Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 53 of 186
Found at i:16341547 original size:16 final size:18
Alignment explanation
Indices: 16341526--16341558 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16341516 TCCTCCTGCT
16341526 CTCTTTT-TTT-TTTCTC
1 CTCTTTTCTTTCTTTCTC
16341542 CTCTTTTCTTTCTTTCT
1 CTCTTTTCTTTCTTTCT
16341559 TTGTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
CTCTTTTCTTTCTTTCTC
Found at i:16341621 original size:28 final size:28
Alignment explanation
Indices: 16341581--16341635 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
16341571 AAATTTGGAC
16341581 CTGACTCTTATGATGAGATCTTATTAAT
1 CTGACTCTTATGATGAGATCTTATTAAT
16341609 CTGACTCTTATGATGAGATCTTATTAA
1 CTGACTCTTATGATGAGATCTTATTAA
16341636 CATAATTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (28 bp):
CTGACTCTTATGATGAGATCTTATTAAT
Found at i:16345924 original size:27 final size:28
Alignment explanation
Indices: 16345880--16345932 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
16345870 TTTTTGATCC
* * *
16345880 TTTTAAAATTTAATTATTTAA-TTTATT
1 TTTTAAAAATAAAATATTTAACTTTATT
16345907 TTTTAAAAATAAAATATTTAACTTTA
1 TTTTAAAAATAAAATATTTAACTTTA
16345933 ACCCTATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTAAAAATAAAATATTTAACTTTATT
Found at i:16356758 original size:3 final size:3
Alignment explanation
Indices: 16356750--16356887 Score: 102
Period size: 3 Copynumber: 45.3 Consensus size: 3
16356740 TGATAAAAGG
*
16356750 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA CCTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
16356795 CGATA CTA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA ATA TTA ATA
1 --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
16356842 TTA ATGGA A-A ATA ATA ATA GCA ATG ATA AT- ATA GTA ATA ATA ATA
1 ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16356887 A
1 A
16356888 AAGTGAAATT
Statistics
Matches: 103, Mismatches: 25, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
2 6 0.06
3 91 0.88
4 2 0.02
5 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16356986 original size:22 final size:23
Alignment explanation
Indices: 16356961--16357005 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
16356951 GATAGGAAAT
*
16356961 AATAATATGGTAA-AAAAATAAC
1 AATAATATGATAATAAAAATAAC
16356983 AATAATATGATAATAAAAATAAC
1 AATAATATGATAATAAAAATAAC
16357006 GGTGGTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (23 bp):
AATAATATGATAATAAAAATAAC
Found at i:16357306 original size:12 final size:12
Alignment explanation
Indices: 16357291--16357334 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
16357281 TAGAATATAA
16357291 TAATAATAATAG
1 TAATAATAATAG
16357303 TAATAATAATAG
1 TAATAATAATAG
**
16357315 -ATATAGCAATAG
1 TA-ATAATAATAG
16357327 TAATAATA
1 TAATAATA
16357335 GTAATGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:16357575 original size:22 final size:22
Alignment explanation
Indices: 16357550--16357594 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16357540 ATAGATATAA
*
16357550 TAATAGGTATATAACATGGTAT
1 TAATAGGTATATAACATAGTAT
* * *
16357572 TAATATGTGTATAATATAGTAT
1 TAATAGGTATATAACATAGTAT
16357594 T
1 T
16357595 TAAATGTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
TAATAGGTATATAACATAGTAT
Found at i:16359528 original size:87 final size:87
Alignment explanation
Indices: 16359354--16360021 Score: 668
Period size: 87 Copynumber: 7.7 Consensus size: 87
16359344 CAGCCTGTTA
* * *
16359354 CCCTACTGCTTAAGGGGTTAAGGTCTGTAAATCATCAGCCTGTTACCCTACTACTTAGGGGTTT-
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGGGGTTTA
* * *
16359418 AGGCTCATCGCTTTTGATCTATTT
64 AGGCTCATCACCTTCGATCTATTT
* * *
16359442 CCCTACTACTTAGGGGGTTAAGAAT-TGTAAATTCAACCTGTTACCCTACTGCTTAAGGGTTTAA
1 CCCTACTGCTTAGGGGGTTAAG-ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
*
16359506 GGCTCATCATCTTCGATCTATTT
65 GGCTCATCACCTTCGATCTATTT
* * * * *
16359529 CCCTACTGATTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTATTGCATAGAGGGTTAAA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAA
* * *
16359594 GGCCCATAACCTTCGATCT-GTT
65 GGCTCATCACCTTCGATCTATTT
* * * * * *
16359616 CCACCACTGCTTAAGGAGATAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
* * ** * ***
16359681 GGCCCTTCGTCTTTGAT-TGGCT
65 GGCTCATCACCTTCGATCTATTT
* * * ** * * *
16359703 CTACTACTGTTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGG-TTA
1 C-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTA
* * ** **
16359767 AGGCCCTTCATTTTCGATCT-GCT
64 AGGCTCATCACCTTCGATCTATTT
* * ** * *
16359790 CCATTACTGCTTAGGGAGACAAGATCTGT-AATTTAGCCTGTTACCCTACTGTTTAGGGGTTTAA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
*
16359854 GG-TCTATGACCTTCGATCTATTT
65 GGCTC-ATCACCTTCGATCTATTT
* *
16359877 CCCTATTGCTTAGGGGGTGAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
* *
16359942 GCTCATCGCCTTCGATCTGTTT
66 GCTCATCACCTTCGATCTATTT
* *
16359964 CCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
16360022 AGATAAGGCT
Statistics
Matches: 490, Mismatches: 75, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
85 4 0.01
86 92 0.19
87 293 0.60
88 100 0.20
89 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
GCTCATCACCTTCGATCTATTT
Found at i:16359902 original size:173 final size:173
Alignment explanation
Indices: 16359354--16360021 Score: 679
Period size: 175 Copynumber: 3.8 Consensus size: 173
16359344 CAGCCTGTTA
* * * * * *
16359354 CCCTACTGCTTAAGGGGTTAAGGTCTGTAAATCATCAGCCTGTTACCCTACTACTTAG-GGGTTT
1 CCCTACTGATTAGGGGGTCAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGAGGGTTA
* * * * * * * * * * *
16359418 AGGCTCATCGCTTTTGATCTATTTCC-CTACTACTTAGGGGGTTAAGAAT-TGTAAATTCAACCT
64 AGGCCCATCACCTTCGATCT-GTTCCACTACTGCTTAGGGAGATAAG-ATCTATAAATTTAGCCT
* *
16359481 GTTACCCTACTGCTTAAGGGTTTAAGGCTCATCATCTTCGATCTATTT
127 GTTACCCTACTGCTTAGGGGTTTAAGGCT-ATGATCTTCGATCTATTT
* * * *
16359529 CCCTACTGATTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTATTGCATAGAGGGTTAAA
1 CCCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGTT-AA
* * *
16359594 GGCCCATAACCTTCGATCTGTTCCACCACTGCTTAAGGAGATAAGATCTATAAATTTAGCCTGTT
65 GGCCCATCACCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGTT
* ***
16359659 ACCCTACTGCTTAGGGGTTTAAGGCCCT-TCG-TCTTTGAT-TGGCT
130 ACCCTACTGCTTAGGGGTTTAAGG--CTAT-GATCTTCGATCTATTT
* * * * * * *
16359703 CTACTACTGTTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGGTTAA
1 C-CCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGTTAA
* ** * * * *
16359768 GGCCCTTCATTTTCGATCTGCTCCATTACTGCTTAGGGAGACAAGATCTGT-AATTTAGCCTGTT
65 GGCCCATCACCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGTT
* *
16359832 ACCCTACTGTTTAGGGGTTTAAGGTCTATGACCTTCGATCTATTT
130 ACCCTACTGCTTAGGGGTTTAAGG-CTATGATCTTCGATCTATTT
* * *
16359877 CCCTATTGCTTAGGGGGTGAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAA
1 CCCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGG-TTAA
* * * *
16359941 GGCTCATCGCCTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTATAAATTTAGCCTGT
65 GGCCCATCACCTTCGATCTG-TTCCACTACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGT
16360005 TACCCTACTGCTTAGGG
129 TACCCTACTGCTTAGGG
16360022 AGATAAGGCT
Statistics
Matches: 402, Mismatches: 77, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
172 6 0.01
173 149 0.37
174 91 0.23
175 154 0.38
177 2 0.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (173 bp):
CCCTACTGATTAGGGGGTCAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAG
GCCCATCACCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTATAAATTTAGCCTGTTA
CCCTACTGCTTAGGGGTTTAAGGCTATGATCTTCGATCTATTT
Found at i:16359930 original size:43 final size:43
Alignment explanation
Indices: 16359330--16360021 Score: 218
Period size: 43 Copynumber: 15.9 Consensus size: 43
16359320 TTTCAGGGGG
* *
16359330 AAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * *
16359373 AAGGTCTGTAAATCATCAGCCTGTTACCCTACTACTTAGGGGTTT
1 AAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * * * * * * *
16359418 AGGCTCATCGCT--TTTGA-TCTATTTCCCTACTACTTAGGGGGTT
1 AAGATC-T-G-TAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * *
16359461 AAGAAT-TGTAAATTCAACCTGTTACCCTACTGCTTAAGGGTTT
1 AAG-ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * ** * * * *
16359504 AAGGCTCAT-CATCTTC-GATCTATTTCCCTACTGATTAGGGGGTT
1 AA-GATC-TGTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * * *
16359548 AAGATCTGTAAATTCAGCTTGTTACCCTATTGCATAGAGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
** ** * * * * * *
16359591 AAAGGCCCATAACCTTC-GATCTGTT-CCACCACTGCTTAAGGAGAT
1 -AAGATCTGTAA-ATTCAG-CCTGTTACC-CTACTGCTTAGGGGGTT
* * *
16359636 AAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
** ** * * * * * **
16359679 AAGGCCCTTCGT-CTTTGATTGGCT-CTA--CTACTGTTTAGGGAGAC
1 AA-GATC-T-GTAAATTCA--GCCTGTTACCCTACTGCTTAGGGGGTT
* * * *
16359723 AAGATCTATAAATTTAGCCTGTTACCCTACTACTTAGAGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
** ** * * * * **
16359766 AAGGCCCT-TCATTTTC-GATCTGCT-CCATTACTGCTTAGGGAGAC
1 AA-GATCTGT-AAATTCAG-CCTGTTACC-CTACTGCTTAGGGGGTT
* * *
16359810 AAGATCTGT-AATTTAGCCTGTTACCCTACTGTTTAGGGGTTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* * ** * * * * *
16359852 AAGGTCTATGACCTTC-GATCTATTTCCCTATTGCTTAGGGGGTG
1 AAGATCTGT-AAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
*
16359896 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * *
16359939 AAGGCTCATCG--CCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTT
1 AA-GATC-T-GTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* *
16359983 AAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
16360022 AGATAAGGCT
Statistics
Matches: 442, Mismatches: 159, Indels: 96
0.63 0.23 0.14
