Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 164 of 203
Found at i:51805996 original size:18 final size:18
Alignment explanation
Indices: 51805975--51806015 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
51805965 TATTCTAATT
51805975 TTTTATAATTA-TTAGGTA
1 TTTTATAATTATTTAGG-A
*
51805993 TTTTA-AGTTATTTAGGA
1 TTTTATAATTATTTAGGA
51806010 TTTTAT
1 TTTTAT
51806016 GTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
TTTTATAATTATTTAGGA
Found at i:51806012 original size:17 final size:18
Alignment explanation
Indices: 51805986--51806019 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51805976 TTTATAATTA
51805986 TTAGGTATTTTAAGTTAT
1 TTAGGTATTTTAAGTTAT
*
51806004 TTAGG-ATTTTATGTTA
1 TTAGGTATTTTAAGTTA
51806020 ATAAAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (18 bp):
TTAGGTATTTTAAGTTAT
Found at i:51806870 original size:15 final size:16
Alignment explanation
Indices: 51806835--51806872 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51806825 AAAAAAGGAC
51806835 GAAAAAAAGAAAATAT
1 GAAAAAAAGAAAATAT
*
51806851 GAAAAAAATAAAA-AT
1 GAAAAAAAGAAAATAT
*
51806866 TAAAAAA
1 GAAAAAA
51806873 TATTATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (16 bp):
GAAAAAAAGAAAATAT
Found at i:51816008 original size:30 final size:30
Alignment explanation
Indices: 51815962--51816052 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
51815952 ATTTCTTATG
* *
51815962 CCAATATCTCGATACCCATATCTTTGATTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
51815993 CCAATATTTGATACCCATATCCTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
51816023 CCATTATTTGATAACCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
51816053 ACATAAATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 46 0.87
31 7 0.13
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:51816033 original size:15 final size:16
Alignment explanation
Indices: 51815977--51816057 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 16
51815967 ATCTCGATAC
* *
51815977 CCATATCTTTGATTTT
1 CCATATATTTGACTTT
**
51815993 CCA-ATATTTGA-TAC
1 CCATATATTTGACTTT
**
51816007 CCATATCCTTGACTTT
1 CCATATATTTGACTTT
**
51816023 CCAT-TATTTGA-TAA
1 CCATATATTTGACTTT
51816037 CCATATATTTGACTTT
1 CCATATATTTGACTTT
*
51816053 ACATA
1 CCATA
51816058 AATACGGATG
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
14 9 0.19
15 25 0.53
16 13 0.28
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.44
Consensus pattern (16 bp):
CCATATATTTGACTTT
Found at i:51820677 original size:30 final size:31
Alignment explanation
Indices: 51820631--51820721 Score: 132
Period size: 30 Copynumber: 3.0 Consensus size: 31
51820621 ATTTCTTATG
51820631 CCAATATTTCGATACCCATATCTTTGA-TTTT
1 CCAATATTT-GATACCCATATCTTTGACTTTT
51820662 CCAATATTTGATACCCATATCTTTGACTTTT
1 CCAATATTTGATACCCATATCTTTGACTTTT
* * *
51820693 -CATTATTTGATAACCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
51820722 ACATAAATAC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
30 43 0.77
31 13 0.23
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (31 bp):
CCAATATTTGATACCCATATCTTTGACTTTT
Found at i:51820714 original size:15 final size:15
Alignment explanation
Indices: 51820634--51820717 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
51820624 TCTTATGCCA
51820634 ATATTTCGATACCCAT
1 ATATTT-GATACCCAT
* **
51820650 ATCTTTGATTTTCCA-
1 ATATTTGA-TACCCAT
51820665 ATATTTGATACCCAT
1 ATATTTGATACCCAT
* ***
51820680 ATCTTTGACTTTTCAT
1 ATATTTGA-TACCCAT
*
51820696 -TATTTGATAACCAT
1 ATATTTGATACCCAT
51820710 ATATTTGA
1 ATATTTGA
51820718 CTTTACATAA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
14 8 0.16
15 29 0.58
16 13 0.26
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATTTGATACCCAT
Found at i:51822910 original size:24 final size:24
Alignment explanation
Indices: 51822874--51822920 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51822864 ATTATATATT
* *
51822874 AAATATATATTTTTATTTTTAATC
1 AAATATATATTTTAAATTTTAATC
51822898 AAATATACT-TTTTAAATTTTAAT
1 AAATATA-TATTTTAAATTTTAAT
51822921 ATGCTACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATATATATTTTAAATTTTAATC
Found at i:51823885 original size:22 final size:23
Alignment explanation
Indices: 51823857--51823925 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 23
51823847 TCTCCAATTA
51823857 TTAGCACATTAGTGCTCTTC-GT
1 TTAGCACATTAGTGCTCTTCTGT
*
51823879 TTAGCACATTTGTGCTC-TCTGT
1 TTAGCACATTAGTGCTCTTCTGT
* *
51823901 ATAGCACTTTAGTGCTC-TCTGT
1 TTAGCACATTAGTGCTCTTCTGT
51823923 TTA
1 TTA
51823926 ATAGTGCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 2 0.05
22 39 0.95
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (23 bp):
TTAGCACATTAGTGCTCTTCTGT
Found at i:51830705 original size:4 final size:4
Alignment explanation
Indices: 51830696--51830727 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
51830686 GGTCTTTTCC
*
51830696 GACA GACA GACA GACA GACA GACA GGCA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA
51830728 ACCAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.28, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:51833621 original size:32 final size:32
Alignment explanation
Indices: 51833577--51833638 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
51833567 CACAACATTG
51833577 AAGGCATATTTTATCATATCTAATTATGTTAA
1 AAGGCATATTTTATCATATCTAATTATGTTAA
*
51833609 AAGGCATGTTTTATCATATCTAATTATGTT
1 AAGGCATATTTTATCATATCTAATTATGTT
51833639 GTTCGTCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (32 bp):
AAGGCATATTTTATCATATCTAATTATGTTAA
Found at i:51834748 original size:18 final size:18
Alignment explanation
Indices: 51834725--51834760 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
51834715 TAAACGTCTT
*
51834725 GGTATCAGAGCAAATATA
1 GGTATCAAAGCAAATATA
51834743 GGTATCAAAGCAAATATA
1 GGTATCAAAGCAAATATA
51834761 ATTATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (18 bp):
GGTATCAAAGCAAATATA
Found at i:51840648 original size:27 final size:29
Alignment explanation
Indices: 51840608--51840671 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
51840598 GTGGGTTCAG
51840608 TATATA-ATATT-TATGCA-TGGGCTTTGT
1 TATATATATATTATATG-ATTGGGCTTTGT
*
51840635 TATATATATATTATATGATTGGGTTTTGT
1 TATATATATATTATATGATTGGGCTTTGT
51840664 TATATATA
1 TATATATA
51840672 CCATATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 6 0.18
28 6 0.18
29 21 0.64
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.52
Consensus pattern (29 bp):
TATATATATATTATATGATTGGGCTTTGT
Found at i:51846310 original size:41 final size:41
Alignment explanation
Indices: 51846265--51846395 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
51846255 TTTTTGAATC
* ** *
51846265 AATGAAAAGGTTGAAAAGGATGTTATTTGAAAAGGATCTCA
1 AATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCA
** * *
51846306 AATGAAAATATTGAAAAAGATGTTATCCAAAAATGATATCA
1 AATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCA
* *
51846347 AATGAAAAGGTTGAAAAAGATGTTACCCGAAAAGGATAACA
1 AATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCA
51846388 AATGAAAA
1 AATGAAAA
51846396 TGATGTATCT
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAAGATGTTATCCGAAAAGGATATCA
Found at i:51847626 original size:18 final size:19
Alignment explanation
Indices: 51847603--51847639 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
51847593 GTGTAACCCC
51847603 TGTTTTCCC-AAATTTTCA
1 TGTTTTCCCAAAATTTTCA
51847621 TGTTTTCCCAAAATTTTCA
1 TGTTTTCCCAAAATTTTCA
51847640 ATTTTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (19 bp):
TGTTTTCCCAAAATTTTCA
Found at i:51847644 original size:18 final size:18
Alignment explanation
Indices: 51847605--51847644 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
51847595 GTAACCCCTG
*
51847605 TTTTCCCAAATTTTCATG
1 TTTTCCCAAATTTTCATA
51847623 TTTTCCCAAAATTTTCA-A
1 TTTTCCC-AAATTTTCATA
51847641 TTTT
1 TTTT
51847645 GTTTCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTCCCAAATTTTCATA
Found at i:51865902 original size:13 final size:13
Alignment explanation
Indices: 51865884--51865947 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
51865874 AGTTCTTCAT
51865884 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
51865897 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
*
51865910 TGCTTTTGAGAAG
1 TGCTTTTCAGAAG
51865923 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
*
51865936 TGCTTTTGAGAA
1 TGCTTTTCAGAA
51865948 ATTTGAGTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTCAGAAG
Found at i:51869359 original size:68 final size:68
Alignment explanation
