Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 105 of 106
Found at i:22246754 original size:19 final size:20
Alignment explanation
Indices: 22246718--22246760 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
22246708 CTCCAGCTTT
* * *
22246718 TTTTAATTTTTTTGTTATA-
1 TTTTAAATTATTTATTATAG
22246737 TTTTAAATTATTTATTATAG
1 TTTTAAATTATTTATTATAG
22246757 TTTT
1 TTTT
22246761 TTTAATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTAAATTATTTATTATAG
Found at i:22247783 original size:24 final size:25
Alignment explanation
Indices: 22247746--22247807 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
22247736 AAAAGCAAAA
**
22247746 AATTTTAAATTTTAAATTTGGTTTTG
1 AATTTT-AATTTTAAATTTAATTTTG
*
22247772 -ATTTTAATTTTAATTTTAATTTTG
1 AATTTTAATTTTAAATTTAATTTTG
22247796 AATTTT-ATTTTA
1 AATTTTAATTTTA
22247808 TTTTATTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 22 0.69
25 10 0.31
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (25 bp):
AATTTTAATTTTAAATTTAATTTTG
Found at i:22247814 original size:5 final size:6
Alignment explanation
Indices: 22247746--22247812 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
22247736 AAAAGCAAAA
* ** *
22247746 AATTTT AAATTTT AAATTT GGTTTT GATTTT AATTTT AATTTT AATTTT
1 AATTTT -AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
22247795 GAATTTT -ATTTT -ATTTT A
1 -AATTTT AATTTT AATTTT A
22247813 TTGGTCAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
5 10 0.19
6 30 0.58
7 12 0.23
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:22248832 original size:6 final size:6
Alignment explanation
Indices: 22248810--22248899 Score: 51
Period size: 6 Copynumber: 14.7 Consensus size: 6
22248800 CTTCTTTTCG
* * *
22248810 TTTTTC TTTTTA TTTTTTA TTTTGA -TTTTA TTTTTA TTTTT- TGGTTTTG
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T--TTTTA
* * * *
22248859 TTTTTG TTTTTG TTTTT- TTTTTT TGTTTTGT TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTT-A TTTTTA TTTT
22248900 AATTGTGTGA
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
5 10 0.14
6 41 0.57
7 18 0.25
8 3 0.04
ACGTcount: A:0.07, C:0.01, G:0.09, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:22248832 original size:18 final size:18
Alignment explanation
Indices: 22248811--22248899 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
22248801 TTCTTTTCGT
*
22248811 TTTTCTTTTTATTTTTTA
1 TTTTGTTTTTATTTTTTA
* *
22248829 TTTTGATTTTATTTTTATT
1 TTTTGTTTTTATTTTT-TA
* *
22248848 TTTTGGTTTTGTTTTTGT-
1 TTTTGTTTTTATTTTT-TA
* *
22248866 TTTTGTTTTTTTTTTTTG
1 TTTTGTTTTTATTTTTTA
22248884 TTTTGTTTTTTATTTT
1 TTTTG-TTTTTATTTT
22248900 AATTGTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
17 1 0.02
18 33 0.56
19 25 0.42
ACGTcount: A:0.07, C:0.01, G:0.09, T:0.83
Consensus pattern (18 bp):
TTTTGTTTTTATTTTTTA
Found at i:22248838 original size:24 final size:23
Alignment explanation
Indices: 22248811--22248899 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 23
22248801 TTCTTTTCGT
*
22248811 TTTTCTTTTTATTTTTTATTTTG
1 TTTTATTTTTATTTTTTATTTTG
*
22248834 ATTTTATTTTTATTTTTTGGTTTTG
1 -TTTTATTTTTATTTTTT-ATTTTG
* * *
22248859 TTTTTGTTTTTGTTTTTTTTTTTTG
1 -TTTTATTTTT-ATTTTTTATTTTG
*
22248884 TTTTGTTTTTTATTTT
1 TTTT-ATTTTTATTTT
22248900 AATTGTGTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 24 0.44
25 24 0.44
26 6 0.11
ACGTcount: A:0.07, C:0.01, G:0.09, T:0.83
Consensus pattern (23 bp):
TTTTATTTTTATTTTTTATTTTG
Found at i:22248838 original size:25 final size:23
Alignment explanation
Indices: 22248804--22248899 Score: 93
Period size: 25 Copynumber: 3.9 Consensus size: 23
22248794 ATGTTTCTTC
22248804 TTTTCGTTTTTCTTTTTATTTTTTA
1 TTTT-GTTTTT-TTTTTATTTTTTA
* *
22248829 TTTTGATTTTATTTTTATTTTTTGG
1 TTTTG-TTTTTTTTTTATTTTTT-A
* *
22248854 TTTTGTTTTTGTTTTTGTTTTTTTT
1 TTTTGTTTTT-TTTTT-ATTTTTTA
22248879 TTTTGTTTTGTTTTTTATTTT
1 TTTTGTTTT-TTTTTTATTTT
22248900 AATTGTGTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
24 21 0.35
25 32 0.53
26 7 0.12
ACGTcount: A:0.06, C:0.02, G:0.09, T:0.82
Consensus pattern (23 bp):
TTTTGTTTTTTTTTTATTTTTTA
Found at i:22249066 original size:19 final size:19
Alignment explanation
Indices: 22249044--22249117 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
22249034 CATTAGTTTG
22249044 ATTATTTGCATGATTATTT
1 ATTATTTGCATGATTATTT
*
22249063 ATTATTTGCATGATAATATT
1 ATTATTTGCATGATTAT-TT
**
22249083 -TTATTTGTGTGATT-TTT
1 ATTATTTGCATGATTATTT
22249100 AATATATTTGCATGATTA
1 -AT-TATTTGCATGATTA
22249118 CTAATATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.05
18 1 0.02
19 28 0.64
20 13 0.30
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.55
Consensus pattern (19 bp):
ATTATTTGCATGATTATTT
Found at i:22249109 original size:20 final size:20
Alignment explanation
Indices: 22249084--22249132 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
22249074 GATAATATTT
* **
22249084 TATTTGTGTGATTTTTAATA
1 TATTTGTATGATTACTAATA
*
22249104 TATTTGCATGATTACTAATA
1 TATTTGTATGATTACTAATA
22249124 TATTTGTAT
1 TATTTGTAT
22249133 TTTTTGCATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (20 bp):
TATTTGTATGATTACTAATA
Found at i:22249156 original size:16 final size:16
Alignment explanation
Indices: 22249135--22249166 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22249125 ATTTGTATTT
*
22249135 TTTGCATGATTTGTTA
1 TTTGCATAATTTGTTA
22249151 TTTGCATAATTTGTTA
1 TTTGCATAATTTGTTA
22249167 AATATTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.16, T:0.56
Consensus pattern (16 bp):
TTTGCATAATTTGTTA
Found at i:22259851 original size:7 final size:7
Alignment explanation
Indices: 22259839--22259870 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22259829 CTTATTCGAT
22259839 AAAATTA
1 AAAATTA
22259846 AAAATTA
1 AAAATTA
22259853 AAAATT-
1 AAAATTA
22259859 AAAA-TA
1 AAAATTA
22259865 AAAATT
1 AAAATT
22259871 TTATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 1 0.04
6 8 0.35
7 14 0.61
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:22260857 original size:13 final size:13
Alignment explanation
Indices: 22260841--22260865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22260831 AAATTTGAGT
22260841 TTTTTATTTTTTA
1 TTTTTATTTTTTA
22260854 TTTTTATTTTTT
1 TTTTTATTTTTT
22260866 TATATTTTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:22260864 original size:14 final size:14
Alignment explanation
Indices: 22260841--22260877 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22260831 AAATTTGAGT
22260841 TTTTTA-TTTTTTA
1 TTTTTATTTTTTTA
22260854 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
22260868 TATTTT-TTTT
1 T-TTTTATTTT
22260878 CAAACCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 12 0.55
15 4 0.18
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:22261148 original size:21 final size:19
Alignment explanation
Indices: 22261110--22261178 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 19
22261100 AATTTATGAT
22261110 ATTATTT-TTTATACTTTTAA
1 ATTATTTATTTAT--TTTTAA
22261130 ACTTATTTATTTGATTTTTGAATA
1 A-TTATTTATTT-ATTTTT--A-A
22261154 ATT-TTTATTTATTTTGTAA
1 ATTATTTATTTATTTT-TAA
22261173 ATTATT
1 ATTATT
22261179 AATAATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
19 4 0.10
20 4 0.10
21 15 0.37
22 11 0.27
23 5 0.12
24 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTATTTATTTATTTTTAA
Found at i:22262018 original size:16 final size:16
Alignment explanation
Indices: 22261999--22262036 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22261989 ATCAAGTCAA
22261999 ATTTAAATTATTTCAT
1 ATTTAAATTATTTCAT
* *
22262015 ATTTGAATTATTTTAT
1 ATTTAAATTATTTCAT
22262031 ATTTAA
1 ATTTAA
22262037 TATAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTAAATTATTTCAT
Found at i:22263728 original size:3 final size:3
Alignment explanation
Indices: 22263722--22263748 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22263712 TCGTATTGAA
22263722 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
22263749 CTTGTCGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:22268792 original size:3 final size:3
Alignment explanation
Indices: 22268784--22268821 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22268774 TGAATTAGTG
22268784 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22268822 GAAATATTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22269071 original size:29 final size:29
Alignment explanation
Indices: 22269018--22269089 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
22269008 TGTATGTCTC
22269018 TTAAATTATAATAAAATATTTAATATAATAT
1 TTAAATTAT-A-AAAATATTTAATATAATAT
*
22269049 TTAAATTTTAAAAAT-TTTGAATATAATAT
1 TTAAATTATAAAAATATTT-AATATAATAT
22269078 TTAAATTATAAA
1 TTAAATTATAAA
22269090 TTTGTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 3 0.08
29 26 0.68
30 1 0.03
31 8 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTAATATAATAT
Found at i:22269102 original size:27 final size:28
Alignment explanation
Indices: 22269030--22269116 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
22269020 AAATTATAAT
*
22269030 AAAATATTTAATATAATATTTAAATTTTA
1 AAAATTTTTAATATAATATTTAAA-TTTA
*
22269059 AAAATTTTGAATATAATATTTAAA-TTA
1 AAAATTTTTAATATAATATTTAAATTTA
*
22269086 TAAATTTGTTAAT-TAATA--TAATATTTA
1 AAAATTT-TTAATATAATATTTAA-ATTTA
22269113 AAAA
1 AAAA
22269117 GTTATTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 20 0.40
28 4 0.08
29 22 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
AAAATTTTTAATATAATATTTAAATTTA
Found at i:22269113 original size:16 final size:16
Alignment explanation
Indices: 22269068--22269113 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
22269058 AAAAATTTTG
22269068 AATATAATATTTAAATT
1 AATATAATATTT-AATT
*
22269085 -ATA-AATTTGTTAATT
1 AATATAATAT-TTAATT
22269100 AATATAATATTTAA
1 AATATAATATTTAA
22269114 AAAGTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
15 8 0.33
16 12 0.50
17 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AATATAATATTTAATT
Found at i:22269157 original size:17 final size:17
Alignment explanation