Matches are distributed among these distances:
40 4 0.01
41 4 0.01
42 34 0.08
43 182 0.41
44 153 0.35
45 54 0.12
46 6 0.01
47 4 0.01
48 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (43 bp):
AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
Found at i:16364723 original size:9 final size:10
Alignment explanation
Indices: 16364710--16364755 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
16364700 GGGAAAGTCT
16364710 AATGCAAAT-
1 AATGCAAATG
16364719 AATGC-AATG
1 AATGCAAATG
16364728 CAATGCAAATG
1 -AATGCAAATG
*
16364739 CATG-AAATG
1 AATGCAAATG
16364748 AATGCAAA
1 AATGCAAA
16364756 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:16364734 original size:19 final size:19
Alignment explanation
Indices: 16364710--16364755 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16364700 GGGAAAGTCT
*
16364710 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
16364728 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
16364748 AATGCAAA
1 AATGCAAA
16364756 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:16367937 original size:18 final size:18
Alignment explanation
Indices: 16367914--16367950 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16367904 TCTTATATAT
16367914 ATATTATTAATTAATAAA
1 ATATTATTAATTAATAAA
*
16367932 ATATTATTATTTAATAAA
1 ATATTATTAATTAATAAA
16367950 A
1 A
16367951 AATCATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTATTAATTAATAAA
Found at i:16367961 original size:18 final size:18
Alignment explanation
Indices: 16367924--16367963 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16367914 ATATTATTAA
* * *
16367924 TTAATAAAATATTATTAT
1 TTAATAAAAAATCATCAT
16367942 TTAATAAAAAATCATCAT
1 TTAATAAAAAATCATCAT
16367960 TTAA
1 TTAA
16367964 CAGCATCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATAAAAAATCATCAT
Found at i:16371987 original size:6 final size:6
Alignment explanation
Indices: 16371978--16372019 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
16371968 ATAAAATTAT
16371978 ATTTTA ATTTT- -TTTTAA ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTT-A ATTTTA ATTTTA ATTTTA ATTTTA A
16372020 CCTATAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
6 25 0.76
7 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:16372673 original size:9 final size:8
Alignment explanation
Indices: 16372652--16372676 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16372642 TATTCTCATC
16372652 ATTTTTAA
1 ATTTTTAA
16372660 ATTTTTAA
1 ATTTTTAA
16372668 ATTTTTAA
1 ATTTTTAA
16372676 A
1 A
16372677 AAATAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTTAA
Found at i:16372937 original size:11 final size:11
Alignment explanation
Indices: 16372921--16372947 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16372911 CGATTCCACA
16372921 TCATTTCTATC
1 TCATTTCTATC
16372932 TCATTTCTATC
1 TCATTTCTATC
16372943 TCATT
1 TCATT
16372948 CCAATAGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (11 bp):
TCATTTCTATC
Found at i:16373292 original size:21 final size:20
Alignment explanation
Indices: 16373268--16373332 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
16373258 TAACTAAAAG
16373268 AATATACAAACTAAAGTTGTA
1 AATATACAAACT-AAGTTGTA
*
16373289 AATACAGC-AA-TAAGTTGGTGA
1 AATATA-CAAACTAAGTT-GT-A
*
16373310 AA-ATAAAAACTAAGTTGTA
1 AATATACAAACTAAGTTGTA
16373329 AATA
1 AATA
16373333 CTTGTAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
19 8 0.23
20 10 0.29
21 16 0.46
22 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (20 bp):
AATATACAAACTAAGTTGTA
Found at i:16373293 original size:19 final size:18
Alignment explanation
Indices: 16373271--16373333 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 18
16373261 CTAAAAGAAT
16373271 ATACAAACTAAAGTTGTAA
1 ATACAAACT-AAGTTGTAA
16373290 ATACAGCAA-TAAGTTGGTGAAA
1 ATACA--AACTAAGTT-GT--AA
*
16373312 ATAAAAACTAAGTTGTAA
1 ATACAAACTAAGTTGTAA
16373330 ATAC
1 ATAC
16373334 TTGTAACCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
18 5 0.14
19 10 0.28
20 7 0.19
21 8 0.22
22 6 0.17
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (18 bp):
ATACAAACTAAGTTGTAA
Found at i:16376598 original size:2 final size:2
Alignment explanation
Indices: 16376591--16376625 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
16376581 ACCCTATTTC
*
16376591 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16376626 AACGTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16379986 original size:29 final size:30
Alignment explanation
Indices: 16379931--16379992 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
16379921 TGTTTTATTC
* *
16379931 ATATATTTTCTTTTAAATCTATTTATGTAT
1 ATATATTTCCTTTCAAATCTATTTATGTAT
16379961 ATATATTTCCTTTCAAATCTA-TTATGTAT
1 ATATATTTCCTTTCAAATCTATTTATGTAT
16379990 ATA
1 ATA
16379993 GTTTATTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (30 bp):
ATATATTTCCTTTCAAATCTATTTATGTAT
Found at i:16384030 original size:19 final size:19
Alignment explanation
Indices: 16384006--16384050 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16383996 ACGCCTTTTT
* *
16384006 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
16384025 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
16384044 TGCATTA
1 TGCATTA
16384051 AAGTCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:16392905 original size:178 final size:177
Alignment explanation
Indices: 16392603--16393111 Score: 577
Period size: 178 Copynumber: 2.9 Consensus size: 177
16392593 TTGTCTCCCT
* * *
16392603 GAGATAGCAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTTCTGAGGTAGTAGGGGAGCAGAT
1 GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGAT
* * * * * *
16392668 TTTAGTCACCAGCCTTATTTCTCT-AGGGTAGCATGAGAGCAGGCTAAAGATTGTAGTCTTATCT
66 TTTAGCCACCAGCCTTATCTCTCTGA-AGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCT
* *
16392732 TCCTGAGGAAGCAAGGGAGCAAACTGAAGATTGTAGATG-TTGTC-TCGAG
130 TCCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGATGATAG-CAT--AG
*
16392781 GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGTAGAT
1 GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGAT
* * * * *
16392846 TTTAGCCACCAGTCTTATCTCCCTGAAGTAGTAAGGGAGCAGGTTGAAGATTATAGTCTTATCTT
66 TTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTT
* * *
16392911 CCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGA-GATAGCATTG
131 CCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGATGATAGCATAG
* * * * *
16392957 G-G---GCA-T--ATCAAAATT--GG-C---AAATCTTATATTCAC-GAGATAGCAGGGGAGCAG
1 GAGATAGCAGTGGAGC-AAATTGAGGACGGTGAATCTTATCTTC-CTGAGGTAGTAGGGGAGCAG
*
16393008 ATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGTCTTATC
64 ATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATC
* * *
16393073 TTCTTGAGGAAGCAAGGGAGTAGACTGAAGATTGGAGAT
129 TTCCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGAT
16393112 CTTATCTCCC
Statistics
Matches: 288, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
164 118 0.41
165 1 0.00
167 1 0.00
168 2 0.01
169 2 0.01
170 5 0.02
171 1 0.00
172 3 0.01
175 1 0.00
176 2 0.01
177 2 0.01
178 149 0.52
179 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (177 bp):
GAGATAGCAGTGGAGCAAATTGAGGACGGTGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGAT
TTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTT
CCTGAGGAAGCAAGGGAGCAGACTGAAGATTGTAGATGATAGCATAG
Found at i:16392940 original size:44 final size:44
Alignment explanation
Indices: 16392856--16392941 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
16392846 TTTAGCCACC
* ** *
16392856 AGTCTTATCTCCCTGAAGTAGTAAGGGAGCAGGTTGAAGATTAT
1 AGTCTTATCTCCCTGAAGTAGCAAGGGAGCAGACTAAAGATTAT
* *
16392900 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAAGATT
1 AGTCTTATCTCCCTGAAGTAGCAAGGGAGCAGACTAAAGATT
16392942 GTAGAGATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTAGCAAGGGAGCAGACTAAAGATTAT
Found at i:16393071 original size:44 final size:45
Alignment explanation
Indices: 16393023--16393125 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
16393013 AGCCACCAGC
* *
16393023 CTTATCTCTCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
1 CTTATCTCTCTGAAGAAGCAAGGGAGCAGACTGAAGATTGGAGAT
* *
16393067 CTTATCT-TCTTGAGGAAGCAAGGGAGTAGACTGAAGATTGGAGAT
1 CTTATCTCTC-TGAAGAAGCAAGGGAGCAGACTGAAGATTGGAGAT
*
16393112 CTTATCTCCCTGAA
1 CTTATCTCTCTGAA
16393126 TAATTTGGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.04
44 36 0.72
45 11 0.22
46 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGAAGAAGCAAGGGAGCAGACTGAAGATTGGAGAT
Found at i:16393521 original size:13 final size:13
Alignment explanation
Indices: 16393505--16393532 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16393495 ACAAAGGAAT
16393505 AAACCAAATGTAA
1 AAACCAAATGTAA
16393518 AAACCAAATGTAA
1 AAACCAAATGTAA
16393531 AA
1 AA
16393533 TTATAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (13 bp):
AAACCAAATGTAA
Found at i:16395175 original size:30 final size:29
Alignment explanation
Indices: 16395134--16395201 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
16395124 CGAATATGTT
* *
16395134 TTATGTATATAT-TTT-CTTTTAAATCTA
1 TTATGTATATATATTTCCTTTCAAATATA
16395161 TTTATGTATATATATTTCCTTTCAAATATA
1 -TTATGTATATATATTTCCTTTCAAATATA
16395191 TTATGTATATA
1 TTATGTATATA
16395202 GTTTATTTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 12 0.33
29 14 0.39
30 10 0.28
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (29 bp):
TTATGTATATATATTTCCTTTCAAATATA
Found at i:16395195 original size:29 final size:28
Alignment explanation
Indices: 16395133--16395210 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
16395123 TCGAATATGT
* *
16395133 TTTATGTATATATTTTCTTTTAAATCTA
1 TTTATGTATATATTTTCTTTCAAATATA
16395161 TTTATGTATATATATTTCCTTTCAAATATA
