Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 159 of 195
Found at i:26524729 original size:33 final size:33
Alignment explanation
Indices: 26524681--26524934 Score: 206
Period size: 32 Copynumber: 8.2 Consensus size: 33
26524671 TAAATAAATT
* * *
26524681 AATAATCATGCAATTAACA-ATGTAAATTATGCA
1 AATAAACATGCAATTAA-ATATATAAATCATGCA
*
26524714 AATAAACATGTAATTAAATATATAAATCATGCA
1 AATAAACATGCAATTAAATATATAAATCATGCA
* * *
26524747 AATAAATATACAATTAAATATAT-AATTATGC-
1 AATAAACATGCAATTAAATATATAAATCATGCA
* * *
26524778 AAT-CACA--CAAATAAATAAATTAACGATCATGC-
1 AATAAACATGCAATTAAATATA-TAA--ATCATGCA
** *
26524810 AATTGACATGCAATTAAATAAAT-AATCATGC-
1 AATAAACATGCAATTAAATATATAAATCATGCA
26524841 ----AA-A--CAA-T-AATATATAAATCATGCA
1 AATAAACATGCAATTAAATATATAAATCATGCA
*
26524865 AATAAATATGCAATTAAATATAT-AATCATGCA
1 AATAAACATGCAATTAAATATATAAATCATGCA
26524897 AATAAACATGCAATTAAATATAT-AATCATGCA
1 AATAAACATGCAATTAAATATATAAATCATGCA
26524929 AATAAA
1 AATAAA
26524935 TATATTAGCA
Statistics
Matches: 184, Mismatches: 18, Indels: 39
0.76 0.07 0.16
Matches are distributed among these distances:
22 6 0.03
23 9 0.05
24 3 0.02
26 1 0.01
27 1 0.01
28 12 0.07
29 2 0.01
30 3 0.02
31 13 0.07
32 64 0.35
33 58 0.32
34 1 0.01
35 11 0.06
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (33 bp):
AATAAACATGCAATTAAATATATAAATCATGCA
Found at i:26524744 original size:21 final size:20
Alignment explanation
Indices: 26524715--26524756 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
26524705 AATTATGCAA
* *
26524715 ATAAACATGTAATTAAATAT
1 ATAAACATGCAAATAAATAT
26524735 ATAAATCATGCAAATAAATAT
1 ATAAA-CATGCAAATAAATAT
26524756 A
1 A
26524757 CAATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAAACATGCAAATAAATAT
Found at i:26524784 original size:118 final size:118
Alignment explanation
Indices: 26524650--26524897 Score: 338
Period size: 118 Copynumber: 2.1 Consensus size: 118
26524640 AAATAAATTA
* * **
26524650 ATAATCATACAATCACACAAATAAATAAATTAATAATCATGCAATTAACAATGTAAATTATGCAA
1 ATAATCATGCAATCACACAAATAAATAAATTAACAATCATGCAATTAAC-ATG-AAATTAAACAA
* **
26524715 ATAAACATG-TAATTA-AATATATAAATCATGCAAATAAATATACAATTAAATAT
64 ATAAACATGCAAACAATAATATATAAATCATGCAAATAAATATACAATTAAATAT
* * * * *
26524768 ATAATTATGCAATCACACAAATAAATAAATTAACGATCATGCAATTGACATGCAATTAAATAAAT
1 ATAATCATGCAATCACACAAATAAATAAATTAACAATCATGCAATTAACATGAAATTAAACAAAT
* *
26524833 AATCATGCAAACAATAATATATAAATCATGCAAATAAATATGCAATTAAATAT
66 AAACATGCAAACAATAATATATAAATCATGCAAATAAATATACAATTAAATAT
26524886 ATAATCATGCAA
1 ATAATCATGCAA
26524898 ATAAACATGC
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 15 0.13
117 6 0.05
118 92 0.81
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.29
Consensus pattern (118 bp):
ATAATCATGCAATCACACAAATAAATAAATTAACAATCATGCAATTAACATGAAATTAAACAAAT
AAACATGCAAACAATAATATATAAATCATGCAAATAAATATACAATTAAATAT
Found at i:26524877 original size:12 final size:12
Alignment explanation
Indices: 26524853--26524917 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
26524843 ACAATAATAT
26524853 ATAAATCATGCAA
1 ATAAAT-ATGCAA
26524866 ATAAATATGCAA
1 ATAAATATGCAA
*
26524878 TTAAATAT----
1 ATAAATATGCAA
26524886 AT-AATCATGCAA
1 ATAAAT-ATGCAA
*
26524898 ATAAACATGCAA
1 ATAAATATGCAA
*
26524910 TTAAATAT
1 ATAAATAT
26524918 ATAATCATGC
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
7 3 0.07
8 3 0.07
12 27 0.66
13 8 0.20
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (12 bp):
ATAAATATGCAA
Found at i:26524895 original size:20 final size:20
Alignment explanation
Indices: 26524816--26524939 Score: 73
Period size: 20 Copynumber: 6.8 Consensus size: 20
26524806 ATGCAATTGA
*
26524816 CATGCAATTAAATAAATAAT
1 CATGCAATTAAATATATAAT
**
26524836 CATGCAAACAATAATATATAAAT
1 CATGC-AATTA-AATATAT-AAT
26524859 CATGC-----AA-ATA-AAT
1 CATGCAATTAAATATATAAT
26524872 -ATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
26524891 CATGC-----AA-ATA-AA-
1 CATGCAATTAAATATATAAT
26524903 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
26524923 CATGCAAATAAATATAT
1 CATGCAATTAAATATAT
26524940 TAGCAATCAA
Statistics
Matches: 81, Mismatches: 4, Indels: 38
0.66 0.03 0.31
Matches are distributed among these distances:
12 9 0.11
13 5 0.06
14 3 0.04
15 5 0.06
16 2 0.02
17 4 0.05
18 6 0.07
19 5 0.06
20 25 0.31
21 3 0.04
22 6 0.07
23 8 0.10
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:26524947 original size:24 final size:22
Alignment explanation
Indices: 26524899--26525078 Score: 138
Period size: 24 Copynumber: 8.1 Consensus size: 22
26524889 ATCATGCAAA
*
26524899 TAAA-CATGCAATTAAATATA-
1 TAAATCATGCAAATAAATATAT
26524919 T-AATCATGCAAATAAATATAT
1 TAAATCATGCAAATAAATATAT
* * *
26524940 TAGCAATCAAGCAATTGAATATAT
1 TA--AATCATGCAAATAAATATAT
* *
26524964 TAACAATCATGC-AATCAAATAAAA
1 T-A-AATCATGCAAAT-AAATATAT
*
26524988 TATAATCATACAAATAAATATAT
1 TA-AATCATGCAAATAAATATAT
* *
26525011 TAATAATCATGCAAATATAT-TAA
1 T-A-AATCATGCAAATAAATATAT
**
26525034 TAAATCACACAAATAAATATAT
1 TAAATCATGCAAATAAATATAT
*
26525056 T-AATCATGCAAACAAATATAT
1 TAAATCATGCAAATAAATATAT
26525077 TA
1 TA
26525079 GGCAAATAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 20
0.75 0.14 0.12
Matches are distributed among these distances:
19 2 0.02
20 16 0.13
21 32 0.25
22 4 0.03
23 20 0.16
24 51 0.40
25 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAATCATGCAAATAAATATAT
Found at i:26525046 original size:21 final size:20
Alignment explanation
Indices: 26525003--26525048 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
26524993 TCATACAAAT
**
26525003 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
26525023 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
26525044 AAATA
1 AAATA
26525049 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:26525055 original size:45 final size:46
Alignment explanation
Indices: 26524957--26525078 Score: 140
Period size: 45 Copynumber: 2.6 Consensus size: 46
26524947 CAAGCAATTG
* * * *
26524957 AATATATTAACAATCATGC-AATCAAATAAAATATAATCATACAAATA
1 AATATATTAATAATCATGCAAAT-ATAT-TAATATAATCACACAAATA
26525004 AATATATTAATAATCATGCAAATATATTAATA-AATCACACAAATA
1 AATATATTAATAATCATGCAAATATATTAATATAATCACACAAATA
* **
26525049 AATATATTAATCATGCAAACAAATATATTA
1 AATATATTAATAAT-CATGCAAATATATTA
26525079 GGCAAATAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 25 0.38
46 17 0.26
47 21 0.32
48 3 0.05
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.30
Consensus pattern (46 bp):
AATATATTAATAATCATGCAAATATATTAATATAATCACACAAATA
Found at i:26525060 original size:21 final size:21
Alignment explanation
Indices: 26524979--26525078 Score: 80
Period size: 21 Copynumber: 4.7 Consensus size: 21
26524969 ATCATGCAAT
*
26524979 CAAATAAA-ATA-TAATCATA
1 CAAATAAATATATTAATCACA
*
26524998 CAAATAAATATATTAATAATCA
1 CAAATAAATATATTAATCA-CA
* *
26525020 TGCAAATATAT-TAATAAATCACA
1 --CAAATAAATAT-ATTAATCACA
**
26525043 CAAATAAATATATTAATCATG
1 CAAATAAATATATTAATCACA
*
26525064 CAAACAAATATATTA
1 CAAATAAATATATTA
26525079 GGCAAATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
19 8 0.12
20 3 0.05
21 34 0.53
22 2 0.03
23 3 0.05
24 14 0.22
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (21 bp):
CAAATAAATATATTAATCACA
Found at i:26525089 original size:17 final size:17
Alignment explanation
Indices: 26525058--26525118 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
26525048 AAATATATTA
* *
26525058 ATCATGCAAACAAATAT
1 ATCAGGCAAATAAATAT
*
26525075 ATTAGGCAAATAAAT-T
1 ATCAGGCAAATAAATAT
*
26525091 ATCATGCAAATATAATA-
1 ATCAGGCAAATA-AATAT
*
26525108 ATCATGCAAAT
1 ATCAGGCAAAT
26525119 TCATGCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 11 0.30
17 26 0.70
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (17 bp):
ATCAGGCAAATAAATAT
Found at i:26525714 original size:23 final size:22
Alignment explanation
Indices: 26525671--26525714 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26525661 AATCCTATAG
* *
26525671 TTTTTTTTTACCCTTTTCTTTT
1 TTTTTTTTTACCATTTACTTTT
26525693 TTTTTTTTTACCAATTTACTTT
1 TTTTTTTTTACC-ATTTACTTT
26525715 GACTCTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTACCATTTACTTTT
Found at i:26525752 original size:12 final size:12
Alignment explanation
Indices: 26525735--26525764 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26525725 ACTAAAAAAA
26525735 CAAAAATTAAAC
1 CAAAAATTAAAC
26525747 CAAAAATTAAAC
1 CAAAAATTAAAC
*
26525759 TAAAAA
1 CAAAAA
26525765 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:26525767 original size:14 final size:14
Alignment explanation
Indices: 26525736--26525781 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
26525726 CTAAAAAAAC
*
26525736 AAAAATTAAAC--C
1 AAAAATTAAACTAA
26525748 AAAAATTAAACTAA
1 AAAAATTAAACTAA
*
26525762 AAAAATTAAAATACA
1 AAAAATTAAACTA-A
26525777 AAAAA
1 AAAAA
26525782 ATTTAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.38
14 12 0.41
15 6 0.21
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATTAAACTAA
Found at i:26526100 original size:42 final size:43
Alignment explanation
Indices: 26526047--26526385 Score: 299
Period size: 43 Copynumber: 8.0 Consensus size: 43
26526037 TTTTTTTTGC
* * *
26526047 AAAATACTCCCCCACAATTGAGGCTTTGGAATTTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* *
26526090 -AAATGCTCCCCC-TAATTGAGGCTTTGGAACTTTTG-AAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * * * *
26526130 GAAATGCTTCCTCATAACTGAGGCTTTGAAAATTATGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * *
26526173 AAAATCCTCCCCCATAACTGAGGCATTGAAACTTTTGGAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * **
26526216 AAAATACTCCTCTACAAATGAGGCTTTATAACTTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * * **
26526259 AAAATGCTCGCCCATAATTGATGCTTTGGAGCTTTAAAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* * * * *
26526302 AAAATACT-CCCCACAACTGAAGCTTTGGAACTTTGGAGAAGT
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
* * *
26526344 AGAATGCTCCCCAACAACTGAGGCTTTGAAACTTTTAGAAAA
1 AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTT-GAAAA
26526386 TCAAATGAGA
Statistics
Matches: 236, Mismatches: 55, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