Indices: 22269137--22269189 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
22269127 TATTATATAT
22269137 TATTATTTAAAATTAAA
1 TATTATTTAAAATTAAA
22269154 TATTA--TAATAATT-AA
1 TATTATTTAA-AATTAAA
*
22269169 TA-TATTTATAATTTAAA
1 TATTATTTA-AAATTAAA
22269186 TATT
1 TATT
22269190 TAATTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
14 2 0.07
15 7 0.24
16 9 0.31
17 10 0.34
18 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTATTTAAAATTAAA
Found at i:22269179 original size:15 final size:14
Alignment explanation
Indices: 22269140--22269191 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 14
22269130 TATATATTAT
*
22269140 TATTTAAAATTAAA
1 TATTTATAATTAAA
22269154 TATTATAATAATTAATA
1 TATT-T-ATAATTAA-A
22269171 TATTTATAATTTAAA
1 TATTTATAA-TTAAA
22269186 TATTTA
1 TATTTA
22269192 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 4 0.12
15 12 0.36
16 12 0.36
17 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTATAATTAAA
Found at i:22269198 original size:15 final size:15
Alignment explanation
Indices: 22269140--22269199 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
22269130 TATATATTAT
*
22269140 TATTTAA-AATTAAA
1 TATTTAATATTTAAA
*
22269154 TATTATAATAATTAATA
1 TATT-TAATATTTAA-A
22269171 TATTT-ATAATTTAAA
1 TATTTAAT-ATTTAAA
*
22269186 TATTTAATTTTTAA
1 TATTTAATATTTAA
22269200 TTTTTAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 4 0.10
15 16 0.41
16 14 0.36
17 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATATTTAAA
Found at i:22272167 original size:16 final size:16
Alignment explanation
Indices: 22272148--22272178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22272138 TATGCTGCTG
*
22272148 ATGATGATGAATCATA
1 ATGATGATCAATCATA
22272164 ATGATGATCAATCAT
1 ATGATGATCAATCAT
22272179 TGAATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (16 bp):
ATGATGATCAATCATA
Found at i:22277580 original size:59 final size:59
Alignment explanation
Indices: 22277488--22277604 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
22277478 CAAAGAAAGA
* * *
22277488 AAAATAGATCATAAAACCAGAAATTGGTGTTATGTGAGGCATTTGATTGTCAATATTCC
1 AAAATAGATCATAAAACCAGAAATTGCTATTATGTGAGGCACTTGATTGTCAATATTCC
* *
22277547 AAAATAGATCATAAGACCTA-AAATTGCTATTATGTGAGGCACTTGATTGTTAATATTC
1 AAAATAGATCATAAAACC-AGAAATTGCTATTATGTGAGGCACTTGATTGTCAATATTC
22277605 TAAACAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 51 0.98
60 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (59 bp):
AAAATAGATCATAAAACCAGAAATTGCTATTATGTGAGGCACTTGATTGTCAATATTCC
Found at i:22278663 original size:7 final size:7
Alignment explanation
Indices: 22278651--22278698 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
22278641 TTTTATTTAC
22278651 GTTTTTT
1 GTTTTTT
22278658 GTTTTTT
1 GTTTTTT
22278665 GTTTTTT
1 GTTTTTT
*
22278672 GTTTTCT
1 GTTTTTT
* *
22278679 -ATTTTC
1 GTTTTTT
*
22278685 GTTTTTA
1 GTTTTTT
22278692 GTTTTTT
1 GTTTTTT
22278699 TGAAAATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
6 3 0.09
7 30 0.91
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.79
Consensus pattern (7 bp):
GTTTTTT
Found at i:22288255 original size:24 final size:25
Alignment explanation
Indices: 22288218--22288280 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 25
22288208 AAAATATTAA
* *
22288218 TATATTTTTTTATTTCA-TAAAATTT
1 TATATTATATTATTT-ATTAAAATTT
22288243 T-TA-TATAATTA-TTATTAAAATTT
1 TATATTAT-ATTATTTATTAAAATTT
22288266 TATATTATATTATTT
1 TATATTATATTATTT
22288281 TTATATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
22 1 0.03
23 13 0.42
24 11 0.35
25 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTATATTATTTATTAAAATTT
Found at i:22288269 original size:22 final size:22
Alignment explanation
Indices: 22288235--22288279 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22288225 TTTTATTTCA
22288235 TAAAATTTTTATATAATTATTAT
1 TAAAATTTTTATATAA-TATTAT
*
22288258 TAAAA-TTTTATATTATATTAT
1 TAAAATTTTTATATAATATTAT
22288279 T
1 T
22288280 TTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAAAATTTTTATATAATATTAT
Found at i:22288290 original size:24 final size:22
Alignment explanation
Indices: 22288237--22288290 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
22288227 TTATTTCATA
22288237 AAATTTTTATATAATTATTATT
1 AAATTTTTATATAATTATTATT
* *
22288259 AAAATTTTATATTATATTATTTTT
1 AAATTTTTATA-TA-ATTATTATT
*
22288283 ATATTTTT
1 AAATTTTT
22288291 TGTTTTCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 10 0.38
23 2 0.08
24 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AAATTTTTATATAATTATTATT
Found at i:22289209 original size:16 final size:16
Alignment explanation
Indices: 22289184--22289218 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22289174 TCTAAATTTT
*
22289184 TTGTTTAAAATTTTAA
1 TTGTTGAAAATTTTAA
*
22289200 TTGTTGAAAATTTTCA
1 TTGTTGAAAATTTTAA
22289216 TTG
1 TTG
22289219 ATAAGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (16 bp):
TTGTTGAAAATTTTAA
Found at i:22289819 original size:27 final size:27
Alignment explanation
Indices: 22289784--22289845 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
22289774 AAACAATAAT
*
22289784 AAAATTTATTATAGTTACGATTGAAAA
1 AAAATTTATTATAATTACGATTGAAAA
22289811 AAAATTTATTATAATTACGATTGAAAA
1 AAAATTTATTATAATTACGATTGAAAA
22289838 AAAATTTA
1 AAAATTTA
22289846 ATAAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (27 bp):
AAAATTTATTATAATTACGATTGAAAA
Found at i:22293060 original size:34 final size:34
Alignment explanation
Indices: 22293022--22293091 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
22293012 AAGTCTCTAG
22293022 ATTTATATATATGAAAATTTTTAAAAACTTTAAA
1 ATTTATATATATGAAAATTTTTAAAAACTTTAAA
* * * * *
22293056 ATTTATATTTTTTAAAATTTTTAAAAATTTTCAA
1 ATTTATATATATGAAAATTTTTAAAAACTTTAAA
22293090 AT
1 AT
22293092 ATACAAACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (34 bp):
ATTTATATATATGAAAATTTTTAAAAACTTTAAA
Found at i:22293880 original size:13 final size:12
Alignment explanation
Indices: 22293861--22293911 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
22293851 GTTTACCTAT
22293861 ATAAATAATAAA
1 ATAAATAATAAA
*
22293873 ATTAAATAATTAA
1 A-TAAATAATAAA
*
22293886 ATAAATAAT-AT
1 ATAAATAATAAA
22293897 ATAAATATATAAA
1 ATAAATA-ATAAA
22293910 AT
1 AT
22293912 TTAATTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 8 0.24
12 11 0.33
13 14 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATAATAAA
Found at i:22293903 original size:8 final size:8
Alignment explanation
Indices: 22293858--22293909 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
22293848 GGTGTTTACC
22293858 TATATAAA
1 TATATAAA
22293866 TA-ATAAA
1 TATATAAA
22293873 -AT-TAAA
1 TATATAAA
22293879 TA-ATTAAA
1 TATA-TAAA
*
22293887 TAAAT-AA
1 TATATAAA
22293894 TATATAAA
1 TATATAAA
22293902 TATATAAA
1 TATATAAA
22293910 ATTTAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
6 5 0.14
7 12 0.32
8 19 0.51
9 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATATAAA
Found at i:22300907 original size:21 final size:23
Alignment explanation
Indices: 22300883--22300924 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22300873 GAAATATAAT
22300883 TTTTA-TTTT-TTAAAATTTTTA
1 TTTTATTTTTATTAAAATTTTTA
22300904 TTTTATTTTTATTAAAATTTT
1 TTTTATTTTTATTAAAATTTT
22300925 AAATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTATTTTTATTAAAATTTTTA
Found at i:22314278 original size:16 final size:15
Alignment explanation
Indices: 22314232--22314280 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
22314222 CTCTTATTAA
22314232 ATTATATATTAAATT
1 ATTATATATTAAATT
22314247 -TTATCATATGTAAAATT
1 ATTAT-ATAT-T-AAATT
22314264 AGTTATATATTAAATT
1 A-TTATATATTAAATT
22314280 A
1 A
22314281 CTAAATACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 7 0.24
17 6 0.21
18 4 0.14
19 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (15 bp):
ATTATATATTAAATT
Found at i:22315452 original size:2 final size:2
Alignment explanation
Indices: 22315435--22315467 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
22315425 TTAATTTTGT
*
22315435 TA TA -A TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22315468 CACACACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:22315823 original size:28 final size:28
Alignment explanation
Indices: 22315792--22315849 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
22315782 TGTTTATTTG
*
22315792 AAGTAAATGATAAAATTAGACATATTAA
1 AAGTAAATAATAAAATTAGACATATTAA
* * *
22315820 AAGTGAATAATAAAATTAGATATGTTAA
1 AAGTAAATAATAAAATTAGACATATTAA
22315848 AA
1 AA
22315850 TTTTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (28 bp):
AAGTAAATAATAAAATTAGACATATTAA
Found at i:22317181 original size:23 final size:23
Alignment explanation
Indices: 22317142--22317187 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22317132 TAATTTTTTT
*
22317142 TAAATTTTAATTATTTTATATTA
1 TAAATTTTAATTATTTTAAATTA
*
22317165 TAAATTTTTA-TATTTTTAAATTA
1 TAAATTTTAATTA-TTTTAAATTA
22317188 ATATTCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAATTTTAATTATTTTAAATTA
Found at i:22322501 original size:13 final size:14
Alignment explanation
Indices: 22322480--22322510 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
22322470 TCCTTATGTC
22322480 TTTATTTTATTTAT
1 TTTATTTTATTTAT
22322494 TTTA-TTTATTTAT
1 TTTATTTTATTTAT
22322507 TTTA
1 TTTA
22322511 AATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:22322510 original size:9 final size:9
Alignment explanation
Indices: 22322480--22322508 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22322470 TCCTTATGTC
22322480 TTTATTTTA
1 TTTATTTTA
22322489 TTTATTTTA
1 TTTATTTTA
22322498 TTTA-TTTA
1 TTTATTTTA
22322506 TTT
1 TTT
22322509 TAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:22322641 original size:20 final size:20
Alignment explanation
Indices: 22322618--22322665 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
22322608 TCAAAATTTT
22322618 TTTATTAAATAAAATAAATA
1 TTTATTAAATAAAATAAATA
* * * * *
22322638 TTTATCAATTGAATTAATTA
1 TTTATTAAATAAAATAAATA
