
Indices: 69164561--69164598 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69164551 ACCGATAACT
**
69164561 TAGAAAATTTTTGAAAAACA
1 TAGAAAATTTTACAAAAACA
69164581 TAGAAAATTTTACAAAAA
1 TAGAAAATTTTACAAAAA
69164599 TACACGGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (20 bp):
TAGAAAATTTTACAAAAACA
Found at i:69171466 original size:46 final size:47
Alignment explanation
Indices: 69171413--69171633 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 47
69171403 TATGTGTGCT
69171413 AGTGTAAGACATGTTTGGGACATGCATCGGCTACATTATA-AGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCTACATTATACAGAGCC
* * *
69171459 AGTGTAAGACATGTTTGGGACATTCATC-G--ACATTGAGACGAGAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCTACATT-ATAC-AGAGCC
* * * * *
69171505 AGTGTAAGACATGTCTAGGACATGCATCAGCCTTGAGA-TATACA-AGCT
1 AGTGTAAGACATGTTTGGGACATGCATC-GGC-T-ACATTATACAGAGCC
* * * * * *
69171553 AGTGTAAGACCTGTCTGGGACATGGCATCGACAACGA-TAGATGAGAGCC
1 AGTGTAAGACATGTTTGGGACAT-GCATCGGCTAC-ATTATA-CAGAGCC
* *
69171602 AGTGTAAGACCTATTTGGGACATGACATCGGC
1 AGTGTAAGACATGTTTGGGACATG-CATCGGC
69171634 CTGGATATAT
Statistics
Matches: 141, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
43 5 0.04
44 2 0.01
45 1 0.01
46 58 0.41
47 4 0.03
48 29 0.21
49 36 0.26
50 3 0.02
51 1 0.01
52 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCTACATTATACAGAGCC
Found at i:69192104 original size:55 final size:53
Alignment explanation
Indices: 69191850--69192104 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 53
69191840 ACACGGGTAC
* *
69191850 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT--TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTAGAAA
* * *
69191899 CTTACC-ATTGTCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTG-CTTA-GAAA
* * * * *
69191952 CTCACCAA-TGCCATGCCTTGGCATGATCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG-C-T-TAGAAA
* * * *
69192007 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCGTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGC-TTAGAAA
* *
69192060 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
69192105 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 42 0.25
54 13 0.08
55 67 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTAGAAA
Found at i:69198542 original size:20 final size:20
Alignment explanation
Indices: 69198513--69198558 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
69198503 AGCACATGTA
* * *
69198513 TTCATGAAATTTCAGAATTT
1 TTCATTAAATTTCACAACTT
*
69198533 TTCATTAAATTTTACAACTT
1 TTCATTAAATTTCACAACTT
69198553 TTCATT
1 TTCATT
69198559 TTAGTCCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (20 bp):
TTCATTAAATTTCACAACTT
Found at i:69202716 original size:43 final size:43
Alignment explanation
Indices: 69202648--69202762 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
69202638 TAACACATAT
* * * * *
69202648 CGATGCCACTGTCCCATATAGGGTCTTATACGAAA--TCATATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCA-AT-A
* * *
69202691 CGATGCCAATGTCCCAGACATGGTCTTACCCGTAGTCTCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
*
69202734 CAATGCCAATGTCCCAGACATGGTCTTAC
1 CGATGCCAATGTCCCAGACATGGTCTTAC
69202763 GTGTAATCAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 56 0.92
44 2 0.03
45 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
Found at i:69206039 original size:30 final size:30
Alignment explanation
Indices: 69206005--69206065 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69205995 TCCTTAACTC
69206005 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
69206035 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
69206065 A
1 A
69206066 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:69210488 original size:30 final size:30
Alignment explanation
Indices: 69210454--69210513 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
69210444 CTTAACTCAG
69210454 ACTTTGGAAAAATTACAATTTTGCCCCTAA
1 ACTTTGGAAAAATTACAATTTTGCCCCTAA
* * * * *
69210484 ACTTTTGCATATTTACACTTTTGCCCCTAA
1 ACTTTGGAAAAATTACAATTTTGCCCCTAA
69210514 GGTCGGGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
ACTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:69217965 original size:29 final size:29
Alignment explanation
Indices: 69217930--69218002 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
69217920 GTTGTGAGAT
* *
69217930 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
69217959 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
69217988 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
69218003 ATGGTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:69218478 original size:40 final size:40
Alignment explanation
Indices: 69218316--69218590 Score: 199
Period size: 40 Copynumber: 6.9 Consensus size: 40
69218306 TCAAATGATG
** *
69218316 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** *
69218356 TCCGGACTAAGAT-CCGAAG-GCATTTGTGC--GAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGATA-T-A
** * *
69218395 TTCCGGGCTAAG-CCCGAAG-GCATTGGTG-TGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
*
69218435 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
69218475 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
69218515 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
69218555 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
69218591 CGTGTATTCG
Statistics
Matches: 191, Mismatches: 31, Indels: 26
0.77 0.12 0.10
Matches are distributed among these distances:
37 1 0.01
38 4 0.02
39 26 0.14
40 136 0.71
41 21 0.11
42 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:69221366 original size:79 final size:81
Alignment explanation
Indices: 69221230--69221412 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
69221220 TCGAATGATG
* *
69221230 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
69221294 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
69221309 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
69221371 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
69221389 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
69221413 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:69221428 original size:40 final size:40
Alignment explanation
Indices: 69221231--69221414 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
69221221 CGAATGATGT
* * * *
69221231 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
69221271 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
69221311 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
69221349 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
69221390 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
69221415 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:69221436 original size:79 final size:79
Alignment explanation
Indices: 69221283--69221447 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
69221273 GGACTAAGAT
* **
69221283 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
69221348 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
69221362 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
69221425 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69221441 CCGAAGG
1 CCGAAGG
69221448 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69223536 original size:35 final size:35
Alignment explanation
Indices: 69223497--69223567 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
69223487 AAATAATAAC
*
69223497 ATTTCAAAAAAAACGTTTCTTCTTGTTGTCAAGAT
1 ATTTCAAAAAAAACATTTCTTCTTGTTGTCAAGAT
*
69223532 ATTTCAAAGAAAACATTTCTTCTTGTTGTCAAGAT
1 ATTTCAAAAAAAACATTTCTTCTTGTTGTCAAGAT
69223567 A
1 A
69223568 ACTTAGACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (35 bp):
ATTTCAAAAAAAACATTTCTTCTTGTTGTCAAGAT
Found at i:69226925 original size:43 final size:43
Alignment explanation
Indices: 69226876--69227032 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 43
69226866 TATCCCATAT
* * * * *
69226876 ATGGTCTTACATGTTATCACATATTGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
69226919 AGGGTCTTATACGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* *
69226962 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
* *
69227005 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
69227033 TATCCTAATG
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 90 0.98
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Done.