40 5 0.02
41 31 0.13
42 61 0.26
43 135 0.57
44 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCCACAACTGAGGCTTTGGAACTTTTGAAAAAT
Found at i:26526392 original size:128 final size:125
Alignment explanation
Indices: 26526047--26526392 Score: 333
Period size: 128 Copynumber: 2.7 Consensus size: 125
26526037 TTTTTTTTGC
* * * *
26526047 AAAATACTCCCCCACAATTGAGGCTTTGGAATTTTTGAAAAATAAATGCTCCCC-CTAATTGAGG
1 AAAATACTCCCCCACAACTGAGGCTTTGGAA-CTTTGGAAAATAAATGCTCCCCAC-AAATGAGG
* * * *
26526111 CTTTGGAACTTTTGAAAATGAAATGCTTCCTCATAACTGAGGCTTTGAAAATTATGAAAAAT
64 CTTTGAAACTTTTGAAAATAAAATGCTTCCCCATAACTGAGGCTTTGAAAATTATAAAAAAT
* * * * * *
26526173 AAAATCCTCCCCCATAACTGAGGCATTGAAACTTTTGGAAAATAAAATACTCCTCTACAAATGAG
1 AAAATACTCCCCCACAACTGAGGCTTTGGAAC-TTTGGAAAAT-AAATGCTCC-CCACAAATGAG
* * * **
26526238 GCTTT-ATAACTTTTGAAAAATAAAATGC-TCGCCCATAATTGATGCTTTGGAGCTT-TAAAAAA
63 GCTTTGA-AACTTTTG-AAAATAAAATGCTTC-CCCATAACTGAGGCTTTGAAAATTAT-AAAAA
26526300 AT
124 AT
* * *
26526302 AAAATACT-CCCCACAACTGAAGCTTTGGAACTTTGGAGAAGTAGAATGCTCCCCAACAACTGAG
1 AAAATACTCCCCCACAACTGAGGCTTTGGAACTTTGGA-AAATA-AATGCTCCCC-ACAAATGAG
*
26526366 GCTTTGAAACTTTTAGAAAATCAAATG
63 GCTTTGAAACTTTT-GAAAATAAAATG
26526393 AGATCATTCT
Statistics
Matches: 178, Mismatches: 29, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
126 35 0.20
127 16 0.09
128 82 0.46
129 45 0.25
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (125 bp):
AAAATACTCCCCCACAACTGAGGCTTTGGAACTTTGGAAAATAAATGCTCCCCACAAATGAGGCT
TTGAAACTTTTGAAAATAAAATGCTTCCCCATAACTGAGGCTTTGAAAATTATAAAAAAT
Found at i:26526581 original size:13 final size:13
Alignment explanation
Indices: 26526563--26526587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26526553 TTCCTAACAT
26526563 ATGCAATGAATGC
1 ATGCAATGAATGC
26526576 ATGCAATGAATG
1 ATGCAATGAATG
26526588 AAAAGATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:26527888 original size:16 final size:15
Alignment explanation
Indices: 26527864--26527897 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
26527854 TTTTTTAATC
*
26527864 TTTTATTTTTCCTTT
1 TTTTATTTTTACTTT
26527879 TTTTATTTTTTACTTT
1 TTTTA-TTTTTACTTT
26527895 TTT
1 TTT
26527898 CTTTCGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTACTTT
Found at i:26527901 original size:23 final size:23
Alignment explanation
Indices: 26527846--26527901 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
26527836 TTTTCCTTCA
26527846 TTTTTCATTTTTTTAATCTTTTAT
1 TTTTTC-TTTTTTTAATCTTTTAT
* *
26527870 TTTTCCTTTTTTT-ATTTTTTACT
1 TTTTTCTTTTTTTAATCTTTTA-T
26527893 TTTTTCTTT
1 TTTTTCTTT
26527902 CGCATCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 16 0.57
24 5 0.18
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTCTTTTTTTAATCTTTTAT
Found at i:26529478 original size:14 final size:14
Alignment explanation
Indices: 26529454--26529505 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
26529444 TTATTTTCTG
26529454 TTTTGATTTTATTT-
1 TTTT-ATTTTATTTA
26529468 TTCTTATTTTATTTA
1 TT-TTATTTTATTTA
*
26529483 TTTTATTTTGTTTA
1 TTTTATTTTATTTA
26529497 TTTTTATTT
1 -TTTTATTT
26529506 ACTCTTATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:26529485 original size:23 final size:23
Alignment explanation
Indices: 26529459--26529527 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
26529449 TTCTGTTTTG
26529459 ATTTTATTTTTCTTATTTTATTT
1 ATTTTATTTTTCTTATTTTATTT
26529482 ATTTTATTTTGT-TTATTTTTATTT
1 ATTTTATTTT-TCTTA-TTTTATTT
*
26529506 ACTCTTATTGTTTCTTATTTTA
1 A-TTTTATT-TTTCTTATTTTA
26529528 AATTGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 13 0.32
24 10 0.25
25 12 0.30
26 5 0.12
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (23 bp):
ATTTTATTTTTCTTATTTTATTT
Found at i:26530679 original size:24 final size:24
Alignment explanation
Indices: 26530651--26530696 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
26530641 CTCAGATTTA
26530651 ACCCTTTTCCATTTGTAGCCTACC
1 ACCCTTTTCCATTTGTAGCCTACC
26530675 ACCCTTTTCCATTTGTAGCCTA
1 ACCCTTTTCCATTTGTAGCCTA
26530697 TGGTAGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.35, G:0.09, T:0.39
Consensus pattern (24 bp):
ACCCTTTTCCATTTGTAGCCTACC
Found at i:26533433 original size:9 final size:9
Alignment explanation
Indices: 26533421--26533464 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
26533411 CAATGAAAAG
26533421 AAAAAGGAA
1 AAAAAGGAA
26533430 AAAAA-G-A
1 AAAAAGGAA
26533437 AAAAA--AA
1 AAAAAGGAA
26533444 AAAAAGGAA
1 AAAAAGGAA
*
26533453 AGAAAGGAA
1 AAAAAGGAA
26533462 AAA
1 AAA
26533465 GAAGAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 12 0.40
8 1 0.03
9 17 0.57
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAGGAA
Found at i:26533434 original size:15 final size:15
Alignment explanation
Indices: 26533416--26533470 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
26533406 AAAAACAATG
26533416 AAAAGAAAAAGGAAA
1 AAAAGAAAAAGGAAA
*
26533431 AAAAGAAAAA-AAAA
1 AAAAGAAAAAGGAAA
26533445 AAAAGGAAAGAAAGGAAA
1 AAAA-G-AA-AAAGGAAA
26533463 AAGAAGAA
1 AA-AAGAA
26533471 GAAATTGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 7 0.21
15 11 0.33
16 2 0.06
17 5 0.15
18 6 0.18
19 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGGAAA
Found at i:26533442 original size:23 final size:24
Alignment explanation
Indices: 26533416--26533470 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
26533406 AAAAACAATG
26533416 AAAAGAAAAAGGAAA-AAAAGAAA
1 AAAAGAAAAAGGAAAGAAAAGAAA
* *
26533439 AAAAAAAAAAGGAAAGAAAGGAAA
1 AAAAGAAAAAGGAAAGAAAAGAAA
26533463 AAGAAGAA
1 AA-AAGAA
26533471 GAAATTGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 14 0.52
24 9 0.33
25 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAAGGAAAGAAAAGAAA
Found at i:26533444 original size:20 final size:22
Alignment explanation
Indices: 26533405--26533445 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
26533395 AATTTTTCTT
*
26533405 GAAAAACAATGAAAAGAAAAAG
1 GAAAAACAATGAAAAAAAAAAG
26533427 GAAAAA-AA-GAAAAAAAAAA
1 GAAAAACAATGAAAAAAAAAA
26533446 AAAGGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (22 bp):
GAAAAACAATGAAAAAAAAAAG
Found at i:26534868 original size:127 final size:127
Alignment explanation
Indices: 26534774--26535133 Score: 302
Period size: 127 Copynumber: 2.8 Consensus size: 127
26534764 GTCCGATCCT
** ** *
26534774 GATCACTCATTTTTTATCTTAGCTCAGTTTAGATCATCTTTCTGACTC-ACGATTCGATCCT-GA
1 GATCACTCATTTTCGATCTTAGCTCAGTCGAAATCATCTTTCTGACTCAACG-TTCGATCCTAG-
* * *
26534837 TCATTCGTATTCGACCTCGACTCGATTTTGGTCACTTTATCTTTTTGACTCATGATTCAATCTA
64 TCATTCATATTCGACCTCGACTCGATTTTGGTCACTTTATCTTTTTAACTCATGATCCAATCTA
* * * *
26534901 GGTCACTTATTTTCGATCTTAGCTCAGTCGAAATCATCTTTCTGACTCAATGTTTGATCCTAGTC
1 GATCACTCATTTTCGATCTTAGCTCAGTCGAAATCATCTTTCTGACTCAACGTTCGATCCTAGTC
* * ** * * * * **
26534966 ATTCATCTTCGACCTCGACTTGATCCTAGTCATTTTGTCTTTTTAACTCACGATTTAATCCTA
66 ATTCATATTCGACCTCGACTCGATTTTGGTCACTTTATCTTTTTAACTCATGATCCAAT-CTA
** * * * * * * ** *
26535029 G-TCACTCATTTTTTATCTAAACTC-GATCCAAATCATCTTTTTTAC-CCACGTTTAAT-CTCGA
1 GATCACTCATTTTCGATCTTAGCTCAG-TCGAAATCATCTTTCTGACTCAACGTTCGATCCTAG-
* *
26535090 TCATTCATCTTCGACCTCGACTC-AGTCTTGGTCACTTTATCTTT
64 TCATTCATATTCGACCTCGACTCGA-TTTTGGTCACTTTATCTTT
26535134 ATGACTTTTT
Statistics
Matches: 190, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
125 4 0.02
126 46 0.24
127 133 0.70
128 7 0.04
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (127 bp):
GATCACTCATTTTCGATCTTAGCTCAGTCGAAATCATCTTTCTGACTCAACGTTCGATCCTAGTC
ATTCATATTCGACCTCGACTCGATTTTGGTCACTTTATCTTTTTAACTCATGATCCAATCTA
Found at i:26535376 original size:86 final size:86
Alignment explanation
Indices: 26535219--26535381 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 86
26535209 CATTCTTGCG
* ** * *
26535219 AACCTGAAACCTTTGCAAATGCAAAACCTTTGTGAAACTTGAAATCCTACAAACCTTTCATTTTT
1 AACCTGAAACATTTGCAAATGCAAAACCTTTACGAAACTTGAAATCCTACAAACCTTCCATTCTT
26535284 ACGAATCTGAAAGTCCTTGTA
66 ACGAATCTGAAAGTCCTTGTA
* * * * *
26535305 AACCTGAAACATTTGCGAAT-CTAAAACCTTTACGAAACTTGGAATCTTGCAAATCTTCCATTCT
1 AACCTGAAACATTTGCAAATGC-AAAACCTTTACGAAACTTGAAATCCTACAAACCTTCCATTCT
**
26535369 TGTGAATCTGAAA
65 TACGAATCTGAAA
26535382 ATCTTTGTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 1 0.02
86 63 0.98
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (86 bp):
AACCTGAAACATTTGCAAATGCAAAACCTTTACGAAACTTGAAATCCTACAAACCTTCCATTCTT
ACGAATCTGAAAGTCCTTGTA
Found at i:26535542 original size:65 final size:64
Alignment explanation
Indices: 26535473--26535736 Score: 214
Period size: 65 Copynumber: 4.0 Consensus size: 64
26535463 GTTTTAATTT
* * * * *
26535473 TTTTTTCGACCTGTGGTTCAATCTCGGTCACT-TATTTAAGTCTTGGTTCAGTCCAGATCATTTT
1 TTTTTTCGACCTGTGGTTCAATCTCGATCACTGT-TTTGA-TCTCGGCTCAGTCCAAATCATTTT
26535537 A
64 A
* * ** * * *
26535538 -TTTTTCTAACT-TAAGGTTCAATCTTAATAACTCATTTTGATCTCGGCTCAATCCAAATCATTT
1 TTTTTTCGACCTGT--GGTTCAATCTCGATCACT-GTTTTGATCTCGGCTCAGTCCAAATCATTT
26535601 TA
63 TA
* * * * * *
26535603 TTTTTTTGACTTGGGGTTCAATC-CTGGTCACTCGTTTTGATCTCAGCTCAGTCTAAATCATTTT
1 TTTTTTCGACCTGTGGTTCAATCTC-GATCACT-GTTTTGATCTCGGCTCAGTCCAAATCATTTT
26535667 A
64 A
* * *
26535668 TTTTTTTTGA-CTCGTGGTTCAATCTCGATCACCTGTTTTGATCTCGGTTCAGTCCATATCATTT
1 -TTTTTTCGACCT-GTGGTTCAATCTCGATCA-CTGTTTTGATCTCGGCTCAGTCCAAATCATTT
26535732 TA
63 TA
26535734 TTT
1 TTT
26535737 CTTATTTCAT
Statistics
Matches: 157, Mismatches: 31, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
63 1 0.01
64 9 0.06
65 81 0.52
66 62 0.39
67 4 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (64 bp):
TTTTTTCGACCTGTGGTTCAATCTCGATCACTGTTTTGATCTCGGCTCAGTCCAAATCATTTTA
Found at i:26535709 original size:66 final size:66
Alignment explanation
Indices: 26535520--26535736 Score: 226
Period size: 65 Copynumber: 3.3 Consensus size: 66
26535510 AAGTCTTGGT
* * * *** * * * *
26535520 TCAGTCCAGATCATTTTA-TTTTTCTAACTTAAGGTTCAATCTTAATAACTCATTTTGATCTCGG
1 TCAGTCCAAATCATTTTATTTTTTTTGACTCGGGGTTCAATCCTGATCACTCGTTTTGATCTCGG
26535584 C
66 C
* * * *
26535585 TCAATCCAAATCATTTTA-TTTTTTTGACTTGGGGTTCAATCCTGGTCACTCGTTTTGATCTCAG
1 TCAGTCCAAATCATTTTATTTTTTTTGACTCGGGGTTCAATCCTGATCACTCGTTTTGATCTCGG
26535649 C
66 C
* *