1 TTTATGTATATAT-TTT-CTTTCAAATATA
* *
16395191 -TTATGTATATAGTTTATTTC
1 TTTATGTATATATTTTCTTTC
16395211 GTAGAAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.09
28 16 0.36
29 14 0.32
30 10 0.23
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTCAAATATA
Found at i:16397351 original size:6 final size:6
Alignment explanation
Indices: 16397340--16397374 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
16397330 TTTGAAGTGA
*
16397340 TCATCC TCATCC TCATAC TCATCC TCATCC TCATC
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATC
16397375 TTATCATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (6 bp):
TCATCC
Found at i:16399870 original size:17 final size:17
Alignment explanation
Indices: 16399838--16399881 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16399828 GATATGATAC
*
16399838 TAAAATTATTAAAAAAAT
1 TAAAA-TATAAAAAAAAT
16399856 TAAAATATAAAAAAAAT
1 TAAAATATAAAAAAAAT
16399873 TAAAA-ATAA
1 TAAAATATAA
16399882 TTTACTAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATATAAAAAAAAT
Found at i:16399884 original size:101 final size:104
Alignment explanation
Indices: 16399773--16399976 Score: 369
Period size: 102 Copynumber: 2.0 Consensus size: 104
16399763 GTAAAATTTA
16399773 AAAAATAATTTACTAAGAGTAATACT-AAAAAAATTATTAAAAAATGAAAGAGTTTGATATGATA
1 AAAAATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAGTTTGATATGATA
16399837 CTAAAATTATT-AAAAAAATT-AAAATATAAAAAAAATT
66 CTAAAATTATTAAAAAAAATTAAAAATATAAAAAAAATT
*
16399874 AAAAATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAATATGAAAGAGTTTGATATGATA
1 AAAAATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAGTTTGATATGATA
16399939 CTAAAATTATTAAAAAAAATTAAAAAATATAAAAAAAA
66 CTAAAATTATTAAAAAAAATT-AAAAATATAAAAAAAA
16399977 ATCAGGGAAA
Statistics
Matches: 98, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
101 26 0.27
102 48 0.49
103 9 0.09
105 15 0.15
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (104 bp):
AAAAATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAGTTTGATATGATA
CTAAAATTATTAAAAAAAATTAAAAATATAAAAAAAATT
Found at i:16399967 original size:49 final size:50
Alignment explanation
Indices: 16399799--16399968 Score: 152
Period size: 49 Copynumber: 3.4 Consensus size: 50
16399789 GAGTAATACT
16399799 AAAAAAATTATTAAAAA-ATGAAAGAGTTTGATATGATACTAAAATTATT-
1 AAAAAAATTA-TAAAAATATGAAAGAGTTTGATATGATACTAAAATTATTA
* * * * ** * * * *
16399848 AAAAAAATTA-AAATATA-AAAAAAATTAAAAATAATTTACTAAGAGTAATACTA
1 AAAAAAATTATAAAAATATGAAAGAGTTTGATATGA--TACTAA-A--ATTATTA
*
16399901 AAAAAAATTATTAAAATATGAAAGAGTTTGATATGATACTAAAATTATTA
1 AAAAAAATTATAAAAATATGAAAGAGTTTGATATGATACTAAAATTATTA
16399951 AAAAAAATTA-AAAAATAT
1 AAAAAAATTATAAAAATAT
16399969 AAAAAAAAAT
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
47 14 0.16
48 1 0.01
49 23 0.26
50 16 0.18
52 5 0.06
53 16 0.18
54 5 0.06
55 10 0.11
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (50 bp):
AAAAAAATTATAAAAATATGAAAGAGTTTGATATGATACTAAAATTATTA
Found at i:16400270 original size:23 final size:21
Alignment explanation
Indices: 16400227--16400271 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
16400217 AAAAGGTATC
16400227 TACAAATTAAATCTCTAAGAT
1 TACAAATTAAATCTCTAAGAT
*
16400248 TACAAGATTATATCTTCTAAGAT
1 TACAA-ATTAAATC-TCTAAGAT
16400271 T
1 T
16400272 GCATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 7 0.33
23 9 0.43
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (21 bp):
TACAAATTAAATCTCTAAGAT
Found at i:16400271 original size:15 final size:18
Alignment explanation
Indices: 16400251--16400353 Score: 117
Period size: 19 Copynumber: 5.8 Consensus size: 18
16400241 CTAAGATTAC
16400251 AAGATT-ATATC-T-TCT
1 AAGATTCATATCATATCT
16400266 AAGATTGCATATCATATCT
1 AAGATT-CATATCATATCT
16400285 AAGATTGCA-ATCATATCT
1 AAGATT-CATATCATATCT
*
16400303 AAGATT-GTATCATATCT
1 AAGATTCATATCATATCT
*
16400320 AAGATTGCATATAATATCT
1 AAGATT-CATATCATATCT
16400339 AAGATTGCATATCAT
1 AAGATT-CATATCAT
16400354 TGAAGATTAT
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.08
17 20 0.26
18 16 0.21
19 35 0.45
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
AAGATTCATATCATATCT
Found at i:16400319 original size:35 final size:37
Alignment explanation
Indices: 16400263--16400353 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
16400253 GATTATATCT
*
16400263 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATAATA
16400300 TCTAAGATTG-TATCATATCTAAGATTGCATATAATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATAATA
16400336 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
16400354 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATAATA
Found at i:16400328 original size:54 final size:53
Alignment explanation
Indices: 16400251--16400365 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 53
16400241 CTAAGATTAC
*
16400251 AAGATTATATCTTCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCT
1 AAGATTATATCTTCTAAGATTGCATATAATATCTAAGATTGCATATCATATCT
* *
16400303 AAGATTGTATCATATCTAAGATTGCATATAATATCTAAGATTGCATATCAT-T-G
1 AAGATTATATC-T-TCTAAGATTGCATATAATATCTAAGATTGCATATCATATCT
16400356 AAGATTATAT
1 AAGATTATAT
16400366 TTCCATATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
52 10 0.18
53 10 0.18
54 31 0.55
55 5 0.09
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (53 bp):
AAGATTATATCTTCTAAGATTGCATATAATATCTAAGATTGCATATCATATCT
Found at i:16400350 original size:14 final size:15
Alignment explanation
Indices: 16400277--16400331 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 15
16400267 AGATTGCATA
16400277 TCATATCTAAGATTG
1 TCATATCTAAGATTG
16400292 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
16400310 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
16400327 -CATAT
1 TCATAT
16400332 AATATCTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 5 0.14
17 16 0.44
18 15 0.42
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:16400361 original size:17 final size:19
Alignment explanation
Indices: 16400263--16400353 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
16400253 GATTATATCT
16400263 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16400282 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
16400300 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
16400317 TCTAAGATTGCATATAATA
1 TCTAAGATTGCATATCATA
16400336 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
16400354 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16400764 original size:44 final size:45
Alignment explanation
Indices: 16400716--16400828 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
16400706 TCTATCTTTG
*
16400716 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTATCTCCA
* * * * * *
16400760 ATCTGCTACCCGTCTAATACAAAGATGTCAAATCTGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTATCTCCA
* *
16400805 ATTTGCTCCCCGTCTAATATAGAG
1 ATCTGCTCCCCGTCTAATACAGAG
16400829 GTGTCGAATC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.58
45 24 0.42
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTATCTCCA
Found at i:16400839 original size:45 final size:45
Alignment explanation
Indices: 16400716--16400846 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
16400706 TCTATCTTTG
* * * *
16400716 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCA
* * *
16400760 ATCTGCTACCCGTCTAATACAAAGATGTCAAATCTGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCA
* * * * *
16400805 ATTTGCTCCCCGTCTAATATAGAGGTGTCGAATCTGTCATCT
1 ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCT
16400847 TGGATCTGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 33 0.46
45 39 0.54
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCA
Found at i:16401101 original size:78 final size:78
Alignment explanation
Indices: 16400967--16401390 Score: 593
Period size: 78 Copynumber: 5.4 Consensus size: 78
16400957 AGATCTGCTA
* *
16400967 ATCTGCTCCCCGTCTAATACATAGATGCCAAATCATCTTGGATCTGCCTCAATGAAGGTCCAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
* *
16401032 TGTTATGTATTTG
66 TGCTATGTCTTTG
*
16401045 ATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGAT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-AT
*
16401109 CTGCTGTGT-TTTCG
65 CTGCTATGTCTTT-G
* *
16401123 ATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCCAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
*
16401188 TGTTATGTCTTTG
66 TGCTATGTCTTTG
** * * *
16401201 ATCTGCTAGCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGTTTCAATAAAGGT-CAGAT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-AT
* *
16401265 CTGCTGTGTCTTCG
65 CTGCTATGTCTTTG
* *
16401279 ATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
*
16401344 TGCTATGTCTTCG
66 TGCTATGTCTTTG
* * **
16401357 ATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
16401391 TGTTTCTTTG
Statistics
Matches: 307, Mismatches: 33, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
77 7 0.02
78 294 0.96
79 6 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
TGCTATGTCTTTG
Found at i:16401193 original size:156 final size:155
Alignment explanation
Indices: 16400870--16401390 Score: 743
Period size: 156 Copynumber: 3.4 Consensus size: 155
16400860 ATGTAAACAC
* *
16400870 ATGAAGGT-CAGATCTACTATGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
16400934 TTGGATCTGCTTCAATGAAGGTCAGATCTGC------T-AATCTGCTCCCCGTCTAATACATAGA
65 TTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTTTCGATCTGCTCCCCGTCTAATACAGAGA
*
16400992 TGCCAAATCATCTTGGATCTGCCTCA
130 TGCCAAATCATCTTGGATCTGCTTCA
* * * *
16401018 ATGAAGGTCCAATCTGTTATGTATTTGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
16401083 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTTTTCGATTTGCTCCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTG-TTTCGATCTGCTCCCCGTCTAATACAGAGA
