Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 161 of 187
Found at i:47530916 original size:18 final size:18
Alignment explanation
Indices: 47530895--47530932 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47530885 TAAAAAAATA
47530895 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAG-ATTTT
*
47530913 TATAAATATTTTGATTTT
1 TATAAATATTTAGATTTT
47530931 TA
1 TA
47530933 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TATAAATATTTAGATTTT
Found at i:47536900 original size:21 final size:21
Alignment explanation
Indices: 47536876--47536915 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47536866 AGTTTGATAA
47536876 ATTGAAATTTT-AAAATTAATT
1 ATTG-AATTTTCAAAATTAATT
*
47536897 ATTGAATTTTCAATATTAA
1 ATTGAATTTTCAAAATTAA
47536916 ATTTGATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTGAATTTTCAAAATTAATT
Found at i:47538022 original size:24 final size:24
Alignment explanation
Indices: 47537988--47538033 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47537978 TATATGAAAT
* *
47537988 ATAAATTTTAAATATTTTTAAGTA
1 ATAAATATTAAATATTTATAAGTA
*
47538012 ATAAATATTAATTATTTATAAG
1 ATAAATATTAAATATTTATAAG
47538034 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAGTA
Found at i:47542256 original size:20 final size:21
Alignment explanation
Indices: 47542231--47542286 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
47542221 ATGCCCTAGG
47542231 ATGCACTTCATGTGCCA-GAT
1 ATGCACTTCATGTGCCAGGAT
* **
47542251 ATGCACTACATGCACCAGGAT
1 ATGCACTTCATGTGCCAGGAT
47542272 A--CACTTCATGTGCCA
1 ATGCACTTCATGTGCCA
47542287 AGATGTACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 11 0.38
20 14 0.48
21 4 0.14
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (21 bp):
ATGCACTTCATGTGCCAGGAT
Found at i:47542319 original size:17 final size:19
Alignment explanation
Indices: 47542280--47542319 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47542270 ATACACTTCA
47542280 TGTGCCAAGATGTACTATG
1 TGTGCCAAGATGTACTATG
*
47542299 TGTGCC-AGTATGTACTTTG
1 TGTGCCAAG-ATGTACTATG
47542318 TG
1 TG
47542320 CACTAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (19 bp):
TGTGCCAAGATGTACTATG
Found at i:47544113 original size:19 final size:20
Alignment explanation
Indices: 47544089--47544138 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
47544079 ATGTTAGATA
*
47544089 ATTAATTAAG-AAAAGTATG
1 ATTAATTAAGAAAAAATATG
47544108 ATTAATTAAGATAAAAATATG
1 ATTAATTAAGA-AAAAATATG
47544129 ATTAATTAAG
1 ATTAATTAAG
47544139 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 10 0.36
21 18 0.64
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (20 bp):
ATTAATTAAGAAAAAATATG
Found at i:47550561 original size:36 final size:35
Alignment explanation
Indices: 47550499--47550566 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
47550489 ATTTTCAGTG
* *
47550499 AGTTTTAAAGAGTTTTTATGATAATAATATTCTCTT
1 AGTTTTAAAGAGTTTGTATGAGAATAAT-TTCTCTT
* *
47550535 AGTTTTAAAGAGTTTGTGTGGGAATAATTTCT
1 AGTTTTAAAGAGTTTGTATGAGAATAATTTCT
47550567 ACTTTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 24 0.86
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (35 bp):
AGTTTTAAAGAGTTTGTATGAGAATAATTTCTCTT
Found at i:47553421 original size:6 final size:6
Alignment explanation
Indices: 47553410--47553443 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
47553400 TTGGTGTAGC
*
47553410 GACAGG GACAGG GGCAGG GACAGG GACAGG GACA
1 GACAGG GACAGG GACAGG GACAGG GACAGG GACA
47553444 AAGCAACATG
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:0.32, C:0.18, G:0.50, T:0.00
Consensus pattern (6 bp):
GACAGG
Found at i:47557143 original size:17 final size:18
Alignment explanation
Indices: 47557117--47557157 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
47557107 TTCAATTAAG
*
47557117 TTAA-TTTTAAAGTT-TT
1 TTAATTTTTAAAATTATT
47557133 TTAATTTTTAAAATTATT
1 TTAATTTTTAAAATTATT
47557151 TT-ATTTT
1 TTAATTTT
47557158 GTTGATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTAATTTTTAAAATTATT
Found at i:47561401 original size:31 final size:31
Alignment explanation
Indices: 47561364--47561422 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
47561354 AACGATCACT
47561364 AACTATTCAAAAGTTTTCATTTAAGTCATTA
1 AACTATTCAAAAGTTTTCATTTAAGTCATTA
** *
47561395 AACTATTTGAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAGTTTTCATTTAAGTCA
47561423 CTAGGCTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCATTA
Found at i:47573641 original size:30 final size:30
Alignment explanation
Indices: 47573600--47573662 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
47573590 TCAATAATTT
*
47573600 AATTGATTGTTTATATTAGATT-AAAGACTC
1 AATTAATTGTTTATATTAGATTAAAAG-CTC
*
47573630 AATTAATTGTTTATATTCGATTAAAAGCTC
1 AATTAATTGTTTATATTAGATTAAAAGCTC
47573660 AAT
1 AAT
47573663 CGATGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (30 bp):
AATTAATTGTTTATATTAGATTAAAAGCTC
Found at i:47574042 original size:14 final size:16
Alignment explanation
Indices: 47574019--47574058 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
47574009 GTTTCCAAAA
47574019 TTTATTTTTTCTCT-C
1 TTTATTTTTTCTCTCC
*
47574034 TTT-TTTTTTCTTTCC
1 TTTATTTTTTCTCTCC
47574049 TTTATTTTTT
1 TTTATTTTTT
47574059 TCCACCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 6 0.27
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTTTCTCTCC
Found at i:47582021 original size:50 final size:50
Alignment explanation
Indices: 47581967--47582098 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
47581957 CATTTAGGTT
* * * *
47581967 ATGAGAGGCCCCATGTAAGACCACGTCTGGGACTTGGCGTTGGCACCGAG
1 ATGAGAGGCCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* *
47582017 ATGAGAGGTCCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGG-CCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** *
47582067 ATGA-AAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGC-CCCATGTAAGACCATGTCTGGGA
47582099 TATGACATTG
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 4 0.06
50 60 0.87
51 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.19
Consensus pattern (50 bp):
ATGAGAGGCCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:47600724 original size:7 final size:7
Alignment explanation
Indices: 47600712--47600743 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
47600702 CTTTCATATT
47600712 TTCTTTG
1 TTCTTTG
47600719 TTCTTTG
1 TTCTTTG
47600726 TTCTTTG
1 TTCTTTG
*
47600733 TTCTTTA
1 TTCTTTG
47600740 TTCT
1 TTCT
47600744 CTTCATCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.16, G:0.09, T:0.72
Consensus pattern (7 bp):
TTCTTTG
Found at i:47600867 original size:14 final size:14
Alignment explanation
Indices: 47600848--47600875 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47600838 GAGCATTAAT
47600848 TTAAAGAGATTTTA
1 TTAAAGAGATTTTA
47600862 TTAAAGAGATTTTA
1 TTAAAGAGATTTTA
47600876 ATTTTCCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAAAGAGATTTTA
Found at i:47600979 original size:11 final size:11
Alignment explanation
Indices: 47600963--47600992 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
47600953 ATACTATCAA
47600963 TTTCTCTTCTT
1 TTTCTCTTCTT
47600974 TTTCTC-TCTT
1 TTTCTCTTCTT
47600984 TTTCTCTTC
1 TTTCTCTTC
47600993 CTCCCTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTCTCTTCTT
Found at i:47603920 original size:18 final size:19
Alignment explanation
Indices: 47603897--47603946 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
47603887 GAGTTAAACT
*
47603897 CACCACCGCCGCC-GCCGC
1 CACCACCGCCGCCAACCGC
*
47603915 CACCACCACC-CCAACCGC
1 CACCACCGCCGCCAACCGC
*
47603933 CACCACTGCCGCCA
1 CACCACCGCCGCCA
47603947 CTGATACCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 21 0.81
19 3 0.12
ACGTcount: A:0.20, C:0.64, G:0.14, T:0.02
Consensus pattern (19 bp):
CACCACCGCCGCCAACCGC
Found at i:47611843 original size:17 final size:17
Alignment explanation
Indices: 47611813--47611846 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47611803 AAAAAGTTAT
* *
47611813 TAAATTTTATAAAAAAA
1 TAAATGTTAGAAAAAAA
47611830 TAAATGTTAGAAAAAAA
1 TAAATGTTAGAAAAAAA
47611847 AATTATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAATGTTAGAAAAAAA
Found at i:47611927 original size:30 final size:30
Alignment explanation
Indices: 47611870--47611927 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
47611860 GTAAAAGAAA
* **
47611870 ATAAAAAAATTGCAAAATTTATAAAAAATC
1 ATAAAAAAATTACAAAATGCATAAAAAATC
* *
47611900 ATAAAAAAATTATAAAATGCATCAAAAA
1 ATAAAAAAATTACAAAATGCATAAAAAA
47611928 GACCTACAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.24
Consensus pattern (30 bp):
ATAAAAAAATTACAAAATGCATAAAAAATC
Found at i:47612134 original size:11 final size:10
Alignment explanation
Indices: 47612099--47612183 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 10
47612089 GGTATGATAC
47612099 TTTTTATAAT
1 TTTTTATAAT
*
47612109 TTTTTTTACGA-
1 TTTTTATA--AT
47612120 TTTTTATAACT
1 TTTTTATAA-T
*
47612131 TTTTTCTAA-
1 TTTTTATAAT
47612140 TTTTTA-AAT
1 TTTTTATAAT
47612149 ATTTTTAT-AT
1 -TTTTTATAAT
*
47612159 TTTTTACTAAA
1 TTTTTA-TAAT
* *
47612170 ATTTAATAAT
1 TTTTTATAAT
47612180 TTTT
1 TTTT
47612184 AGATTGTAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.04
9 12 0.21
10 22 0.39
11 20 0.35
12 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:47612144 original size:21 final size:20
Alignment explanation
Indices: 47612099--47612154 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
47612089 GGTATGATAC
*
47612099 TTTTTATAATTTTTTTTACGA
1 TTTTTATAATTTTTTCTAC-A
47612120 TTTTTATAACTTTTTTCTA-A
1 TTTTTATAA-TTTTTTCTACA
47612140 TTTTTA-AATATTTTT
1 TTTTTATAAT-TTTTT
47612155 ATATTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.03
19 7 0.22
20 7 0.22
21 9 0.28
22 8 0.25
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTATAATTTTTTCTACA
Found at i:47612174 original size:29 final size:30
Alignment explanation
Indices: 47612119--47612184 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
47612109 TTTTTTTACG
**
47612119 ATTTTTATAACTTTTTTCTAATTTTTAA-A
1 ATTTTTATAACTTTTTTCTAAAATTTAATA
47612148 TATTTTTAT-A-TTTTTTACTAAAATTTAATA
1 -ATTTTTATAACTTTTTT-CTAAAATTTAATA
47612178 ATTTTTA
1 ATTTTTA