Indices: 51869250--51869386 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
51869240 ATCATCATAT
*
51869250 TCTTCATTTTGGTGATGGGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
1 TCTTCATTTTGGTGATGCGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
51869315 GAG
66 GAG
*
51869318 TCTTCATTTTGGTGATGCGAAAATTGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
1 TCTTCATTTTGGTGATGCGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
51869383 GAG
66 GAG
51869386 T
1 T
51869387 TCATTGCATG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (68 bp):
TCTTCATTTTGGTGATGCGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
GAG
Found at i:51869759 original size:41 final size:41
Alignment explanation
Indices: 51869702--51869830 Score: 154
Period size: 41 Copynumber: 3.1 Consensus size: 41
51869692 TGAATCAATT
*
51869702 AAAAGGTTGAAAAGGATGTTAAT-AAAAAAGGATATCGAATG
1 AAAAGGTTGAAAAGGATGTT-ATCCAAAAAGGATATCGAATG
* * * *
51869743 AAAAGATTGAAAAGGATGCTATCCAAAAATGATATCAAAT-
1 AAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCGAATG
** *
51869783 AAGAAGGTTGAAAATAATGTTATCCAAAAAGGATAACGAATG
1 AA-AAGGTTGAAAAGGATGTTATCCAAAAAGGATATCGAATG
51869825 AAAAGG
1 AAAAGG
51869831 ATGTATTTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.05
41 67 0.92
42 2 0.03
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCGAATG
Found at i:51874251 original size:68 final size:68
Alignment explanation
Indices: 51874142--51874278 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
51874132 ATCATCATAT
*
51874142 TCTTCATTTTGGTGATGGGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
1 TCTTCATTTTGGTGATGCGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
51874207 GAG
66 GAG
*
51874210 TCTTCATTTTGGTGATGCGAAAATTGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
1 TCTTCATTTTGGTGATGCGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
51874275 GAG
66 GAG
51874278 T
1 T
51874279 TCATTGCATG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (68 bp):
TCTTCATTTTGGTGATGCGAAAATCGAAACACCATTAGACGAGGTTAGAAGCTTTCGGCCAATTT
GAG
Found at i:51874651 original size:41 final size:41
Alignment explanation
Indices: 51874594--51874722 Score: 154
Period size: 41 Copynumber: 3.1 Consensus size: 41
51874584 TGAATCAATT
*
51874594 AAAAGGTTGAAAAGGATGTTAAT-AAAAAAGGATATCGAATG
1 AAAAGGTTGAAAAGGATGTT-ATCCAAAAAGGATATCGAATG
* * * *
51874635 AAAAGATTGAAAAGGATGCTATCCAAAAATGATATCAAAT-
1 AAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCGAATG
** *
51874675 AAGAAGGTTGAAAATAATGTTATCCAAAAAGGATAACGAATG
1 AA-AAGGTTGAAAAGGATGTTATCCAAAAAGGATATCGAATG
51874717 AAAAGG
1 AAAAGG
51874723 ATGTATTTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.05
41 67 0.92
42 2 0.03
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCGAATG
Found at i:51881966 original size:27 final size:27
Alignment explanation
Indices: 51881935--51882108 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
51881925 ATTTAAGCTC
*
51881935 CTAAGTGTGCGATTTGACTATGTTGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
** *
51881962 CTAAGTGTGCGAAATGAATATG-ATGCA
1 CTAAGTGTGCGATTTGACTATGTA-GCA
* * **
51881989 CTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
51882016 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGA-TTTGACTATGTAGCA
* *
51882044 CTAAGTGTGCGATTTGATTACGTAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
* * *
51882071 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
*
51882098 CTGAGTGTGCG
1 CTAAGTGTGCG
51882109 GACTCAATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
CTAAGTGTGCGATTTGACTATGTAGCA
Found at i:51882045 original size:82 final size:81
Alignment explanation
Indices: 51881935--51882087 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 81
51881925 ATTTAAGCTC
* *
51881935 CTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGC
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTGC
51881999 GAATTGACCATGCGGCA
65 GAATTGACCATGCGGCA
** *
51882016 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
*
51882081 GAGTTGA
65 GAATTGA
51882088 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 12 0.19
82 51 0.80
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
AATTGACCATGCGGCA
Found at i:51882099 original size:82 final size:81
Alignment explanation
Indices: 51881935--51882108 Score: 215
Period size: 82 Copynumber: 2.1 Consensus size: 81
51881925 ATTTAAGCTC
* *
51881935 CTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCG
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCG
* *
51882000 AATTGACCATGCGGCA
66 AATTGACCATACAGCA
** *
51882016 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTG
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTG
* ** *
51882080 CGAGTTGATTATATAGCA
64 CGAATTGACCATACAGCA
*
51882098 CTGAGTGTGCG
1 CTAAGTGTGCG
51882109 GACTCAATAT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 13 0.16
82 66 0.84
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCG
AATTGACCATACAGCA
Found at i:51885980 original size:5 final size:5
Alignment explanation
Indices: 51885970--51886048 Score: 67
Period size: 5 Copynumber: 16.4 Consensus size: 5
51885960 AATCAAAATG
** * *
51885970 AAGAA AAGAA AAGAA AAGAA AAGAA CCG-A AA-AA GAGAA AAGAG AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* *
51886018 AAGAA GAAG-A AATAA TAG-A AAGAA AAGAA AA
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AA
51886049 AATATAAAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
4 8 0.14
5 46 0.81
6 3 0.05
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:51886027 original size:23 final size:23
Alignment explanation
Indices: 51885975--51886046 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
51885965 AAATGAAGAA
* * **
51885975 AAGAAAAGAAAAGAAAAGAACCG
1 AAGAAGAGAAAAGAGAAGAAAAG
*
51885998 AAAAAGAGAAAAGAGAAGAAAAG
1 AAGAAGAGAAAAGAGAAGAAAAG
*
51886021 AAGAAGA-AATAATAGAAAGAAAAG
1 AAGAAGAGAA-AAGAG-AAGAAAAG
51886045 AA
1 AA
51886047 AAAATATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 2 0.05
23 28 0.70
24 10 0.25
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (23 bp):
AAGAAGAGAAAAGAGAAGAAAAG
Found at i:51886041 original size:19 final size:20
Alignment explanation
Indices: 51886016--51886062 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
51886006 AAAAGAGAAG
*
51886016 AAAAGAAGAAGAAATAATA-
1 AAAAGAAGAAGAAAAAATAT
*
51886035 GAAAGAA-AAGAAAAAATAT
1 AAAAGAAGAAGAAAAAATAT
51886054 AAAAGAAGA
1 AAAAGAAGA
51886063 TGACTAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 10 0.43
19 12 0.52
20 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (20 bp):
AAAAGAAGAAGAAAAAATAT
Found at i:51888342 original size:28 final size:29
Alignment explanation
Indices: 51888311--51888380 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
51888301 GCACATAAAT
*
51888311 ATATATTATATATAT-AACACCAAAACCC
1 ATATATTATATATATAAACAACAAAACCC
*
51888339 ATATA-TATTATATATAAATAACAAAACCC
1 ATATATTA-TATATATAAACAACAAAACCC
51888368 -TATACTTATATAT
1 ATATA-TTATATAT
51888381 TATATATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.06
28 16 0.44
29 16 0.44
30 2 0.06
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (29 bp):
ATATATTATATATATAAACAACAAAACCC
Found at i:51888343 original size:30 final size:29
Alignment explanation
Indices: 51888309--51888380 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
51888299 ATGCACATAA
*
51888309 ATATATATTATATATATAACACCAAAACCC
1 ATATATATTATATATA-AACAACAAAACCC
*
51888339 ATATATATTATATATAAATAACAAAACCC
1 ATATATATTATATATAAACAACAAAACCC
*
51888368 -TATA-CTTATATAT
1 ATATATATTATATAT
51888381 TATATATACA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.21
28 4 0.10
29 11 0.28
30 16 0.41
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (29 bp):
ATATATATTATATATAAACAACAAAACCC
Found at i:51888345 original size:32 final size:32
Alignment explanation
Indices: 51888277--51888388 Score: 95
Period size: 34 Copynumber: 3.4 Consensus size: 32
51888267 ACCCATGCAA
* * ** *
51888277 ATATATTATACATATAACACCCATGCACATAAAT
1 ATATATTATATATATAACACCAAAACCCAT--AT
51888311 ATATATTATATATATAACACCAAAACCC--AT
1 ATATATTATATATATAACACCAAAACCCATAT
* *
51888341 ATATATTATATATA-AATAACAAAACCCTATACTT
1 ATATATTATATATATAACACCAAAACCC-ATA--T
51888375 ATATATTATATATA
1 ATATATTATATATA
51888389 CACATAACTT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
29 11 0.17
30 16 0.24
32 1 0.02
34 38 0.58
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (32 bp):
ATATATTATATATATAACACCAAAACCCATAT
Found at i:51890453 original size:21 final size:19
Alignment explanation