22322658 TTTATTAA
1 TTTATTAA
22322666 TTTTTATAGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTATTAAATAAAATAAATA
Found at i:22322872 original size:26 final size:26
Alignment explanation
Indices: 22322834--22322895 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
22322824 ATAATCTTAT
* *
22322834 TATATTTTTTGTTGTAATTTTAATTA
1 TATATGTTCTGTTGTAATTTTAATTA
22322860 TATATGTTCTGTTGTAATTTTAATTA
1 TATATGTTCTGTTGTAATTTTAATTA
22322886 TATATGTTCT
1 TATATGTTCT
22322896 ATGGATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (26 bp):
TATATGTTCTGTTGTAATTTTAATTA
Found at i:22323654 original size:2 final size:2
Alignment explanation
Indices: 22323647--22323673 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22323637 TTCTTCATTC
22323647 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 T
22323674 TTTTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22326179 original size:213 final size:213
Alignment explanation
Indices: 22325806--22326223 Score: 660
Period size: 213 Copynumber: 2.0 Consensus size: 213
22325796 ATTTTGATTT
* *
22325806 TTTTGTTGCTTTGTTTTTAGTTATCTGCACATGTTGGTTTATTCATTGGTATGTTTAGGTGTGCG
1 TTTTGTTGCTTTGTTTTCAGTTATCTGCACATATTGGTTTATTCATTGGTATGTTTAGGTGTGCG
* *
22325871 CTCAACGTATGGATAATAATAGTTAGATAAGAGAGAATAGGATTAGAAGATCGGAAAGATTAAAT
66 CTCAAAGTATGGATAATAATAGTTACATAAGAGAGAATAGGATTAGAAGATCGGAAAGATTAAAT
*
22325936 TAAGGCCTAATAGATTAAAGAGGCATAATAATACTATTCT-AA-ATGCAATTTTTAAATGTGTTA
131 TAAGGCCTAATAGATTAAAAAGGCATAATAATACTATTCTGAATATG--ATTTTTAAATGTGTTA
22325999 TTGGTGAGTGGATTTGACTA
194 TTGGTGAGTGGATTTGACTA
* *
22326019 TTTTGTTGCTTTGTTTTCGGTTATCTGCACATATTGGTTTATTCATTGGTATGTTTAGGTGTGTG
1 TTTTGTTGCTTTGTTTTCAGTTATCTGCACATATTGGTTTATTCATTGGTATGTTTAGGTGTGCG
* * * * *
22326084 TTCAAAGTATGGATAATATTAGTTACATAAGAGAGAATAGGATTTGAAGGTTGGAAAGATTAAAT
66 CTCAAAGTATGGATAATAATAGTTACATAAGAGAGAATAGGATTAGAAGATCGGAAAGATTAAAT
* * * *
22326149 TGAGGTCTAATAGATTAAAAAGGTATAATAATACTATTCTGAATATGATTTTTAAATGTGTTTTT
131 TAAGGCCTAATAGATTAAAAAGGCATAATAATACTATTCTGAATATGATTTTTAAATGTGTTATT
22326214 GGTGAGTGGA
196 GGTGAGTGGA
22326224 ACGGTGGTAG
Statistics
Matches: 187, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
213 182 0.97
214 2 0.01
215 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (213 bp):
TTTTGTTGCTTTGTTTTCAGTTATCTGCACATATTGGTTTATTCATTGGTATGTTTAGGTGTGCG
CTCAAAGTATGGATAATAATAGTTACATAAGAGAGAATAGGATTAGAAGATCGGAAAGATTAAAT
TAAGGCCTAATAGATTAAAAAGGCATAATAATACTATTCTGAATATGATTTTTAAATGTGTTATT
GGTGAGTGGATTTGACTA
Found at i:22328192 original size:15 final size:16
Alignment explanation
Indices: 22328167--22328199 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22328157 TTAATAGTTT
*
22328167 TTTTATATATTATATA
1 TTTTATATATTAAATA
22328183 TTTT-TATATTAAATA
1 TTTTATATATTAAATA
22328198 TT
1 TT
22328200 ATTAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATATATTAAATA
Found at i:22328521 original size:33 final size:34
Alignment explanation
Indices: 22328458--22328527 Score: 115
Period size: 35 Copynumber: 2.1 Consensus size: 34
22328448 TTATCCTTGC
*
22328458 TTACAATTTGAATTGAATATTTTTTTTTTTTACTT
1 TTACAATTTGAAATGAATA-TTTTTTTTTTTACTT
22328493 TTACAATTTGAAATGAATA-TTTTTTTTTTACTT
1 TTACAATTTGAAATGAATATTTTTTTTTTTACTT
22328526 TT
1 TT
22328528 TATATAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 16 0.47
35 18 0.53
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (34 bp):
TTACAATTTGAAATGAATATTTTTTTTTTTACTT
Found at i:22328914 original size:15 final size:15
Alignment explanation
Indices: 22328894--22328922 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22328884 AAAAAAAAAA
22328894 ATACCATTAAAGGAC
1 ATACCATTAAAGGAC
22328909 ATACCATTAAAGGA
1 ATACCATTAAAGGA
22328923 AGGAAGTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
ATACCATTAAAGGAC
Found at i:22329134 original size:16 final size:18
Alignment explanation
Indices: 22329113--22329149 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22329103 TAAAAATTCA
*
22329113 TCTTC-TCTTTCTG-TTT
1 TCTTCTTCTTCCTGCTTT
22329129 TCTTCTTCTTCCTGCTTT
1 TCTTCTTCTTCCTGCTTT
22329147 TCT
1 TCT
22329150 ATTCTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.65
Consensus pattern (18 bp):
TCTTCTTCTTCCTGCTTT
Found at i:22329361 original size:21 final size:21
Alignment explanation
Indices: 22329335--22329375 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22329325 GGACTGCAAA
*
22329335 TTGGATAGTGCATTTGAACGG
1 TTGGATAGAGCATTTGAACGG
* *
22329356 TTGGATTGAGCGTTTGAACG
1 TTGGATAGAGCATTTGAACG
22329376 AGTGCAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.10, G:0.34, T:0.34
Consensus pattern (21 bp):
TTGGATAGAGCATTTGAACGG
Found at i:22333380 original size:33 final size:33
Alignment explanation
Indices: 22333328--22333457 Score: 95
Period size: 33 Copynumber: 3.9 Consensus size: 33
22333318 CAAAAATGCT
* * * *
22333328 GCTAATTTATAGACGTTTGTAT-CATAAAACGTC
1 GCTAAATTAGAGACATTTGTATAGAT-AAACGTC
*
22333361 GTTAAATTAGAGACATTTGTATAGATAAACGTC
1 GCTAAATTAGAGACATTTGTATAGATAAACGTC
* * * **
22333394 GCTAAATTA-ACAACGTTTGTATAAATAAACACC
1 GCTAAATTAGA-GACATTTGTATAGATAAACGTC
* * *
22333427 GTTAAATTA-ACGGCATTTGAATAGATAAACG
1 GCTAAATTAGA-GACATTTGTATAGATAAACG
22333458 CTGCTAATTT
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
32 1 0.01
33 74 0.96
34 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (33 bp):
GCTAAATTAGAGACATTTGTATAGATAAACGTC
Found at i:22333476 original size:66 final size:64
Alignment explanation
Indices: 22333325--22333477 Score: 159
Period size: 66 Copynumber: 2.3 Consensus size: 64
22333315 TCACAAAAAT
* *
22333325 GCTGCTAATTTATAGACGTTTGTATCATAAAACGTCGTTAAATTAGAGACATTTGTATAGATAAA
1 GCTGCTAATTTAT-GACGTTTGTATAATAAAACG-CGTTAAATTAGAGACATTTGAATAGATAAA
22333390 C
64 C
* ** *
22333391 G-TCGCTAAATTAACAACGTTTGTATAAATAAACAC-CGTTAAATTA-ACGGCATTTGAATAGAT
1 GCT-GCT-AATTTATGACGTTTGTAT-AATAAA-ACGCGTTAAATTAGA-GACATTTGAATAGAT
22333453 AAAC
61 AAAC
22333457 GCTGCTAATTTAGTGACGTTT
1 GCTGCTAATTTA-TGACGTTT
22333478 TCCTAATAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
65 7 0.10
66 51 0.72
67 11 0.15
68 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (64 bp):
GCTGCTAATTTATGACGTTTGTATAATAAAACGCGTTAAATTAGAGACATTTGAATAGATAAAC
Found at i:22333558 original size:33 final size:33
Alignment explanation
Indices: 22333457--22333544 Score: 122
Period size: 33 Copynumber: 2.7 Consensus size: 33
22333447 ATAGATAAAC
*
22333457 GCTGCTAATTTAGTGACGTTTTCCTAATAAAAT
1 GCTGCTAATTTAGTGACGTTTTCCTGATAAAAT
* *** *
22333490 GCTGTTAATTTAACAATGTTTTCCTGATAAAAT
1 GCTGCTAATTTAGTGACGTTTTCCTGATAAAAT
22333523 GCTGCTAATTTAGTGACGTTTT
1 GCTGCTAATTTAGTGACGTTTT
22333545 ATGCTACAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
GCTGCTAATTTAGTGACGTTTTCCTGATAAAAT
Found at i:22334977 original size:162 final size:160
Alignment explanation
Indices: 22334763--22335387 Score: 612
Period size: 162 Copynumber: 3.9 Consensus size: 160
22334753 CATTTTGGCC
* * * * * *
22334763 TTTCACACATATCAATCATG-G-AAACCAAATTCAATTATTTGGATAAGTTTAATATCATGTATT
1 TTTCACATATATCAAT--TGCGAAAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATT
* * * * *
22334826 GAAGCTATCTAAACTGTTAAAATATGGTGAACAACAACAACTTTGTATTTTTACCTTTTAATGGC
64 GAAGCTATCCAAACTGTTAAAATA-GAT-AATAACAACAAATTTGTATTTTTACCTTTTAACGGC
*
22334891 AAAAAAAGTCCTAAATAGAGGTAAATAACAACTT
127 AAAAAAAGTCCTAAATAGACGTAAATAACAACTT
* * *
22334925 TGTCACATATATCAATTGCGAAAACCAAGTTCAACCATTCGCAAAAGTTTAATATCATGTATTGA
1 TTTCACATATATCAATTGCGAAAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
* * * * * ** *
22334990 AGCTATCTAAACTGCTAAAATAAAACAATAATAGTAAATTTGTATTTTTACCTTTTAACGGCTCG
66 AGCTATCCAAACTGTTAAAAT-AGATAATAACAACAAATTTGTATTTTTACCTTTTAACGG--CA
* * *
22335055 AAAAAA-TCCTAAACA-ACTGTAAACAACAATTT
128 AAAAAAGTCCTAAATAGAC-GTAAATAACAACTT
* * * *
22335087 TTTCACATATATCAACTGCGAAAATCAAGTTCAATAATTTGAAAAAGTTTAATATCATGTATTGA
1 TTTCACATATATCAATTGCGAAAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
* * * * * *
22335152 AGCCATCCAAACTGTTAAAATCGAATAATAACAACAAATTTGTTTTTTTTCATTTTAACGACAAA
66 AGCTATCCAAACTGTTAAAATAG-ATAATAACAACAAATTTGTATTTTTACCTTTTAACGGCAAA
* * * * *
22335217 CATAGTCTTAAATAGACGTAAATGATAACTT
130 AAAAGTCCTAAATAGACGTAAATAACAACTT
* * * * *
22335248 TTTCATATATATCAATTGTGAAAACCAAGTTCAATCATTCGGATAAGTTTAATATCAT-TATTGG
1 TTTCACATATATCAATTGCGAAAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
* * * * * * * * * **
22335312 AGTTATCCAAACTATTAAACTAGAATAATAATAGCAATTTTGTATTATTACCTATTAACAGCGTA
66 AGCTATCCAAACTGTTAAAATAG-ATAATAACAACAAATTTGTATTTTTACCTTTTAACGGCAAA
22335377 AAAAGTCCTAA
130 AAAAGTCCTAA
22335388 CTTTGTCATA
Statistics
Matches: 373, Mismatches: 81, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
160 68 0.18
161 98 0.26
162 199 0.53
163 8 0.02
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (160 bp):
TTTCACATATATCAATTGCGAAAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
AGCTATCCAAACTGTTAAAATAGATAATAACAACAAATTTGTATTTTTACCTTTTAACGGCAAAA
AAAGTCCTAAATAGACGTAAATAACAACTT
Found at i:22336702 original size:13 final size:13
Alignment explanation
Indices: 22336666--22336703 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
22336656 ATAAAAGTTG
*
22336666 CATATATAAAAAA
1 CATATATAAAGAA
*
22336679 CATATGTAAAGAA
1 CATATATAAAGAA
22336692 CATATATAAAGA
1 CATATATAAAGA
22336704 CATTGAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
CATATATAAAGAA
Found at i:22341621 original size:63 final size:65
Alignment explanation
Indices: 22341490--22341634 Score: 174
Period size: 64 Copynumber: 2.3 Consensus size: 65
22341480 AGGCGTTACA
* * *
22341490 AAAATACCTTTAATAAT-TCTCTTCAATTTTTTAAAAGAAATTATTAAATGTGTTTTTTTACAGC
1 AAAATACCTTTAATAATCTCTCTTCAATTTTTTAAAAGAAATTATTAAAGGTGTGTTTATACAGC
* * *
22341554 AAAATA-CTTTAAATAATCTC-CTTTAATTTTTT-AAAGAAAATTATTGAAGGTGTGTTTATGCA
1 AAAATACCTTT-AATAATCTCTCTTCAATTTTTTAAAAG-AAATTATTAAAGGTGTGTTTATACA
*
22341616 -T
64 GC
22341617 AAAATACCTTTAATAATC
1 AAAATACCTTTAATAATC
22341635 CTTTAAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
63 21 0.30
64 47 0.67
