Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D08
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: 69935236
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1740000 characters in sequence are not A, C, G, or T
File 122 of 223
Found at i:38936618 original size:18 final size:17
Alignment explanation
Indices: 38936597--38936631 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38936587 TTATTATTAA
*
38936597 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38936615 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38936632 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38936768 original size:16 final size:16
Alignment explanation
Indices: 38936731--38936772 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38936721 TTAATCATAT
*
38936731 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38936747 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38936762 TTAAAATATAT
1 TTAAAATATAT
38936773 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38936770 original size:154 final size:156
Alignment explanation
Indices: 38936484--38936781 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
38936474 TAGAATACCC
38936484 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
38936549 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
38936614 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
38936641 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
38936704 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
38936769 ATATAATTTAATA
131 ATATAATTTAATA
38936782 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:38936779 original size:14 final size:15
Alignment explanation
Indices: 38936740--38936874 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
38936730 TTTAAACATA
*
38936740 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38936755 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38936769 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
38936783 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
38936805 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
38936820 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
38936833 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38936848 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38936862 A-TATAATTTAATA
1 ATTATAATTAAATA
38936875 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38936838 original size:154 final size:155
Alignment explanation
Indices: 38936523--38936838 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
38936513 ATTGTTATTG
38936523 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
38936588 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
38936653 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
38936680 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
38936743 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
38936805 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
38936834 TTATT
1 TTATT
38936839 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:38936889 original size:44 final size:43
Alignment explanation
Indices: 38936800--38936890 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
38936790 CTCAAATCAT
* * *
38936800 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
38936843 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
38936887 AATA
1 AATA
38936891 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:38936915 original size:120 final size:119
Alignment explanation
Indices: 38936780--38936998 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
38936770 TATAATTTAA
* * * *
38936780 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATCA
38936843 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
38936900 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
*
38936965 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
38936999 TAAAATTATT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 24 0.26
120 62 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:38936984 original size:17 final size:17
Alignment explanation
Indices: 38936964--38936997 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38936954 TTAATATCAA
*
38936964 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
38936981 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
38936998 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:38937140 original size:93 final size:92
Alignment explanation
Indices: 38937030--38937224 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
38937020 GATTATAGTT
* * *
38937030 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
38937093 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
38937123 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
38937188 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
38937215 TATGAATTTA
1 TATGAATTTA
38937225 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:38938829 original size:34 final size:34
Alignment explanation
Indices: 38938786--38938853 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38938776 TCTGAAATTC
38938786 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
38938820 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
38938854 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:38939126 original size:78 final size:78
Alignment explanation
Indices: 38938997--38939153 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
38938987 TATTAGTCAA
* * *
38938997 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
38939062 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
38939075 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
38939140 GACAGCAACACTC
66 GACAGCAACACTC
38939153 G
1 G
38939154 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:38941372 original size:14 final size:14
Alignment explanation
Indices: 38941350--38941392 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
38941340 CGTTTGATTG
38941350 TCAGTAAAATGTTT
1 TCAGTAAAATGTTT
*
38941364 TCCGTAAAATGATTT
1 TCAGTAAAATG-TTT
*
38941379 TTAG-AAAATGTTT
1 TCAGTAAAATGTTT
38941392 T
1 T
38941393 ACTTTTCTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.16
14 16 0.64
15 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (14 bp):
TCAGTAAAATGTTT
Found at i:38942964 original size:21 final size:21
Alignment explanation
Indices: 38942922--38942964 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
38942912 TATAAACAAA
*
38942922 AAATGCTCGTAACAACAGCAC
1 AAATGCTCGTAACAACAACAC
*
38942943 AAATGCTCGTAACAGCAACAC
1 AAATGCTCGTAACAACAACAC
38942964 A
1 A
38942965 TAACAATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (21 bp):
AAATGCTCGTAACAACAACAC
Found at i:38947151 original size:24 final size:24
Alignment explanation
Indices: 38947093--38947157 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
38947083 TTTCCTTAAT
* *
38947093 ATAAAGTTT-AAAAACATACCTTA
1 ATAAAGTTTCTAAAACATACCCTA
* *
38947116 ATAAAG-TCCTAAAACATGCCCTA
1 ATAAAGTTTCTAAAACATACCCTA
38947139 ATAAAGTTTCT-AAACATAC
1 ATAAAGTTTCTAAAACATAC
38947158 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 30 0.88
24 3 0.09
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (24 bp):
ATAAAGTTTCTAAAACATACCCTA
Found at i:38952476 original size:47 final size:49
Alignment explanation
Indices: 38952407--38952506 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
38952397 AGTCAACTTA
* *
38952407 ATTTCAAAAATAGAGTTAAAAAA-TC-AATGTGTTCATTTCTTTTATAT
1 ATTTCAAAAATAGAATCAAAAAATTCTAATGTGTTCATTTCTTTTATAT
* *
38952454 ATTTCACAAATAGAATCAAAAAATTCTAATGTGTTGATTTCTTTTATAT
1 ATTTCAAAAATAGAATCAAAAAATTCTAATGTGTTCATTTCTTTTATAT
38952503 ATTT
1 ATTT
38952507 AATCTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
47 20 0.43
48 2 0.04
49 25 0.53
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (49 bp):
ATTTCAAAAATAGAATCAAAAAATTCTAATGTGTTCATTTCTTTTATAT
Found at i:38963260 original size:16 final size:16
Alignment explanation
Indices: 38963239--38963276 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38963229 ATGTTCTTAG
*
38963239 GGTTTTGTTTAGGAAA
1 GGTTTTGCTTAGGAAA
38963255 GGTTTTGCTTAGGAAA
1 GGTTTTGCTTAGGAAA
*
38963271 TGTTTT
1 GGTTTT
38963277 TTGGATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (16 bp):
GGTTTTGCTTAGGAAA
Found at i:38963947 original size:7 final size:7
Alignment explanation
Indices: 38963932--38963968 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
38963922 AATTTTTTTG
*
38963932 TTATTTT
1 TTATATT
38963939 TTATATT
1 TTATATT
38963946 TTATATT
1 TTATATT
38963953 TTATATT
1 TTATATT
38963960 TTATATT
1 TTATATT
38963967 TT
1 TT
38963969 TATCATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATATT
Found at i:38963986 original size:7 final size:7
Alignment explanation
Indices: 38963927--38963988 Score: 52
Period size: 7 Copynumber: 8.0 Consensus size: 7
38963917 TATTAAATTT
38963927 TTTTGTTA
1 TTTT-TTA
38963935 TTTTTTA
1 TTTTTTA
38963942 TATTTTATA
1 T-TTTT-TA
*
38963951 TTTTATA
1 TTTTTTA
*
38963958 TTTTATA
1 TTTTTTA
38963965 TTTTTATCA
1 TTTTT-T-A
38963974 TATTTTTA
1 T-TTTTTA
38963982 TTTTTTA
1 TTTTTTA
38963989 GCAAAAAACG
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
7 23 0.49
8 14 0.30
9 6 0.13
10 4 0.09
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTTTA
Found at i:38970244 original size:12 final size:12
Alignment explanation
Indices: 38970229--38970285 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
38970219 TTTATTGTGC
38970229 ATTTTATTTATT
1 ATTTTATTTATT
38970241 ATTTTA-TT-TT
1 ATTTTATTTATT
***
38970251 ATTGCCTTTATT
1 ATTTTATTTATT
38970263 A-TTTATTTATT
1 ATTTTATTTATT
38970274 AATTTT-TTTATT
1 -ATTTTATTTATT
38970286 TGCAGATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
10 5 0.14
11 11 0.31
12 16 0.46
13 3 0.09
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (12 bp):
ATTTTATTTATT
Found at i:38972697 original size:20 final size:19
Alignment explanation
Indices: 38972674--38972718 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
38972664 ACTAAACCAA
*
38972674 CCCAAACATTAAACCCTCAG
1 CCCAAA-ATTAAACCCTAAG
* *
38972694 CCCAAATTTTAACCCTAAG
1 CCCAAAATTAAACCCTAAG
38972713 CCCAAA
1 CCCAAA
38972719 TGGCCCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.40, C:0.38, G:0.04, T:0.18
Consensus pattern (19 bp):
CCCAAAATTAAACCCTAAG
Found at i:38972913 original size:15 final size:17
Alignment explanation
Indices: 38972884--38972918 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
38972874 TACACGCAAA
38972884 AAAATAACAACAAAAAG
1 AAAATAACAACAAAAAG
38972901 AAAA-AACAA-AAAAAG
1 AAAATAACAACAAAAAG
38972916 AAA
1 AAA
38972919 GTCGAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAATAACAACAAAAAG
Found at i:38973999 original size:20 final size:19
Alignment explanation
Indices: 38973957--38974010 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
38973947 ATCAAGCTTA
38973957 CATTT-TTTTA-TTTATTT
1 CATTTCTTTTATTTTATTT
38973974 CATTTCATTTTATTTTATTT
1 CATTTC-TTTTATTTTATTT
38973994 -ATTTTCTTATTATTTTA
1 CA-TTTCTT-TTATTTTA
38974011 ATATTGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.16
19 8 0.25
20 19 0.59
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
CATTTCTTTTATTTTATTT
Found at i:38974006 original size:15 final size:15
Alignment explanation
Indices: 38973967--38974035 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
38973957 CATTTTTTTA
*
38973967 TTTATTTCATTTCAT
1 TTTATTTTATTTCAT
38973982 TTTATTTTATTT-AT
1 TTTATTTTATTTCAT
* *
38973996 TTTCTTATTATTTTAAT
1 TTTATT-TTA-TTTCAT
* *
38974013 ATTGATTTT-GTTCAT
1 -TTTATTTTATTTCAT
38974028 TTTATTTT
1 TTTATTTT
38974036 TGCCATCATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
14 14 0.33
15 18 0.42
16 3 0.07
17 4 0.09
18 4 0.09
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTATTTTATTTCAT
Found at i:38974514 original size:108 final size:108
Alignment explanation
Indices: 38974388--38974801 Score: 652
Period size: 108 Copynumber: 3.8 Consensus size: 108
38974378 TATCCAAATA
*
38974388 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
38974453 GTTTCGGTTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGATTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
* *
38974496 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCGTAACGTGCTGA
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
* *
38974561 GTTTCGGTTTTTCGTTCGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGATTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
* * * *
38974604 AAAATTTCAAAATAAGGCAATATTTTATGTTTGAAAGTTTGAGAAAGCGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
38974669 GTTTCGATATTTTCGTTTGACCAAATAGCT-AATATATCCTTTT
66 GTTTCGAT-TTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
* * * *
38974712 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
38974777 GTTTCGATTTCTCG-TTGAACCAAAT
66 GTTTCGATTTTTCGTTTG-ACCAAAT
38974802 TGCCAAATAT
Statistics
Matches: 282, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 3 0.01
107 12 0.04
108 247 0.88
109 20 0.07
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (108 bp):
AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
Found at i:38996632 original size:13 final size:13
Alignment explanation
Indices: 38996614--38996638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38996604 TCAAACGATT
38996614 AAATTTTCACACG
1 AAATTTTCACACG
38996627 AAATTTTCACAC
1 AAATTTTCACAC
38996639 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:38997783 original size:37 final size:36
Alignment explanation
Indices: 38997730--38997874 Score: 134
Period size: 37 Copynumber: 3.9 Consensus size: 36
38997720 GATATATAGT
38997730 TCTTCAGAGCACTTGGCATGTTATCGGTTGAATTAGC
1 TCTTCA-AGCACTTGGCATGTTATCGGTTGAATTAGC
* * *
38997767 TCTTCGAAGCATTTGGCATGTTACCAGTT-ATATTAGC
1 TCTTC-AAGCACTTGGCATGTTATCGGTTGA-ATTAGC
* *
38997804 TCTTCAGAGCACTTGGCGAT-TTATCGGTTGGATTAAC
1 TCTTCA-AGCACTTGGC-ATGTTATCGGTTGAATTAGC
* ** *
38997841 TCTTATAAGCGTTTGGCATGTT-TCGGTTGGATTA
1 TCTT-CAAGCACTTGGCATGTTATCGGTTGAATTA
38997875 CATGTGTACT
Statistics
Matches: 90, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
36 16 0.18
37 70 0.78
38 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (36 bp):
TCTTCAAGCACTTGGCATGTTATCGGTTGAATTAGC
Found at i:38997856 original size:74 final size:75
Alignment explanation
Indices: 38997721--38997862 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
38997711 TATGGGGAGG
* * *
38997721 ATATATAGTTCTTCAGAGCACTTGGCATGTTATCGGTTGAATTAGCTCTTCGAAGCATTTGGCAT
1 ATATATAGCTCTTCAGAGCACTTGGCATGTTATCGGTTGAATTAACTCTTAGAAGCATTTGGCAT
38997786 GTTACCAGTT
66 GTTACCAGTT
* * *
38997796 ATAT-TAGCTCTTCAGAGCACTTGGCGAT-TTATCGGTTGGATTAACTCTTATAAGCGTTTGGCA
1 ATATATAGCTCTTCAGAGCACTTGGC-ATGTTATCGGTTGAATTAACTCTTAGAAGCATTTGGCA
38997859 TGTT
65 TGTT
38997863 TCGGTTGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 54 0.90
75 6 0.10
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (75 bp):
ATATATAGCTCTTCAGAGCACTTGGCATGTTATCGGTTGAATTAACTCTTAGAAGCATTTGGCAT
GTTACCAGTT
Found at i:38998704 original size:66 final size:66
Alignment explanation
Indices: 38998623--38998746 Score: 185
Period size: 66 Copynumber: 1.9 Consensus size: 66
38998613 GTCATCCTCC
* * *
38998623 TTGTTTTGCTATATTTTTTGATGTCCTCCTCTCGGTTTAATTACCCCTTTTAGGGGCCATGTCTC
1 TTGTTTTACTATATTTTTTAATGTCCTCCTCTCGGTTTAATAACCCCTTTTAGGGGCCATGTCTC
38998688 T
66 T
* * * *
38998689 TTGTTTTACTCTATTTTTTAATGTCCTCCTTTCGGTTTAATAACCTCTTTTTGGGGCC
1 TTGTTTTACTATATTTTTTAATGTCCTCCTCTCGGTTTAATAACCCCTTTTAGGGGCC
38998747 CTATTTGAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.13, C:0.22, G:0.15, T:0.50
Consensus pattern (66 bp):
TTGTTTTACTATATTTTTTAATGTCCTCCTCTCGGTTTAATAACCCCTTTTAGGGGCCATGTCTC
T
Found at i:39003984 original size:25 final size:26
Alignment explanation
Indices: 39003928--39003984 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
39003918 GTATGGCTTC
*
39003928 TTCTCCTTCTTCCGTTCTTCATTCCT
1 TTCTTCTTCTTCCGTTCTTCATTCCT
* *
39003954 TT-TTCTTCTTCTGTTCTTCA-TCTT
1 TTCTTCTTCTTCCGTTCTTCATTCCT
39003978 TTCTTCT
1 TTCTTCT
39003985 CAGCATATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 20 0.74
26 2 0.07
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.61
Consensus pattern (26 bp):
TTCTTCTTCTTCCGTTCTTCATTCCT
Found at i:39007663 original size:16 final size:16
Alignment explanation
Indices: 39007634--39007685 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 16
39007624 AATATATGAA
*
39007634 AAAAATTTA-AAATAT
1 AAAAATTTATTAATAT
39007649 AAAAATTTATTAATATGT
1 AAAAATTTATTAATA--T
39007667 ATATAAATTTATTAATAT
1 A-A-AAATTTATTAATAT
39007685 A
1 A
39007686 TGTAAAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
18 4 0.13
19 1 0.03
20 13 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAAATTTATTAATAT
Found at i:39007689 original size:22 final size:20
Alignment explanation
Indices: 39007646--39007684 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39007636 AAATTTAAAA
39007646 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
39007666 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
39007685 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:39008092 original size:21 final size:21
Alignment explanation
Indices: 39008066--39008121 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
39008056 CACTGCTGTT
*