*
16401148 TGCCAAATCATCTTGGATCTGCTTTA
130 TGCCAAATCATCTTGGATCTGCTTCA
* * ** *
16401174 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTAGCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
16401239 TGGATCTGTTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGT-TTCGATCTGCTCCCCGTCTAATACAGAGA
16401304 TGCCAAATCATCTTGGATCTGCTTCA
130 TGCCAAATCATCTTGGATCTGCTTCA
* * * **
16401330 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
16401391 TGTTTCTTTG
Statistics
Matches: 333, Mismatches: 30, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
148 86 0.26
149 2 0.01
155 2 0.01
156 243 0.73
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (155 bp):
ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTTTCGATCTGCTCCCCGTCTAATACAGAGAT
GCCAAATCATCTTGGATCTGCTTCA
Found at i:16401307 original size:234 final size:226
Alignment explanation
Indices: 16400870--16401390 Score: 713
Period size: 234 Copynumber: 2.3 Consensus size: 226
16400860 ATGTAAACAC
* *
16400870 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
16400935 TGGATCTGCTTCAATGAAGGTCAGATCTGCTAATCTGCTCCCCGTCTAATACATAGATGCCAAAT
66 TGGATCTGCTTCAATGAAGGTCAGATCTGCTAATCTGCTACCCGTCTAATACAGAGATGCCAAAT
* * *
16401000 CATCTTGGATCTGCCTCAATGAAGGTCCAATCTGTTATGTATTTGATCTACTCCCCGTCTAATAC
131 CATCTTGGATCTGCCTCAATAAAGGTCCAATCTGCTATGTATTCGATCTACTCCCCGTCTAATAC
16401065 AGAGATGCCAAATCATCTTGGATCTGCTTCA
196 AGAGATGCCAAATCATCTTGGATCTGCTTCA
* * *
16401096 ATGAAGGTCAGATCTGCTGTGTTTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * * *
16401161 TGGATCTGCTTTAATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTAGCTGTCTAATACAGAG
66 TGGATCTGCTTCAATGAAGGT-CAGATC-----TG-C--TAATCTGCTACCCGTCTAATACAGAG
** * * *
16401225 ATGCCAAATCATCTTGGATCTGTTTCAATAAAGGT-CAGATCTGCTGTGTCTTCGATCTGCTCCC
122 ATGCCAAATCATCTTGGATCTGCCTCAATAAAGGTCCA-ATCTGCTATGTATTCGATCTACTCCC
*
16401289 CGTTTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
186 CGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
* * * **
16401330 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
16401391 TGTTTCTTTG
Statistics
Matches: 257, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
226 83 0.32
227 2 0.01
231 2 0.01
232 1 0.00
233 2 0.01
234 167 0.65
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (226 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCAGATCTGCTAATCTGCTACCCGTCTAATACAGAGATGCCAAAT
CATCTTGGATCTGCCTCAATAAAGGTCCAATCTGCTATGTATTCGATCTACTCCCCGTCTAATAC
AGAGATGCCAAATCATCTTGGATCTGCTTCA
Found at i:16401720 original size:219 final size:219
Alignment explanation
Indices: 16401332--16402357 Score: 1917
Period size: 219 Copynumber: 4.7 Consensus size: 219
16401322 CTGCTTCAAT
* *
16401332 GAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
16401397 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
66 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
16401462 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
131 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
16401527 ATCTACTTCGATGTGAAAACATCC
196 ATCTACTTCGATGTGAAAACATCC
16401551 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
16401616 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
66 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
16401681 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
131 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
16401746 ATCTACTTCGATGTGAAAACATCC
196 ATCTACTTCGATGTGAAAACATCC
16401770 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
16401835 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
66 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
16401900 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
131 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
16401965 ATCTACTTCGATGTGAAAACATCC
196 ATCTACTTCGATGTGAAAACATCC
16401989 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
16402054 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
66 TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
16402119 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
131 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
16402184 ATCTACTTCGATGTGAAAACATCC
196 ATCTACTTCGATGTGAAAACATCC
*
16402208 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * * ** * *
16402273 CTCGATTTGTTCTCTGAAAATACAGAGATGTTAAATCATCTTGGATCTGCTTTAGCGTAAACACC
66 TTTGATTT-TTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACG
* * *
16402338 TGAAGGTCAAGTCTGCTATG
130 TGAAAGCCAAATCTGCTATG
16402358 CTTTAGCCTG
Statistics
Matches: 792, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
219 725 0.92
220 67 0.08
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (219 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTTGATTTTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGT
GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
ATCTACTTCGATGTGAAAACATCC
Found at i:16414178 original size:17 final size:17
Alignment explanation
Indices: 16414156--16414214 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
16414146 ATTACAAAAT
16414156 TATATCTTCTAAGATTG
1 TATATCTTCTAAGATTG
16414173 TATATCATATCTAAGATTG
1 TATATC-T-TCTAAGATTG
*
16414192 TATCAT-ATCTAAGATTG
1 TAT-ATCTTCTAAGATTG
*
16414209 CATATC
1 TATATC
16414215 ATTGAAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 2 0.06
17 18 0.50
18 1 0.03
19 13 0.36
20 2 0.06
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (17 bp):
TATATCTTCTAAGATTG
Found at i:16414187 original size:19 final size:18
Alignment explanation
Indices: 16414163--16414216 Score: 83
Period size: 17 Copynumber: 2.9 Consensus size: 18
16414153 AATTATATCT
16414163 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
16414182 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
16414199 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
16414217 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:16417288 original size:24 final size:24
Alignment explanation
Indices: 16417231--16417276 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
16417221 AAACCAAACT
16417231 AGTTTAATAAATTTGTTTCGTAGA
1 AGTTTAATAAATTTGTTTCGTAGA
16417255 AGTTTAATAAATTTGTTTCGTA
1 AGTTTAATAAATTTGTTTCGTA
16417277 CATTGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (24 bp):
AGTTTAATAAATTTGTTTCGTAGA
Found at i:16418813 original size:7 final size:7
Alignment explanation
Indices: 16418801--16418855 Score: 85
Period size: 7 Copynumber: 7.9 Consensus size: 7
16418791 TTGAGAACTG
16418801 AAAATTA
1 AAAATTA
16418808 AAAATTA
1 AAAATTA
16418815 AAAATTA
1 AAAATTA
16418822 AAAATTA
1 AAAATTA
*
16418829 AAGATTA
1 AAAATTA
16418836 AAAA-TA
1 AAAATTA
16418842 TAAAATTA
1 -AAAATTA
16418850 AAAATT
1 AAAATT
16418856 GGAGATTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 2 0.05
7 40 0.91
8 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:16426790 original size:50 final size:49
Alignment explanation
Indices: 16426624--16426846 Score: 269
Period size: 49 Copynumber: 4.6 Consensus size: 49
16426614 AAATGCTGAC
* ** * * * *
16426624 GCCATGTCCC-GAACATGGTCTTACACTGGCTCACAAATC-AAAGTCGAT
1 GCCATGTCCCAG-ACATGGTCTTACACTAGCTTTCATATCTCAGGCCGAT
*
16426672 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAGGCCGAT
16426721 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTC-AGGCCGAT
* * * *
16426771 GTCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-ATGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCA-GGCCGAT
16426819 G-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCATGTCCCAGACATGGTCTTACACTAGC
16426847 ACACATATCA
Statistics
Matches: 159, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
46 12 0.08
47 15 0.09
48 41 0.26
49 50 0.31
50 41 0.26
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAGGCCGAT
Found at i:16426793 original size:99 final size:96
Alignment explanation
Indices: 16426668--16426846 Score: 270
Period size: 99 Copynumber: 1.8 Consensus size: 96
16426658 AAATCAAAGT
* *
16426668 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCAT-ATCTCAAGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATAT--AGCCGATG-CATGTCCCA
16426732 GACATGGTCTTACACTAGCTTTCATATCTCGAGGC
63 GACAT-GTCTTACACTAGCTTTCATATCTCGAGGC
* * *
16426767 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAGCCGATGCATGTCCCAGAC
16426832 ATGTCTTACACTAGC
66 ATGTCTTACACTAGC
16426847 ACACATATCA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
96 13 0.18
97 14 0.19
98 7 0.09
99 37 0.50
100 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTTTCATATCTCGAGGC
Found at i:16433195 original size:33 final size:32
Alignment explanation
Indices: 16433083--16433222 Score: 149
Period size: 33 Copynumber: 4.3 Consensus size: 32
16433073 ATGGTAAAAT
** *
16433083 TTGAAAAGGTTAGGTAAACTTTGTGTATACCA
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCA
* * *
16433115 TACGAAAAGGAAAGATATACTTTGTGTATATCA
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCA
16433148 TATGAAAAGGAAAGGTATACTTTGTGTATACCA
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCA
* *
16433181 CTTGAAAAGGAAAGGTACACTATATGTGTACA-C-
1 -TTGAAAAGGAAAGGTATACT-T-TGTGTATACCA
16433214 TTGAAAAGG
1 TTGAAAAGG
16433223 TTATGTGCAC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
32 10 0.11
33 73 0.78
34 3 0.03
35 7 0.08
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (32 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCA
Found at i:16433254 original size:33 final size:32
Alignment explanation
Indices: 16433206--16433321 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 32
16433196 TACACTATAT
** * *
16433206 GTGTACACTTGAAAAGGTTATGTGCACTTTGA
1 GTGTACACTTGAAAAGGGCATGTACACTTCGA
* *
