Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 6198200
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 200361 characters in sequence are not A, C, G, or T
File 22 of 32
Found at i:3669005 original size:17 final size:16
Alignment explanation
Indices: 3668939--3668999 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
3668929 ATAAATTTTA
3668939 AATAAATATTTATTTATT
1 AATAAA-ATTT-TTTATT
*
3668957 AATTAAAATTTTTTAAT
1 AA-TAAAATTTTTTATT
**
3668974 AATAAAAACTTTTATT
1 AATAAAATTTTTTATT
3668990 AATAAAATTT
1 AATAAAATTT
3669000 AATTATAACG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 19 0.53
17 7 0.19
18 6 0.17
19 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAAAATTTTTTATT
Found at i:3669215 original size:13 final size:14
Alignment explanation
Indices: 3669192--3669225 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3669182 GTAATTAAAA
*
3669192 TAATATTTTATTTT
1 TAATATTTTATATT
3669206 TAAT-TTTTATATT
1 TAATATTTTATATT
3669219 TAATATT
1 TAATATT
3669226 ATAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TAATATTTTATATT
Found at i:3676165 original size:4 final size:4
Alignment explanation
Indices: 3676150--3676180 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
3676140 TACTAGGGAA
*
3676150 AAAG AGAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
3676181 CCATACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3679127 original size:2 final size:2
Alignment explanation
Indices: 3679120--3679156 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3679110 GCACTAAAGC
3679120 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3679157 CAGCTGCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3681841 original size:2 final size:2
Alignment explanation
Indices: 3681836--3681864 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3681826 AGGCACGAAC
3681836 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3681865 TGTGTTACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3682703 original size:19 final size:18
Alignment explanation
Indices: 3682650--3682708 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
3682640 TATATATTTA
*
3682650 ATTTAGTTTAATTTAAATT
1 ATTTA-TTTAATTTAAAAT
*
3682669 A-TTATTTAATAATAAAAT
1 ATTTATTTAAT-TTAAAAT
3682687 ATTTATTTAAATTTAAATAT
1 ATTTATTT-AATTTAAA-AT
3682707 AT
1 AT
3682709 AAATATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 6 0.18
18 9 0.27
19 11 0.33
20 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTATTTAATTTAAAAT
Found at i:3682930 original size:16 final size:16
Alignment explanation
Indices: 3682895--3682930 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
3682885 TTCTCTCTTT
3682895 TCTTTTGGCTGATATA
1 TCTTTTGGCTGATATA
3682911 --TTTTGGCTGATATA
1 TCTTTTGGCTGATATA
3682925 TCTTTT
1 TCTTTT
3682931 CTCTCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.78
16 4 0.22
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (16 bp):
TCTTTTGGCTGATATA
Found at i:3682931 original size:79 final size:79
Alignment explanation
Indices: 3682832--3682990 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
3682822 ATCACTTTTC
3682832 TTTTGGCTGATATATCTTTTCTCTCTTTCTCAGGGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
1 TTTTGGCTGATATATCTTTTCTCTCTTTCTCAGGGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
3682897 TTTTGGCTGATATA
66 TTTTGGCTGATATA
3682911 TTTTGGCTGATATATCTTTTCTCTCTTTCTCAGGGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
1 TTTTGGCTGATATATCTTTTCTCTCTTTCTCAGGGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
3682976 TTTTGGCTGATATA
66 TTTTGGCTGATATA
3682990 T
1 T
3682991 CTCTTCTCTC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.13, C:0.19, G:0.18, T:0.51
Consensus pattern (79 bp):
TTTTGGCTGATATATCTTTTCTCTCTTTCTCAGGGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
TTTTGGCTGATATA
Found at i:3682987 original size:65 final size:64
Alignment explanation
Indices: 3682911--3683031 Score: 206
Period size: 65 Copynumber: 1.9 Consensus size: 64
3682901 GGCTGATATA
* * *
3682911 TTTTGGCTGATATATCTTTTCTCTCTTTCTCAGGGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
1 TTTTGGCTGATATATCTCTTCTCTCTTCCTC-GAGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
3682976 TTTTGGCTGATATATCTCTTCTCTCTTCCTCGAGTGCCTGCAAGGTTTATGTTTCT
1 TTTTGGCTGATATATCTCTTCTCTCTTCCTCGAGTGCCTGCAAGGTTTATGTTTCT
3683032 GGGAACACCC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 24 0.45
65 29 0.55
ACGTcount: A:0.12, C:0.22, G:0.17, T:0.49
Consensus pattern (64 bp):
TTTTGGCTGATATATCTCTTCTCTCTTCCTCGAGTGCCTGCAAGGTTTATGTTTCTCTCTTTTC
Found at i:3688955 original size:18 final size:18
Alignment explanation
Indices: 3688929--3688972 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3688919 AATATAATTA
* * *
3688929 ATATATATTAAATGTGTT
1 ATATTTATTAAAAGTATT
3688947 ATATTTATTAAAAGTATT
1 ATATTTATTAAAAGTATT
*
3688965 ATGTTTAT
1 ATATTTAT
3688973 ATTATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (18 bp):
ATATTTATTAAAAGTATT
Found at i:3690919 original size:2 final size:2
Alignment explanation
Indices: 3690914--3690946 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3690904 TGTTGTTATG
3690914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3690947 GTATTTCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3695730 original size:3 final size:3
Alignment explanation
Indices: 3695722--3695746 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3695712 TTCTCCTCTG
3695722 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
3695747 AATGATGATG
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:3706043 original size:2 final size:2
Alignment explanation
Indices: 3706036--3706068 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3706026 AACAACTTCC
3706036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3706069 ACAATTTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3706908 original size:38 final size:38
Alignment explanation
Indices: 3706866--3706943 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
3706856 GTGGCTAGTT
* *
3706866 AGTTTATTTATGTA-GGTGGTTGGTTTATTGATAATTAA
1 AGTTTATTTATG-AGGGTGCTTGGTTTATAGATAATTAA
3706904 AGTTTATTTATGAGGGTGCTTGGTTTATAGATAATTAA
1 AGTTTATTTATGAGGGTGCTTGGTTTATAGATAATTAA
3706942 AG
1 AG
3706944 AAGTAGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (38 bp):
AGTTTATTTATGAGGGTGCTTGGTTTATAGATAATTAA
Found at i:3721287 original size:28 final size:29
Alignment explanation
Indices: 3721250--3721308 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
3721240 CACATTATTT
* * *
3721250 TAAGTGAAAATTT-AATTGTAGTTATAGA
1 TAAGTAAAAATTTAAATTATAATTATAGA
3721278 TAAGTAAAAATTTAAATTATAATTATAGA
1 TAAGTAAAAATTTAAATTATAATTATAGA
3721307 TA
1 TA
3721309 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
TAAGTAAAAATTTAAATTATAATTATAGA
Found at i:3723792 original size:14 final size:14
Alignment explanation
Indices: 3723773--3723827 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
3723763 GAAAATATTT
3723773 AATTTTATATTTTA
1 AATTTTATATTTTA