39008066 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
39008087 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
39008108 ACTAATCTCACCGC
1 TCTAATCTCACCGC
39008122 CACCGCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:39009436 original size:21 final size:21
Alignment explanation
Indices: 39009385--39009439 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
39009375 ACCATTGTTT
*
39009385 CTAATCTCACCGCTACAATAT
1 CTAATCTCACCGCTACAATAA
* *
39009406 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAATAA
*
39009427 CTAATATCACCGC
1 CTAATCTCACCGC
39009440 CACCACTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:39014026 original size:27 final size:27
Alignment explanation
Indices: 39013972--39014032 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
39013962 AATTAGAAAT
** *
39013972 ATATATTTATGTGATTTTTTTGTGGAA
1 ATATATTTATGTGATTTAATTATGGAA
*
39013999 ATATATTTATGTGATTTGAATTATGAAA
1 ATATATTTATGTGATTT-AATTATGGAA
*
39014027 AGATAT
1 ATATAT
39014033 AATTTCTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (27 bp):
ATATATTTATGTGATTTAATTATGGAA
Found at i:39021205 original size:44 final size:44
Alignment explanation
Indices: 39021145--39021235 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
39021135 TATAGTGCCT
* * *
39021145 CACACTGCCTGTCACACGA-CCGTGTTACCCAAGTCAGAGAGTTA
1 CACACGGCCTGACACAC-ACCCGTGTGACCCAAGTCAGAGAGTTA
39021189 CACACGGCCTGACACACACCCGTGTGACCCAAGTCAGAGAGTTA
1 CACACGGCCTGACACACACCCGTGTGACCCAAGTCAGAGAGTTA
39021233 CAC
1 CAC
39021236 TGTCTAGACA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.29, C:0.34, G:0.21, T:0.16
Consensus pattern (44 bp):
CACACGGCCTGACACACACCCGTGTGACCCAAGTCAGAGAGTTA
Found at i:39023146 original size:17 final size:19
Alignment explanation
Indices: 39023124--39023162 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
39023114 TATAGGGTGT
39023124 TTGAA-TAG-TTAATCGAA
1 TTGAATTAGATTAATCGAA
39023141 TTGAATTAGTATTAATCGAA
1 TTGAATTAG-ATTAATCGAA
39023161 TT
1 TT
39023163 AATCGAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
20 11 0.58
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
TTGAATTAGATTAATCGAA
Found at i:39023948 original size:65 final size:65
Alignment explanation
Indices: 39023843--39023965 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
39023833 GCTGCTGTTT
* * *
39023843 TTCCATTATTTTGCTGTCATTTTTATTATTATGTTACTACTATTTTATTATTATTATTATTATTA
1 TTCCATTATTTTGCTATCATTTTCACTATTATGTTACTACTATTTTATTATTATTATTATTATTA
* *
39023908 TTCCATTATTTTGCTATCATTTTCACTATTATGTTGCTACTATTTTATTGTTATTATT
1 TTCCATTATTTTGCTATCATTTTCACTATTATGTTACTACTATTTTATTATTATTATT
39023966 TGGATATTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (65 bp):
TTCCATTATTTTGCTATCATTTTCACTATTATGTTACTACTATTTTATTATTATTATTATTATTA
Found at i:39026206 original size:20 final size:21
Alignment explanation
Indices: 39026181--39026237 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
39026171 CCAAAAATCA
39026181 AAAGTATCGATACTCTT-AAC
1 AAAGTATCGATACTCTTAAAC
*
39026201 AAAGTATTGA-AGC-CTTAAAC
1 AAAGTATCGATA-CTCTTAAAC
*
39026221 AAAGTATCGATATTCTT
1 AAAGTATCGATACTCTT
39026238 GTCTGGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (21 bp):
AAAGTATCGATACTCTTAAAC
Found at i:39028979 original size:41 final size:41
Alignment explanation
Indices: 39028922--39029023 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
39028912 GCATAGCGCT
*
39028922 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* * *
39028963 TAGCAGGCTTAATGCCGGTGAAATATTTTAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
39029004 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
39029024 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:39036552 original size:41 final size:41
Alignment explanation
Indices: 39036495--39036596 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
39036485 GCATAGCGCT
*
39036495 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
39036536 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
39036577 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
39036597 TACTGAATCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:39040919 original size:3 final size:3
Alignment explanation
Indices: 39040911--39040996 Score: 154
Period size: 3 Copynumber: 28.3 Consensus size: 3
39040901 TGGGTCGAGG
*
39040911 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
39040959 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA G
39040997 GAAAAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
3 77 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:39041055 original size:53 final size:55
Alignment explanation
Indices: 39040974--39041086 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 55
39040964 AGAAGAAGAA
* * * *
39040974 GAAGAAGAAGAAGAAGAAAGAAGG-AAAAAAAGAATGTCAAAAAAATTT-GGGGG
1 GAAGAAGAAGAAAAAGAAAGAAGGAAAAAAAACAACGACAAAAAAATTTGGGGGG
*
39041027 GAAGAAGAAGAAAAAG-AAGAAGGAAAAAAAAACAACGACAAAAAATTTTGGGGGG
1 GAAGAAGAAGAAAAAGAAAGAAGG-AAAAAAAACAACGACAAAAAAATTTGGGGGG
39041082 GAAGA
1 GAAGA
39041087 GTCAAAAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 7 0.13
53 15 0.29
54 20 0.38
55 10 0.19
ACGTcount: A:0.59, C:0.04, G:0.29, T:0.08
Consensus pattern (55 bp):
GAAGAAGAAGAAAAAGAAAGAAGGAAAAAAAACAACGACAAAAAAATTTGGGGGG
Found at i:39041082 original size:56 final size:55
Alignment explanation
Indices: 39040971--39041086 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 55
39040961 AGAAGAAGAA
* * * *
39040971 GAAGAAGAAGAAGAAGAAGAAAGAAGGAAAAAAAGAATGTCAAAAAAATTTGGGGG
1 GAAGAAGAAGAAAAAGAAGAAAGAA-GAAAAAAACAACGACAAAAAAATTTGGGGG
* *
39041027 GAAGAAGAAGAAAAAGAAGAAGGAA-AAAAAAACAACGACAAAAAATTTTGGGGGG
1 GAAGAAGAAGAAAAAGAAGAAAGAAGAAAAAAACAACGACAAAAAAATTT-GGGGG
39041082 GAAGA
1 GAAGA
39041087 GTCAAAAGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 20 0.38
55 10 0.19
56 23 0.43
ACGTcount: A:0.59, C:0.03, G:0.29, T:0.08
Consensus pattern (55 bp):
GAAGAAGAAGAAAAAGAAGAAAGAAGAAAAAAACAACGACAAAAAAATTTGGGGG
Found at i:39045281 original size:15 final size:15
Alignment explanation
Indices: 39045261--39045299 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
39045251 ATGTATTTTA
*
39045261 TATTATTATTGCTAT
1 TATTATTATTCCTAT
39045276 TATTATTATTCCTAT
1 TATTATTATTCCTAT
*
39045291 TATTTTTAT
1 TATTATTAT
39045300 ATCTTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (15 bp):
TATTATTATTCCTAT
Found at i:39045474 original size:19 final size:19
Alignment explanation
Indices: 39045452--39045488 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39045442 ACACTTGTTT
39045452 TAAAATTATGTATTATTAC
1 TAAAATTATGTATTATTAC
* *
39045471 TAAAATTTTGTTTTATTA
1 TAAAATTATGTATTATTA
39045489 TGATATGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (19 bp):
TAAAATTATGTATTATTAC
Found at i:39046215 original size:16 final size:16
Alignment explanation
Indices: 39046194--39046262 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
39046184 TTGGTTCGCT
* *
39046194 GTAATGGAATGGAGGC
1 GTAATGGAATAGAAGC
39046210 GTAATGGAATAGAAGC
1 GTAATGGAATAGAAGC
39046226 GTAATGGAATAGAAGC
1 GTAATGGAATAGAAGC
*
39046242 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
39046258 GTAAT
1 GTAAT
39046263 AGCAATTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAAGC
Found at i:39046299 original size:45 final size:44
Alignment explanation
Indices: 39046242--39046338 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
39046232 GAATAGAAGC
39046242 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
39046287 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
39046331 GGAATGGA
1 GTAATGGA
39046339 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:39046514 original size:18 final size:17
Alignment explanation
Indices: 39046492--39046526 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39046482 TAATTATTAA
*
39046492 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
39046510 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39046527 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:39046619 original size:16 final size:14
Alignment explanation
Indices: 39046589--39046640 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
39046579 CTATAAAATA
39046589 TAATTTAAAATAAT
1 TAATTTAAAATAAT
39046603 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
39046619 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
39046632 ATAATTTAA
1 -TAATTTAA
39046641 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:39046697 original size:117 final size:120
Alignment explanation
Indices: 39046486--39046706 Score: 360
Period size: 117 Copynumber: 1.9 Consensus size: 120
39046476 TTAACATAAT
* *