65 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (65 bp):
AAAATACCTTTAATAATCTCTCTTCAATTTTTTAAAAGAAATTATTAAAGGTGTGTTTATACAGC
Found at i:22341874 original size:62 final size:60
Alignment explanation
Indices: 22341795--22341967 Score: 159
Period size: 62 Copynumber: 2.8 Consensus size: 60
22341785 GTTTATGCAG
* * * * * *
22341795 AAAACACCTTCAATAATCCTTTAAAATTTTGATGAAGAGATTATTGAAGATGTTTTT-GACTA
1 AAAATACCTTCAATAATCCTCTAAAATTTT-A--AAAAAATTATTGAAGATATTTTTCGACCA
* * *
22341857 AAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTGAAGGTATTTTTCTACCA
1 AAAATACCTTCAATAA--TCCTCTAAAATTTTAAAAAAATTATTGAAGATATTTTTCGACCA
** *
22341919 AAAATACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATTGAAG
1 AAAATACCTTCAATAA--TCCTCTAAAATTTTAAA-AAAATTATTGAAG
22341968 GCATTTTTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
61 19 0.20
62 52 0.54
63 13 0.14
64 12 0.12
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (60 bp):
AAAATACCTTCAATAATCCTCTAAAATTTTAAAAAAATTATTGAAGATATTTTTCGACCA
Found at i:22341965 original size:124 final size:125
Alignment explanation
Indices: 22341732--22341967 Score: 266
Period size: 124 Copynumber: 1.9 Consensus size: 125
22341722 TTTTTTGTAG
* * * *
22341732 AAAATGCCTTCAATAATTCACTCCAATCTTTTAAAAAAAATTATTGAAGGCGTGTTTATGCAGAA
1 AAAATACCTTCAATAATTCACTCCAATATTTTAAAAAAAATTATTGAAGGCATGTTTATCCAGAA
* * * *
22341797 AACACCTTCAATAATCCTTTAAAATTTTGATGAAGAGATTATTGAAGATGTTTTTGACTA
66 AACACCTTCAATAATCCTCTAAAATTTTAAAGAAGAGATCATTGAAGATGTTTTTGACTA
* * * *
22341857 AAAATACCTTCAATAATCTC-CTCTAATATTTT-AAAAAAATTATTGAAGGTATTTTTCTACCA-
1 AAAATACCTTCAATAAT-TCACTCCAATATTTTAAAAAAAATTATTGAAGGCATGTTTAT-CCAG
* **
22341919 AAAATACCTTCAATAATCTCCTCTAATTTTTTAAAGAA-A-ATCATTGAAG
64 AAAACACCTTCAATAA--TCCTCTAAAATTTTAAAGAAGAGATCATTGAAG
22341968 GCATTTTTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
124 46 0.50
125 29 0.32
126 17 0.18
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (125 bp):
AAAATACCTTCAATAATTCACTCCAATATTTTAAAAAAAATTATTGAAGGCATGTTTATCCAGAA
AACACCTTCAATAATCCTCTAAAATTTTAAAGAAGAGATCATTGAAGATGTTTTTGACTA
Found at i:22342055 original size:132 final size:131
Alignment explanation
Indices: 22341863--22342100 Score: 295
Period size: 132 Copynumber: 1.8 Consensus size: 131
22341853 ACTAAAAATA
* * *
22341863 CCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTGAAGGTATTTTTCTACCAAAAATACCT
1 CCTTCAATAATCTCCTCTAAAATTTTAAAAAAATTAGTGAAGGCATTTTTCTACCAAAAATACCT
* *
22341928 TCAATAA-TCTCCTCTAAT-TTTTTAAAGAAAATCATTGAAGGCATTTTTTTTTTTTTGCATAAA
66 TCAATAATTC-CCTCCAATCTTTTAAAAG-AAATCATTGAAGGCATTTTTTTTTTTTTGCATAAA
22341991 ACG
129 ACG
* ****
22341994 CCTTCAATAATCT-CT-TAAAATTGTTTAAAGAAAATTAGTGAAGGCATTTTTTTGTTGAAAATA
1 CCTTCAATAATCTCCTCTAAAA-T-TTTAAA-AAAATTAGTGAAGGCATTTTTCTACCAAAAATA
* *
22342057 CCTTCATTAATTCCCTCCAATCTTTTAAAAGAAATTATTGAAGG
63 CCTTCAATAATTCCCTCCAATCTTTTAAAAGAAATCATTGAAGG
22342101 GGTGTTTATG
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
129 4 0.04
130 3 0.03
131 19 0.21
132 54 0.60
133 10 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (131 bp):
CCTTCAATAATCTCCTCTAAAATTTTAAAAAAATTAGTGAAGGCATTTTTCTACCAAAAATACCT
TCAATAATTCCCTCCAATCTTTTAAAAGAAATCATTGAAGGCATTTTTTTTTTTTTGCATAAAAC
G
Found at i:22342300 original size:319 final size:317
Alignment explanation
Indices: 22341700--22342385 Score: 1059
Period size: 319 Copynumber: 2.2 Consensus size: 317
22341690 TCAATTTAAA
* *
22341700 AAAAAAATTATTGAAGGTATTTTTTTTTGTAGAAAATGCCTTCAATAATTCACTCCAATCTTTTA
1 AAAAAAATTAGTGAAGGTA-TTTTTTTTGTTGAAAATGCCTTCAATAATTCACTCCAATCTTTTA
* *
22341765 AAAAAAATTATTGAAGGCGTGTTTATGCAGAAAACACCTTCAATAATCCTTTAAAATTTTGATGA
65 AAAAAAATTATTGAAGGCGTGTTTATGCAAAAAACACATTCAATAATCCTTTAAAATTTTGATGA
**
22341830 AGAGATTATTGAAGATGTTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAA
130 AGAGATTATTGAAGACATTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAA
* *
22341895 ATTATTGAAGGTATTTTTCTACCAAAAATACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAAT
195 ATTATTGAAAGTATTTTTCTACCAAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAAT
22341960 CATTGAAGGCATTTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTT
260 CATTGAAGGCA--TTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTT
* * * *
22342020 AAAGAAAATTAGTGAAGGCA-TTTTTTTGTTGAAAATACCTTCATTAATTCCCTCCAATCTTTTA
1 AAA-AAAATTAGTGAAGGTATTTTTTTTGTTGAAAATGCCTTCAATAATTCACTCCAATCTTTTA
* * * * *
22342084 AAAGAAATTATTGAAGGGGTGTTTATGTAAAAAACACATTCAATAATCCTTTCAATTTTTGATGA
65 AAAAAAATTATTGAAGGCGTGTTTATGCAAAAAACACATTCAATAATCCTTTAAAATTTTGATGA
* * * *
22342149 GGAGATTATTGAAGGCATTTTTGACTAAAAATACCTTTAATAATCTCTTCTAATATTTTAAAAAA
130 AGAGATTATTGAAGACATTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAA
* * *
22342214 ATTATTGAAAGTATTTTTCTACCGAAAACACCTTCAATAATCTCTTCTAATTTTTTAAAGGAAAT
195 ATTATTGAAAGTATTTTTCTACCAAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAAT
** * *
22342279 CATTGAAGGTGTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTTTTAAAATTTTTT
260 CATTGAAGGCATTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTT
*
22342337 AAAAGAAATTAGTGAAGGTATTTTTTTTGTTGAAAATGCCTTTAATAAT
1 AAAA-AAATTAGTGAAGGTATTTTTTTTGTTGAAAATGCCTTCAATAAT
22342386 CCCCTTAATT
Statistics
Matches: 331, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
316 1 0.00
317 62 0.19
318 25 0.08
319 226 0.68
320 3 0.01
321 14 0.04
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (317 bp):
AAAAAAATTAGTGAAGGTATTTTTTTTGTTGAAAATGCCTTCAATAATTCACTCCAATCTTTTAA
AAAAAATTATTGAAGGCGTGTTTATGCAAAAAACACATTCAATAATCCTTTAAAATTTTGATGAA
GAGATTATTGAAGACATTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAA
TTATTGAAAGTATTTTTCTACCAAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATC
ATTGAAGGCATTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTT
Found at i:22342528 original size:319 final size:316
Alignment explanation
Indices: 22341703--22342548 Score: 1017
Period size: 319 Copynumber: 2.6 Consensus size: 316
22341693 ATTTAAAAAA
* * * * * *
22341703 AAAATTATTGAAGGTATTTTTTTTTGTAGAAAATGCCTTCAATAATTCACTCCAATCTTTTAAAA
1 AAAATTAGTGAAGGCA--TTTTTTTGTTGAAAATACCTTCAATAATCCCCTCCAATCTTTTAAAA
* * * * * * * *
22341768 AAAATTATTGAAGGCGTGTTTATGCAGAAAACACCTTCAATAATCCTTTAAAATTTTGATGAAGA
64 GAAATTATTAAAGGAGTGTTTATGTAAAAAACACATTCAATAATCCTTTCAAATTTT--TAAAGA
*
22341833 GATTATTGAAGATGTTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATT
127 GATTATTGAAGATATTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATT
*
22341898 ATTGAAGGTATTTTTCTACCAAAAATACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCAT
192 ATTGAAGGTATTTTTCTACCAAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCAT
*
22341963 TGAAGGCATTTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTTAAAG
257 TGAAGG-ATGTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTTAAAG
* *
22342024 AAAATTAGTGAAGGCATTTTTTTGTTGAAAATACCTTCATTAATTCCCTCCAATCTTTTAAAAGA
1 AAAATTAGTGAAGGCATTTTTTTGTTGAAAATACCTTCAATAATCCCCTCCAATCTTTTAAAAGA
* * *
22342089 AATTATTGAAGGGGTGTTTATGTAAAAAACACATTCAATAATCCTTTC-AATTTTTGATGAGGAG
66 AATTATTAAAGGAGTGTTTATGTAAAAAACACATTCAATAATCCTTTCAAATTTTT-A--AAGAG
** * *
22342153 ATTATTGAAGGCATTTTTGACTAAAAATACCTTTAATAATCTCTTCTAATATTTTAAAAAAATTA
128 ATTATTGAAGATATTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATTA
* * * *
22342218 TTGAAAGTATTTTTCTACCGAAAACACCTTCAATAATCTCTTCTAATTTTTTAAAGGAAATCATT
193 TTGAAGGTATTTTTCTACCAAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATT
* *
22342283 GAAGG-TGTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTTTTAAAATTTTTTAAA-
258 GAAGGATGTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTTAAAG
* * * * * *
22342340 AGAAATTAGTGAAGGTATTTTTTTTGTTGAAAATGCCTTTAATAATCCCCT-TAATTTTTTACGA
1 A-AAATTAGTGAAGGCA-TTTTTTTGTTGAAAATACCTTCAATAATCCCCTCCAATCTTTTA-AA
* * * * * * *
22342404 GGAGATTATTAAAGGTATTTTTTTTTTATAAAAA-ATGCTTTCAATAATCCATTTCAAATTTTTA
63 AGAAATTATTAAAGG-AGTGTTTATGTA-AAAAACA--CATTCAATAATCC-TTTCAAATTTTTA
* *
22342468 AAGAAAATTATTGAAGATATTTTT-A-TGCAAAAA-AGCCTTCAATAATCTCCTCTAAT-TTTAA
123 AAG-AGATTATTGAAGATATTTTTGACT--AAAAATA-CCTTCAATAATCTCCTCTAATATTT-T
22342529 AAAAAAATTATTGAAGGTAT
183 AAAAAAATTATTGAAGGTAT
22342549 GTTTATGTAG
Statistics
Matches: 456, Mismatches: 52, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
316 2 0.00
317 71 0.16
318 48 0.11
319 225 0.49
320 12 0.03
321 86 0.19
322 5 0.01
323 7 0.02
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (316 bp):
AAAATTAGTGAAGGCATTTTTTTGTTGAAAATACCTTCAATAATCCCCTCCAATCTTTTAAAAGA
AATTATTAAAGGAGTGTTTATGTAAAAAACACATTCAATAATCCTTTCAAATTTTTAAAGAGATT
ATTGAAGATATTTTTGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTG
AAGGTATTTTTCTACCAAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATTGAA
GGATGTTTTTTTTTTTGCATAAAACGCCTTCAATAATCTCTTAAAATTGTTTAAAG
Found at i:22342574 original size:62 final size:62
Alignment explanation
Indices: 22341699--22342578 Score: 412
Period size: 63 Copynumber: 13.8 Consensus size: 62
22341689 TTCAATTTAA
* *
22341699 AAAAAAAATTATTGAAGGTATTTTTTTTTGTAGAAAATGCCTTCAATAAT-TCACTCCAATCTTT
1 AAAAAAAATTATTGAAGGTA--TTTTTTTGTAGAAAATACCTTCAATAATCTC-CTCTAAT-TTT
22341763 T
62 T
** * * * * * *
22341764 AAAAAAAATTATTGAAGGCGTGTTTATGCAGAAAACACCTTCAATAA--TCCTTTAAAATTTTG
1 AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCTCCTCT--AATTTTT
* * * *
22341826 ATGAAGAGATTATTGAA-G-ATGTTTTTGACTA-AAAATACCTTCAATAATCTCCTCTAATATTT
1 A-AAAAAAATTATTGAAGGTATTTTTTTG--TAGAAAATACCTTCAATAATCTCCTCTAAT-TTT
22341888 T
62 T
***
22341889 -AAAAAAATTATTGAAGGTATTTTTCTACCA-AAAATACCTTCAATAATCTCCTCTAATTTTTT
1 AAAAAAAATTATTGAAGGTATTTTT-TTGTAGAAAATACCTTCAATAATCTCCTCTAA-TTTTT
* * * * * * **
22341951 AAAGAAAATCATTGAAGGCATTTTTTTTTTTTTGCATAAA-ACGCCTTCAATAATCTCTTAAAAT
1 AAAAAAAATTATTGAAGG---TATTTTTTTGTAG-A-AAATA--CCTTCAATAATCTCCTCTAAT
22342015 TGTTT
59 T-TTT
* * * * * *
22342020 AAAGAAAATTAGTGAAGGCATTTTTTTGTTGAAAATACCTTCATTAAT-TCCCTCCAATCTTTT
1 AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCT-CCTCTAAT-TTTT
* ** * * * * * *
22342083 AAAAGAAATTATTGAAGGGGTGTTTATGTAAAAAACACATTCAATAA--TCCTTTCAATTTTT