16433238 GTGTACAAATTGAAAAGGGCATGTACACTTCGT
1 GTGTAC-ACTTGAAAAGGGCATGTACACTTCGA
* * * *
16433271 GTGTACCACTTGAAAAGGGAATTTACACCTCGG
1 GTGTA-CACTTGAAAAGGGCATGTACACTTCGA
*
16433304 GTGTACAACTAGAAAAGG
1 GTGTAC-ACTTGAAAAGG
16433322 AAAGGTCTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 7 0.10
33 61 0.88
34 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (32 bp):
GTGTACACTTGAAAAGGGCATGTACACTTCGA
Found at i:16441695 original size:54 final size:54
Alignment explanation
Indices: 16441610--16441713 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
16441600 CAGTCAAAAT
*
16441610 TGTTGAGAGTTAGCATCTATTGTCGACATCAACTCCCGTGCTCTCTGAGGGTTC
1 TGTTGAGAGTTAGCATCTATTGTCGAAATCAACTCCCGTGCTCTCTGAGGGTTC
16441664 TGTTGAGAGTTAGCATCTATTGTCGAAATCAACTCCCGTGCTCTCTGAGG
1 TGTTGAGAGTTAGCATCTATTGTCGAAATCAACTCCCGTGCTCTCTGAGG
16441714 TGTCATATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (54 bp):
TGTTGAGAGTTAGCATCTATTGTCGAAATCAACTCCCGTGCTCTCTGAGGGTTC
Found at i:16442369 original size:19 final size:19
Alignment explanation
Indices: 16442345--16442389 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16442335 AATCCCAATT
*
16442345 TTTCCTTT-TTCTTTCTTTC
1 TTTCCTTTCTT-TTTCCTTC
16442364 TTTCCTTTCTTTTTCCTTC
1 TTTCCTTTCTTTTTCCTTC
*
16442383 ATTCCTT
1 TTTCCTT
16442390 CCCTGTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCCTTTCTTTTTCCTTC
Found at i:16446536 original size:12 final size:12
Alignment explanation
Indices: 16446510--16446548 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16446500 ACGGAAAGGC
* *
16446510 AGATTCAGAGGA
1 AGATCCAGAGAA
*
16446522 AGATCCTGAGAA
1 AGATCCAGAGAA
16446534 AGATCCAGAGAA
1 AGATCCAGAGAA
16446546 AGA
1 AGA
16446549 AACGGGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.46, C:0.13, G:0.28, T:0.13
Consensus pattern (12 bp):
AGATCCAGAGAA
Found at i:16446680 original size:19 final size:19
Alignment explanation
Indices: 16446634--16446679 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
16446624 TAAGACTTAA
16446634 TTTATTTTTGGAATGATTC
1 TTTATTTTTGGAATGATTC
16446653 TTTATTTTTGGAATGATT-
1 TTTATTTTTGGAATGATTC
16446671 TTTATTTTT
1 TTTATTTTT
16446680 TTAGTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.20, C:0.02, G:0.13, T:0.65
Consensus pattern (19 bp):
TTTATTTTTGGAATGATTC
Found at i:16448198 original size:23 final size:23
Alignment explanation
Indices: 16448170--16448215 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16448160 GTACATTTTC
*
16448170 TTTTCTTACATGTTTATTTCTTA
1 TTTTCTTACATGTTTATTACTTA
*
16448193 TTTTCTTGCATGTTTATTACTTA
1 TTTTCTTACATGTTTATTACTTA
16448216 AAGGCAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.13, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTTCTTACATGTTTATTACTTA
Found at i:16463022 original size:11 final size:11
Alignment explanation
Indices: 16463006--16463046 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
16462996 GGATTTCAAA
16463006 TGTCGAATCAT
1 TGTCGAATCAT
16463017 TGTCGAATCAT
1 TGTCGAATCAT
*
16463028 TATCGAATCAT
1 TGTCGAATCAT
16463039 TGTCGAAT
1 TGTCGAAT
16463047 GTGTCTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (11 bp):
TGTCGAATCAT
Found at i:16465169 original size:20 final size:20
Alignment explanation
Indices: 16465144--16465185 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16465134 CCATTGCATA
* *
16465144 TTGACTTTTCTGTTTGAATT
1 TTGACTCTTCTGCTTGAATT
16465164 TTGACTCTTCTGCTTGAATT
1 TTGACTCTTCTGCTTGAATT
16465184 TT
1 TT
16465186 TGTCACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (20 bp):
TTGACTCTTCTGCTTGAATT
Found at i:16470545 original size:26 final size:26
Alignment explanation
Indices: 16470458--16470589 Score: 79
Period size: 26 Copynumber: 4.8 Consensus size: 26
16470448 AATTCATATT
* *
16470458 TTAATAATAATTATATTAAGAATGTTA
1 TTAATAATAATTATATTAA-AATATGA
* * * *
16470485 TTAATTCATATATTATTTTATTAAATTTTA
1 TTAA-TAATA-ATTATATTA--AAATATGA
*
16470515 TTTAATAATAATTATGTTAAAATATGA
1 -TTAATAATAATTATATTAAAATATGA
* * * *
16470542 TTAA-ATTATTTTTTATTAAAATATGT
1 TTAATAATA-ATTATATTAAAATATGA
16470568 TTAATAATAATCT-TATTAAAAT
1 TTAATAATAAT-TATATTAAAAT
16470590 TTAATAACAA
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
25 3 0.04
26 31 0.37
27 14 0.17
28 4 0.05
29 16 0.19
30 10 0.12
31 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TTAATAATAATTATATTAAAATATGA
Found at i:16470561 original size:52 final size:55
Alignment explanation
Indices: 16470430--16470586 Score: 153
Period size: 52 Copynumber: 2.8 Consensus size: 55
16470420 CCTCTGACTA
* * *
16470430 AATATTATGTTTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATT
1 AATA-TATATTTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATGATT
* *
16470487 AATTCATATATTATTTTATTAAATTTTATTTAATAATAATTATGTTAA-AATATGATT
1 AA-T-ATATATT-TTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGATT
* *
16470544 AA-AT-TATTTTTTATTAAAATATGTTTAATAATAATCT-TATTAA
1 AATATATATTTTTTATTAAATTATATTTAATAATAAT-TATATTAA
16470587 AATTTAATAA
Statistics
Matches: 86, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
52 29 0.34
53 5 0.06
54 2 0.02
57 11 0.13
58 25 0.29
59 10 0.12
60 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (55 bp):
AATATATATTTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGATT
Found at i:16473499 original size:91 final size:93
Alignment explanation
Indices: 16473388--16473558 Score: 240
Period size: 91 Copynumber: 1.8 Consensus size: 93
16473378 CATATATGTG
* * * *
16473388 CCGATGCCATGTCCCTGACATGGTCTTACACTGACAC-AT-CTCGTAGCCGATG-ATGTCCCAGA
1 CCGATGCCAAGCCCCAGACATGGTCTTACACTGACACAATAAT-GTAGCCGATGCATGTCCCAGA
16473450 CATGTCTTACACTAGCATTCGTCTCAATA
65 CATGTCTTACACTAGCATTCGTCTCAATA
* * *
16473479 CCGATGCCAAGCCCCAGACATGGTCTTACACTGACTCTAATAATGTGGTCGATGCATGTCCCAGA
1 CCGATGCCAAGCCCCAGACATGGTCTTACACTGACAC-AATAATGTAGCCGATGCATGTCCCAGA
16473544 CATGTCTTACACTAG
65 CATGTCTTACACTAG
16473559 TTCACACAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 33 0.48
93 10 0.14
94 26 0.38
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
CCGATGCCAAGCCCCAGACATGGTCTTACACTGACACAATAATGTAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCATTCGTCTCAATA
Found at i:16478972 original size:47 final size:46
Alignment explanation
Indices: 16478898--16479357 Score: 333
Period size: 47 Copynumber: 9.8 Consensus size: 46
16478888 GGTAAGGTAC
* *
16478898 CGATACCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGT
** * *
16478945 CGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCTTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAGT
* * * *
16478993 CAATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTTTCAAGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGT
* * *
16479038 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAGT
* * *
16479086 CGATG-CATGTCCCAGACATGTCTTAAACTGGCTTATATCTCAAGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGT
* * * * *
16479131 CGATGCCGTGTCCCAGATATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAGT
* * * *
16479179 CGATG-CATGTCCTAGACATGTCTTACACTGGCTTACGTCTCAAGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGT
* * * * * *
16479224 CTGATGCATGATGTCCTAGACATGTCTTACACTAGCGCTCGTCTCAA-T
1 C-GATGC--CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGT
* * * * * * * ***
16479272 GCTAATGTCATGTACCGGACATTGTCTTACACTAGCTCTCATAATGTGGT
1 -C-GATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACAT-CTCAAGT
*
16479322 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCAC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCAC
16479358 GCAAGTAACT
Statistics
Matches: 331, Mismatches: 60, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
45 16 0.05
46 101 0.31
47 132 0.40
48 41 0.12
49 40 0.12
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGT
Found at i:16479064 original size:93 final size:93
Alignment explanation
Indices: 16478904--16479257 Score: 512
Period size: 93 Copynumber: 3.8 Consensus size: 93
16478894 GTACCGATAC
* *
16478904 CATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTC
* *
16478969 TTACACTAACTATCATCTCTTAGCCAATG
65 TTACACTAACTATCATCTCGTAGCCGATG
* *
16478998 CATGTCCCAGACATGTCTTACACTGGCTTACGTTTCAAGTCGATGCCATGTCCCAGACATGGTCT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
*
16479063 TACACTGACTATCATCTCGTAGCCGATG
66 TACACTAACTATCATCTCGTAGCCGATG
* * * *
16479091 CATGTCCCAGACATGTCTTAAACTGGCTTATATCTCAAGTCGATGCCGTGTCCCAGATATGGTCT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
*
16479156 TACACTGACTATCATCTCGTAGCCGATG
66 TACACTAACTATCATCTCGTAGCCGATG
* * * * *
16479184 CATGTCCTAGACATGTCTTACACTGGCTTACGTCTCAAGGCTGATGCATGATGTCCTAGACAT-G
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGTC-GATGC--CATGTCCCAGACATGG
16479248 TCTTACACTA
63 TCTTACACTA
16479258 GCGCTCGTCT
Statistics
Matches: 234, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
93 196 0.84
94 18 0.08
95 10 0.04
96 10 0.04
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
TACACTAACTATCATCTCGTAGCCGATG
Found at i:16479156 original size:140 final size:140
Alignment explanation
Indices: 16478898--16479162 Score: 333
Period size: 140 Copynumber: 1.9 Consensus size: 140
16478888 GGTAAGGTAC
* *
16478898 CGATACCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGAC
1 CGATACCATGTCCCAGACACGGTCTTACACTGACTCACATCTCAAGCCGATGCCATGTCCCAGAC
* *
16478963 ATGGTCTTACACTAACTATCATCTCTTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTA
66 ATGGTCTTAAACTAACTATCATCTCTAAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTA
16479028 CGTTTCAAGT
131 CGTTTCAAGT
* * *
16479038 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCGATG-CATGTCCCAG
1 CGATACCATGTCCCAGACACGGTCTTACACTGACTCA-CATCTC-AAGCCGATGCCATGTCCCAG
** * * * *
16479101 ACAT-GTCTTAAACTGGCTTAT-ATCTC-AAGTCGATGCCGTGTCCCAGATATGGTCTTACACTG