Indices: 51890413--51890483 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
51890403 TTCAAGGATG
51890413 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
51890432 TGTAATCTTAGATATGATATA
1 TGCAATCTTAGATATG--ATA
51890453 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
51890472 TGCAATCTTAGA
1 TGCAATCTTAGA
51890484 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:51890505 original size:23 final size:22
Alignment explanation
Indices: 51890422--51890506 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 22
51890412 GTGCAATCTT
*
51890422 AGATATGATATGTAATCTTAG-
1 AGATATGATATGCAATCTTAGA
*
51890443 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGCAATCTTAGA
51890462 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
51890484 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
51890507 GATTTAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 14 0.26
22 10 0.19
23 12 0.23
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:51890849 original size:3 final size:3
Alignment explanation
Indices: 51890841--51890876 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
51890831 AGTTATTAAG
*
51890841 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
51890877 CTATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:51890928 original size:28 final size:29
Alignment explanation
Indices: 51890874--51890933 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
51890864 ATTATTATTA
* * * *
51890874 TTACTATATATATACATACGTATATTTTT
1 TTACAATATATATACATACATACATTTGT
*
51890903 TTACAATA-ATATATATACATACATTTGT
1 TTACAATATATATACATACATACATTTGT
51890931 TTA
1 TTA
51890934 AAAAAAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.48
Consensus pattern (29 bp):
TTACAATATATATACATACATACATTTGT
Found at i:51891033 original size:17 final size:17
Alignment explanation
Indices: 51891002--51891045 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
51890992 CATAACTTTT
*
51891002 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
51891018 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
51891035 ATATACATTTT
1 ATATACATTTT
51891046 TTAATTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:51891240 original size:30 final size:31
Alignment explanation
Indices: 51891206--51891263 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
51891196 TATTTGTTTA
* *
51891206 TATATATATTTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
51891236 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
51891264 TATGTACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:51891256 original size:28 final size:27
Alignment explanation
Indices: 51891225--51891283 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
51891215 TTAATTATCT
* *
51891225 TTTTTATAATCTATATATATGTATATAA
1 TTTTTATAATATATATACATGTATAT-A
* * *
51891253 TTTTTTTTATATATGTACATGTATATA
1 TTTTTATAATATATATACATGTATATA
51891280 TTTT
1 TTTT
51891284 GTACCTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTTTATAATATATATACATGTATATA
Found at i:51897245 original size:88 final size:88
Alignment explanation
Indices: 51897096--51897574 Score: 715
Period size: 88 Copynumber: 5.4 Consensus size: 88
51897086 GTGAAGATAA
* *
51897096 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGTCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
51897161 ACAGCAGAGCAGGTTAAAAATAG
66 ACAGCAGAGCAGGTTAAAAATAG
* * * * *
51897184 CAGATCTTGCCTTCCTGCACTGACAGTGAAGCAAATCAAAGACACCAGACTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
51897249 ACAGCGGAGCAGGCTAAAAATAG
66 ACAGCAGAGCAGGTTAAAAATAG
* *
51897272 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * * *
51897337 GCAGTAAAGCAGGCTAAAAATAG
66 ACAGCAGAGCAGGTTAAAAATAG
* * * *
51897360 CAGATCTTGCCTTCCTACACCAACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
51897425 ACAGCAGAGCAGGTTAAAAATAG
66 ACAGCAGAGCAGGTTAAAAATAG
* *
51897448 CAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* ***
51897513 GCAATGGAGCAGGTTAAAAATAG
66 ACAGCAGAGCAGGTTAAAAATAG
**
51897536 CAGATCTTGCCTTCCTGCACTAACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
51897575 TGATCCCAAC
Statistics
Matches: 350, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 350 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
ACAGCAGAGCAGGTTAAAAATAG
Found at i:51897369 original size:44 final size:44
Alignment explanation
Indices: 51897145--51897371 Score: 122
Period size: 44 Copynumber: 5.2 Consensus size: 44
51897135 AGACACCAGC
* * *
51897145 CTTGTCTCCCTGGGTTACAGC-AGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGA-AGCAGGCTAAAAATAGCAGAT
* *** * ** * * *
51897189 CTTGCCTTCCTGCACTGACAGTGAAGCA-AATCAAAGACACCAGA-
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGCT-AAAAATAGCAGAT
* *
51897233 CTTGCCTCCCTGGGTTACAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGCTAAAAATAGCAGAT
* **** ** * * * *
51897277 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGCTAAAAATAGC-AGAT
**
51897321 CTTGCCTCCCTGGGTTGCAGTAAAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGCTAAAAATAGCAGAT
51897365 CTTGCCT
1 CTTGCCT
51897372 TCCTACACCA
Statistics
Matches: 124, Mismatches: 50, Indels: 18
0.65 0.26 0.09
Matches are distributed among these distances:
43 33 0.27
44 57 0.46
45 33 0.27
46 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGCTAAAAATAGCAGAT
Found at i:51897649 original size:44 final size:44
Alignment explanation
Indices: 51897585--51897750 Score: 210
Period size: 44 Copynumber: 3.8 Consensus size: 44
51897575 TGATCCCAAC
51897585 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* * * *
51897629 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG-GT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTG-AGAAT
* * * *
51897673 CCTATCTACCTGGTTAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
**
51897717 CCTATCTCCCTGAACAGCAGT-GAAGTAGGTTGAA
1 CCTATCTCCCTGGTCAGCAGTGGAA-TAGGTTGAA
51897751 AATAGTAGGT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
43 4 0.04
44 96 0.94
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
Found at i:51897735 original size:88 final size:88
Alignment explanation
Indices: 51897585--51897761 Score: 248
Period size: 88 Copynumber: 2.0 Consensus size: 88
51897575 TGATCCCAAC
* * **
51897585 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
1 CCTATCTACCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGAACAGCAGT
* *
51897650 GGAA-TAGATTGAAGATTGTAGGT
66 -GAAGTAGATTGAAAATAGTAGGT
* * *
51897673 CCTATCTACCTGGTTAGTAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAACAGCAGT
1 CCTATCTACCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGAACAGCAGT
*
51897738 GAAGTAGGTTGAAAATAGTAGGT
66 GAAGTAGATTGAAAATAGTAGGT
51897761 C
1 C
51897762 TTGCCTTCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 3 0.04
88 75 0.96
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (88 bp):
CCTATCTACCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCCCTGAACAGCAGT
GAAGTAGATTGAAAATAGTAGGT
Found at i:51898123 original size:100 final size:100
Alignment explanation
Indices: 51898001--51898180 Score: 236
Period size: 100 Copynumber: 1.8 Consensus size: 100
51897991 AGTGGAGCAA
* * * * *
51898001 ATTGAAGCCGCAACGGCGAATCTTAC-TCTCTTGGCGGTGTAATGGAATAGATTGAAGCTACGAC
1 ATTGAAGCCGCAACGGCGAATCTTACTTC-CCTGGCAGTGTAACGGAACAGATTGAAGCCACGAC
**
51898065 GGTGAATCTTGTTTCCTCAACATTTCAATTTAAAAG
65 GACGAATCTTGTTTCCTCAACATTTCAATTTAAAAG
* * * * *
51898101 ATTGAAGTCGCAACGGTGAATCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGACG
1 ATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGTAACGGAACAGATTGAAGCCACGACG
51898166 ACGAATCTTGTTTCC
66 ACGAATCTTGTTTCC
51898181 CCGACATTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 65 0.97
101 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (100 bp):
ATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGTAACGGAACAGATTGAAGCCACGACG
ACGAATCTTGTTTCCTCAACATTTCAATTTAAAAG
Found at i:51899423 original size:17 final size:17
Alignment explanation
Indices: 51899392--51899435 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
51899382 CATAACTTTT
*
51899392 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
51899408 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
51899425 ATATACATTTT
1 ATATACATTTT
51899436 TTATTCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:51899633 original size:30 final size:30
Alignment explanation
Indices: 51899599--51899655 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
51899589 TATTTTTTTA
*
51899599 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