39046486 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTATTATAT
39046551 GAATTTACTAAAATCATAATATATAATACTAT-AAAATATAATTTAAAATAATTAA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
*
39046606 TATTAAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTATTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTATTATAT
*
39046668 GAATTTACTAAAATCATATTATATAATACTATGAAAATA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATA
39046707 ATATATAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
116 2 0.02
117 43 0.45
118 9 0.09
120 41 0.43
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTATTATATG
AATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
Found at i:39049418 original size:46 final size:46
Alignment explanation
Indices: 39049351--39049443 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
39049341 CCTTAAAGAA
* *
39049351 CAAAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTT
*
39049397 CAAAGACTTGCAATCAAAAACTATGATGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTT
39049443 C
1 C
39049444 TCAGATACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (46 bp):
CAAAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTT
Found at i:39052878 original size:17 final size:17
Alignment explanation
Indices: 39052858--39052899 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
39052848 TGGAAATGAT
*
39052858 GGAAAAAGAAAAGGAAA
1 GGAAAAAGAAAAAGAAA
39052875 GGAAAAAGAAAAAGAAA
1 GGAAAAAGAAAAAGAAA
*
39052892 AGAAAAAG
1 GGAAAAAG
39052900 GAGAAGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGAAA
Found at i:39052887 original size:7 final size:6
Alignment explanation
Indices: 39052859--39052899 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
39052849 GGAAATGATG
* *
39052859 GAAAAA G-AAAA GGAAAG GAAAAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
39052900 GAGAAGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:39055308 original size:45 final size:45
Alignment explanation
Indices: 39055164--39055747 Score: 682
Period size: 45 Copynumber: 13.0 Consensus size: 45
39055154 TTGGTTGAAA
* *
39055164 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * * *
39055209 ATACCAG-CCTTATC-TCC--T--TGAGCAGCAGTAGAGTA-AGTTGAAA
1 ATAGCAGATCTTGTCTTCCTGTACTG-GCAGC-G-A-AGTAGA-TCGAAG
* * * * *
39055252 ATAGCAAATCTTATCTTTCTGTACTGGCAGCAAAATAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * *
39055297 ATAGCAGATCTTGTCTTCCTGTAGTGGCAGTGAAGTAGATTGAAT
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* *
39055342 ATAGTAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCGATA-
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGA-AG
* * *
39055387 ATAGTAGATCTTATCTTCTTGTACTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
*
39055432 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * **
39055477 ATAACAGATATTGTCTT-CTAGTACTGGCAATGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCT-GTACTGGCAGCGAAGTAGATCGAAG
* *
39055522 ATAGCAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
39055567 ATAGTAGATCTTGTCTTCCTGTACTGGTAGCAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* *
39055612 ATGGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * *
39055657 ATAGCAGATCTTGTCTTCCTGTATTGGCATCGAAGTAGATCAAAA
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
39055702 ATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
39055747 A
1 A
39055748 CATTAGCCTT
Statistics
Matches: 457, Mismatches: 66, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
39 2 0.00
40 5 0.01
41 2 0.00
42 2 0.00
43 16 0.04
44 14 0.03
45 403 0.88
46 5 0.01
47 1 0.00
48 5 0.01
49 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
Found at i:39055777 original size:44 final size:45
Alignment explanation
Indices: 39055711--39055851 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 45
39055701 AATAGCAGAT
* * *
39055711 CTTGCCT-TCCTATACTGGCAGCGAAGCAGATCGAAGACATTAGC
1 CTTGCCTCTCCAATATTGACAGCGAAGCAGATCGAAGACATTAGC
* * * * ** *
39055755 CTTGCCTCTCTAAT-TTTACAGCGAAGCAGAAT-TAAGATAGCAGAT
1 CTTGCCTCTCCAATATTGACAGCGAAGCAG-ATCGAAGACATTAG-C
* *
39055800 CTTGCCT-TCCAGTATTGGCAGCGAAGCAGATCGAAGACATTAGC
1 CTTGCCTCTCCAATATTGACAGCGAAGCAGATCGAAGACATTAGC
39055844 CTTGCCTC
1 CTTGCCTC
39055852 CTTGAGTTTA
Statistics
Matches: 72, Mismatches: 19, Indels: 11
0.71 0.19 0.11
Matches are distributed among these distances:
44 39 0.54
45 33 0.46
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (45 bp):
CTTGCCTCTCCAATATTGACAGCGAAGCAGATCGAAGACATTAGC
Found at i:39055819 original size:89 final size:89
Alignment explanation
Indices: 39055702--39056103 Score: 480
Period size: 89 Copynumber: 4.5 Consensus size: 89
39055692 TAGATCAAAA
* * * *
39055702 ATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCTCTA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* * * *
39055767 ATTTTACAGCGAAGCAGAATTAAG
66 AGTTTACAGCGGAGCAGACTGAAG
* * * * * *
39055791 ATAGCAGATCTTGCCTTCCAGTATTGGCAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* *
39055856 AGTTTACATCGGAGCAGACTAAAG
66 AGTTTACAGCGGAGCAGACTGAAG
* * **
39055880 ATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCGGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* * *
39055945 GGTTTGCAGCGGAGCAGACTGGAG
66 AGTTTACAGCGGAGCAGACTGAAG
* * ** * *
39055969 ATAGTAAATCTTGCCTTCCTGTACTGACAGCGAATTAGATCGAAGACACTAGTCTTGTCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* * * *
39056034 GGTTTGCGGTGGAGCAGACTGAAG
66 AGTTTACAGCGGAGCAGACTGAAG
* * *
39056058 ATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAAATCGAAGA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGA
39056104 TGGCAAATCT
Statistics
Matches: 271, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 271 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (89 bp):
ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
AGTTTACAGCGGAGCAGACTGAAG
Found at i:39055917 original size:45 final size:45
Alignment explanation
Indices: 39055247--39056114 Score: 251
Period size: 45 Copynumber: 19.4 Consensus size: 45
39055237 TAGAGTAAGT
* ** * * * **
39055247 TGAAAATAGCAAATCTTATCTTTCTGTACTGGCAGCAAAATAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * *
39055291 TCGAAGATAGCAGATCTTGTCTTCCTGTAGTGGCAGTGAAGTAGAT
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * *
39055337 TGAATATAGTAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * ** * * *
39055381 TCGATA-ATAGTAGATCTTATCTTCTTGTACTGGCAGCGAAGTAGA-
1 T-GA-AGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
39055426 TCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * ** *
39055471 TCGAAGATAACAGATATTGTCTT-CTAGTACTGGCAATGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCT-GTACTGACAGCGAAGCAGAC
* * * *
39055516 TCGAAGATAGCAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * ** * *
39055561 TCGAAGATAGTAGATCTTGTCTTCCTGTACTGGTAGCAAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * *
39055606 TCGAAGATGGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * *
39055651 TCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCATCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
39055696 TCAAAAATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* ** ** * * * *
39055741 TCGAAGACA-TTAGCCTTGCC-TCTCT-AATTTTACAGCGAAGCAGAA
1 T-GAAGATAGCAAATCTTGCCTTC-CTGTA-CTGACAGCGAAGCAGAC
* * * * *
39055786 TTAAGATAGCAGATCTTGCCTTCCAGTATTGGCAGCGAAGCAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* ** ** * * * *
39055830 TCGAAGACA-TTAGCCTTGCC-TCCT-TGAGTTTACATCGGAGCAGAC
1 T-GAAGATAGCAAATCTTGCCTTCCTGT-A-CTGACAGCGAAGCAGAC
* *
39055875 TAAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAT
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* **** * * *
39055920 TGAAGACA-CCGGCCTTGCCTCCCTAGGT-TTG-CAGCGGAGCAGAC
1 TGAAGATAGCAAATCTTGCCTTCCT--GTACTGACAGCGAAGCAGAC
* * **
39055964 TGGAGATAGTAAATCTTGCCTTCCTGTACTGACAGCGAATTAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * * * *
39056008 TCGAAGACA-CTAGTCTTGTCTCCCTAGGT-TTG-CGGTGGAGCAGAC
1 T-GAAGATAGCAAATCTTGCCTTCCT--GTACTGACAGCGAAGCAGAC
* * * *
39056053 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCA-AA
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
*
39056097 TCGAAGATGGCAAATCTT
1 T-GAAGATAGCAAATCTT
39056115 ATCTTCCCAA
Statistics
Matches: 646, Mismatches: 145, Indels: 65
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.00
43 11 0.02
44 114 0.18
45 503 0.78
46 16 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
Found at i:39056299 original size:132 final size:132
Alignment explanation
Indices: 39056086--39056592 Score: 739
Period size: 132 Copynumber: 3.8 Consensus size: 132
39056076 CTGTACTGAC
* * * * *