64 ACATGGTCTTAAACTAAC-TATCATCTCTAAGCCAATG-CATGTCCCAGACAT-GTCTTACACTG
16479163 ACTATCATCT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 6 0.06
139 28 0.26
140 66 0.62
141 7 0.07
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (140 bp):
CGATACCATGTCCCAGACACGGTCTTACACTGACTCACATCTCAAGCCGATGCCATGTCCCAGAC
ATGGTCTTAAACTAACTATCATCTCTAAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTA
CGTTTCAAGT
Found at i:16482303 original size:46 final size:46
Alignment explanation
Indices: 16482207--16482419 Score: 166
Period size: 46 Copynumber: 4.6 Consensus size: 46
16482197 GCATATTTGT
* * *
16482207 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTATACTGGCACTCGTCTCA-AG
* * *
16482253 GCCGATGCATGTCCCAAACATGTCTTATACTGGC-TTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTATACTGGCACT-CGTCTCAAG
* * *
16482299 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTATACTGGCACTCGTCTCAAG
* * * * * * **
16482345 ACCGATGCTATGTCCTAGACATGGTCTTATACTGTCTCTCATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTATACTGGCACTCGT-CTCAAG
*
16482393 GTCGATGCATGTCCCAGACATGTCTTA
1 GCCGATGCATGTCCCAGACATGTCTTA
16482420 CACTAGCTCA
Statistics
Matches: 133, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
44 9 0.07
45 15 0.11
46 63 0.47
47 25 0.19
48 20 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTATACTGGCACTCGTCTCAAG
Found at i:16482399 original size:94 final size:92
Alignment explanation
Indices: 16482207--16482431 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 92
16482197 GCATATTTGT
16482207 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAGCCGATGCATGTCCCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAA
* *
16482270 ACATGTCTTATACTGGCTTACGTCTCGAG
64 ACATGTCTTATACTGGCTTACATATCGAG
* * * *
16482299 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATA-CCGATGCTATGTCCTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTC-ATAGCCGATGC-ATGTCCCAA
* *
16482363 ACATGGTCTTATACTGTCTCT-CATAAT-GTG
64 ACAT-GTCTTATACTGGCT-TACAT-ATCGAG
* *
16482393 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACA
16482432 CAAGTAACCC
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
90 10 0.09
91 15 0.13
92 21 0.18
93 14 0.12
94 52 0.46
95 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAAAC
ATGTCTTATACTGGCTTACATATCGAG
Found at i:16484512 original size:45 final size:45
Alignment explanation
Indices: 16484461--16484549 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
16484451 GTGAAATGCC
* * *
16484461 GTGCTAAAATTC-AGTTTAGTTTCCAATGCCTCTTGTAAATTTTTT
1 GTGCTAAAACTCAACTTT-GTTCCCAATGCCTCTTGTAAATTTTTT
*
16484506 GTGCTAAAACTCAACTTTGTTCCCAATGCCTCTTGTAACTTTTT
1 GTGCTAAAACTCAACTTTGTTCCCAATGCCTCTTGTAAATTTTT
16484550 CCAAAACCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 35 0.90
46 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (45 bp):
GTGCTAAAACTCAACTTTGTTCCCAATGCCTCTTGTAAATTTTTT
Found at i:16486772 original size:45 final size:46
Alignment explanation
Indices: 16486705--16486828 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
16486695 CATATGACCT
*
16486705 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
16486748 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
16486794 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
16486829 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:16486811 original size:46 final size:45
Alignment explanation
Indices: 16486705--16486976 Score: 216
Period size: 37 Copynumber: 6.8 Consensus size: 45
16486695 CATATGACCT
*
16486705 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
16486748 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
16486794 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
16486831 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
16486868 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
16486905 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
16486942 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
16486977 CACTTATCAC
Statistics
Matches: 210, Mismatches: 9, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
37 134 0.64
39 2 0.01
40 3 0.01
42 1 0.00
43 9 0.04
44 6 0.03
45 21 0.10
46 34 0.16
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:16486832 original size:37 final size:37
Alignment explanation
Indices: 16486791--16487003 Score: 363
Period size: 37 Copynumber: 5.8 Consensus size: 37
16486781 GCTGAAGCTA
* *
16486791 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16486828 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16486865 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16486902 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16486939 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16486976 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
16487004 AGTACTCAAA
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 167 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:16494505 original size:45 final size:46
Alignment explanation
Indices: 16494438--16494561 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
16494428 CATATGACCT
*
16494438 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
16494481 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
16494527 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
16494562 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:16494544 original size:46 final size:45
Alignment explanation
Indices: 16494438--16494635 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
16494428 CATATGACCT
*
16494438 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
16494481 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
16494527 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
16494564 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
16494601 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
16494636 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:16494565 original size:37 final size:37
Alignment explanation
Indices: 16494524--16494662 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
16494514 GCTGAAGCTA
* *
16494524 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16494561 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16494598 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
16494635 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
16494663 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:16499266 original size:23 final size:25
Alignment explanation
Indices: 16499240--16499286 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16499230 TATCATTCAT
*
16499240 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
16499263 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
16499287 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:16499607 original size:46 final size:46
Alignment explanation
Indices: 16499547--16499760 Score: 270
Period size: 46 Copynumber: 4.7 Consensus size: 46
16499537 TTTGACGTGA
* * * * *
16499547 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
16499593 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
16499639 TGCCATGATATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
16499685 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
*
16499731 TGCCATGGTATCCTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
16499761 ACAGAATATC
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 4 0.03
46 143 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:16502133 original size:31 final size:32
Alignment explanation
Indices: 16502057--16502133 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
16502047 CTAATAAAAT
*
16502057 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
16502089 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
16502119 AATATTAAAATATCT
1 AATAATAAAATATCT
16502134 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:16502802 original size:46 final size:46
Alignment explanation
Indices: 16502750--16502977 Score: 339
Period size: 46 Copynumber: 5.0 Consensus size: 46
16502740 AGTGTGCTCT
* *
16502750 CTGATATGAAATGTGTAAGACTATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16502796 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16502842 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
16502888 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
16502934 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
16502978 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 168 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16503239 original size:100 final size:100
Alignment explanation
Indices: 16503119--16503331 Score: 381
Period size: 100 Copynumber: 2.1 Consensus size: 100
16503109 GTCATATGGA
*
16503119 AATATATATACAAAATAGTTATATGAAATAATTATGAAGATAAACGAAATAAGTATAAGTACATG
1 AATAAATATAC-AAATAGTTATATGAAATAATTATGAAGATAAACGAAATAAGTATAAGTACATG
*
16503184 GAATATAATTTATGTTAAGATATAAGTTATTACCCG
65 GAATATAATTTATGTTAAGATATAAGCTATTACCCG
*
16503220 AATAAATATACAAATAGTTATATGAAATAATTATGAGGATAAACGAAATAAGTATAAGTACATGG
1 AATAAATATACAAATAGTTATATGAAATAATTATGAAGATAAACGAAATAAGTATAAGTACATGG
*
16503285 AATATAATTTATGTTAAGATATAAGCTATTACCGG
66 AATATAATTTATGTTAAGATATAAGCTATTACCCG
16503320 AATAAATATACA
1 AATAAATATACA
16503332 TAAAATATAT
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
100 98 0.91
101 10 0.09
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.31
Consensus pattern (100 bp):
AATAAATATACAAATAGTTATATGAAATAATTATGAAGATAAACGAAATAAGTATAAGTACATGG
AATATAATTTATGTTAAGATATAAGCTATTACCCG
Found at i:16504535 original size:3 final size:3
Alignment explanation
Indices: 16504527--16504556 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16504517 AAAGAAAAAG