3723787 AATTTTATAATTTTA
1 AATTTTAT-ATTTTA
**
3723802 TTTATTTA-ATTTTA
1 AAT-TTTATATTTTA
*
3723816 TA-TTTATATTTT
1 AATTTTATATTTT
3723828 TAGATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 4 0.11
13 5 0.14
14 15 0.43
15 7 0.20
16 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTTATATTTTA
Found at i:3723797 original size:22 final size:22
Alignment explanation
Indices: 3723772--3723836 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
3723762 TGAAAATATT
3723772 TAATTTTATATTTTAAATTTTA
1 TAATTTTATATTTTAAATTTTA
*
3723794 TAATTTTAT-TTATTTAATTTTA
1 TAATTTTATATT-TTAAATTTTA
*
3723816 T-A-TTTATATTTTTAGATTTTA
1 TAATTTTATA-TTTTAAATTTTA
3723837 AAAAATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.14
21 11 0.30
22 21 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TAATTTTATATTTTAAATTTTA
Found at i:3723811 original size:36 final size:35
Alignment explanation
Indices: 3723768--3723836 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 35
3723758 CAAATGAAAA
3723768 TATTTAATTTTATATTTTAAATTTTATA-ATTTTATT
1 TATTTAATTTTATA-TTTAAATTTT-TAGATTTTATT
*
3723804 TATTTAATTTTATATTTATATTTTTAGATTTTA
1 TATTTAATTTTATATTTAAATTTTTAGATTTTA
3723837 AAAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 2 0.06
35 15 0.48
36 14 0.45
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (35 bp):
TATTTAATTTTATATTTAAATTTTTAGATTTTATT
Found at i:3723829 original size:14 final size:13
Alignment explanation
Indices: 3723767--3723827 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 13
3723757 ACAAATGAAA
*
3723767 ATATTTAAT-TTT
1 ATATTTTATATTT
*
3723779 ATATTTTAAATTTT
1 ATATTTTATA-TTT
3723793 ATAATTTTATTTATTT
1 AT-ATTTTA--TATTT
3723809 A-ATTTTATATTT
1 ATATTTTATATTT
3723821 ATATTTT
1 ATATTTT
3723828 TAGATTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 13 0.32
13 5 0.12
14 11 0.28
15 6 0.15
16 4 0.10
17 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATATTTTATATTT
Found at i:3723919 original size:7 final size:7
Alignment explanation
Indices: 3723909--3723954 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
3723899 CGATAATAAA
3723909 TAAATTT
1 TAAATTT
3723916 TAAATTT
1 TAAATTT
3723923 TAAATTT
1 TAAATTT
*
3723930 CATAA-TT
1 TA-AATTT
3723937 T-AATTT
1 TAAATTT
3723943 TAAATATT
1 TAAAT-TT
3723951 TAAA
1 TAAA
3723955 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 2 0.06
6 3 0.09
7 20 0.61
8 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:3726973 original size:26 final size:26
Alignment explanation
Indices: 3726944--3726993 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
3726934 ATATTTAATT
*
3726944 AAAATTTTATTAAA-ATATAAAAAATA
1 AAAATATT-TTAAATATATAAAAAATA
3726970 AAAATATTTTAAATATATAAAAAA
1 AAAATATTTTAAATATATAAAAAA
3726994 ATTAAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATATTTTAAATATATAAAAAATA
Found at i:3729851 original size:2 final size:2
Alignment explanation
Indices: 3729844--3729878 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
3729834 TACATTAAAT
3729844 TA TA TA TA TA TA TA TA TA TA T- TA TA TGA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T
3729879 TGTGATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3730725 original size:2 final size:2
Alignment explanation
Indices: 3730718--3730743 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3730708 GGATAATTTT
3730718 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3730744 CAGTATGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3736451 original size:20 final size:20
Alignment explanation
Indices: 3736426--3736465 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3736416 GTCTTGCTTT
3736426 TTTTTAATTA-ATTATTTTAA
1 TTTTT-ATTATATTATTTTAA
*
3736446 TTTTTATTATATTTTTTTAA
1 TTTTTATTATATTATTTTAA
3736466 AAATATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTATTATATTATTTTAA
Found at i:3736614 original size:17 final size:16
Alignment explanation
Indices: 3736580--3736635 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 16
3736570 TTGAATTAAA
3736580 ATTTTAAAATATTTAT
1 ATTTTAAAATATTTAT
3736596 ATTTTAAAATATATTATATT
1 ATTTT-AAA-ATATT-TA-T
*
3736616 ATTTTAAAATATTAAT
1 ATTTTAAAATATTTAT
3736632 ATTT
1 ATTT
3736636 ATAATTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 10 0.29
17 4 0.11
18 10 0.29
19 5 0.14
20 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAAAATATTTAT
Found at i:3736620 original size:20 final size:18
Alignment explanation
Indices: 3736580--3736627 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
3736570 TTGAATTAAA
3736580 ATTTT-AAA-ATATTTAT
1 ATTTTAAAATATATTTAT
3736596 ATTTTAAAATATATTATATT
1 ATTTTAAAATATATT-TA-T
3736616 ATTTTAAAATAT
1 ATTTTAAAATAT
3736628 TAATATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.18
17 3 0.11
18 5 0.18
19 2 0.07
20 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAAAATATATTTAT
Found at i:3736637 original size:20 final size:19
Alignment explanation
Indices: 3736580--3736637 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
3736570 TTGAATTAAA
3736580 ATTTTAAAATATT-TA--T
1 ATTTTAAAATATTATATTT
3736596 ATTTTAAAATA-TATTATATT
1 ATTTTAAAATATTA-TAT-TT
3736616 ATTTTAAAATATTAATATTT
1 ATTTTAAAATATT-ATATTT
3736636 AT
1 AT
3736638 AATTATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.03
16 11 0.31
17 2 0.06
20 16 0.46
21 4 0.11
22 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAAAATATTATATTT
Found at i:3736717 original size:3 final size:3
Alignment explanation
Indices: 3736709--3736742 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3736699 TATAAGAATG
3736709 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3736743 ATATATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3737379 original size:31 final size:31
Alignment explanation
Indices: 3737325--3737383 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
3737315 TATTAATAAT
3737325 TAATTTAAAAATTATTATAAAAAATATTATG
1 TAATTTAAAAATTATTATAAAAAATATTATG
3737356 TAATTTATTAAAATTA-TAT-AAAAATATT
1 TAATTTA--AAAATTATTATAAAAAATATT
3737384 TATATATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 16 0.62
32 3 0.12
33 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
TAATTTAAAAATTATTATAAAAAATATTATG
Found at i:3738100 original size:2 final size:2
Alignment explanation
Indices: 3738093--3738119 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3738083 CTAAGCAATT
3738093 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3738120 TCCTGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3739266 original size:2 final size:2
Alignment explanation
Indices: 3739259--3739302 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3739249 ATGCTGTTGA
3739259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3739301 AT
1 AT
3739303 TTCATTGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3742716 original size:13 final size:13
Alignment explanation
Indices: 3742698--3742722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3742688 TATTGGATGC
3742698 TTTTCTTTCTCTT
1 TTTTCTTTCTCTT
3742711 TTTTCTTTCTCT
1 TTTTCTTTCTCT