39056086 AGTGAAGCAAATCGAAGATGGCAAATCTTATCTTCCCAAGGTAGTAGGG-GGCAGATTTAATCCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* * *
39056150 CCAGTCCTATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGTA
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
39056215 GT
131 GT
* * *
39056217 AGTGGAGCAAATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* ** *
39056282 CTAGTCCTGCCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGATCCTGTCTCCCTAAGCA
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
39056347 GT
131 GT
* * * *
39056349 AGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGGTTTAAGCCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* *
39056414 CCAGTCCTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT-TTCGTCTCCCTAAGC
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCT-GTCTCCCTAAGC
39056478 AGT
130 AGT
* * * * * *
39056481 AGTGAAGCAGATCAAATACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAACCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
*
39056546 CCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
39056593 TCATTAACTC
Statistics
Matches: 344, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
131 47 0.14
132 297 0.86
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
GT
Found at i:39058155 original size:11 final size:10
Alignment explanation
Indices: 39058129--39058183 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
39058119 TTATAAATAC
39058129 TTTTATATCT
1 TTTTATATCT
*
39058139 TTTTATATGT
1 TTTTATATCT
*
39058149 ATTT-TATCAT
1 TTTTATATC-T
39058159 TTTTATAT-T
1 TTTTATATCT
* *
39058168 TTTTATTTAT
1 TTTTATATCT
39058178 TTTTAT
1 TTTTAT
39058184 TGAAAACTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 11 0.30
10 23 0.62
11 3 0.08
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATATCT
Found at i:39063456 original size:16 final size:16
Alignment explanation
Indices: 39063435--39063470 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
39063425 GCTGGTGTTA
39063435 TAAGAGATTTGAATGG
1 TAAGAGATTTGAATGG
39063451 TAAGAGATTTGAATGG
1 TAAGAGATTTGAATGG
39063467 TAAG
1 TAAG
39063471 TGGCTATGGG
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:0.00, G:0.31, T:0.31
Consensus pattern (16 bp):
TAAGAGATTTGAATGG
Found at i:39064086 original size:42 final size:42
Alignment explanation
Indices: 39063999--39064087 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
39063989 TGTCTTAAAT
* **
39063999 CGTGTAACTCACTGACTTAGATCACACGGCCATGTCGTAGGC
1 CGTGTAACTCACTGACTTAGATCACACGGCCATGTCGCAAAC
* *
39064041 CGTGTAACTCTCTGACTT-GATACACACGGCCGTGTCGCAAAC
1 CGTGTAACTCACTGACTTAGAT-CACACGGCCATGTCGCAAAC
39064083 CGTGT
1 CGTGT
39064088 GCCAGGCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (42 bp):
CGTGTAACTCACTGACTTAGATCACACGGCCATGTCGCAAAC
Found at i:39065911 original size:45 final size:45
Alignment explanation
Indices: 39065788--39065917 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
39065778 GTTAGAATCG
** * * *
39065788 TGATGCCATAACGTCTTTTAGCTATGGTCTTACTCATTTCCGGTA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTA
* *
39065833 TGATGCCATAGTTTCTTTCAACTATGGTATTATTCAATTT-CGGTA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCCGGTA
* * *
39065878 TAGA-GCTATAGTGTCTTTCAACTATGATCTTATTCGTTTC
1 T-GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTC
39065918 ATTCAAGCAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
44 3 0.04
45 61 0.87
46 6 0.09
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (45 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTA
Found at i:39068869 original size:28 final size:28
Alignment explanation
Indices: 39068829--39068882 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
39068819 GAGGAAAATA
39068829 TAACTGGTGCTAATTTGACCGACGAATG
1 TAACTGGTGCTAATTTGACCGACGAATG
39068857 TAACTGGTGCTAATTTGACCGACGAA
1 TAACTGGTGCTAATTTGACCGACGAA
39068883 AGTAGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (28 bp):
TAACTGGTGCTAATTTGACCGACGAATG
Found at i:39088026 original size:29 final size:29
Alignment explanation
Indices: 39087994--39088062 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
39087984 AACCATCCAT
* *
39087994 TACAACCATTAATAAATTGTCTATCAAAA
1 TACAACCATCAATAAATTGTCCATCAAAA
* *
39088023 TACAACTATCAATAAATTTTCCATCAAAA
1 TACAACCATCAATAAATTGTCCATCAAAA
39088052 TACAACCATCA
1 TACAACCATCA
39088063 TAATGATTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (29 bp):
TACAACCATCAATAAATTGTCCATCAAAA
Found at i:39088099 original size:31 final size:31
Alignment explanation
Indices: 39088057--39088119 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
39088047 CAAAATACAA
* * * * *
39088057 CCATCATAATGATTCGAAAAAATTAAATCAT
1 CCATCAAAATGATCCAAAAAAATAAAACCAT
39088088 CCATCAAAATGATCCAAAAAAATAAAACCAT
1 CCATCAAAATGATCCAAAAAAATAAAACCAT
39088119 C
1 C
39088120 AATCGTATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.05, T:0.22
Consensus pattern (31 bp):
CCATCAAAATGATCCAAAAAAATAAAACCAT
Found at i:39088120 original size:27 final size:28
Alignment explanation
Indices: 39088048--39088121 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 28
39088038 ATTTTCCATC
* * *
39088048 AAAATACAACCATCATAATGATTCGAAA
1 AAAATAAAACCATCAAAATGATTCCAAA
*
39088076 AAATTAAATCATCCATCAAAATGA-TCCAAA
1 AAAATAAA--A-CCATCAAAATGATTCCAAA
39088106 AAAATAAAACCATCAA
1 AAAATAAAACCATCAA
39088122 TCGTATGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 7 0.18
28 7 0.18
30 13 0.34
31 11 0.29
ACGTcount: A:0.57, C:0.19, G:0.04, T:0.20
Consensus pattern (28 bp):
AAAATAAAACCATCAAAATGATTCCAAA
Found at i:39088648 original size:24 final size:24
Alignment explanation
Indices: 39088602--39088648 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
39088592 TTGAGAAGGA
* *
39088602 GCTGGTGAACCAGGAGTTGCTAGG
1 GCTGGTGAACCAGGAGCTACTAGG
* *
39088626 GCTGGTGGAGCAGGAGCTACTAG
1 GCTGGTGAACCAGGAGCTACTAG
39088649 AGCTACTCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (24 bp):
GCTGGTGAACCAGGAGCTACTAGG
Found at i:39089160 original size:21 final size:21
Alignment explanation
Indices: 39089136--39089206 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
39089126 GAGCCTAGAT
39089136 CGTGTGGCTCAGAAACATGGC
1 CGTGTGGCTCAGAAACATGGC
* *
39089157 CGTGTGGCTCAGAAACGTGGT
1 CGTGTGGCTCAGAAACATGGC
*
39089178 CGTGTGGCTCAAAAACATGGC
1 CGTGTGGCTCAGAAACATGGC
*
39089199 CTTGTGGC
1 CGTGTGGC
39089207 CAAACCATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (21 bp):
CGTGTGGCTCAGAAACATGGC
Found at i:39090192 original size:13 final size:13
Alignment explanation
Indices: 39090176--39090230 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
39090166 TATATGTTTC
*
39090176 CATATAAGCATTT
1 CATATAACCATTT
39090189 CATATAACCATTT
1 CATATAACCATTT
* **
39090202 CATCTAAATATTT
1 CATATAACCATTT
* *
39090215 CATCTTACCATTT
1 CATATAACCATTT
39090228 CAT
1 CAT
39090231 TTACACATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:39090240 original size:26 final size:26
Alignment explanation
Indices: 39090184--39090240 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
39090174 TCCATATAAG
39090184 CATTTCATATAACCATTTCATCTAAA
1 CATTTCATATAACCATTTCATCTAAA
* * * * *
39090210 TATTTCATCTTACCATTTCATTTACA
1 CATTTCATATAACCATTTCATCTAAA
39090236 CATTT
1 CATTT
39090241 AACTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATTTCATATAACCATTTCATCTAAA
Found at i:39090676 original size:20 final size:20
Alignment explanation
Indices: 39090632--39090729 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
39090622 ACCACACCAA
*
39090632 AGGCATCAAAGTTGCATAACAG
1 AGGCATCGAAG-TGCA-AACAG
**
39090654 AGGCATCGAAGTGCAGGCAG
1 AGGCATCGAAGTGCAAACAG
* *
39090674 AGGCA-CAAATGTGCAATCAG
1 AGGCATCGAA-GTGCAAACAG
*
39090694 AGGCACCGAAGTGCAAACAG
1 AGGCATCGAAGTGCAAACAG
39090714 AGGCATCGAAGTGCAA
1 AGGCATCGAAGTGCAA
39090730 TCCCATACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.69
21 7 0.11
22 10 0.15
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (20 bp):
AGGCATCGAAGTGCAAACAG
Found at i:39090695 original size:40 final size:40
Alignment explanation
Indices: 39090632--39090731 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
39090622 ACCACACCAA
* * **
39090632 AGGCATCAAAGTTGCATAACAGAGGCATCGAAGTGCAGGCAG
1 AGGCATCAAAG-TGCA-ATCAGAGGCACCGAAGTGCAAACAG
39090674 AGGCA-CAAATGTGCAATCAGAGGCACCGAAGTGCAAACAG
1 AGGCATCAAA-GTGCAATCAGAGGCACCGAAGTGCAAACAG
*
39090714 AGGCATCGAAGTGCAATC
1 AGGCATCAAAGTGCAATC
39090732 CCATACAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 34 0.67
41 11 0.22
42 6 0.12
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.13
Consensus pattern (40 bp):
AGGCATCAAAGTGCAATCAGAGGCACCGAAGTGCAAACAG