1 AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCTCCTCT-AATTTTT
* ** * * *** * *
22342144 GATGAGGAGATTATTGAAGGCATTTTTGACTA-AAAATACCTTTAATAATCTCTTCTAATATTTT
1 -A-AAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCTCCTCTAAT-TTTT
* * *** * *
22342208 -AAAAAAATTATTGAAAGTATTTTTCTACCGAAAACACCTTCAATAATCTCTTCTAATTTTTT
1 AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCTCCTCTAA-TTTTT
** * * * * ** **
22342270 AAAGGAAATCATTGAAGGTGTTTTTTTTTTTGCATAAA-ACGCCTTCAATAATCTTTTAAAATTT
1 AAAAAAAATTATTGAAGGT-ATTTTTTTGTAG-A-AAATA--CCTTCAATAATCTCCTCTAA-TT
22342334 TTT
60 TTT
* * * * * *
22342337 AAAAGAAATTAGTGAAGGTATTTTTTTTGTTGAAAATGCCTTTAATAATCCCCT-TAATTTTTT
1 AAAAAAAATTATTGAAGGTA-TTTTTTTGTAGAAAATACCTTCAATAATCTCCTCTAA-TTTTT
* ** * * * * * * * *
22342400 ACGAGGAGATTATTAAAGGTATTTTTTTTTTATAAAAAATGCTTTCAATAATC-CATTTCAAATT
1 A-AAAAAAATTATTGAAGGTA---TTTTTTTGTAGAAAATACCTTCAATAATCTC--CTCTAATT
22342464 TTT
60 TTT
* * * * *
22342467 AAAGAAAATTATTGAAGATATTTTTATGCA-AAAA-AGCCTTCAATAATCTCCTCTAATTTTA
1 AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATA-CCTTCAATAATCTCCTCTAATTTTT
* * * *
22342528 AAAAAAAATTATTGAAGGTATGTTTATGTAGAAAATGCCTTTAATAATCTC
1 AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCTC
22342579 TTAAAATTTT
Statistics
Matches: 624, Mismatches: 140, Indels: 105
0.72 0.16 0.12
Matches are distributed among these distances:
61 80 0.13
62 136 0.22
63 170 0.27
64 51 0.08
65 27 0.04
66 59 0.09
67 58 0.09
68 7 0.01
69 36 0.06
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (62 bp):
AAAAAAAATTATTGAAGGTATTTTTTTGTAGAAAATACCTTCAATAATCTCCTCTAATTTTT
Found at i:22342708 original size:60 final size:61
Alignment explanation
Indices: 22342580--22342710 Score: 140
Period size: 60 Copynumber: 2.1 Consensus size: 61
22342570 AATAATCTCT
* * ** * * *
22342580 TAAAATTTTGACGAAGAGATTATTGAAGACGTTTTAAGTTAAAAATGCTTTCAATAATCCTC
1 TAAAATTTTGAAGAAGAGATTATTAAAGACGTTTT-AGACAAAAATACATTCAATAATCCGC
* * *
22342642 TTAAATTTT-AAGAAGAGATTATTAAAGGCAGTTTT-GACAAAAATACATTCAATAATTCGC
1 TAAAATTTTGAAGAAGAGATTATTAAAGAC-GTTTTAGACAAAAATACATTCAATAATCCGC
22342702 TAAAATTTT
1 TAAAATTTT
22342711 TTAAAGCAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
60 27 0.47
61 17 0.30
62 13 0.23
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (61 bp):
TAAAATTTTGAAGAAGAGATTATTAAAGACGTTTTAGACAAAAATACATTCAATAATCCGC
Found at i:22351144 original size:7 final size:7
Alignment explanation
Indices: 22351134--22351164 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
22351124 ATTTTATATT
22351134 AATTTTA
1 AATTTTA
22351141 AATTTTA
1 AATTTTA
22351148 AATTTTA
1 AATTTTA
22351155 AATTTTA
1 AATTTTA
22351162 AAT
1 AAT
22351165 AATATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AATTTTA
Found at i:22352585 original size:13 final size:15
Alignment explanation
Indices: 22352557--22352593 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
22352547 AAAAGATTTA
*
22352557 TTTATCTTTTATC-T
1 TTTATTTTTTATCTT
22352571 TTTATTTTTTA-CTT
1 TTTATTTTTTATCTT
22352585 TTTATTTTT
1 TTTATTTTT
22352594 ATTTCAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 20 0.95
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTTATCTT
Found at i:22355123 original size:14 final size:14
Alignment explanation
Indices: 22355084--22355114 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22355074 CATTTTTATC
*
22355084 TTTAATAAATATAT
1 TTTAATAAATAAAT
22355098 TTTAATAAATAAAT
1 TTTAATAAATAAAT
22355112 TTT
1 TTT
22355115 TATATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATAAATAAAT
Found at i:22355128 original size:3 final size:3
Alignment explanation
Indices: 22355120--22355150 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
22355110 ATTTTTATAT
22355120 ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22355151 TTAATCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:22355227 original size:27 final size:28
Alignment explanation
Indices: 22355187--22355239 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
22355177 ATTAGTAAAA
*
22355187 TTTGATAACTTTTTGATTTAATTTTGAT
1 TTTGATAACTTTTTGATATAATTTTGAT
22355215 TTTGATAAC-TTTTGATATAATTTTG
1 TTTGATAACTTTTTGATATAATTTTG
22355240 GTAACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.58
Consensus pattern (28 bp):
TTTGATAACTTTTTGATATAATTTTGAT
Found at i:22355239 original size:21 final size:21
Alignment explanation
Indices: 22355213--22355324 Score: 84
Period size: 21 Copynumber: 5.2 Consensus size: 21
22355203 TTTAATTTTG
*
22355213 ATTTTGATAACTT-TTGATATA
1 ATTTTGGTAACTTATT-ATATA
22355234 ATTTTGGTAACTTATTATATA
1 ATTTTGGTAACTTATTATATA
* *
22355255 TTTTTGGTAAC-TATCAATATA
1 ATTTTGGTAACTTAT-TATATA
* * * *
22355276 GTTTTGGTAATATTTTTATAAA
1 ATTTTGGTAA-CTTATTATATA
* * *
22355298 ATTTTAGTAGTCTTTTTATATA
1 ATTTTGGTA-ACTTATTATATA
22355320 ATTTT
1 ATTTT
22355325 ATGCTATGTT
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.04
21 41 0.56
22 27 0.37
23 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (21 bp):
ATTTTGGTAACTTATTATATA
Found at i:22357717 original size:64 final size:64
Alignment explanation
Indices: 22357644--22357791 Score: 178
Period size: 64 Copynumber: 2.3 Consensus size: 64
22357634 TTGAAGGCAT
* * * *
22357644 TACA-AAAATACCTTTAATAATTCT-CTTCAATTTTTTAAAAGAAATTATTAAATGTGTTTTTT
1 TACACAAAATACCTTTAATAATTCTCCTTCAATTTTTTAAAAAAAATTATTAAAGGTGTGTTTA
* *
22357706 TACAGCAAAATA-CTTTAAATAA-TCTCCTTTAATTTTTTAAAAAAAATTATTGAAGGTGTGTTT
1 TACA-CAAAATACCTTT-AATAATTCTCCTTCAATTTTTTAAAAAAAATTATTAAAGGTGTGTTT
22357769 A
64 A
* *
22357770 TGCATAAAATACCTTTAATAAT
1 TACACAAAATACCTTTAATAAT
22357792 CCTTTAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
62 4 0.06
63 18 0.25
64 50 0.69
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (64 bp):
TACACAAAATACCTTTAATAATTCTCCTTCAATTTTTTAAAAAAAATTATTAAAGGTGTGTTTA
Found at i:22358079 original size:62 final size:60
Alignment explanation
Indices: 22357851--22358382 Score: 336
Period size: 63 Copynumber: 8.5 Consensus size: 60
22357841 ATTTTTTTCA
* ** * *
22357851 ATTTAAAAAAAATTATTGAAGGTATTTTTTTTTGTAGAAAATGCCTTCAATAATTCACTCCAAT
1 ATTTTAAAAAAATTATTGAAGGTA--TTTTTTACT-GAAAATACCTTCAATAATTC-CTCTAAT
* * * * * * * *
22357915 CTTTTAAAAAAAATTATTGAAGGTGTGTTTATGCAGAAAACACCTTCAATAA-TCCTTTAAA
1 ATTTT-AAAAAAATTATTGAAGGTAT-TTTTTACTGAAAATACCTTCAATAATTCCTCTAAT
* * * * * * * *
22357976 ATTTTGATGAAGAGATTATTAAAGATGTTTTTGACTAAAAATGCCTTCAATAATCTCCTCTAAT
1 ATTTT-A--AAAAAATTATTGAAGGTATTTTTTACTGAAAATACCTTCAATAAT-TCCTCTAAT
*
22358040 ATTTTAAAAAAATTATTGAAGGTATTTTTCTACCGAAAATACCTTCAATAATCTCCTCTAAT
1 ATTTTAAAAAAATTATTGAAGGTATTTTT-TACTGAAAATACCTTCAATAAT-TCCTCTAAT
* * * * ** * *
22358102 TTTTTAAAGAAAATCATTAAAGGCATTTTTTTGTTGAAAATACCTTCATTAATTCCCTCCAAT
1 ATTTTAAA-AAAATTATTGAAGGTA-TTTTTTACTGAAAATACCTTCAATAATT-CCTCTAAT
* ** * * *
22358165 CTTTTAAAAGAAATTATTGAAGG-GGTGTTTA-TGTAAAAAACACATTCAATAA-TCCTTTCAAT
1 ATTTTAAAA-AAATTATTGAAGGTATTTTTTACTG-AAAATAC-C-TTCAATAATTCCTCT-AAT
* ** * * * *
22358227 TTTTTATGAGGAGATTATTGAAGGTATTTTTGACTAAAAATACCTTCAATAATCTCTTCTAAT
1 ATTTTA--AAAAAATTATTGAAGGTATTTTTTACTGAAAATACCTTCAATAAT-TCCTCTAAT
* * *
22358290 ATTTTAAAAAAATTATTGAAAGTATTTTTCTA-TCGAAAACACCTTCAATAATCTCTTCTAAT
1 ATTTTAAAAAAATTATTGAAGGTATTTTT-TACT-GAAAATACCTTCAATAAT-TCCTCTAAT
* * * *
22358352 TTTTTAAAGGAAATCATTGAAGGTGTTTTTT
1 ATTTTAAA-AAAATTATTGAAGGTATTTTTT
22358383 TTTTTGCATA
Statistics
Matches: 363, Mismatches: 81, Indels: 50
0.73 0.16 0.10
Matches are distributed among these distances:
60 2 0.01
61 60 0.17
62 110 0.30
63 133 0.37
64 39 0.11
65 19 0.05
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (60 bp):
ATTTTAAAAAAATTATTGAAGGTATTTTTTACTGAAAATACCTTCAATAATTCCTCTAAT
Found at i:22358318 original size:250 final size:250
Alignment explanation
Indices: 22357877--22358383 Score: 780
Period size: 250 Copynumber: 2.0 Consensus size: 250
22357867 TGAAGGTATT
* *
22357877 TTTTTTTGTAGAAAATGCCTTCAATAATTCACTCCAATCTTTTAAAAAAAATTATTGAAGGTGTG
1 TTTTTTTGTAGAAAATACCTTCAATAATTCACTCCAATCTTTTAAAAAAAATTATTGAAGGGGTG
* * *
22357942 TTTATGCAGAAAACACCTTCAATAATCCTTTAAAATTTTGATGAAGAGATTATTAAAGATGTTTT
66 TTTATGCAAAAAACACATTCAATAATCCTTTAAAATTTTGATGAAGAGATTATTAAAGATATTTT
* *
22358007 TGACTAAAAATGCCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTGAAGGTATTTTTCTA
131 TGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTGAAAGTATTTTTCTA
*
22358072 CCGAAAATACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATTAAAGGCA
196 CCGAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATTAAAGGCA
* * * *
22358127 TTTTTTTGTTGAAAATACCTTCATTAATTCCCTCCAATCTTTTAAAAGAAATTATTGAAGGGGTG
1 TTTTTTTGTAGAAAATACCTTCAATAATTCACTCCAATCTTTTAAAAAAAATTATTGAAGGGGTG
* * * * * * *
22358192 TTTATGTAAAAAACACATTCAATAATCCTTTCAATTTTTTATGAGGAGATTATTGAAGGTATTTT
66 TTTATGCAAAAAACACATTCAATAATCCTTTAAAATTTTGATGAAGAGATTATTAAAGATATTTT
*
22358257 TGACTAAAAATACCTTCAATAATCTCTTCTAATATTTTAAAAAAATTATTGAAAGTATTTTTCTA
131 TGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTGAAAGTATTTTTCTA
* * * * **
22358322 TCGAAAACACCTTCAATAATCTCTTCTAATTTTTTAAAGGAAATCATTGAAGGTG
196 CCGAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATTAAAGGCA
22358377 TTTTTTT
1 TTTTTTT
22358384 TTTTGCATAA
Statistics
Matches: 231, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
250 231 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (250 bp):
TTTTTTTGTAGAAAATACCTTCAATAATTCACTCCAATCTTTTAAAAAAAATTATTGAAGGGGTG
TTTATGCAAAAAACACATTCAATAATCCTTTAAAATTTTGATGAAGAGATTATTAAAGATATTTT
TGACTAAAAATACCTTCAATAATCTCCTCTAATATTTTAAAAAAATTATTGAAAGTATTTTTCTA
CCGAAAACACCTTCAATAATCTCCTCTAATTTTTTAAAGAAAATCATTAAAGGCA
Found at i:22358422 original size:67 final size:67
Alignment explanation
Indices: 22358003--22358582 Score: 283
Period size: 67 Copynumber: 9.0 Consensus size: 67
22357993 ATTAAAGATG
* * * * *
22358003 TTTTTGACTAAAAATGCCTTCAATAAT-CTCCTCTAATATTTTAAA-AAAATTATTGAAGGTA-T
1 TTTTTGA-T-AAAACGCCTTCAATAATCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATT
22358065 TTTT
64 TTTT
* *** * * * * * *