3742723 GTGGATTATG
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTCTCTT
Found at i:3745094 original size:21 final size:21
Alignment explanation
Indices: 3745053--3745094 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3745043 TTTTTACAAA
**
3745053 TTATTTATTAATGTACTAATT
1 TTATTTATTAATGTAAAAATT
3745074 TTATTTACTT-ATGTAAAAATT
1 TTATTTA-TTAATGTAAAAATT
3745095 AAGAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TTATTTATTAATGTAAAAATT
Found at i:3751720 original size:2 final size:2
Alignment explanation
Indices: 3751713--3751747 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3751703 TACAACGAAC
3751713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3751748 GTCCTTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3752746 original size:29 final size:28
Alignment explanation
Indices: 3752698--3752756 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
3752688 AATTAATCAA
3752698 ATAAGATTATAATTATTTTAGATTTATTT
1 ATAAGATTATAATTATTTTA-ATTTATTT
*
3752727 ATAAG-TT-TAATTATAATTTAATTTTTTT
1 ATAAGATTATAATTAT--TTTAATTTATTT
3752755 AT
1 AT
3752757 TTTTATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 7 0.26
28 11 0.41
29 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
ATAAGATTATAATTATTTTAATTTATTT
Found at i:3752749 original size:38 final size:41
Alignment explanation
Indices: 3752707--3752788 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 41
3752697 AATAAGATTA
*
3752707 TAATTATTTTAGATTTATT-TATAAGTTT-AATTATAAT-T
1 TAATTATTTTAGATTTATTATATAAATTTAAATTATAATAT
* ** *
3752745 TAATTTTTTTATTTTTATTATTTAAATTTAAATTATAATAT
1 TAATTATTTTAGATTTATTATATAAATTTAAATTATAATAT
3752786 TAA
1 TAA
3752789 AATATTACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 16 0.44
39 7 0.19
40 9 0.25
41 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (41 bp):
TAATTATTTTAGATTTATTATATAAATTTAAATTATAATAT
Found at i:3755785 original size:2 final size:2
Alignment explanation
Indices: 3755778--3755813 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3755768 AGCCAGGGGA
* *
3755778 AG AG AG AG AC AA AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3755814 GTAGATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.53, C:0.03, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3758269 original size:23 final size:23
Alignment explanation
Indices: 3758216--3758287 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
3758206 TTTATAAAAA
* * *
3758216 ATTATAACTTCAAGATA-AAAAT
1 ATTATAATTTAAAGATATTAAAT
* * *
3758238 TTTAAAATTTTAAGATATTAAAT
1 ATTATAATTTAAAGATATTAAAT
**
3758261 ATTATAATTTAAATTTATTAAAT
1 ATTATAATTTAAAGATATTAAAT
3758284 ATTA
1 ATTA
3758288 ATTTTTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 13 0.33
23 26 0.67
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTATAATTTAAAGATATTAAAT
Found at i:3759017 original size:32 final size:32
Alignment explanation
Indices: 3758962--3759035 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
3758952 TTATATTTAA
* *
3758962 AATATTTTATATTTTATAAATTTTAAAATATT
1 AATAATTTATATTATATAAATTTTAAAATATT
* *
3758994 AATAATTTGTATTATATATATTTTAAAATA-T
1 AATAATTTATATTATATAAATTTTAAAATATT
3759025 AA-AA-TTATATT
1 AATAATTTATATT
3759036 TTATTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 6 0.16
30 2 0.05
31 3 0.08
32 26 0.70
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
AATAATTTATATTATATAAATTTTAAAATATT
Found at i:3759062 original size:25 final size:24
Alignment explanation
Indices: 3759004--3759050 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3758994 AATAATTTGT
*
3759004 ATTATA-TATATTTTAAAATATAAA
1 ATTATATTTTATTTT-AAATATAAA
3759028 ATTATATTTTATTTTAAATATAA
1 ATTATATTTTATTTTAAATATAA
3759051 TTTAGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTATATTTTATTTTAAATATAAA
Found at i:3764449 original size:29 final size:30
Alignment explanation
Indices: 3764416--3764486 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
3764406 TGAATGACAC
* *
3764416 TTGAATTAAATTTTAAGTTAT-TT-TTTAAA
1 TTGAATTAAATTTTAAATTATATTAATT-AA
3764445 TTGAATTAAATTTTAAATTATATTAATTAA
1 TTGAATTAAATTTTAAATTATATTAATTAA
3764475 TTGAATTAAATT
1 TTGAATTAAATT
3764487 AAAAAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 20 0.53
30 16 0.42
31 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (30 bp):
TTGAATTAAATTTTAAATTATATTAATTAA
Found at i:3764507 original size:22 final size:22
Alignment explanation
Indices: 3764482--3764523 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3764472 TAATTGAATT
*
3764482 AAATTAAAAAATTATTTTTTTA
1 AAATTAAAAAATTATATTTTTA
* *
3764504 AAATTTAATAATTATATTTT
1 AAATTAAAAAATTATATTTT
3764524 GAGGGTCGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTAAAAAATTATATTTTTA
Found at i:3765142 original size:16 final size:16
Alignment explanation
Indices: 3765106--3765149 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3765096 ATACTATTAT
3765106 TATATTAA-TATTTAA
1 TATATTAATTATTTAA
* *
3765121 TTTATTAATTATTTTA
1 TATATTAATTATTTAA
*
3765137 TATATTTATTATT
1 TATATTAATTATT
3765150 AAATTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTAATTATTTAA
Found at i:3765155 original size:24 final size:24
Alignment explanation
Indices: 3765100--3765151 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
3765090 AATAAAATAC
3765100 TATT-ATTATATTAATATTTAATT
1 TATTAATTATATTAATATTTAATT
*
3765123 TATTAATTATTTTATATATTT-A-T
1 TATTAATTATATTA-ATATTTAATT
3765146 TATTAA
1 TATTAA
3765152 ATTAATATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTAATTATATTAATATTTAATT
Found at i:3766718 original size:20 final size:20
Alignment explanation
Indices: 3766693--3766730 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3766683 TTAATTTCTT
*
3766693 ATTTATTTTAAAAATAAATA
1 ATTTATTTGAAAAATAAATA
*
3766713 ATTTATTTGATAAATAAA
1 ATTTATTTGAAAAATAAA
3766731 AAGAGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATTTATTTGAAAAATAAATA
Found at i:3767028 original size:2 final size:2
Alignment explanation
Indices: 3767016--3767055 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3767006 GTTAAACACT
3767016 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3767056 TCATGACCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3767286 original size:2 final size:2
Alignment explanation
Indices: 3767281--3767306 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3767271 TATATAATCA
3767281 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3767307 GATAACCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3770721 original size:20 final size:20
Alignment explanation
Indices: 3770668--3770750 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
3770658 TTATATATTT
3770668 TTAATAA-TTAAATT-TAAA
1 TTAATAATTTAAATTATAAA
* ** *
3770686 TAAATAATTTTTATTATTAA
1 TTAATAATTTAAATTATAAA
3770706 TTAATAATTTAAATTAAATTAAA
1 TTAATAATTTAAATT--A-TAAA
*
3770729 TCGAATTAATTTAAATTATAAA
1 T-TAA-TAATTTAAATTATAAA
3770751 AAATTATACT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.12
19 5 0.10
20 15 0.31
22 5 0.10
23 5 0.10
24 2 0.04
25 11 0.22