Found at i:39092167 original size:20 final size:20
Alignment explanation
Indices: 39092141--39092187 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
39092131 TTTAGCTCGG
*
39092141 TTCAGCTCACATGAGTTTAA
1 TTCAGCTCACATGAGCTTAA
* *
39092161 TTTAGCTCGCATGAGCTTAA
1 TTCAGCTCACATGAGCTTAA
39092181 TTCAGCT
1 TTCAGCT
39092188 TGTTTGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (20 bp):
TTCAGCTCACATGAGCTTAA
Found at i:39094889 original size:18 final size:18
Alignment explanation
Indices: 39094866--39094923 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
39094856 TGGAGAAATG
*
39094866 AAAGAAAAAGACATTGAA
1 AAAGAAAAAGAAATTGAA
*
39094884 AAAGAAAAAGAAATTGCA
1 AAAGAAAAAGAAATTGAA
*
39094902 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
39094920 AAAG
1 AAAG
39094924 TGAGTGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.67, C:0.03, G:0.19, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:39094921 original size:30 final size:28
Alignment explanation
Indices: 39094887--39094971 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 28
39094877 CATTGAAAAA
39094887 GAAAAAGAAATTGCAAAAGAAAAGGAAATT
1 GAAAAAGAAATTG-AAAAGAAAA-GAAATT
** * *
39094917 GAAAAAGTGAGTGAAAAGGAGAAAGAGATT
1 GAAAAAGAAATTGAAAA-GA-AAAGAAATT
*
39094947 GAAAAAGAAATTG-AAAGAGAAGAAA
1 GAAAAAGAAATTGAAAAGAAAAGAAA
39094972 AAGAAAGAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
27 5 0.11
28 2 0.05
29 7 0.16
30 27 0.61
31 3 0.07
ACGTcount: A:0.61, C:0.01, G:0.26, T:0.12
Consensus pattern (28 bp):
GAAAAAGAAATTGAAAAGAAAAGAAATT
Found at i:39094963 original size:22 final size:21
Alignment explanation
Indices: 39094937--39094977 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
39094927 GTGAAAAGGA
*
39094937 GAAAGAGATTGAAAAAGAAATT
1 GAAAGAGA-AGAAAAAGAAATT
39094959 GAAAGAGAAGAAAAAGAAA
1 GAAAGAGAAGAAAAAGAAA
39094978 GAGTGGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (21 bp):
GAAAGAGAAGAAAAAGAAATT
Found at i:39096743 original size:20 final size:20
Alignment explanation
Indices: 39096720--39096763 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
39096710 TTTAGCTCGG
*
39096720 TTCAACTCACATGAGTTTAA
1 TTCAACTCACATGAGCTTAA
**
39096740 TTCAGTTCACATGAGCTTAA
1 TTCAACTCACATGAGCTTAA
39096760 TTCA
1 TTCA
39096764 GCTCGTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
TTCAACTCACATGAGCTTAA
Found at i:39096764 original size:20 final size:20
Alignment explanation
Indices: 39096726--39096764 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39096716 TCGGTTCAAC
*
39096726 TCACATGAGTTTAATTCAGT
1 TCACATGAGCTTAATTCAGT
39096746 TCACATGAGCTTAATTCAG
1 TCACATGAGCTTAATTCAG
39096765 CTCGTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
TCACATGAGCTTAATTCAGT
Found at i:39099166 original size:19 final size:18
Alignment explanation
Indices: 39099139--39099177 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
39099129 AGCCCCACCA
39099139 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
*
39099158 TTAATTCTTCATTACAAT
1 TTAACTCTTCATTACAAT
39099176 TT
1 TT
39099178 GGTTCCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:39099615 original size:13 final size:13
Alignment explanation
Indices: 39099597--39099621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39099587 ATAAATTGTA
39099597 ATATACATACATG
1 ATATACATACATG
39099610 ATATACATACAT
1 ATATACATACAT
39099622 ATCTTAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:39099673 original size:30 final size:27
Alignment explanation
Indices: 39099639--39099723 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 27
39099629 ATAGTGTTCA
39099639 ACATAGCATACATAAATAACAATAATAT
1 ACATAGCATACATAAATAA-AATAATAT
* * * *
39099667 ACACATAACAAACATACATAATAGTAATAT
1 --ACATAGCATACATAAATAA-AATAATAT
39099697 ACATAGCATACATAATATAAAATAATA
1 ACATAGCATACATAA-ATAAAATAATA
39099724 AATAGTAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
28 18 0.40
29 4 0.09
30 23 0.51
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.25
Consensus pattern (27 bp):
ACATAGCATACATAAATAAAATAATAT
Found at i:39099706 original size:24 final size:24
Alignment explanation
Indices: 39099677--39099778 Score: 97
Period size: 24 Copynumber: 4.4 Consensus size: 24
39099667 ACACATAACA
39099677 AACATACATAATAGTAATATACAT
1 AACATACATAATAGTAATATACAT
* *
39099701 AGCATACATAATA-TAAAATA-AT
1 AACATACATAATAGTAATATACAT
* * *
39099723 AA-ATA-GTAATATTCCATATAACA-
1 AACATACATAATAGT-AATAT-ACAT
*
39099746 AACATATATAATAGTAATATACAT
1 AACATACATAATAGTAATATACAT
39099770 AACATACAT
1 AACATACAT
39099779 GATATACAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
20 5 0.08
21 4 0.07
22 6 0.10
23 12 0.20
24 28 0.46
25 6 0.10
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (24 bp):
AACATACATAATAGTAATATACAT
Found at i:39099729 original size:38 final size:38
Alignment explanation
Indices: 39099686--39099820 Score: 106
Period size: 38 Copynumber: 3.7 Consensus size: 38
39099676 AAACATACAT
*
39099686 AATAGTAATATACATAGCATACATAATATAAAATAATA
1 AATAGTAATATACATAACATACATAATATAAAATAATA
* * *
39099724 AATAGTAATAT---T-CCAT--ATAACA-AACAT-ATA
1 AATAGTAATATACATAACATACATAATATAAAATAATA
* *
39099754 TAATAGTAATATACATAACATACATGATATACAATAATA
1 -AATAGTAATATACATAACATACATAATATAAAATAATA
* *
39099793 AACAATAATATACCACATAACATACATA
1 AATAGTAATAT---ACATAACATACATA
39099821 CATAACAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
30 3 0.04
31 15 0.20
32 5 0.07
34 4 0.05
35 4 0.05
37 4 0.05
38 23 0.31
39 3 0.04
41 13 0.18
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.28
Consensus pattern (38 bp):
AATAGTAATATACATAACATACATAATATAAAATAATA
Found at i:39099757 original size:69 final size:69
Alignment explanation
Indices: 39099656--39099840 Score: 255
Period size: 69 Copynumber: 2.7 Consensus size: 69
39099646 ATACATAAAT
*
39099656 AACAATAATATA-CACATAACAAACATACATAATAGTAATATACATAGCATACATAATATAAAAT
1 AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
39099720 AATA
66 AATA
* * * * * * *
39099724 AATAGTAATATTCCATATAACAAACATATATAATAGTAATATACATAACATACATGATATACAAT
1 AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
39099789 AATA
66 AATA
* * * *
39099793 AACAATAATATACCACATAACATACATACATAACAATAGTATACATAA
1 AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAA
39099841 ACAGTAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
68 9 0.09
69 90 0.91
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.26
Consensus pattern (69 bp):
AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
AATA
Found at i:39099942 original size:45 final size:45
Alignment explanation
Indices: 39099892--39099996 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
39099882 ACATGTAGTA
* * *
39099892 ATATTCACAACATATATACATAATAGAGATACATCACAAACATAC
1 ATATTCACAACATACATACATAATAGACATACATAACAAACATAC
**
39099937 ATATTCACAACATACATACATAATAGACATACATAACAGGCATAC
1 ATATTCACAACATACATACATAATAGACATACATAACAAACATAC
*
39099982 ATATTCATAACATAC
1 ATATTCACAACATAC
39099997 GTAACAGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.25
Consensus pattern (45 bp):
ATATTCACAACATACATACATAATAGACATACATAACAAACATAC
Found at i:39099950 original size:15 final size:16
Alignment explanation
Indices: 39099925--39099954 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39099915 TAGAGATACA
39099925 TCACAAACATACATAT
1 TCACAAACATACATAT
39099941 TCAC-AACATACATA
1 TCACAAACATACATA
39099955 CATAATAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (16 bp):
TCACAAACATACATAT
Found at i:39099968 original size:13 final size:13
Alignment explanation
Indices: 39099945--39100040 Score: 88
Period size: 13 Copynumber: 7.4 Consensus size: 13
39099935 ACATATTCAC
*
39099945 AACATACATACAT
1 AACAGACATACAT
*
39099958 AATAGACATACAT
1 AACAGACATACAT
*
39099971 AACAGGCATACAT
1 AACAGACATACAT
* * *
39099984 ATTCATAACATACGT
1 A-ACA-GACATACAT
39099999 AACAGACATACAT
1 AACAGACATACAT
*
39100012 AGCAGACATA-AT
1 AACAGACATACAT
*
39100024 AATA-ACATACAT
1 AACAGACATACAT
39100036 AACAG
1 AACAG
39100041 TAATACACAT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.08
12 9 0.14
13 39 0.61
14 4 0.06
15 7 0.11
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.21
Consensus pattern (13 bp):
AACAGACATACAT
Found at i:39100008 original size:37 final size:37
Alignment explanation
Indices: 39099950--39100040 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 37
39099940 TTCACAACAT
* * *
39099950 ACATACATAATAGACATACATAACAGGCATACATATTCATA
1 ACATACATAACAGACATACATAGCAGACATA-ATA---ATA
*
39099991 ACATACGTAACAGACATACATAGCAGACATAATAATA
1 ACATACATAACAGACATACATAGCAGACATAATAATA
39100028 ACATACATAACAG
1 ACATACATAACAG
39100041 TAATACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