22358069 CTACCGA-AAATA--CCTTCAATAAT-CTCCTCTAATTTTTTAAAGAAAATCATTAAAGGCA-TT
1 TTTTTGATAAA-ACGCCTTCAATAATCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATTT
22358129 TTT
65 TTT
* * * * * **
22358132 TTGTTGA-AAATA--CCTTCATTAATTCC-C-TCCAATCTTTTAAAAGAAATTATTGAAGG--GG
1 TTTTTGATAAA-ACGCCTTCAATAA-TCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATT
*
22358190 TGTT
64 TTTT
* * * * * * *
22358194 TATGT-AAAAAACACATTCAATAATCCT-TTC-AATTTTTTATGAGGAGATTATTGAAGGTA--T
1 TTTTTGATAAAACGCCTTCAATAATCCTCTTCAAATTTTTTA-AAGGAAATTATTGAAGGTATTT
22358254 TTT
65 TTT
*** ** * * * *
22358257 TGACT-A-AAAATACCTTCAATAAT-CTCTTCTAATATTTTAAA-AAAATTATTGAAAGTA-TTT
1 TTTTTGATAAAACGCCTTCAATAATCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATTTT
22358317 TT
66 TT
* * * * * * *
22358319 CTATCG--AAAACACCTTCAATAAT-CTCTTCTAATTTTTTAAAGGAAATCATTGAAGGTGTTTT
1 TTTTTGATAAAACGCCTTCAATAATCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATTTT
22358381 TT
66 TT
* * * *
22358383 TTTTTGCATAAAACGCCTTCAATAAT-CTTTTAAAATTTTTTAAAAGAAATTAGTGAAGGTATTT
1 TTTTTG-ATAAAACGCCTTCAATAATCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATTT
22358447 TTT
65 TTT
* * * * *
22358450 TTTTTGTTGAAAATGCCTTTAATAATCCTCTT--AATTTTTTACGAGGAGATTATTGAAGGTATT
1 TTTTTGAT-AAAACGCCTTCAATAATCCTCTTCAAATTTTTTA-AAGGAAATTATTGAAGGTATT
22358513 TTTT
64 TTTT
* * * *
22358517 TTTTT-ATAAAAAATGCTTTCAATAATCC-CTTTCAAA-TTTTTAAAGAAAATTATTGAAGATAT
1 TTTTTGAT--AAAACGCCTTCAATAATCCTC-TTCAAATTTTTTAAAGGAAATTATTGAAGGTAT
22358579 TTTT
63 TTTT
22358583 ATACAAAAAA
Statistics
Matches: 407, Mismatches: 78, Indels: 57
0.75 0.14 0.11
Matches are distributed among these distances:
61 17 0.04
62 104 0.26
63 111 0.27
64 11 0.03
65 1 0.00
66 15 0.04
67 136 0.33
68 10 0.02
69 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (67 bp):
TTTTTGATAAAACGCCTTCAATAATCCTCTTCAAATTTTTTAAAGGAAATTATTGAAGGTATTTT
TT
Found at i:22358505 original size:134 final size:134
Alignment explanation
Indices: 22358331--22358582 Score: 314
Period size: 134 Copynumber: 1.9 Consensus size: 134
22358321 ATCGAAAACA
* * *
22358331 CCTTCAATAATCTCTTCTAATTTTTTAAAGGAAATCATTGAAGGTGTTTTTTTTTTTGCATAAAA
1 CCTTCAATAATCTCTTCTAATTTTTTAAAGGAAATCATTGAAGGTATTTTTTTTTTTACAAAAAA
* *
22358396 CGCCTTCAATAAT-CTTTTAAAATTTTTTAAA-AGAAATTAGTGAAGGTATTTTTTTTTTTGTTG
66 CGCCTTCAATAATCCCTTTAAAA-TTTTTAAAGA-AAATTAGTGAAGATATTTTTTTTTTTGTTG
22358459 AAAATG
129 AAAATG
* * * * *
22358465 CCTTTAATAATC-C-TCTTAATTTTTTACGAGGAGATTATTGAAGGTATTTTTTTTTTTATAAAA
1 CCTTCAATAATCTCTTC-TAATTTTTTA-AAGGAAATCATTGAAGGTATTTTTTTTTTTACAAAA
* * * *
22358528 AATGCTTTCAATAATCCCTTTCAAATTTTTAAAGAAAATTATTGAAGATATTTTT
64 AACGCCTTCAATAATCCCTTTAAAATTTTTAAAGAAAATTAGTGAAGATATTTTT
22358583 ATACAAAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
132 2 0.02
133 11 0.11
134 79 0.79
135 8 0.08
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (134 bp):
CCTTCAATAATCTCTTCTAATTTTTTAAAGGAAATCATTGAAGGTATTTTTTTTTTTACAAAAAA
CGCCTTCAATAATCCCTTTAAAATTTTTAAAGAAAATTAGTGAAGATATTTTTTTTTTTGTTGAA
AATG
Found at i:22358728 original size:61 final size:59
Alignment explanation
Indices: 22358631--22358756 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 59
22358621 TTAAAAAAAA
* *
22358631 ATTATTGAAGAGTTTATGTAGAAAATGCCTTTAATAAT-CTCTTAAAATTTGACGAAGAG
1 ATTATTGAAGAGTTTAAGTAGAAAATGCCTTTAATAATCCTCTT-AAATTTGAAGAAGAG
*
22358690 ATTATTGAAGATGTTTTAAGTTA-AAAATG-CTTTCAATAATCCTCTTAAATTTTAAGAAGAG
1 ATTATTGAAGA-G-TTTAAG-TAGAAAATGCCTTT-AATAATCCTCTTAAATTTGAAGAAGAG
22358751 ATTATT
1 ATTATT
22358757 AAAGGCAGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
59 11 0.19
60 5 0.08
61 36 0.61
62 7 0.12
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (59 bp):
ATTATTGAAGAGTTTAAGTAGAAAATGCCTTTAATAATCCTCTTAAATTTGAAGAAGAG
Found at i:22364703 original size:8 final size:8
Alignment explanation
Indices: 22364679--22364715 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
22364669 TGTTTTACTA
22364679 ATTTTTTT
1 ATTTTTTT
* *
22364687 ATATATTT
1 ATTTTTTT
22364695 ATTTTTTT
1 ATTTTTTT
22364703 ATTTTTTT
1 ATTTTTTT
22364711 ATTTT
1 ATTTT
22364716 GATTTCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:22364809 original size:23 final size:23
Alignment explanation
Indices: 22364765--22364810 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22364755 TGATGTAAAT
*
22364765 AAAAATTAAATTAAATTTTTTTA
1 AAAAATTAAATTAAATTATTTTA
*
22364788 AAAAATGTAAA-TATATTATTTTA
1 AAAAAT-TAAATTAAATTATTTTA
22364811 TGATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAAAATTAAATTAAATTATTTTA
Found at i:22368571 original size:7 final size:7
Alignment explanation
Indices: 22368555--22368583 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
22368545 TCTGTCTCTC
22368555 TTTT-TT
1 TTTTATT
22368561 TTTTATT
1 TTTTATT
22368568 TTTTATT
1 TTTTATT
22368575 TTTTATT
1 TTTTATT
22368582 TT
1 TT
22368584 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTATT
Found at i:22368752 original size:27 final size:28
Alignment explanation
Indices: 22368722--22368775 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
22368712 TTGTTTTTAT
22368722 TTTTTA-TTTTCCTTTTTTAAAAAATAG
1 TTTTTATTTTTCCTTTTTTAAAAAATAG
**
22368749 TTTTTATTTTTTGTTTTTTAAAAAATA
1 TTTTTATTTTTCCTTTTTTAAAAAATA
22368776 TATTTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTTATTTTTCCTTTTTTAAAAAATAG
Found at i:22368796 original size:26 final size:27
Alignment explanation
Indices: 22368767--22368829 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
22368757 TTTTGTTTTT
* * *
22368767 TAAAAAATATATTTGATAA-ATGAAAA
1 TAAAAAATATATTTAAAAATATAAAAA
*
22368793 TAAAAAATATTTTTAAAAATATAAAAA
1 TAAAAAATATATTTAAAAATATAAAAA
22368820 TAAAGAAATA
1 TAAA-AAATA
22368830 AATAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.52
27 10 0.32
28 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (27 bp):
TAAAAAATATATTTAAAAATATAAAAA
Found at i:22371118 original size:3 final size:3
Alignment explanation
Indices: 22371110--22371157 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
22371100 AAATTTATTT
*
22371110 TAA TAA TAA TTTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22371156 TA
1 TA
22371158 TTAACTTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:22371228 original size:27 final size:28
Alignment explanation
Indices: 22371188--22371240 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
22371178 ATTAGTAAAA
22371188 TTTGATAACTTTTTGATATAATTTTGAT
1 TTTGATAACTTTTTGATATAATTTTGAT
*
22371216 TTTGATAAC-TTTTGATTTAATTTTG
1 TTTGATAACTTTTTGATATAATTTTG
22371241 GTAACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.58
Consensus pattern (28 bp):
TTTGATAACTTTTTGATATAATTTTGAT
Found at i:22371230 original size:16 final size:17
Alignment explanation
Indices: 22371198--22371233 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22371188 TTTGATAACT
22371198 TTTTGATATAATTTTGA
1 TTTTGATATAATTTTGA
*
22371215 TTTTGATA-ACTTTTGA
1 TTTTGATATAATTTTGA
22371231 TTT
1 TTT
22371234 AATTTTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTGATATAATTTTGA
Found at i:22371306 original size:22 final size:22
Alignment explanation
Indices: 22371275--22371318 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22371265 ACTATCTTTG
22371275 GTAATATTTTTATAAAATTTTA
1 GTAATATTTTTATAAAATTTTA
* *
22371297 GTAATCTTTTTATATAATTTTA
1 GTAATATTTTTATAAAATTTTA
22371319 TGCTATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
GTAATATTTTTATAAAATTTTA
Found at i:22372445 original size:21 final size:22
Alignment explanation
Indices: 22372403--22372454 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
22372393 AATGATTAAT
*
22372403 TACTAAATTAGTATTTATTTAC
1 TACTAAATTAGTATTGATTTAC
*
22372425 TACTAAGTTAG-ATTGATTTAC
1 TACTAAATTAGTATTGATTTAC
22372446 TACTAAATT
1 TACTAAATT
22372455 GTTGATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (22 bp):
TACTAAATTAGTATTGATTTAC
Found at i:22372627 original size:22 final size:22
Alignment explanation
Indices: 22372556--22372675 Score: 66
Period size: 22 Copynumber: 5.5 Consensus size: 22
22372546 AATGATTAAC
* *
22372556 TAATTTGCTACT-AATTATCACT
1 TAATTTACTACTAAATTATCA-A
* * *
22372578 TATTTTA-TAACTAAATTATTAG
1 TAATTTACT-ACTAAATTATCAA
*
22372600 TGATTTACTACTAAATTATCAA
1 TAATTTACTACTAAATTATCAA
* * ** *
22372622 TAATTTAATATTATGTTAT-TA
1 TAATTTACTACTAAATTATCAA
* *
22372643 TACATTTACTACTATATTATCAT
1 TA-ATTTACTACTAAATTATCAA
*
22372666 TGATTTACTA
1 TAATTTACTA
22372676 TTTAGTTTTT
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
21 4 0.05
22 60 0.82
23 9 0.12
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAA
Found at i:22372779 original size:36 final size:36
Alignment explanation
Indices: 22372728--22372799 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
22372718 ACAAAATTAA
* * *
22372728 CCATGATTCATTATCAAGTTATCATTGATTTACTAT
1 CCATGATTCACTATCAAGTTATCATAGATTAACTAT
* *
22372764 CCATGATTTACTATCAAGTTATTATAGATTAACTAT
1 CCATGATTCACTATCAAGTTATCATAGATTAACTAT
22372800 ACTAAGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.43
Consensus pattern (36 bp):
CCATGATTCACTATCAAGTTATCATAGATTAACTAT
Found at i:22372873 original size:22 final size:22
Alignment explanation
Indices: 22372767--22373066 Score: 98
Period size: 22 Copynumber: 13.6 Consensus size: 22
22372757 TTACTATCCA
* *
22372767 TGATTTACTATCAAGTTATTAT
1 TGATTTACTATTAAGTTATCAT
* *
22372789 AGATTAACTATACTAAGTTAT-AT
1 TGATTTACTAT--TAAGTTATCAT
* * * * *
22372812 TG-TTTACTTTTAAATTTTTAA
1 TGATTTACTATTAAGTTATCAT
*
22372833 TGATTAACTATT-AGTTTATCAT
1 TGATTTACTATTAAG-TTATCAT
*
22372855 TGATTTACTATTAAGTTAT-TT
1 TGATTTACTATTAAGTTATCAT
* * * * *
22372876 ATAATTCATTACTAAATTTATCAAT
1 -TGATTTACTA-TTAAGTTATC-AT
* * *
22372901 T-AATTA-TCATTAAATTGA-AAT
1 TGATTTACT-ATTAAGTT-ATCAT
* *
22372922 TGTTTTACTATTAAGTTATCAG
1 TGATTTACTATTAAGTTATCAT
* * * * *
22372944 TAATTTATTTTTAAGTTATTAC
1 TGATTTACTATTAAGTTATCAT
* *
22372966 TAATTTATTATTAAGTTATCAT
1 TGATTTACTATTAAGTTATCAT
*
22372988 CGATTT-CTTATTAAGTTATCAAT
1 TGATTTAC-TATTAAGTTATC-AT
* *
22373011 TG-TTAACT-TCTAAGTTGTCAT