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (20 bp):
TTAATAATTTAAATTATAAA
Found at i:3770725 original size:18 final size:18
Alignment explanation
Indices: 3770668--3770727 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
3770658 TTATATATTT
3770668 TTAATAA-TTAAATTTAAA
1 TTAATAATTTAAA-TTAAA
* **
3770686 TAAATAATTTTTATTATTAA
1 TTAATAATTTAAATTA--AA
3770706 TTAATAATTTAAATTAAA
1 TTAATAATTTAAATTAAA
3770724 TTAA
1 TTAA
3770728 ATCGAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 15 0.45
19 3 0.09
20 15 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAATAATTTAAATTAAA
Found at i:3777045 original size:16 final size:16
Alignment explanation
Indices: 3777024--3777057 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3777014 CAGACATATT
3777024 TAATAGCCAATGTTAA
1 TAATAGCCAATGTTAA
3777040 TAATAGCCAATGTTAA
1 TAATAGCCAATGTTAA
3777056 TA
1 TA
3777058 CCCTCCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (16 bp):
TAATAGCCAATGTTAA
Found at i:3781317 original size:17 final size:19
Alignment explanation
Indices: 3781290--3781331 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
3781280 ATTTAAAATT
3781290 TAATTTAATTAATATAT-A
1 TAATTTAATTAATATATAA
*
3781308 TAATTT-ATTAATATTTAA
1 TAATTTAATTAATATATAA
3781326 TAATTT
1 TAATTT
3781332 TAAATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATTTAATTAATATATAA
Found at i:3781340 original size:16 final size:18
Alignment explanation
Indices: 3781307--3781349 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
3781297 ATTAATATAT
*
3781307 ATAATTTATTAATATTTA
1 ATAATTTATAAATATTTA
3781325 ATAATTT-TAAAT-TTTA
1 ATAATTTATAAATATTTA
3781341 AT-ATTTATA
1 ATAATTTATA
3781350 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 4 0.17
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATAATTTATAAATATTTA
Found at i:3784326 original size:21 final size:22
Alignment explanation
Indices: 3784288--3784328 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3784278 TTTAGATATC
*
3784288 ATTTAATATTATTTAATTTAAA
1 ATTTAATATTAATTAATTTAAA
3784310 ATTTAAT-TTAATTAATTTA
1 ATTTAATATTAATTAATTTA
3784329 TGTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTAATATTAATTAATTTAAA
Found at i:3787198 original size:21 final size:20
Alignment explanation
Indices: 3787162--3787200 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3787152 CTGATTGAAT
3787162 AATTATTTTATGATTTTACG
1 AATTATTTTATGATTTTACG
*
3787182 AATTATTATTATTATTTTA
1 AATTATT-TTATGATTTTA
3787201 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
AATTATTTTATGATTTTACG
Found at i:3787622 original size:13 final size:15
Alignment explanation
Indices: 3787604--3787639 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
3787594 ATAATTTTAA
3787604 ATAATTTTAA-ATTT
1 ATAATTTTAATATTT
3787618 A-AATTTTAATATTT
1 ATAATTTTAATATTT
3787632 ATAATTTT
1 ATAATTTT
3787640 TTATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATTTTAATATTT
Found at i:3787640 original size:29 final size:28
Alignment explanation
Indices: 3787604--3787660 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
3787594 ATAATTTTAA
*
3787604 ATAATTTTAAATTTAAATTTTAATATTT
1 ATAATTTTAAATTTAAATTATAATATTT
* * *
3787632 ATAATTTTTTATTTTAAATTATGATATTT
1 ATAA-TTTTAAATTTAAATTATAATATTT
3787661 TTTATATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
ATAATTTTAAATTTAAATTATAATATTT
Found at i:3787651 original size:14 final size:15
Alignment explanation
Indices: 3787595--3787651 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
3787585 TTTTAAAAAA
3787595 TAAT-TTTAAATAATTT
1 TAATATTTAAAT--TTT
3787611 TAA-ATTTAAA-TTT
1 TAATATTTAAATTTT
3787624 TAATATTTATAATTTT
1 TAATATTTA-AATTTT
*
3787640 TTAT-TTTAAATT
1 TAATATTTAAATT
3787652 ATGATATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
13 6 0.17
14 9 0.25
15 6 0.17
16 15 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATATTTAAATTTT
Found at i:3790629 original size:13 final size:14
Alignment explanation
Indices: 3790597--3790626 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3790587 GATTTAATTT
3790597 AATTAA-TTTATAA
1 AATTAATTTTATAA
3790610 AATTAATTTTATAA
1 AATTAATTTTATAA
3790624 AAT
1 AAT
3790627 AATAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTAATTTTATAA
Found at i:3790977 original size:15 final size:14
Alignment explanation
Indices: 3790957--3791019 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
3790947 AAAAAAATAT
3790957 ATATAATAATTATAA
1 ATATAA-AATTATAA
*
3790972 ATAT-AAATTCTAGA
1 ATATAAAATTATA-A
* *
3790986 ATAGAAAA--ATAT
1 ATATAAAATTATAA
3790998 ATATAATAATTATAA
1 ATATAA-AATTATAA
3791013 ATATAAA
1 ATATAAA
3791020 TTCTAGCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.14
13 10 0.27
14 6 0.16
15 16 0.43
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (14 bp):
ATATAAAATTATAA
Found at i:3791503 original size:34 final size:34
Alignment explanation
Indices: 3791443--3791592 Score: 221
Period size: 34 Copynumber: 4.4 Consensus size: 34
3791433 AAGGAAAATT
* *
3791443 TTGTTGACTAAAT-AGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
3791476 TTGTTGATTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
3791510 TTGTTGATTAAATGGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * *
3791544 TTGTTGACTAAATGGGAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
3791578 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
3791593 TGGTTTTTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 12 0.12
34 92 0.88
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.39
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:3796064 original size:34 final size:34
Alignment explanation
Indices: 3796003--3796153 Score: 223
Period size: 34 Copynumber: 4.5 Consensus size: 34
3795993 AAGTGGGAGA
*
3796003 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
3796036 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
3796070 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * **
3796104 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGTC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
3796138 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
3796154 TGGTTTTTAC
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 13 0.12
34 92 0.88
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:3797466 original size:2 final size:2
Alignment explanation
Indices: 3797459--3797488 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3797449 GTTACTTGGA
3797459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3797489 TTAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3797653 original size:2 final size:2
Alignment explanation
Indices: 3797646--3797684 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3797636 AGCCAACTTG
3797646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3797685 ACGATGTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3801035 original size:2 final size:2
Alignment explanation
Indices: 3801028--3801060 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3801018 TTCATTAACA
