Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, 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: 2211860
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:1772 original size:3 final size:3
Alignment explanation
Indices: 1764--1811 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
1754 TCTTGTAAAG
1764 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1811 A
1 A
1812 TAAATTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2222 original size:20 final size:20
Alignment explanation
Indices: 2197--2253 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
2187 CTGCCCTGTG
2197 TCTCTCCCTCCATACACACA
1 TCTCTCCCTCCATACACACA
*
2217 TCTCTCCCTCCATACAGACA
1 TCTCTCCCTCCATACACACA
* *
2237 TCTCCCCCTACATACAC
1 TCTCTCCCTCCATACAC
2254 CGGTCTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.49, G:0.02, T:0.25
Consensus pattern (20 bp):
TCTCTCCCTCCATACACACA
Found at i:3922 original size:23 final size:24
Alignment explanation
Indices: 3866--3919 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
3856 ATAATATCAA
*
3866 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
*
3890 AAAAGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
3913 ACAAAGA
1 A-AAAGA
3920 CAACTTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:13465 original size:23 final size:23
Alignment explanation
Indices: 13411--13457 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
13401 GTGATGTGGC
*
13411 ACCCAATCAATAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
13434 ACCCAATCAACAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
13457 A
1 A
13458 TTCGATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
ACCCAATCAACAGCTTCTAGAAG
Found at i:15037 original size:19 final size:19
Alignment explanation
Indices: 15015--15093 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
15005 ACAAACTCCA
15015 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
* * *
15034 CACTACAT-AATCAG-CTATA
1 CACTACGTAAAACAGAC--TC
* *
15053 AACTA-GGA-AACAGACTC
1 CACTACGTAAAACAGACTC
15070 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
15089 CACTA
1 CACTA
15094 TATAATCTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (19 bp):
CACTACGTAAAACAGACTC
Found at i:15099 original size:55 final size:57
Alignment explanation
Indices: 14989--15100 Score: 183
Period size: 55 Copynumber: 2.0 Consensus size: 57
14979 AACAGAAGCA
14989 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
* * *
15046 AGCTATAAACTAGGAAACAGACT-C-CACTACGTAAAACAGACTCCACTATATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
15101 TCCTAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 30 0.58
56 1 0.02
57 21 0.40
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (57 bp):
AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
Found at i:16900 original size:3 final size:3
Alignment explanation
Indices: 16892--16947 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
16882 CTTGTAAAAG
16892 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
16939 AAT TAT AAT
1 AAT AAT AAT
16948 TTAATTCATT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:17354 original size:20 final size:20
Alignment explanation
Indices: 17329--17387 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
17319 CTGCCCTGTG
17329 TCTCTCCCTCCATACACACA
1 TCTCTCCCTCCATACACACA
*
17349 TCTCTCCCTCCATACAGACA
1 TCTCTCCCTCCATACACACA
* *
17369 TCTCCCCCTACATACACAC
1 TCTCTCCCTCCATACACAC
17388 CGGTCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.02, T:0.24
Consensus pattern (20 bp):
TCTCTCCCTCCATACACACA
Found at i:19086 original size:23 final size:24
Alignment explanation
Indices: 19030--19083 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
19020 ATAATATCAA
*
19030 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
*
19054 AAAAGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
19077 ACAAAGA
1 A-AAAGA
19084 CAACTTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:28332 original size:23 final size:23
Alignment explanation
Indices: 28278--28324 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
28268 GTGATGTGGC
*
28278 ACCCAATCAATAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
28301 ACCCAATCAACAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
28324 A
1 A
28325 TTCGATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
ACCCAATCAACAGCTTCTAGAAG
Found at i:29968 original size:19 final size:19
Alignment explanation
Indices: 29946--30024 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
29936 ACAAACTCCA
29946 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
* * *
29965 CACTACAT-AATCAG-CTATA
1 CACTACGTAAAACAGAC--TC
* *
29984 AACTA-GGA-AACAGACTC
1 CACTACGTAAAACAGACTC
30001 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
30020 CACTA
1 CACTA
30025 TATAATCTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (19 bp):
CACTACGTAAAACAGACTC
Found at i:30030 original size:55 final size:57
Alignment explanation
Indices: 29920--30031 Score: 183
Period size: 55 Copynumber: 2.0 Consensus size: 57
29910 AACAGAAGCA
29920 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
* * *
29977 AGCTATAAACTAGGAAACAGACT-C-CACTACGTAAAACAGACTCCACTATATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
30032 TCCTAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 30 0.58
56 1 0.02
57 21 0.40
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (57 bp):
AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
Found at i:31791 original size:60 final size:60
Alignment explanation
Indices: 31689--31854 Score: 163
Period size: 60 Copynumber: 2.8 Consensus size: 60
31679 ATTATAACTA
* * * * *
31689 TCATTTTAAATTGGTCCTTAAACTTTTAAATATTTTATTTTCATCCCTAAACTATGACTT
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGACTT
* * * * **
31749 TCATTCTAAATTAGTCTTTAACCTTTTGAACATTCTAATTTCATCCCTAAACTATAACCC
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGACTT
* ** * * *
31809 TCTTTCTAAATT-GATCCCCAAACTCTTGAATATTCTAATTTCATCC
1 TCATTCTAAATTAG-TCCTTAAACTTTTAAACATTCTAATTTCATCC
31855 TCAAATTCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 1 0.01
60 86 0.99
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.43
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGACTT
Found at i:34476 original size:3 final size:3
Alignment explanation
Indices: 34468--34520 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
34458 CTTGTAAAAG
34468 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
34515 TAT AAT
1 AAT AAT
34521 TTAATTCATT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:34928 original size:20 final size:20
Alignment explanation
Indices: 34903--34961 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