26535650 TCAGTCTAAATCATTTTATTTTTTTTGACTCGTGGTTCAAT-CTCGATCAC-CTGTTTTGATCTC
1 TCAGTCCAAATCATTTTATTTTTTTTGACTCGGGGTTCAATCCT-GATCACTC-GTTTTGATCTC
*
26535713 GGT
64 GGC
*
26535716 TCAGTCCATATCATTTTATTT
1 TCAGTCCAAATCATTTTATTT
26535737 CTTATTTCAT
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
65 72 0.56
66 56 0.44
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (66 bp):
TCAGTCCAAATCATTTTATTTTTTTTGACTCGGGGTTCAATCCTGATCACTCGTTTTGATCTCGG
C
Found at i:26542872 original size:18 final size:19
Alignment explanation
Indices: 26542821--26542883 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
26542811 AATGTCATGG
* *
26542821 AAATATATTAATTATCAAAC
1 AAATATA-TAATGATCATAC
*
26542841 -AATA-ATAATGATCATAT
1 AAATATATAATGATCATAC
26542858 AAATATATAAT-ATCATAC
1 AAATATATAATGATCATAC
26542876 AAATATAT
1 AAATATAT
26542884 TATCATTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 9 0.24
18 19 0.51
19 9 0.24
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATATATAATGATCATAC
Found at i:26542887 original size:16 final size:17
Alignment explanation
Indices: 26542851--26542889 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
26542841 AATAATAATG
*
26542851 ATCATATAAATATATAAT
1 ATCATACAAATATAT-AT
26542869 ATCATACAAATATAT-T
1 ATCATACAAATATATAT
26542885 ATCAT
1 ATCAT
26542890 TCAGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (17 bp):
ATCATACAAATATATAT
Found at i:26543069 original size:24 final size:24
Alignment explanation
Indices: 26543041--26543098 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
26543031 TATCATTTAA
26543041 ATAATATTA-ATAATGCAATAACAT
1 ATAATATTATATAATGCAATAA-AT
* *
26543065 ATAATATCATATCATGCAATAAAT
1 ATAATATTATATAATGCAATAAAT
*
26543089 ATAAAATTAT
1 ATAATATTAT
26543099 GCAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (24 bp):
ATAATATTATATAATGCAATAAAT
Found at i:26543240 original size:21 final size:21
Alignment explanation
Indices: 26543178--26543240 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
26543168 ATAAATTAAT
26543178 AATCATGC-ATTAAATATAT-
1 AATCATGCAATTAAATATATA
*
26543197 AATCATGCAATTAACA-ATGTA
1 AATCATGCAATTAA-ATATATA
*
26543218 AATTATGCAATTAAATATATA
1 AATCATGCAATTAAATATATA
26543239 AA
1 AA
26543241 CCAAGCTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.22
20 9 0.24
21 20 0.54
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (21 bp):
AATCATGCAATTAAATATATA
Found at i:26543328 original size:64 final size:61
Alignment explanation
Indices: 26543259--26543465 Score: 201
Period size: 64 Copynumber: 3.4 Consensus size: 61
26543249 ATAAATAGAC
* * *
26543259 AATTAAATATATAATTATGCAATCACACTAATAAATAAATTAATAATCATGCAACTAGACATGT
1 AATTAAATATATAATCATGCAAT-A-ACTAATAAATAAA-TAATAATCATGCAAATAAACATGT
* * * * *
26543323 AATTAAATATATAATCATG-AA-AA-TAAT-AATATATAA-AACCATGCAATTAAATATGC
1 AATTAAATATATAATCATGCAATAACTAATAAATAAATAATAATCATGCAAATAAACATGT
* * * *
26543379 AATTAAATATATAATTATACAAATAAAC-ATTCAACTAAATATATAATCATGCAAATAAACATGT
1 AATTAAATATATAATCATGC-AAT-AACTAAT-AAATAAATA-ATAATCATGCAAATAAACATGT
26543443 AATTAAATATATAATCATGCAAT
1 AATTAAATATATAATCATGCAAT
26543466 TAAATATATA
Statistics
Matches: 116, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
56 32 0.28
57 3 0.03
58 7 0.06
59 4 0.03
60 5 0.04
61 1 0.01
62 6 0.05
63 6 0.05
64 52 0.45
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (61 bp):
AATTAAATATATAATCATGCAATAACTAATAAATAAATAATAATCATGCAAATAAACATGT
Found at i:26543380 original size:12 final size:12
Alignment explanation
Indices: 26543363--26543388 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26543353 ATATAAAACC
26543363 ATGCAATTAAAT
1 ATGCAATTAAAT
26543375 ATGCAATTAAAT
1 ATGCAATTAAAT
26543387 AT
1 AT
26543389 ATAATTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATGCAATTAAAT
Found at i:26543389 original size:32 final size:32
Alignment explanation
Indices: 26543353--26543469 Score: 144
Period size: 32 Copynumber: 3.7 Consensus size: 32
26543343 AAATAATAAT
* * * *
26543353 ATATAAAACCATGCAATTAAATATGCAATTAA
1 ATATATAATCATGCAAATAAACATGCAATTAA
* * * *
26543385 ATATATAATTATACAAATAAACATTCAACTAA
1 ATATATAATCATGCAAATAAACATGCAATTAA
*
26543417 ATATATAATCATGCAAATAAACATGTAATTAA
1 ATATATAATCATGCAAATAAACATGCAATTAA
*
26543449 ATATATAATCATGCAATTAAA
1 ATATATAATCATGCAAATAAA
26543470 TATATAATCA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (32 bp):
ATATATAATCATGCAAATAAACATGCAATTAA
Found at i:26543418 original size:120 final size:119
Alignment explanation
Indices: 26543231--26543461 Score: 310
Period size: 120 Copynumber: 1.9 Consensus size: 119
26543221 TATGCAATTA
* *
26543231 AATATATAAACCAAGCTAATAAATAGACAATTAAATATATAATTATGCAATCACACTAATAAATA
1 AATATATAAACCAAGCTAATAAATAGACAATTAAATATATAATTATACAATCAAACTAATAAATA
* *
26543296 AAT-TAATAATCATGCAACTAGACATGTAATTAAATATATAATCATGAAAATAAT
66 AATAT-ATAATCATGCAAATAAACATGTAATTAAATATATAATCATGAAAATAAT
* *
26543350 AATATATAAAACCATGC-AATTAAATATG-CAATTAAATATATAATTATACAAAT-AAAC-ATTC
1 AATATAT-AAACCAAGCTAA-TAAATA-GACAATTAAATATATAATTATAC-AATCAAACTAAT-
*
26543411 AACTAAATATATAATCATGCAAATAAACATGTAATTAAATATATAATCATG
61 AAATAAATATATAATCATGCAAATAAACATGTAATTAAATATATAATCATG
26543462 CAATTAAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
119 11 0.11
120 83 0.84
121 5 0.05
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (119 bp):
AATATATAAACCAAGCTAATAAATAGACAATTAAATATATAATTATACAATCAAACTAATAAATA
AATATATAATCATGCAAATAAACATGTAATTAAATATATAATCATGAAAATAAT
Found at i:26543437 original size:20 final size:20
Alignment explanation
Indices: 26543414--26543565 Score: 77
Period size: 24 Copynumber: 7.5 Consensus size: 20
26543404 AACATTCAAC
26543414 TAAATATATAATCATGCAAA
1 TAAATATATAATCATGCAAA
* *
26543434 TAAACATGTAAT--T--AAA
1 TAAATATATAATCATGCAAA
*
26543450 T--A--TATAATCATGCAAT
1 TAAATATATAATCATGCAAA
*
26543466 TAAATATATAATCATTCAAA
1 TAAATATATAATCATGCAAA
* *
26543486 TAAATATATTAATAATCAAGCAAT
1 T-AA-ATA-T-ATAATCATGCAAA
*
26543510 TAAATATATTAATAATCATGCAAT
1 T-AA-ATA-T-ATAATCATGCAAA
*
26543534 TAAATTAAATATAATCATTCAAA
1 TAAA-T--ATATAATCATGCAAA
26543557 TAAATATAT
1 TAAATATAT
26543566 TAATAATCAT
Statistics
Matches: 105, Mismatches: 12, Indels: 30
0.71 0.08 0.20
Matches are distributed among these distances:
12 5 0.05
14 2 0.02
16 7 0.07
18 2 0.02
20 27 0.26
21 2 0.02
22 5 0.05
23 19 0.18
24 35 0.33
25 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (20 bp):
TAAATATATAATCATGCAAA
Found at i:26543500 original size:24 final size:24
Alignment explanation
Indices: 26543453--26543629 Score: 146
Period size: 24 Copynumber: 7.8 Consensus size: 24
26543443 AATTAAATAT
*
26543453 ATAATCATGC-AATTAA-ATA-T-
1 ATAATCATGCAAATAAATATATTA
*
26543473 ATAATCATTCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
26543497 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
26543521 ATAATCATGCAATTAAAT-TA-AA
1 ATAATCATGCAAATAAATATATTA
*
26543543 TATAATCATTCAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
26543568 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
26543588 ATAAATCA--CAAA-AAAAAAATTA
1 AT-AATCATGCAAATAAATATATTA
* *
26543610 TTAATCACGCAAATAAATAT
1 ATAATCATGCAAATAAATAT
26543630 TTAGGCCAAT
Statistics
Matches: 127, Mismatches: 16, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.01
20 21 0.17
21 15 0.12
22 13 0.10
23 23 0.18
24 53 0.42
25 1 0.01
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:26548804 original size:19 final size:19
Alignment explanation
Indices: 26548770--26548814 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
26548760 CAATTAAAAC
*
26548770 AAATAAAATTTACATAAAT
1 AAATAAAATATACATAAAT
26548789 AAAATAAAA-ATACATAAAT
1 -AAATAAAATATACATAAAT
26548808 AAATAAA
1 AAATAAA
26548815 TTGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAAATATACATAAAT
Found at i:26549851 original size:18 final size:18
Alignment explanation
Indices: 26549825--26549887 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
26549815 ATAAGTAAAG
26549825 AATAAAAAAATAAAGATA
1 AATAAAAAAATAAAGATA
* *
26549843 AATACAAAAATAAATATA
1 AATAAAAAAATAAAGATA
* * *
26549861 AAGATAAAGAT--AG-TA
1 AATAAAAAAATAAAGATA
26549876 AATAAAAAAATA
1 AATAAAAAAATA
26549888 TAAAATTAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 10 0.29
16 1 0.03
18 24 0.69
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (18 bp):
AATAAAAAAATAAAGATA
Found at i:26556694 original size:28 final size:28
Alignment explanation
Indices: 26556662--26556718 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
26556652 ATACAAGTAT
*
26556662 AGATATAAAGAATTATTTATTTATATTC
1 AGATATAAAGAATTATTTATTTACATTC
* *
26556690 AGATATGAATAATTATTTATTTACATTC
1 AGATATAAAGAATTATTTATTTACATTC
26556718 A
1 A
26556719 AATACTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (28 bp):
AGATATAAAGAATTATTTATTTACATTC
Found at i:26556735 original size:28 final size:28
Alignment explanation
Indices: 26556676--26556737 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
26556666 ATAAAGAATT
* * *
26556676 ATTTATTTATATTCAGATATGAATAATT
1 ATTTATTTACATTCAAATATGAATAATC
*
26556704 ATTTATTTACATTCAAATACT-TATAATC
1 ATTTATTTACATTCAAATA-TGAATAATC
26556732 ATTTAT
1 ATTTAT
26556738 CATATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTTATTTACATTCAAATATGAATAATC
Found at i:26557088 original size:22 final size:22
Alignment explanation
Indices: 26557063--26557104 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26557053 TGCTGAACCC
26557063 TTTGCGTATTCAGGATCCATTT
1 TTTGCGTATTCAGGATCCATTT
*
26557085 TTTGTGTATTCAGGATCCAT
1 TTTGCGTATTCAGGATCCAT
26557105 ATAACGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (22 bp):
TTTGCGTATTCAGGATCCATTT
Found at i:26558063 original size:14 final size:14
Alignment explanation
Indices: 26558041--26558071 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26558031 TATAAGTAAG
*
26558041 TATATTTACAATAA
1 TATAATTACAATAA
26558055 TATAATTACAATAA
1 TATAATTACAATAA
26558069 TAT
1 TAT
26558072 TTGAAAGATA
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATTACAATAA
Found at i:26558916 original size:221 final size:221
Alignment explanation
Indices: 26558554--26558954 Score: 588
Period size: 221 Copynumber: 1.8 Consensus size: 221