3801028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3801061 AATGAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3802202 original size:33 final size:34
Alignment explanation
Indices: 3802145--3802210 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
3802135 ATTTTATATA
* *
3802145 TTAATAACAAAATTTTTAAATTTTATAA-ATAATG
1 TTAATAACAAAATATATAAATTTTA-AATATAATG
*
3802179 TTAATAA-AAAATATATAATTTTTAAATATAAT
1 TTAATAACAAAATATATAAATTTTAAATATAAT
3802211 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 2 0.07
33 19 0.68
34 7 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (34 bp):
TTAATAACAAAATATATAAATTTTAAATATAATG
Found at i:3802218 original size:20 final size:20
Alignment explanation
Indices: 3802136--3802218 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 20
3802126 ATGAAAATTA
*
3802136 TTTTATATATTAATAACAAAAT
1 TTTTAAATA-TAATAA-AAAAT
* * *
3802158 TTTTAAATTTTATAAATAAT
1 TTTTAAATATAATAAAAAAT
* * *
3802178 GTTAATAAA-A-AATATATAAT
1 -TT-TTAAATATAATAAAAAAT
3802198 TTTTAAATATAATAAAAAAT
1 TTTTAAATATAATAAAAAAT
3802218 T
1 T
3802219 AATTTAAAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
18 4 0.09
19 3 0.07
20 21 0.46
21 7 0.15
22 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (20 bp):
TTTTAAATATAATAAAAAAT
Found at i:3802569 original size:23 final size:25
Alignment explanation
Indices: 3802543--3802602 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
3802533 TTTATGCATT
*
3802543 ATAAATTTATATTT-GATA-TATTA
1 ATAAATTTAAATTTAGATATTATTA
* *
3802566 ATAATATATAAATTTATATATTATTA
1 ATAA-ATTTAAATTTAGATATTATTA
3802592 ATAAA-TTAAAT
1 ATAAATTTAAAT
3802603 ATTCTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.13
24 13 0.43
25 4 0.13
26 9 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATAAATTTAAATTTAGATATTATTA
Found at i:3802675 original size:23 final size:23
Alignment explanation
Indices: 3802644--3802712 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
3802634 AATAATTTTT
*
3802644 TTAAAAATATATTATTTAATTTA
1 TTAATAATATATTATTTAATTTA
*
3802667 TTAATAATATATAAATTTATATATTA
1 TTAATAATATAT-TATTTA-AT-TTA
3802693 TTAAT-ATAT-TTATATTAATT
1 TTAATAATATATTAT-TTAATT
3802713 ATTGGAGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 1 0.03
23 15 0.38
24 9 0.23
25 6 0.15
26 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATAATATATTATTTAATTTA
Found at i:3806386 original size:16 final size:17
Alignment explanation
Indices: 3806365--3806399 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
3806355 TTCATGAAAA
3806365 TTATTATTAAATTA-AT
1 TTATTATTAAATTATAT
3806381 TTATTATTAAATTATAT
1 TTATTATTAAATTATAT
3806398 TT
1 TT
3806400 TAATTCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATTAAATTATAT
Found at i:3806509 original size:23 final size:24
Alignment explanation
Indices: 3806464--3806514 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
3806454 AATTTTGAAA
* *
3806464 TAAATTTATTAAAATATTTTTATT
1 TAAATTAATTAAAATATTATTATT
*
3806488 TAAATTAATT-AATTATTATTATT
1 TAAATTAATTAAAATATTATTATT
3806511 TAAA
1 TAAA
3806515 AATTTAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAATTAATTAAAATATTATTATT
Found at i:3807021 original size:21 final size:19
Alignment explanation
Indices: 3806997--3807037 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
3806987 AATTATATTT
3806997 TAATTTAATAATAATTAAAAA
1 TAATTTAATAAT--TTAAAAA
*
3807018 TAATTTTATAATTTAAAAA
1 TAATTTAATAATTTAAAAA
3807037 T
1 T
3807038 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATTTAATAATTTAAAAA
Found at i:3807030 original size:18 final size:18
Alignment explanation
Indices: 3807007--3807055 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
3806997 TAATTTAATA
3807007 ATAATTAAAAATAATTTT
1 ATAATTAAAAATAATTTT
*
3807025 ATAATTTAAAAAT-CTTTT
1 ATAA-TTAAAAATAATTTT
*
3807043 A-AATAAAAAATAA
1 ATAATTAAAAATAA
3807056 AATAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 7 0.27
17 2 0.08
18 9 0.35
19 8 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATTAAAAATAATTTT
Found at i:3809059 original size:19 final size:18
Alignment explanation
Indices: 3809037--3809083 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
3809027 AAAATTAATT
3809037 AATTAAATAAAAATTTTAA
1 AATTAAA-AAAAATTTTAA
*
3809056 AATTATAAATAAATTTTAA
1 AATTA-AAAAAAATTTTAA
*
3809075 AAATAAAAA
1 AATTAAAAA
3809084 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 19 0.79
20 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAAAAAAAATTTTAA
Found at i:3809084 original size:19 final size:19
Alignment explanation
Indices: 3809047--3809087 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3809037 AATTAAATAA
* *
3809047 AAATTTTAAAATTATAAAT
1 AAATTTTAAAAATAAAAAT
3809066 AAATTTTAAAAATAAAAAT
1 AAATTTTAAAAATAAAAAT
3809085 AAA
1 AAA
3809088 AATAAACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTTTAAAAATAAAAAT
Found at i:3817133 original size:20 final size:21
Alignment explanation
Indices: 3817108--3817146 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
3817098 AATATGATAT
3817108 ATTTAAAAATAAA-AAAATTA
1 ATTTAAAAATAAATAAAATTA
3817128 ATTTAAAAATAAATAAAAT
1 ATTTAAAAATAAATAAAAT
3817147 ATATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTTAAAAATAAATAAAATTA
Found at i:3824090 original size:24 final size:24
Alignment explanation
Indices: 3824068--3824118 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3824058 TTTTAAAAAG
*
3824068 ATTAAATAATTTTAAATATAAAATA
1 ATTAAATAA-ATTAAATATAAAATA
* *
3824093 ATTATATAAATTAAATATAATATA
1 ATTAAATAAATTAAATATAAAATA
3824117 AT
1 AT
3824119 ATCATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAAATAAATTAAATATAAAATA
Found at i:3824093 original size:17 final size:18
Alignment explanation
Indices: 3824071--3824113 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
3824061 TAAAAAGATT
3824071 AAATAATT-T-TAAATATA
1 AAATAATTATATAAAT-TA
3824088 AAATAATTATATAAATTA
1 AAATAATTATATAAATTA
3824106 AATATAAT
1 AA-ATAAT
3824114 ATAATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATTATATAAATTA
Found at i:3824104 original size:26 final size:26
Alignment explanation
Indices: 3824079--3824134 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
3824069 TTAAATAATT
3824079 TTAAATATAAAATAAT-T-ATATAAA
1 TTAAATATAAAATAATATCATATAAA
*
3824103 TTAAATATAATATAATATCATATAAAA
1 TTAAATATAAAATAATATCATAT-AAA
3824130 TTAAA
1 TTAAA
3824135 AAATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 15 0.54
25 1 0.04
26 4 0.14
27 8 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TTAAATATAAAATAATATCATATAAA
Found at i:3824145 original size:28 final size:28
Alignment explanation
Indices: 3824082--3824158 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
3824072 AATAATTTTA
*
3824082 AATATAAA-ATAATTATATAAATTAAATAT
1 AATATAAATATAA-TATA-AAATTAAAAAT
*
3824111 AATAT-AATATCATATAAAATTAAAAAAT
1 AATATAAATATAATATAAAATT-AAAAAT
*
3824139 ATTATAAATATAATA-AAAAT
1 AATATAAATATAATATAAAAT
3824159 ATTTTAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 20 0.49
29 16 0.39