34893 CTGCCCTGTG
34903 TCTCTCCCTCCATACACACA
1 TCTCTCCCTCCATACACACA
*
34923 TCTCTCCCTCCATACAGACA
1 TCTCTCCCTCCATACACACA
* *
34943 TCTCCCCCTACATACACAC
1 TCTCTCCCTCCATACACAC
34962 CGGTCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.02, T:0.24
Consensus pattern (20 bp):
TCTCTCCCTCCATACACACA
Found at i:36395 original size:2 final size:2
Alignment explanation
Indices: 36384--36437 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
36374 AATGAATTCT
36384 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36425 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
36438 TCACAACGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36690 original size:23 final size:24
Alignment explanation
Indices: 36634--36687 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
36624 ATAATATCAA
*
36634 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
*
36658 AAAAGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
36681 ACAAAGA
1 A-AAAGA
36688 CAACTTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:45922 original size:23 final size:23
Alignment explanation
Indices: 45868--45914 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
45858 GTGATGTGGC
*
45868 ACCCAATCAATAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
45891 ACCCAATCAACAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
45914 A
1 A
45915 TTCGATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
ACCCAATCAACAGCTTCTAGAAG
Found at i:47496 original size:19 final size:19
Alignment explanation
Indices: 47474--47552 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
47464 ACAAACTCCA
47474 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
* * *
47493 CACTACAT-AATCAG-CTATA
1 CACTACGTAAAACAGAC--TC
* *
47512 AACTA-GGA-AACAGACTC
1 CACTACGTAAAACAGACTC
47529 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
47548 CACTA
1 CACTA
47553 TATAATCTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (19 bp):
CACTACGTAAAACAGACTC
Found at i:47558 original size:55 final size:57
Alignment explanation
Indices: 47448--47559 Score: 183
Period size: 55 Copynumber: 2.0 Consensus size: 57
47438 AACAGAAGCA
47448 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
* * *
47505 AGCTATAAACTAGGAAACAGACT-C-CACTACGTAAAACAGACTCCACTATATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
47560 TCCTAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 30 0.58
56 1 0.02
57 21 0.40
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (57 bp):
AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
Found at i:49357 original size:3 final size:3
Alignment explanation
Indices: 49349--49413 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
49339 CTTGTAAAAG
49349 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
49397 AAT AAT AA- AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT
49414 TTAATTCATT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:49821 original size:20 final size:20
Alignment explanation
Indices: 49796--49854 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
49786 CTGCCCTGTG
49796 TCTCTCCCTCCATACACACA
1 TCTCTCCCTCCATACACACA
*
49816 TCTCTCCCTCCATACAGACA
1 TCTCTCCCTCCATACACACA
* *
49836 TCTCCCCCTACATACACAC
1 TCTCTCCCTCCATACACAC
49855 CGGTCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.02, T:0.24
Consensus pattern (20 bp):
TCTCTCCCTCCATACACACA
Found at i:51552 original size:23 final size:24
Alignment explanation
Indices: 51496--51549 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
51486 ATAATATCAA
*
51496 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
*
51520 AAAAGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
51543 ACAAAGA
1 A-AAAGA
51550 CAACTTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:61116 original size:23 final size:23
Alignment explanation
Indices: 61062--61108 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
61052 GTGATGTGGC
*
61062 ACCCAATCAATAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
61085 ACCCAATCAACAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
61108 A
1 A
61109 TTCGATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
ACCCAATCAACAGCTTCTAGAAG
Found at i:62691 original size:19 final size:19
Alignment explanation
Indices: 62669--62747 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
62659 ACAAACTCCA
62669 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
* * *
62688 CACTACAT-AATCAG-CTATA
1 CACTACGTAAAACAGAC--TC
* *
62707 AACTA-GGA-AACAGACTC
1 CACTACGTAAAACAGACTC
62724 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
62743 CACTA
1 CACTA
62748 TATAATCTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (19 bp):
CACTACGTAAAACAGACTC
Found at i:62753 original size:55 final size:57
Alignment explanation
Indices: 62643--62754 Score: 183
Period size: 55 Copynumber: 2.0 Consensus size: 57
62633 AACAGAAGCA
62643 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
* * *
62700 AGCTATAAACTAGGAAACAGACT-C-CACTACGTAAAACAGACTCCACTATATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
62755 TCCTAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 30 0.58
56 1 0.02
57 21 0.40
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (57 bp):
AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
Found at i:64554 original size:3 final size:3
Alignment explanation
Indices: 64546--64602 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
64536 CTTGTAAAAG
64546 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
64592 AA- AAT TAT AAT
1 AAT AAT AAT AAT
64603 TTAATTCATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:65010 original size:20 final size:20
Alignment explanation
Indices: 64985--65043 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
64975 CTGCCCTGTG
64985 TCTCTCCCTCCATACACACA
1 TCTCTCCCTCCATACACACA
*
65005 TCTCTCCCTCCATACAGACA
1 TCTCTCCCTCCATACACACA
* *
65025 TCTCCCCCTACATACACAC
1 TCTCTCCCTCCATACACAC
65044 CGGTCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.02, T:0.24
Consensus pattern (20 bp):
TCTCTCCCTCCATACACACA
Found at i:66747 original size:23 final size:24
Alignment explanation
Indices: 66691--66744 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
66681 ATAATATCAA
*
66691 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
*
66715 AAAAGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
66738 ACAAAGA
1 A-AAAGA
66745 CAACTTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:75994 original size:23 final size:23
Alignment explanation
Indices: 75940--75986 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
75930 GTGATGTGGC
*
75940 ACCCAATCAATAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
75963 ACCCAATCAACAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