26558544 ATCTTCTACA
* * * ** *
26558554 ATAAATCACCTTCAATATATCACGATTGTTATAGAAGGCATTTATTCGAAAATGCACCGTCAATA
1 ATAAAACACCTTCAATATATCACGATGGTTATAAAAGGCATTTATTCGAAAAAACACCGTCAACA
* *
26558619 TACCCTTAAACTTAGTAATCTATTACGGAAGACGTTTGTTAATAACAGACGCCTTCAATATTTTT
66 TACCCTTAAACTTAGTAATCCATTACGGAAGACGTTTGTTAATAACAGACGCCTTCAATATTTTC
* *
26558684 CCTCTAAAAATTTTGGGCATTATTAAAGGCATCTTCTACTATAAAATGCCCTAAATATACCTCAA
131 CCTCGAAAAATTTTGGGAATTATTAAAGGCATCTTCTACTATAAAATGCCCTAAATATACCTCAA
26558749 TGGGATTATTAAAGGTATCTTTTATT
196 TGGGATTATTAAAGGTATCTTTTATT
* *
26558775 ATAAAACACCTTCAATAT-TCCACGATGGTTATAAAAGGCATTTATTCGAAAAAACGCCTTCAAC
1 ATAAAACACCTTCAATATAT-CACGATGGTTATAAAAGGCATTTATTCGAAAAAACACCGTCAAC
* ** * * * *
26558839 ATACCTTTGCACTTAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCTTTTAATATTTT
65 ATACCCTTAAACTTAGTAATCCATTACGGAAGACGTTTGTTAATAACAGACGCCTTCAATATTTT
* * *
26558904 CCCTCGAAAAATTTTGGGAATTATTAAATGCGTCTTCTACTGTAAAATGCC
130 CCCTCGAAAAATTTTGGGAATTATTAAAGGCATCTTCTACTATAAAATGCC
26558955 TTCACTATAC
Statistics
Matches: 157, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
220 1 0.01
221 156 0.99
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (221 bp):
ATAAAACACCTTCAATATATCACGATGGTTATAAAAGGCATTTATTCGAAAAAACACCGTCAACA
TACCCTTAAACTTAGTAATCCATTACGGAAGACGTTTGTTAATAACAGACGCCTTCAATATTTTC
CCTCGAAAAATTTTGGGAATTATTAAAGGCATCTTCTACTATAAAATGCCCTAAATATACCTCAA
TGGGATTATTAAAGGTATCTTTTATT
Found at i:26563180 original size:36 final size:34
Alignment explanation
Indices: 26563118--26563185 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
26563108 ATATATAAAC
* *
26563118 CAAATATTTTTGGGCATAAATATATAACTGACAG
1 CAAATATTTTTGGGCATAAACATATAAATGACAG
*
26563152 CAAATATTTTTCTGGGCATAAACCTATAAATGAC
1 CAAATA-TTTT-TGGGCATAAACATATAAATGAC
26563186 TACACATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 6 0.21
35 4 0.14
36 19 0.66
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (34 bp):
CAAATATTTTTGGGCATAAACATATAAATGACAG
Found at i:26565804 original size:3 final size:3
Alignment explanation
Indices: 26565796--26565821 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26565786 ATTTATTACA
26565796 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
26565822 AGGTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26569884 original size:62 final size:61
Alignment explanation
Indices: 26569807--26569925 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
26569797 TTTTTGGTCA
** *
26569807 AAAACACCTTCAATAATCTTCTCATATAAAATGA-AGGGGATTATTGAAAGCGTATTTTACAG
1 AAAACACCTTCAATAATCCCCT-ATAAAAAATGAGAGGGGATTATTGAAAGCGT-TTTTACAG
* * *
26569869 AAAACACCTTTAATAATCCCCTTTAAAAAATTAGAGGGGATTATTGAAAGCGTTTTT
1 AAAACACCTTCAATAATCCCCTATAAAAAATGAGAGGGGATTATTGAAAGCGTTTTT
26569926 GGTGAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 12 0.24
62 38 0.76
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (61 bp):
AAAACACCTTCAATAATCCCCTATAAAAAATGAGAGGGGATTATTGAAAGCGTTTTTACAG
Found at i:26569962 original size:63 final size:62
Alignment explanation
Indices: 26569806--26569963 Score: 158
Period size: 62 Copynumber: 2.5 Consensus size: 62
26569796 TTTTTTGGTC
* ** * *
26569806 AAAAACACCTTCAATAATCTTCTCATATAAAATGA-AGGGGATTATTGAAAGCGTATTTTACAG
1 AAAAA-ACCTTTAATAATCCCCTCA-AAAAAATTAGAGGGGATTATTGAAAGCGTATTTTACAG
* ** ***
26569869 AAAACACCTTTAATAATCCCCTTTAAAAAATTAGAGGGGATTATTGAAAGCGT-TTTTGGTG
1 AAAAAACCTTTAATAATCCCCTCAAAAAAATTAGAGGGGATTATTGAAAGCGTATTTTACAG
*
26569930 AAAAAACGCTTTTAATAGTCCCCTCAAAAAAATT
1 AAAAAAC-C-TTTAATAATCCCCTCAAAAAAATT
26569964 GGGGAGACCA
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
61 18 0.23
62 34 0.44
63 25 0.32
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (62 bp):
AAAAAACCTTTAATAATCCCCTCAAAAAAATTAGAGGGGATTATTGAAAGCGTATTTTACAG
Found at i:26571268 original size:21 final size:20
Alignment explanation
Indices: 26571229--26571273 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
26571219 ATTCTCTCAT
26571229 ATTTTACATTCTTATTTTTA
1 ATTTTACATTCTTATTTTTA
*
26571249 CATTTTAC-TTGTTATTTTTTA
1 -ATTTTACATTCTTA-TTTTTA
26571270 ATTT
1 ATTT
26571274 ATTGCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTACATTCTTATTTTTA
Found at i:26571273 original size:20 final size:21
Alignment explanation
Indices: 26571229--26571267 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
26571219 ATTCTCTCAT
26571229 ATTTTACATTCTTATTTTTAC
1 ATTTTACATTCTTATTTTTAC
*
26571250 ATTTTAC-TTGTTATTTTT
1 ATTTTACATTCTTATTTTT
26571268 TAATTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (21 bp):
ATTTTACATTCTTATTTTTAC
Found at i:26571652 original size:100 final size:103
Alignment explanation
Indices: 26571535--26571742 Score: 386
Period size: 103 Copynumber: 2.0 Consensus size: 103
26571525 TGAATTTCAC
26571535 TTTATATTTTAGTTGTTTCTAGTTAATTCTTGTATTTTC-TGCACTTTTTGTTCTTC-AATCAA-
1 TTTATATTTTAGTTGTTTCTAGTTAATTCTTGTATTTTCTTGCACTTTTTGTTCTTCAAATCAAT
26571597 TTTCCTTTTGGTTCCTTAATTGATCTTTTCAATTCCAA
66 TTTCCTTTTGGTTCCTTAATTGATCTTTTCAATTCCAA
26571635 TTTATATTTTAGTTGTTTCTAGTTAATTCTTGTATTTTCTTGCACTTTTTGTTCTTCAAATCAAT
1 TTTATATTTTAGTTGTTTCTAGTTAATTCTTGTATTTTCTTGCACTTTTTGTTCTTCAAATCAAT
*
26571700 TTTCCTTTTGGTTCTTTAATTGATCTTTTCAATTCCAA
66 TTTCCTTTTGGTTCCTTAATTGATCTTTTCAATTCCAA
26571738 TTTAT
1 TTTAT
26571743 GATCACTTGT
Statistics
Matches: 104, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
100 39 0.38
101 17 0.16
102 6 0.06
103 42 0.40
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (103 bp):
TTTATATTTTAGTTGTTTCTAGTTAATTCTTGTATTTTCTTGCACTTTTTGTTCTTCAAATCAAT
TTTCCTTTTGGTTCCTTAATTGATCTTTTCAATTCCAA
Found at i:26572210 original size:11 final size:12
Alignment explanation
Indices: 26572186--26572211 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26572176 TAATTATAAT
26572186 AAATTTTAAAAA
1 AAATTTTAAAAA
26572198 AAATTTTAAAAA
1 AAATTTTAAAAA
26572210 AA
1 AA
26572212 GTAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTTTAAAAA
Found at i:26575984 original size:20 final size:19
Alignment explanation
Indices: 26575926--26575988 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
26575916 TTTGTTTCTC
26575926 TTTTTTT-TTT-TTTTGCTT
1 TTTTTTTCTTTATTTTG-TT
* * *
26575944 TGTTTTGCTTTGTTTTGTT
1 TTTTTTTCTTTATTTTGTT
26575963 TTATTTTTCTTTATTTT-TT
1 TT-TTTTTCTTTATTTTGTT
26575982 TTTTTTT
1 TTTTTTT
26575989 TTGTAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 10 0.27
19 10 0.27
20 17 0.46
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.84
Consensus pattern (19 bp):
TTTTTTTCTTTATTTTGTT
Found at i:26576498 original size:215 final size:214
Alignment explanation
Indices: 26576204--26576644 Score: 609
Period size: 213 Copynumber: 2.1 Consensus size: 214
26576194 AATTGTATTC
* * * *
26576204 AGAGGTCTTAAAAATTATGCCTGGAGGTCTTAAAGATTTTAAAATGTTTAAATGCTCTTCATATA
1 AGAGGTCTTAAAAATTATGCCTAGAAGTCTTAAAGATTTCAAAATCTTTAAATGCTCTTCATATA
* * *
26576269 ATAGAGGTGTTGAAACTTTGAAAAATTTAAAATACTTTGCCCAAAGGTCTTAAAAAAATTGTGCT
66 ATAGAGGCGTTGAAACTTTG-AAAATTTAAAATACTTTGCCCAAAGGTCTTAAAAAAATTATGCC
* * * ** *
26576334 TGGAGGTCTTAAAGATTTCAAAATCTTTTGAATGCTCTTCGTATATTAGAGGTGTTGAAAGTTTG
130 TGAAGGTCTTAAAGATTTCAAAATC-TTTGAATGCTCTTCATATAATAGAGGCATTGAAACTTTG
26576399 AAAATTTAAAATATTTTACCT
194 AAAATTTAAAATATTTTACCT
* *
26576420 AGAGGTCTTAGAAA-TATGCCTAGAAGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTT-ATAT
1 AGAGGTCTTAAAAATTATGCCTAGAAGTCTTAAAGATTTCAAAATCTTTAAATGCT-CTTCATAT
* * ** * *
26576483 GATAGAGGCGTTGAAACTTTGTAAATTTAAAATGTTTTGCCCAGAGGTCTTAAAGAAATTATGCC
65 AATAGAGGCGTTGAAACTTTGAAAATTTAAAATACTTTGCCCAAAGGTCTTAAAAAAATTATGCC
*
26576548 TGAAGGTCTTAAAGATTTCAAAATCTTTGAATGTTCTTCATATAATAGAGGCATTGAAACTTTGA
130 TGAAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTCATATAATAGAGGCATTGAAACTTTGA
* *
26576613 AATTTTAAAATATTTTGCCT
195 AAATTTAAAATATTTTACCT
26576633 -GAAGGTCTTAAA
1 AG-AGGTCTTAAA
26576645 GAAATTGTGC
Statistics
Matches: 198, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
212 1 0.01
213 61 0.31
214 61 0.31
215 59 0.30
216 16 0.08
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (214 bp):
AGAGGTCTTAAAAATTATGCCTAGAAGTCTTAAAGATTTCAAAATCTTTAAATGCTCTTCATATA
ATAGAGGCGTTGAAACTTTGAAAATTTAAAATACTTTGCCCAAAGGTCTTAAAAAAATTATGCCT
GAAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTCATATAATAGAGGCATTGAAACTTTGAA
AATTTAAAATATTTTACCT
Found at i:26576580 original size:108 final size:108
Alignment explanation
Indices: 26576203--26576655 Score: 580
Period size: 108 Copynumber: 4.2 Consensus size: 108
26576193 AAATTGTATT
* * * *
26576203 CAGAGGTCTT-AA-AAATTATGCCTGGAGGTCTTAAAGATTTTAAAATGTTTAAATGCTCTTCAT
1 CAGAGGTCTTAAAGAAATTATGCCTGAAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTCAT
* *
26576266 ATAATAGAGGTGTTGAAACTTTGAAAAATTTAAAATACTTTGCC
66 ATAATAGAGGCGTTGAAACTTTG-AAAATTTAAAATATTTTGCC
* * * * * *
26576310 CAAAGGTCTTAAAAAAATTGTGCTTGGAGGTCTTAAAGATTTCAAAATCTTTTGAATGCTCTTCG
1 CAGAGGTCTTAAAGAAATTATGCCTGAAGGTCTTAAAGATTTCAAAATC-TTTGAATGCTCTTCA
* * * *
26576375 TATATTAGAGGTGTTGAAAGTTTGAAAATTTAAAATATTTTACC
65 TATAATAGAGGCGTTGAAACTTTGAAAATTTAAAATATTTTGCC
*
26576419 TAGAGGTCTT--AGAAA-TATGCCTAGAA-GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTT-
1 CAGAGGTCTTAAAGAAATTATGCCT-GAAGGTCTTAAAGATTTCAAAATCTTTGAATGCT-CTTC
* * *
26576479 ATATGATAGAGGCGTTGAAACTTTGTAAATTTAAAATGTTTTGCC
64 ATATAATAGAGGCGTTGAAACTTTGAAAATTTAAAATATTTTGCC
*
26576524 CAGAGGTCTTAAAGAAATTATGCCTGAAGGTCTTAAAGATTTCAAAATCTTTGAATGTTCTTCAT
1 CAGAGGTCTTAAAGAAATTATGCCTGAAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTCAT
* *
26576589 ATAATAGAGGCATTGAAACTTTGAAATTTTAAAATATTTTG-C
66 ATAATAGAGGCGTTGAAACTTTGAAAATTTAAAATATTTTGCC
* *
26576631 CTGAAGGTCTTAAAGAAATTGTGCC
1 CAG-AGGTCTTAAAGAAATTATGCC
26576656 CAGAGGTCTT
Statistics
Matches: 301, Mismatches: 34, Indels: 21
0.85 0.10 0.06
Matches are distributed among these distances:
105 56 0.19
106 28 0.09
107 29 0.10
108 96 0.32
109 57 0.19
110 35 0.12
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (108 bp):
CAGAGGTCTTAAAGAAATTATGCCTGAAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTCAT
ATAATAGAGGCGTTGAAACTTTGAAAATTTAAAATATTTTGCC
Found at i:26577318 original size:45 final size:45