47612185 GATTGTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 6 0.19
29 17 0.53
30 9 0.28
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTTTATAACTTTTTTCTAAAATTTAATA
Found at i:47614184 original size:91 final size:92
Alignment explanation
Indices: 47614044--47614211 Score: 268
Period size: 91 Copynumber: 1.8 Consensus size: 92
47614034 TTTTGTTGCG
* * * *
47614044 TAGTATGCTTTTCACCTAAAATCGTGATTGTGTTATAAATTGAAATACTAAATGTATTTACAAAC
1 TAGTATGCTTTTCACCCAAAATCATGATTGTGTTATAAATTGAAATACTAAATGCAATTACAAAC
47614109 AATTACACTCAATTTTTTTTTATTTCA
66 AATTACACTCAATTTTTTTTTATTTCA
*
47614136 TAGTATG-TTTTCACCCAAAATCATGATTGT-TCTATAAATTGAAATACTAAGTGCAATTACAAA
1 TAGTATGCTTTTCACCCAAAATCATGATTGTGT-TATAAATTGAAATACTAAATGCAATTACAAA
47614199 CAATTACACTCAA
65 CAATTACACTCAA
47614212 ATTTAATTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 1 0.01
91 62 0.89
92 7 0.10
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (92 bp):
TAGTATGCTTTTCACCCAAAATCATGATTGTGTTATAAATTGAAATACTAAATGCAATTACAAAC
AATTACACTCAATTTTTTTTTATTTCA
Found at i:47621947 original size:2 final size:2
Alignment explanation
Indices: 47621942--47621971 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
47621932 ATAAATTTTA
47621942 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47621972 CTAAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47622736 original size:26 final size:27
Alignment explanation
Indices: 47622683--47622737 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
47622673 AAATAAAATA
* * *
47622683 AAAAACTTAAAAATATGTTTGGTAATT
1 AAAAACTTAAAAATATATATGCTAATT
*
47622710 AAAAACTTAAAAATA-ATATGCTTATT
1 AAAAACTTAAAAATATATATGCTAATT
47622736 AA
1 AA
47622738 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (27 bp):
AAAAACTTAAAAATATATATGCTAATT
Found at i:47641583 original size:13 final size:13
Alignment explanation
Indices: 47641567--47641596 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
47641557 ATTGTCATGT
47641567 AATTGTTTTTCTG
1 AATTGTTTTTCTG
47641580 AATTGTTTTTCTG
1 AATTGTTTTTCTG
47641593 AATT
1 AATT
47641597 TAGCTTTTAA
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:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:47642383 original size:16 final size:16
Alignment explanation
Indices: 47642362--47642403 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47642352 TTATTAAATT
*
47642362 ATATATTTTAATTATA
1 ATATATTTTAATAATA
47642378 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
47642393 AT-TATGTTTAA
1 ATATAT-TTTAA
47642404 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:47642388 original size:15 final size:15
Alignment explanation
Indices: 47642353--47642394 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47642343 TTAAGAATTT
*
47642353 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47642367 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47642381 TATTTAATAATAAT
1 TATTTAATTATAAT
47642395 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:47642481 original size:140 final size:139
Alignment explanation
Indices: 47642337--47642588 Score: 468
Period size: 140 Copynumber: 1.8 Consensus size: 139
47642327 ATAAGAATAT
*
47642337 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
47642402 AAATATGATTAAATTATTTATTATTGGATATTAATAATCTTATTAAAAAAATAATTTACCAAAAC
66 AAATATGATTAAAATATTTATTATT-GATAATAATAATCTTATTAAAAAAATAATTTACCAAAAC
47642467 AAATTTCTAG
130 AAATTTCTAG
47642477 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
47642542 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAA
47642589 TTTAAATAAC
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
139 21 0.19
140 88 0.81
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (139 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAAAAATAATTTACCAAAACA
AATTTCTAG
Found at i:47642517 original size:18 final size:17
Alignment explanation
Indices: 47642489--47642523 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47642479 ATTATTAAGA
*
47642489 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47642506 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47642524 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:47642780 original size:16 final size:16
Alignment explanation
Indices: 47642759--47642794 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47642749 GATTTGCTAT
47642759 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47642775 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47642791 TACA
1 TACA
47642795 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
Found at i:47661677 original size:28 final size:29
Alignment explanation
Indices: 47661634--47661691 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
47661624 TTCCTTATTA
*
47661634 TTTAAGTAAATAGATATTTATTATTTAAT
1 TTTAAGTAAATAGATATTTATTAATTAAT
47661663 TTTAAGTAAA-AGATATTTATTAATTAAT
1 TTTAAGTAAATAGATATTTATTAATTAAT
47661691 T
1 T
47661692 AATTATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTAAGTAAATAGATATTTATTAATTAAT
Found at i:47663287 original size:46 final size:45
Alignment explanation
Indices: 47663212--47663300 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 45
47663202 TATTTATAAG
* * *
47663212 TATATACATGTATATAGATATGTGTAAAAAATATAAAATATAAATA
1 TATATACATATATATAGATACGTGCAAAAAA-ATAAAATATAAATA
* * *
47663258 TATATATATATATATAGGTACGTGCAAAAAAATAAATTATAAA
1 TATATACATATATATAGATACGTGCAAAAAAATAAAATATAAA
47663301 ACATACACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 11 0.30
46 26 0.70
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (45 bp):
TATATACATATATATAGATACGTGCAAAAAAATAAAATATAAATA
Found at i:47663438 original size:5 final size:5
Alignment explanation
Indices: 47663428--47663453 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47663418 TTATGAAGAA
47663428 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
47663454 TATTTATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47665102 original size:116 final size:116
Alignment explanation
Indices: 47664898--47665116 Score: 348
Period size: 116 Copynumber: 1.9 Consensus size: 116
47664888 CGTGGTTTTA
* * * *
47664898 ATCTGCTTCGCTACTGCCTAGGGAGATAAGATTTACAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCCTAGGGAGATAAGATTTACAATCTTCAACCTACTCCACTGCTACTCAA
*
47664963 GGAGATAAGACTAGTGACTTAAATCTGCTTCCTACTATTTGGGCGTATTCG
66 GGAGATAAGACTAGTGACTTAAATCTACTTCCTACTATTTGGGCGTATTCG
* * *
47665014 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAACCTACTCCACTGCTACTCAA
1 ATCTGCTCCACTACTGCCTAGGGAGATAAGATTTACAATCTTCAACCTACTCCACTGCTACTCAA
* *
47665079 GGAGATAGGACTAGTGGCTTAAATCTACTTCCTACTAT
66 GGAGATAAGACTAGTGACTTAAATCTACTTCCTACTAT
47665117 CTCGGAAAGA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 93 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (116 bp):
ATCTGCTCCACTACTGCCTAGGGAGATAAGATTTACAATCTTCAACCTACTCCACTGCTACTCAA
GGAGATAAGACTAGTGACTTAAATCTACTTCCTACTATTTGGGCGTATTCG
Found at i:47671023 original size:23 final size:21
Alignment explanation
Indices: 47670997--47671039 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
47670987 AAGTACGTAT
*
47670997 ATATATAACAAAATCTAGAAA
1 ATATATAACAAAATCTAAAAA
47671018 ATATATAACAAAATCTAAAAA
1 ATATATAACAAAATCTAAAAA
47671039 A
1 A
47671040 GGGTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
ATATATAACAAAATCTAAAAA
Found at i:47674729 original size:29 final size:29
Alignment explanation
Indices: 47674684--47674749 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
47674674 ATGGGTTTAA
47674684 ATTAATTATTATTTAAGTAAATAGATATTT
1 ATTAATTATTATTTAAGTAAA-AGATATTT
* *
47674714 ATTATTTATT-TTTAAGTAAAATATATTT
1 ATTAATTATTATTTAAGTAAAAGATATTT
*
47674742 CTTAATTA
1 ATTAATTA
47674750 AATAATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.41
29 10 0.31
30 9 0.28
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (29 bp):
ATTAATTATTATTTAAGTAAAAGATATTT
Found at i:47680704 original size:17 final size:17
Alignment explanation
Indices: 47680684--47680716 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47680674 TTTAAAATAC
47680684 TTTTAAAATATTTTTAT
1 TTTTAAAATATTTTTAT
47680701 TTTTAAAATATTTTTA
1 TTTTAAAATATTTTTA
47680717 ACGTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAAATATTTTTAT
Found at i:47680704 original size:28 final size:28
Alignment explanation
Indices: 47680664--47680717 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
47680654 TTTTTATCTT
47680664 TATTTTTAATTTTAAAATACTTTTAAAA
1 TATTTTTAATTTTAAAATACTTTTAAAA
* *
47680692 TATTTTTATTTTTAAAATATTTTTAA
1 TATTTTTAATTTTAAAATACTTTTAA
47680718 CGTTTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTTTTAATTTTAAAATACTTTTAAAA
Found at i:47691270 original size:19 final size:20
Alignment explanation
Indices: 47691233--47691275 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
47691223 AAAAATGAAA
47691233 ATTTAGAATTTTTATAAA-T
1 ATTTAGAATTTTTATAAATT
47691252 ATTTAGAATTTTT-TAAAATT
1 ATTTAGAATTTTTAT-AAATT
47691272 ATTT
1 ATTT
47691276 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTTAGAATTTTTATAAATT
Found at i:47691634 original size:2 final size:2
Alignment explanation
Indices: 47691627--47691669 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47691617 AACTATCTCA
47691627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47691669 A
1 A
47691670 AATTGAACGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47696845 original size:2 final size:2
Alignment explanation
Indices: 47696829--47696867 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
47696819 CTTTAAATTA
*
47696829 AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47696868 ATAAGGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:47703238 original size:21 final size:22
Alignment explanation
Indices: 47703212--47703258 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47703202 CTCTGCTCAA
*
47703212 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
47703233 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
47703255 ACTC
1 ACTC
47703259 ATTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:47706530 original size:9 final size:9
Alignment explanation
Indices: 47706504--47706538 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
47706494 TTAAATAATT
47706504 TATTAAAAA
1 TATTAAAAA
*
47706513 -ATTATAAA
1 TATTAAAAA