75986 A
1 A
75987 TTCGATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
ACCCAATCAACAGCTTCTAGAAG
Found at i:77627 original size:19 final size:19
Alignment explanation
Indices: 77605--77683 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
77595 ACAAACTCCA
77605 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
* * *
77624 CACTACAT-AATCAG-CTATA
1 CACTACGTAAAACAGAC--TC
* *
77643 AACTA-GGA-AACAGACTC
1 CACTACGTAAAACAGACTC
77660 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
77679 CACTA
1 CACTA
77684 TATAATCTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (19 bp):
CACTACGTAAAACAGACTC
Found at i:77689 original size:55 final size:57
Alignment explanation
Indices: 77579--77690 Score: 183
Period size: 55 Copynumber: 2.0 Consensus size: 57
77569 AACAGAAGCA
77579 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
* * *
77636 AGCTATAAACTAGGAAACAGACT-C-CACTACGTAAAACAGACTCCACTATATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
77691 TCCTAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 30 0.58
56 1 0.02
57 21 0.40
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (57 bp):
AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
Found at i:79455 original size:60 final size:59
Alignment explanation
Indices: 79343--79456 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
79333 ATTATAACTA
* * * *
79343 TCATTTTAAATTGGTCCTTAAACTTTTAAATATTTATTTTCATCCCTAAACTATGACTT
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATTTAATTTCATCCCTAAACTATGACTT
* * *
79402 TCATTCTAAATTAGTCTTTAACCTTTTGAACATTCTAATTTCATCCCTAAACTAT
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATT-TAATTTCATCCCTAAACTAT
79457 AACCCTCTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 28 0.60
60 19 0.40
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCTTAAACTTTTAAACATTTAATTTCATCCCTAAACTATGACTT
Found at i:79469 original size:60 final size:59
Alignment explanation
Indices: 79343--79473 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
79333 ATTATAACTA
* * * * * **
79343 TCATTTTAAATTGGTCCTTAAACTTTTAAATATTTATTTTCATCCCTAAACTATGACTT
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATTTAATTTCATCCCTAAACTATAACCC
* * *
79402 TCATTCTAAATTAGTCTTTAACCTTTTGAACATTCTAATTTCATCCCTAAACTATAACCC
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATT-TAATTTCATCCCTAAACTATAACCC
*
79462 TCTTTCTAAATT
1 TCATTCTAAATT
79474 GATCCCCAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
59 28 0.47
60 32 0.53
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.45
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCTTAAACTTTTAAACATTTAATTTCATCCCTAAACTATAACCC
Found at i:82118 original size:3 final size:3
Alignment explanation
Indices: 82110--82169 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
82100 CTTGTAAAAG
82110 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
*
82156 AAT AA- AAT TAT AAT
1 AAT AAT AAT AAT AAT
82170 TTAATTCATT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:82580 original size:20 final size:19
Alignment explanation
Indices: 82551--82608 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
82541 CTGCCCTGTG
82551 TCTCCCCTCCATACACACA
1 TCTCCCCTCCATACACACA
*
82570 TCTCTCCCTCCATACAGACA
1 TCTC-CCCTCCATACACACA
*
82590 TCTCCCCCTACATACACAC
1 TCT-CCCCTCCATACACAC
82609 CGGTCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.12
20 29 0.85
21 1 0.03
ACGTcount: A:0.26, C:0.50, G:0.02, T:0.22
Consensus pattern (19 bp):
TCTCCCCTCCATACACACA
Found at i:84041 original size:2 final size:2
Alignment explanation
Indices: 84030--84061 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
84020 AATGAATTCT
84030 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
84062 CACAACGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84298 original size:23 final size:23
Alignment explanation
Indices: 84256--84302 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
84246 TAAAATCAAA
84256 AAATAACAATATTTCATTTAATC
1 AAATAACAATATTTCATTTAATC
*
84279 AAATGAACAATATTT-TTTTAATC
1 AAAT-AACAATATTTCATTTAATC
84302 A
1 A
84303 CAAAGACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATAACAATATTTCATTTAATC
Found at i:84311 original size:23 final size:24
Alignment explanation
Indices: 84255--84308 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
84245 ATAAAATCAA
*
84255 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
* *
84279 AAATGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
84302 ACAAAGA
1 A-AAAGA
84309 CAACTTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:87084 original size:14 final size:15
Alignment explanation
Indices: 87065--87095 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
87055 AAATTTGAAG
87065 CATCATATAT-TCAT
1 CATCATATATATCAT
87079 CATCATATATATCAT
1 CATCATATATATCAT
87094 CA
1 CA
87096 AAGGGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (15 bp):
CATCATATATATCAT
Found at i:94965 original size:23 final size:24
Alignment explanation
Indices: 94939--95028 Score: 103
Period size: 23 Copynumber: 3.8 Consensus size: 24
94929 TCAAATTTGA
*
94939 ATTCTGTTATGATA-TTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
94962 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* * *
94985 ATTCTGATCTGATACATGACCTGA
1 ATTCTGATATGATACTTGACCTGG
*
95009 ATTATGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
95029 TTGAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
23 34 0.60
24 23 0.40
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:95016 original size:24 final size:24
Alignment explanation
Indices: 94948--95038 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 24
94938 AATTCTGTTA
* *
94948 TGATA-TTGACCTGGATTCTGATC
1 TGATACTTGACCTGAATTATGATC
* * *
94971 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACCTGAATTATGATC
* *
94994 TGATACATGACCTGAATTATGATA
1 TGATACTTGACCTGAATTATGATC
*
95018 TGATACTTGACTTGAATTATG
1 TGATACTTGACCTGAATTATG
95039 TTTTATTGGG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
23 27 0.46
24 32 0.54
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (24 bp):
TGATACTTGACCTGAATTATGATC
Found at i:95115 original size:35 final size:35
Alignment explanation
Indices: 95068--95142 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
95058 TGGAGGAAGA
* *
95068 TTACTTGGAGGCTCCTTGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
95103 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
95138 TTACT
1 TTACT
95143 GTTCGTGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.09, C:0.28, G:0.29, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:97179 original size:13 final size:13
Alignment explanation