Alignment explanation
Indices: 26577216--26577379 Score: 174
Period size: 45 Copynumber: 3.7 Consensus size: 45
26577206 GCAAGTGAGA
* * * * *
26577216 ATGCAAGTGATACAAATGTGAATGTC-TTTTTTC-T-TGATACAA
1 ATGCAAGTGATGCAAATGTAAATATCTTTTTTTCTTATGATGCAG
*
26577258 ATACAAGTGATGCAAATGTAAATATCTTTTTTTCTTATGATGCAG
1 ATGCAAGTGATGCAAATGTAAATATCTTTTTTTCTTATGATGCAG
* *
26577303 ATGCTAGTGATGCAAATGCAAATATCCTTTTTTT-TTATGATGCAG
1 ATGCAAGTGATGCAAATGTAAATAT-CTTTTTTTCTTATGATGCAG
* * * * *
26577348 ATGTAAGTGATGTAAATATGAATGTCTTTTTT
1 ATGCAAGTGATGCAAATGTAAATATCTTTTTT
26577380 CATGATGTAG
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 22 0.22
43 7 0.07
44 8 0.08
45 57 0.56
46 8 0.08
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (45 bp):
ATGCAAGTGATGCAAATGTAAATATCTTTTTTTCTTATGATGCAG
Found at i:26578404 original size:16 final size:16
Alignment explanation
Indices: 26578383--26578421 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
26578373 GTGTCTGTCC
26578383 TTTTTTTTCTTTT-TTG
1 TTTTTTTT-TTTTGTTG
26578399 TTTTTTTTTTTTGTTG
1 TTTTTTTTTTTTGTTG
26578415 TTTTTTT
1 TTTTTTT
26578422 ATTAACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTTGTTG
Found at i:26578408 original size:13 final size:13
Alignment explanation
Indices: 26578385--26578421 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
26578375 GTCTGTCCTT
26578385 TTTTTTCTTTTTTG
1 TTTTTT-TTTTTTG
26578399 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
26578412 TTGTTTTTTT
1 TT-TTTTTTT
26578422 ATTAACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:26579282 original size:6 final size:7
Alignment explanation
Indices: 26579265--26579290 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26579255 CATAACCATT
26579265 TTTTTAA
1 TTTTTAA
26579272 TTTTTAA
1 TTTTTAA
26579279 TTTTTAA
1 TTTTTAA
26579286 TTTTT
1 TTTTT
26579291 TTTCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:26579292 original size:17 final size:17
Alignment explanation
Indices: 26579272--26579305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26579262 ATTTTTTTAA
26579272 TTTTTAATTTTTAATTT
1 TTTTTAATTTTTAATTT
* *
26579289 TTTTTCATTTTTTATTT
1 TTTTTAATTTTTAATTT
26579306 ATTTATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTAATTTTTAATTT
Found at i:26579298 original size:24 final size:25
Alignment explanation
Indices: 26579263--26579316 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
26579253 GTCATAACCA
26579263 TTTTTTTAATTTTTAATTT-TTAAT
1 TTTTTTTAATTTTTAATTTATTAAT
* * *
26579287 TTTTTTTCATTTTTTATTTATTTAT
1 TTTTTTTAATTTTTAATTTATTAAT
26579312 TTTTT
1 TTTTT
26579317 AGATATTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTTAATTTTTAATTTATTAAT
Found at i:26579300 original size:25 final size:24
Alignment explanation
Indices: 26579263--26579316 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
26579253 GTCATAACCA
26579263 TTTTTTTAATTTTTAATTT-TTAAT
1 TTTTTTTAATTTTT-ATTTATTAAT
* *
26579287 TTTTTTTCATTTTTTATTTATTTAT
1 TTTTTTT-AATTTTTATTTATTAAT
26579312 TTTTT
1 TTTTT
26579317 AGATATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTTAATTTTTATTTATTAAT
Found at i:26588173 original size:3 final size:3
Alignment explanation
Indices: 26588167--26588207 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
26588157 CATCATCATC
*
26588167 ATT ATT ATT ATT ATT AAT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26588208 TGAAGCAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:26589321 original size:24 final size:24
Alignment explanation
Indices: 26589293--26589355 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
26589283 TTCATTGCTC
26589293 TCTTTTTTTTTTTTCAAAGCTTCT
1 TCTTTTTTTTTTTTCAAAGCTTCT
* ** * *
26589317 TCTTTTTTGTTTGACTAGGCTTCT
1 TCTTTTTTTTTTTTCAAAGCTTCT
26589341 T-TTTTTTTTCTTTTC
1 TCTTTTTTTT-TTTTC
26589356 TTTTTTTATG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (24 bp):
TCTTTTTTTTTTTTCAAAGCTTCT
Found at i:26590685 original size:27 final size:25
Alignment explanation
Indices: 26590642--26590691 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
26590632 TATTTAAGTA
*
26590642 ATTTTTTATAAATATATATTAATAT
1 ATTTTTTATAAAAATATATTAATAT
26590667 ATTTTTTCAATAAAAATATATTAAT
1 ATTTTTT--ATAAAAATATATTAAT
26590692 TCTAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTTTTATAAAAATATATTAATAT
Found at i:26592847 original size:3 final size:3
Alignment explanation
Indices: 26592839--26592899 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
26592829 AACTCAACAT
26592839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26592887 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
26592900 CAGCGTGAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26594050 original size:27 final size:28
Alignment explanation
Indices: 26594003--26594058 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
26593993 TACAAGTCAT
*
26594003 AATAAAAATATATCACGTAACTTCAAAA
1 AATAAAAATATATCACATAACTTCAAAA
26594031 AATAAAAGATA-ATC-CATAACTTCAAAA
1 AATAAAA-ATATATCACATAACTTCAAAA
26594058 A
1 A
26594059 TATTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
28 10 0.38
29 3 0.12
ACGTcount: A:0.59, C:0.14, G:0.04, T:0.23
Consensus pattern (28 bp):
AATAAAAATATATCACATAACTTCAAAA
Found at i:26601236 original size:7 final size:7
Alignment explanation
Indices: 26601226--26601264 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
26601216 TTTTTTAATT
26601226 TTTTTAA
1 TTTTTAA
26601233 TTTTTAA
1 TTTTTAA
26601240 TTTTTAA
1 TTTTTAA
26601247 TTTTTAA
1 TTTTTAA
*
26601254 TTTTTAC
1 TTTTTAA
26601261 TTTT
1 TTTT
26601265 ACTTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:26601337 original size:17 final size:16
Alignment explanation
Indices: 26601317--26601370 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
26601307 TTTAAAATTT
26601317 AAATTTGTTGAAATATA
1 AAATTT-TTGAAATATA
26601334 AAATATTTATGAAATA-A
1 AAAT-TTT-TGAAATATA
*
26601351 AAATATTT-AAAT-TA
1 AAATTTTTGAAATATA
26601365 AAATTT
1 AAATTT
26601371 ATTTACATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 2 0.06
17 10 0.31
18 9 0.28
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTTTGAAATATA
Found at i:26601348 original size:18 final size:17
Alignment explanation
Indices: 26601325--26601359 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
26601315 TTAAATTTGT
26601325 TGAAATATAAAATATTTA
1 TGAAATA-AAAATATTTA
26601343 TGAAATAAAAATATTTA
1 TGAAATAAAAATATTTA
26601360 AATTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
TGAAATAAAAATATTTA
Found at i:26602028 original size:15 final size:17
Alignment explanation
Indices: 26601998--26602029 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
26601988 TAAATTTTGC
26601998 TAGAATGATGAAAAATT
1 TAGAATGATGAAAAATT
26602015 TAGAAT-AT-AAAAATT
1 TAGAATGATGAAAAATT
26602030 AATAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (17 bp):
TAGAATGATGAAAAATT
Found at i:26605984 original size:26 final size:26
Alignment explanation
Indices: 26605955--26606013 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
26605945 ATGGCTCTAT
26605955 GGATGTGACGAGCTTTGTATAGTTCC
1 GGATGTGACGAGCTTTGTATAGTTCC
26605981 GGATGTGACGAGCTTTGTATAGTTCC
1 GGATGTGACGAGCTTTGTATAGTTCC
*
26606007 AGATGTG
1 GGATGTG
26606014 GTCATTTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (26 bp):
GGATGTGACGAGCTTTGTATAGTTCC
Found at i:26612355 original size:11 final size:11
Alignment explanation
Indices: 26612339--26612387 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
26612329 TTTTGCTTAA
*
26612339 AAAAAAGAAAC
1 AAAAAAGAAAG
26612350 AAAAAA-AAAG
1 AAAAAAGAAAG
*
26612360 AAAAAACAAAG
1 AAAAAAGAAAG
* *
26612371 ATAAAAGAAGG
1 AAAAAAGAAAG
26612382 AAAAAA
1 AAAAAA
26612388 AGGGATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:26612357 original size:17 final size:17
Alignment explanation
Indices: 26612337--26612379 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
26612327 TATTTTGCTT
*
26612337 AAAAAA-AAGAAACAAA
1 AAAAAAGAAAAAACAAA
26612353 AAAAAAGAAAAAACAAA
1 AAAAAAGAAAAAACAAA
*
26612370 GATAAAAGAA
1 -AAAAAAGAA
26612380 GGAAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAACAAA
Found at i:26613294 original size:34 final size:34
Alignment explanation
Indices: 26613249--26613314 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
26613239 GAAATTTTCA
*
26613249 AAAGTTATGGAGCCTCTACTTAGAAGAGCTTTTT
1 AAAGTTATGGAGCCTCTACTCAGAAGAGCTTTTT
* * *
26613283 AAAGTTGTGGAGCCTCTGCTCAGAAGGGCTTT
1 AAAGTTATGGAGCCTCTACTCAGAAGAGCTTT
26613315 CATTATCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (34 bp):
AAAGTTATGGAGCCTCTACTCAGAAGAGCTTTTT
Found at i:26613485 original size:43 final size:43
Alignment explanation
Indices: 26613357--26613481 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
26613347 TTATTTTAAG
* *
26613357 TTTTCAAAAGTTGTTGAGCCTTTGCTTAAAGGTGCTTTTAAAA
1 TTTTCAAAAGTTGTTGAGCCTTTGCTTAAAAGAGCTTTTAAAA
* * *
26613400 TTTTCAAAAGTTGTTGAGCCTCTGCTCAGAGAA-ACCTTTTAAAA
1 TTTTCAAAAGTTGTTGAGCCTTTGCTTA-A-AAGAGCTTTTAAAA
** *
26613444 TTTTC-AAAGTTGTCAAGCATTTGCTTAAAAGAGCTTTT
1 TTTTCAAAAGTTGTTGAGCCTTTGCTTAAAAGAGCTTTT
26613482 TAAAGTTGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.03
42 7 0.10
43 43 0.63
44 15 0.22
45 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (43 bp):
TTTTCAAAAGTTGTTGAGCCTTTGCTTAAAAGAGCTTTTAAAA
Found at i:26613517 original size:34 final size:34
Alignment explanation
Indices: 26613444--26613519 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
26613434 CCTTTTAAAA
* *
26613444 TTTTCAAAGTTGTCAAGCATTTGCTTAAAAGAGCT
1 TTTT-AAAGTTGTCAAGCATTTACTTAAAAGAGCC
* *
26613479 TTTTAAAGTTGTCAAGCCTTTACTT-AGAGAAGCC
1 TTTTAAAGTTGTCAAGCATTTACTTAAAAG-AGCC
26613513 TTTTAAA
1 TTTTAAA
26613520 TTTTCAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 3 0.08
34 29 0.81
35 4 0.11
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (34 bp):
TTTTAAAGTTGTCAAGCATTTACTTAAAAGAGCC
Found at i:26613538 original size:43 final size:44
Alignment explanation
Indices: 26613483--26613585 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 44
26613473 AGAGCTTTTT
*
26613483 AAAGTTGTCAAGCCTTTACTTAGAGAAGCCTTT-TAAATTTTCA