37 15 0.33
40 3 0.07
41 27 0.60
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.21
Consensus pattern (37 bp):
ACATACATAACAGACATACATAGCAGACATAATAATA
Found at i:39100189 original size:30 final size:30
Alignment explanation
Indices: 39100154--39100218 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
39100144 CAACAAAAAC
* *
39100154 AAAAA-TTAGAAGTCAGATATAATACGAATA
1 AAAAATTTA-AAGTCAAATATAATACGAACA
*
39100184 AAAAATTTAAAGTCAAATATAATATGAACA
1 AAAAATTTAAAGTCAAATATAATACGAACA
39100214 AAAAA
1 AAAAA
39100219 AAGTTTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (30 bp):
AAAAATTTAAAGTCAAATATAATACGAACA
Found at i:39101510 original size:9 final size:9
Alignment explanation
Indices: 39101496--39101528 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
39101486 GTTTAGGGAC
39101496 TAAATTAAA
1 TAAATTAAA
39101505 TAAATTAAA
1 TAAATTAAA
*
39101514 TCAATTAAA
1 TAAATTAAA
39101523 TAAATT
1 TAAATT
39101529 GTAAAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAATTAAA
Found at i:39102300 original size:19 final size:19
Alignment explanation
Indices: 39102273--39102316 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
39102263 TAAACATGAG
* *
39102273 AATTGATAAATTATATCT-A
1 AATTTATAAATGATAT-TGA
39102292 AATTTATAAATGATATTGA
1 AATTTATAAATGATATTGA
39102311 AATTTA
1 AATTTA
39102317 ATATGTGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (19 bp):
AATTTATAAATGATATTGA
Found at i:39105820 original size:14 final size:14
Alignment explanation
Indices: 39105801--39105827 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39105791 AAAATATCCA
39105801 TAATTACACATATT
1 TAATTACACATATT
39105815 TAATTACACATAT
1 TAATTACACATAT
39105828 CCTATGTTTA
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:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTACACATATT
Found at i:39109273 original size:37 final size:37
Alignment explanation
Indices: 39109222--39109292 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
39109212 TCATTTTGAA
39109222 CATTTTCATACACATATCAAATAACCATATACTTAAT
1 CATTTTCATACACATATCAAATAACCATATACTTAAT
*
39109259 CATTTTCATTCACATATCAAATAACCATATACTT
1 CATTTTCATACACATATCAAATAACCATATACTT
39109293 GTAATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.37
Consensus pattern (37 bp):
CATTTTCATACACATATCAAATAACCATATACTTAAT
Found at i:39111804 original size:23 final size:22
Alignment explanation
Indices: 39111766--39111819 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
39111756 TTTTCTTGTA
* *
39111766 TGTTTATTTCCTGTTTTCATTT
1 TGTTTATTTTCGGTTTTCATTT
*
39111788 TAGTTTATTTTCGGTTTTTATTT
1 T-GTTTATTTTCGGTTTTCATTT
39111811 T-TTTATTTT
1 TGTTTATTTT
39111820 TAGTTTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 1 0.04
23 19 0.68
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.72
Consensus pattern (22 bp):
TGTTTATTTTCGGTTTTCATTT
Found at i:39116269 original size:21 final size:21
Alignment explanation
Indices: 39116242--39116291 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
39116232 GCGTATAGGT
*
39116242 TAGCCACACGGGAGTGTGGGA
1 TAGCCACACGAGAGTGTGGGA
* * *
39116263 TATCCACACGAGCGTGTGGGG
1 TAGCCACACGAGAGTGTGGGA
39116284 TAGCCACA
1 TAGCCACA
39116292 TGGGCTGGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (21 bp):
TAGCCACACGAGAGTGTGGGA
Found at i:39119710 original size:125 final size:126
Alignment explanation
Indices: 39119464--39119731 Score: 355
Period size: 125 Copynumber: 2.1 Consensus size: 126
39119454 TGTCAAATAA
* * *
39119464 GAACTACTGTAGAAAAAGAGCATCCACGTGGAAGCTTGTTTCATCAATTTTACTGACAGTGCCTC
1 GAACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTGTTTCATCAATTTTACTGACAGCGCATC
39119529 CTGCTTGAAGCGTTTTTGACACATTTGTTCAGAACCCTCTTCTCAAAATTATTTTTT-CAG
66 CTGCTTGAAGCGTTTTTGACACATTTGTTCAGAACCCTCTTCTCAAAATTATTTTTTCCAG
* * * *
39119589 GAACTACTATAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGT-AATTTTACTGACAGCGCAT
1 GAACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTGTTTCA-TCAATTTTACTGACAGCGCAT
* * * * * *
39119653 TCTGGTTGAAGCGTTTTTTACATTATCTT-TTTAGAACCGTCTTCTCAAAATTA-TTTTTCCAG
65 CCTGCTTGAAGCGTTTTTGACA-CAT-TTGTTCAGAACCCTCTTCTCAAAATTATTTTTTCCAG
*
39119715 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
39119732 AAGACAAAAG
Statistics
Matches: 124, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
125 79 0.64
126 43 0.35
127 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTGTTTCATCAATTTTACTGACAGCGCATC
CTGCTTGAAGCGTTTTTGACACATTTGTTCAGAACCCTCTTCTCAAAATTATTTTTTCCAG
Found at i:39119829 original size:30 final size:30
Alignment explanation
Indices: 39119793--39119849 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
39119783 AAAATTATTT
39119793 TTAAAAAAACTAAACCATAATTTAATTTTC
1 TTAAAAAAACTAAACCATAATTTAATTTTC
** *
39119823 TTAAAAACCCTAAACCCTAATTTAATT
1 TTAAAAAAACTAAACCATAATTTAATT
39119850 AATTTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (30 bp):
TTAAAAAAACTAAACCATAATTTAATTTTC
Found at i:39119861 original size:34 final size:33
Alignment explanation
Indices: 39119790--39119904 Score: 114
Period size: 33 Copynumber: 3.6 Consensus size: 33
39119780 TACAAAATTA
** *
39119790 TTTTTAAAAAAACTAAACCATAATTTAA-T--T
1 TTTTTAAAAACCCTAAACCCTAATTTAATTAAT
*
39119820 TTCTTAAAAACCCTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACCCTAAACCCTAATTTAATTAAT
* *
39119853 TTATTT-AAAACCCCAAAACCTAATTTAATT-AT
1 TT-TTTAAAAACCCTAAACCCTAATTTAATTAAT
*
39119885 TTTTAAAAAAACCCTAAACC
1 TTTT-TAAAAACCCTAAACC
39119905 TTAAACCTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
30 24 0.35
31 3 0.04
32 4 0.06
33 36 0.52
34 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (33 bp):
TTTTTAAAAACCCTAAACCCTAATTTAATTAAT
Found at i:39122260 original size:10 final size:10
Alignment explanation
Indices: 39122245--39122306 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
39122235 TTTGAACCAT
*
39122245 TACCAATTCG
1 TACCAATTCA
*
39122255 TACCAAATACCA
1 TACC-AAT-TCA
*
39122267 TACCATTTCA
1 TACCAATTCA
39122277 TACCAATTCCA
1 TACCAATT-CA
* *
39122288 TACCATTTCG
1 TACCAATTCA
39122298 TACCAATTC
1 TACCAATTC
39122307 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:39122290 original size:21 final size:21
Alignment explanation
Indices: 39122245--39122307 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
39122235 TTTGAACCAT
* *
39122245 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
39122267 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
39122288 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
39122308 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:39122633 original size:22 final size:22
Alignment explanation
Indices: 39122606--39122660 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
39122596 ATAGGTACGT
39122606 AAAAAAAGAGTTCGAAAAAAAAAG
1 AAAAAAA-A-TTCGAAAAAAAAAG
* *
39122630 AAAAAAAATTTGAAAAAAAATTG
1 AAAAAAAATTCGAAAAAAAA-AG
39122653 AAAAAAAA
1 AAAAAAAA
39122661 ATTGCATACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.39
23 10 0.36
24 7 0.25
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAAAAATTCGAAAAAAAAAG
Found at i:39122644 original size:12 final size:11
Alignment explanation
Indices: 39122619--39122660 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
39122609 AAAAGAGTTC
*
39122619 GAAAAAAAA-A
1 GAAAAAAAATT
39122629 GAAAAAAAATTT
1 GAAAAAAAA-TT
39122641 GAAAAAAAATT
1 GAAAAAAAATT
39122652 GAAAAAAAA
1 GAAAAAAAA
39122661 ATTGCATACG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 9 0.31
11 11 0.38
12 9 0.31
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (11 bp):
GAAAAAAAATT
Found at i:39122661 original size:12 final size:12
Alignment explanation
Indices: 39122619--39122664 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
39122609 AAAAGAGTTC
39122619 GAAAAAAAAA--
1 GAAAAAAAAATT
*
39122629 GAAAAAAAATTT
1 GAAAAAAAAATT
39122641 G-AAAAAAAATT
1 GAAAAAAAAATT
39122652 GAAAAAAAAATT
1 GAAAAAAAAATT
39122664 G
1 G
39122665 CATACGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.29
11 10 0.32
12 12 0.39
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:39123447 original size:15 final size:15
Alignment explanation
Indices: 39123415--39123448 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
39123405 GTTCAACGAA
*
39123415 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
39123430 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
39123445 GAGG
1 GAGG
39123449 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:39127115 original size:10 final size:10
Alignment explanation
Indices: 39127100--39127161 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
39127090 TTTGAACCAT
*
39127100 TACCAATTCG