1 TGATTTACTAT-TAAGTTATCAT
* ** ** *
22373032 TTATTTTTTATTAACCTATAAT
1 TGATTTACTATTAAGTTATCAT
22373054 TGATTTACTATTA
1 TGATTTACTATTA
22373067 TATTGTTATG
Statistics
Matches: 198, Mismatches: 59, Indels: 42
0.66 0.20 0.14
Matches are distributed among these distances:
20 6 0.03
21 13 0.07
22 147 0.74
23 23 0.12
24 8 0.04
25 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (22 bp):
TGATTTACTATTAAGTTATCAT
Found at i:22372962 original size:11 final size:11
Alignment explanation
Indices: 22372930--22372984 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
22372920 ATTGTTTTAC
22372930 TATTAAGTTAT
1 TATTAAGTTAT
* * *
22372941 CAGTAATTTAT
1 TATTAAGTTAT
*
22372952 TTTTAAGTTAT
1 TATTAAGTTAT
* *
22372963 TACTAATTTAT
1 TATTAAGTTAT
22372974 TATTAAGTTAT
1 TATTAAGTTAT
22372985 CATCGATTTC
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.55
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:22373562 original size:22 final size:21
Alignment explanation
Indices: 22373512--22373596 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
22373502 AATGATGAAC
* * *
22373512 TAATTTATTACTAAATTATCAC
1 TAATTTACTACT-AATTATTAG
* * *
22373534 TGATTTACAACTAAGTTATTTG
1 TAATTTACTACTAA-TTATTAG
*
22373556 TAGTTTACTACTACATTATTAG
1 TAATTTACTACTA-ATTATTAG
22373578 TAATTTACTACTAAATTAT
1 TAATTTACTACT-AATTAT
22373597 AAATGATTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.04
22 45 0.92
23 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (21 bp):
TAATTTACTACTAATTATTAG
Found at i:22373703 original size:22 final size:21
Alignment explanation
Indices: 22373623--22373706 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 21
22373613 TATTTTTATA
**
22373623 TATTTATTATTATGTTATCAT
1 TATTTATTATTAAATTATCAT
* * * *
22373644 TAATTTACTATTTAATTTTTAAT
1 T-ATTTATTA-TTAAATTATCAT
* **
22373667 TATTTATCACGAAATTATCAT
1 TATTTATTATTAAATTATCAT
22373688 TGATTTATTATTAAATTAT
1 T-ATTTATTATTAAATTAT
22373707 TTGTGATCCA
Statistics
Matches: 45, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
21 9 0.20
22 27 0.60
23 9 0.20
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTTATTATTAAATTATCAT
Found at i:22373780 original size:22 final size:22
Alignment explanation
Indices: 22373755--22373817 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
22373745 TGCATAATTT
22373755 ACTATTAAGTTATCATTGATTA
1 ACTATTAAGTTATCATTGATTA
* *
22373777 ACTATTATGTTATCGA-TGATTT
1 ACTATTAAGTTATC-ATTGATTA
**
22373799 ACTACCAAGTTAT-ATTGAT
1 ACTATTAAGTTATCATTGAT
22373818 ATTGATTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 28 0.82
23 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (22 bp):
ACTATTAAGTTATCATTGATTA
Found at i:22373908 original size:22 final size:22
Alignment explanation
Indices: 22373883--22373967 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 22
22373873 ACTAAAATTG
* *
22373883 ATTTACTATTAAATTATCACTA
1 ATTTACTACTAAATTATCAATA
* ** * *
22373905 ATTTACTATTAGGTTATCATTG
1 ATTTACTACTAAATTATCAATA
*
22373927 ATTTATTACTAAATTATCAATA
1 ATTTACTACTAAATTATCAATA
* *
22373949 GTTAACTACTAAATTATCA
1 ATTTACTACTAAATTATCA
22373968 TTTATTAGTG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATA
Found at i:22373966 original size:44 final size:44
Alignment explanation
Indices: 22373879--22373969 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
22373869 TTAAACTAAA
* * * * **
22373879 ATTGATTTACTATTAAATTATCACTAATTTACTATTAGGTTATC
1 ATTGATTTACTACTAAATTATCAATAATTAACTACTAAATTATC
* *
22373923 ATTGATTTATTACTAAATTATCAATAGTTAACTACTAAATTATC
1 ATTGATTTACTACTAAATTATCAATAATTAACTACTAAATTATC
22373967 ATT
1 ATT
22373970 TATTAGTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (44 bp):
ATTGATTTACTACTAAATTATCAATAATTAACTACTAAATTATC
Found at i:22374105 original size:22 final size:22
Alignment explanation
Indices: 22374080--22374140 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
22374070 ATTATTATCG
*
22374080 ATTTACTAAAAAGTTATCAATT
1 ATTTACTATAAAGTTATCAATT
*
22374102 ATTTACTATTAAA-TTATCATTT
1 ATTTACTA-TAAAGTTATCAATT
*
22374124 ATTTACTATTAAGTTAT
1 ATTTACTATAAAGTTAT
22374141 TACGAAGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.09
22 28 0.82
23 3 0.09
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTTACTATAAAGTTATCAATT
Found at i:22374204 original size:21 final size:21
Alignment explanation
Indices: 22374148--22374192 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
22374138 TATTACGAAG
*
22374148 TTACTACTAAGTTATCGATGA
1 TTACCACTAAGTTATCGATGA
22374169 TTACCACTAAGTTATCGATGA
1 TTACCACTAAGTTATCGATGA
22374190 TTA
1 TTA
22374193 TTGTTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (21 bp):
TTACCACTAAGTTATCGATGA
Found at i:22374236 original size:20 final size:20
Alignment explanation
Indices: 22374176--22374236 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
22374166 TGATTACCAC
* *
22374176 TAAGTTATCGATGATTATTGT
1 TAAGTTATCAATGATTAAT-T
*
22374197 TAAGTTAT-ACTGATTAAATT
1 TAAGTTATCAATGATT-AATT
*
22374217 TAAGTTTTCAATGATTAATT
1 TAAGTTATCAATGATTAATT
22374237 ACTAAGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (20 bp):
TAAGTTATCAATGATTAATT
Found at i:22374803 original size:25 final size:23
Alignment explanation
Indices: 22374767--22374820 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
22374757 AGTAATGGGA
*
22374767 AAAAATTTACAAAAT-AAAATTTAT
1 AAAAATTAAC-AAATCAAAATTT-T
*
22374791 AAAAATTAAACAAATCATAATTTT
1 AAAAATT-AACAAATCAAAATTTT
22374815 AAAAAT
1 AAAAAT
22374821 ATTAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAATTAACAAATCAAAATTTT
Found at i:22377285 original size:45 final size:45
Alignment explanation
Indices: 22377230--22377401 Score: 202
Period size: 45 Copynumber: 3.8 Consensus size: 45
22377220 CTCGGTAGTA
* * *
22377230 ATATTCGAGTATTCAAGTATGAATTTGCATATTTTCTTGGTGGTG
1 ATATCCGAGTATTCAAGTCTGAATTTGCATATTTTCTTAGTGGTG
*
22377275 ATATCCGAGTATTCATGTCTGAATTTGCATATTTTCTTAGTGGTG
1 ATATCCGAGTATTCAAGTCTGAATTTGCATATTTTCTTAGTGGTG
** * ** * * * *
22377320 ATATTTGAGTATCCATTTTTGAATTTGCTTATTTTCTCAGCGGTG
1 ATATCCGAGTATTCAAGTCTGAATTTGCATATTTTCTTAGTGGTG
*
22377365 ATATCCGAATA-TCTAAGTCTGAATTTGCATATTTTCT
1 ATATCCGAGTATTC-AAGTCTGAATTTGCATATTTTCT
22377402 CAATAGTGAT
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 105 0.99
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (45 bp):
ATATCCGAGTATTCAAGTCTGAATTTGCATATTTTCTTAGTGGTG
Found at i:22377330 original size:90 final size:90
Alignment explanation
Indices: 22377230--22377401 Score: 229
Period size: 90 Copynumber: 1.9 Consensus size: 90
22377220 CTCGGTAGTA
* ** * * *
22377230 ATATTCGAGTATTCAAGTATGAATTTGCATATTTTCTTGGTGGTGATATCCGAGTAT-TCATGTC
1 ATATTCGAGTATCCAAGTATGAATTTGCATATTTTCTCAGCGGTGATATCCGAATATCT-AAGTC
22377294 TGAATTTGCATATTTTCTTAGTGGTG
65 TGAATTTGCATATTTTCTTAGTGGTG
* ** * *
22377320 ATATTTGAGTATCCATTTTTGAATTTGCTTATTTTCTCAGCGGTGATATCCGAATATCTAAGTCT
1 ATATTCGAGTATCCAAGTATGAATTTGCATATTTTCTCAGCGGTGATATCCGAATATCTAAGTCT
22377385 GAATTTGCATATTTTCT
66 GAATTTGCATATTTTCT
22377402 CAATAGTGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
90 69 0.99
91 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (90 bp):
ATATTCGAGTATCCAAGTATGAATTTGCATATTTTCTCAGCGGTGATATCCGAATATCTAAGTCT
GAATTTGCATATTTTCTTAGTGGTG
Found at i:22377411 original size:90 final size:90
Alignment explanation
Indices: 22377249--22377413 Score: 233
Period size: 90 Copynumber: 1.8 Consensus size: 90
22377239 TATTCAAGTA
** * * * *
22377249 TGAATTTGCATATTTTCTTGGTGGTGATATCCGAGTATTCATGTCTGAATTTGCATATTTTCTTA
1 TGAATTTGCATATTTTCTCAGCGGTGATATCCGAATATTCAAGTCTGAATTTGCATATTTTCTCA
* *
22377314 GTGGTGATATTTGAGTATCCATTTT
66 ATAGTGATATTTGAGTATCCATTTT
*
22377339 TGAATTTGCTTATTTTCTCAGCGGTGATATCCGAATA-TCTAAGTCTGAATTTGCATATTTTCTC
1 TGAATTTGCATATTTTCTCAGCGGTGATATCCGAATATTC-AAGTCTGAATTTGCATATTTTCTC
22377403 AATAGTGATAT
65 AATAGTGATAT
22377414 CGAAGATCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
89 2 0.03
90 63 0.97
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (90 bp):
TGAATTTGCATATTTTCTCAGCGGTGATATCCGAATATTCAAGTCTGAATTTGCATATTTTCTCA
ATAGTGATATTTGAGTATCCATTTT
Found at i:22378780 original size:21 final size:21
Alignment explanation
Indices: 22378747--22378814 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
22378737 NNNNNNNAAA
*
22378747 TTAGTATTTATTTACTACTAAG
1 TTAG-ATTAATTTACTACTAAG
*
22378769 TTAGATTGATTTACTACTAAATTG
1 TTAGATTAATTTACTACT-AA--G
22378793 TT-GA-TAATTTACTACTAAG
1 TTAGATTAATTTACTACTAAG
22378812 TTA
1 TTA
22378815 CTAATGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.08
21 15 0.38
22 17 0.43
23 2 0.05
24 3 0.08
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (21 bp):
TTAGATTAATTTACTACTAAG
Found at i:22378936 original size:22 final size:22
Alignment explanation
Indices: 22378888--22379006 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 22
22378878 AATGATTAAC
* *
22378888 TAATTTGCTACT-AATTATCAC
1 TAATTTACTACTAAATTATCAG
* *
22378909 TTATTTA-TAACTAAATTATTAG
1 TAATTTACT-ACTAAATTATCAG
*
22378931 TGATTTACTACTAAATTATCAG
1 TAATTTACTACTAAATTATCAG
* * ** *
22378953 TAATTTAATATTATGTTATTA-
1 TAATTTACTACTAAATTATCAG
* *
22378974 TACATTTACTACTATATTATCAT
1 TA-ATTTACTACTAAATTATCAG
*
22378997 TGATTTACTA
1 TAATTTACTA
22379007 TTTTGTTTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
20 1 0.01
21 10 0.13
22 63 0.83
23 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAG
Found at i:22379083 original size:43 final size:42
Alignment explanation
Indices: 22379036--22379127 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 42
22379026 TTATAAAATC
* *
22379036 ATCATAATTTATTACAAAATTAACCATGATTCATTATCAAGTT
1 ATCATAATTTA-TACAAAATTAACCATAATTCACTATCAAGTT
* ** * *
22379079 ATCATTGATTTATATTAAATTATCCATAATTTACTATCAAGTT
1 ATCA-TAATTTATACAAAATTAACCATAATTCACTATCAAGTT
22379122 ATCATA
1 ATCATA
22379128 GATTAACTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.03
43 33 0.82
44 6 0.15
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (42 bp):
ATCATAATTTATACAAAATTAACCATAATTCACTATCAAGTT
Found at i:22379087 original size:22 final size:21
