Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 158 of 170
Found at i:46811277 original size:20 final size:20
Alignment explanation
Indices: 46811252--46811305 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
46811242 CTCCATTTTT
46811252 ATTTTTCATTTTTATTCTTC
1 ATTTTTCATTTTTATTCTTC
* * *
46811272 ATTTTTCATTCTCATTTTTC
1 ATTTTTCATTTTTATTCTTC
46811292 ATTTTTTCATTTTT
1 A-TTTTTCATTTTT
46811306 TTTGACTCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTCATTTTTATTCTTC
Found at i:46816443 original size:21 final size:22
Alignment explanation
Indices: 46816418--46816467 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
46816408 CTAAAAGGGG
*
46816418 AATAAAT-GGGTAAATAAAAAT
1 AATAAATAAGGTAAATAAAAAT
* *
46816439 AAT-AATAAGGTAAGTAATAAT
1 AATAAATAAGGTAAATAAAAAT
46816460 AATAAATA
1 AATAAATA
46816468 CAATAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 17 0.71
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (22 bp):
AATAAATAAGGTAAATAAAAAT
Found at i:46839717 original size:12 final size:12
Alignment explanation
Indices: 46839700--46839724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46839690 GGTTATCGAC
46839700 GATTTGAGTTTG
1 GATTTGAGTTTG
46839712 GATTTGAGTTTG
1 GATTTGAGTTTG
46839724 G
1 G
46839725 TTTATGTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (12 bp):
GATTTGAGTTTG
Found at i:46839887 original size:15 final size:15
Alignment explanation
Indices: 46839867--46839902 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
46839857 TGTAAGGAGG
46839867 AAGAAATACAGTGTA
1 AAGAAATACAGTGTA
46839882 AAGAAATACAGTGTA
1 AAGAAATACAGTGTA
*
46839897 AGGAAA
1 AAGAAA
46839903 GGAATAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (15 bp):
AAGAAATACAGTGTA
Found at i:46840897 original size:32 final size:31
Alignment explanation
Indices: 46840851--46840939 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 31
46840841 ATAAGCTAAA
* *
46840851 TTAAATTTTAAACATTTAGAAAGAAAGAATC
1 TTAAAATTGAAACATTTAGAAAGAAAGAATC
* *
46840882 TTAAAATCTGCAACATTTAGAAAGAAAGTATC
1 TTAAAAT-TGAAACATTTAGAAAGAAAGAATC
* *
46840914 TTAAAATTTAAAAATTTAGAAAGAAA
1 TTAAAATTGAAACATTTAGAAAGAAA
46840940 TTAAGCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 22 0.44
32 28 0.56
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (31 bp):
TTAAAATTGAAACATTTAGAAAGAAAGAATC
Found at i:46840987 original size:21 final size:22
Alignment explanation
Indices: 46840937--46840988 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
46840927 ATTTAGAAAG
46840937 AAATTAAGCAAAATACAACGCGA
1 AAATTAAGCAAAATACAAC-CGA
46840960 AAATTAAGCAAAATACAA-CGA
1 AAATTAAGCAAAATACAACCGA
*
46840981 CAATTAAG
1 AAATTAAG
46840989 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 10 0.36
23 18 0.64
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (22 bp):
AAATTAAGCAAAATACAACCGA
Found at i:46845909 original size:12 final size:12
Alignment explanation
Indices: 46845892--46845916 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46845882 AGATAAAGAC
46845892 ACACACACACAT
1 ACACACACACAT
46845904 ACACACACACAT
1 ACACACACACAT
46845916 A
1 A
46845917 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (12 bp):
ACACACACACAT
Found at i:46863912 original size:21 final size:21
Alignment explanation
Indices: 46863888--46863930 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
46863878 GAGTCGATGG
*
46863888 GTGA-TATGAAGTCAGCTCTCT
1 GTGATTATGAAG-CAGCACTCT
*
46863909 GTGATTGTGAAGCAGCACTCT
1 GTGATTATGAAGCAGCACTCT
46863930 G
1 G
46863931 CTTGGAACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (21 bp):
GTGATTATGAAGCAGCACTCT
Found at i:46890195 original size:14 final size:14
Alignment explanation
Indices: 46890176--46890203 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46890166 GAGGAACAAT
46890176 GTGAATGTATTTGC
1 GTGAATGTATTTGC
46890190 GTGAATGTATTTGC
1 GTGAATGTATTTGC
46890204 TTGGTCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
GTGAATGTATTTGC
Found at i:46894829 original size:17 final size:16
Alignment explanation
Indices: 46894804--46894836 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
46894794 TTTTTTGATT
46894804 TTAATATTAATATTAA
1 TTAATATTAATATTAA
46894820 TTAATAATTAATATTAA
1 TTAAT-ATTAATATTAA
46894837 AAAAACTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATTAATATTAA
Found at i:46898504 original size:2 final size:2
Alignment explanation
Indices: 46898497--46898525 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46898487 ATGAGTGAGT
46898497 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
46898526 TAATTTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46901592 original size:18 final size:17
Alignment explanation
Indices: 46901569--46901602 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
46901559 TAAAAATGGT
46901569 AATAATTATATATTTAAA
1 AATAATTATA-ATTTAAA
46901587 AATAATTATAATTTAA
1 AATAATTATAATTTAA
46901603 TTTACAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:46906260 original size:20 final size:21
Alignment explanation
Indices: 46906235--46906286 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
46906225 CATATTTCAT
46906235 ATATATGCATTTC-CCATACC
1 ATATATGCATTTCACCATACC
**
46906255 ATATATAAATTTCACCATACC
1 ATATATGCATTTCACCATACC
*
46906276 A-ATAAGCATTT
1 ATATATGCATTT
46906287 AGTTAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATATGCATTTCACCATACC
Found at i:46910080 original size:62 final size:56
Alignment explanation
Indices: 46910013--46910134 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 56
46910003 ATTGACGGTA
* *
46910013 AAAAAGATCTAGCTCGAATAGGTGATCCTATCCTGATATAGCCCTCCCGAAAAATATGTGTG
1 AAAAAGATCTAGCCCGAACAGGTGAT-C--T--TGATATAGCCCTCCCGAAAAATATGTG-G
* * *
46910075 AAAAAGATCTAGCCCGAACGGGTGATCTTGATATAGCCCTTCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGAACAGGTGATCTTGATATAGCCCTCCCGAAAAATATGTGG
46910131 AAAA
1 AAAA
46910135 TGGATTTAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.09
57 25 0.45
59 1 0.02
61 1 0.02
62 23 0.42
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (56 bp):
AAAAAGATCTAGCCCGAACAGGTGATCTTGATATAGCCCTCCCGAAAAATATGTGG
Found at i:46910126 original size:57 final size:57
Alignment explanation
Indices: 46910046--46910154 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
46910036 GATCCTATCC
46910046 TGATATAGCCCTCCCGAAAAATATGTGTGAAAA-AGATCTAGCCCGAACGGGTGATCT
1 TGATATAGCCCTCCCGAAAAATATGTG-GAAAATAGATCTAGCCCGAACGGGTGATCT
* * * * *
46910103 TGATATAGCCCTTCCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCCCGAAAAATATGTGGAAAATAGATCTAGCCCGAACGGGT
46910155 AATCCGAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 5 0.11
57 41 0.89
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAAAATATGTGGAAAATAGATCTAGCCCGAACGGGTGATCT
Found at i:46911094 original size:9 final size:9
Alignment explanation
Indices: 46911082--46911140 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
46911072 TAAAATAAAA
46911082 AATTCGGTT
1 AATTCGGTT
46911091 AATTCAGGTAT
1 AATTC-GGT-T
**
46911102 TTTTCGG-T
1 AATTCGGTT
46911110 AATTCGGTT
1 AATTCGGTT
*
46911119 AATTCGGGT
1 AATTCGGTT
*
46911128 AATTCGGGT
1 AATTCGGTT
46911137 AATT
1 AATT
46911141 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 6 0.14
9 27 0.64
10 5 0.12
11 4 0.10
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:46912190 original size:26 final size:26
Alignment explanation
Indices: 46912161--46912215 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
46912151 CACTTAGGGC
46912161 TTTGGATCTTAATAATCTCTTACATG
1 TTTGGATCTTAATAATCTCTTACATG
46912187 TTTGGATCTTAATAATCTCTTACATG
1 TTTGGATCTTAATAATCTCTTACATG
46912213 TTT
1 TTT
46912216 TAGTAAGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (26 bp):
TTTGGATCTTAATAATCTCTTACATG
Found at i:46913107 original size:16 final size:16
Alignment explanation
Indices: 46913086--46913118 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46913076 CATAGTTTCA
46913086 CTTTCGTTTTTTCCTG
1 CTTTCGTTTTTTCCTG
46913102 CTTTCGTTTTTTCCTG
1 CTTTCGTTTTTTCCTG
46913118 C
1 C
46913119 CTTAGTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.12, T:0.61
Consensus pattern (16 bp):
CTTTCGTTTTTTCCTG
Found at i:46929909 original size:15 final size:15
Alignment explanation
Indices: 46929889--46929918 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46929879 TTGAGTTAGT
46929889 TTTGGATCAAATTAA
1 TTTGGATCAAATTAA
*
46929904 TTTGGATTAAATTAA
1 TTTGGATCAAATTAA
46929919 CTCATGTTTA
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:0.03, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTGGATCAAATTAA
Found at i:46934983 original size:6 final size:6
Alignment explanation
Indices: 46934972--46934998 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46934962 TTATGGAATG
46934972 TATAAA TATAAA TATAAA TATAAA TAT
1 TATAAA TATAAA TATAAA TATAAA TAT