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (28 bp):
AATATAAATATAATATAAAATTAAAAAT
Found at i:3824156 original size:20 final size:20
Alignment explanation
Indices: 3824104--3824161 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
3824094 TTATATAAAT
*
3824104 TAAATATAAT-ATAATATCATA
1 TAAATATAATAAAAATAT--TA
*
3824125 TAAA-ATTA-AAAAATATTA
1 TAAATATAATAAAAATATTA
3824143 TAAATATAATAAAAATATT
1 TAAATATAATAAAAATATT
3824162 TTAATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.19
19 3 0.10
20 18 0.58
21 4 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATATAATAAAAATATTA
Found at i:3831157 original size:16 final size:17
Alignment explanation
Indices: 3831122--3831160 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3831112 TTTACTTATT
3831122 ATATATGTATGAAATAA
1 ATATATGTATGAAATAA
* *
3831139 ATATAT-TATTAATTAA
1 ATATATGTATGAAATAA
3831155 ATATAT
1 ATATAT
3831161 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
ATATATGTATGAAATAA
Found at i:3831178 original size:19 final size:19
Alignment explanation
Indices: 3831154--3831196 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
3831144 TTATTAATTA
**
3831154 AATATATATAAATTTTTTT
1 AATATATATAAAAATTTTT
3831173 AATATATATAAAAATTTTT
1 AATATATATAAAAATTTTT
3831192 AATAT
1 AATAT
3831197 TAATCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATATATAAAAATTTTT
Found at i:3831181 original size:21 final size:20
Alignment explanation
Indices: 3831151--3831191 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
3831141 ATATTATTAA
*
3831151 TTAAATATATATAAATTTTT
1 TTAAATATATAAAAATTTTT
3831171 TTAATATATATAAAAATTTTT
1 TTAA-ATATATAAAAATTTTT
3831192 AATATTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATATATAAAAATTTTT
Found at i:3835452 original size:23 final size:25
Alignment explanation
Indices: 3835426--3835472 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3835416 AAACAAATTA
*
3835426 TTTTTAT-TAA-TATATGTCTATAC
1 TTTTTATATAATTACATGTCTATAC
3835449 TTTTTATATAATTACATGTCTATA
1 TTTTTATATAATTACATGTCTATA
3835473 GTTTACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTTATATAATTACATGTCTATAC
Found at i:3837584 original size:18 final size:18
Alignment explanation
Indices: 3837561--3837600 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3837551 TATATATATT
*
3837561 TTAATTTTATA-AAAATAA
1 TTAATTTAATATAAAAT-A
3837579 TTAATTTAATATAAAATA
1 TTAATTTAATATAAAATA
3837597 TTAA
1 TTAA
3837601 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATTTAATATAAAATA
Found at i:3837807 original size:10 final size:10
Alignment explanation
Indices: 3837780--3837813 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
3837770 TAAATATGAC
3837780 ATAT-ATAAA
1 ATATAATAAA
3837789 ATA-AATAAA
1 ATATAATAAA
3837798 ATATAATAAA
1 ATATAATAAA
3837808 ATATAA
1 ATATAA
3837814 ATATATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 11 0.48
10 12 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATATAATAAA
Found at i:3837834 original size:32 final size:32
Alignment explanation
Indices: 3837798--3837865 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
3837788 AATAAATAAA
3837798 ATATAATA-AAA-TATAAATATATGTCAAAATTT
1 ATATAATACAAATTATAAATATAT-T-AAAATTT
*
3837830 ATATAATACAAATTATTAATATATTAAAATTT
1 ATATAATACAAATTATAAATATATTAAAATTT
3837862 ATAT
1 ATAT
3837866 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 19 0.58
33 4 0.12
34 10 0.30
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (32 bp):
ATATAATACAAATTATAAATATATTAAAATTT
Found at i:3839915 original size:13 final size:13
Alignment explanation
Indices: 3839897--3839921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3839887 CATAAAGTGT
3839897 TGTATCGATACAA
1 TGTATCGATACAA
3839910 TGTATCGATACA
1 TGTATCGATACA
3839922 TTTTTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3840000 original size:13 final size:13
Alignment explanation
Indices: 3839982--3840006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3839972 ATCACTTAAA
3839982 TGTATCGATACAT
1 TGTATCGATACAT
3839995 TGTATCGATACA
1 TGTATCGATACA
3840007 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3840071 original size:52 final size:52
Alignment explanation
Indices: 3840015--3840143 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3840005 CACTGATCTT
*
3840015 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3840067 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3840119 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3840144 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3843316 original size:21 final size:21
Alignment explanation
Indices: 3843282--3843365 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
3843272 TATTTTGGTA
*
3843282 AAAATTA-TATCAAAAGATATT
1 AAAATTATTA-CAAATGATATT
* *
3843303 AAAATTATTACAAATGCTGTT
1 AAAATTATTACAAATGATATT
* * * * *
3843324 AAAACTATTATAAGTGTTTTT
1 AAAATTATTACAAATGATATT
*
3843345 AAAATTATTACAAATAATATT
1 AAAATTATTACAAATGATATT
3843366 GAAGGTTATC
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
21 46 0.96
22 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (21 bp):
AAAATTATTACAAATGATATT
Found at i:3843394 original size:21 final size:22
Alignment explanation
Indices: 3843370--3843466 Score: 112
Period size: 21 Copynumber: 4.4 Consensus size: 22
3843360 AATATTGAAG
3843370 GTTATCAAAATTATAT-AAATA
1 GTTATCAAAATTATATCAAATA
3843391 GTTATCAAAATTATATCAAAGTTAA
1 GTTATCAAAATTATATCAAA--T-A
* *
3843416 TTTATTAAAATTATAT-ATAAT-
1 GTTATCAAAATTATATCA-AATA
3843437 GTTATCAAAATTATATCAAATA
1 GTTATCAAAATTATATCAAATA
3843459 -TTATCAAA
1 GTTATCAAA
3843467 TTGCATCAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
21 41 0.63
22 4 0.06
23 1 0.02
24 2 0.03
25 17 0.26
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
GTTATCAAAATTATATCAAATA
Found at i:3843681 original size:42 final size:41
Alignment explanation
Indices: 3843626--3843706 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
3843616 AGATTATCCA
* * * *
3843626 AATTATGTAAAAATTATCGAAATTATATTAAATATTACTTG
1 AATTATATAAAAATTATCAAAATAATATCAAATATTACTTG
3843667 AATTATATCAAAAATTATCAAAATAATATCAAATATTACT
1 AATTATAT-AAAAATTATCAAAATAATATCAAATATTACT
3843707 ATTATTGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 7 0.20
42 28 0.80
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (41 bp):
AATTATATAAAAATTATCAAAATAATATCAAATATTACTTG
Found at i:3843696 original size:21 final size:21
Alignment explanation
Indices: 3843588--3843704 Score: 89
Period size: 21 Copynumber: 5.7 Consensus size: 21
3843578 TATATATATA
* *
3843588 TATATCAAAACTTACCAAAAT
1 TATATCAAAAATTATCAAAAT
*
3843609 TA-AT-AAAAGATTATCCAAAT
1 TATATCAAAA-ATTATCAAAAT
* *
3843629 TATGT-AAAAATTATCGAAAT
1 TATATCAAAAATTATCAAAAT
* * **
3843649 TATATTAAATATTA-CTTGAAT
1 TATATCAAAAATTATC-AAAAT
3843670 TATATCAAAAATTATCAAAAT
1 TATATCAAAAATTATCAAAAT
* *
3843691 AATATCAAATATTA
1 TATATCAAAAATTA
3843705 CTATTATTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.05
20 27 0.36
21 44 0.58
22 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.35