Indices: 97161--97190 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
97151 GTCACAATCC
97161 GACCCGACCCGTT
1 GACCCGACCCGTT
97174 GACCCGACCCGTT
1 GACCCGACCCGTT
97187 GACC
1 GACC
97191 AGCCCCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:97218 original size:16 final size:15
Alignment explanation
Indices: 97193--97225 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
97183 CGTTGACCAG
97193 CCCCTTGACCGTTGA
1 CCCCTTGACCGTTGA
97208 CCCCGTTGACCGTTGA
1 CCCC-TTGACCGTTGA
97224 CC
1 CC
97226 GGAATTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.12, C:0.42, G:0.21, T:0.24
Consensus pattern (15 bp):
CCCCTTGACCGTTGA
Found at i:99778 original size:23 final size:24
Alignment explanation
Indices: 99752--99841 Score: 103
Period size: 23 Copynumber: 3.8 Consensus size: 24
99742 TCAAATTTGA
*
99752 ATTCTGTTATGATA-TTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
99775 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* * *
99798 ATTCTGATCTGATACATGACCTGA
1 ATTCTGATATGATACTTGACCTGG
*
99822 ATTATGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
99842 TTGAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
23 34 0.60
24 23 0.40
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:99829 original size:24 final size:24
Alignment explanation
Indices: 99761--99851 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 24
99751 AATTCTGTTA
* *
99761 TGATA-TTGACCTGGATTCTGATC
1 TGATACTTGACCTGAATTATGATC
* * *
99784 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACCTGAATTATGATC
* *
99807 TGATACATGACCTGAATTATGATA
1 TGATACTTGACCTGAATTATGATC
*
99831 TGATACTTGACTTGAATTATG
1 TGATACTTGACCTGAATTATG
99852 TTTTATTGGG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
23 27 0.46
24 32 0.54
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (24 bp):
TGATACTTGACCTGAATTATGATC
Found at i:99928 original size:35 final size:35
Alignment explanation
Indices: 99881--99955 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
99871 TGGAGGAAGA
* *
99881 TTACTTGGAGGCTCCTTGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
99916 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
99951 TTACT
1 TTACT
99956 GTTCGTGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.09, C:0.28, G:0.29, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:102903 original size:23 final size:23
Alignment explanation
Indices: 102849--102895 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
102839 GTGATGTGGC
*
102849 ACCCAATCAATAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
102872 ACCCAATCAACAGCTTCTAGAAG
1 ACCCAATCAACAGCTTCTAGAAG
102895 A
1 A
102896 TTCGATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
ACCCAATCAACAGCTTCTAGAAG
Found at i:104478 original size:19 final size:19
Alignment explanation
Indices: 104456--104534 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
104446 ACAAACTCCA
104456 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
* * *
104475 CACTACAT-AATCAG-CTATA
1 CACTACGTAAAACAGAC--TC
* *
104494 AACTA-GGA-AACAGACTC
1 CACTACGTAAAACAGACTC
104511 CACTACGTAAAACAGACTC
1 CACTACGTAAAACAGACTC
104530 CACTA
1 CACTA
104535 TATAATCTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (19 bp):
CACTACGTAAAACAGACTC
Found at i:104540 original size:55 final size:57
Alignment explanation
Indices: 104430--104541 Score: 183
Period size: 55 Copynumber: 2.0 Consensus size: 57
104420 AACAGAAGCA
104430 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
* * *
104487 AGCTATAAACTAGGAAACAGACT-C-CACTACGTAAAACAGACTCCACTATATAATC
1 AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
104542 TCCTAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 30 0.58
56 1 0.02
57 21 0.40
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (57 bp):
AGCTAGAAACTAGGAAACAAACTCCACACTACGTAAAACAGACTCCACTACATAATC
Found at i:106301 original size:60 final size:60
Alignment explanation
Indices: 106199--106364 Score: 163
Period size: 60 Copynumber: 2.8 Consensus size: 60
106189 ATTATAACTA
* * * * *
106199 TCATTTTAAATTGGTCCTTAAACTTTTAAATATTTTATTTTCATCCCTAAACTATGACTT
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGACTT
* * * * **
106259 TCATTCTAAATTAGTCTTTAACCTTTTGAACATTCTAATTTCATCCCTAAACTATAACCC
1 TCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGACTT
* ** * * *
106319 TCTTTCTAAATT-GATCCCCAAACTCTTGAATATTCTAATTTCATCC
1 TCATTCTAAATTAG-TCCTTAAACTTTTAAACATTCTAATTTCATCC
106365 TCAAATTCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 1 0.01
60 86 0.99
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.43
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACTATGACTT
Found at i:108988 original size:3 final size:3
Alignment explanation
Indices: 108980--109014 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
108970 CTTGTAAAAG
*
108980 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
109015 TTAATTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:109423 original size:20 final size:20
Alignment explanation
Indices: 109395--109453 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
109385 CTGCCCTGTG
*
109395 TCTCTCCCTCCATACACACA
1 TCTCCCCCTCCATACACACA
*
109415 TCTCCCCCTCCATACAGACA
1 TCTCCCCCTCCATACACACA
*
109435 TCTCCCCCTACATACACAC
1 TCTCCCCCTCCATACACAC
109454 CGGTCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.51, G:0.02, T:0.22
Consensus pattern (20 bp):
TCTCCCCCTCCATACACACA
Found at i:110100 original size:20 final size:21
Alignment explanation
Indices: 110075--110121 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
110065 TTTATATTTC
110075 TATTATT-ATAATTTATTTAT
1 TATTATTAATAATTTATTTAT
*
110095 TATTATTAATAATTTCTTTAT
1 TATTATTAATAATTTATTTAT
110116 T-TTATT
1 TATTATT
110122 TTTTGTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTATTAATAATTTATTTAT
Found at i:115046 original size:106 final size:106
Alignment explanation
Indices: 114860--117188 Score: 4114
Period size: 106 Copynumber: 22.0 Consensus size: 106
114850 TACAGCCTTT
114860 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
114925 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* *
114966 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
115031 CGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
115072 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
115137 CGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
115178 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
115243 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAA-TTTC
*
115285 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
115350 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
115391 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
115456 CGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* * *