46934999 TAGGGGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TATAAA
Found at i:46947525 original size:105 final size:105
Alignment explanation
Indices: 46947390--46947600 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
46947380 CATTTGATAG
*
46947390 TTCTACAATAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
1 TTCTACAACAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
46947455 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
66 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
*
46947495 TTCTACAACAACTTAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
1 TTCTACAACAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
46947560 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
66 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
46947600 T
1 T
46947601 ACACCCATGG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (105 bp):
TTCTACAACAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
Found at i:46949087 original size:20 final size:21
Alignment explanation
Indices: 46949049--46949089 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
46949039 ACAGTAGTGG
*
46949049 GAAAATAAATTAAATTTATTT
1 GAAAATAAATTAAAATTATTT
46949070 GAAAATAAA-TAAAATTATTT
1 GAAAATAAATTAAAATTATTT
46949090 ACATGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
GAAAATAAATTAAAATTATTT
Found at i:46951935 original size:19 final size:19
Alignment explanation
Indices: 46951911--46952002 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
46951901 AATATTTAGG
46951911 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46951930 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
46951949 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
46951968 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46951987 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46952003 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46952028 original size:22 final size:21
Alignment explanation
Indices: 46951911--46952028 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 21
46951901 AATATTTAGG
*
46951911 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
46951930 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
46951949 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
46951968 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
46951987 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
46952009 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
46952029 TTAATTTGTA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
19 64 0.74
22 12 0.14
23 11 0.13
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:46955322 original size:9 final size:9
Alignment explanation
Indices: 46955310--46955352 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
46955300 AAAAAATAAA
46955310 AAATATTTT
1 AAATATTTT
46955319 AAATATTTT
1 AAATATTTT
*
46955328 AAATATATT
1 AAATATTTT
46955337 AAA-ATTCTT
1 AAATATT-TT
46955346 AAA-ATTT
1 AAATATTT
46955353 AATGTTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 3 0.10
9 28 0.90
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
AAATATTTT
Found at i:46964271 original size:20 final size:20
Alignment explanation
Indices: 46964233--46964320 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
46964223 AGATCAGATC
*
46964233 AAAATATTTAAAGAA-TTACT
1 AAAAT-TTTTAAGAATTTACT
46964253 AAAATTTTTAAGAATTTACT
1 AAAATTTTTAAGAATTTACT
* * * *
46964273 GATATTTTTAAG-TTTATACC
1 AAAATTTTTAAGAATT-TACT
* *
46964293 AAAATATTTAAGGATTTA-T
1 AAAATTTTTAAGAATTTACT
46964312 AAAATTTTT
1 AAAATTTTT
46964321 TAATGCTTTG
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 18 0.33
20 34 0.63
21 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (20 bp):
AAAATTTTTAAGAATTTACT
Found at i:46964577 original size:20 final size:20
Alignment explanation
Indices: 46964540--46964596 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
46964530 ATCATATTAG
*
46964540 TAAAACATTAGAATTTTTGA
1 TAAAACATTAGAAATTTTGA
* * *
46964560 TAAAATATTGGAAATTTTGG
1 TAAAACATTAGAAATTTTGA
* *
46964580 TAGAACCTTA-AAATTTT
1 TAAAACATTAGAAATTTT
46964597 TGGTAAATCT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
TAAAACATTAGAAATTTTGA
Found at i:46964597 original size:20 final size:19
Alignment explanation
Indices: 46964574--46964661 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
46964564 ATATTGGAAA
*
46964574 TTTTGGTAGAACCTTAAAAT
1 TTTTGGTA-AATCTTAAAAT
* *
46964594 TTTTGGTAAATCTTTAGAT
1 TTTTGGTAAATCTTAAAAT
* *
46964613 ATTTGGTATAATCTTAAAAA
1 TTTTGGTA-AATCTTAAAAT
*
46964633 TTTTGAG-AAATCCTTAAGAGT
1 TTTTG-GTAAAT-CTTAA-AAT
46964654 TTTTGGTA
1 TTTTGGTA
46964662 TGCAAAAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
19 18 0.34
20 27 0.51
21 8 0.15
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (19 bp):
TTTTGGTAAATCTTAAAAT
Found at i:46964644 original size:39 final size:41
Alignment explanation
Indices: 46964575--46964662 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
46964565 TATTGGAAAT
* * *
46964575 TTTGGTAGAACCTTAAAATTTTTGGTAAAT-CTTTAGA-TA
1 TTTGGTATAACCTTAAAAATTTTGGTAAATCCTTAAGAGTA
* *
46964614 TTTGGTATAATCTTAAAAATTTTGAG-AAATCCTTAAGAGTT
1 TTTGGTATAACCTTAAAAATTTTG-GTAAATCCTTAAGAGTA
46964655 TTTGGTAT
1 TTTGGTAT
46964663 GCAAAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 25 0.61
40 7 0.17
41 9 0.22
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (41 bp):
TTTGGTATAACCTTAAAAATTTTGGTAAATCCTTAAGAGTA
Found at i:46964733 original size:20 final size:20
Alignment explanation
Indices: 46964708--46964754 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
46964698 AAGAAAATCT
46964708 TTAGAAATATTGATAAACCC
1 TTAGAAATATTGATAAACCC
* *
46964728 TTAGAAATTTTGATAAATCC
1 TTAGAAATATTGATAAACCC
46964748 TTAGAAA
1 TTAGAAA
46964755 CTTTGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (20 bp):
TTAGAAATATTGATAAACCC
Found at i:46964759 original size:20 final size:19
Alignment explanation
Indices: 46964702--46964759 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
46964692 GAATCTAAGA
*
46964702 AAATCTTTAGAAATATTGAT
1 AAATCCTTAGAAAT-TTGAT
*
46964722 AAACCCTTAGAAATTTTGAT
1 AAATCCTTAGAAA-TTTGAT
46964742 AAATCCTTAGAAACTTTG
1 AAATCCTTAGAAA-TTTG
46964760 GTATGTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (19 bp):
AAATCCTTAGAAATTTGAT
Found at i:46964850 original size:20 final size:19
Alignment explanation
Indices: 46964808--46964883 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 19
46964798 AAGGAAATCT
* * *
46964808 TTAAAAATATTGATAAATTC
1 TTAAAAATTTTGGTAAA-CC
*
46964828 TTAAAAATTTTGGTAAGGCC
1 TTAAAAATTTTGGTAA-ACC
** *
46964848 TTAAATTTTTTTGTATAACC
1 TTAAAAATTTTGGTA-AACC
*
46964868 TTAGAAATTTTGGTAA
1 TTAAAAATTTTGGTAA
46964884 CTATTTAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (19 bp):
TTAAAAATTTTGGTAAACC
Found at i:46966447 original size:31 final size:30
Alignment explanation
Indices: 46966378--46966449 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
46966368 TAAAATTAGT
*
46966378 CCCTAAACTTAGTAATTAGATCCACTTTGG
1 CCCTAAACTTAGCAATTAGATCCACTTTGG
* * *
46966408 CACTTAAACTTTGCAATTAG-TCCTATTTTGG
1 C-CCTAAACTTAGCAATTAGATCC-ACTTTGG
46966439 ACCCTAAACTT
1 -CCCTAAACTT
46966450 GAAAACACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
30 4 0.12
31 29 0.85
32 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTAGCAATTAGATCCACTTTGG
Found at i:46982712 original size:34 final size:35
Alignment explanation
Indices: 46982668--46982735 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
46982658 CACTAAAATA
* *
46982668 TTTTCCGTAAAATAATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
46982702 TTTTCTGTAAAATGATTTACTGGAAAATATTTTA
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTA
46982736 TGGTGTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:46983736 original size:23 final size:23
Alignment explanation
Indices: 46983693--46983737 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46983683 TTTCTCACAT
* *
46983693 TTTCAATTCAATCATTTTCCACC
1 TTTCAATTCAATAATTATCCACC
46983716 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATT-ATCCAC
46983738 AAATTCACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTCAATTCAATAATTATCCACC
Found at i:46984788 original size:5 final size:5
Alignment explanation
Indices: 46984780--46984811 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
46984770 ATTTTATATA
46984780 ATAAT ATAAT ATAAT ATAAT ATAAT -TAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
46984812 TTATTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:46986815 original size:24 final size:25
Alignment explanation
Indices: 46986788--46986844 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
46986778 ATCATTGTGG
*
46986788 TTTTGTCCACA-TTTTTTAGTTTTA
1 TTTTGTCCACAGTTTTGTAGTTTTA
* * *