1 AAAGTTGTCAAGCCTCTACTTAGAGAAGCCTTTCTAAATTTTCA
* * *
26613526 AAAGTTGCCAAGCCTCTACTTAGAGGAGCTTTTCTAAATTTTCA
1 AAAGTTGTCAAGCCTCTACTTAGAGAAGCCTTTCTAAATTTTCA
26613570 AAAGTTGTCAAGCCTC
1 AAAGTTGTCAAGCCTC
26613586 ATTAAATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 29 0.54
44 25 0.46
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (44 bp):
AAAGTTGTCAAGCCTCTACTTAGAGAAGCCTTTCTAAATTTTCA
Found at i:26614154 original size:15 final size:15
Alignment explanation
Indices: 26614134--26614178 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
26614124 AAGAAAAGTA
26614134 GAAAGATGGAAAATT
1 GAAAGATGGAAAATT
* *
26614149 GAAAGAGGAGAAAAAT
1 GAAAGATG-GAAAATT
*
26614165 GAAAGATAGAAAAT
1 GAAAGATGGAAAAT
26614179 AAGTTATTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (15 bp):
GAAAGATGGAAAATT
Found at i:26617135 original size:22 final size:21
Alignment explanation
Indices: 26617101--26617149 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
26617091 TTAAATTGAA
26617101 TTTTTGGGCTTTTG-GGAGATT
1 TTTTTGGGCTTTTGTGGA-ATT
* *
26617122 TTTTTGGGTTTTTTGTTGAATT
1 TTTTTGGG-CTTTTGTGGAATT
26617144 TTTTTG
1 TTTTTG
26617150 CTAAAGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 14 0.58
23 2 0.08
ACGTcount: A:0.08, C:0.02, G:0.27, T:0.63
Consensus pattern (21 bp):
TTTTTGGGCTTTTGTGGAATT
Found at i:26617578 original size:26 final size:25
Alignment explanation
Indices: 26617535--26617589 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
26617525 TTATCTCAAG
*
26617535 TTTTCCTTTTTTCAATTT-CTTTTT
1 TTTTCATTTTTTCAATTTCCTTTTT
*
26617559 ATTTTCATTTATTTCTATTTCCTTTTT
1 -TTTTCATTT-TTTCAATTTCCTTTTT
26617586 TTTT
1 TTTT
26617590 ACTATGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 12 0.46
27 6 0.23
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCATTTTTTCAATTTCCTTTTT
Found at i:26617604 original size:3 final size:3
Alignment explanation
Indices: 26617598--26617632 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
26617588 TTACTATGTG
26617598 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26617633 GTTAATGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26618919 original size:17 final size:17
Alignment explanation
Indices: 26618897--26618942 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
26618887 TTTCATTCAT
26618897 TTCATACAT-ATCACTCA
1 TTCATACATCATCA-TCA
*
26618914 TTCATAGATCATCATCA
1 TTCATACATCATCATCA
*
26618931 TTCATTCATCAT
1 TTCATACATCAT
26618943 GCCATTGCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (17 bp):
TTCATACATCATCATCA
Found at i:26622491 original size:20 final size:20
Alignment explanation
Indices: 26622459--26622506 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
26622449 TTGAAAATGC
*
26622459 ATAT-TTTGAGAAATGGAAAT
1 ATATCTTTGAGAAA-AGAAAT
26622479 ATATCTTTG-GAAAAGAAAT
1 ATATCTTTGAGAAAAGAAAT
26622498 A-ATCTTTGA
1 ATATCTTTGA
26622507 TTTAATCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 6 0.24
20 8 0.32
21 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (20 bp):
ATATCTTTGAGAAAAGAAAT
Found at i:26626052 original size:21 final size:21
Alignment explanation
Indices: 26626028--26626067 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26626018 GCTTGTTTAG
26626028 TAAATAAATTTA-TTTTTTATT
1 TAAAT-AATTTACTTTTTTATT
*
26626049 TAAATATTTTACTTTTTTA
1 TAAATAATTTACTTTTTTA
26626068 AATTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TAAATAATTTACTTTTTTATT
Found at i:26626821 original size:17 final size:18
Alignment explanation
Indices: 26626799--26626841 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
26626789 CTAAACAACC
* *
26626799 TTTCCTTTTTTC-TTCTT
1 TTTCCTTTTCTCTTTCAT
26626816 TTTCC-TTTCTCTTTCAT
1 TTTCCTTTTCTCTTTCAT
26626833 TTTCCTTTT
1 TTTCCTTTT
26626842 AAGCAGTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 14 0.64
18 3 0.14
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCCTTTTCTCTTTCAT
Found at i:26627659 original size:24 final size:26
Alignment explanation
Indices: 26627632--26627680 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
26627622 GCACCTTAAT
26627632 TCAATGAAA-C-GCCTTAATTGATGA
1 TCAATGAAAGCAGCCTTAATTGATGA
*
26627656 TCAATTAAAGCAAGCCTTAATTGAT
1 TCAATGAAAGC-AGCCTTAATTGAT
26627681 CACCAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 1 0.05
27 12 0.57
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (26 bp):
TCAATGAAAGCAGCCTTAATTGATGA
Found at i:26636318 original size:22 final size:22
Alignment explanation
Indices: 26636247--26636318 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
26636237 ATTTAATCAA
* * * *
26636247 TGATAGCTTTATATTAAATTAT
1 TGATAACTTAATAATAAATAAT
* *
26636269 GGATAACTTAATAATAAATAAA
1 TGATAACTTAATAATAAATAAT
* * *
26636291 TAATAATTTAGTAATAAATAAT
1 TGATAACTTAATAATAAATAAT
26636313 TGATAA
1 TGATAA
26636319 GATAATTGTA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (22 bp):
TGATAACTTAATAATAAATAAT
Found at i:26636529 original size:22 final size:22
Alignment explanation
Indices: 26636417--26636512 Score: 124
Period size: 22 Copynumber: 4.4 Consensus size: 22
26636407 ATAATAATAC
* *
26636417 AATAGTAAATTAAAGATAATTT
1 AATAGTAAAGTAATGATAATTT
* *
26636439 AATA--AAAATAAGTGATAACTT
1 AATAGTAAAGTAA-TGATAATTT
*
26636460 AATAGTAAAGTAATGATAACTT
1 AATAGTAAAGTAATGATAATTT
26636482 AATAGTAAAGTAATGATAATTT
1 AATAGTAAAGTAATGATAATTT
26636504 AATAGTAAA
1 AATAGTAAA
26636513 TAAGATTCAG
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.09
21 11 0.17
22 43 0.65
23 6 0.09
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.32
Consensus pattern (22 bp):
AATAGTAAAGTAATGATAATTT
Found at i:26637022 original size:22 final size:22
Alignment explanation
Indices: 26636828--26637223 Score: 121
Period size: 22 Copynumber: 17.7 Consensus size: 22
26636818 AATCATAAAG
*
26636828 AACTTAATAATAAATTAA-TGAT
1 AACTTAATAGTAAA-TAATTGAT
* * * *
26636850 AATTTAGTAGTAAATAATTTAG
1 AACTTAATAGTAAATAATTGAT
*
26636872 AACTTAGTAGTAATTAATAATTGA-
1 AACTTAATAGT-A--AATAATTGAT
* * * *
26636896 AAATTAAAAATAAATCAATATAAAT
1 AACTTAATAGTAAAT-AAT-T-GAT
* * * *
26636921 AAATTAATAGTTAATTAGTGAT
1 AACTTAATAGTAAATAATTGAT
* * * *
26636943 AATTTTGTATAGTAAATTAGTGAT
1 AA-CTT-AATAGTAAATAATTGAT
* * * *
26636967 AACTTAGTAATATATTAA-TAAT
1 AACTTAATAGTA-AATAATTGAT
*
26636989 AA-TTTATAGTAAATAATTGAT
1 AACTTAATAGTAAATAATTGAT
*
26637010 AACTTAATAGTAAATCAA-TAAT
1 AACTTAATAGTAAAT-AATTGAT
* *
26637032 AA-TATAATAGTAAATGCA-TAAT
1 AACT-TAATAGTAAAT-AATTGAT
26637054 AACTTAATAGTAAATCAATT-AT
1 AACTTAATAGTAAAT-AATTGAT
* * * *
26637076 AACATAATTGTAAAT-GTATAAT
1 AACTTAATAGTAAATAAT-TGAT
* * * *
26637098 AGCATAGTAATAAATCAA-TGAT
1 AACTTAATAGTAAAT-AATTGAT
* ** *
26637120 AATTTAATAAAAAATAAATGAT
1 AACTTAATAGTAAATAATTGAT
* *
26637142 AACTTAATAGTTAATCATTGAT
1 AACTTAATAGTAAATAATTGAT
* *
26637164 AATTTAATAGTAAATCAA-TGAA
1 AACTTAATAGTAAAT-AATTGAT
* * * * *
26637186 AATTTAGTAATAAAATTATAGAT
1 AACTTAATAGT-AAATAATTGAT
*
26637209 AACTTAATAATAAAT
1 AACTTAATAGTAAAT
26637224 CTGTTTTAGT
Statistics
Matches: 279, Mismatches: 70, Indels: 50
0.70 0.18 0.13
Matches are distributed among these distances:
20 5 0.02
21 21 0.08
22 176 0.63
23 31 0.11
24 26 0.09
25 20 0.07
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
AACTTAATAGTAAATAATTGAT
Found at i:26637112 original size:66 final size:65
Alignment explanation
Indices: 26636984--26637158 Score: 165
Period size: 66 Copynumber: 2.7 Consensus size: 65
26636974 TAATATATTA
* * * *
26636984 ATAATAATTTATAGTAAATAATTGATAACTTAATAGTAAATCAATAATAATATAATAGTAAATGC
1 ATAATAATTAATAGTAAATAATTGATAACATAATAGTAAATCAATAATAACATAATAATAAATGC
* ** * *
26637049 ATAATAACTTAATAGTAAATCAATT-ATAACATAATTGTAAATGTATAATAGCATAGTAATAAAT
1 ATAATAA-TTAATAGTAAAT-AATTGATAACATAATAGTAAATCAATAATAACATAATAATAAAT
26637113 -C
64 GC
* ** * * *
26637114 AATGATAATTTAATAAAAAATAAATGATAACTTAATAGTTAATCA
1 -ATAATAA-TTAATAGTAAATAATTGATAACATAATAGTAAATCA
26637159 TTGATAATTT
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
65 11 0.13
66 72 0.83
67 4 0.05
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (65 bp):
ATAATAATTAATAGTAAATAATTGATAACATAATAGTAAATCAATAATAACATAATAATAAATGC
Found at i:26637184 original size:44 final size:44
Alignment explanation
Indices: 26636919--26637485 Score: 222
Period size: 44 Copynumber: 12.9 Consensus size: 44
26636909 ATCAATATAA
* * * * * * *
26636919 ATAAATTAATAGTTAATTAGTGATAATTTTGTATAGTAAATTAGTG
1 ATAACTTAATAGTAAATCAATGATAA-TTT-AATAGTAAATCAATG
* * * * *
26636965 ATAACTTAGTAATATATTAATAATAATTT-ATAGTAAAT-AATTG
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCAA-TG
* * *
26637008 ATAACTTAATAGTAAATCAATAATAATATAATAGTAAATGC-ATA
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAAT-CAATG
* ** * ** *
26637052 ATAACTTAATAGTAAATCAATTATAACATAATTGTAAATGTATA
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCAATG
* * * * ** *
26637096 ATAGCATAGTAATAAATCAATGATAATTTAATAAAAAATAAATG
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCAATG
* *
26637140 ATAACTTAATAGTTAATCATTGATAATTTAATAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCAATG
* * * * * * * ** *
26637184 AAAATTTAGTAATAAAAT-TATAGATAACTTAATAATAAATCTGTT
1 ATAACTTAATAGT-AAATCAAT-GATAATTTAATAGTAAATCAATG
* ** * * * * ** * *
26637229 TTAGTTTAATAGTAATTAAATTATAAACTTAGCAATAAATC-ATA
1 ATAACTTAATAGTAAATCAATGAT-AATTTAATAGTAAATCAATG
* * * * *
26637273 ATTAACTTAAAAATAAATCAATGATAATTTAGTAGTTAATCACT-
1 A-TAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCAATG
* * ** * * *
26637317 AAAACTCAATAGTAAATCAATGATAACATAGTAGCAAATGC-ATA
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAAT-CAATG
* * * * * *
26637361 AT-A-GTATATAGTAAATCATTGATAATTTTATAATAAATTATTG
1 ATAACTTA-ATAGTAAATCAATGATAATTTAATAGTAAATCAATG
* * * * * *
26637404 ATAATTTAGTAGTAAATCACTAATAATGTT-ATAGTAAATTATTG
1 ATAACTTAATAGTAAATCAATGATAAT-TTAATAGTAAATCAATG
* * * *
26637448 ATAACTTAGCT-GTAAATTAGTGATAATTTAGTA-TAAAT
1 ATAACTTA-ATAGTAAATCAATGATAATTTAATAGTAAAT
26637486 TAATAATGAT
Statistics
Matches: 391, Mismatches: 110, Indels: 43
0.72 0.20 0.08
Matches are distributed among these distances:
42 2 0.01
43 101 0.26
44 198 0.51
45 71 0.18
46 19 0.05