47706521 TATTAAAAA
1 TATTAAAAA
47706530 TATTAAAAA
1 TATTAAAAA
47706539 AATATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:47713348 original size:2 final size:2
Alignment explanation
Indices: 47713337--47713380 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
47713327 AACTTTGTAT
47713337 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47713378 TA T
1 TA T
47713381 GATGTTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47713724 original size:17 final size:17
Alignment explanation
Indices: 47713702--47713735 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47713692 ACCTCAAATG
47713702 ACAACTTAAAAATATGT
1 ACAACTTAAAAATATGT
*
47713719 ACAACTTAAAAGTATGT
1 ACAACTTAAAAATATGT
47713736 CCACCAAATA
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:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
ACAACTTAAAAATATGT
Found at i:47714749 original size:20 final size:22
Alignment explanation
Indices: 47714720--47714797 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
47714710 TTTCACAAAC
47714720 AAATTCTCTCAATTTCCTTCAA
1 AAATTCTCTCAATTTCCTTCAA
* *
47714742 AAATTCTCTCAATTCCCTTAAA
1 AAATTCTCTCAATTTCCTTCAA
*
47714764 AAATTCTCTCAATTTCCTTCCA
1 AAATTCTCTCAATTTCCTTCAA
47714786 AAATTCTCTCAA
1 AAATTCTCTCAA
47714798 ACTCCCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATTCTCTCAATTTCCTTCAA
Found at i:47715163 original size:14 final size:15
Alignment explanation
Indices: 47715134--47715167 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47715124 AAATTTTATA
47715134 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
47715149 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
47715163 TTTTA
1 TTTTA
47715168 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:47715189 original size:24 final size:23
Alignment explanation
Indices: 47715132--47715189 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 23
47715122 TTAAATTTTA
47715132 TATTTTATTTAAGATATTTTTATT
1 TATTTT-TTTAAGATATTTTTATT
47715156 TATGTATTTTT-AGATATTTATTAATT
1 TAT-T-TTTTTAAGATATTT-TT-ATT
47715182 TATTTTTT
1 TATTTTTT
47715190 GTTATAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
24 15 0.50
25 7 0.23
26 8 0.27
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (23 bp):
TATTTTTTTAAGATATTTTTATT
Found at i:47717353 original size:28 final size:28
Alignment explanation
Indices: 47717315--47717477 Score: 220
Period size: 28 Copynumber: 6.2 Consensus size: 28
47717305 GATTAAAAAC
47717315 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
47717343 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
47717366 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
47717394 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
* * *
47717417 CCTAACCTAATTGAATTTAAAACCCAAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
47717445 CCTAACTTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
47717473 CCTAA
1 CCTAA
47717478 TTGAATTAAA
Statistics
Matches: 119, Mismatches: 6, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
23 42 0.35
25 2 0.02
26 2 0.02
28 73 0.61
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.29
Consensus pattern (28 bp):
CCTAACCTAATTTAATTAAAAACCCTAA
Found at i:47717366 original size:51 final size:51
Alignment explanation
Indices: 47717301--47717723 Score: 433
Period size: 51 Copynumber: 8.8 Consensus size: 51
47717291 TTTTGACATT
*
47717301 ATTTGATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
47717352 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
* * * *
47717403 ATTTAATTAAAAACCCTAACCTAATTGAATTTAAAACCCAAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
*
47717454 ATTTAATTAAAAACCCTAACCTAATTGAATT----A----AA---AACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
* *
47717494 ATTTAATTAAAAACCCTAACCTAACTTAATGT-AAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAAT-TAAAAACCCTAACCTAACCTA
*
47717545 ATTTAATTAAAAACCCTAACCTAATTGAATT----A----AA---AACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
* *
47717585 ATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
* * *
47717636 ATTGAATTAAAAA--C--A--TAATTTAATTAAAAACCTTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
* * *
47717681 ATGTAA--AACCCTAA-CCTAACTTAATTTAATTAAAAACCCTAAC
1 ATTTAATTAA---AAACCCTAACCTAATTTAATTAAAAACCCTAAC
47717724 TTGGTGCGAT
Statistics
Matches: 322, Mismatches: 20, Indels: 60
0.80 0.05 0.15
Matches are distributed among these distances:
40 68 0.21
41 1 0.00
43 6 0.02
44 2 0.01
45 31 0.10
46 2 0.01
47 4 0.01
48 4 0.01
49 2 0.01
50 1 0.00
51 201 0.62
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (51 bp):
ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTA
Found at i:47717484 original size:28 final size:27
Alignment explanation
Indices: 47717301--47717484 Score: 196
Period size: 28 Copynumber: 7.1 Consensus size: 27
47717291 TTTTGACATT
*
47717301 ATTTGATTAAAAACCCTAACC----TA
1 ATTTAATTAAAAACCCTAACCTAATTA
*
47717324 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAA-TTA
47717352 ATTTAATTAAAAACCCTAACC----TA
1 ATTTAATTAAAAACCCTAACCTAATTA
*
47717375 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAA-TTA
47717403 ATTTAATTAAAAACCCTAACCTAATTGA
1 ATTTAATTAAAAACCCTAACCTAATT-A
*
47717431 A--T--TT-AAAACCCAAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAA-TTA
47717454 ATTTAATTAAAAACCCTAACCTAATTGA
1 ATTTAATTAAAAACCCTAACCTAATT-A
47717482 ATT
1 ATT
47717485 AAAAACCTAA
Statistics
Matches: 139, Mismatches: 4, Indels: 31
0.80 0.02 0.18
Matches are distributed among these distances:
23 59 0.42
24 4 0.03
25 1 0.01
26 1 0.01
27 5 0.04
28 69 0.50
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (27 bp):
ATTTAATTAAAAACCCTAACCTAATTA
Found at i:47717493 original size:17 final size:17
Alignment explanation
Indices: 47717471--47717508 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
47717461 TAAAAACCCT
47717471 AACCTAATTGAATTAAA
1 AACCTAATTGAATTAAA
*
47717488 AACCTAATTTAATTAAA
1 AACCTAATTGAATTAAA
47717505 AACC
1 AACC
47717509 CTAACCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (17 bp):
AACCTAATTGAATTAAA
Found at i:47717507 original size:40 final size:40
Alignment explanation
Indices: 47717452--47717622 Score: 218
Period size: 40 Copynumber: 4.0 Consensus size: 40
47717442 AAACCTAACT
47717452 TAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACC
1 TAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACC
47717492 TAATTTAATTAAAAACCCTAACCTAACTT-AATGTAAAACCCTAACCTAAC
1 TAATTTAATTAAAAACCCTAACCTAA-TTGAAT-T-AAA----AA-C---C
47717542 TTAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACC
1 -TAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACC
*
47717583 TAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACC
1 TAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACC
47717623 CTAACCTAAC
Statistics
Matches: 117, Mismatches: 1, Indels: 26
0.81 0.01 0.18
Matches are distributed among these distances:
40 68 0.58
41 4 0.03
42 3 0.03
44 1 0.01
45 2 0.02
46 2 0.02
47 1 0.01
49 3 0.03
50 4 0.03
51 29 0.25
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (40 bp):
TAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACC
Found at i:47717539 original size:28 final size:28
Alignment explanation
Indices: 47717508--47717568 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
47717498 AATTAAAAAC
47717508 CCTAACCTAACTTAATGT-AAAACCCTAA
1 CCTAACCTAACTTAAT-TAAAAACCCTAA
* *
47717536 CCTAACTTAATTTAATTAAAAACCCTAA
1 CCTAACCTAACTTAATTAAAAACCCTAA
47717564 CCTAA
1 CCTAA
47717569 TTGAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (28 bp):
CCTAACCTAACTTAATTAAAAACCCTAA
Found at i:47717584 original size:17 final size:17
Alignment explanation
Indices: 47717562--47717599 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
47717552 TAAAAACCCT
47717562 AACCTAATTGAATTAAA
1 AACCTAATTGAATTAAA
47717579 AACCTAATTGAATTAAA
1 AACCTAATTGAATTAAA
47717596 AACC
1 AACC
47717600 CTAACCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (17 bp):
AACCTAATTGAATTAAA
Found at i:47717630 original size:28 final size:24
Alignment explanation
Indices: 47717579--47717649 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 24
47717569 TTGAATTAAA
47717579 AACCTAATTGAATTAAAAA-CCCT
1 AACCTAATTGAATTAAAAACCCCT
47717602 AACCTAATTGAATTAAAAACCCTAACCT
1 AACCTAATTGAATTAAAAA-CC---CCT
47717630 AACCTAATTGAATTAAAAAC
1 AACCTAATTGAATTAAAAAC
47717650 ATAATTTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
23 19 0.44
25 1 0.02
27 1 0.02
28 22 0.51
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.25
Consensus pattern (24 bp):
AACCTAATTGAATTAAAAACCCCT
Found at i:47717631 original size:68 final size:68
Alignment explanation
Indices: 47717526--47717718 Score: 243
Period size: 68 Copynumber: 2.8 Consensus size: 68
47717516 AACTTAATGT
* *
47717526 AAAACCCTAACCTAACTTAATTTAATTAA---AAACCCTAACCTAATTGAATTAAAAACCTAATT
1 AAAACCCTAACCTAACTTAATGTAA--AACCCTAA-CCTAACCTAATTGAATTAAAAACCTAATT
47717588 GAATTA
63 GAATTA
* *
47717594 AAAACCCTAACCTAA-TTGAAT-TAAAAACCCTAACCTAACCTAATTGAATTAAAAACATAATTT
1 AAAACCCTAACCTAACTT-AATGT-AAAACCCTAACCTAACCTAATTGAATTAAAAACCTAATTG
47717657 AATTA
64 AATTA
* * *
47717662 AAAACCTTAACCTAACTTAATGTAAAACCCTAACCTAACTTAATTTAATTAAAAACC
1 AAAACCCTAACCTAACTTAATGTAAAACCCTAACCTAACCTAATTGAATTAAAAACC
47717719 CTAACTTGGT
Statistics
Matches: 111, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
66 2 0.02
67 3 0.03
68 101 0.91
69 5 0.05
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (68 bp):
AAAACCCTAACCTAACTTAATGTAAAACCCTAACCTAACCTAATTGAATTAAAAACCTAATTGAA
TTA
Found at i:47717660 original size:17 final size:17
Alignment explanation
Indices: 47717634--47717666 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47717624 TAACCTAACC
47717634 TAATTGAATTAAAAACA
1 TAATTGAATTAAAAACA
*
47717651 TAATTTAATTAAAAAC
1 TAATTGAATTAAAAAC
47717667 CTTAACCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
TAATTGAATTAAAAACA
Found at i:47717699 original size:91 final size:90
Alignment explanation
Indices: 47717397--47717653 Score: 385
Period size: 91 Copynumber: 2.8 Consensus size: 90
47717387 ACCCTAACCT
* * *
47717397 AACCTAATTTAATTAAAAACCCTAACCTAATTGAATTTAAAACCCAAACCTAACTTAATTTAATT