46986812 TTTTGTCTATAGTTTTGTGGTTTTA
1 TTTTGTCCACAGTTTTGTAGTTTTA
46986837 TTTTGTCC
1 TTTTGTCC
46986845 TTTTTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.12, C:0.11, G:0.14, T:0.63
Consensus pattern (25 bp):
TTTTGTCCACAGTTTTGTAGTTTTA
Found at i:46986852 original size:25 final size:26
Alignment explanation
Indices: 46986806--46986869 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
46986796 ACATTTTTTA
*
46986806 GTTTTATTTTGT-CTATAGTTTTGTG
1 GTTTTATTTTGTCCTATAGTTTTCTG
**
46986831 GTTTTATTTTGTCCT-TTTTTTTCTG
1 GTTTTATTTTGTCCTATAGTTTTCTG
*
46986856 GTTTTTGTTTTGTC
1 G-TTTTATTTTGTC
46986870 TACTTTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.06, C:0.08, G:0.17, T:0.69
Consensus pattern (26 bp):
GTTTTATTTTGTCCTATAGTTTTCTG
Found at i:46988193 original size:4 final size:4
Alignment explanation
Indices: 46988184--46988217 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
46988174 AAGTTTTATT
46988184 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
46988218 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:46988225 original size:22 final size:22
Alignment explanation
Indices: 46988167--46988226 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
46988157 AAGTGGCCCA
*
46988167 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
46988191 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
46988212 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
46988227 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:46993877 original size:21 final size:22
Alignment explanation
Indices: 46993853--46993910 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
46993843 TTTCACTATT
46993853 GTTTT-CTATTGTTTTACTACC
1 GTTTTACTATTGTTTTACTACC
* *
46993874 GTTTTACTATT-ATTTCCTACC
1 GTTTTACTATTGTTTTACTACC
*
46993895 ATTTTGA-TATTGTTTT
1 GTTTT-ACTATTGTTTT
46993911 GCTATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.17, C:0.16, G:0.09, T:0.59
Consensus pattern (22 bp):
GTTTTACTATTGTTTTACTACC
Found at i:47002589 original size:12 final size:12
Alignment explanation
Indices: 47002574--47002599 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47002564 AATTAATGAA
47002574 GTTGTTAAAACT
1 GTTGTTAAAACT
47002586 GTTGTTAAAACT
1 GTTGTTAAAACT
47002598 GT
1 GT
47002600 AACTAGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTGTTAAAACT
Found at i:47005401 original size:21 final size:21
Alignment explanation
Indices: 47005372--47005417 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
47005362 ATTACTAATA
*
47005372 CTCACCCTACAACACCTGA-TT
1 CTCAACCTACAACACCT-ACTT
47005393 CTCAACCTACAACACCTACTT
1 CTCAACCTACAACACCTACTT
47005414 CTCA
1 CTCA
47005418 GTTTAACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.30, C:0.43, G:0.02, T:0.24
Consensus pattern (21 bp):
CTCAACCTACAACACCTACTT
Found at i:47009129 original size:18 final size:16
Alignment explanation
Indices: 47009093--47009131 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
47009083 ATTATTATTT
*
47009093 TTATTTTTTTATTTTA
1 TTATTTATTTATTTTA
47009109 TTATTTATTTACTTGTTA
1 TTATTTATTTA-TT-TTA
47009127 TTATT
1 TTATT
47009132 ACCATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTATTTATTTTA
Found at i:47019502 original size:74 final size:74
Alignment explanation
Indices: 47019419--47019576 Score: 246
Period size: 74 Copynumber: 2.1 Consensus size: 74
47019409 CTATGATGAA
* * *
47019419 TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTAATTCTTTTTCTCAATTATTTATGCTT
1 TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTAATTCTTGTTCTCAAGTATGTATGCTT
47019484 ATTTCTTGT
66 ATTTCTTGT
* * *
47019493 TCTTATTATTTGATTTTTGATTTACGCGATAAATACTTGATTCTTGTTCTCAAGTATGTATGCTT
1 TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTAATTCTTGTTCTCAAGTATGTATGCTT
47019558 ATTTCTTGT
66 ATTTCTTGT
*
47019567 T-TTAATATTT
1 TCTTATTATTT
47019577 TTGAGATATT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 8 0.10
74 69 0.90
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.54
Consensus pattern (74 bp):
TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTAATTCTTGTTCTCAAGTATGTATGCTT
ATTTCTTGT
Found at i:47020024 original size:113 final size:111
Alignment explanation
Indices: 47019849--47020409 Score: 454
Period size: 114 Copynumber: 4.9 Consensus size: 111
47019839 TTTACCACGC
* * *
47019849 AGCGCCGCAAAATATC-AAGACCAACACGCAGCGTTCTGGTCTTGATGTATATTGGC-ATTAGTG
1 AGCGCCGCAAAAGATCTTA-ACCAAAACGCAGCGTT-TGGTCTTGATGTATATT-GCAATTAGTG
* *
47019912 GCGCTTATGAACAAACGCCGGTAATGTATAGTATTAGCGGCGCTTAGCGGA
63 GCGCTTATGAA-AAACGCCGCTAAAGTATAGTATTAGCGGCG-TTAGCGGA
* *
47019963 AGCGCCGCAAAAGATGTTAACCAAAACGCAGAGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
* * *
47020028 CTTATAAAGAAAACGCCGCTAATGTATAGTATTAGCGGCGTATAGCGTTA
66 CTTAT-GA-AAAACGCCGCTAAAGTATAGTATTAGCGGCGT-TAGCG-GA
* * * * * * **
47020078 AACGCCGCAAGATATCTTAATCAAAACGCACCGTTTTGGTCTTGATGTATACTATAATTAGTGGC
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCG-TTTGGTCTTGATGTATATTGCAATTAGTGGC
* * * * * * *
47020143 GTTTAAGGAAAACGCCAG-TAAAGGATAGT-TATAGCAGCGTTTGGTGGTA
65 GCTTATGAAAAACGCC-GCTAAAGTATAGTAT-TAGCGGCG-TTAGCGG-A
* * * * *
47020192 AGCGCCTCCAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGA-GGAGTATTAG-AATTAGTGG
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTA-TATT-GCAATTAGTGG
* * * *
47020255 CGCTTGATGAAAAACGCCGCTAAAGTATA-TCATTAGTGGCGTTTGTGTA
64 CGCTT-ATGAAAAACGCCGCTAAAGTATAGT-ATTAGCGGCGTTAGCGGA
* * * * *
47020304 ACGAGCCGC-AAAGTATCTTAACCAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTG
1 A-GCGCCGCAAAAG-ATCTTAACCAAAACGCAGCGTTT-GGTCTTGATGTATATTGCAATTAGTG
** * * * * *
47020368 GCGCACATGGGAAAATGCCGCTGAAGCATAATATTAGCGGCG
63 GCGCTTAT-GAAAAACGCCGCTAAAGTATAGTATTAGCGGCG
47020410 CTTTTACCGA
Statistics
Matches: 362, Mismatches: 61, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
112 9 0.02
113 97 0.27
114 189 0.52
115 35 0.10
116 32 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (111 bp):
AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
CTTATGAAAAACGCCGCTAAAGTATAGTATTAGCGGCGTTAGCGGA
Found at i:47020536 original size:18 final size:18
Alignment explanation
Indices: 47020515--47020550 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
47020505 TTATTTTATA
47020515 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
47020533 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
47020551 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:47020887 original size:14 final size:14
Alignment explanation
Indices: 47020868--47020894 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47020858 GGATTCTGGT
47020868 TAATTTAAGGGTTG
1 TAATTTAAGGGTTG
47020882 TAATTTAAGGGTT
1 TAATTTAAGGGTT
47020895 ATAGATTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
TAATTTAAGGGTTG
Found at i:47021476 original size:7 final size:7
Alignment explanation
Indices: 47021466--47021527 Score: 72
Period size: 7 Copynumber: 8.7 Consensus size: 7
47021456 GACTTTTACT
47021466 GTTTGGG
1 GTTTGGG
47021473 GTTTTGGG
1 G-TTTGGG
*
47021481 GTTTGAG
1 GTTTGGG
*
47021488 GTTTAGG
1 GTTTGGG
*
47021495 GTTTAGG
1 GTTTGGG
47021502 GTTTGAGG
1 GTTTG-GG
47021510 G-TTGGG
1 GTTTGGG
47021516 GTTTGGG
1 GTTTGGG
47021523 GTTTG
1 GTTTG
47021528 ATTTTTGAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 3 0.06
7 35 0.73
8 10 0.21
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (7 bp):
GTTTGGG
Found at i:47023863 original size:15 final size:16
Alignment explanation
Indices: 47023828--47023860 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47023818 GTATTTATAA
*
47023828 TTATCGATTTGCAATT
1 TTATCGATTTACAATT
47023844 TTATCGATTTACAATT
1 TTATCGATTTACAATT
47023860 T
1 T
47023861 ATCCGGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATCGATTTACAATT
Found at i:47023998 original size:67 final size:67
Alignment explanation
Indices: 47023925--47024063 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
47023915 ATTAATTGAT
*
47023925 TGAATGTCAATGAATTATCAATTTTGGTTA-TCTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
47023989 TAA
65 TAA
47023992 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
47024057 AA
66 AA
47024059 TGAAT
1 TGAAT
47024064 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:47024241 original size:83 final size:80
Alignment explanation
Indices: 47024103--47024341 Score: 260
Period size: 75 Copynumber: 3.0 Consensus size: 80
47024093 TTAATATAAA
* * * * * ** *
47024103 TAACTTATTAATATATATATTTTAAAGTTAATAT-ATA-ATTTCAATATTTATTATATTTTTAAA
1 TAACTTATTAATATATATATTTTAAAATTGATATCTTACATTAC-TTAAATA-TATATTTTTAAG
*
47024166 TATATTTTTACAATTTAATT
64 TATATTTTTAC-A--TAACT
47024186 TAACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATA-TTTTAAGTA
1 TAACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTA
*
47024250 TA-TTTTACATGACT
66 TATTTTTACATAACT
* *