51899629 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
51899656 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:51900568 original size:22 final size:23
Alignment explanation
Indices: 51900541--51900585 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
51900531 NNNNNNNCTT
51900541 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
51900563 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
51900586 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:51901097 original size:17 final size:17
Alignment explanation
Indices: 51901066--51901109 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
51901056 CATAACTTTT
*
51901066 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
51901082 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
51901099 ATATACATTTT
1 ATATACATTTT
51901110 TTATTCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:51901307 original size:30 final size:30
Alignment explanation
Indices: 51901273--51901329 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
51901263 TATTTTTTTA
*
51901273 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
51901303 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
51901330 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:51910389 original size:20 final size:22
Alignment explanation
Indices: 51910337--51910389 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
51910327 TGCAAGTTTG
51910337 GTATCGGTACCACTTAAGGAAA
1 GTATCGGTACCACTTAAGGAAA
* * * *
51910359 ATATCGATACC-CTTGAGG-CA
1 GTATCGGTACCACTTAAGGAAA
51910379 GTATCGGTACC
1 GTATCGGTACC
51910390 TACGTAAAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 10 0.40
21 6 0.24
22 9 0.36
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (22 bp):
GTATCGGTACCACTTAAGGAAA
Found at i:51914394 original size:28 final size:28
Alignment explanation
Indices: 51914361--51914463 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
51914351 CTTATAACTG
51914361 CATATATATTATATGTAATAAAACCACA
1 CATATATATTATATGTAATAAAACCACA
* * ** *
51914389 CATATATATTATGTATAGCAGAACCACA
1 CATATATATTATATGTAATAAAACCACA
*
51914417 CATATATTTGTACTATGTATATAACAGACCCACA
1 CATATATAT-TA-TATGTA-ATAA-A-A-CCACA
*
51914451 CAAATATATTATA
1 CATATATATTATA
51914464 CATATAACAC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
28 31 0.55
29 2 0.04
30 4 0.07
31 1 0.02
32 3 0.05
33 3 0.05
34 12 0.21
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (28 bp):
CATATATATTATATGTAATAAAACCACA
Found at i:51914522 original size:32 final size:33
Alignment explanation
Indices: 51914454--51914523 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
51914444 ACCCACACAA
* **
51914454 ATATATTATACATATAACACCTATGCACATAAAT
1 ATATATTATACATATAACACCAAAACACAT-AAT
* *
51914488 ATATATTATATATATAACACCAAAACCCAT-AT
1 ATATATTATACATATAACACCAAAACACATAAT
51914520 ATAT
1 ATAT
51914524 TTAACAAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 6 0.19
34 25 0.81
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (33 bp):
ATATATTATACATATAACACCAAAACACATAAT
Found at i:51918678 original size:23 final size:22
Alignment explanation
Indices: 51918630--51918679 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
51918620 AAATTGGTGT
* * * *
51918630 AGCAAATTTTGAGAAGCCAATT
1 AGCAAAATTTGACAAGCAAATA
51918652 AGCAAAATTTGACAAGCAAAATA
1 AGCAAAATTTGACAAGC-AAATA
51918675 AGCAA
1 AGCAA
51918680 GAAGAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (22 bp):
AGCAAAATTTGACAAGCAAATA
Found at i:51918762 original size:28 final size:28
Alignment explanation
Indices: 51918720--51918773 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
51918710 TAAGAGAAGA
* *
51918720 AGTAGAGGAGGGAAACAAAAACGTAAGG
1 AGTAGAGGAGAGAAACAAAAAAGTAAGG
*
51918748 AGTAGAGTAGAGAAACAAAAAAGTAA
1 AGTAGAGGAGAGAAACAAAAAAGTAA
51918774 AATTTTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.56, C:0.06, G:0.30, T:0.09
Consensus pattern (28 bp):
AGTAGAGGAGAGAAACAAAAAAGTAAGG
Found at i:51922083 original size:3 final size:3
Alignment explanation
Indices: 51922075--51922125 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
51922065 CCTCAATTTT
51922075 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
51922123 AAG
1 AAG
51922126 GGGAACATCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:51923297 original size:19 final size:21
Alignment explanation
Indices: 51923270--51923309 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
51923260 GTTAAATTTT
51923270 TTTTACATAC-A-TTCAAAAA
1 TTTTACATACAACTTCAAAAA
*
51923289 TTTTCCATACAACTTCAAAAA
1 TTTTACATACAACTTCAAAAA
51923310 GAGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTTACATACAACTTCAAAAA
Found at i:51932044 original size:60 final size:60
Alignment explanation
Indices: 51931951--51932072 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
51931941 CCTCGACGCA
* *
51931951 ATGCAACAAACAAAATATGTCATGCAATTATGCAATTAATAGTACATACATTCAGATATC
1 ATGCAACAAACAAAATAAGACATGCAATTATGCAATTAATAGTACATACATTCAGATATC
*
51932011 ATGCAACATACAAAATAAGACATGCAATTATGCAATTAATAGTACATACATTCAGATATC
1 ATGCAACAAACAAAATAAGACATGCAATTATGCAATTAATAGTACATACATTCAGATATC
51932071 AT
1 AT
51932073 AAGTAATGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (60 bp):
ATGCAACAAACAAAATAAGACATGCAATTATGCAATTAATAGTACATACATTCAGATATC
Found at i:51945878 original size:21 final size:22
Alignment explanation
Indices: 51945849--51945890 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
51945839 GTATAATTTG
*
51945849 TATTATGTTAAGTACGATCTGT
1 TATTATGTTAAGCACGATCTGT
*
51945871 TATT-TGTTAAGCATGATCTG
1 TATTATGTTAAGCACGATCTG
51945891 AATCTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (22 bp):
TATTATGTTAAGCACGATCTGT
Found at i:51950027 original size:39 final size:39
Alignment explanation
Indices: 51949984--51950061 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
51949974 AGATGTTTTC
* * *
51949984 GAGTATTTTGACATATGCTTAAATGTTATGTGATTATAT
1 GAGTATTGTGACATATACTTAAATGTTAGGTGATTATAT
* **
51950023 GAGTATTGTGATATATACTTGTATGTTAGGTGATTATAT
1 GAGTATTGTGACATATACTTAAATGTTAGGTGATTATAT
51950062 ATGTAATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (39 bp):
GAGTATTGTGACATATACTTAAATGTTAGGTGATTATAT
Found at i:51955573 original size:6 final size:6
Alignment explanation
Indices: 51955562--51955602 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
51955552 AAATAACACA
51955562 AAAACC AAAACC AAAA-C AAAACC AAAACC AAAACC GAAAAC
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC -AAAAC
51955603 TGAGTCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.68, C:0.29, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:51955584 original size:17 final size:17
Alignment explanation
Indices: 51955562--51955595 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51955552 AAATAACACA
51955562 AAAACCAAAACCAAAAC
1 AAAACCAAAACCAAAAC
51955579 AAAACCAAAACCAAAAC
1 AAAACCAAAACCAAAAC
51955596 CGAAAACTGA
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:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACCAAAACCAAAAC
Found at i:51969014 original size:30 final size:30
Alignment explanation
Indices: 51968978--51969058 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
51968968 GTATATGTTT
*
51968978 TATACATTGCTGAATTGATTCGTATATGGA
1 TATACATTGCCGAATTGATTCGTATATGGA
* * *
51969008 TATACATTGCCGAATTGATTTGTATTTGGT
1 TATACATTGCCGAATTGATTCGTATATGGA
*
51969038 TATACATTGCCGAATTTATTC
1 TATACATTGCCGAATTGATTC
51969059 AATTACGAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTCGTATATGGA
Found at i:51978521 original size:81 final size:82
Alignment explanation
Indices: 51978345--51978573 Score: 388
Period size: 81 Copynumber: 2.8 Consensus size: 82
51978335 TTTAAACAAA
* *
51978345 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
51978410 CTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
* * *
51978427 CTCATCGGCACTTAGTCTGCTAGGCTTATAGCCTGATTCAGATCA-CGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
51978491 CTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
* *
51978508 TTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGTTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
51978573 C
66 C
51978574 GCTAAGCCTA
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 76 0.56
82 60 0.44
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
CTTATAACCTGATTCAG
Found at i:51978573 original size:122 final size:122
Alignment explanation
Indices: 51978350--51978573 Score: 394
Period size: 122 Copynumber: 1.8 Consensus size: 122
51978340 ACAAATTCAC
51978350 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTAT
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTAT
* * *
51978415 AACCTGATTCAGCTCATCGGCACTTAGTCTGCTAGGCTTATAGCCTGATTCAGATCA
66 AACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCA
*
51978472 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACCGACACTTAGCCTGCTAGGCTTAT
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTAT
* *
51978537 AGCCTGATTCAGATCACCGGCACTTAGCCTGTTAGGC
66 AACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
51978574 GCTAAGCCTA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 96 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (122 bp):
CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTAT
AACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCA
Found at i:51978582 original size:41 final size:41
Alignment explanation
Indices: 51978346--51978573 Score: 368
Period size: 41 Copynumber: 5.6 Consensus size: 41
51978336 TTAAACAAAT
51978346 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
51978387 TCACCGACACTTAGCCTGCTAGGCTTATAACCTGATTCAGC
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
51978428 TCATCGGCACTTAGTCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
51978469 TCA-CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
51978509 TCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
51978550 TCACCGGCACTTAGCCTGTTAGGC
1 TCACCGGCACTTAGCCTGCTAGGC
51978574 GCTAAGCCTA
Statistics
Matches: 171, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 37 0.22
41 134 0.78
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:51981380 original size:205 final size:204
Alignment explanation
Indices: 51981001--51981409 Score: 714
Period size: 203 Copynumber: 2.0 Consensus size: 204
51980991 GCTGCTCCTC
51981001 AAGCTAATACGAGAGTGACACGTGGCCCATCATCCAATAACAATCAGCTCTCACATCAATTACGC
1 AAGCTAATACGAGAGTGACACGTGGCCCATCATCCAATAACAATCAGCTCTCACATCAATTACGC
*
51981066 CAACTATAGAGCATGTCCCGGCTTAAACTATATTTCCATCAAATTAACATTTATCTCAAGTTTCA
66 CAACTATAGAGCATGTCCCGCCTTAAACTATATTTCCATCAAATTAACATTTATCTCAAGTTTCA
*
51981131 AATGTTTTCAAACCATTGAACTCCTAAAATGTCCTTAATTTTTTTTTCTAAGTCTAAATACTTAC
131 AATGTTTTCAAACCATTGAACTCCTAAAATGTCCTTAA-TTTTTTTTCAAAGTCTAAATACTTAC
51981196 ACTCCCTAAA
195 ACTCCCTAAA
* *
51981206 AAGCTAATATGAGAGTGACACGTGGCCCATCATCCAATAACAATCAGCTCTCACATCAATTATGC
1 AAGCTAATACGAGAGTGACACGTGGCCCATCATCCAATAACAATCAGCTCTCACATCAATTACGC
* *
51981271 CAACTATAGAGCATGTCCTGCCTTAAACTATA-TT-CATTAAATTAACATTTATCTCAAGTTTCA
66 CAACTATAGAGCATGTCCCGCCTTAAACTATATTTCCATCAAATTAACATTTATCTCAAGTTTCA
*
51981334 AATGTTTTCAAACTATTGAACTCCTAAAATGTCCTTAAATTTTTTTTCAAAGTCTAAATACTTAC
131 AATGTTTTCAAACCATTGAACTCCTAAAATGTCCTT-AATTTTTTTTCAAAGTCTAAATACTTAC
*
51981399 ACTTCCTAAA
195 ACTCCCTAAA
51981409 A
1 A
51981410 GGATTACACT
Statistics
Matches: 195, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
203 98 0.50
204 4 0.02
205 93 0.48
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (204 bp):
AAGCTAATACGAGAGTGACACGTGGCCCATCATCCAATAACAATCAGCTCTCACATCAATTACGC
CAACTATAGAGCATGTCCCGCCTTAAACTATATTTCCATCAAATTAACATTTATCTCAAGTTTCA
AATGTTTTCAAACCATTGAACTCCTAAAATGTCCTTAATTTTTTTTCAAAGTCTAAATACTTACA
CTCCCTAAA
Found at i:51982582 original size:29 final size:30
Alignment explanation
Indices: 51982535--51982600 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
51982525 AAGTTGGAGA
** *
51982535 AAAAAAATTTTAGGTCCCTTAAAATGTGGT
1 AAAAAAATTTTAGACCCCTTAAAATGTGGC
*
51982565 AAAAAAATTTT-GACCCCTTAAAATTTGGC
1 AAAAAAATTTTAGACCCCTTAAAATGTGGC
51982594 AAAAAAA
1 AAAAAAA
51982601 ATTGACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (30 bp):
AAAAAAATTTTAGACCCCTTAAAATGTGGC
Found at i:51982601 original size:30 final size:30
Alignment explanation
Indices: 51982533--51982603 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
51982523 AAAAGTTGGA
** *
51982533 GAAAAAAAATTTTAGGTCCCTTAAAATGTG
1 GAAAAAAAATTTTAGACCCCTTAAAATTTG
*
51982563 GTAAAAAAATTTT-GACCCCTTAAAATTTG
1 GAAAAAAAATTTTAGACCCCTTAAAATTTG
51982592 GCAAAAAAAATT
1 G-AAAAAAAATT
51982604 GACTTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (30 bp):
GAAAAAAAATTTTAGACCCCTTAAAATTTG
Found at i:51982606 original size:28 final size:29
Alignment explanation
Indices: 51982550--51982606 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
51982540 AATTTTAGGT
* *
51982550 CCCTTAAAATGTGGTAAAAAAATTTTGAC
1 CCCTTAAAATGTGGCAAAAAAATATTGAC
*
51982579 CCCTTAAAATTTGGCAAAAAAA-ATTGAC
1 CCCTTAAAATGTGGCAAAAAAATATTGAC
51982607 TTTTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (29 bp):
CCCTTAAAATGTGGCAAAAAAATATTGAC
Found at i:51986585 original size:7 final size:7
Alignment explanation
Indices: 51986573--51986600 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
51986563 AATCAACCAT
51986573 ATTTATA
1 ATTTATA
51986580 ATTTATA
1 ATTTATA
51986587 ATTTATA
1 ATTTATA
51986594 ATTTATA
1 ATTTATA
51986601 TAAATAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTATA
Found at i:51987337 original size:16 final size:17
Alignment explanation
Indices: 51987316--51987360 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
51987306 ACTCAAATCC
51987316 AACTCTCAATTCT-TTA
1 AACTCTCAATTCTCTTA
*
51987332 AACTCTCAACTCTCTTA
1 AACTCTCAATTCTCTTA
*
51987349 ATTCTCTCAATT
1 A-ACTCTCAATT
51987361 TTTCTCAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 4 0.17
18 8 0.33
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (17 bp):
AACTCTCAATTCTCTTA
Found at i:51994992 original size:17 final size:17
Alignment explanation
Indices: 51994966--51995008 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
51994956 TGATAAGTGG
*
51994966 CATTGTAAGAACATTTA
1 CATTGCAAGAACATTTA
* *
51994983 CATTGCAAGAACGTTTG
1 CATTGCAAGAACATTTA
51995000 CATTGCAAG
1 CATTGCAAG
51995009 TAAGACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (17 bp):
CATTGCAAGAACATTTA
Found at i:51996967 original size:13 final size:13
Alignment explanation
Indices: 51996932--51996969 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
51996922 GAGATATTTG
51996932 TAATTTGAAAACT
1 TAATTTGAAAACT
51996945 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
51996959 TAATTTGAAAA
1 TAATTTGAAAA
51996970 TTTGGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:51997265 original size:34 final size:34
Alignment explanation
Indices: 51997222--51997366 Score: 200
Period size: 34 Copynumber: 4.3 Consensus size: 34
51997212 TTTCTTGTCT
*
51997222 TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* **
51997256 TTTCTTGCAGGGAATCTTTCATGTTCATGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
*
51997290 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* ** * *
51997324 TTTCTTACAGAAAATCTTTCCTGTTAACACATCT
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
51997358 TTTCTTGCA
1 TTTCTTGCA
51997367 TAATTTCTTC
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 98 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
Found at i:52000183 original size:20 final size:20
Alignment explanation
Indices: 52000153--52000191 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
52000143 GAACAAATTG
52000153 TTGATTCTATTTCTTTTTTGA
1 TTGATTCTATTT-TTTTTTGA
52000174 TTGA-TCTATTTTTTTTTG
1 TTGATTCTATTTTTTTTTG
52000192 TATTTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (20 bp):
TTGATTCTATTTTTTTTTGA
Found at i:52000252 original size:21 final size:23
Alignment explanation
Indices: 52000228--52000270 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
52000218 TTAATTTTTT
*
52000228 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTACTTCTGTTTAG
*
52000249 AAAAGAGATTTACTTCTGTTTA
1 AAAACAGATTTACTTCTGTTTA
52000271 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTACTTCTGTTTAG
Found at i:52002153 original size:13 final size:13
Alignment explanation
Indices: 52002137--52002166 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
52002127 TCTCTAAAAA
52002137 AATTATTTCAGAG
1 AATTATTTCAGAG
52002150 AATTATTTCAGAG
1 AATTATTTCAGAG
52002163 AATT
1 AATT
52002167 TCTATTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (13 bp):
AATTATTTCAGAG
Found at i:52018186 original size:7 final size:7
Alignment explanation
Indices: 52018170--52018207 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
52018160 AACTGAGGGA
52018170 TTTT-TT
1 TTTTATT
52018176 TTTTATT
1 TTTTATT
52018183 TTTTATT
1 TTTTATT
*
52018190 TTTAATT
1 TTTTATT
*
52018197 TTTAATT
1 TTTTATT
52018204 TTTT
1 TTTT
52018208 TTTCTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:52021195 original size:24 final size:24
Alignment explanation
Indices: 52021166--52021214 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52021156 TTTTAAAAGA