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCAATG
Found at i:26637237 original size:67 final size:67
Alignment explanation
Indices: 26637108--26637314 Score: 181
Period size: 67 Copynumber: 3.1 Consensus size: 67
26637098 AGCATAGTAA
* * * * *
26637108 TAAATCAATGATAATTTAATAA-AAAA-TAAATGATAACTTAATAGTTAATCATTGATAATTTAA
1 TAAATCAATGAAAATTTAGTAATAAAATTATA-GATAACTTAATAATAAATCATTGATAATTTAA
26637171 TAG
65 TAG
** *
26637174 TAAATCAATGAAAATTTAGTAATAAAATTATAGATAACTTAATAATAAATC-TGTTTTAGTTTAA
1 TAAATCAATGAAAATTTAGTAATAAAATTATAGATAACTTAATAATAAATCAT-TGATAATTTAA
26637238 TAG
65 TAG
* * * * * * * *
26637241 TAATTAAATTATAAACTTAGCAAT-AAATCATA-ATTAACTTAAAAATAAATCAATGATAATTTA
1 TAAATCAATGA-AAATTTAGTAATAAAATTATAGA-TAACTTAATAATAAATCATTGATAATTTA
*
26637304 GTAG
64 ATAG
*
26637308 TTAATCA
1 TAAATCA
26637315 CTAAAACTCA
Statistics
Matches: 112, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
66 22 0.20
67 77 0.69
68 13 0.12
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (67 bp):
TAAATCAATGAAAATTTAGTAATAAAATTATAGATAACTTAATAATAAATCATTGATAATTTAAT
AG
Found at i:26637397 original size:22 final size:22
Alignment explanation
Indices: 26637367--26637451 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
26637357 CATAATAGTA
26637367 TATAGTAAATCATTGATAATTT
1 TATAGTAAATCATTGATAATTT
* *
26637389 TATAATAAATTATTGATAA-TT
1 TATAGTAAATCATTGATAATTT
* * *
26637410 TAGTAGTAAATCACTAATAATGT
1 TA-TAGTAAATCATTGATAATTT
*
26637433 TATAGTAAATTATTGATAA
1 TATAGTAAATCATTGATAA
26637452 CTTAGCTGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
21 4 0.08
22 44 0.86
23 3 0.06
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
TATAGTAAATCATTGATAATTT
Found at i:26637398 original size:65 final size:66
Alignment explanation
Indices: 26637329--26637451 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 66
26637319 AACTCAATAG
26637329 TAAATCAATGATAACATAGTAGCAAATGCA-TAAT-A-GTATATAGTAAATCATTGATAATTTTA
1 TAAATCAATGATAACATAGTAGCAAAT-CACTAATAATGT-TATAGTAAATCATTGATAATTTTA
26637391 TAA
64 TAA
* * ** * *
26637394 TAAATTATTGATAATTTAGTAGTAAATCACTAATAATGTTATAGTAAATTATTGATAA
1 TAAATCAATGATAACATAGTAGCAAATCACTAATAATGTTATAGTAAATCATTGATAA
26637452 CTTAGCTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
64 2 0.04
65 26 0.53
66 19 0.39
67 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (66 bp):
TAAATCAATGATAACATAGTAGCAAATCACTAATAATGTTATAGTAAATCATTGATAATTTTATA
A
Found at i:26637462 original size:22 final size:21
Alignment explanation
Indices: 26637437--26637511 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
26637427 TAATGTTATA
*
26637437 GTAAATTATTGATAACTTAGCT
1 GTAAATTAGTGATAACTTAG-T
*
26637459 GTAAATTAGTGATAATTTAGT
1 GTAAATTAGTGATAACTTAGT
* * * * *
26637480 ATAAATTAATAATGATTTAGTT
1 GTAAATTAGTGATAACTTAG-T
26637502 GTAAATTAGT
1 GTAAATTAGT
26637512 TAATTATTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 17 0.39
22 27 0.61
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.43
Consensus pattern (21 bp):
GTAAATTAGTGATAACTTAGT
Found at i:26637478 original size:11 final size:11
Alignment explanation
Indices: 26637438--26637487 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
26637428 AATGTTATAG
*
26637438 TAAATTATTGA
1 TAAATTAGTGA
*
26637449 TAACTTAGCTG-
1 TAAATTAG-TGA
26637460 TAAATTAGTGA
1 TAAATTAGTGA
*
26637471 TAATTTAGT-A
1 TAAATTAGTGA
26637481 TAAATTA
1 TAAATTA
26637488 ATAATGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.28
11 21 0.66
12 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (11 bp):
TAAATTAGTGA
Found at i:26637567 original size:22 final size:21
Alignment explanation
Indices: 26637508--26637585 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
26637498 AGTTGTAAAT
* *
26637508 TAGTTAATTATTAACAACTTCT-
1 TAGTAAATTA-TAATAACTT-TA
*
26637530 TAGTAAATCATCAATAACTTTA
1 TAGTAAATTAT-AATAACTTTA
*
26637552 TAGTAAATTAGTAATAATTTTA
1 TAGTAAATTA-TAATAACTTTA
*
26637574 TAATAAATTATA
1 TAGTAAATTATA
26637586 GTAAATTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.09
22 42 0.89
23 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (21 bp):
TAGTAAATTATAATAACTTTA
Found at i:26637579 original size:11 final size:10
Alignment explanation
Indices: 26637549--26637643 Score: 73
Period size: 11 Copynumber: 8.9 Consensus size: 10
26637539 ATCAATAACT
*
26637549 TTATAGTAAA
1 TTATAATAAA
*
26637559 TTAGTAATAATT
1 TTA-TAATAA-A
26637571 TTATAATAAA
1 TTATAATAAA
*
26637581 TTATAGTAAA
1 TTATAATAAA
*
26637591 TTATAATAACT
1 TTATAATAA-A
26637602 TTATAATAAA
1 TTATAATAAA
* *
26637612 TTATCTATAAC
1 TTAT-AATAAA
*
26637623 TTAATAGTAAA
1 TT-ATAATAAA
26637634 TTATCAATAA
1 TTAT-AATAA
26637644 TTTGTAGTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
10 26 0.39
11 35 0.53
12 5 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (10 bp):
TTATAATAAA
Found at i:26637605 original size:31 final size:32
Alignment explanation
Indices: 26637549--26637615 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 32
26637539 ATCAATAACT
*
26637549 TTATAGTAAATTAGTAATAATTTTATAATAAA
1 TTATAGTAAATTAGTAATAACTTTATAATAAA
26637581 TTATAGTAAATTA-TAATAACTTTATAATAAA
1 TTATAGTAAATTAGTAATAACTTTATAATAAA
26637612 TTAT
1 TTAT
26637616 CTATAACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 21 0.62
32 13 0.38
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (32 bp):
TTATAGTAAATTAGTAATAACTTTATAATAAA
Found at i:26637624 original size:22 final size:22
Alignment explanation
Indices: 26637581--26637689 Score: 114
Period size: 22 Copynumber: 5.0 Consensus size: 22
26637571 TTATAATAAA
*
26637581 TTATAGTAAATTAT-AATAACT
1 TTATAGTAAATTATCTATAACT
*
26637602 TTATAATAAATTATCTATAACT
1 TTATAGTAAATTATCTATAACT
* *
26637624 TAATAGTAAATTATCAATAA-T
1 TTATAGTAAATTATCTATAACT
* * *
26637645 TTGTAGTAAATCATTTATAACT
1 TTATAGTAAATTATCTATAACT
* * *
26637667 TAATAGTAAATCATTTATAACT
1 TTATAGTAAATTATCTATAACT
26637689 T
1 T
26637690 AGTGATAAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
21 29 0.39
22 45 0.61
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
TTATAGTAAATTATCTATAACT
Found at i:26637634 original size:53 final size:54
Alignment explanation
Indices: 26637530--26637637 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 54
26637520 AACAACTTCT
* * *
26637530 TAGTAAATCATCAATAACTTTATAGTAAATTAGTAATAATTTTATAATAAATTA
1 TAGTAAATCATCAATAACTTTATAATAAATTAGTAATAACTTAATAATAAATTA
* * *
26637584 TAGTAAATTAT-AATAACTTTATAATAAATTA-TCTATAACTTAATAGTAAATTA
1 TAGTAAATCATCAATAACTTTATAATAAATTAGT-AATAACTTAATAATAAATTA
26637637 T
1 T
26637638 CAATAATTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.02
53 36 0.77
54 10 0.21
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (54 bp):
TAGTAAATCATCAATAACTTTATAATAAATTAGTAATAACTTAATAATAAATTA
Found at i:26637636 original size:43 final size:43
Alignment explanation
Indices: 26637583--26637677 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
26637573 ATAATAAATT
*
26637583 ATAGTAAATTAT-AATAACTTTATAATAAATTATCTATAACTTA
1 ATAGTAAATTATCAATAA-TTTATAATAAATCATCTATAACTTA
* * *
26637626 ATAGTAAATTATCAATAATTTGTAGTAAATCATTTATAACTTA
1 ATAGTAAATTATCAATAATTTATAATAAATCATCTATAACTTA
26637669 ATAGTAAAT
1 ATAGTAAAT
26637678 CATTTATAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
43 42 0.89
44 5 0.11
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (43 bp):
ATAGTAAATTATCAATAATTTATAATAAATCATCTATAACTTA
Found at i:26637701 original size:65 final size:63
Alignment explanation
Indices: 26637571--26637690 Score: 150
Period size: 65 Copynumber: 1.9 Consensus size: 63
26637561 AGTAATAATT
* * *
26637571 TTATAATAAATTATAGTAAATTATAATAACTTTATAATAAATTATCTATAACTTAATAGTAAA
1 TTATAATAAATTATAGTAAATCATAATAACTTAATAATAAATCATCTATAACTTAATAGTAAA
* * * * *
26637634 TTATCAATAATTTGTAGTAAATCATTTATAACTTAATAGTAAATCATTTATAACTTA
1 TTAT-AATAAATTATAGTAAATCA-TAATAACTTAATAATAAATCATCTATAACTTA
26637691 GTGATAAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
63 4 0.09
64 16 0.34
65 27 0.57
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (63 bp):
TTATAATAAATTATAGTAAATCATAATAACTTAATAATAAATCATCTATAACTTAATAGTAAA
Found at i:26638026 original size:23 final size:22
Alignment explanation
Indices: 26637997--26638075 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
26637987 GTAAAGCATA
26637997 AATAACTTAGTAGTAATTCAATT
1 AATAACTTAGTAGTAATT-AATT
* *
26638020 GATAACTTAGTAGTAAATAATT
1 AATAACTTAGTAGTAATTAATT
*
26638042 AATAACTTAATAGCTAATT-ATT
1 AATAACTTAGTAG-TAATTAATT
* *
26638064 AAAAAGTTAGTA
1 AATAACTTAGTA
26638076 ATTGATCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 27 0.57
23 20 0.43
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (22 bp):
AATAACTTAGTAGTAATTAATT
Found at i:26638034 original size:45 final size:46
Alignment explanation
Indices: 26637972--26638060 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 46
26637962 ATTGTAATTT
* *
26637972 ATTGATAAATTAATAGTAAAGCATAAATAACTTAGTAG-TAATTCA
1 ATTGATAAATTAATAGTAAAGAATAAATAACTTAATAGCTAATTCA
* * * *
26638017 ATTGATAACTTAGTAGTAAATAATTAATAACTTAATAGCTAATT
1 ATTGATAAATTAATAGTAAAGAATAAATAACTTAATAGCTAATT
26638061 ATTAAAAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 32 0.86
46 5 0.14
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (46 bp):
ATTGATAAATTAATAGTAAAGAATAAATAACTTAATAGCTAATTCA
Found at i:26638046 original size:22 final size:23
Alignment explanation
Indices: 26637997--26638050 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
26637987 GTAAAGCATA
*
26637997 AATAACTTAGTAGTAATTCAATT
1 AATAACTTAGTAGTAAATCAATT
*
26638020 GATAACTTAGTAGTAAAT-AATT
1 AATAACTTAGTAGTAAATCAATT
26638042 AATAACTTA
1 AATAACTTA
26638051 ATAGCTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (23 bp):
AATAACTTAGTAGTAAATCAATT
Found at i:26638240 original size:26 final size:26
Alignment explanation
Indices: 26638189--26638240 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
26638179 TGTATATCAA
*
26638189 TGATAATTTAGTAATAAATTAGTTAT
1 TGATAATTTAGTAATAAATCAGTTAT
* *
26638215 TGATAATTGTA-TAGTAAATCATTTAT
1 TGATAATT-TAGTAATAAATCAGTTAT
26638241 AACTTCATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (26 bp):
TGATAATTTAGTAATAAATCAGTTAT