47024264 T-A-TTAAT-ATATATATTTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTA
1 TAACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTA
*
47024326 TA-TTTTACATGACT
66 TATTTTTACATAACT
47024340 TA
1 TA
47024342 CATTACTTAC
Statistics
Matches: 140, Mismatches: 12, Indels: 14
0.84 0.07 0.08
Matches are distributed among these distances:
75 44 0.31
76 28 0.20
77 1 0.01
78 4 0.03
80 1 0.01
81 6 0.04
82 10 0.07
83 36 0.26
84 6 0.04
85 4 0.03
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (80 bp):
TAACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTA
TATTTTTACATAACT
Found at i:47024270 original size:73 final size:75
Alignment explanation
Indices: 47024188--47024341 Score: 285
Period size: 75 Copynumber: 2.1 Consensus size: 75
47024178 ATTTAATTTA
47024188 ACTTATTAATATATATA-TTTTAAAATTGATATCTTACATTACTTAAATATATA-TTTTAAGTAT
1 ACTTATTAATATATATATTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTAT
47024251 ATTTTACATG
66 ATTTTACATG
47024261 ACTTATTAATATATATATTTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTA
1 ACTTATTAATATATATA-TTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTA
47024326 TATTTTACATG
65 TATTTTACATG
47024337 ACTTA
1 ACTTA
47024342 CATTACTTAC
Statistics
Matches: 78, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
73 17 0.22
75 36 0.46
76 25 0.32
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (75 bp):
ACTTATTAATATATATATTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTAT
ATTTTACATG
Found at i:47024398 original size:13 final size:12
Alignment explanation
Indices: 47024372--47024420 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
47024362 TTTTTACTAA
*
47024372 AATTAACTTGAAT
1 AATT-ACTTAAAT
47024385 ATATTACTTAAAT
1 A-ATTACTTAAAT
47024398 AATTTACTTAAAT
1 AA-TTACTTAAAT
47024411 ACATTACTTA
1 A-ATTACTTA
47024421 CTAAAATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.03
13 27 0.84
14 4 0.12
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (12 bp):
AATTACTTAAAT
Found at i:47024689 original size:16 final size:16
Alignment explanation
Indices: 47024668--47024869 Score: 71
Period size: 16 Copynumber: 12.1 Consensus size: 16
47024658 ACACTTATAA
47024668 AACTTACATAATACAT
1 AACTTACATAATACAT
*
47024684 AACTTACAT-GT---T
1 AACTTACATAATACAT
47024696 AACTTACATAATACAT
1 AACTTACATAATACAT
* * *
47024712 GACTTATATAAAATTCTCAAAT
1 AACTTACAT--AA---T-ACAT
47024734 AAACTTACATAATACAT
1 -AACTTACATAATACAT
* *
47024751 TAGTTACATAATAACTTATAT
1 AACTTACATAAT-AC----AT
47024772 AAGCTTACATAATACA-
1 AA-CTTACATAATACAT
*
47024788 CA-TTAC-T--TACAT
1 AACTTACATAATACAT
* * *
47024800 AGCATACATAACTTACAC
1 AACTTACATAA--TACAT
* *
47024818 AACTTAAATAATACAA
1 AACTTACATAATACAT
47024834 AACTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
47024852 AACCTACATAATACAT
1 AACTTACATAATACAT
47024868 AA
1 AA
47024870 TAACTTACAA
Statistics
Matches: 136, Mismatches: 24, Indels: 52
0.64 0.11 0.25
Matches are distributed among these distances:
11 4 0.03
12 10 0.07
13 5 0.04
14 5 0.04
15 1 0.01
16 49 0.36
17 6 0.04
18 29 0.21
21 8 0.06
22 12 0.09
23 7 0.05
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:47024816 original size:9 final size:9
Alignment explanation
Indices: 47024761--47024982 Score: 135
Period size: 9 Copynumber: 25.4 Consensus size: 9
47024751 TAGTTACATA
*
47024761 ATAACTTAT
1 ATAACTTAC
47024770 ATAAGCTTAC
1 ATAA-CTTAC
*
47024780 ATAA-TACAC
1 ATAACT-TAC
*
47024789 ATTACTTAC
1 ATAACTTAC
* *
47024798 ATAGCATAC
1 ATAACTTAC
47024807 ATAACTTAC
1 ATAACTTAC
* *
47024816 ACAACTTAA
1 ATAACTTAC
47024825 ATAA--TAC
1 ATAACTTAC
*
47024832 AAAACTTAC
1 ATAACTTAC
47024841 ATAACTTAC
1 ATAACTTAC
*
47024850 ATAACCTAC
1 ATAACTTAC
*
47024859 ATAATACATA-
1 AT-A-ACTTAC
47024869 ATAACTTAC
1 ATAACTTAC
47024878 --AACTTAC
1 ATAACTTAC
*
47024885 ATAACATAC
1 ATAACTTAC
* **
47024894 ATTACTTTG
1 ATAACTTAC
47024903 ATAACTTAC
1 ATAACTTAC
47024912 ATAACTTAC
1 ATAACTTAC
47024921 AT-AC-TAC
1 ATAACTTAC
* *
47024928 ACAACTTAA
1 ATAACTTAC
*
47024937 ATAGCTTAC
1 ATAACTTAC
*
47024946 TTAA--TAC
1 ATAACTTAC
47024953 ATAACTT--
1 ATAACTTAC
* *
47024960 ATACGCGTAC
1 ATA-ACTTAC
47024970 ATAACTTAC
1 ATAACTTAC
47024979 ATAA
1 ATAA
47024983 TTGACTTAAT
Statistics
Matches: 158, Mismatches: 38, Indels: 34
0.69 0.17 0.15
Matches are distributed among these distances:
7 25 0.16
8 11 0.07
9 103 0.65
10 15 0.09
11 4 0.03
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:47024837 original size:25 final size:25
Alignment explanation
Indices: 47024803--47024853 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
47024793 CTTACATAGC
*
47024803 ATACATAACTTACACAACTTAAATA
1 ATACAAAACTTACACAACTTAAATA
* *
47024828 ATACAAAACTTACATAACTTACATA
1 ATACAAAACTTACACAACTTAAATA
47024853 A
1 A
47024854 CCTACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (25 bp):
ATACAAAACTTACACAACTTAAATA
Found at i:47024894 original size:62 final size:62
Alignment explanation
Indices: 47024802--47024928 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 62
47024792 ACTTACATAG
47024802 CATACATAACTTACACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATA
1 CATACATAACTTA-ACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATA
* ** ** * *
47024865 CATA-ATAACTT-ACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATACTA
1 CATACATAACTTAACAACTTAAAT-A-ATACAAAACTTACATAACTTACATAACCTACATAATA
47024927 CA
1 CA
47024929 CAACTTAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 10 0.18
61 1 0.02
62 40 0.73
63 4 0.07
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (62 bp):
CATACATAACTTAACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATA
Found at i:47024944 original size:25 final size:25
Alignment explanation
Indices: 47024905--47024960 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
47024895 TTACTTTGAT
* *
47024905 AACTTACATAACTTACATACTACAC
1 AACTTAAATAACTTACATAATACAC
* * *
47024930 AACTTAAATAGCTTACTTAATACAT
1 AACTTAAATAACTTACATAATACAC
47024955 AACTTA
1 AACTTA
47024961 TACGCGTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTAAATAACTTACATAATACAC
Found at i:47030535 original size:21 final size:21
Alignment explanation
Indices: 47030509--47030558 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
47030499 CTACAACTTA
*
47030509 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
* *
47030530 AAGCAGAAGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
47030551 AAGCAGAG
1 AAGCAGAG
47030559 CAGGCCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:47031027 original size:43 final size:43
Alignment explanation
Indices: 47030978--47031147 Score: 261
Period size: 43 Copynumber: 4.0 Consensus size: 43
47030968 TAAAGAATTC
*
47030978 TTCTAAGCACCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
1 TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
** * * *
47031021 TTCTAAGCGTTGCTAAAGAACATGTTCTTTAGAGGCG-TTTCT
1 TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
47031063 TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
1 TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
* *
47031106 TCCTAAGCGCCGCTAAAGAACATGGTTTTTAGCGGCGTTTTT
1 TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
47031148 GTTTGAAAAC
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 37 0.33
43 76 0.67
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (43 bp):
TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
Found at i:47031121 original size:85 final size:85
Alignment explanation
Indices: 47030978--47031145 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 85
47030968 TAAAGAATTC
* **
47030978 TTCTAAGCACCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGTTGCTAAAGAACA
1 TTCTAAGCACCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACA
47031043 T-GTTCTTTAGAGGCGTTTCT
66 TGGTT-TTTAGAGGCGTTTCT
*
47031063 TTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACA
1 TTCTAAGCACCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACA
*
47031128 TGGTTTTTAGCGGCGTTT
66 TGGTTTTTAGAGGCGTTT
47031146 TTGTTTGAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 74 0.96
86 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (85 bp):
TTCTAAGCACCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACA
TGGTTTTTAGAGGCGTTTCT
Found at i:47041259 original size:15 final size:15
Alignment explanation
Indices: 47041236--47041265 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47041226 GTGAAGAGAA
47041236 ATATCTGAAATAATG
1 ATATCTGAAATAATG
*
47041251 ATATGTGAAATAATG
1 ATATCTGAAATAATG
47041266 TACAGATATT
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:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (15 bp):
ATATCTGAAATAATG
Found at i:47053457 original size:21 final size:21
Alignment explanation
Indices: 47053388--47053460 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
47053378 TTTCCTTCAA