52021166 CTATTATGCATATTTGAATAACAT
1 CTATTATGCATATTTGAATAACAT
52021190 CTATTATGCATATTTGAATAACAT
1 CTATTATGCATATTTGAATAACAT
52021214 C
1 C
52021215 ATCTTCTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (24 bp):
CTATTATGCATATTTGAATAACAT
Found at i:52033515 original size:3 final size:3
Alignment explanation
Indices: 52033507--52033543 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
52033497 CGTTGTTCTC
*
52033507 GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
52033544 GGGTAAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:52033843 original size:2 final size:2
Alignment explanation
Indices: 52033836--52033876 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
52033826 TTTGTGTTTA
52033836 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
52033877 ATGAGTGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:52044963 original size:111 final size:113
Alignment explanation
Indices: 52044824--52045032 Score: 368
Period size: 111 Copynumber: 1.9 Consensus size: 113
52044814 AACTATTATA
*
52044824 AATTATTTGTTTAATTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAA-TTTTT-TTATTT
1 AATTATTTGTTTAATTTAATATTTATTGTGATTTGTTAGGTTATGAATGTAACTTTTTATTATTT
52044887 TTTAATTTATTTTAAAGTTATTTTGTTAGTAATTTTTATGATGAGGTT
66 TTTAATTTATTTTAAAGTTATTTTGTTAGTAATTTTTATGATGAGGTT
* *
52044935 AATTGTTTGTTTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTTATTATT
1 AATTATTTGTTTAATTTAATATTTATTGTGATTTGTTAGGTTATGAATGTAA-CTTTTTATTATT
52045000 TTTTAATTTATTTTAAAGTTATTTTGTTAGTAA
65 TTTTAATTTATTTTAAAGTTATTTTGTTAGTAA
52045033 CTATTATAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
111 49 0.53
113 5 0.05
114 38 0.41
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.59
Consensus pattern (113 bp):
AATTATTTGTTTAATTTAATATTTATTGTGATTTGTTAGGTTATGAATGTAACTTTTTATTATTT
TTTAATTTATTTTAAAGTTATTTTGTTAGTAATTTTTATGATGAGGTT
Found at i:52048711 original size:48 final size:48
Alignment explanation
Indices: 52048651--52048815 Score: 142
Period size: 48 Copynumber: 3.5 Consensus size: 48
52048641 CCAATGTATC
*
52048651 TAATTTATATTACAAAGTTTGTTTCTCTTTTTAATGTTGCAATTAATT
1 TAATTTAAATTACAAAGTTTGTTTCTCTTTTTAATGTTGCAATTAATT
* ** * *
52048699 TAATTTAAATTACAAAGTTTGTTCCAATTTTTAATGTTACAATGAATCT
1 TAATTTAAATTACAAAGTTTGTTTCTCTTTTTAATGTTGCAATTAAT-T
* *** *
52048748 CAA-TTAAATAAATACAAAGTTTG--TCTCAAGTT--TGTTGCAATTAATC
1 TAATTTAAAT---TACAAAGTTTGTTTCTCTTTTTAATGTTGCAATTAATT
* *
52048794 TAATTTGAATTACAAAATTTGT
1 TAATTTAAATTACAAAGTTTGT
52048816 ATTTTTGCAT
Statistics
Matches: 92, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
44 10 0.11
46 2 0.02
47 16 0.17
48 47 0.51
49 6 0.07
51 11 0.12
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (48 bp):
TAATTTAAATTACAAAGTTTGTTTCTCTTTTTAATGTTGCAATTAATT
Found at i:52049209 original size:6 final size:6
Alignment explanation
Indices: 52049182--52049221 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
52049172 CCAAAGTGTA
* * *
52049182 GCTCTG CCTCTG GATCTG GCTCTA GCTCTG GCTCTG GCTC
1 GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTC
52049222 GGGTGCAAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.05, C:0.35, G:0.28, T:0.33
Consensus pattern (6 bp):
GCTCTG
Found at i:52051530 original size:103 final size:103
Alignment explanation
Indices: 52051265--52051744 Score: 499
Period size: 103 Copynumber: 4.6 Consensus size: 103
52051255 AATAAATCAA
* * * * *
52051265 AAACAATTAAAATTACATT-ATAACAAACCACAATACACATTAAACT-AA-ACAAATAATTTATA
1 AAACAA-T-AAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATA
* * *
52051327 CCCTAATCATAAATTACTAACAAAATAATTTTAAAATATT
64 ACCTAATCATAAAATACTAACAAAATAACTTTAAAATATT
****** * * * *
52051367 TTTTTTTAAAATTAAATTCATACAAAATCACAATAAACACTAAAATAAACAGAAACAATTTATAA
1 AAACAAT-AAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
* *
52051432 CCTAATCATAAAATACTAACAAAAGAACTTTAAAATGTT
65 CCTAATCATAAAATACTAACAAAATAACTTTAAAATATT
****** *
52051471 TTTTTTTAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAATAATTTATAAC
1 AAACAATAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAAC
* *
52051536 CTAAT-AAAAAATTACTAACAAAATAA-TTTTAAA-A--
66 CTAATCATAAAA-TACTAACAAAATAACTTTAAAATATT
*
52051570 AAACAAGAAATTTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
1 AAACAATAAA-TTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
* *
52051635 TCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
65 CCTAATCATAAAATACTAACAAAATAACTTTAAAAT-ATT
*
52051675 AAAAAAACAAAAAATTTACATTCATAAAAAATCACAATAAAACACTAAACTAAACACAAACAATT
1 ----AAACAATAAA-TTACATTCATAAAAAATCACAAT-AAACACTAAACTAAACACAAACAATT
52051740 TATAA
60 TATAA
52051745 TAATTATTAG
Statistics
Matches: 320, Mismatches: 42, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
99 3 0.01
100 72 0.22
101 21 0.07
102 32 0.10
103 74 0.23
104 54 0.17
109 33 0.10
110 31 0.10
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.28
Consensus pattern (103 bp):
AAACAATAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAAC
CTAATCATAAAATACTAACAAAATAACTTTAAAATATT
Found at i:52051543 original size:50 final size:48
Alignment explanation
Indices: 52051489--52051640 Score: 130
Period size: 50 Copynumber: 3.0 Consensus size: 48
52051479 AATTACATTC
52051489 ATAAAAAATCACAATAAACACTAAACTAAACACAAATAATTTATAACCTA
1 ATAAAAAATCACAATAAACACTAAACTAAACACAAA-AATTTATAA-CTA
* * ** * * * *
52051539 ATAAAAAATTACTAACAAA-A-TAATTTTAAAAAAACAAGAAATTTA-CATTC
1 ATAAAAAATCAC-AATAAACACTAA-ACT--AAACACAA-AAATTTATAACTA
52051589 ATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAATCTA
1 ATAAAAAATCACAATAAACACTAAACTAAACACAAA-AATTTATAA-CTA
52051639 AT
1 AT
52051641 CATAAATTAC
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
47 1 0.01
48 13 0.17
49 9 0.12
50 30 0.39
51 9 0.12
52 13 0.17
53 1 0.01
ACGTcount: A:0.60, C:0.15, G:0.01, T:0.24
Consensus pattern (48 bp):
ATAAAAAATCACAATAAACACTAAACTAAACACAAAAATTTATAACTA
Found at i:52051898 original size:4 final size:4
Alignment explanation
Indices: 52051874--52051951 Score: 102
Period size: 4 Copynumber: 18.2 Consensus size: 4
52051864 ACATATATTT
*
52051874 TTTC TCTC TTTC TTCTCC TTTC TTTTC TTTTC TTTC TTTTC TTTC TTTC
1 TTTC TTTC TTTC TT-T-C TTTC -TTTC -TTTC TTTC -TTTC TTTC TTTC
52051923 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
52051952 CCCTCTGCTG
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
4 50 0.74
5 15 0.22
6 3 0.04
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:52055545 original size:14 final size:15
Alignment explanation
Indices: 52055523--52055599 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
52055513 CAATCAAACA
52055523 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
52055537 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
52055552 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
52055572 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
52055586 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
52055600 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:52055564 original size:20 final size:20
Alignment explanation
Indices: 52055539--52055578 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52055529 AATATTTTCC
*
52055539 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
52055559 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
52055579 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:52055584 original size:34 final size:35
Alignment explanation
Indices: 52055527--52055593 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
52055517 CAAACACCAG
*
52055527 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
52055562 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
52055594 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:52055600 original size:14 final size:14
Alignment explanation
Indices: 52055562--52055601 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52055552 ACAGAAAAGT
*
52055562 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
52055576 AAATCATTTTACGG
1 AAAACATTTTACAG
52055590 AAAACATTTTAC
1 AAAACATTTTAC
52055602 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:52055816 original size:9 final size:9
Alignment explanation
Indices: 52055799--52055835 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
52055789 TGAGTTTTCA
52055799 AATTCGAAT
1 AATTCGAAT
*
52055808 AACTCGAAT
1 AATTCGAAT
52055817 AATTCGAAT
1 AATTCGAAT
52055826 AATTCGAAT
1 AATTCGAAT
52055835 A
1 A
52055836 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:52072936 original size:43 final size:42
Alignment explanation
Indices: 52072837--52072996 Score: 135