16504527 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
16504557 TAAAACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16517324 original size:46 final size:45
Alignment explanation
Indices: 16517205--16517502 Score: 221
Period size: 46 Copynumber: 6.8 Consensus size: 45
16517195 TAGGATAGTG
* * * *
16517205 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
16517248 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
16517295 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
16517338 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
16517375 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
16517418 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
16517465 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
16517503 CCTGTATTAT
Statistics
Matches: 197, Mismatches: 39, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 22 0.11
40 2 0.01
41 24 0.12
42 1 0.01
43 1 0.01
44 69 0.35
45 1 0.01
46 70 0.36
47 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:16517451 original size:44 final size:44
Alignment explanation
Indices: 16517174--16517502 Score: 202
Period size: 44 Copynumber: 7.6 Consensus size: 44
16517164 TTTAATCCAT
* * * *
16517174 TCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCTGC
* * ** **
16517217 TCCGCTGTAATCTCAGGGAGATGAGATCT-CTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTTGATCTGC
* * * *
16517261 TCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCTGC
* * *
16517307 TCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TGTGATCTTC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTTGATCTGC
* * * * *
16517348 TCTACTGTAA-CTTCAGAGAGATACGA-T-C---CTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCTGC
* * *
16517387 TCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGC
* * * *
16517431 TCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCTGC
16517477 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
16517503 CCTGTATTAT
Statistics
Matches: 221, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.11
40 3 0.01
41 29 0.13
43 21 0.10
44 72 0.33
45 3 0.01
46 68 0.31
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGC
Found at i:16526575 original size:36 final size:36
Alignment explanation
Indices: 16526528--16526600 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16526518 CCTTCAACTG
16526528 CGTCTTCTCGTCTTGGCAATCTAGTAGACTCTTTCC
1 CGTCTTCTCGTCTTGGCAATCTAGTAGACTCTTTCC
16526564 CGTCTTCTCGTCTTGGCAATCTAGTAGACTCTTTCC
1 CGTCTTCTCGTCTTGGCAATCTAGTAGACTCTTTCC
16526600 C
1 C
16526601 AAGGCGACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.14, C:0.32, G:0.16, T:0.38
Consensus pattern (36 bp):
CGTCTTCTCGTCTTGGCAATCTAGTAGACTCTTTCC
Found at i:16535806 original size:36 final size:36
Alignment explanation
Indices: 16535705--16535807 Score: 111
Period size: 35 Copynumber: 2.9 Consensus size: 36
16535695 AAATCATAAT
* * *
16535705 AAAGGTTTGCACCCAACGCTAGTCGGATAAACTGAC
1 AAAGATTTGCACCTAGCGCTAGTCGGATAAACTGAC
* * * * *
16535741 AGTAGATGTG-ACCT-GCACTAGTCGAATAAATTGAC
1 A-AAGATTTGCACCTAGCGCTAGTCGGATAAACTGAC
16535776 AAAGATTTGCACCTAGCGCTAGTCGGATAAAC
1 AAAGATTTGCACCTAGCGCTAGTCGGATAAAC
16535808 CGAGAGTCAC
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
34 6 0.12
35 22 0.43
36 18 0.35
37 5 0.10
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (36 bp):
AAAGATTTGCACCTAGCGCTAGTCGGATAAACTGAC
Found at i:16543083 original size:12 final size:12
Alignment explanation
Indices: 16543066--16543101 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
16543056 ACTCTTGCTC
16543066 AAAAAAAAGAAA
1 AAAAAAAAGAAA
16543078 AAAAAAAAGAAA
1 AAAAAAAAGAAA
16543090 AAAGAAAAAGAA
1 AAA-AAAAAGAA
16543102 GCAAGCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:16543084 original size:13 final size:13
Alignment explanation
Indices: 16543066--16543101 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16543056 ACTCTTGCTC
16543066 AAAAAAAAG-AAA
1 AAAAAAAAGAAAA
16543078 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
*
16543091 AAGAAAAAGAA
1 AAAAAAAAGAA
16543102 GCAAGCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:16544555 original size:3 final size:3
Alignment explanation
Indices: 16544549--16544582 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
16544539 AAAAAAAAAA
*
16544549 AAG AAG AAG AAG AAA AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16544583 AGTGAGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16544566 original size:15 final size:15
Alignment explanation
Indices: 16544546--16544579 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
16544536 AAAAAAAAAA
16544546 AAAAAGAAGAAGAAG
1 AAAAAGAAGAAGAAG
16544561 AAAAAGAAGAAGAAG
1 AAAAAGAAGAAGAAG
16544576 AAAA
1 AAAA
16544580 GAAAGTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGAAG
Found at i:16549250 original size:15 final size:15
Alignment explanation
Indices: 16549230--16549265 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16549220 TTATATGGCC
*
16549230 TGACACATAGGCATG
1 TGACACATAGACATG
16549245 TGACACATAGACATG
1 TGACACATAGACATG
16549260 TGACAC
1 TGACAC
16549266 GGCCGTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (15 bp):
TGACACATAGACATG
Found at i:16553463 original size:16 final size:16
Alignment explanation
Indices: 16553444--16553496 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
16553434 GAAAAAAATA
* *
16553444 TTTCTATTCTTTTATT
1 TTTCTATTCTTTCAAT
*
16553460 TTTCTACTCTTTCAAT
1 TTTCTATTCTTTCAAT
16553476 TTTCTA-TCTTCTCAAT
1 TTTCTATTCTT-TCAAT
16553492 TTTCT
1 TTTCT
16553497 TTCCATTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTCTATTCTTTCAAT
Found at i:16554903 original size:3 final size:3
Alignment explanation
Indices: 16554895--16554935 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
16554885 AAAGGAAGAT
* * *
16554895 GGA GGA GGA AGA AGA AGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
16554936 CTTCGGCGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:16556473 original size:16 final size:19
Alignment explanation
Indices: 16556452--16556493 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
16556442 TAAATTTGTT
16556452 TTATTTGAT-TTTT-T-AA
1 TTATTTGATCTTTTATAAA
*
16556468 TTATTTTATCTTTTATAAA
1 TTATTTGATCTTTTATAAA
16556487 TTATTTG
1 TTATTTG
16556494 TCGGGGGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 1 0.05
19 8 0.38
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTTGATCTTTTATAAA
Found at i:16557091 original size:27 final size:28
Alignment explanation
Indices: 16557034--16557091 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
16557024 ATATTCTATC
* * * * *
16557034 AAAATATGAATAGACATTGTTTTATATT
1 AAAATAAGAATACACATTGTGTTAAAAT
16557062 AAAATAAGAATACA-ATTGTGTTAAAAT
1 AAAATAAGAATACACATTGTGTTAAAAT
16557089 AAA
1 AAA
16557092 TTAAAAACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (28 bp):
AAAATAAGAATACACATTGTGTTAAAAT
Found at i:16559841 original size:23 final size:23
Alignment explanation
Indices: 16559811--16559857 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16559801 AAGGATTTGT
16559811 TTACATAGTTCGATTTTCCTACA
1 TTACATAGTTCGATTTTCCTACA
16559834 TTACATAGTTCGATTTTCCTACA
1 TTACATAGTTCGATTTTCCTACA
16559857 T
1 T
16559858 CCGTGGAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (23 bp):
TTACATAGTTCGATTTTCCTACA
Found at i:16565890 original size:16 final size:16
Alignment explanation
Indices: 16565869--16565902 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16565859 ACTATTTAAT
*
16565869 AATATCAAAGGTTCTC
1 AATATCAAAGATTCTC
16565885 AATATCAAAGATTCTC
1 AATATCAAAGATTCTC
16565901 AA
1 AA
16565903 CACTCCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (16 bp):
AATATCAAAGATTCTC
Found at i:16567938 original size:21 final size:21
Alignment explanation
Indices: 16567905--16567944 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16567895 AATATTATTT
*
16567905 TTTATTATCTTTATCTTTAAA
1 TTTATTATATTTATCTTTAAA
* *
16567926 TTTATTTTATTTATTTTTA
1 TTTATTATATTTATCTTTA
16567945 TAAAATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTATATTTATCTTTAAA
Found at i:16567939 original size:27 final size:29
Alignment explanation
Indices: 16567892--16567945 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
16567882 TGGTCTATTG
*
16567892 TTAAATATTATTTTTTATTATCTTTATCT
1 TTAAATATTATTTTATATTATCTTTATCT
*
16567921 TTAAAT-TTATTTTAT-TTATTTTTAT
1 TTAAATATTATTTTATATTATCTTTAT
16567946 AAAATATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 8 0.35
29 6 0.26
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (29 bp):
TTAAATATTATTTTATATTATCTTTATCT
Found at i:16570463 original size:18 final size:18
Alignment explanation
Indices: 16570427--16570507 Score: 128
Period size: 18 Copynumber: 4.5 Consensus size: 18
16570417 AATCATATCT
*
16570427 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
16570446 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
16570464 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
16570481 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
16570499 TCTAAGATT
1 TCTAAGATT
16570508 ACATATCATT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.28
18 31 0.53
19 11 0.19
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:16570485 original size:35 final size:36
Alignment explanation
Indices: 16570427--16570516 Score: 146
Period size: 35 Copynumber: 2.5 Consensus size: 36
16570417 AATCATATCT
16570427 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
16570464 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
16570499 TCTAAGATTACATATCAT
1 TCTAAGATT-GATATCAT
16570517 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
35 34 0.68
37 16 0.32
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:16574418 original size:46 final size:46