47053388 ATATATTTTAATTACAATTAG
1 ATATATTTTAATTACAATTAG
* * * * *
47053409 TTAAACTTTAATTGTCGAATTAA
1 ATATATTTTAATT-AC-AATTAG
47053432 ATATATTTTAATTACAATTAG
1 ATATATTTTAATTACAATTAG
*
47053453 CTATATTT
1 ATATATTT
47053461 AACTGTAGAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
21 22 0.56
22 2 0.05
23 15 0.38
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATATTTTAATTACAATTAG
Found at i:47053458 original size:23 final size:22
Alignment explanation
Indices: 47053388--47053458 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
47053378 TTTCCTTCAA
47053388 ATATATTTTAATTACAATTAGT
1 ATATATTTTAATTACAATTAGT
* * * *
47053410 -TAAACTTTAATTGTCGAATTA-A
1 ATATATTTTAATT-AC-AATTAGT
47053432 ATATATTTTAATTACAATTAGCT
1 ATATATTTTAATTACAATTAG-T
47053455 ATAT
1 ATAT
47053459 TTAACTGTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 19 0.53
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (22 bp):
ATATATTTTAATTACAATTAGT
Found at i:47053476 original size:43 final size:44
Alignment explanation
Indices: 47053386--47053476 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
47053376 GTTTTCCTTC
* * *
47053386 AAATATATTTTAATTACAATTAGTTAAACTTTAATTGTCGAATT
1 AAATATATTTTAATTACAATTAGCTAAACTTTAACTGTAGAATT
*
47053430 AAATATATTTTAATTACAATTAGCTATA-TTTAACTGTAGAATT
1 AAATATATTTTAATTACAATTAGCTAAACTTTAACTGTAGAATT
47053473 AAAT
1 AAAT
47053477 TTTTAGATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 17 0.40
44 26 0.60
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (44 bp):
AAATATATTTTAATTACAATTAGCTAAACTTTAACTGTAGAATT
Found at i:47055721 original size:28 final size:30
Alignment explanation
Indices: 47055681--47055739 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
47055671 AATAAAAATC
* *
47055681 AATAAAAGTTATAA-AAATCGTTAAATTTT
1 AATAAAAGATATAAGAAATCGTAAAATTTT
*
47055710 AATAAAA-ATATAAGAAATTGTAAAATTTT
1 AATAAAAGATATAAGAAATCGTAAAATTTT
47055739 A
1 A
47055740 TGTTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (30 bp):
AATAAAAGATATAAGAAATCGTAAAATTTT
Found at i:47058265 original size:31 final size:31
Alignment explanation
Indices: 47058230--47058290 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
47058220 AACAATCCAA
47058230 TGACTTAAATAAAAACTTTTAAATAGTTCAG
1 TGACTTAAATAAAAACTTTTAAATAGTTCAG
* * * *
47058261 TGACTTAAATGAAAATTTTTGAATATTTCA
1 TGACTTAAATAAAAACTTTTAAATAGTTCA
47058291 ATAACCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAGTTCAG
Found at i:47065166 original size:142 final size:142
Alignment explanation
Indices: 47064910--47065194 Score: 570
Period size: 142 Copynumber: 2.0 Consensus size: 142
47064900 AATGAGCAAG
47064910 TGTAGGGTTGGGATGGATTAAATTTGGGGTTGAGTGGGTGTGTTAAAAGAAAATTGATCCAACTT
1 TGTAGGGTTGGGATGGATTAAATTTGGGGTTGAGTGGGTGTGTTAAAAGAAAATTGATCCAACTT
47064975 TAGGGTACATGATATGAGAAACCAAAGGGAGCAAATCATATGTTATGATCCTCAACTATGTATAT
66 TAGGGTACATGATATGAGAAACCAAAGGGAGCAAATCATATGTTATGATCCTCAACTATGTATAT
47065040 ATTATTCACCTA
131 ATTATTCACCTA
47065052 TGTAGGGTTGGGATGGATTAAATTTGGGGTTGAGTGGGTGTGTTAAAAGAAAATTGATCCAACTT
1 TGTAGGGTTGGGATGGATTAAATTTGGGGTTGAGTGGGTGTGTTAAAAGAAAATTGATCCAACTT
47065117 TAGGGTACATGATATGAGAAACCAAAGGGAGCAAATCATATGTTATGATCCTCAACTATGTATAT
66 TAGGGTACATGATATGAGAAACCAAAGGGAGCAAATCATATGTTATGATCCTCAACTATGTATAT
47065182 ATTATTCACCTA
131 ATTATTCACCTA
47065194 T
1 T
47065195 CTTATTATAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 143 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (142 bp):
TGTAGGGTTGGGATGGATTAAATTTGGGGTTGAGTGGGTGTGTTAAAAGAAAATTGATCCAACTT
TAGGGTACATGATATGAGAAACCAAAGGGAGCAAATCATATGTTATGATCCTCAACTATGTATAT
ATTATTCACCTA
Found at i:47070435 original size:48 final size:49
Alignment explanation
Indices: 47070370--47070465 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
47070360 CGTGTTACAC
* *
47070370 AACATTACAAGAGTTGTAATAA-TTTGTATAATTGGGTAATGTTTTGTA
1 AACATTACAAGAATTGTAATAATTTTGTATAATTGGGTAATATTTTGTA
* * *
47070418 AACATTACAA-ATATTGTAATAATTTTTTGTTATTGGGTAATATTTTGT
1 AACATTACAAGA-ATTGTAATAATTTTGTATAATTGGGTAATATTTTGT
47070466 GTAATTACAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.02
48 19 0.46
49 21 0.51
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (49 bp):
AACATTACAAGAATTGTAATAATTTTGTATAATTGGGTAATATTTTGTA
Found at i:47070517 original size:59 final size:58
Alignment explanation
Indices: 47070418--47070530 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
47070408 ATGTTTTGTA
* * * * *
47070418 AACATTACAAATATTGTAATAATTTTTTGTTATTGGGTAATATTTTGTGTAATTACAC
1 AACATTACAAAAATTGTAATAATTTTATATAATTGAGTAATATTTTGTGTAATTACAC
* *
47070476 AACATTACAAAAAATTGTAAATAA-TTTATATAATTGAGTAATGTTTTTTGTAATT
1 AACATTAC-AAAAATTGT-AATAATTTTATATAATTGAGTAATATTTTGTGTAATT
47070531 GGGTAATATC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 8 0.17
59 33 0.72
60 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (58 bp):
AACATTACAAAAATTGTAATAATTTTATATAATTGAGTAATATTTTGTGTAATTACAC
Found at i:47074692 original size:4 final size:4
Alignment explanation
Indices: 47074683--47074746 Score: 128
Period size: 4 Copynumber: 16.0 Consensus size: 4
47074673 TCAGTTATGC
47074683 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
47074731 TACA TACA TACA TACA
1 TACA TACA TACA TACA
47074747 AAGATTGATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:47079832 original size:26 final size:25
Alignment explanation
Indices: 47079802--47079861 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
47079792 CTTATGAGCG
*
47079802 TCCCGTTACATGGCTCTTCGTAAGCT
1 TCCCGTTA-AAGGCTCTTCGTAAGCT
* *
47079828 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCG-TTAAAGGCTCTTCGTAAGCT
47079854 TCCCGTTA
1 TCCCGTTA
47079862 GTGTTCGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 3 0.10
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (25 bp):
TCCCGTTAAAGGCTCTTCGTAAGCT
Found at i:47083176 original size:25 final size:25
Alignment explanation
Indices: 47083148--47083200 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
47083138 ATACATCATA
* *
47083148 GCTCACTTGAGCTTCCCAATACTTG
1 GCTCACATGACCTTCCCAATACTTG
* * *
47083173 GCTCTCATGACCTTCCCGATATTTG
1 GCTCACATGACCTTCCCAATACTTG
47083198 GCT
1 GCT
47083201 TGTAAGAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (25 bp):
GCTCACATGACCTTCCCAATACTTG
Found at i:47083226 original size:25 final size:25
Alignment explanation
Indices: 47083184--47083236 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
47083174 CTCTCATGAC
* * * *
47083184 CTTCCCGATATTTGGCTTGTAAGAG
1 CTTCCCAATATATAGCTTATAAGAG
*
47083209 CTTCCCAATATATAGCTTATATGAG
1 CTTCCCAATATATAGCTTATAAGAG
47083234 CTT
1 CTT
47083237 TCCGTTACTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (25 bp):
CTTCCCAATATATAGCTTATAAGAG
Found at i:47088372 original size:20 final size:22
Alignment explanation
Indices: 47088339--47088386 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
47088329 TATTTTATAA
*
47088339 TTTTTGCATAATTTTC-TTTTC
1 TTTTTTCATAATTTTCATTTTC
47088360 TTTTTTCAT-ATTTTCATTTTC
1 TTTTTTCATAATTTTCATTTTC
47088381 TTTTTT
1 TTTTTT
47088387 TCAAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTTCATAATTTTCATTTTC
Found at i:47093159 original size:29 final size:28
Alignment explanation
Indices: 47093102--47093159 Score: 64
Period size: 31 Copynumber: 2.0 Consensus size: 28
47093092 ATTAACGCAA
* *
47093102 ATATTGATATAACATAATTTTATGATTAT
1 ATATTGATATAAAATAATTATAT-ATTAT
47093131 ATATTGCATATAAAAATAATTATAT-TTAT
1 ATATTG-ATAT-AAAATAATTATATATTAT
47093160 TCAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
30 4 0.16
31 11 0.44
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (28 bp):
ATATTGATATAAAATAATTATATATTAT
Found at i:47096358 original size:46 final size:46
Alignment explanation
Indices: 47096287--47096567 Score: 345
Period size: 46 Copynumber: 6.6 Consensus size: 46
47096277 TACGTATGAT
* *
47096287 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
47096331 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
47096377 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
47096413 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
47096459 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-GC---AG-T--
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
47096496 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
47096541 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47096568 AGTACTCATA
Statistics
Matches: 205, Mismatches: 10, Indels: 42
0.80 0.04 0.16
Matches are distributed among these distances:
36 57 0.28
38 3 0.01
39 4 0.02
40 5 0.02
42 5 0.02
43 4 0.02
44 12 0.06
45 6 0.03
46 109 0.53
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:47096418 original size:36 final size:36
Alignment explanation
Indices: 47096377--47096531 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
47096367 CTAAAGCTAC