Period size: 43 Copynumber: 3.8 Consensus size: 42
52072827 TAGGGTTACC
* * *
52072837 GAGATTACGTGTAAGACCATATCTGGGATATGACATCGATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGATATGACATCAATAT
*
52072879 GAGAATTT-GTGTAAGACCATGTCTGGGACATTTG-CATCAATAT
1 GAG-ATTTCGTGTAAGACCATGTCTGGG--ATATGACATCAATAT
* * * * * * *
52072922 GTGATTTCGTGTAAGACCATGGCTGAGCTATTGGCATCGATAC
1 GAGATTTCGTGTAAGACCATGTCTGGGATA-TGACATCAATAT
* * * *
52072965 GAGATTACATGTAATACCATATCTGGGATATG
1 GAGATTTCGTGTAAGACCATGTCTGGGATATG
52072997 GCATTGTTAT
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 59 0.63
44 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
GAGATTTCGTGTAAGACCATGTCTGGGATATGACATCAATAT
Found at i:52074600 original size:42 final size:43
Alignment explanation
Indices: 52074489--52074601 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 43
52074479 TGAGTTATCG
*
52074489 TGTAAGACCACGTCTGGGACGTTGGCATCTATTTGAGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCTATTT-AGATTTACA
* **
52074533 TGTAAGACC-CTGTCT-GTACAATGGCATCGATATTT-GA-TTACA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATC--TATTTAGATTTACA
52074575 TGTAAGACCACGTCTGGGA-GTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
52074602 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
42 23 0.40
43 16 0.28
44 13 0.23
45 5 0.09
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCTATTTAGATTTACA
Found at i:52081420 original size:21 final size:22
Alignment explanation
Indices: 52081394--52081434 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
52081384 TTTTTCACCT
*
52081394 CAAC-AAGCTTTAGTGTCGCAA
1 CAACAAAGCTTGAGTGTCGCAA
*
52081415 CAACAAAGCTTGGGTGTCGC
1 CAACAAAGCTTGAGTGTCGC
52081435 GACATCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (22 bp):
CAACAAAGCTTGAGTGTCGCAA
Found at i:52093147 original size:6 final size:6
Alignment explanation
Indices: 52093138--52093171 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
52093128 GATTATGATA
* *
52093138 ATGATG ATGAGG ATGAGG ATGAGG ATGATG ATGA
1 ATGAGG ATGAGG ATGAGG ATGAGG ATGAGG ATGA
52093172 AATCGAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (6 bp):
ATGAGG
Found at i:52093153 original size:12 final size:12
Alignment explanation
Indices: 52093138--52093171 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
52093128 GATTATGATA
52093138 ATGATGATGAGG
1 ATGATGATGAGG
*
52093150 ATGAGGATGAGG
1 ATGATGATGAGG
52093162 ATGATGATGA
1 ATGATGATGA
52093172 AATCGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (12 bp):
ATGATGATGAGG
Found at i:52100797 original size:23 final size:23
Alignment explanation
Indices: 52100756--52100803 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
52100746 GTATTTTTAC
* *
52100756 TTTTATTTTTAGAAATTTAATTT
1 TTTTAATTTTAGAAATTTAAATT
52100779 TTTTAATTTTA-AAATTTTAAATT
1 TTTTAATTTTAGAAA-TTTAAATT
52100802 TT
1 TT
52100804 AGATATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAATTTTAGAAATTTAAATT
Found at i:52106972 original size:10 final size:11
Alignment explanation
Indices: 52106957--52107005 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
52106947 AACTAAATCC
52106957 TTTCTCTC-AA
1 TTTCTCTCAAA
*
52106967 TTTCTCTCTAA
1 TTTCTCTCAAA
52106978 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
52106990 TTCCTCTCAAA
1 TTTCTCTCAAA
52107001 TTTCT
1 TTTCT
52107006 ATTTAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 8 0.24
11 16 0.47
12 10 0.29
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:52106985 original size:22 final size:22
Alignment explanation
Indices: 52106957--52107005 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
52106947 AACTAAATCC
* *
52106957 TTTCTCTC-AATTTCTCTCTAA
1 TTTCTCTCAAATTCCTCTCAAA
52106978 TATTCTCTCAAATTCCTCTCAAA
1 T-TTCTCTCAAATTCCTCTCAAA
52107001 TTTCT
1 TTTCT
52107006 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.46
23 12 0.50
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTCTCTCAAATTCCTCTCAAA
Found at i:52112492 original size:125 final size:125
Alignment explanation
Indices: 52112270--52112684 Score: 722
Period size: 125 Copynumber: 3.3 Consensus size: 125
52112260 CCAAACATGC
52112270 GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
52112335 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAATTTTTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAATTTTTTTTTCAGGA
52112395 GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
52112460 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAATTTTTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAATTTTTTTTTCAGGA
* * * * *
52112520 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAACATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
52112585 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTTGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCG-AATTTTTTTTTCAGGA
* * *
52112646 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTT
52112685 AAATTAACAA
Statistics
Matches: 281, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
125 227 0.81
126 54 0.19
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCGCGTCCACGAGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAATTTTTTTTTCAGGA
Found at i:52112976 original size:96 final size:94
Alignment explanation
Indices: 52112717--52112995 Score: 319
Period size: 96 Copynumber: 2.9 Consensus size: 94
52112707 AGTAATCCTA
* *
52112717 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATATAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTAAACACTAAA-CCTAATCTAAT
52112782 TTTATAAA-AATTTATAATTAATTTACTCAAGT
64 TTT-TAAATAATTTATAATTAA-TTACTCAAGT
* ** * * * *
52112814 AACCCTGAACCCTAATTTATTTGATTTTCCCTTAAAAACCCTTAACTCTAAACCATTATCTGATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAAACC-TAATCTAATT
*
52112879 TTTAAATAATTTTTAATTCAATTACTCAAGT
65 TTTAAATAATTTATAATT-AATTACTCAAGT
* * *** * *
52112910 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAATAATAAACACGAAACCTAATCCAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTT-AAAAACCCTAAACACTAAACCTAATCTAATT
*
52112975 TTGAAAT-ATTTATAATTAATT
65 TTTAAATAATTTATAATTAATT
52112996 TAATTGACAA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
94 4 0.03
95 15 0.10
96 95 0.62
97 39 0.25
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAAACCTAATCTAATTT
TTAAATAATTTATAATTAATTACTCAAGT
Found at i:52113694 original size:2 final size:2
Alignment explanation
Indices: 52113687--52113711 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52113677 CAGATATGTA
52113687 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
52113712 AATCCTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52116760 original size:18 final size:18
Alignment explanation
Indices: 52116739--52116773 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52116729 ATACATTATT
52116739 AAAAATAAAAAAATTAAA
1 AAAAATAAAAAAATTAAA
* *
52116757 AAAAGTATAAAAATTAA
1 AAAAATAAAAAAATTAA
52116774 TTCAACTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAATAAAAAAATTAAA
Found at i:52117804 original size:7 final size:7
Alignment explanation
Indices: 52117794--52117825 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
52117784 CTGAAGACAG
52117794 AAGAGAC
1 AAGAGAC
52117801 AAGAGAC
1 AAGAGAC
52117808 AAGAGAC
1 AAGAGAC
52117815 AAGAGAC
1 AAGAGAC
52117822 AAGA
1 AAGA
52117826 AACGGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.28, T:0.00
Consensus pattern (7 bp):
AAGAGAC
Found at i:52120264 original size:8 final size:8
Alignment explanation
Indices: 52120246--52120278 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
52120236 ATATATATAC
52120246 TAAAA-AA
1 TAAAATAA
52120253 TAAAATAA
1 TAAAATAA
52120261 TAAAATAA
1 TAAAATAA
52120269 TAAAATAA
1 TAAAATAA
52120277 TA
1 TA
52120279 TTTAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAATAA
Found at i:52124098 original size:3 final size:3
Alignment explanation
Indices: 52124092--52124146 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
52124082 GTTATTTTTG
* *
52124092 TTA TTA -TA TTA TGGA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52124137 TTA TTA TTA T
1 TTA TTA TTA T
52124147 ACATATATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:52127213 original size:32 final size:32
Alignment explanation
Indices: 52127177--52127238 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
52127167 AGCTCTTGGT
52127177 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
52127209 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
52127239 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:52128126 original size:8 final size:8