Alignment explanation
Indices: 16574363--16574579 Score: 362
Period size: 46 Copynumber: 4.7 Consensus size: 46
16574353 GGTTGAGCAT
* * *
16574363 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAAAGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
16574409 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
16574455 ACGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
16574501 ACGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
16574547 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
16574580 GGGGCGGGTT
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 162 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:16582239 original size:34 final size:34
Alignment explanation
Indices: 16582146--16582230 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
16582136 ATACCTTTCG
* *
16582146 TAAGCCTCCCCCATGTGTGGTAGTAAGACCCCCA
1 TAAGCCTCCCTCATGTGTGGTAGTAGGACCCCCA
16582180 TAAGCCTCCCTCATGTGTGGTAGTAGGACCCCCA
1 TAAGCCTCCCTCATGTGTGGTAGTAGGACCCCCA
16582214 TAAGCCTCCCTCATGTG
1 TAAGCCTCCCTCATGTG
16582231 CAGGAGTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (34 bp):
TAAGCCTCCCTCATGTGTGGTAGTAGGACCCCCA
Found at i:16583411 original size:3 final size:3
Alignment explanation
Indices: 16583403--16583430 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16583393 TTAAAAAACA
16583403 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16583431 GCAAGCAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16584181 original size:17 final size:19
Alignment explanation
Indices: 16584159--16584193 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
16584149 GATTGAGATA
16584159 GAATTCT-TTCT-TTTTTT
1 GAATTCTGTTCTGTTTTTT
16584176 GAATTCTGTTCTGTTTTT
1 GAATTCTGTTCTGTTTTT
16584194 CGGTTCTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (19 bp):
GAATTCTGTTCTGTTTTTT
Found at i:16584192 original size:18 final size:17
Alignment explanation
Indices: 16584159--16584193 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16584149 GATTGAGATA
*
16584159 GAATTCTTTCTTTTTTT
1 GAATTCTTTCTGTTTTT
16584176 GAATTCTGTTCTGTTTTT
1 GAATTCT-TTCTGTTTTT
16584194 CGGTTCTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (17 bp):
GAATTCTTTCTGTTTTT
Found at i:16586085 original size:23 final size:23
Alignment explanation
Indices: 16586037--16586091 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
16586027 AACTCGTCTG
* *
16586037 AGCTTACTG-TTCAGCTTCTCAG
1 AGCTTACTGTTTCAGCTTATCAC
16586059 AGCTTACTGTTTCAGCTTAAT-AC
1 AGCTTACTGTTTCAGCTT-ATCAC
*
16586082 AGCTAACTGT
1 AGCTTACTGT
16586092 CCATCAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.32
23 18 0.64
24 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTTATCAC
Found at i:16592461 original size:3 final size:3
Alignment explanation
Indices: 16592453--16592477 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16592443 GCAAAGACGA
16592453 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
16592478 TCAAAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16592654 original size:3 final size:3
Alignment explanation
Indices: 16592646--16592685 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16592636 TTGTAATAAG
16592646 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16592686 AGTATAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16593514 original size:13 final size:13
Alignment explanation
Indices: 16593496--16593520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16593486 GAAAACCCCT
16593496 TTTATTATTATTA
1 TTTATTATTATTA
16593509 TTTATTATTATT
1 TTTATTATTATT
16593521 GCTTTAAAAT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:16594290 original size:44 final size:44
Alignment explanation
Indices: 16594230--16594343 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
16594220 TTCCATCTAC
*
16594230 TCCACTGCAACTTCAAGGAGATAAGATTAGTAGCTTTAATCTGT
1 TCCACTGCAAATTCAAGGAGATAAGATTAGTAGCTTTAATCTGT
* * * * * *
16594274 TCCATTGTAAATTCAAGGAGATAAGGTTTGTAGTTTTAGTCTGT
1 TCCACTGCAAATTCAAGGAGATAAGATTAGTAGCTTTAATCTGT
* *
16594318 TCCACTGCAACTTTAAGGAGATAAGA
1 TCCACTGCAAATTCAAGGAGATAAGA
16594344 CTCGTAACTT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (44 bp):
TCCACTGCAAATTCAAGGAGATAAGATTAGTAGCTTTAATCTGT
Found at i:16594371 original size:88 final size:88
Alignment explanation
Indices: 16594230--16594390 Score: 198
Period size: 88 Copynumber: 1.8 Consensus size: 88
16594220 TTCCATCTAC
* * * * *** *
16594230 TCCACTGCAACTTCAAGGAGATAAGATTAGTAGCTTTAATCTGTTCCATTGTAAATTCAAGG-AG
1 TCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAACCTACCCCACTGTAAATTC-AGGTAG
16594294 ATAAGGTTTGTAGTTTTAGTCTGT
65 ATAAGGTTTGTAGTTTTAGTCTGT
* * * *
16594318 TCCACTGCAACTTTAAGGAGATAAGACTCGTAACTTCAACCTACCCCACTGTAACTTCAGGTTGA
1 TCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAACCTACCCCACTGTAAATTCAGGTAGA
16594383 TAAGGTTT
66 TAAGGTTT
16594391 ACAGCTTTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
87 3 0.05
88 57 0.95
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (88 bp):
TCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAACCTACCCCACTGTAAATTCAGGTAGA
TAAGGTTTGTAGTTTTAGTCTGT
Found at i:16609121 original size:22 final size:23
Alignment explanation
Indices: 16609071--16609122 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
16609061 CTCATAAAAT
*
16609071 CTTACTATTCTTAGCTCGTATGAG
1 CTTACTATTC-TAGCTCGTAGGAG
*
16609095 CTTACTATTC-AGCTCGTCGGAG
1 CTTACTATTCTAGCTCGTAGGAG
*
16609117 TTTACT
1 CTTACT
16609123 GTTTTAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.60
24 10 0.40
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (23 bp):
CTTACTATTCTAGCTCGTAGGAG
Found at i:16613716 original size:7 final size:7
Alignment explanation
Indices: 16613706--16613730 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16613696 AATATTAAAA
16613706 TATATTT
1 TATATTT
16613713 TATATTT
1 TATATTT
16613720 TATATTT
1 TATATTT
16613727 TATA
1 TATA
16613731 CAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:16615484 original size:21 final size:20
Alignment explanation
Indices: 16615451--16615489 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16615441 CACAAACTCC
*
16615451 ACTACTGTTCTAACTTCACT
1 ACTACAGTTCTAACTTCACT
*
16615471 ACTACAGTATCTAATTTCA
1 ACTACAGT-TCTAACTTCA
16615490 TCACTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (20 bp):
ACTACAGTTCTAACTTCACT
Found at i:16615495 original size:21 final size:20
Alignment explanation
Indices: 16615450--16615500 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
16615440 ACACAAACTC
*
16615450 CACTACTGT-TCTAACTTCA
1 CACTACAGTATCTAACTTCA
*
16615469 CTACTACAGTATCTAATTTCA
1 C-ACTACAGTATCTAACTTCA
*
16615490 TCACTATAGTA
1 -CACTACAGTA
16615501 ATTAATCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 7 0.27
21 17 0.65
22 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (20 bp):
CACTACAGTATCTAACTTCA
Found at i:16616400 original size:23 final size:24
Alignment explanation
Indices: 16616349--16616407 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
16616339 AATTTTAAAA
16616349 TTATTTTA-AAATATATTGAACTAC
1 TTATTTTATAAATATATT-AACTAC
*
16616373 ATATTTTATAAATATATT-ACT-C
1 TTATTTTATAAATATATTAACTAC
*
16616395 GTTATTTTTTAAA
1 -TTATTTTATAAA
16616408 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 1 0.03
23 13 0.43
24 7 0.23
25 9 0.30
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (24 bp):
TTATTTTATAAATATATTAACTAC
Found at i:16618348 original size:23 final size:22
Alignment explanation
Indices: 16618322--16618365 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16618312 TGCTCATATC
* *
16618322 TCTACTAGTATTAAATCATTTAT
1 TCTACTACTACTAAAT-ATTTAT
16618345 TCTACTACTACTAAATATTTA
1 TCTACTACTACTAAATATTTA
16618366 AGTGTGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (22 bp):
TCTACTACTACTAAATATTTAT
Found at i:16627150 original size:71 final size:71
Alignment explanation
Indices: 16627029--16627173 Score: 191
Period size: 71 Copynumber: 2.0 Consensus size: 71
16627019 TACAAGCTTT
* * * * * * ***
16627029 ATTTGATGTTGCTCACTCAAATTGTCGAGAATCTATAATATATGCTGGATCTCAGCCATTGGTAA
1 ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
16627094 AGAATA
66 AGAATA
* *
16627100 ATTTGATGTTGCTCACTCAAGCTATCGAGAATCCACAACATATGCCGGATCTCATCCATCAATAA
1 ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
16627165 AGAATA
66 AGAATA
16627171 ATT
1 ATT
16627174 CATATTCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (71 bp):
ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
AGAATA
Found at i:16629199 original size:34 final size:34
Alignment explanation
Indices: 16629156--16629225 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
16629146 AACATGATCA
16629156 AAACTAAGCACCAACTAGGCCATATATCAAGATT
1 AAACTAAGCACCAACTAGGCCATATATCAAGATT
*
16629190 AAACTAAGCACCAATTAGGCCATATATCAAGATT
1 AAACTAAGCACCAACTAGGCCATATATCAAGATT
16629224 AA
1 AA
16629226 CATACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (34 bp):
AAACTAAGCACCAACTAGGCCATATATCAAGATT
Found at i:16640772 original size:3 final size:3
Alignment explanation
Indices: 16640764--16640793 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16640754 CAAAAGAAAT
16640764 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16640794 CAAAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16640883 original size:6 final size:6
Alignment explanation
Indices: 16640872--16640913 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
16640862 TCGCTGTGAC
16640872 TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT
1 TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT
16640914 AGCTTGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TGCCTT
Done.