Consensus pattern (21 bp):
TATATCAAAAATTATCAAAAT
Found at i:3844267 original size:13 final size:13
Alignment explanation
Indices: 3844249--3844279 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3844239 TAAAATAAAA
3844249 ATTTTATGTTAAT
1 ATTTTATGTTAAT
*
3844262 ATTTTATTTTAAT
1 ATTTTATGTTAAT
3844275 ATTTT
1 ATTTT
3844280 TATAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
ATTTTATGTTAAT
Found at i:3845110 original size:25 final size:24
Alignment explanation
Indices: 3845089--3845148 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 24
3845079 AATTTAAAAT
*
3845089 AAAATTTTTATAATTTAATTAATAA
1 AAAATATTTA-AATTTAATTAATAA
3845114 AAAATATTTAAATTTAATT-AT-A
1 AAAATATTTAAATTTAATTAATAA
*
3845136 AAAATATATAAAT
1 AAAATATTTAAAT
3845149 ATAAATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 13 0.39
23 2 0.06
24 9 0.27
25 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAATATTTAAATTTAATTAATAA
Found at i:3845136 original size:23 final size:22
Alignment explanation
Indices: 3845076--3845157 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
3845066 TATTTATGAG
* *
3845076 TTAAATTTAA-AAT-AAAATTT
1 TTAAATTTAATTATAAAAATAT
3845096 TTATAATTTAATTAATAAAAAATAT
1 TTA-AATTTAATT-AT-AAAAATAT
3845121 TTAAATTTAATTATAAAAATAT
1 TTAAATTTAATTATAAAAATAT
* *
3845143 ATAAATATAAATTAT
1 TTAAAT-TTAATTAT
3845158 TTTTAATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.06
21 7 0.13
22 13 0.25
23 11 0.21
24 9 0.17
25 9 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAATTTAATTATAAAAATAT
Found at i:3849207 original size:3 final size:3
Alignment explanation
Indices: 3849199--3849231 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3849189 AATTCAAAAT
3849199 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3849232 TTTACAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3850144 original size:15 final size:15
Alignment explanation
Indices: 3850121--3850159 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
3850111 ATCATAAATT
3850121 ATTATTGATAATATTA
1 ATTA-TGATAATATTA
*
3850137 ATTATGATTATATTA
1 ATTATGATAATATTA
3850152 A-TATGATA
1 ATTATGATA
3850160 TATGTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (15 bp):
ATTATGATAATATTA
Found at i:3850228 original size:13 final size:15
Alignment explanation
Indices: 3850185--3850294 Score: 76
Period size: 14 Copynumber: 7.5 Consensus size: 15
3850175 ATTAAAATAA
3850185 AATATAAATTTATAT
1 AATATAAATTTATAT
*
3850200 --TTTAAATTTATAT
1 AATATAAATTTATAT
3850213 AATATAAA-TTAT-T
1 AATATAAATTTATAT
3850226 AATATATTAAATTTATAT
1 -A-ATA-TAAATTTATAT
3850244 AAATATAAAAATTT-TA-
1 -AATAT--AAATTTATAT
3850260 AATAT-AA-TTATAAT
1 AATATAAATTTAT-AT
*
3850274 ATTATAAATTTAT-T
1 AATATAAATTTATAT
3850288 AATATAA
1 AATATAA
3850295 TATAAATTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 29
0.70 0.04 0.26
Matches are distributed among these distances:
11 2 0.03
12 3 0.04
13 14 0.18
14 16 0.21
15 15 0.19
16 9 0.12
17 9 0.12
18 9 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATAAATTTATAT
Found at i:3850243 original size:75 final size:74
Alignment explanation
Indices: 3850147--3850294 Score: 169
Period size: 75 Copynumber: 2.0 Consensus size: 74
3850137 ATTATGATTA
* * *
3850147 TATTAATATGATATATGTATATATAATAATTAAAA-TAAAATATAAATT-T-ATATTTTAAATTT
1 TATTAATATGATAAATGTATATA-AAT-ATAAAAATTAAAATAT-AATTATAATATTATAAATTT
3850209 ATATAATATAAAT
63 AT-TAATATAAAT
* *
3850222 TATTAATAT-ATTAAATTTATATAAATATAAAAATTTTAAATATAATTATAATATTATAAATTTA
1 TATTAATATGA-TAAATGTATATAAATATAAAAA-TTAAAATATAATTATAATATTATAAATTTA
3850286 TTAATATAA
64 TTAATATAA
3850295 TATAAATTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
73 6 0.10
74 8 0.13
75 35 0.56
76 14 0.22
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (74 bp):
TATTAATATGATAAATGTATATAAATATAAAAATTAAAATATAATTATAATATTATAAATTTATT
AATATAAAT
Found at i:3850282 original size:27 final size:27
Alignment explanation
Indices: 3850179--3850310 Score: 87
Period size: 27 Copynumber: 4.9 Consensus size: 27
3850169 ATAATAATTA
* *
3850179 AAATAAAATATAAATTTAT-ATTTTA-
1 AAATATAATATAAATTTATAAATTTAT
* *
3850204 AATTTATATAATATAAA-TTATTAATATATT
1 AA---ATATAATATAAATTTATAAATTTA-T
* * * *
3850234 AAAT-TTATATAAATATAAAAATTTT-
1 AAATATAATATAAATTTATAAATTTAT
3850259 AAATATAAT-TATAATATTATAAATTTAT
1 AAATATAATATA-AAT-TTATAAATTTAT
*
3850287 TAATATAATATAAATTTATAAATT
1 AAATATAATATAAATTTATAAATT
3850311 ACAAAATTTA
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
25 8 0.10
26 14 0.17
27 29 0.36
28 26 0.32
29 2 0.02
30 2 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AAATATAATATAAATTTATAAATTTAT
Found at i:3850292 original size:43 final size:49
Alignment explanation
Indices: 3850203--3850306 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 49
3850193 TTTATATTTT
3850203 AAATTTATATAATATAAATTATTAATATATTAAATTTATATAAATATAA
1 AAATTTATATAATATAAATTATTAATATATTAAATTTATATAAATATAA
*
3850252 AAATTT-TA-AATAT-AATTA-TAATAT-TATAAATTTAT-TAATATAATAT
1 AAATTTATATAATATAAATTATTAATATAT-TAAATTTATATAA-AT-ATAA
3850298 AAATTTATA
1 AAATTTATA
3850307 AATTACAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
44 4 0.08
45 17 0.34
46 14 0.28
47 7 0.14
48 2 0.04
49 6 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (49 bp):
AAATTTATATAATATAAATTATTAATATATTAAATTTATATAAATATAA
Found at i:3850298 original size:54 final size:52
Alignment explanation
Indices: 3850209--3850310 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 52
3850199 TTTTAAATTT
* *
3850209 ATATAATATAAATTATTAATATATTAAATTTATATAAATATAAAAATTTTAA
1 ATATAATATAAATTATAAATATATTAAATTAATATAAATATAAAAATTTTAA
* * *
3850261 ATATAATTATAATATTATAAATTTATT-AATATAATATAAATTTATAAATT
1 ATATAA-TATAA-ATTATAAATATATTAAAT-TAATATAAATATAAAAATT
3850311 ACAAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 6 0.14
53 8 0.19
54 28 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (52 bp):
ATATAATATAAATTATAAATATATTAAATTAATATAAATATAAAAATTTTAA
Found at i:3850305 original size:19 final size:18
Alignment explanation
Indices: 3850209--3850302 Score: 68
Period size: 15 Copynumber: 5.8 Consensus size: 18
3850199 TTTTAAATTT
3850209 ATATAATATAAATTATTA
1 ATATAATATAAATTATTA
3850227 ATAT-AT-TAAA-T-TT-
1 ATATAATATAAATTATTA
*
3850240 ATATAAATATAAA-AATT-
1 ATAT-AATATAAATTATTA
*
3850257 TTA-AATAT-AATTA-TA
1 ATATAATATAAATTATTA
3850272 ATAT--TATAAATTTATTA
1 ATATAATATAAA-TTATTA
3850289 ATATAATATAAATT
1 ATATAATATAAATT
3850303 TATAAATTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
13 4 0.07
14 8 0.13
15 13 0.22
16 11 0.18
17 12 0.20
18 6 0.10
19 6 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATATAAATTATTA
Found at i:3856625 original size:6 final size:6
Alignment explanation
Indices: 3856599--3856626 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3856589 ATATAAAAGA
3856599 AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATT
3856627 TTAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:3857303 original size:17 final size:18
Alignment explanation