Alignment explanation
Indices: 22379070--22379131 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
22379060 CATGATTCAT
22379070 TATCAAGTTATCATTGATTTA
1 TATCAAGTTATCATTGATTTA
* * *
22379091 TATTAAATTATCCA-TAATTTA
1 TATCAAGTTAT-CATTGATTTA
*
22379112 CTATCAAGTTATCATAGATT
1 -TATCAAGTTATCATTGATT
22379132 AACTACTACT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (21 bp):
TATCAAGTTATCATTGATTTA
Found at i:22379197 original size:22 final size:22
Alignment explanation
Indices: 22379074--22379347 Score: 132
Period size: 22 Copynumber: 12.4 Consensus size: 22
22379064 ATTCATTATC
22379074 AAGTTATCATTGATTTA-TATT
1 AAGTTATCATTGATTTACTATT
* * *
22379095 AAATTATCCA-TAATTTACTATC
1 AAGTTAT-CATTGATTTACTATT
* *
22379117 AAGTTATCATAGATTAACTACTACT
1 AAGTTATCATTGATT---TACTATT
*
22379142 AAGTTAT-ATTG-TTTACTTTT
1 AAGTTATCATTGATTTACTATT
* * * * *
22379162 AAATTTTTAATGATTAACTATT
1 AAGTTATCATTGATTTACTATT
*
22379184 AATTTATCATTGATTTACTATT
1 AAGTTATCATTGATTTACTATT
* * * *
22379206 AAGTTAT-TTATAATTCACTACTA
1 AAGTTATCAT-TGATTTACTA-TT
* * *
22379229 AATTTATCAATT-AATTACCATT
1 AAGTTATC-ATTGATTTACTATT
* * *
22379251 AAATTGA-AATTGTTTTACTATT
1 AAGTT-ATCATTGATTTACTATT
* * * *
22379273 AAGTTATCACTAATTTATTTTT
1 AAGTTATCATTGATTTACTATT
* * * *
22379295 AAGTTATTACTAATTTATTATT
1 AAGTTATCATTGATTTACTATT
*
22379317 AAGTTATCATCGATTT-CTTATT
1 AAGTTATCATTGATTTAC-TATT
22379339 AAGTTATCA
1 AAGTTATCA
22379348 ATTATTAACT
Statistics
Matches: 186, Mismatches: 51, Indels: 31
0.69 0.19 0.12
Matches are distributed among these distances:
20 10 0.05
21 22 0.12
22 122 0.66
23 15 0.08
24 4 0.02
25 13 0.07
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.49
Consensus pattern (22 bp):
AAGTTATCATTGATTTACTATT
Found at i:22379234 original size:45 final size:45
Alignment explanation
Indices: 22379107--22379237 Score: 119
Period size: 45 Copynumber: 2.9 Consensus size: 45
22379097 ATTATCCATA
* * *
22379107 ATTTACTATCAAGTTA-TCATAGATTAACTACTACTAAGTTAT-ATTG
1 ATTTACTATTAAGTTATTTATA-ATTAACTACTA--AATTTATCATTG
* * * *
22379153 -TTTACTTTTAAATT-TTTAATGATTAACTA-TTAATTTATCATTG
1 ATTTACTATTAAGTTATTT-ATAATTAACTACTAAATTTATCATTG
*
22379196 ATTTACTATTAAGTTATTTATAATTCACTACTAAATTTATCA
1 ATTTACTATTAAGTTATTTATAATTAACTACTAAATTTATCA
22379238 ATTAATTACC
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
42 6 0.09
43 4 0.06
44 22 0.33
45 33 0.49
46 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (45 bp):
ATTTACTATTAAGTTATTTATAATTAACTACTAAATTTATCATTG
Found at i:22379301 original size:11 final size:11
Alignment explanation
Indices: 22379269--22379323 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
22379259 ATTGTTTTAC
22379269 TATTAAGTTAT
1 TATTAAGTTAT
* * *
22379280 CACTAATTTAT
1 TATTAAGTTAT
*
22379291 TTTTAAGTTAT
1 TATTAAGTTAT
* *
22379302 TACTAATTTAT
1 TATTAAGTTAT
22379313 TATTAAGTTAT
1 TATTAAGTTAT
22379324 CATCGATTTC
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:22379896 original size:22 final size:21
Alignment explanation
Indices: 22379846--22379930 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
22379836 AATGATGAAC
* * *
22379846 TAATTTATTACTAAATTATCAC
1 TAATTTACTACT-AATTATTAG
* * *
22379868 TGATTTACAACTAAGTTATTTG
1 TAATTTACTACTAA-TTATTAG
*
22379890 TAGTTTACTACTACATTATTAG
1 TAATTTACTACTA-ATTATTAG
22379912 TAATTTACTACTAAATTAT
1 TAATTTACTACT-AATTAT
22379931 AAATGATTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.04
22 45 0.92
23 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (21 bp):
TAATTTACTACTAATTATTAG
Found at i:22380037 original size:22 final size:21
Alignment explanation
Indices: 22379957--22380040 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 21
22379947 TATTTTTATA
**
22379957 TATTTATTATTATGTTATCAT
1 TATTTATTATTAAATTATCAT
* * * *
22379978 TAATTTACTATTTAATTTTTAAT
1 T-ATTTATTA-TTAAATTATCAT
* **
22380001 TATTTATCACGAAATTATCAT
1 TATTTATTATTAAATTATCAT
22380022 TGATTTATTATTAAATTAT
1 T-ATTTATTATTAAATTAT
22380041 TTGTGATCCA
Statistics
Matches: 45, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
21 9 0.20
22 27 0.60
23 9 0.20
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTTATTATTAAATTATCAT
Found at i:22380114 original size:22 final size:22
Alignment explanation
Indices: 22380089--22380151 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
22380079 TGCATAATTT
22380089 ACTATTAAGTTATCATTGATTA
1 ACTATTAAGTTATCATTGATTA
* *
22380111 ACTATTATGTTATCGA-TGATTT
1 ACTATTAAGTTATC-ATTGATTA
**
22380133 ACTACCAAGTTAT-ATTGAT
1 ACTATTAAGTTATCATTGAT
22380152 ATTGATTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 28 0.82
23 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (22 bp):
ACTATTAAGTTATCATTGATTA
Found at i:22380242 original size:22 final size:22
Alignment explanation
Indices: 22380217--22380301 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 22
22380207 ACTAAAATTG
* *
22380217 ATTTACTATTAAATTATCACTA
1 ATTTACTACTAAATTATCAATA
* ** * *
22380239 ATTTACTATTAGGTTATCATTG
1 ATTTACTACTAAATTATCAATA
*
22380261 ATTTATTACTAAATTATCAATA
1 ATTTACTACTAAATTATCAATA
* *
22380283 GTTAACTACTAAATTATCA
1 ATTTACTACTAAATTATCA
22380302 TTTATTAGTG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATA
Found at i:22380300 original size:44 final size:44
Alignment explanation
Indices: 22380213--22380303 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
22380203 TTAAACTAAA
* * * * **
22380213 ATTGATTTACTATTAAATTATCACTAATTTACTATTAGGTTATC
1 ATTGATTTACTACTAAATTATCAATAATTAACTACTAAATTATC
* *
22380257 ATTGATTTATTACTAAATTATCAATAGTTAACTACTAAATTATC
1 ATTGATTTACTACTAAATTATCAATAATTAACTACTAAATTATC
22380301 ATT
1 ATT
22380304 TATTAGTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (44 bp):
ATTGATTTACTACTAAATTATCAATAATTAACTACTAAATTATC
Found at i:22380438 original size:22 final size:22
Alignment explanation
Indices: 22380413--22380473 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
22380403 ATTATTATCG
*
22380413 ATTTACTAAAAAGTTATCAATT
1 ATTTACTATAAAGTTATCAATT
*
22380435 ATTTACTATTAAA-TTATCATTT
1 ATTTACTA-TAAAGTTATCAATT
*
22380457 ATTTACTATTAAGTTAT
1 ATTTACTATAAAGTTAT
22380474 TACGAAGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.09
22 28 0.82
23 3 0.09
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTTACTATAAAGTTATCAATT
Found at i:22380537 original size:21 final size:21
Alignment explanation
Indices: 22380481--22380525 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
22380471 TATTACGAAG
*
22380481 TTACTACTAAGTTATCGATGA
1 TTACCACTAAGTTATCGATGA
22380502 TTACCACTAAGTTATCGATGA
1 TTACCACTAAGTTATCGATGA
22380523 TTA
1 TTA
22380526 TTGTTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (21 bp):
TTACCACTAAGTTATCGATGA
Found at i:22381135 original size:25 final size:23
Alignment explanation
Indices: 22381099--22381152 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
22381089 AGTAATGGGA
*
22381099 AAAAATTTACAAAAT-AAAATTTAT
1 AAAAATTAAC-AAATCAAAATTT-T
*
22381123 AAAAATTAAACAAATCATAATTTT
1 AAAAATT-AACAAATCAAAATTTT
22381147 AAAAAT
1 AAAAAT
22381153 ATTAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAATTAACAAATCAAAATTTT
Found at i:22382825 original size:17 final size:16
Alignment explanation
Indices: 22382778--22382825 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
22382768 TTAATTTTTC
22382778 TTTTATT-TAAAAAA-
1 TTTTATTATAAAAAAT
*
22382792 TTTTATTATACATAAAT
1 TTTTATTATA-AAAAAT
22382809 TTTTATTATATAAAAAT
1 TTTTATTATA-AAAAAT
22382826 ACTAAAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 4 0.14
17 15 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTATTATAAAAAAT
Found at i:22383740 original size:45 final size:45
Alignment explanation
Indices: 22383587--22383752 Score: 190
Period size: 45 Copynumber: 3.7 Consensus size: 45
22383577 TACTCAAGTA
***
22383587 TGAATTTGCATATTTTCTTGGTGGTGATATCTGAGTATCTAGGTC
1 TGAATTTGCATATTTTCTCAATGGTGATATCTGAGTATCTAGGTC
* * * * * * *
22383632 TAAATTTGTATATTTTCT-AAGTGGCGATATTTGAGTATCCAGTTT
1 TGAATTTGCATATTTTCTCAA-TGGTGATATCTGAGTATCTAGGTC
* * *
22383677 TGAATTTGCTTATTTTCTCGATGGTGATATCTGAATATCTAGGTC
1 TGAATTTGCATATTTTCTCAATGGTGATATCTGAGTATCTAGGTC
*
22383722 TGAATTTGCATATTTTCTCAATAGTGATATC
1 TGAATTTGCATATTTTCTCAATGGTGATATC
22383753 GGATATTTAT
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
45 96 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.45
Consensus pattern (45 bp):
TGAATTTGCATATTTTCTCAATGGTGATATCTGAGTATCTAGGTC
Found at i:22385511 original size:15 final size:15
Alignment explanation
Indices: 22385493--22385622 Score: 74
Period size: 15 Copynumber: 8.9 Consensus size: 15
22385483 GTTTTTAGAA
*
22385493 TTTTGGATTTTAAGG
1 TTTTGAATTTTAAGG
22385508 TTTTGAATTTTAAGG
1 TTTTGAATTTTAAGG
* * *
22385523 GTTTCAATTTTAGGG
1 TTTTGAATTTTAAGG
*
22385538 TTTTGGA-TTT-AGG
1 TTTTGAATTTTAAGG
* * *
22385551 ATTTCAA-TTTAGGG
1 TTTTGAATTTTAAGG
* *
22385565 TTTTG-GTTTTAGGG
1 TTTTGAATTTTAAGG
*
22385579 ATTTTAAAATTTT-AGG
1 -TTTT-GAATTTTAAGG
**
22385595 TTTTG-ATTTTAATTT
1 TTTTGAATTTTAA-GG
22385610 TTTTGAATTTTAA
1 TTTTGAATTTTAA
22385623 AAGATGAGCA
Statistics
Matches: 86, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
13 14 0.16
14 16 0.19
15 43 0.50
16 9 0.10
17 4 0.05
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTTGAATTTTAAGG
Found at i:22385577 original size:14 final size:14
Alignment explanation
Indices: 22385493--22385605 Score: 70
Period size: 14 Copynumber: 7.8 Consensus size: 14
22385483 GTTTTTAGAA
*
22385493 TTTTGGATTTTAAGG
1 TTTT-GATTTTAGGG
22385508 TTTTGAATTTTAAGGG
1 TTTTG-ATTTT-AGGG
**
22385524 TTTCAATTTTAGGG
1 TTTTGATTTTAGGG
22385538 TTTTGGA-TTTA-GG
1 TTTT-GATTTTAGGG
* * *
22385551 ATTTCAATTTAGGG
1 TTTTGATTTTAGGG
*
22385565 TTTTGGTTTTAGGG
1 TTTTGATTTTAGGG
*
22385579 ATTTTAAAATTTTA-GG
1 -TTTT--GATTTTAGGG
22385595 TTTTGATTTTA
1 TTTTGATTTTA
22385606 ATTTTTTTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 15 0.20
14 24 0.32
15 23 0.30
16 8 0.11
17 5 0.07
ACGTcount: A:0.22, C:0.02, G:0.23, T:0.53
Consensus pattern (14 bp):
TTTTGATTTTAGGG
Done.