1 TACCAATTCA
*
39127110 TACCAAATACCA
1 TACC-AAT-TCA
*
39127122 TACCATTTCA
1 TACCAATTCA
39127132 TACCAATTCCA
1 TACCAATT-CA
* *
39127143 TACCATTTCG
1 TACCAATTCA
39127153 TACCAATTC
1 TACCAATTC
39127162 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:39127145 original size:21 final size:21
Alignment explanation
Indices: 39127100--39127162 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
39127090 TTTGAACCAT
* *
39127100 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
39127122 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
39127143 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
39127163 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:39127489 original size:23 final size:24
Alignment explanation
Indices: 39127461--39127518 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
39127451 ATAGGTACGT
39127461 AAAAAAAAGAGTTCGAAAAAAAAAT-
1 AAAAAAAA-A-TTCGAAAAAAAAATG
* *
39127486 AAAAAAAAATTTGAAAAAAAATTG
1 AAAAAAAAATTCGAAAAAAAAATG
39127510 AAAAAAAAA
1 AAAAAAAAA
39127519 ATTTGCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 12 0.40
24 10 0.33
25 8 0.27
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.14
Consensus pattern (24 bp):
AAAAAAAAATTCGAAAAAAAAATG
Found at i:39127502 original size:12 final size:11
Alignment explanation
Indices: 39127475--39127517 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
39127465 AAAAGAGTTC
*
39127475 GAAAAAAAAAT
1 GAAAAAAAATT
*
39127486 AAAAAAAAATTT
1 GAAAAAAAA-TT
39127498 GAAAAAAAATT
1 GAAAAAAAATT
39127509 GAAAAAAAA
1 GAAAAAAAA
39127518 AATTTGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (11 bp):
GAAAAAAAATT
Found at i:39127518 original size:12 final size:13
Alignment explanation
Indices: 39127461--39127518 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
39127451 ATAGGTACGT
39127461 AAAAAAAAGAGTTCG
1 AAAAAAAA-AGTT-G
39127476 AAAAAAAAA--T-
1 AAAAAAAAAGTTG
*
39127486 AAAAAAAAATTTG
1 AAAAAAAAAGTTG
39127499 -AAAAAAAA-TTG
1 AAAAAAAAAGTTG
39127510 AAAAAAAAA
1 AAAAAAAAA
39127519 ATTTGCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.23
11 3 0.08
12 18 0.46
14 1 0.03
15 8 0.21
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.14
Consensus pattern (13 bp):
AAAAAAAAAGTTG
Found at i:39127518 original size:25 final size:24
Alignment explanation
Indices: 39127460--39127523 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
39127450 AATAGGTACG
* *
39127460 TAAAAAAAAGAGTTCGAAAAAAAAA
1 TAAAAAAAA-AATTTGAAAAAAAAA
*
39127485 T-AAAAAAAAATTTGAAAAAAAAT
1 TAAAAAAAAAATTTGAAAAAAAAA
39127508 TGAAAAAAAAAATTTG
1 T-AAAAAAAAAATTTG
39127524 CAAACTAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.38
24 7 0.21
25 14 0.41
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (24 bp):
TAAAAAAAAAATTTGAAAAAAAAA
Found at i:39130753 original size:72 final size:72
Alignment explanation
Indices: 39130623--39130756 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
39130613 TAATCCATGG
* * *
39130623 TATGATGGTATAACACTATGATGCAATGTTTATTGAAAGATAATGTTACATTGGCATTTTGATAG
1 TATGATGGTATAACACTATGATGCAATGTTTAATGAAAGATAATATTACATTGACATTTTGATAG
39130688 TATTTGA
66 TATTTGA
* * * *
39130695 TATGATTGTATGACACTGTGATGCAATGTTTAATGAAAGATAATATTACTTTGACATTTTGA
1 TATGATGGTATAACACTATGATGCAATGTTTAATGAAAGATAATATTACATTGACATTTTGA
39130757 AAAAACTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (72 bp):
TATGATGGTATAACACTATGATGCAATGTTTAATGAAAGATAATATTACATTGACATTTTGATAG
TATTTGA
Found at i:39144993 original size:19 final size:20
Alignment explanation
Indices: 39144954--39144992 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
39144944 ATTGTAGAAT
39144954 TTTATTTCTACTAGAAAAAA
1 TTTATTTCTACTAGAAAAAA
39144974 TTTATTTCTACTAGAAAAA
1 TTTATTTCTACTAGAAAAA
39144993 TGAACTCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTATTTCTACTAGAAAAAA
Found at i:39147553 original size:14 final size:14
Alignment explanation
Indices: 39147534--39147563 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39147524 TGATTGATTT
39147534 TAATCTAAATTAAC
1 TAATCTAAATTAAC
*
39147548 TAATCTAATTTAAC
1 TAATCTAAATTAAC
39147562 TA
1 TA
39147564 CAAACGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:39151824 original size:27 final size:26
Alignment explanation
Indices: 39151780--39151849 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
39151770 AAAGAAACTA
*
39151780 AAAATAAAATAAACAAATAAACAAAAT
1 AAAATAAAATAAAGAAATAAA-AAAAT
* *
39151807 AATAA-AAGATAAAGAAATAAAGAAAT
1 AA-AATAAAATAAAGAAATAAAAAAAT
39151833 AAAATAAAATAAAGAAA
1 AAAATAAAATAAAGAAA
39151850 AGGAAAGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.05
26 17 0.46
27 16 0.43
28 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (26 bp):
AAAATAAAATAAAGAAATAAAAAAAT
Found at i:39158552 original size:20 final size:19
Alignment explanation
Indices: 39158512--39158560 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
39158502 GAAAAATTAG
*
39158512 AAAACAAAAAATGAAGCTA
1 AAAACAAAAAATAAAGCTA
39158531 AAAACAAAAAA-AAAGCAATA
1 AAAACAAAAAATAAAGC--TA
*
39158551 AAAATAAAAA
1 AAAACAAAAA
39158561 TGGCTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (19 bp):
AAAACAAAAAATAAAGCTA
Found at i:39158803 original size:14 final size:14
Alignment explanation
Indices: 39158784--39158813 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39158774 TGATTATTTT
39158784 TAATCTAAATTAAC
1 TAATCTAAATTAAC
*
39158798 TAATCTAATTTAAC
1 TAATCTAAATTAAC
39158812 TA
1 TA
39158814 CGAACGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:39168462 original size:34 final size:34
Alignment explanation
Indices: 39168421--39168518 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 34
39168411 ATACTTTTTA
**
39168421 TTATTACAACTTTGCCTTCAAGGCAAGCTTTGTT
1 TTATTACAACTTTAACTTCAAGGCAAGCTTTGTT
*
39168455 TTATTACAACTTTAACTTCAAGGTTAA-CTTTGTT
1 TTATTACAACTTTAACTTCAAGG-CAAGCTTTGTT
* * * *
39168489 CTATTACAGCTTTATCTTCAAGGCGAGCTT
1 TTATTACAACTTTAACTTCAAGGCAAGCTT
39168519 AAATTATCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 51 0.94
35 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (34 bp):
TTATTACAACTTTAACTTCAAGGCAAGCTTTGTT
Found at i:39170311 original size:35 final size:35
Alignment explanation
Indices: 39170265--39170350 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 35
39170255 GTTCTATTAC
*
39170265 AGCTTTGCCTTCAAGGTAAGCTCAGATTATCAAAA
1 AGCTTTGCCTTCAAGGTAAGCTCAGATTATAAAAA
* *
39170300 AGCTTTGCCTTCAATGTAAGCTCGGATTATAAAAA
1 AGCTTTGCCTTCAAGGTAAGCTCAGATTATAAAAA
*
39170335 ATCTTTGCCTTCAAGG
1 AGCTTTGCCTTCAAGG
39170351 CGAGCTTCGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (35 bp):
AGCTTTGCCTTCAAGGTAAGCTCAGATTATAAAAA
Found at i:39170425 original size:104 final size:104
Alignment explanation
Indices: 39170238--39170425 Score: 250
Period size: 104 Copynumber: 1.8 Consensus size: 104
39170228 GTTAGATCAA
* * * *
39170238 CCTTCAAGGCAAGCTTCGTTCTATTACAGCTTTGCCTTCAAGGTAAGCTCAGATTATCAAAAAGC
1 CCTTCAAGGCAAGCTTCGTTCTATGACAACTCTACCTTCAAGGTAAGCTCAGATTATCAAAAAGC
***
39170303 TTTGCCTTCAATGTAAGCTCGGATTATAAAAAATCTTTG
66 TTTGCCTTCAAAACAAGCTCGGATTATAAAAAATCTTTG
* * * ** *
39170342 CCTTCAAGGCGAGCTTCGTTTTATGACAACTCTACCTTCAAGGTGAGCTTGGTTTATCAAAAAGC
1 CCTTCAAGGCAAGCTTCGTTCTATGACAACTCTACCTTCAAGGTAAGCTCAGATTATCAAAAAGC
*
39170407 TTTGCCTTTAAAACAAGCT
66 TTTGCCTTCAAAACAAGCT
39170426 TCATTTTATT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 70 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (104 bp):
CCTTCAAGGCAAGCTTCGTTCTATGACAACTCTACCTTCAAGGTAAGCTCAGATTATCAAAAAGC
TTTGCCTTCAAAACAAGCTCGGATTATAAAAAATCTTTG
Found at i:39214572 original size:40 final size:40
Alignment explanation
Indices: 39214517--39214895 Score: 656
Period size: 40 Copynumber: 9.6 Consensus size: 40
39214507 GCATGAGCAA
* *
39214517 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
39214557 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
39214597 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
39214637 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
39214677 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
39214717 TTGATATAT-CGGGCTAA-ACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
39214755 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
39214795 TTGATATATCCGGGCTAAGACCCGAAGGCAATT-TGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
39214834 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
39214874 TTGCTATACCCGGGTTAAGACC
1 TTGATATATCCGGGCTAAGACC
39214896 GAGGCAATTG
Statistics
Matches: 325, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
38 30 0.09
39 52 0.16
40 243 0.75
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Done.