115497 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCAGGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
115562 CGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCGATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* * * *
115602 AGAGTCAATTTCAATTTCACAACGAAAGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
115667 CGAAGGGACTGCTGGTTGTCAACAAAC-ATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
115707 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
115772 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
115813 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
115878 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
115919 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
115984 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
116025 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
116090 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
116131 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
116196 CGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
116237 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
116302 CGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCGATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* *
116342 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCTCGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
116407 CGAAGGGACTGCTGGTTGTTAACAAAC-ATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
116447 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
116512 CGAAGAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
116553 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
116618 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
116659 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
116724 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
116765 TGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
116830 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* **
116871 AGAGCCAATTTCAACTTCACAACGAAGGATGTTGGACTCCAGACAACGCAAGTTCAACTTTGCGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
116936 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* * *
116977 AGAGCCAATTTCAACTTCACAGCAAAGGGA-ATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 AGAGCCAATTTCAACTTCACAACGAA-GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
117041 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTC-CTAATTTC
65 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC-AATTTC
* * * * * * *
117083 AGAGTCAATTTCAACTTCATAGCAAAGGATATTGGACTCAAGACAATGAAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
117148 CGAAGGGACCGCTGGTTGTCAATAAACAACTT-TCAACTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
117188 A
1 A
117189 CGACGAAGGG
Statistics
Matches: 2137, Mismatches: 79, Indels: 15
0.96 0.04 0.01
Matches are distributed among these distances:
105 399 0.19
106 1630 0.76
107 108 0.05
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
Found at i:116375 original size:740 final size:740
Alignment explanation
Indices: 114860--117175 Score: 4249
Period size: 740 Copynumber: 3.1 Consensus size: 740
114850 TACAGCCTTT
*
114860 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
114925 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
* *
114990 AAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACA
130 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
115055 AACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
195 AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
115120 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
260 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCA
115185 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
325 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
115250 ACCGCTGGTTGTCAACAAACAACTTCTCAATTTTCTGAGCCAATTTCAACTTCACAACGAAGGAT
390 ACCGCTGGTTGTCAACAAACAACTTCTCAA-TTTCTGAGCCAATTTCAACTTCACAACGAAGGAT
115315 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
454 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
115380 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
519 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
115445 CAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCA
584 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCA
* *
115510 ACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCAGGACGAAGGGACCGCT
649 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
115575 GGTTGTCAATAAACATTTCTCGATTTC
714 GGTTGTCAATAAACATTTCTCGATTTC
* * *
115602 AGAGTCAATTTCAATTTCACAACGAAAGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
115667 CGAAGGGACTGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
115732 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
115797 ACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
196 ACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
115862 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAA
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAA
115927 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
326 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
115992 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATAT
391 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATAT
116057 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
456 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
*
116122 CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCA
521 CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
*
116187 ACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAAC
586 ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAAC
116252 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
651 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
116317 TTGTCAATAAACATTTCTCGATTTC
716 TTGTCAATAAACATTTCTCGATTTC
*
116342 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCTCGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
116407 CGAAGGGACTGCTGGTTGTTAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
66 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
*
116472 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAACAA
131 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
116537 ACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
196 ACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
116602 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAA
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAA
116667 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
326 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
116732 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATAT
391 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATAT
116797 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
456 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
*
116862 CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATGTTGGACTCCAGACAACGCAAGTTCA
521 CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
** *
116927 ACTTTGCGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAAC
586 ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAAC
* * *
116992 TTCACAGCAAAGGGA-ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTG
651 TTCACAACGAA-GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
*
117056 GTTGTCAATAAACAATTTC-CTAATTTC
715 GTTGTCAATAAAC-ATTTCTC-GATTTC
* * * * * *
117083 AGAGTCAATTTCAACTTCATAGCAAAGGATATTGGACTCAAGACAATGAAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
117148 CGAAGGGACCGCTGGTTGTCAATAAACA
66 CGAAGGGACCGCTGGTTGTCAACAAACA
117176 ACTTTCAACT
Statistics
Matches: 1528, Mismatches: 43, Indels: 7
0.97 0.03 0.00
Matches are distributed among these distances:
740 1025 0.67
741 416 0.27
742 87 0.06
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (740 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA
AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA
ACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAA
TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
CCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATAT
TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
CTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGAGCCAATTTCAAC
TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
TTGTCAATAAACATTTCTCGATTTC
Found at i:117365 original size:36 final size:36
Alignment explanation
Indices: 117317--117422 Score: 169
Period size: 36 Copynumber: 2.9 Consensus size: 36
117307 CAAAACTAAG
* *
117317 TTTTG-CCTCTCTTGAGACGGTTTCTCTTGAAACAAA
1 TTTTGTCC-CTCTTGAGACAGTTTCCCTTGAAACAAA
117353 TTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACAAA
*
117389 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACA
117423 CCAATCTTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 64 0.97
37 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTTGTCCCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:117366 original size:21 final size:21
Alignment explanation
Indices: 117340--117403 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
117330 GAGACGGTTT
117340 CTCTTGAAACAAATTTTGTCC
1 CTCTTGAAACAAATTTTGTCC
* *
117361 CTCTTGAGAC--A-GTT-T-C
1 CTCTTGAAACAAATTTTGTCC
*
117377 C-CTTGAAACAAATTTTGTCT
1 CTCTTGAAACAAATTTTGTCC
117397 CTCTTGA
1 CTCTTGA
117404 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
15 7 0.22
16 2 0.06
17 2 0.06
18 4 0.12
19 2 0.06
20 1 0.03
21 14 0.44
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (21 bp):
CTCTTGAAACAAATTTTGTCC
Found at i:117879 original size:20 final size:21
Alignment explanation
Indices: 117854--117900 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
117844 TTTATATTTC
117854 TATTATT-ATAATTTATTTAT
1 TATTATTAATAATTTATTTAT
*
117874 TATTATTAATAATTTCTTTAT
1 TATTATTAATAATTTATTTAT
117895 T-TTATT
1 TATTATT
117901 TTTTGTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTATTAATAATTTATTTAT
Found at i:119379 original size:2 final size:2
Alignment explanation
Indices: 119372--119399 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
119362 CGGTTCCGAC
119372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119400 TCACAACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119637 original size:23 final size:23
Alignment explanation
Indices: 119595--119641 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
119585 TAATATCAAA
119595 AAATAACAATATTTCATTTAATC
1 AAATAACAATATTTCATTTAATC
*
119618 AAATGAACAATATTT-TTTTAATC
1 AAAT-AACAATATTTCATTTAATC
119641 A
1 A
119642 CAAAGACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATAACAATATTTCATTTAATC
Found at i:119650 original size:23 final size:24
Alignment explanation
Indices: 119594--119647 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
119584 ATAATATCAA
*
119594 AAAATAACAATATTTCATTTAATC
1 AAAAGAACAATATTTCATTTAATC
* *
119618 AAATGAACAATATTT-TTTTAATC
1 AAAAGAACAATATTTCATTTAATC
119641 ACAAAGA
1 A-AAAGA
119648 CAACTTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAAGAACAATATTTCATTTAATC
Found at i:122424 original size:14 final size:15
Alignment explanation
Indices: 122405--122435 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
122395 AAATTTGAAG
122405 CATCATATAT-TCAT
1 CATCATATATATCAT
122419 CATCATATATATCAT
1 CATCATATATATCAT
122434 CA
1 CA
122436 AAGGGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (15 bp):
CATCATATATATCAT
Found at i:124882 original size:30 final size:31
Alignment explanation
Indices: 124846--124921 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
124836 TATATGTGTG
124846 TTTAGTACATAAACTATCAATTTGT-TCCAT
1 TTTAGTACATAAACTATCAATTTGTATCCAT
* * * * * *
124876 TTTAGTACTTAAATTATTAGTTTTTATCCGT
1 TTTAGTACATAAACTATCAATTTGTATCCAT
*
124907 TTTAGTACCTAAACT
1 TTTAGTACATAAACT
124922 TTTAATTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 20 0.54
31 17 0.46
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.47
Consensus pattern (31 bp):
TTTAGTACATAAACTATCAATTTGTATCCAT
Found at i:124931 original size:31 final size:30
Alignment explanation
Indices: 124846--124933 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
124836 TATATGTGTG
* * *
124846 TTTAGTACATAAACTATCAATTTGTTCCAT
1 TTTAGTACATAAACTTTTAATTTTTTCCAT
* * *
124876 TTTAGTACTTAAA-TTATTAGTTTTTATCCGT
1 TTTAGTACATAAACTT-TTAATTTTT-TCCAT
*
124907 TTTAGTACCTAAACTTTTAATTTTTTC
1 TTTAGTACATAAACTTTTAATTTTTTC
124934 AAAACCATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 1 0.02
30 20 0.43
31 24 0.51
32 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (30 bp):
TTTAGTACATAAACTTTTAATTTTTTCCAT
Found at i:141699 original size:28 final size:29
Alignment explanation
Indices: 141645--141702 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
141635 ATTTTCACCT
141645 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
141674 AACTAAATTGATG-AAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
141702 A
1 A
141703 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:146374 original size:29 final size:29
Alignment explanation
Indices: 146332--146390 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
146322 ATTTTCACCT
146332 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
146361 AACTAAATTGATGTAAGTAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
146390 A
1 A
146391 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:154153 original size:31 final size:31
Alignment explanation