47096377 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
47096413 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAAG--T-G-T--AG
* *
47096455 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGCAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
47096495 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
47096531 C
1 C
47096532 TAAAGCTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 63 0.62
38 1 0.01
39 1 0.01
40 3 0.03
42 2 0.02
43 1 0.01
44 1 0.01
46 29 0.29
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:47096468 original size:82 final size:82
Alignment explanation
Indices: 47096331--47096567 Score: 420
Period size: 82 Copynumber: 2.9 Consensus size: 82
47096321 CTAAGGCTAC
*
47096331 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
47096396 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGCAG
* *
47096413 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
47096478 TGATCAGATAAGTGCAG
66 TGATCAGATAAGTGCAG
* *
47096495 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
47096560 TGATCAGA
66 TGATCAGA
47096568 AGTACTCATA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 147 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGCAG
Found at i:47096567 original size:128 final size:122
Alignment explanation
Indices: 47096287--47096531 Score: 340
Period size: 128 Copynumber: 2.0 Consensus size: 122
47096277 TACGTATGAT
* * *
47096287 CACTTATCA-TTTGTCCCTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTATCCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
47096351 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
66 GATCAGATAAG-GTAGC--AAGCT--CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
* * *
47096413 CACTTATCACTTTTTCACTTGATCAGATAAGTTTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTATC-CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
47096478 TGATCAGATAA-GT-GC-AG-T-ACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
65 TGATCAGATAAGGTAGCAAGCTCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
47096531 C
1 C
47096532 TAAAGCTACC
Statistics
Matches: 112, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
118 36 0.32
121 1 0.01
122 2 0.02
125 2 0.02
126 11 0.10
127 5 0.04
128 55 0.49
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (122 bp):
CACTTATCACTTTATCCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGGTAGCAAGCTCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:47100785 original size:23 final size:23
Alignment explanation
Indices: 47100755--47100798 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
47100745 TTCCCTTTTT
*
47100755 GTAATTTTTGGGGTATTACAGTA
1 GTAATTTTCGGGGTATTACAGTA
47100778 GTAATTTTCGGGGTATTACAG
1 GTAATTTTCGGGGTATTACAG
47100799 GGGGTTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (23 bp):
GTAATTTTCGGGGTATTACAGTA
Found at i:47103540 original size:9 final size:9
Alignment explanation
Indices: 47103526--47103550 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47103516 TGCTCCGTTG
47103526 CACGCGCCC
1 CACGCGCCC
47103535 CACGCGCCC
1 CACGCGCCC
47103544 CACGCGC
1 CACGCGC
47103551 TGCTCCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.64, G:0.24, T:0.00
Consensus pattern (9 bp):
CACGCGCCC
Found at i:47107738 original size:6 final size:6
Alignment explanation
Indices: 47107727--47107760 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
47107717 AAGTAATCTT
*
47107727 TAAATA TAAATA TAAATA TAAATAA TATATA TAA
1 TAAATA TAAATA TAAATA TAAAT-A TAAATA TAA
47107761 TTGCCTGCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:47113125 original size:29 final size:31
Alignment explanation
Indices: 47113086--47113150 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
47113076 TAATCTATAT
* *
47113086 TTTTATAATTTTTAAATAAGT-AAATTA-AA
1 TTTTATAATTTTTAAAAAAGTCAAAATACAA
*
47113115 TTTTATTATTTTTAAAAAAGTCAAAATACAA
1 TTTTATAATTTTTAAAAAAGTCAAAATACAA
47113146 TTTTA
1 TTTTA
47113151 CTTTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.61
30 5 0.16
31 7 0.23
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTTATAATTTTTAAAAAAGTCAAAATACAA
Found at i:47115938 original size:66 final size:66
Alignment explanation
Indices: 47115832--47115966 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 66
47115822 CTTGAAAATA
* *
47115832 AGCTCCTCGAGTGTATTGGAGAGTCTAATTTGATGTATCAAATTACGGTAGATCAATAAGAAGCA
1 AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTACGGTAGATCAATAAGAAGCA
47115897 T
66 T
*
47115898 AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTATGGTAGATCAATAAGAAGCA
1 AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTACGGTAGATCAATAAGAAGCA
47115963 T
66 T
47115964 AGC
1 AGC
47115967 GATAAGATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (66 bp):
AGCTCCTCGAGTGTATTAGAGAGTCTAATTTGACGTATCAAATTACGGTAGATCAATAAGAAGCA
T
Found at i:47120261 original size:30 final size:31
Alignment explanation
Indices: 47120225--47120282 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
47120215 TGGTTTAATG
47120225 TGTAATTGTATACATG-AATTTTGATTTTTT
1 TGTAATTGTATACATGAAATTTTGATTTTTT
*
47120255 TGTAATTTTATACATGAAATTTTGATTT
1 TGTAATTGTATACATGAAATTTTGATTT
47120283 GATCCAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (31 bp):
TGTAATTGTATACATGAAATTTTGATTTTTT
Found at i:47125950 original size:10 final size:10
Alignment explanation
Indices: 47125922--47126036 Score: 64
Period size: 10 Copynumber: 11.4 Consensus size: 10
47125912 AAATGAGAGG
*
47125922 GAAAGGAGAA
1 GAAAGGAAAA
47125932 GAAA-G-AAA
1 GAAAGGAAAA
47125940 GAAAGGAAAA
1 GAAAGGAAAA
47125950 GAAA-GAAAA
1 GAAAGGAAAA
47125959 GGAAAGGAGAGGAAA
1 -GAAA-G-GA--AAA
*
47125974 GAAAGAAAAA
1 GAAAGGAAAA
47125984 G-AA-GAAAA
1 GAAAGGAAAA
*
47125992 GGAAAGGAAAT
1 -GAAAGGAAAA
*
47126003 GAGAAGAAAAAA
1 GA-AAG-GAAAA
*
47126015 GAAAGAAAAA
1 GAAAGGAAAA
47126025 G-AAGG-AAA
1 GAAAGGAAAA
47126033 GAAA
1 GAAA
47126037 ATAAAAGGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 29
0.70 0.06 0.24
Matches are distributed among these distances:
8 14 0.17
9 15 0.18
10 29 0.35
11 10 0.12
12 6 0.07
13 3 0.04
14 4 0.05
15 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
GAAAGGAAAA
Found at i:47125950 original size:14 final size:14
Alignment explanation
Indices: 47125933--47126037 Score: 58
Period size: 14 Copynumber: 7.2 Consensus size: 14
47125923 AAAGGAGAAG
47125933 AAAGAAAGAAAGGA
1 AAAGAAAGAAAGGA
47125947 AAAGAAAGAAAAGGAA
1 AAAGAAAG-AAAGG-A
*
47125963 AGGAGAGGAAAGAAAGAA
1 A--A-A-GAAAGAAAGGA
47125981 AAAG-AAGAAAAGGA
1 AAAGAAAG-AAAGGA
*
47125995 AAGGAAATGAGAA-G-
1 AAAGAAA-GA-AAGGA
*
47126009 AAA-AAAGAAAGAA
1 AAAGAAAGAAAGGA
*
47126022 AAAGAAGGAAA-GA
1 AAAGAAAGAAAGGA
47126035 AAA
1 AAA
47126038 TAAAAGGAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 27
0.68 0.07 0.26
Matches are distributed among these distances:
11 2 0.03
12 2 0.03
13 13 0.18
14 25 0.35
15 10 0.14
16 6 0.08
18 3 0.04
19 5 0.07
20 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (14 bp):
AAAGAAAGAAAGGA
Found at i:47125953 original size:5 final size:5
Alignment explanation
Indices: 47125933--47126043 Score: 52
Period size: 5 Copynumber: 22.8 Consensus size: 5
47125923 AAAGGAGAAG
* * * * *
47125933 AAAG- AAAGA AAGGA AAAG- AAAGA AAAGG AAAGG AGAGG AAAG- AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
* * * * * * *
47125980 AAA-A GAAGA AAAGGA AAGGA AATGA GAAGA AAAAA GAAAGA AAA-A GAAGG
1 AAAGA AAAGA AAA-GA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AAAGA
*
47126030 AAAGA AAATA AAAG
1 AAAGA AAAGA AAAG
47126044 GAGAAGAAGA
Statistics
Matches: 80, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
4 18 0.22
5 54 0.68
6 8 0.10
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:47125964 original size:38 final size:37
Alignment explanation
Indices: 47125921--47126032 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 37
47125911 AAAATGAGAG
47125921 GGAAAGGAGAAGAAAGAAAGAAAGGAAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAA-GAAAAGAAAGAAAA
* *
47125959 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGAAAAGGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAA-AAG-AAAGAAAA
* *
47125997 GGAAATGAGAAGAAA-AAAGAAAGAAAAAGAAGGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAG-AAAAGAAAGAAA
47126033 GAAAATAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
36 2 0.03
37 15 0.23
38 45 0.70
39 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (37 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAGAAAA
Found at i:47126024 original size:41 final size:41
Alignment explanation
Indices: 47125930--47126051 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 41
47125920 GGGAAAGGAG
* *
47125930 AAGAAAGAAAGAA-AGGAAAAG-AAAGAAAAGGA-AAGGAGAGGA
1 AAGAAAGAAA-AAGAAGAAAAGAAAAGAAAAGGAGAA-GA-A-AA
* * *
47125972 AAGAAAGAAAAAGAAGAAAAGGAAAGGAAATGAGAAGAAAA