1 AACCTAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTAATT
*
47717462 AAAAACCCTAACCTAATTGAATTAAA
66 AAAAACCATAACCTAATTGAA-TAAA
*
47717488 AACCTAATTTAATTAAAAACCCTAACCTAACTT-AATGT-AAAACCCTAACCTAACTTAATTTAA
1 AACCTAATTTAATTAAAAACCCTAACCTAA-TTGAAT-TAAAAACCCTAACCTAACCTAATTTAA
*
47717551 TTAAAAACCCTAACCTAATTGAATTAAA
64 TTAAAAACCATAACCTAATTGAA-TAAA
* *
47717579 AACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTGAATT
1 AACCTAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTAATT
47717644 AAAAA-CATAA
66 AAAAACCATAA
47717654 TTTAATTAAA
Statistics
Matches: 157, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
90 7 0.04
91 147 0.94
92 3 0.02
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (90 bp):
AACCTAATTTAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTAATT
AAAAACCATAACCTAATTGAATAAA
Found at i:47717700 original size:28 final size:29
Alignment explanation
Indices: 47717664--47717723 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
47717654 TTTAATTAAA
47717664 AACCTTAACCTAACTTAATGT-AAAACCCT
1 AACCTTAACCTAACTTAAT-TAAAAACCCT
* *
47717693 AACC-TAACTTAATTTAATTAAAAACCCT
1 AACCTTAACCTAACTTAATTAAAAACCCT
47717721 AAC
1 AAC
47717724 TTGGTGCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 1 0.04
28 23 0.82
29 4 0.14
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (29 bp):
AACCTTAACCTAACTTAATTAAAAACCCT
Found at i:47717725 original size:23 final size:23
Alignment explanation
Indices: 47717301--47717706 Score: 326
Period size: 23 Copynumber: 17.3 Consensus size: 23
47717291 TTTTGACATT
*
47717301 ATTTGATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
47717324 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAA--C---CCTAACCTA
47717352 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
47717375 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAA--C---CCTAACCTA
47717403 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
* * *
47717426 ATTGAATTTAAAACCCAAACCTAACTTA
1 ATTTAA-TT-AAA---AACCCTAACCTA
47717454 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
*
47717477 ATTGAATT--AAA----AACCTA
1 ATTTAATTAAAAACCCTAACCTA
47717494 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
*
47717517 ACTTAATGT-AAAACCCTAACCTAACTTA
1 ATTTAAT-TAAAAACCCTAA-C---C-TA
47717545 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
*
47717568 ATTGAATT--AAA----AACCTA
1 ATTTAATTAAAAACCCTAACCTA
*
47717585 ATTGAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
*
47717608 ATTGAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
** *
47717631 ACCTAATTGAATTAAA----AACATA
1 ATTTAATT-AA--AAACCCTAACCTA
*
47717653 ATTTAATTAAAAACCTTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
*
47717676 ACTTAATGT-AAAACCCTAACCTA
1 ATTTAAT-TAAAAACCCTAACCTA
*
47717699 ACTTAATT
1 ATTTAATT
47717707 TAATTAAAAA
Statistics
Matches: 320, Mismatches: 21, Indels: 85
0.75 0.05 0.20
Matches are distributed among these distances:
17 27 0.08
19 9 0.03
21 8 0.03
22 12 0.04
23 161 0.50
24 8 0.03
25 5 0.02
26 8 0.03
27 5 0.02
28 77 0.24
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (23 bp):
ATTTAATTAAAAACCCTAACCTA
Found at i:47720501 original size:83 final size:84
Alignment explanation
Indices: 47720303--47720504 Score: 361
Period size: 83 Copynumber: 2.4 Consensus size: 84
47720293 CAAACTTGCT
* *
47720303 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGTTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
47720368 AATATTTCCTACATGACCA
66 AATATTTCCTACATGACCA
47720387 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
*
47720451 ATTATTTCCTACATGACCA
66 AATATTTCCTACATGACCA
*
47720470 ACTGTAGCGAAATCGCGTCCACGGGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
47720505 CACAATTTCT
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 58 0.51
84 56 0.49
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (84 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
AATATTTCCTACATGACCA
Found at i:47720636 original size:125 final size:124
Alignment explanation
Indices: 47720415--47720639 Score: 362
Period size: 125 Copynumber: 1.8 Consensus size: 124
47720405 CCACGAGGGC
47720415 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
* * *
47720480 AATCGCGTCCACGGGGGCGCGATTTCACAATTTCTGCCCAATATAGCATCATTGTATCA
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTGCCCAATATAGCATCATTGTATCA
* * *
47720539 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAATTTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAA-TTATTTCCTACATGACCAACTGTAGC
*
47720603 GAAATCGCGTCCACGAGGCCATGATTTCACAATTTCT
64 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCT
47720640 TTTCCCGGGA
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
124 21 0.23
125 55 0.60
126 16 0.17
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTGCCCAATATAGCATCATTGTATCA
Found at i:47721137 original size:17 final size:17
Alignment explanation
Indices: 47721100--47721138 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
47721090 AAGGCATACT
*
47721100 AAATATACAAAATTCCC
1 AAATATACAAAATTCCA
47721117 AAATATACTAAAATT-CA
1 AAATATAC-AAAATTCCA
47721134 AAATA
1 AAATA
47721139 AAAATGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATATACAAAATTCCA
Found at i:47721865 original size:45 final size:44
Alignment explanation
Indices: 47721808--47721905 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
47721798 TTTGGTTCGC
*
47721808 TGTAATGAAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAA
* *
47721853 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
*
47721897 TGGAATGGA
1 TGTAATGGA
47721906 TGTGTAATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
Found at i:47722146 original size:60 final size:56
Alignment explanation
Indices: 47722018--47722146 Score: 129
Period size: 57 Copynumber: 2.2 Consensus size: 56
47722008 TATTAAAAAT
47722018 ATAATATAAATATTTTAATCATAATTATTATTAAATATAATTTAATAAAAAATATATA
1 ATAATATAAA-ATTTTAATCATAATTATTATT-AATATAATTTAATAAAAAATATATA
* * *
47722076 AT-TTAATAAAATTCTTAAT-ATAATTATTCTT-ATATGAATTTACTAAAATCATGATATATA
1 ATAAT-ATAAAATT-TTAATCATAATTATTATTAATAT-AATTTAATAAAA--A--ATATATA
47722136 ATAATATAAAA
1 ATAATATAAAA
47722147 AAATATATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
55 4 0.07
56 11 0.19
57 15 0.25
58 13 0.22
60 15 0.25
61 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (56 bp):
ATAATATAAAATTTTAATCATAATTATTATTAATATAATTTAATAAAAAATATATA
Found at i:47725249 original size:19 final size:17
Alignment explanation
Indices: 47725225--47725278 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 17
47725215 AAACTAGGGA
*
47725225 AAAAATTTGGAAGAAAAG
1 AAAAATCTGG-AGAAAAG
47725243 CAAAAATCTGGAGAAAAG
1 -AAAAATCTGGAGAAAAG
47725261 -AAAA--TGGAGAAAAG
1 AAAAATCTGGAGAAAAG
47725275 AAAA
1 AAAA
47725279 GAAATGTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.30
15 3 0.09
16 4 0.12
18 7 0.21
19 9 0.27
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAAATCTGGAGAAAAG
Found at i:47725257 original size:18 final size:18
Alignment explanation
Indices: 47725225--47725264 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
47725215 AAACTAGGGA
*
47725225 AAAAATTTGGAAGAAAAG
1 AAAAATCTGGAAGAAAAG
47725243 CAAAAATCTGG-AGAAAAG
1 -AAAAATCTGGAAGAAAAG
47725261 AAAA
1 AAAA
47725265 TGGAGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.62, C:0.05, G:0.20, T:0.12
Consensus pattern (18 bp):
AAAAATCTGGAAGAAAAG
Found at i:47725279 original size:19 final size:18
Alignment explanation
Indices: 47725254--47725298 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
47725244 AAAAATCTGG
47725254 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
47725273 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
47725290 AGAAAAGAA
1 AGAAAAGAA
47725299 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:47726804 original size:25 final size:26
Alignment explanation
Indices: 47726765--47726815 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
47726755 TAATTATAGT
47726765 ATTTCTTTTAATAAATATATTTTTAA
1 ATTTCTTTTAATAAATATATTTTTAA
*
47726791 ATTT-TTTTTATAAATATATTTTTAA
1 ATTTCTTTTAATAAATATATTTTTAA
47726816 GATTAAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTCTTTTAATAAATATATTTTTAA
Found at i:47727782 original size:17 final size:19
Alignment explanation
Indices: 47727760--47727795 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
47727750 AACATAACTT
47727760 AAAATGAAT-TT-TAAAAA
1 AAAATGAATATTGTAAAAA
47727777 AAAATGAATATTGTAAAAA
1 AAAATGAATATTGTAAAAA
47727796 TGCATGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
AAAATGAATATTGTAAAAA
Found at i:47728331 original size:8 final size:8
Alignment explanation
Indices: 47728303--47728333 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
47728293 AAAAATACAT
47728303 AATTGAAA
1 AATTGAAA
*
47728311 AATTAAAA
1 AATTGAAA
47728319 AATTGAAA
1 AATTGAAA
47728327 AATTGAA
1 AATTGAA
47728334 TGTGATTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (8 bp):
AATTGAAA
Found at i:47740531 original size:25 final size:24
Alignment explanation
Indices: 47740494--47740557 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
47740484 ATCTAATGAG
47740494 AATAGTTTATTAAATAAAAATAAAAT
1 AATA-TTT-TTAAATAAAAATAAAAT
* *
47740520 AATACTTTTTAAATTAGAATAAAAT
1 AATA-TTTTTAAATAAAAATAAAAT
*
47740545 AATATTTTAAAAT
1 AATATTTTTAAAT
47740558 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 8 0.24
25 19 0.56
26 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (24 bp):
AATATTTTTAAATAAAAATAAAAT
Found at i:47740557 original size:24 final size:25
Alignment explanation
Indices: 47740512--47740558 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
47740502 ATTAAATAAA
*
47740512 AATAAAATAATACTTTTTAAATTAG
1 AATAAAATAATACTTTTAAAATTAG
47740537 AATAAAATAATA-TTTTAAAATT
1 AATAAAATAATACTTTTAAAATT
47740559 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AATAAAATAATACTTTTAAAATTAG
Found at i:47743641 original size:23 final size:23
Alignment explanation
Indices: 47743615--47743658 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47743605 GTAATACACA
47743615 TATTAATTAAAATATATTATATT
1 TATTAATTAAAATATATTATATT
** *
47743638 TATTTTTTAAAATTTATTATA
1 TATTAATTAAAATATATTATA
47743659 AAAATTGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTAATTAAAATATATTATATT
Found at i:47746252 original size:56 final size:56
Alignment explanation
Indices: 47746166--47746271 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
47746156 TTAATAAACT
* * * *
47746166 ATTTGGCACTTGAATTTGGTTTCAATGTTCAATTTAGTATTTGAGTTTTTGTCCGA
1 ATTTGGCACGTGAATTTGGCTTCAATGTTCAAATTAGTACTTGAGTTTTTGTCCGA
* * *
47746222 ATTTGGTACGTGAGTTTGGCTTCAATGTTCAAATTGGTACTTGAGTTTTT
1 ATTTGGCACGTGAATTTGGCTTCAATGTTCAAATTAGTACTTGAGTTTTT
47746272 TCAATTTGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.21, C:0.10, G:0.22, T:0.47
Consensus pattern (56 bp):
ATTTGGCACGTGAATTTGGCTTCAATGTTCAAATTAGTACTTGAGTTTTTGTCCGA
Found at i:47751650 original size:18 final size:18
Alignment explanation
Indices: 47751627--47751669 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
47751617 GTTCAATGTG
47751627 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
47751645 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
47751663 TAATTAA
1 TAATTAA
47751670 AAACCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:47754830 original size:22 final size:22
Alignment explanation
Indices: 47754802--47754844 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
47754792 CCTAATTTGC
47754802 CACATCAATTAGTGGTAGATCT
1 CACATCAATTAGTGGTAGATCT
47754824 CACATCAATTAGTGGTAGATC
1 CACATCAATTAGTGGTAGATC
47754845 AACTCCCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
CACATCAATTAGTGGTAGATCT
Found at i:47755108 original size:23 final size:25
Alignment explanation
Indices: 47755063--47755126 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
47755053 TCCCTAAAAA
*
47755063 GCCTTAGTGGCTAGTATTCTATGAT
1 GCCTTAGTGGCTAGTATTATATGAT
*
47755088 GCCTTTGTGGC-A-TATTATATGAT
1 GCCTTAGTGGCTAGTATTATATGAT
* *
47755111 GTCTAAGTGGCTAGTA
1 GCCTTAGTGGCTAGTA
47755127 ATTGTTAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.56
24 2 0.06
25 12 0.38
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (25 bp):
GCCTTAGTGGCTAGTATTATATGAT
Found at i:47757271 original size:25 final size:27
Alignment explanation
Indices: 47757238--47757287 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
47757228 AAATAACATA
*
47757238 GAAAGCAATTTAAA-TAGGTAATATAT
1 GAAAGCAATTTAAAGTAGCTAATATAT
47757264 GAAA-CAATTTAAAGTAGCTAATAT
1 GAAAGCAATTTAAAGTAGCTAATAT
47757288 CAAACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (27 bp):
GAAAGCAATTTAAAGTAGCTAATATAT
Found at i:47757292 original size:24 final size:25
Alignment explanation
Indices: 47757243--47757299 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
47757233 ACATAGAAAG
* *
47757243 CAATTTAAATAGGTAATATATGAAA
1 CAATTTAAATAGCTAATATATCAAA
47757268 CAATTTAAAGTAGCT-A-ATATCAAA
1 CAATTTAAA-TAGCTAATATATCAAA
*
47757292 CATTTTAA
1 CAATTTAA
47757300 TATGAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.50
25 10 0.36
26 4 0.14
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (25 bp):
CAATTTAAATAGCTAATATATCAAA
Found at i:47758408 original size:11 final size:11
Alignment explanation
Indices: 47758392--47758420 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
47758382 TTTCTTGCAA
47758392 GTGGTAGAGGC
1 GTGGTAGAGGC
47758403 GTGGTAGAGGC
1 GTGGTAGAGGC
47758414 GTGGTAG
1 GTGGTAG
47758421 TGGGCATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.55, T:0.21
Consensus pattern (11 bp):
GTGGTAGAGGC
Found at i:47758925 original size:44 final size:44
Alignment explanation
Indices: 47758873--47759776 Score: 223
Period size: 44 Copynumber: 20.6 Consensus size: 44
47758863 TGGTTTTAGT
* *
47758873 CTGCTCCACTACAACTTTAGGGAGATAAGACTTGTTGCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTGCTTCAAC
** * * * *
47758917 CTGCTCCACTGCGTCTTCAGGGAGATAGGA-TTAGTAGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGCTTCAAC
* * * *
47758961 ATGCTCCACTGCAACTTCAGGAAGATAAGACTTGTTATGGTAGATTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG---T--T-GCTTCAA-C
* * * * * *
47759012 C-GAC-CTACTGCAACTTCAGAGG-TATAGGA-TTCATTGTTTTAA-
1 CTG-CTCCACTGCAACTTCAG-GGAGATAAGACTT-GTTGCTTCAAC
* * * ***
47759054 TTCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGT
1 CT-GCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGCTTCAAC
* * * * * *
47759099 CTACTCCACTGCAACTTTAGGAAGATAAGACTGGATGC--GATA-
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTGCTTCA-AC
* ** * *
47759141 -TGCTCTACTGCAACTTCAACGAGGTAAGATCTGTGTT--TTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTTGCTTCAA-C
* * * * * ***
47759185 C-ACTCCACTGCAACTTCATGAAGATAGGA-TTGGTTTCTTCTGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGCTTCAAC
* * * * * *
47759228 CTACTCCACTGCAACTTCAGAGAGATAAGAC-TG--GATGCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTGCTTCAAC
* * ** * * *
47759269 CTGCTCTACTGCAACTTTAGAAAGATAAGATTTGTAT-TTTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-TGCTTCAA-C
* * * * *
47759314 C-GCACCACTGCAACTTTAGAGAGATAGGATCTGTGTT--TTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTTGCTTCAA-C
* * * * * ***
47759358 C-GCTCCACTGTAACTTAAGAGAGATATGA-TTGGTT-TTTCTGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGCTTCAAC
* * * * *
47759400 CTGCTCCACTGCAACTTTAGGGAGATAAGACTGGATG--T-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTGCTTCAAC
* * * * *
47759441 CTGTTCTACTGCAACTTCAGAGAGATAAAATCTATGTT--TTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTTGCTTCAA-C
* * *
47759486 C-GCTCCACTGCAACTTTAGGGAGATAGGATCTGTGTT--TTAAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTTGCTTCAA-C
* * * * *
47759530 C-GTTCCACTGCAACTTTAGGGAGATAGGA-TTAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGCTTCAAC
* * * *
47759573 CTACTTCGCTGCAACTTTAGGGAGATAAGA-TTGGTAT-CTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GT-TGCTTCAAC
** * * **
47759617 CTGCTCCACTGCAACTTCAGATAGATAAG-GTTGGTTACTTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTGC-TTCAAC
* *
47759662 CTGCTCTACTGCAACTTCAAGGAGATAAGACTTGTAT-CTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-TGCTTCAAC
* * ** * * *
47759706 CTACCCCACTGCAACTTCA-GGAGGATAAGGTTTGTTGTTTTAAT
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGTTGCTTCAAC
* *
47759750 CTACTCCACTGCAACTTCAGAGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
47759777 GGATTAGTAG
Statistics
Matches: 640, Mismatches: 159, Indels: 122
0.69 0.17 0.13
Matches are distributed among these distances:
41 80 0.12
42 20 0.03
43 47 0.07
44 412 0.64
45 43 0.07
46 6 0.01
47 2 0.00
49 2 0.00
50 26 0.04
51 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTGCTTCAAC
Found at i:47759254 original size:129 final size:127
Alignment explanation
Indices: 47759016--47759343 Score: 430
Period size: 129 Copynumber: 2.5 Consensus size: 127
47759006 TTAATCCGAC
* *
47759016 CTACTGCAACTTC-AGAGGTATAGGATTCAT-TG-TTTTAATTCGCTCCACTGCAACTTCAGGGA
1 CTACTGCAACTTCAAGAGGTA-A-GA-TC-TGTGTTTTTAATCCGCTCCACTGCAACTTCA-GAA
*
47759078 GATAGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTTAGGAAGATAAGACTGGATGCGATATG
61 GATAGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATATG
47759143 CT
126 CT
*
47759145 CTACTGCAACTTCAACGAGGTAAGATCTGTGTTTTTAATCCACTCCACTGCAACTTCATGAAGAT
1 CTACTGCAACTTCAA-GAGGTAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCA-GAAGAT
*
47759210 AGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCA-GAGAGATAAGACTGGATGCGATCTGCT
64 AGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGA-AGATAAGACTGGATGCGATATGCT
* * * * * * *
47759274 CTACTGCAACTTTAGAAAGATAAGATTTGTATTTTTAATCCGCACCACTGCAACTTTAGAGAGAT
1 CTACTGCAACTTCA-AGAGGTAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGA-AGAT
47759339 AGGAT
64 AGGAT
47759344 CTGTGTTTTT
Statistics
Matches: 178, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
127 1 0.01
128 8 0.04
129 160 0.90
130 3 0.02
131 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (127 bp):
CTACTGCAACTTCAAGAGGTAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGAAGATAG
GATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGAAGATAAGACTGGATGCGATATGCT
Found at i:47759364 original size:129 final size:129
Alignment explanation
Indices: 47759048--47759511 Score: 419
Period size: 129 Copynumber: 3.6 Consensus size: 129
47759038 GGATTCATTG
* * ** *
47759048 TTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCAATCCACTCCACTGCAA
* * * *
47759113 CTTTAG-GAAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCA-ACGAGGTAAGATCTGTG
66 CTTTAGAG-AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGA-GAGATAAGATCTGTA
47759176 T
129 T
* ** *
47759177 TTTTAATCCACTCCACTGCAACTTCATGA-AGATAGGATTGGTTTCTTCTGTCTACTCCACTGCA
1 TTTTAATCCGCTCCACTGCAACTTCA-GAGAGATAGGATTGGTTTCTTCAATCCACTCCACTGCA
* * *
47759241 ACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAAAGATAAGATTTGTAT
65 ACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAT
* * * *
47759306 TTTTAATCCGCACCACTGCAACTTTAGAGAGATAGGATCTGTGTTT-TT-AATCCGCTCCACTGT
1 TTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TG-GTTTCTTCAATCCACTCCACTGC
* * * * * * *
47759369 AACTTAAGAGAGATATGATTGGTTTTTCTG-TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CT
64 AACTTTAGAGAGATAAGACTGG--ATGC-GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCT
*
47759432 GGA-
126 GTAT
* * * * * ** * *
47759435 -TGTGATCTGTTCTACTGCAACTTCAGAGAGATAAAATCTATGTTT-TT-AATCCGCTCCACTGC
1 TTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-T-GGTTTCTTCAATCCACTCCACTGC
*
47759497 AACTTTAGGGAGATA
64 AACTTTAGAGAGATA
47759512 GGATCTGTGT
Statistics
Matches: 284, Mismatches: 41, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
128 65 0.23
129 174 0.61
130 10 0.04
131 34 0.12
132 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCAATCCACTCCACTGCAA
CTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAT
Found at i:47759451 original size:172 final size:172
Alignment explanation
Indices: 47759168--47759644 Score: 587
Period size: 172 Copynumber: 2.7 Consensus size: 172
47759158 AACGAGGTAA
* *
47759168 GATCTGTGTTTTTAATCCACTCCACTGCAACTTCATGA-AGATAGGATTGGTTTCTTCTGTCTAC
1 GATCTGTGTTTTTAATCCGCTCCACTGCAACTT-AAGAGAGATAGGATTGGTTT-TTCTGTCTAC
* * *
47759232 TCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAAAGATAA
64 TCCACTGCAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAAAGATAA
* * *
47759297 GATTTGTATTTTTAATCCGCACCACTGCAACTTTAGAGAGATAG
129 AATCTATATTTTTAATCCGCACCACTGCAACTTTAGAGAGATAG
* * *
47759341 GATCTGTGTTTTTAATCCGCTCCACTGTAACTTAAGAGAGATATGATTGGTTTTTCTGTCTGCTC
1 GATCTGTGTTTTTAATCCGCTCCACTGCAACTTAAGAGAGATAGGATTGGTTTTTCTGTCTACTC
* * *
47759406 CACTGCAACTTTAGGGAGATAAGACTGGATGTGATCTGTTCTACTGCAACTTCAGAGAGATAAAA
66 CACTGCAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAAAGATAAAA
* * *
47759471 TCTATGTTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAG
131 TCTATATTTTTAATCCGCACCACTGCAACTTTAGAGAGATAG
* * * * * ** **
47759513 GATCTGTGTTTTAAATCCGTTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTACT
1 GATCTGTGTTTTTAATCCGCTCCACTGCAACTTAAGAGAGATAGGATTGGT-TTTTCTGTCTACT
* * * * * * * *
47759578 TCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGATAGAT
65 CCACTGCAACTTTAGGGAGATAAGACTGG-A--TGCGATCTGCTCTACTGCAACTTCAGAAAGAT
47759643 AA
127 AA
47759645 GGTTGGTTAC
Statistics
Matches: 260, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
172 153 0.59
173 79 0.30
174 1 0.00
176 27 0.10
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (172 bp):
GATCTGTGTTTTTAATCCGCTCCACTGCAACTTAAGAGAGATAGGATTGGTTTTTCTGTCTACTC
CACTGCAACTTTAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAAAGATAAAA
TCTATATTTTTAATCCGCACCACTGCAACTTTAGAGAGATAG
Found at i:47759488 original size:128 final size:129
Alignment explanation
Indices: 47759320--47759555 Score: 332
Period size: 128 Copynumber: 1.8 Consensus size: 129
47759310 AATCCGCACC
* ** * * *
47759320 ACTGCAACTTTAGAGAGATAGGATCTGTGTTTTTAATCCGCTCCACTGTAACTTAAGAGAGATAT
1 ACTGCAACTTCAGAGAGATAAAATCTATGTTTTTAATCCGCTCCACTGCAACTTAAGAGAGATAG
*** *
47759385 GAT-TG-GTTTTTCTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTGGATGTGATCTGTTCT
66 GATCTGTG-TTTTAAATCCGCTCCACTGCAACTTTAGGGAGATAAGACTGGATGTGATCTGTTCT
* *
47759448 ACTGCAACTTCAGAGAGATAAAATCTATGTTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAAATCTATGTTTTTAATCCGCTCCACTGCAACTTAAGAGAGATAG
*
47759513 GATCTGTGTTTTAAATCCGTTCCACTGCAACTTTAGGGAGATA
66 GATCTGTGTTTTAAATCCGCTCCACTGCAACTTTAGGGAGATA
47759556 GGATTAGTAG
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
128 60 0.65
129 32 0.34
130 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (129 bp):
ACTGCAACTTCAGAGAGATAAAATCTATGTTTTTAATCCGCTCCACTGCAACTTAAGAGAGATAG
GATCTGTGTTTTAAATCCGCTCCACTGCAACTTTAGGGAGATAAGACTGGATGTGATCTGTTCT
Found at i:47759690 original size:89 final size:87
Alignment explanation
Indices: 47759567--47759792 Score: 249
Period size: 89 Copynumber: 2.6 Consensus size: 87
47759557 GATTAGTAGC
* * * * * *
47759567 TTCAATCTACTTCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATT-GTATCTTCAACCTACCCCACTGCAAC
47759632 TTCA-GATAGATAAGGTTGGTTACT
65 TTCAGGA-AGATAAGGTTGGTT-CT
* * *
47759656 TTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAGACTTGTATCTTCAACCTACCCCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGA-TTGTATCTTCAACCTACCCCACTGCAAC
* * *
47759721 TTCAGGAGGATAAGGTTTGTTGT
65 TTCAGGAAGATAAGGTTGGTTCT
* * *
47759744 TTTAATCTACTCCACTGCAACTTC-AGAGAGATAGGATTAGTAGCTTCAA
1 TTCAATCTACTCCACTGCAACTTCAAG-GAGATAAGATT-GTATCTTCAA
47759793 TCTATTTAAT
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
87 4 0.03
88 38 0.33
89 69 0.60
90 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (87 bp):
TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGTATCTTCAACCTACCCCACTGCAACT
TCAGGAAGATAAGGTTGGTTCT
Found at i:47759721 original size:133 final size:133
Alignment explanation
Indices: 47759536--47759776 Score: 290
Period size: 133 Copynumber: 1.8 Consensus size: 133
47759526 AATCCGTTCC
* * * * ** * *
47759536 ACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTACTTCGCTGCAACTTTAGG-GAGATA
1 ACTGCAACTTCAAGGAGATAAGATTAGTAGCTTCAACCTACCCCACTGCAACTTCAGGAG-GATA
* *
47759600 AGATTGGTAT-CTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTGGTTACTTTCAGTCT
65 AGATTGGT-TGCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTGGTTACTTTCAGTCT
47759664 GCTCT
129 GCTCT
*
47759669 ACTGCAACTTCAAGGAGATAAGACTT-GTATCTTCAACCTACCCCACTGCAACTTCAGGAGGATA
1 ACTGCAACTTCAAGGAGATAAGA-TTAGTAGCTTCAACCTACCCCACTGCAACTTCAGGAGGATA
* * * * *
47759733 AGGTTTGTTGTTTTAATCTACTCCACTGCAACTTCAGAGAGATA
65 AGATTGGTTGCTTCAACCTACTCCACTGCAACTTCAGAGAGATA
47759777 GGATTAGTAG
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
132 1 0.01
133 85 0.96
134 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (133 bp):
ACTGCAACTTCAAGGAGATAAGATTAGTAGCTTCAACCTACCCCACTGCAACTTCAGGAGGATAA
GATTGGTTGCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTGGTTACTTTCAGTCTGC
TCT
Found at i:47759796 original size:44 final size:42
Alignment explanation
Indices: 47759057--47759795 Score: 299
Period size: 44 Copynumber: 17.0 Consensus size: 42
47759047 GTTTTAATTC
* * * **
47759057 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT-G-TGCTTCAATCT
* * * * * * *
47759101 ACTCCACTGCAACTTTAG-GAAGATAAGACTG-GATGCGATAT
1 GCTCCACTGCAACTTCAGAG-AGATAAGATTGTGCTTCAATCT
* * * * *
47759142 GCTCTACTGCAACTTCA-ACGAGGTAAGATCTGTGTTTTTAATCC
1 GCTCCACTGCAACTTCAGA-GAGATAAGAT-TGTG-CTTCAATCT
* * * **
47759186 ACTCCACTGCAACTTCATGA-AGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCA-GAGAGATAAGATT-G-TGCTTCAATCT
* * * * *
47759230 ACTCCACTGCAACTTCAGAGAGATAAGACTG-GATGCGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGTGCTTCAATCT
* * * ** * *
47759271 GCTCTACTGCAACTTTAGAAAGATAAGATTTGTATTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGA-TTGT-GCTTCAATCT
* * * * * *
47759315 GCACCACTGCAACTTTAGAGAGATAGGATCTGTGTTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TGTG-CTTCAATCT
* * * ** **
47759359 GCTCCACTGTAACTTAAGAGAGATATGATTGGTTTTTCTGTCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT-GTGCTTCAATCT
* * * * *
47759402 GCTCCACTGCAACTTTAGGGAGATAAGACTG-GATGT-GATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGTGCT-TCAATCT
* * * * * * *
47759443 GTTCTACTGCAACTTCAGAGAGATAAAATCTATGTTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TGTG-CTTCAATCT
* * * * * *
47759487 GCTCCACTGCAACTTTAGGGAGATAGGATCTGTGTTTTAAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TGTG-CTTCAATCT
* * * *
47759531 GTTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT-GT-GCTTCAATCT
* * * * * * *
47759575 ACTTCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT-GT-GCTTCAATCT
* * * *
47759619 GCTCCACTGCAACTTCAGATAGATAAGGTTGGTTACTTTCAGTCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT-G-TGC-TTCAATCT
* * *
47759664 GCTCTACTGCAACTTCA-AGGAGATAAGACTTGTATCTTCAACCT
1 GCTCCACTGCAACTTCAGA-GAGATAAGA-TTGT-GCTTCAATCT
* * * * *
47759708 ACCCCACTGCAACTTCAG-GAGGATAAGGTTTGTTGTTTTAATCT
1 GCTCCACTGCAACTTCAGAGA-GATAA-GATTG-TGCTTCAATCT
* *
47759752 ACTCCACTGCAACTTCAGAGAGATAGGATTAGTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT-GT-GCTTCAATCT
47759796 ATTTAATTGC
Statistics
Matches: 528, Mismatches: 131, Indels: 72
0.72 0.18 0.10
Matches are distributed among these distances:
41 81 0.15
42 8 0.02
43 48 0.09
44 350 0.66
45 38 0.07
46 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTGTGCTTCAATCT
Found at i:47759841 original size:50 final size:50
Alignment explanation
Indices: 47759783--47760758 Score: 635
Period size: 50 Copynumber: 19.4 Consensus size: 50
47759773 GATAGGATTA
* * * * *
47759783 GTAGCTTCAATCTATTTAATTGCAATATCGGGGAAGCAAGATTCACCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
** * *
47759833 GTAGCTTCAATCTGTTCT-ACTGCACCGCCAGAGAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTGTT-TAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * * * **
47759883 GTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGTCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
** **
47759933 GTAGCTTCAATCTGTTCCACTGC-ATCACTAGGGAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTC-AGGGAAGTAAGATTCACCGTT
* * * * *
47759983 GTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * * **
47760033 GTAGATTCAATCTGTTCT-ACTGCACCGCGTACCGCCAGGGAAGTAAGATTTGCCGTT
1 GTAGCTTCAATCTGTT-TAACTGCA------A-TGTCAGGGAAGTAAGATTCACCGTT
* * * * **
47760090 GTGGCTTCAAT-TTTTTAATTGCAATATCAGGGAAGTAAGATTCGTCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * ** * * * * **
47760139 GTAACTTCAATCTATTCCACTGTACT-ACTAGAGAAGTAAGATTCACTATT
1 GTAGCTTCAATCTGTTTAACTGCAATGTC-AGGGAAGTAAGATTCACCGTT
* * * * *
47760189 GTGGCTTCAATCTTTTTAATTGCAATGTC-GGGAAGCAAGATTCGCCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * * ** * ** * * *
47760238 ATAGCTTTAATCTGCTCCACTGTACCGCCAGGGAAGTAAGATTCGCTGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * * * * * *
47760288 GTGGCTTCAATCTTTTTAATTGCCATGTCGGGGAAGTAAGATTCGCTGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* ** ** * ** *
47760338 ATAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGATTCGCCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* ** * ** *
47760388 GTAGCATCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * * * *
47760438 GTGGCTTCAATCTTTTTAATTGCAATGTC-GAGGAAGCAAGATTCACTGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAG-GGAAGTAAGATTCACCGTT
** ** *
47760488 GTAGCTTCAATCTGTTCCACTGCACCG-CTAGAGAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTC-AGGGAAGTAAGATTCACCGTT
* * * * * *
47760538 GTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAGTGAGATTCACCATT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
** * ** ***
47760588 GTAGCTTCAATCTGTTCCACTACACCG-CTAGGGAAGTAAGATAT-GTTGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTC-AGGGAAGTAAGAT-TCACCGTT
* * * *
47760638 GTGGCTTCAATCT-TTTAATTGCAATGTC-GGAGAAGCAAGATTCGCCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGG-GAAGTAAGATTCACCGTT
** ** * *
47760687 GTAGCTTCAATCTGTTCCACTGCACCGCCAAGGAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
* * *
47760737 GTGGTTTCAATCTTTTTAACTG
1 GTAGCTTCAATCTGTTTAACTG
47760759 TAACCTCAGG
Statistics
Matches: 693, Mismatches: 205, Indels: 56
0.73 0.21 0.06
Matches are distributed among these distances:
48 3 0.00
49 101 0.15
50 541 0.78
51 10 0.01
55 1 0.00
56 9 0.01
57 28 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
GTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTT
Found at i:47759914 original size:100 final size:100
Alignment explanation