Indices: 154118--154182 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
154108 TAAATCGATA
154118 ACTAAAGATAT-TGATTTGTAATAAAATGGTC
1 ACTAAAGATATCT-ATTTGTAATAAAATGGTC
* *
154149 ACTAACGTTATCTATTTGTAATAAAATGGTC
1 ACTAAAGATATCTATTTGTAATAAAATGGTC
154180 ACT
1 ACT
154183 CTACTGTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (31 bp):
ACTAAAGATATCTATTTGTAATAAAATGGTC
Found at i:154985 original size:31 final size:30
Alignment explanation
Indices: 154947--155023 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
154937 GATGGTAGAA
*
154947 TGACCATTATGTTATAAATAGATAACATTAG
1 TGACCATT-TGTTACAAATAGATAACATTAG
* *
154978 TGACCATTTTGTTACAAATTGATAATATTAG
1 TGACCA-TTTGTTACAAATAGATAACATTAG
155009 TGACCGATTTGTTAC
1 TGACC-ATTTGTTAC
155024 TTTTGAAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 38 0.93
32 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (30 bp):
TGACCATTTGTTACAAATAGATAACATTAG
Found at i:159000 original size:45 final size:45
Alignment explanation
Indices: 158936--159029 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
158926 CCGAAGTGAT
158936 AAGATACTAGGATTTCGAATATAAAAGTATAAATGAAAAATACAA
1 AAGATACTAGGATTTCGAATATAAAAGTATAAATGAAAAATACAA
* *
158981 AAGATACTAGGATTTCGAATATAAAATTATCAATGAAAAATACAA
1 AAGATACTAGGATTTCGAATATAAAAGTATAAATGAAAAATACAA
159026 AAGA
1 AAGA
159030 AAAAGTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.24
Consensus pattern (45 bp):
AAGATACTAGGATTTCGAATATAAAAGTATAAATGAAAAATACAA
Found at i:160871 original size:60 final size:59
Alignment explanation
Indices: 160708--160878 Score: 163
Period size: 60 Copynumber: 2.9 Consensus size: 59
160698 TTATATATGA
* * * * *
160708 ATAATTT-AGGAT-AAAATTGAAATATTCAAAAAGTTTGGGACCAATTTAGGATGAAGATC
1 ATAATTTAAGGATGAAAA-TAAAATTTTC-AAAAGTTTGGGACTAATTTAGAATAAAGATC
* * * *
160767 ATAATTTAGGGATGAAAATGAAATTTTCAAAAATTTGAGCACTAATTTAGAATAATAG-TC
1 ATAATTTAAGGATGAAAATAAAATTTTCAAAAGTTTG-GGACTAATTTAGAATAA-AGATC
*
160827 ATAATTTAAGGATGAAACTAAAATGTTT-AAAAGTTTAGGGACTAATTT-GAAT
1 ATAATTTAAGGATGAAAATAAAAT-TTTCAAAAGTTT-GGGACTAATTTAGAAT
160879 TGAGGGTCTA
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
59 19 0.20
60 65 0.69
61 10 0.11
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (59 bp):
ATAATTTAAGGATGAAAATAAAATTTTCAAAAGTTTGGGACTAATTTAGAATAAAGATC
Found at i:161952 original size:17 final size:19
Alignment explanation
Indices: 161917--161953 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
161907 ATGGTTCGAA
*
161917 TACGAGATTTTTAATTTAT
1 TACGAGATTTTTAAGTTAT
161936 TACGA-ATTTTT-AGTTAT
1 TACGAGATTTTTAAGTTAT
161953 T
1 T
161954 TTATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (19 bp):
TACGAGATTTTTAAGTTAT
Found at i:164894 original size:18 final size:18
Alignment explanation
Indices: 164871--164907 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
164861 TAATAGTAAT
* *
164871 TTATATATCATTTTACCA
1 TTATATACCATTCTACCA
164889 TTATATACCATTCTACCA
1 TTATATACCATTCTACCA
164907 T
1 T
164908 ATTAAGTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATATACCATTCTACCA
Found at i:170748 original size:21 final size:20
Alignment explanation
Indices: 170703--170742 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
170693 AGAGAATAAA
*
170703 ATTTAAAAAAAACTTAATTT
1 ATTTAAAAAAAACTCAATTT
*
170723 ATTTATAAAAAACTCAATTT
1 ATTTAAAAAAAACTCAATTT
170743 TTTTTACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAAAAAACTCAATTT
Found at i:173685 original size:254 final size:254
Alignment explanation
Indices: 173360--173866 Score: 1005
Period size: 254 Copynumber: 2.0 Consensus size: 254
173350 TTAACCTATT
173360 ATAAGTCTCTTCTAGCATTTTAGGATGAGACCAAATGAATTAGTCCAAGGGAAACAATGTAACTT
1 ATAAGTCTCTTCTAGCATTTTAGGATGAGACCAAATGAATTAGTCCAAGGGAAACAATGTAACTT
173425 ATTTAGTGTGATTATTTTATGTGGATATGGATTTTCTGAGATAGTGCTTCTCATATCTTATGTGT
66 ATTTAGTGTGATTATTTTATGTGGATATGGATTTTCTGAGATAGTGCTTCTCATATCTTATGTGT
173490 TTTTAGCTTAGTGGATAACAATGTCAAAATGAGTTTGGTGATTGTTGATTGTGAGACCACTATTA
131 TTTTAGCTTAGTGGATAACAATGTCAAAATGAGTTTGGTGATTGTTGATTGTGAGACCACTATTA
173555 GATTGGAAGTTGTAAGGCAAATCCCTAGTTCAAATTTCATCGATGAAAAGAAAAAAAAA
196 GATTGGAAGTTGTAAGGCAAATCCCTAGTTCAAATTTCATCGATGAAAAGAAAAAAAAA
*
173614 ATAAGTCTCTTCTAGCATTTTAGGATGATACCAAATGAATTAGTCCAAGGGAAACAATGTAACTT
1 ATAAGTCTCTTCTAGCATTTTAGGATGAGACCAAATGAATTAGTCCAAGGGAAACAATGTAACTT
173679 ATTTAGTGTGATTATTTTATGTGGATATGGATTTTCTGAGATAGTGCTTCTCATATCTTATGTGT
66 ATTTAGTGTGATTATTTTATGTGGATATGGATTTTCTGAGATAGTGCTTCTCATATCTTATGTGT
173744 TTTTAGCTTAGTGGATAACAATGTCAAAATGAGTTTGGTGATTGTTGATTGTGAGACCACTATTA
131 TTTTAGCTTAGTGGATAACAATGTCAAAATGAGTTTGGTGATTGTTGATTGTGAGACCACTATTA
173809 GATTGGAAGTTGTAAGGCAAATCCCTAGTTCAAATTTCATCGATGAAAAGAAAAAAAA
196 GATTGGAAGTTGTAAGGCAAATCCCTAGTTCAAATTTCATCGATGAAAAGAAAAAAAA
173867 TAATTAACTG
Statistics
Matches: 252, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 252 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (254 bp):
ATAAGTCTCTTCTAGCATTTTAGGATGAGACCAAATGAATTAGTCCAAGGGAAACAATGTAACTT
ATTTAGTGTGATTATTTTATGTGGATATGGATTTTCTGAGATAGTGCTTCTCATATCTTATGTGT
TTTTAGCTTAGTGGATAACAATGTCAAAATGAGTTTGGTGATTGTTGATTGTGAGACCACTATTA
GATTGGAAGTTGTAAGGCAAATCCCTAGTTCAAATTTCATCGATGAAAAGAAAAAAAAA
Found at i:180782 original size:3 final size:3
Alignment explanation
Indices: 180776--180836 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
180766 AGATGAAGGA
180776 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
180824 GAT GAT GAT GAT G
1 GAT GAT GAT GAT G
180837 GAGAACGAAA
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:0.34, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:182218 original size:20 final size:20
Alignment explanation
Indices: 182193--182242 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
182183 TCATTTTTTA
182193 ATTAAATTCAACTTTATAAT
1 ATTAAATTCAACTTTATAAT
182213 ATTAAATTCAACTTTATAAT
1 ATTAAATTCAACTTTATAAT
182233 ATTAAATTCA
1 ATTAAATTCA
182243 TTCTTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTAAATTCAACTTTATAAT
Found at i:184318 original size:29 final size:28
Alignment explanation
Indices: 184246--184318 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
184236 GATTTAATAT
184246 ATAAAGTTCAGTGAGCAAAATATAAAAA
1 ATAAAGTTCAGTGAGCAAAATATAAAAA
* * *
184274 ATGAAAGTACAATGAGCAAAATA-AGAGAGA
1 AT-AAAGTTCAGTGAGCAAAATATA-A-AAA
184304 ATAAAGTTCAGTGAG
1 ATAAAGTTCAGTGAG
184319 GAACACTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 3 0.08
29 30 0.81
30 4 0.11
ACGTcount: A:0.53, C:0.07, G:0.21, T:0.19
Consensus pattern (28 bp):
ATAAAGTTCAGTGAGCAAAATATAAAAA
Found at i:184400 original size:2 final size:2
Alignment explanation
Indices: 184363--184387 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
184353 TTGTCTTTGG