1 AAGAAAGAAAAAGAAGAAAAGAAAAGAAAAGGAGAAGAAAA
* *
47126013 AAGAAAGAAAAAGAAGGAAAGAAAATAAAAGGAGAAGAA
1 AAGAAAGAAAAAGAAGAAAAGAAAAGAAAAGGAGAAGAA
47126052 GAAGAGGGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 37 0.54
42 18 0.26
43 11 0.16
44 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (41 bp):
AAGAAAGAAAAAGAAGAAAAGAAAAGAAAAGGAGAAGAAAA
Found at i:47126082 original size:10 final size:10
Alignment explanation
Indices: 47125937--47126032 Score: 77
Period size: 10 Copynumber: 9.1 Consensus size: 10
47125927 GAGAAGAAAG
*
47125937 AAAGAAAGGA
1 AAAGAAAGAA
47125947 AAAGAAAGAA
1 AAAGAAAGAA
*
47125957 AAGGAAAGGAGA
1 AAAGAAA-GA-A
47125969 GGAAAGAAAGAA
1 --AAAGAAAGAA
47125981 AAAG-AAGAA
1 AAAGAAAGAA
* *
47125990 AAGGAAAGGA
1 AAAGAAAGAA
*
47126000 AATGAGAAGAAA
1 AAAGA-AAG-AA
47126012 AAAGAAAGAA
1 AAAGAAAGAA
*
47126022 AAAGAAGGAA
1 AAAGAAAGAA
47126032 A
1 A
47126033 GAAAATAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
9 8 0.11
10 39 0.56
11 8 0.11
12 7 0.10
13 2 0.03
14 6 0.09
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:47126800 original size:152 final size:154
Alignment explanation
Indices: 47126611--47126982 Score: 585
Period size: 154 Copynumber: 2.4 Consensus size: 154
47126601 TCAAATACAC
* * *
47126611 TAAATTAAT-AAATACGAAAATAATATATTTTTATTGAAAGTATTAAAATTCAGGAAAATAATAC
1 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
* * *
47126675 GAGCAATGGGTAGGAATAAGGGTTTTTTT-AATTTATTT-AAAAACACACTAAATTAATAAATTT
66 GAGCAAAGGGGAGGAATAAGGGTTTTTTTAAATTTATTTAAAAAACACACTAAATTAAAAAATTT
47126738 CAAACATAATGTATTGAAATAATA
131 CAAACATAATGTATTGAAATAATA
47126762 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
1 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
*
47126827 -AGTAAAGGGGAGGAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAAAAAATT
66 GAGCAAAGGGGAGGAATAAGGGTTTTTTT-AAATTTATTTAAAAAACACACTAAATTAAAAAATT
*
47126891 TCAAACATAATGTATTGAAATAATG
130 TCAAACATAATGTATTGAAATAATA
* *
47126916 TAAAATAATAAAATTA-GAAAAT-ATGATATCTTTATTGAAAGTAATAAAATTCGGGAAAATAGT
1 TAAAATAATAAAA-TACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAAT
47126979 ACGA
64 ACGA
47126983 ATAAATGACC
Statistics
Matches: 204, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
151 33 0.16
152 53 0.26
153 11 0.05
154 104 0.51
155 3 0.01
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (154 bp):
TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC
GAGCAAAGGGGAGGAATAAGGGTTTTTTTAAATTTATTTAAAAAACACACTAAATTAAAAAATTT
CAAACATAATGTATTGAAATAATA
Found at i:47127007 original size:154 final size:153
Alignment explanation
Indices: 47126410--47127009 Score: 544
Period size: 154 Copynumber: 4.0 Consensus size: 153
47126400 AAAAATGGTA
* *
47126410 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATA
* * * *
47126475 AAATTAGAAAAT-ATGATATTTTTTAAATT--AAGTAATAAAATGCAGAGAAAA-AATACAAACA
65 AAATTAGAAAATAAT-ATA-TTTTT--ATTGAAAGTAATAAAATTC-GGGAAAATAATACGAATA
* * *
47126536 AAT-AGTCGAAGTAAGAGTTTTTTACTAAATT
125 AATGA-TAGAAATAAGGGTTTTTTA--AAATT
** * * * * * *
47126567 T-TTTAAAAATTCA-GAAA-TAATTAA--T---ACA-AATAT-TTCAAATACA-CTAAATTAATA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATA-ATGTAAAATAATA
** * * * * **
47126621 AATACGAAAATA--ATATATTTTTATTGAAAGTATTAAAATTCAGGAAAATAATACG-AGCAATG
65 AA-ATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAAT-
* * *
47126683 GGTAGGAATAAGGGTTTTTT-TAATT
128 GATAGAAATAAGGGTTTTTTAAAATT
*
47126708 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATATAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATAA
* * *
47126773 AA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATAC-AGTAAAGGG
66 AATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAATGA
* *
47126836 GAGGAATAAGGGTTTTTTTAAAATT
130 TAGAAATAAGGG-TTTTTTAAAATT
*
47126861 TATTTAAAAAACACACTAAATTAAAAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATA
* *
47126926 AAATTAGAAAAT-ATGATATCTTTATTGAAAGTAATAAAATTCGGGAAAATAGTACGAATAAATG
65 AAATTAGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAATG
**
47126990 ACCGAAATAAGGGTTTTTTA
129 ATAGAAATAAGGGTTTTTTA
47127010 CTAATTTTTT
Statistics
Matches: 360, Mismatches: 55, Indels: 59
0.76 0.12 0.12
Matches are distributed among these distances:
141 5 0.01
142 13 0.04
143 12 0.03
144 42 0.12
145 3 0.01
146 20 0.06
147 10 0.03
148 3 0.01
149 4 0.01
150 9 0.03
151 32 0.09
152 48 0.13
153 17 0.05
154 114 0.32
155 24 0.07
156 3 0.01
157 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (153 bp):
TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTATTGAAATAATGTAAAATAATAA
AATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAATAAATGAT
AGAAATAAGGGTTTTTTAAAATT
Found at i:47128676 original size:12 final size:12
Alignment explanation
Indices: 47128661--47128691 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47128651 CAAGATCCCG
*
47128661 AGCCGGAGCCCC
1 AGCCAGAGCCCC
47128673 AGCCAGAGCCCC
1 AGCCAGAGCCCC
47128685 AGCCAGA
1 AGCCAGA
47128692 TCCCGAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.45, G:0.29, T:0.00
Consensus pattern (12 bp):
AGCCAGAGCCCC
Found at i:47133930 original size:7 final size:7
Alignment explanation
Indices: 47133916--47133945 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
47133906 TTAATAAATA
47133916 ATATTAT
1 ATATTAT
*
47133923 ATACTAT
1 ATATTAT
47133930 ATATTAT
1 ATATTAT
47133937 ATATTAT
1 ATATTAT
47133944 AT
1 AT
47133946 GTATTAGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATTAT
Found at i:47139413 original size:8 final size:7
Alignment explanation
Indices: 47139403--47139442 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
47139393 ATTTTTACTT
47139403 TTTTTTA
1 TTTTTTA
47139410 TTTTTTA
1 TTTTTTA
*
47139417 TGTTTTA
1 TTTTTTA
*
47139424 GTTTTTA
1 TTTTTTA
47139431 TTATTTTA
1 TT-TTTTA
47139439 TTTT
1 TTTT
47139443 ATTTTATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:47139663 original size:24 final size:25
Alignment explanation
Indices: 47139626--47139672 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
47139616 GTTGTTTTAT
* * *
47139626 TTTTTAATATTTTATAATTATAAAA
1 TTTTGAATATTTTAAAATAATAAAA
47139651 TTTTGAATA-TTTAAAATAATAA
1 TTTTGAATATTTTAAAATAATAA
47139673 TCAAGTTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTGAATATTTTAAAATAATAAAA
Found at i:47140462 original size:48 final size:48
Alignment explanation
Indices: 47140383--47140476 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
47140373 AGGGAATTCT
*
47140383 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTATG
1 GTTGAATCCTTTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTATG
* *
47140431 GTTGAATCCTTTTTTGGTG-GAAGTT-AGGCTGACTTAGGTGTTTTTA
1 GTTGAATCCTTTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
47140477 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.45
Consensus pattern (48 bp):
GTTGAATCCTTTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTATG
Found at i:47142948 original size:48 final size:48
Alignment explanation
Indices: 47142892--47142985 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
47142882 AGGGAATTCT
*
47142892 GTTGAATCCTTTATTGTTGCG-AGTT-GAGCTAACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATTGGTG-GAAGTTAG-GCTAACTTAGGCGTTTTTACG
* *
47142940 GTTGAATCCTTTTTTGGTGGAAGTTAGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATTGGTGGAAGTTAGGCTAACTTAGGCGTTTTTA
47142986 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 39 0.95
49 1 0.02
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.43
Consensus pattern (48 bp):
GTTGAATCCTTTATTGGTGGAAGTTAGGCTAACTTAGGCGTTTTTACG
Found at i:47143274 original size:19 final size:19
Alignment explanation
Indices: 47143243--47143288 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
47143233 GCGTAATCAC
47143243 TTTTTTA-TATTAAAATAT
1 TTTTTTATTATTAAAATAT
* *
47143261 TTTTTTATTTTTAAATTAT
1 TTTTTTATTATTAAAATAT
*
47143280 TATTTTATT
1 TTTTTTATT
47143289 GGTGACGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATTATTAAAATAT
Found at i:47143424 original size:27 final size:27
Alignment explanation
Indices: 47143385--47143490 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
47143375 GGTAGGCGGC
* * *
47143385 GCCTATCTAGTAGGCACGACTGATGGA
1 GCCTATCTGGTAGGCGCGACTGGTGGA
*
47143412 GCCTATCTGGTAGGCGCAACTGGTGGA
1 GCCTATCTGGTAGGCGCGACTGGTGGA
* *
47143439 GCCTATTTGGTATGCGCGACTGGTGGA
1 GCCTATCTGGTAGGCGCGACTGGTGGA
* **
47143466 GCTTATCTGACAGGCGCGACTGGTG
1 GCCTATCTGGTAGGCGCGACTGGTG
47143491 CTTAATTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.25
Consensus pattern (27 bp):
GCCTATCTGGTAGGCGCGACTGGTGGA
Found at i:47146545 original size:33 final size:33
Alignment explanation
Indices: 47146508--47146580 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
47146498 CGATGAACTT
* * *
47146508 GAGCCGGAAGGAGTGGAGTACGGCGATGGATAC