Found at i:26638250 original size:22 final size:22
Alignment explanation
Indices: 26638225--26638365 Score: 115
Period size: 22 Copynumber: 6.4 Consensus size: 22
26638215 TGATAATTGT
* *
26638225 ATAGTAAATCATTTATAACTTC
1 ATAGTAAATCATTAATAACTTA
* * *
26638247 ATAGAAAATTAGTT-ATAACTTT
1 ATAGTAAATCA-TTAATAACTTA
* * *
26638269 ATAATAAATTATCAATAACTTA
1 ATAGTAAATCATTAATAACTTA
* * *
26638291 GTAGTAAATTATTCATAACTTA
1 ATAGTAAATCATTAATAACTTA
* *
26638313 ATAGTAAATCATTGATAATTTA
1 ATAGTAAATCATTAATAACTTA
*
26638335 ATAATAAATCATTAATAA-TATA
1 ATAGTAAATCATTAATAACT-TA
*
26638357 ATAATAAAT
1 ATAGTAAAT
26638366 TAGTTATAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.02
22 95 0.96
23 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (22 bp):
ATAGTAAATCATTAATAACTTA
Found at i:26638365 original size:66 final size:65
Alignment explanation
Indices: 26638114--26638374 Score: 170
Period size: 66 Copynumber: 3.9 Consensus size: 65
26638104 AATAATATAG
* * * * * * *
26638114 TAGTAAATTATTG--AATTTAGTAGTAAATCACTAATAACATACTAATAAATCATTTATAATTTA
1 TAGTAAATCATTGATAATTTAATAATAAATCATTAATAA-TTAATAATAAATCATTTATAACTTA
*
26638177 G
65 A
* * * * * * *
26638178 TTGTATATCAATGATAATTTAGTAATAAATTAGTTATTGATAATTGTATAGTAAATCATTTATAA
1 TAGTAAATCATTGATAATTTAATAATAAATCA-TTA---ATAATT-AATAATAAATCATTTATAA
*
26638243 CTTCA
61 CTTAA
* * * * * * * *
26638248 TAGAAAATTAGTT-ATAACTTT-ATAATAAATTATCAATAACTTAGTAGTAAATTATTCATAACT
1 TAGTAAATCA-TTGATAA-TTTAATAATAAATCATTAATAA-TTAATAATAAATCATTTATAACT
26638311 TAA
63 TAA
* *
26638314 TAGTAAATCATTGATAATTTAATAATAAATCATTAATAATATAATAATAAATTAGTTATAA
1 TAGTAAATCATTGATAATTTAATAATAAATCATTAATAAT-TAATAATAAATCATTTATAA
26638375 TAATATATCA
Statistics
Matches: 150, Mismatches: 34, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
64 9 0.06
65 6 0.04
66 82 0.55
67 4 0.03
69 3 0.02
70 42 0.28
71 4 0.03
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (65 bp):
TAGTAAATCATTGATAATTTAATAATAAATCATTAATAATTAATAATAAATCATTTATAACTTAA
Found at i:26638561 original size:22 final size:22
Alignment explanation
Indices: 26638513--26638561 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
26638503 GTAAAGTATG
* *
26638513 GATAACTTAATAATAAACTATT
1 GATATCTTAATAATAAACTAGT
* * *
26638535 CATATCTTAATAGTAAATTAGT
1 GATATCTTAATAATAAACTAGT
26638557 GATAT
1 GATAT
26638562 AATTTAGTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (22 bp):
GATATCTTAATAATAAACTAGT
Found at i:26644556 original size:139 final size:139
Alignment explanation
Indices: 26644306--26644584 Score: 504
Period size: 139 Copynumber: 2.0 Consensus size: 139
26644296 TGGTATATCG
* *
26644306 AAGGTTGGTCGTGTCAATCAACTCCATGTGCTTGAACGCCGATATTAAAAGGTTCGACTTGGATG
1 AAGGTTGGTCATGTCAATCAACTCCATGTGCTTGAACGCCGATATTAAAAGGTTCAACTTGGATG
*
26644371 CAATGAGATAATATACAAAAATGGCTAAAATGGAACACCCAAGTAGGTGATGTGTTGAGTCAATC
66 CAATGAGATAATATACAAAAATGGCTAAAATGAAACACCCAAGTAGGTGATGTGTTGAGTCAATC
*
26644436 TAGAATGCA
131 TAGAAAGCA
*
26644445 AAGGTTGGTCATGTCCATCAACTCCATGTGCTTGAACGCCGATATTAAAAGGTTCAACTTGGATG
1 AAGGTTGGTCATGTCAATCAACTCCATGTGCTTGAACGCCGATATTAAAAGGTTCAACTTGGATG
*
26644510 CAATGAGATAATATGCAAAAATGGCTAAAATGAAACACCCAAGTAGGTGATGTGTTGAGTCAATC
66 CAATGAGATAATATACAAAAATGGCTAAAATGAAACACCCAAGTAGGTGATGTGTTGAGTCAATC
26644575 TAGAAAGCA
131 TAGAAAGCA
26644584 A
1 A
26644585 GCTTGAGGGA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 134 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (139 bp):
AAGGTTGGTCATGTCAATCAACTCCATGTGCTTGAACGCCGATATTAAAAGGTTCAACTTGGATG
CAATGAGATAATATACAAAAATGGCTAAAATGAAACACCCAAGTAGGTGATGTGTTGAGTCAATC
TAGAAAGCA
Found at i:26645441 original size:61 final size:61
Alignment explanation
Indices: 26645368--26645554 Score: 286
Period size: 61 Copynumber: 3.1 Consensus size: 61
26645358 ACTAAGACAA
* * * *
26645368 CCTAGGTGGCAAGGTTGAGTGCTGTGGCCTGGCTCAAAAGCGCATTAGAGATGTAAGGTTG
1 CCTAGGTGGCAAGGTTGAATGCTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTG
* *
26645429 CCTAGGTGGCAAGGTTGAATGCTGTGGCCTGGCCCAAAAGCACGCTAAAGATGTAAGG-TG
1 CCTAGGTGGCAAGGTTGAATGCTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTG
* * *
26645489 TCTAGGTGGCAAGGTTAAATACTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTG
1 CCTAGGTGGCAAGGTTGAATGCTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTG
26645550 CCTAG
1 CCTAG
26645555 TTCAAAGGAG
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 55 0.49
61 58 0.51
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (61 bp):
CCTAGGTGGCAAGGTTGAATGCTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTG
Found at i:26645788 original size:167 final size:167
Alignment explanation
Indices: 26645499--26645833 Score: 548
Period size: 167 Copynumber: 2.0 Consensus size: 167
26645489 TCTAGGTGGC
*
26645499 AAGGTTAAATACTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTGCCTAGTTCAAAGGA
1 AAGGTTAAATACTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTACCTAGTTCAAAGGA
*
26645564 GGTATTGATAAGACTTACTCGCATAGGAGAGCCAAGATGAGAATTGATCAAAACTTACAAGTGAA
66 GGTATTGATAAGACTTACTCGCATAGGAGAACCAAGATGAGAATTGATCAAAACTTACAAGTGAA
26645629 CGGGGGAAATTGTTGGGATATAGTTCACATGTGAGTAA
131 C-GGGGAAATTGTTGGGATATAGTTCACATGTGAGTAA
**
26645667 AAGGTTAAATGTTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAA-GTTACCTAGTTCAAAGGA
1 AAGGTTAAATACTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTACCTAGTTCAAAGGA
* * * *
26645731 GGTGTTGATAGGACTTACTTGCAT-GGAAGAACCAAGATGAGAATTGATCAGAACTTACAAGTGA
66 GGTATTGATAAGACTTACTCGCATAGG-AGAACCAAGATGAGAATTGATCAAAACTTACAAGTGA
* *
26645795 ACGGGGAGATTGTTGGGATATGGTTCACATGTGAGTAA
130 ACGGGGAAATTGTTGGGATATAGTTCACATGTGAGTAA
26645833 A
1 A
26645834 GAATCTCACA
Statistics
Matches: 156, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
166 37 0.24
167 75 0.48
168 44 0.28
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.24
Consensus pattern (167 bp):
AAGGTTAAATACTGTGGCCTGGCCCAAAAGCACACTAGAGATGTAAGGTTACCTAGTTCAAAGGA
GGTATTGATAAGACTTACTCGCATAGGAGAACCAAGATGAGAATTGATCAAAACTTACAAGTGAA
CGGGGAAATTGTTGGGATATAGTTCACATGTGAGTAA
Found at i:26646755 original size:150 final size:150
Alignment explanation
Indices: 26646484--26646785 Score: 451
Period size: 150 Copynumber: 2.0 Consensus size: 150
26646474 AAAGAATCTT
* * * *
26646484 ACATCATTAGAAAATCTGAATGAGATATCCTATATATGTATGAAGGACCAAAAAACCTAATAGCT
1 ACATCATTAGAAAATCTGAATGACATACCCTATATATGCATGAAGGACCAAAAAACCTAATAACT
* * * *
26646549 TAAGCTTTTGGGTTCAAGTAGTGTCCAACATGTATGTATAGGCTCTCTAGTGTGCTCCCATATGC
66 TAAGCTTTTGGGCTCAAGTAATATCCAACATGTATGTATAGGCTCTCTAGTGTGCTCCCATAGGC
*
26646614 TCCAAACGTATGCATGAAGG
131 TCCAAACATATGCATGAAGG
* * *
26646634 ACATCATTAGAAAATCTGAATGACATGCCCTTTATATGCATGAAGGACCCAAAAACCTAATAACT
1 ACATCATTAGAAAATCTGAATGACATACCCTATATATGCATGAAGGACCAAAAAACCTAATAACT
** *
26646699 TAAGCTTTTGGGCTCAAGTAATATCCAATTTGTATGTATAGGCTCTCTAGTGTGCTCTCATAGGC
66 TAAGCTTTTGGGCTCAAGTAATATCCAACATGTATGTATAGGCTCTCTAGTGTGCTCCCATAGGC
* *
26646764 TCCAAATATATGTATGAAGG
131 TCCAAACATATGCATGAAGG
26646784 AC
1 AC
26646786 CCAAGAACCT
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
150 135 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (150 bp):
ACATCATTAGAAAATCTGAATGACATACCCTATATATGCATGAAGGACCAAAAAACCTAATAACT
TAAGCTTTTGGGCTCAAGTAATATCCAACATGTATGTATAGGCTCTCTAGTGTGCTCCCATAGGC
TCCAAACATATGCATGAAGG
Found at i:26646849 original size:104 final size:104
Alignment explanation
Indices: 26646666--26646872 Score: 315
Period size: 104 Copynumber: 2.0 Consensus size: 104
26646656 ACATGCCCTT
**
26646666 TATATGCATGAAGGACCCAAAAACCTAATAACTTAAGCTTTTGGGCTCAAGTAATATCCAATTTG
1 TATATGCATGAAGGACCCAAAAACCTAATAACTTAAGCTTTTGGGCTCAAGTAATATCCAACATG
* * * *
26646731 TATGTATAGGCTCTCTAGTGTGCTCTCATAGGCTCCAAA
66 TATATATAGCCTCTCTAATGTGCTCCCATAGGCTCCAAA
* * * *
26646770 TATATGTATGAAGGACCCAAGAACCTAATAACTTAAGCTTTTGGGCTCAAGTAATGTTCAACATG
1 TATATGCATGAAGGACCCAAAAACCTAATAACTTAAGCTTTTGGGCTCAAGTAATATCCAACATG
*
26646835 TATATATAGCCTCTCTAATGTGCTCCCATAGGTTCCAA
66 TATATATAGCCTCTCTAATGTGCTCCCATAGGCTCCAA
26646873 GTGTAGTTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 92 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (104 bp):
TATATGCATGAAGGACCCAAAAACCTAATAACTTAAGCTTTTGGGCTCAAGTAATATCCAACATG
TATATATAGCCTCTCTAATGTGCTCCCATAGGCTCCAAA
Found at i:26659626 original size:47 final size:43
Alignment explanation
Indices: 26659560--26659706 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 43
26659550 ATTTTACCAA
26659560 TTTTATTTTTAAATTTTTCACCATTTAGGTCAATTTAGAATTTTAT
1 TTTTATTTTTAAA-TTTTCACCATTTAGGTCAATTTAGAA-TTT-T
* * * *
26659606 TTTTGATTTCTAAACTTTTCACCATTTTGATCTATTTAGAATTTT
1 TTTT-ATTTTTAAA-TTTTCACCATTTAGGTCAATTTAGAATTTT
* *
26659651 TTTAAATTTTTAAATTTTGCACCATTTAGGAT-AACTTAGAAATTTT
1 TTT-TATTTTTAAATTTT-CACCATTTAGG-TCAATTTAG-AATTTT
* *
26659697 CTTTCTTTTT
1 TTTTATTTTT
26659707 TATCTTTGCA
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
44 4 0.05
45 31 0.38
46 16 0.20
47 31 0.38
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.55
Consensus pattern (43 bp):
TTTTATTTTTAAATTTTCACCATTTAGGTCAATTTAGAATTTT
Found at i:26660419 original size:81 final size:79
Alignment explanation
Indices: 26660252--26660501 Score: 344
Period size: 81 Copynumber: 3.1 Consensus size: 79
26660242 TTTATTCACA
* * * *
26660252 AAAAAATTATTTAGTTTTATATATTTTTCATTTTTTCTAAAATTTAATCACGCAAAAATGCATAA
1 AAAAAATTATTTTGTTTTATAT-TTTTT-ATTTTTTCTAAAATTTAATCATGCAAAAATAC-TTA
26660317 AAAATAAATAAATAAAAT
63 AAAATAAATAAAT-AAAT
*
26660335 AAAAAATTTATTTTGTTTTATATTTTTTA-TTTTTCTAAAAATTTAATCATGAAAAAATACTTAA
1 AAAAAA-TTATTTTGTTTTATATTTTTTATTTTTTCT-AAAATTTAATCATGCAAAAATACTTAA
26660399 AAATAAATAAATAAAGT
64 AAATAAATAAATAAA-T
26660416 AAAATAATTATTTTG-TTT-TATTTTTTATTTTTTCTAAAATTTAATCATGCAAAAATACTTAAA
1 AAAA-AATTATTTTGTTTTATATTTTTTATTTTTTCTAAAATTTAATCATGCAAAAATACTT-AA
26660479 AAATAAATAAATAATAT
64 AAATAAATAAATAA-AT
26660496 AAAAAA
1 AAAAAA
26660502 AGGCCAAAAC
Statistics
Matches: 154, Mismatches: 6, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
79 35 0.23
80 34 0.22
81 36 0.23
82 23 0.15
83 11 0.07
84 15 0.10
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (79 bp):
AAAAAATTATTTTGTTTTATATTTTTTATTTTTTCTAAAATTTAATCATGCAAAAATACTTAAAA
ATAAATAAATAAAT
Done.