Indices: 3857281--3857314 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3857271 TTTATATTTT
3857281 ATAATTAAAATT-TAAAA
1 ATAATTAAAATTATAAAA
*
3857298 ATAATTTAAATTATAAA
1 ATAATTAAAATTATAAA
3857315 TTTAATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTAAAATTATAAAA
Found at i:3857969 original size:30 final size:29
Alignment explanation
Indices: 3857933--3857990 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
3857923 TTATTTTTTA
*
3857933 AAAAATTTAACAAAATAATATATTAAATAT
1 AAAAATTTAACAAAATAATA-ATAAAATAT
* *
3857963 AAAAATTTCATAAAATAATAATAAAATA
1 AAAAATTTAACAAAATAATAATAAAATA
3857991 ATCTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAATTTAACAAAATAATAATAAAATAT
Found at i:3858581 original size:4 final size:4
Alignment explanation
Indices: 3858572--3858638 Score: 50
Period size: 4 Copynumber: 16.8 Consensus size: 4
3858562 AAAAAAGAGG
* * * *
3858572 AAGA AAGA AA-A AA-A AAGA GAGA AAAA AAAA AACA GAA-A AAGA AAGAA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAG-A
3858619 AAGA AAGA AAGA GAAGA AAG
1 AAGA AAGA AAGA -AAGA AAG
3858639 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
3 8 0.15
4 36 0.67
5 10 0.19
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:3858585 original size:18 final size:16
Alignment explanation
Indices: 3858560--3858630 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
3858550 TTGGCGAGGG
*
3858560 AGAAAAAAGAGGAAGAA
1 AGAAAAAA-AAGAAGAA
3858577 AGAAAAAAAAAGAGAGAA
1 AG-AAAAAAAAGA-AGAA
*
3858595 AAAAAAAAACAGAA-AA
1 AGAAAAAAA-AGAAGAA
*
3858611 AGAAAGAAAAGAAAGAA
1 AGAAAAAAAAG-AAGAA
3858628 AGA
1 AGA
3858631 GAAGAAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.04
16 11 0.24
17 18 0.40
18 14 0.31
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAGAAGAA
Found at i:3858594 original size:14 final size:14
Alignment explanation
Indices: 3858572--3858637 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
3858562 AAAAAAGAGG
3858572 AAGAAAGAAAAAAA
1 AAGAAAGAAAAAAA
*
3858586 AAGAGAGAAAAAAA
1 AAGAAAGAAAAAAA
*
3858600 AA-AACAGAAAAAGA
1 AAGAA-AGAAAAAAA
* *
3858614 AAGAAA-AGAAAGA
1 AAGAAAGAAAAAAA
3858627 AAGAGAAGAAA
1 AAGA-AAGAAA
3858638 GGAAGGAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
13 11 0.26
14 28 0.65
15 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAAAAA
Found at i:3858598 original size:16 final size:16
Alignment explanation
Indices: 3858579--3858628 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
3858569 AGGAAGAAAG
3858579 AAAAAAAAAGAGAGAA
1 AAAAAAAAAGAGAGAA
*
3858595 AAAAAAAAACAGA-AA
1 AAAAAAAAAGAGAGAA
*
3858610 AAGAAAGAAAAGAAAGAA
1 AA-AAA-AAAAGAGAGAA
3858628 A
1 A
3858629 GAGAAGAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 4 0.14
16 15 0.54
17 6 0.21
18 3 0.11
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAGAGAA
Found at i:3858635 original size:13 final size:13
Alignment explanation
Indices: 3858560--3858638 Score: 62
Period size: 13 Copynumber: 6.5 Consensus size: 13
3858550 TTGGCGAGGG
3858560 AGAAA-AAAGAGGA
1 AGAAAGAAAGA-GA
3858573 AGAAAGAAA-A-A
1 AGAAAGAAAGAGA
*
3858584 A-AAAGAGAGA-A
1 AGAAAGAAAGAGA
* * *
3858595 AAAAAAAAACAGA
1 AGAAAGAAAGAGA
*
3858608 A-AAAGAAAGAAA
1 AGAAAGAAAGAGA
3858620 AGAAAGAAAGAGA
1 AGAAAGAAAGAGA
3858633 AGAAAG
1 AGAAAG
3858639 GAAGGAGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
10 6 0.11
11 5 0.09
12 15 0.28
13 24 0.45
14 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAGA
Found at i:3858719 original size:11 final size:11
Alignment explanation
Indices: 3858685--3858745 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
3858675 TGTTTTTTTA
*
3858685 TTATTTAATAT
1 TTATATAATAT
*
3858696 AT-TATAA-AT
1 TTATATAATAT
3858705 TTATATAATAT
1 TTATATAATAT
*
3858716 TTATTTTATATAT
1 TTA-TATA-ATAT
*
3858729 TTATATCATAT
1 TTATATAATAT
3858740 TTATAT
1 TTATAT
3858746 TATTTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 3 0.08
10 9 0.22
11 16 0.40
12 5 0.12
13 7 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATATAATAT
Found at i:3858730 original size:24 final size:24
Alignment explanation
Indices: 3858693--3858748 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
3858683 TATTATTTAA
3858693 TATATTATAAATTTATATAATATT
1 TATATTATAAATTTATATAATATT
* * *
3858717 TATTTTATATATTTATATCATATT
1 TATATTATAAATTTATATAATATT
3858741 TATATTAT
1 TATATTAT
3858749 TTTTATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATTATAAATTTATATAATATT
Found at i:3858753 original size:11 final size:11
Alignment explanation
Indices: 3858704--3858804 Score: 73
Period size: 11 Copynumber: 9.2 Consensus size: 11
3858694 ATATTATAAA
* *
3858704 TTTATATAATA
1 TTTATATTATT
*
3858715 TTTATTTTATAT
1 TTTATATTAT-T
* *
3858727 ATTTATATCATA
1 -TTTATATTATT
3858739 TTTATATTATT
1 TTTATATTATT
*
3858750 TTTATTTTA-T
1 TTTATATTATT
3858760 TTTA-ATTATT
1 TTTATATTATT
*
3858770 TTTATATTATG
1 TTTATATTATT
* *
3858781 TTTATTTTATC
1 TTTATATTATT
3858792 TTTAGTA-TATT
1 TTTA-TATTATT
3858803 TT
1 TT
3858805 AAAGTATATA
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
9 3 0.04
10 10 0.14
11 48 0.69
12 1 0.01
13 8 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTATATTATT
Found at i:3858760 original size:20 final size:19
Alignment explanation
Indices: 3858715--3858786 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
3858705 TTATATAATA
*
3858715 TTTATTTTATATATTTATAT
1 TTTATTTTAT-TATTTTTAT
**
3858735 CATATTTATATTATTTTTAT
1 TTTATTT-TATTATTTTTAT
3858755 TTTATTTTAATTATTTTTAT
1 TTTATTTT-ATTATTTTTAT
*
3858775 ATTATGTTTATT
1 TTTAT-TTTATT
3858787 TTATCTTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 36 0.84
21 6 0.14
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (19 bp):
TTTATTTTATTATTTTTAT
Found at i:3858774 original size:31 final size:33
Alignment explanation
Indices: 3858704--3858804 Score: 107
Period size: 31 Copynumber: 3.1 Consensus size: 33
3858694 ATATTATAAA
* * * * *
3858704 TTTATATAATATTTATTTTATATATTTATATCATA
1 TTTATATTATGTTTATTTTATCT-TTAATAT-ATT
*
3858739 TTTATATTATTTTTATTTTAT-TTTAAT-TATT
1 TTTATATTATGTTTATTTTATCTTTAATATATT
*
3858770 TTTATATTATGTTTATTTTATCTTTAGTATATT
1 TTTATATTATGTTTATTTTATCTTTAATATATT
3858803 TT
1 TT
3858805 AAAGTATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
31 22 0.38
32 6 0.10
33 10 0.17
34 1 0.02
35 19 0.33
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (33 bp):
TTTATATTATGTTTATTTTATCTTTAATATATT
Found at i:3859247 original size:20 final size:21
Alignment explanation
Indices: 3859222--3859261 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3859212 ATTTTTTATG
3859222 TAATATTTTAATTAT-TTTTT
1 TAATATTTTAATTATGTTTTT
*
3859242 TAATATTTTATTTATGTTTT
1 TAATATTTTAATTATGTTTT
3859262 GTTTTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
TAATATTTTAATTATGTTTTT
Found at i:3860017 original size:2 final size:2
Alignment explanation
Indices: 3860010--3860041 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3860000 TGTTAATGTG
3860010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3860042 GAAACAGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.