1 GAGCCGGAAGGAGAGGAATACGGAGATGGATAC
* * *
47146541 GAGCCTGAAGGAGAGGAATACTGAGGTGGATAC
1 GAGCCGGAAGGAGAGGAATACGGAGATGGATAC
47146574 GAGCCGG
1 GAGCCGG
47146581 GATGACTGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.15, G:0.44, T:0.12
Consensus pattern (33 bp):
GAGCCGGAAGGAGAGGAATACGGAGATGGATAC
Found at i:47146738 original size:18 final size:17
Alignment explanation
Indices: 47146714--47146757 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
47146704 AGTGTAGTTT
47146714 CGGCTCTACCTCCGGCTC
1 CGGCTCTA-CTCCGGCTC
* *
47146732 TGGCTCTGACTCTGGCTC
1 CGGCTCT-ACTCCGGCTC
47146750 CGGCTCTA
1 CGGCTCTA
47146758 GTGCATGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.07, C:0.41, G:0.25, T:0.27
Consensus pattern (17 bp):
CGGCTCTACTCCGGCTC
Found at i:47146756 original size:12 final size:12
Alignment explanation
Indices: 47146723--47146756 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47146713 TCGGCTCTAC
47146723 CTCCGGCTCTGG
1 CTCCGGCTCTGG
* *
47146735 CTCTGACTCTGG
1 CTCCGGCTCTGG
47146747 CTCCGGCTCT
1 CTCCGGCTCT
47146757 AGTGCATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.41, G:0.26, T:0.29
Consensus pattern (12 bp):
CTCCGGCTCTGG
Found at i:47148615 original size:15 final size:16
Alignment explanation
Indices: 47148579--47148618 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
47148569 ATATTTTAAT
47148579 AAATAAATAAAAATTGTC
1 AAATAAATAAAAA-T-TC
47148597 AAATAAATAAAAA-TC
1 AAATAAATAAAAATTC
47148612 AAATAAA
1 AAATAAA
47148619 ATTACATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
18 13 0.59
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAAATAAAAATTC
Found at i:47148748 original size:102 final size:103
Alignment explanation
Indices: 47148642--47148919 Score: 386
Period size: 102 Copynumber: 2.7 Consensus size: 103
47148632 AAAATTACAT
47148642 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
47148707 AAAATAACGATAAAATTA-TTTAAAAAAAATACATTAC
66 AAAATAACGATAAAATTAGTTTAAAAAAAATACATTAC
* *
47148744 TAAAAAAATCACAAAACACATAAA-TAAACA-TAACAATTTATAAAATCTAATCATAAATTACTA
1 T-AAAAAATCACAAAACAC-TAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTA
* *** *
47148807 ACAAAATAACTATAAAATTAGTTTTTTTAAAATTACATTAC
64 ACAAAATAACGATAAAATTAG-TTTAAAAAAAATACATTAC
* * *
47148848 TAAAAAATCACAAAACTCTATACTAAACACTAACAA-TT-TGTAACCTAATCCCATAAATTACTA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACTA
47148911 ACAAAATAA
64 ACAAAATAA
47148920 ATAACTATAA
Statistics
Matches: 156, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
102 62 0.40
103 47 0.30
104 47 0.30
ACGTcount: A:0.56, C:0.16, G:0.01, T:0.27
Consensus pattern (103 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACGATAAAATTAGTTTAAAAAAAATACATTAC
Found at i:47148967 original size:29 final size:29
Alignment explanation
Indices: 47148871--47148972 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 29
47148861 AACTCTATAC
*
47148871 TAAAC-ACTAACAATTTGTAACCTAATCCCA
1 TAAACTACTAACAATTTATAACCTAAT--CA
* ** *
47148901 TAAATTACTAACAAAATAAATAA-CTATAACA
1 TAAACTACTAAC--AATTTATAACCTA-ATCA
47148932 -AAA-TACTAACAATTTATAACCTAATCA
1 TAAACTACTAACAATTTATAACCTAATCA
47148959 TAAACTACTAACAA
1 TAAACTACTAACAA
47148973 AATAACTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
27 10 0.18
28 6 0.11
29 16 0.28
30 7 0.12
31 8 0.14
32 3 0.05
33 7 0.12
ACGTcount: A:0.53, C:0.20, G:0.01, T:0.26
Consensus pattern (29 bp):
TAAACTACTAACAATTTATAACCTAATCA
Found at i:47149165 original size:42 final size:42
Alignment explanation
Indices: 47149118--47149203 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
47149108 CAACAATTTA
47149118 TAACATAAGCCTAAATTACTAATAAATTAATTTTAAAATAAT
1 TAACATAAGCCTAAATTACTAATAAATTAATTTTAAAATAAT
* *
47149160 TAACATAATCCTAAATTACTAATAAATTATTTTTAAAATAAT
1 TAACATAAGCCTAAATTACTAATAAATTAATTTTAAAATAAT
47149202 TA
1 TA
47149204 CAAACACAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (42 bp):
TAACATAAGCCTAAATTACTAATAAATTAATTTTAAAATAAT
Found at i:47150813 original size:30 final size:30
Alignment explanation
Indices: 47150756--47150815 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47150746 ATTTAACCAG
* *
47150756 TTTTATGAATTTTTAATACATATTTTAATT
1 TTTTATGAAATTTTAATAAATATTTTAATT
*
47150786 TTTTATGAAATTTTAA-AAATTTATTTAATT
1 TTTTATGAAATTTTAATAAATAT-TTTAATT
47150816 ATTGTTAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTATGAAATTTTAATAAATATTTTAATT
Found at i:47157604 original size:20 final size:19
Alignment explanation
Indices: 47157569--47157629 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
47157559 ATTTTCTTAA
47157569 ATTTAAAAAATTTTAAAAAAT
1 ATTTAAAAAA--TTAAAAAAT
* *
47157590 ATTTTAAAAAGTT-AAAATT
1 A-TTTAAAAAATTAAAAAAT
47157609 ATTTAAAAAATTATAAAAAT
1 ATTTAAAAAATTA-AAAAAT
47157629 A
1 A
47157630 CATTTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 8 0.24
21 1 0.03
22 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTTAAAAAATTAAAAAAT
Found at i:47160482 original size:14 final size:15
Alignment explanation
Indices: 47160463--47160492 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47160453 ACAATTTTAA
47160463 ATTTTAA-TTAATAT
1 ATTTTAATTTAATAT
47160477 ATTTTAATTTAATAT
1 ATTTTAATTTAATAT
47160492 A
1 A
47160493 ATTTGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTAATTTAATAT
Found at i:47163996 original size:64 final size:64
Alignment explanation
Indices: 47163917--47164048 Score: 237
Period size: 64 Copynumber: 2.1 Consensus size: 64
47163907 CAAAATAGAT
*
47163917 AGTTTTGAACATCTCGAGATGGACTTCAAGCCTACATGAGAGAACATAAAACAGATTATGGTCA
1 AGTTTTGAACATCTCGAGATGGACTTCAAACCTACATGAGAGAACATAAAACAGATTATGGTCA
* *
47163981 AGTTTTGAACATCTCGAGATGGACTTCAAACCTGCATGAGAGAGCATAAAACAGATTATGGTCA
1 AGTTTTGAACATCTCGAGATGGACTTCAAACCTACATGAGAGAACATAAAACAGATTATGGTCA
47164045 AGTT
1 AGTT
47164049 AAAACCTTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (64 bp):
AGTTTTGAACATCTCGAGATGGACTTCAAACCTACATGAGAGAACATAAAACAGATTATGGTCA
Found at i:47185259 original size:3 final size:3
Alignment explanation
Indices: 47185251--47185296 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
47185241 AAAATAGTGA
47185251 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47185297 GCAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47189321 original size:26 final size:26
Alignment explanation
Indices: 47189286--47189337 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
47189276 AATGTGAAAG
*
47189286 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47189312 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47189338 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:47189366 original size:103 final size:104
Alignment explanation
Indices: 47189104--47189369 Score: 453
Period size: 104 Copynumber: 2.6 Consensus size: 104
47189094 TTGTATATAA
** * *
47189104 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCATATCTT
47189169 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
47189208 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCATATCTT
47189273 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
47189311 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCA
47189370 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 60 0.39
104 92 0.61
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47196762 original size:104 final size:104
Alignment explanation
Indices: 47196582--47196848 Score: 464
Period size: 104 Copynumber: 2.6 Consensus size: 104
47196572 TTGTATATAA
** *
47196582 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
47196646 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
47196686 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
47196751 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
47196790 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
47196849 ATAACGGTTA
Statistics
Matches: 155, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
104 154 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47198566 original size:21 final size:20
Alignment explanation
Indices: 47198541--47198579 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
47198531 ATTATTTAAC
*
47198541 TATTTTTTATAAAATTATATT
1 TATTTATTAT-AAATTATATT
*
47198562 TATTTATTATTAATTATA
1 TATTTATTATAAATTATA
47198580 AATGAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTATTATAAATTATATT
Found at i:47201158 original size:21 final size:18
Alignment explanation
Indices: 47201115--47201161 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
47201105 GTTCACAAGC
*
47201115 TGTTAATATCAGTTAGTT
1 TGTTAGTATCAGTTAGTT
47201133 TGTTAGTATGCAGTTAGTAGT
1 TGTTAGTAT-CAGTTAGT--T
47201154 TGTTAGTA
1 TGTTAGTA
47201162 GACAGCAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 8 0.32
21 9 0.36
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (18 bp):
TGTTAGTATCAGTTAGTT
Done.