Alignment explanation
Indices: 52128113--52128138 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
52128103 AATCCACTTG
52128113 TTTAGTTC
1 TTTAGTTC
52128121 TTTAGTTC
1 TTTAGTTC
52128129 TTTAGTTC
1 TTTAGTTC
52128137 TT
1 TT
52128139 AAGGAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:52137809 original size:22 final size:24
Alignment explanation
Indices: 52137784--52137827 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
52137774 TGAAATTATA
52137784 TTTAAT-AATAAT-TATTTTAAAT
1 TTTAATAAATAATATATTTTAAAT
* *
52137806 TTTATTAAATCATATATTTTAA
1 TTTAATAAATAATATATTTTAA
52137828 TTAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 5 0.28
24 8 0.44
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAATAAATAATATATTTTAAAT
Found at i:52138032 original size:67 final size:66
Alignment explanation
Indices: 52137957--52138169 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
52137947 ATTATAATGT
52137957 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
52138021 AA
65 AA
* * ** * * * * * * *
52138023 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATGATTA-AATATTTATTATTGATATTAATA-ATCTT
52138083 AATTAAAA
61 -ATT-AAA
* * *
52138091 TATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATGATT-AAATATTTATTATTGATATTAATAATCTTAT
52138156 TAAA
63 TAAA
52138160 ATTTAAATAA
1 ATTTAAATAA
52138170 CATTAACAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 17 0.16
69 20 0.19
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:52138060 original size:137 final size:138
Alignment explanation
Indices: 52137913--52138178 Score: 435
Period size: 137 Copynumber: 1.9 Consensus size: 138
52137903 TAAGAATATG
* *
52137913 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * *
52137978 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
52138043 TTTCTGCT
131 TTTCTGCT
****
52138051 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
52138115 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
52138179 TAATCATTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 113 0.96
138 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:52138089 original size:18 final size:17
Alignment explanation
Indices: 52138061--52138095 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52138051 AATTATAAGA
*
52138061 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
52138078 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
52138096 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:52138160 original size:70 final size:69
Alignment explanation
Indices: 52137947--52138161 Score: 176
Period size: 70 Copynumber: 3.1 Consensus size: 69
52137937 ATATACCAAA
* * * *
52137947 ATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAATA
52138012 ATCTT
65 ATCTT
* ** * ** * * *
52138017 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
52138076 -AT-ATTTT
61 AATAATCTT
52138083 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
52138148 AATCTT
64 AATCTT
52138154 ATTAAAAT
1 ATTAAAAT
52138162 TTAAATAACA
Statistics
Matches: 107, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 11 0.10
67 32 0.30
68 3 0.03
69 4 0.04
70 39 0.36
71 10 0.09
72 1 0.01
73 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:52138211 original size:137 final size:146
Alignment explanation
Indices: 52137947--52138520 Score: 695
Period size: 156 Copynumber: 3.9 Consensus size: 146
52137937 ATATACCAAA
* * * * *
52137947 ATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATA
* * ** * *
52138012 ATCTTATTAAAATTTAAATAACAATAACAA-ATTTC-TGCTAATTATAAGAATTTTAT--TAA--
66 ATCTTATTAAAATTTAAATAACAATAACAATA-ATCAT--TTACCAAAACAATTTTATGCTAATT
*
52138071 ATTA-TA-T-ATT-T-TA-
128 ATAATTATTAATTATATAT
52138084 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATA
* *
52138149 ATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAACAATTTTCTGCTAATTATA
66 ATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT-
52138214 AGAATTTTATTAAATTATATATTTT
130 --AA--TTATT-AATTATATA---T
*
52138239 AATTAAAATATATTTAATTATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* *
52138304 AATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAACAATTTTCTGCTAATTAT
65 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
52138369 AAGAATTTTATTAAATTATATATTTT
130 ---AA--TTATT-AATTATATA---T
*
52138395 AATTAAAATATATTTAATTATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
52138460 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
65 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
52138521 GGGTATTCTA
Statistics
Matches: 398, Mismatches: 17, Indels: 25
0.90 0.04 0.06
Matches are distributed among these distances:
136 12 0.03
137 91 0.23
138 5 0.01
140 2 0.01
143 1 0.00
146 2 0.01
147 1 0.00
149 3 0.01
150 1 0.00
151 2 0.01
156 278 0.70
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (146 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATA
ATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTATA
ATTATTAATTATATAT
Found at i:52138216 original size:156 final size:156
Alignment explanation
Indices: 52138037--52138520 Score: 932
Period size: 156 Copynumber: 3.1 Consensus size: 156
52138027 AAATAACAAT
* *
52138037 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
52138102 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
52138167 TAACATTAACAATAATCATTTACCAA
131 TAACATTAACAATAATCATTTACCAA
52138193 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
52138258 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
52138323 TAACATTAACAATAATCATTTACCAA
131 TAACATTAACAATAATCATTTACCAA
52138349 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
52138414 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
52138479 TAACAATAACAATAATCATTTACCAA
131 TAACATTAACAATAATCATTTACCAA
*
52138505 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
52138521 GGGTATTCTA
Statistics
Matches: 324, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 324 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACATTAACAATAATCATTTACCAA
Found at i:52138245 original size:18 final size:18
Alignment explanation
Indices: 52138217--52138265 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
52138207 AATTATAAGA
52138217 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
52138234 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
52138250 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
52138266 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:52138251 original size:16 final size:16
Alignment explanation
Indices: 52138217--52138271 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
52138207 AATTATAAGA
52138217 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
52138234 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
52138250 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
52138264 ATGTTTAA
1 AT-TTTAA
52138272 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:52138401 original size:18 final size:18
Alignment explanation
Indices: 52138373--52138421 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
52138363 AATTATAAGA
52138373 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
52138390 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
52138406 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
52138422 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:52138407 original size:16 final size:16
Alignment explanation
Indices: 52138373--52138427 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
52138363 AATTATAAGA
52138373 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
52138390 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
52138406 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
52138420 ATGTTTAA
1 AT-TTTAA
52138428 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:52138637 original size:44 final size:45
Alignment explanation
Indices: 52138572--52138662 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
52138562 ACCTCTATTC
* * *
52138572 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
52138616 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
52138661 CA
1 CA
52138663 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:52138664 original size:16 final size:16
Alignment explanation
Indices: 52138643--52138678 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
52138633 GATTAGCTAT
52138643 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52138659 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52138675 TACA
1 TACA
52138679 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Done.