Indices: 47759786--47760450 Score: 767
Period size: 100 Copynumber: 6.6 Consensus size: 100
47759776 AGGATTAGTA
* * * * *
47759786 GCTTCAATCTATTTAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCT
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
*
47759851 ACTGCACCGCCAGAGAAGTAAGATTCACCGTTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTG
*
47759886 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * *
47759951 ACTGCATCACTAGGGAAGTAAGATTCACCGTTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTG
* * *
47759986 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGATTCAATCTGTTCT
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTG-T-T
* **
47760051 ACTGCACCGCGTACCGCCAGGGAAGTAAGATTTGCCGTTGTG
64 -C--CACTGC--ACCGCCAGGGAAGTAAGATTCACCGTTGTG
* * * * *
47760093 GCTTCAAT-TTTTTAATTGCAATATCAGGGAAGTAAGATTCGTCGTTGTAACTTCAATCTATTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* ** * * **
47760157 ACTGTACTACTAGAGAAGTAAGATTCACTATTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTG
* * * *
47760192 GCTTCAATCTTTTTAATTGCAATGTC-GGGAAGCAAGATTCGCCGTTATAGCTTTAATCTGCTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * *
47760256 ACTGTACCGCCAGGGAAGTAAGATTCGCTGTTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTG
* * *
47760291 GCTTCAATCTTTTTAATTGCCATGTCGGGGAAGTAAGATTCGCTGTTATAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
** * *
47760356 ACTGCACCGCCAGGGAAACAAGATTCGCCGTTGTA
66 ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTG
* * ** * * ** * * * *
47760391 GCATCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
47760451 TTTTAATTGC
Statistics
Matches: 479, Mismatches: 77, Indels: 18
0.83 0.13 0.03
Matches are distributed among these distances:
99 115 0.24
100 272 0.57
101 5 0.01
102 1 0.00
103 2 0.00
104 1 0.00
105 6 0.01
106 44 0.09
107 33 0.07
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTG
Found at i:47760431 original size:150 final size:150
Alignment explanation
Indices: 47759813--47760755 Score: 732
Period size: 150 Copynumber: 6.3 Consensus size: 150
47759803 TGCAATATCG
* * * * ** * * *
47759813 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCT-ACTGCACCGCCAGAGAAGTAAGATTC
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTTTAATTGCAATGTCGGGGAAGTAAGATTC
* * * ** * ** * * * *
47759877 ACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGTCGTTGTAGCTTCA
65 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCA
* *
47759942 ATCTGTTCCACTGCATCACTA
130 ATCTGTTCCACTGCACCACCA
*
47759963 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCA
* * * * * *
47760028 CCGTTGTAGATTCAATCTGTTCTACTGCACCGCGTACCGCCAGGGAAGTAAGATTTGCCGTTGTG
66 CTGTTGTAGCTTCAATCTG-T-T-C--CACTGC--ACCGCCAGGGAAGCAAGATTCGCCGTTGTA
* ** * ** *
47760093 GCTTCAAT-TTTTTAATTGCAATATCA
124 GCTTCAATCTGTTCCACTGCACCACCA
** ** * ** * * * * * *
47760119 GGGAAGTAAGATTCGTCGTTGTAACTTCAATCTATTCCACTGTACT-ACTAGAGAAGTAAGATTC
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-GGGGAAGTAAGATTC
* * * ** * ** * * *
47760183 ACTATTGTGGCTTCAATCTTTTTAATTGCAATGTC-GGGAAGCAAGATTCGCCGTTATAGCTTTA
65 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCA
* * *
47760247 ATCTGCTCCACTGTACCGCCA
130 ATCTGTTCCACTGCACCACCA
* * * *
47760268 GGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCCATGTCGGGGAAGTAAGATTCG
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCA
* * *
47760333 CTGTTATAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGATTCGCCGTTGTAGCATCAA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAA
* *
47760398 TCTGTTCCACTACACCGCCA
131 TCTGTTCCACTGCACCACCA
* *
47760418 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCA
* * * * *
47760483 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGAGAAGTAAGATTCACCGTTGTGGCTTCAA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAA
* ** * ** *
47760548 TCTTTTTAATTGCAATATCA
131 TCTGTTCCACTGCACCACCA
* * * * ** * * ** *
47760568 GGGAAGTGAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCG-CTAGGGAAGTAAGATAT
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-GGGGAAGTAAGAT-T
** * ** * ** *
47760632 -GTTGTTGTGGCTTCAATCT-TTTAATTGCAATGTC-GGAGAAGCAAGATTCGCCGTTGTAGCTT
64 CACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG-GAAGCAAGATTCGCCGTTGTAGCTT
*
47760694 CAATCTGTTCCACTGCACCGCCA
128 CAATCTGTTCCACTGCACCACCA
* *
47760717 AGGAAGTAAGATTCACCGTTGTGGTTTCAATCTTTTTAA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAA
47760756 CTGTAACCTC
Statistics
Matches: 607, Mismatches: 171, Indels: 31
0.75 0.21 0.04
Matches are distributed among these distances:
148 27 0.04
149 163 0.27
150 301 0.50
151 5 0.01
152 1 0.00
154 1 0.00
155 5 0.01
156 73 0.12
157 31 0.05
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (150 bp):
GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCA
CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAA
TCTGTTCCACTGCACCACCA
Found at i:47760736 original size:199 final size:200
Alignment explanation
Indices: 47760376--47760755 Score: 606
Period size: 199 Copynumber: 1.9 Consensus size: 200
47760366 CAGGGAAACA
* *
47760376 AGATTCGCCGTTGTAGCATCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTG
1 AGATTCACCATTGTAGCATCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTG
*
47760441 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCC
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
*
47760506 ACTGCACCGCTAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGG
131 ACTGCACCGCAAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGG
47760571 AAGTG
196 AAGTG
* * ***
47760576 AGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATAT-GTTGTTGT
1 AGATTCACCATTGTAGCATCAATCTGTTCCACTACACCGCCAGGGAAGTAAGAT-TCACCGTTGT
*
47760640 GGCTTCAATC-TTTTAATTGCAATGTCG-GAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT
65 GGCTTCAATCTTTTTAATTGCAATGTCGAG-GAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
*
47760703 CCACTGCACCGCCAAG-GAAGTAAGATTCACCGTTGTGGTTTCAATCTTTTTAA
129 CCACTGCACCG-CAAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAA
47760756 CTGTAACCTC
Statistics
Matches: 166, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
198 1 0.01
199 96 0.58
200 68 0.41
201 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (200 bp):
AGATTCACCATTGTAGCATCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTG
GCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
ACTGCACCGCAAGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGG
AAGTG
Found at i:47772256 original size:2 final size:2
Alignment explanation
Indices: 47772249--47772306 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
47772239 TTTCCCCGAG
47772249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47772291 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
47772307 TAACAAGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47772411 original size:2 final size:2
Alignment explanation
Indices: 47772404--47772444 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
47772394 TTCTTCATTT
47772404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47772445 TTGTGTAGCT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47773575 original size:20 final size:21
Alignment explanation
Indices: 47773528--47773575 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
47773518 CATAACAGAA
*
47773528 AATTTATAAATAGATTTAAATT
1 AATTT-TAAATAGATTTAAAAT
* *
47773550 ACTTTTAAA-AGTTTTAAAAT
1 AATTTTAAATAGATTTAAAAT
47773570 AATTTT
1 AATTTT
47773576 TTTTAATTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 14 0.64
21 4 0.18
22 4 0.18
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (21 bp):
AATTTTAAATAGATTTAAAAT
Found at i:47775131 original size:24 final size:24
Alignment explanation
Indices: 47775116--47775167 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
47775106 AATCAATGTC
*
47775116 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
47775140 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
47775164 AAAT
1 AAAT
47775168 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:47777046 original size:100 final size:100
Alignment explanation
Indices: 47776857--47777052 Score: 293
Period size: 100 Copynumber: 2.0 Consensus size: 100
47776847 GCCTCAGAAA
47776857 AAGTAAATGTTTCTTGATTTACATCTATATCTTCATCCACATTTAAACCATAAGCAACTAGATCA
1 AAGTAAATGTTTCTTGATTTACATCTATATCTTCATCCACATTTAAACCATAAGCAACTAGATCA
*
47776922 GCCTCAACATATCTCTTTGAAGGTTTAATTTGAAT
66 GCCTCAACATAACTCTTTGAAGGTTTAATTTGAAT
** * * * *
47776957 AAGTAAATGTTTCTTGATTTGTATTTATATCTTTATCCACGTTTAAAGCATAAGCAACTAGATCA
1 AAGTAAATGTTTCTTGATTTACATCTATATCTTCATCCACATTTAAACCATAAGCAACTAGATCA
** * *
47777022 GCCTCGGCATAACTTTTTGGAGGTTTAATTT
66 GCCTCAACATAACTCTTTGAAGGTTTAATTT
47777053 CTCTTTTATG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (100 bp):
AAGTAAATGTTTCTTGATTTACATCTATATCTTCATCCACATTTAAACCATAAGCAACTAGATCA
GCCTCAACATAACTCTTTGAAGGTTTAATTTGAAT
Found at i:47779610 original size:21 final size:21
Alignment explanation
Indices: 47779584--47779638 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 21
47779574 TAATAAATGT
*
47779584 TAAATCTTAATATTATGCTAA
1 TAAATCTTAATATTATACTAA
47779605 TAAATCTTAATTATATTATACTAA
1 TAAATCTT-A--ATATTATACTAA
*
47779629 TAAATATTAA
1 TAAATCTTAA
47779639 ATCTTCTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 9 0.31
22 1 0.03
23 1 0.03
24 18 0.62
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAATCTTAATATTATACTAA
Found at i:47779628 original size:24 final size:24
Alignment explanation
Indices: 47779593--47779638 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47779583 TTAAATCTTA
* *
47779593 ATATTATGCTAATAAATCTTAATT
1 ATATTATACTAATAAATATTAATT
47779617 ATATTATACTAATAAATATTAA
1 ATATTATACTAATAAATATTAA
47779639 ATCTTCTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATACTAATAAATATTAATT
Found at i:47780309 original size:255 final size:255
Alignment explanation
Indices: 47779858--47780369 Score: 925
Period size: 255 Copynumber: 2.0 Consensus size: 255
47779848 TTAGTATCGG
* * *
47779858 TTACACTATCCAAATGCAGCTTCAGTTAAAATATATTTTGCATCTGAAAGGCAATGTGGCTTGAC
1 TTACACTATCCAAATGCAACTTCAGTTAAAATATAATTTGCATCTGAAAGGCAATGTGACTTGAC
** *
47779923 ATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTATACCTTTGAGGATTTTAA
66 ATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTATACCTTCAAGGATGTTAA
47779988 GAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCA
131 GAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCA
* *
47780053 AATGTCATCAAGTTCCTTTAATTGAAGATATTTGTTTTCTAAAGAATATTACACTGAGAA
196 AATGTCATCAAGTTCCTTTAACTGAAGATATTTGTTTTCTAAAGAAGATTACACTGAGAA
*
47780113 TTACACTATCCAAATGTAACTTCAGTTAAAATATAATTTGCATCTGAAAGGCAATGTGACTTGAC
1 TTACACTATCCAAATGCAACTTCAGTTAAAATATAATTTGCATCTGAAAGGCAATGTGACTTGAC
47780178 ATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTATACCTTCAAGGATGTTAA
66 ATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTATACCTTCAAGGATGTTAA
47780243 GAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCA
131 GAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCA
* *
47780308 AATGTCATCAAGTTTCTTTAACTGAAGATATTTGTTTTCTAAATAAGATTACACTGAGAA
196 AATGTCATCAAGTTCCTTTAACTGAAGATATTTGTTTTCTAAAGAAGATTACACTGAGAA
47780368 TT
1 TT
47780370 TTCTCTGTTA
Statistics
Matches: 246, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
255 246 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (255 bp):
TTACACTATCCAAATGCAACTTCAGTTAAAATATAATTTGCATCTGAAAGGCAATGTGACTTGAC
ATATTTGATTAGCATTATTTGATCAATAAACCTAGACTCTTTAAGTATACCTTCAAGGATGTTAA
GAACACTTTATTAAAGTCAAAACATGGAGAAAATCAAGTCAAACAAGGATTTTTGAAGACTTTCA
AATGTCATCAAGTTCCTTTAACTGAAGATATTTGTTTTCTAAAGAAGATTACACTGAGAA
Found at i:47784644 original size:17 final size:18
Alignment explanation
Indices: 47784622--47784655 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47784612 AATCCATACA
47784622 AACTCAATCATT-TCATC
1 AACTCAATCATTATCATC
*
47784639 AACTCATTCATTATCAT
1 AACTCAATCATTATCAT
47784656 TTCTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (18 bp):
AACTCAATCATTATCATC
Found at i:47786597 original size:14 final size:13
Alignment explanation
Indices: 47786571--47786620 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
47786561 ATTTATTTGA
47786571 AATATAATAATAT
1 AATATAATAATAT
47786584 AATATAATTAATAT
1 AATATAA-TAATAT
* *
47786598 AAT-TTACAATAT
1 AATATAATAATAT
47786610 AATA-AATAATA
1 AATATAATAATA
47786621 ATATACTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 13 0.42
13 9 0.29
14 9 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:47797666 original size:17 final size:19
Alignment explanation
Indices: 47797641--47797677 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
47797631 ACTAAATTAC
*
47797641 AAAATTATAA-AAT-TATA
1 AAAAATATAAGAATCTATA
47797658 AAAAATATAAGAATCTATA
1 AAAAATATAAGAATCTATA
47797677 A
1 A
47797678 TTTATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAATATAAGAATCTATA
Found at i:47797857 original size:18 final size:19
Alignment explanation
Indices: 47797825--47797862 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
47797815 AAAATTTATG
47797825 ATAATTATACATTTA-AAA
1 ATAATTATACATTTATAAA
47797843 ATAATTATA-ATTTTATAAA
1 ATAATTATACA-TTTATAAA
47797862 A
1 A
47797863 AAATGTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 13 0.72
19 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATTATACATTTATAAA
Found at i:47798129 original size:17 final size:19
Alignment explanation
Indices: 47798096--47798131 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
47798086 AGTGTTAATT
47798096 TTATTAATGTAAAATAGAA
1 TTATTAATGTAAAATAGAA
47798115 TTATTAAT-T-AAATAGAA
1 TTATTAATGTAAAATAGAA
47798132 CTCTAAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (19 bp):
TTATTAATGTAAAATAGAA
Found at i:47800255 original size:38 final size:38
Alignment explanation
Indices: 47800212--47800306 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
47800202 TGTAATAGAA
*
47800212 CAATTCAACACTAGCAGT-ACTCATGCTTAACATGTATT
1 CAATTCAACACTAGCAATAAC-CATGCTTAACATGTATT
*
47800250 TAATTCAACACTAGCAATAACCATGCTTAACATGTATT
1 CAATTCAACACTAGCAATAACCATGCTTAACATGTATT
*
47800288 CAATTCAATACTAGCAATA
1 CAATTCAACACTAGCAATA
47800307 GGCATGTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 50 0.96
39 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (38 bp):
CAATTCAACACTAGCAATAACCATGCTTAACATGTATT
Found at i:47811647 original size:44 final size:44
Alignment explanation
Indices: 47811612--47811710 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 44
47811602 CAACTCATGT
47811612 TTATCTTCTTCTCTTTTTAAATTCTTTTTTTCAACAACCCAAGA
1 TTATCTTCTTCTCTTTTTAAATTCTTTTTTTCAACAACCCAAGA
* * *
47811656 TTATCTTCTCCTTTTTTTTTTAATTCTTTTTTT-AACAACCCAAGA
1 TTATCTTCT--TCTCTTTTTAAATTCTTTTTTTCAACAACCCAAGA
47811701 TTATCTTCTT
1 TTATCTTCTT
47811711 TTTAAAGTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.02
44 9 0.18
45 21 0.42
46 19 0.38
ACGTcount: A:0.22, C:0.21, G:0.02, T:0.55
Consensus pattern (44 bp):
TTATCTTCTTCTCTTTTTAAATTCTTTTTTTCAACAACCCAAGA
Found at i:47818045 original size:13 final size:13
Alignment explanation
Indices: 47818027--47818051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47818017 TATATTGGAT
47818027 TTGATTATGTAAA
1 TTGATTATGTAAA
47818040 TTGATTATGTAA
1 TTGATTATGTAA
47818052 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:47818279 original size:17 final size:17
Alignment explanation
Indices: 47818256--47818296 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
47818246 ATTTTCTGTG
47818256 GCTTTCTGTTCTTTTGT
1 GCTTTCTGTTCTTTTGT
*
47818273 TCTTTCTGTTCTTTTGT
1 GCTTTCTGTTCTTTTGT
47818290 GCTTTCT
1 GCTTTCT
47818297 TTTGGCTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.15, T:0.66
Consensus pattern (17 bp):
GCTTTCTGTTCTTTTGT
Found at i:47818282 original size:9 final size:9
Alignment explanation
Indices: 47818257--47818296 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
47818247 TTTTCTGTGG
47818257 CTTTCTGTT
1 CTTTCTGTT
47818266 CTTT-TGTT
1 CTTTCTGTT
47818274 CTTTCTGTT
1 CTTTCTGTT
*
47818283 CTTT-TGTG
1 CTTTCTGTT
47818291 CTTTCT
1 CTTTCT
47818297 TTTGGCTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.00, C:0.20, G:0.12, T:0.68
Consensus pattern (9 bp):
CTTTCTGTT
Found at i:47837412 original size:27 final size:27
Alignment explanation
Indices: 47837356--47837418 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
47837346 GGTGTAATAT
* * *
47837356 AAAAGAAAGCCTTTGTTGCAAAGTATG
1 AAAAGAAAGCCTCTGTGGCAAAGTACG
*
47837383 AAAAGAAAGCCTCTGTGGGAAA-TCACG
1 AAAAGAAAGCCTCTGTGGCAAAGT-ACG
*
47837410 AAATGAAAG
1 AAAAGAAAG
47837419 TATTTGTGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (27 bp):
AAAAGAAAGCCTCTGTGGCAAAGTACG
Found at i:47845811 original size:15 final size:15
Alignment explanation
Indices: 47845787--47845818 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47845777 TATGCATGCA
*
47845787 AAATATAAAAGACAT
1 AAATACAAAAGACAT
47845802 AAATACAAAAGACAT
1 AAATACAAAAGACAT
47845817 AA
1 AA
47845819 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:47847238 original size:41 final size:41
Alignment explanation
Indices: 47847193--47847388 Score: 286
Period size: 41 Copynumber: 4.8 Consensus size: 41
47847183 ACTGGCACTT
* *
47847193 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATCA
*
47847234 AGCCTGCTAGACATAAAGTCTG-AATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATCA
* * * * *
47847274 AGCCTACTAGACGCAAAGTCTGAAATGTTTTACCGACGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATCA
* * *
47847315 AGCCTACTAGATGTAAAGTTTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATCA
47847356 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
47847389 TAGCAATAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 36 0.26
41 102 0.74
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:47847298 original size:81 final size:82
Alignment explanation
Indices: 47847193--47847388 Score: 304
Period size: 81 Copynumber: 2.4 Consensus size: 82
47847183 ACTGGCACTT
* * *
47847193 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCAAGCCTGCTAGACATAAAGTCTG-A
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGACGTCAAGCCTACTAGACATAAAGTCTGAA
47847257 ATGTTTCACCGGCATCA
66 ATGTTTCACCGGCATCA
* * * ** *
47847274 AGCCTACTAGACGCAAAGTCTGAAATGTTTTACCGACGTCAAGCCTACTAGATGTAAAGTTTGAA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGACGTCAAGCCTACTAGACATAAAGTCTGAA
47847339 ATGTTTCACCGGCATCA
66 ATGTTTCACCGGCATCA
47847356 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
47847389 TAGCAATAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 54 0.53
82 48 0.47
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (82 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGACGTCAAGCCTACTAGACATAAAGTCTGAA
ATGTTTCACCGGCATCA
Found at i:47852923 original size:14 final size:14
Alignment explanation
Indices: 47852884--47852923 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
47852874 TATTTCATTC
* *
47852884 AATCTCATTTAATA
1 AATCTAATTTATTA
*
47852898 CATCTAATTTATTA
1 AATCTAATTTATTA
47852912 AATCTAATTTAT
1 AATCTAATTTAT
47852924 CACATTTATT
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:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (14 bp):
AATCTAATTTATTA
Found at i:47852976 original size:38 final size:38
Alignment explanation
Indices: 47852925--47853011 Score: 126
Period size: 38 Copynumber: 2.3 Consensus size: 38
47852915 CTAATTTATC
47852925 ACATTTATTTCCTACA-CGTAAAAC-TTTTA-ATACATCTA
1 ACATTTATTTCCTACATC-T--AACTTTTTACATACATCTA
47852963 ACATTTATTTCCTACATCTAACTTTTTACATACATCTA
1 ACATTTATTTCCTACATCTAACTTTTTACATACATCTA
47853001 ACATTTATTTC
1 ACATTTATTTC
47853012 AACAGTTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
36 3 0.07
37 5 0.11
38 37 0.80
39 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.44
Consensus pattern (38 bp):
ACATTTATTTCCTACATCTAACTTTTTACATACATCTA
Found at i:47852980 original size:20 final size:20
Alignment explanation
Indices: 47852954--47853012 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
47852944 AAAACTTTTA
47852954 ATACATCTAACATTTATTTC
1 ATACATCTAACATTTATTTC
* *
47852974 CTACATCTAAC-TTT-TTAC
1 ATACATCTAACATTTATTTC
47852992 ATACATCTAACATTTATTTC
1 ATACATCTAACATTTATTTC
47853012 A
1 A
47853013 ACAGTTTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 13 0.39
19 6 0.18
20 14 0.42
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (20 bp):
ATACATCTAACATTTATTTC
Done.