184363 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 T
184388 CGATTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:186472 original size:111 final size:113
Alignment explanation
Indices: 186206--186477 Score: 275
Period size: 111 Copynumber: 2.4 Consensus size: 113
186196 AATATCAAGG
* *** ** * **
186206 ACCTAAAATTTAGAGAATCGCATATTATTTACACAATTGAAAATGAATTACTTTTTTCCCCAACT
1 ACCTAAAAATTAGAGAATCATGTATCGTTTACACAATTGAAAATGAATTACTTTTTTCACCAAAA
*
186271 TTTTTATTAGTCAAAATTAATAAATTTAACTAACTGTCAGTATTAACA
66 TTTTTATTAGTCAAAATTAATAAATTTAACTAACTGTCAGTATCAACA
* * **
186319 ATCTAAAAATTAGAGAATCATGTATCGTTTATAC-ATTGAAAATGAATTACTTTTTT-ATTAAAA
1 ACCTAAAAATTAGAGAATCATGTATCGTTTACACAATTGAAAATGAATTACTTTTTTCACCAAAA
* * * * * *
186382 TTTTTATTTGTCAAAATTAATAAATTTAGCTGATTGTTAGTATCAGC-
66 TTTTTATTAGTCAAAATTAATAAATTTAACTAACTGTCAGTATCAACA
* * * *
186429 ACCTAAAAATTAGATAATTA-G-ATACTGTTTACACAATTAAAAATAAATT
1 ACCTAAAAATTAGAGAATCATGTAT-C-GTTTACACAATTGAAAATGAATT
186478 CTGTCTAAAA
Statistics
Matches: 130, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
108 2 0.02
109 2 0.02
110 24 0.18
111 54 0.42
112 22 0.17
113 26 0.20
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (113 bp):
ACCTAAAAATTAGAGAATCATGTATCGTTTACACAATTGAAAATGAATTACTTTTTTCACCAAAA
TTTTTATTAGTCAAAATTAATAAATTTAACTAACTGTCAGTATCAACA
Found at i:193707 original size:2 final size:2
Alignment explanation
Indices: 193702--193744 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
193692 ATTTTTTATT
* *
193702 TA TA TA TA TA TA TA TA TA TG TA TA TA T- TA GA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
193742 TA T
1 TA T
193745 TAGATTTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:193741 original size:16 final size:17
Alignment explanation
Indices: 193702--193749 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
193692 ATTTTTTATT
*
193702 TATATATATA-TATATA
1 TATATATATATTAGATA
*
193718 TATGTATATATTAGATA
1 TATATATATATTAGATA
193735 -ATATATATATTAGAT
1 TATATATATATTAGAT
193750 TTCTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TATATATATATTAGATA
Found at i:194476 original size:8 final size:7
Alignment explanation
Indices: 194457--194499 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
194447 TATTATTATT
194457 ATTTTTA
1 ATTTTTA
194464 ATTTTTA
1 ATTTTTA
194471 ATTTTTA
1 ATTTTTA
* *
194478 ATATTAA
1 ATTTTTA
194485 TATTTTTA
1 -ATTTTTA
194493 ATATTTT
1 AT-TTTT
194500 TGATAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 21 0.70
8 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:194615 original size:18 final size:18
Alignment explanation
Indices: 194571--194619 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
194561 AAATATATTA
*
194571 ATAAAACTAATAAAACGT
1 ATAAAAATAATAAAACGT
* *
194589 CTAATAATAATAAAATCG-
1 ATAAAAATAATAAAA-CGT
194607 ATAAAAATAATAA
1 ATAAAAATAATAA
194620 TAATTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.24
Consensus pattern (18 bp):
ATAAAAATAATAAAACGT
Found at i:194650 original size:80 final size:77
Alignment explanation
Indices: 194512--194661 Score: 176
Period size: 80 Copynumber: 1.9 Consensus size: 77
194502 ATAAATTATT
* *
194512 TAATAATAACAAAATTAATCAAAAATAATAAAATTAATAGCGTTTTATTAAATATATTAATAAAA
1 TAATAATAACAAAATCAATCAAAAATAATAAAATTAATAACGTTTTATTAAATATATTAA-AAAA
*
194577 CTAATAAAACGTC
65 ATAATAAAACGTC
* * ** * *
194590 TAATAATAATAAAATCGAT-AAAAATAATAATAATTTTAATAATTTTTTATTAATTTTATTAAAA
1 TAATAATAACAAAATCAATCAAAAATAATAA-AA--TTAATAACGTTTTATTAAATATATTAAAA
194654 AAATAATA
63 AAATAATA
194662 TAAAATCGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
77 11 0.18
78 18 0.30
79 9 0.15
80 22 0.37
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (77 bp):
TAATAATAACAAAATCAATCAAAAATAATAAAATTAATAACGTTTTATTAAATATATTAAAAAAA
TAATAAAACGTC
Found at i:195079 original size:21 final size:21
Alignment explanation
Indices: 195053--195092 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
195043 AAAAAATATT
* *
195053 TAAAATATTATTATTTTTATC
1 TAAAATACTAATATTTTTATC
195074 TAAAATACTAATATTTTTA
1 TAAAATACTAATATTTTTA
195093 ATATTTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATACTAATATTTTTATC
Found at i:195145 original size:20 final size:21
Alignment explanation
Indices: 195115--195161 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
195105 AAGTGTCTAT
*
195115 TAATAAAAAAATCGATAGAAA
1 TAATAAAAAAATCGATAAAAA
*
195136 -AATAACAAAATCGATAAAAA
1 TAATAAAAAAATCGATAAAAA
195156 TAATAA
1 TAATAA
195162 TAGTTCCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (21 bp):
TAATAAAAAAATCGATAAAAA
Found at i:202946 original size:33 final size:33
Alignment explanation
Indices: 202906--202990 Score: 170
Period size: 33 Copynumber: 2.6 Consensus size: 33
202896 ATTTGTATAT
202906 TTAGGCATCATGTATATACTGGGCCTAGCTTTG
1 TTAGGCATCATGTATATACTGGGCCTAGCTTTG
202939 TTAGGCATCATGTATATACTGGGCCTAGCTTTG
1 TTAGGCATCATGTATATACTGGGCCTAGCTTTG
202972 TTAGGCATCATGTATATAC
1 TTAGGCATCATGTATATAC
202991 CTGGATTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (33 bp):
TTAGGCATCATGTATATACTGGGCCTAGCTTTG
Found at i:206422 original size:32 final size:32
Alignment explanation
Indices: 206386--206471 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 32
206376 TAACTGCTGC
206386 GCATTATCTAAATGCAACACTGAGACT-CTTGT
1 GCATTATCTAAATGCAACACTGAGACTAC-TGT
* * ***
206418 GCATTATTTGAATGCAAC-CTGATTGTACTGT
1 GCATTATCTAAATGCAACACTGAGACTACTGT
*
206449 GCATTATCTAAATACAACACTGA
1 GCATTATCTAAATGCAACACTGA
206472 CTCTGTTGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 23 0.52
32 21 0.48
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (32 bp):
GCATTATCTAAATGCAACACTGAGACTACTGT
Found at i:209335 original size:44 final size:44
Alignment explanation
Indices: 209282--209392 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
209272 TAAAAATGTC
* * *
209282 GATCCACCTCCTTCTGTGATGGAATCAAACGAAATGTTGGTGCT
1 GATCCACCTCCTTCTGTGATGGAATCAAACAAAAAGTTGATGCT
* * * ** *
209326 GATCTACCTCATTCTATGATAAAATCGAACAAAAAGTTGATGCT
1 GATCCACCTCCTTCTGTGATGGAATCAAACAAAAAGTTGATGCT
*
209370 GATCCAACTCCTTCTGTGATGGA
1 GATCCACCTCCTTCTGTGATGGA
209393 TTTGAGAGAA
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATGGAATCAAACAAAAAGTTGATGCT
Found at i:209434 original size:44 final size:44
Alignment explanation
Indices: 209370--209480 Score: 186
Period size: 44 Copynumber: 2.5 Consensus size: 44
209360 AGTTGATGCT
* *
209370 GATCCAACTCCTTCTGTGATGGATTTGAGAGAAATAAAAATGTC
1 GATCCACCTCCTTCTTTGATGGATTTGAGAGAAATAAAAATGTC
209414 GATCCACCTCCTTCTTTGATGGATTTGAGAGAAATAAAAATGTC
1 GATCCACCTCCTTCTTTGATGGATTTGAGAGAAATAAAAATGTC
* *
209458 AATCCACCTTCTTCTTTGATGGA
1 GATCCACCTCCTTCTTTGATGGA
209481 ATCGAACGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (44 bp):
GATCCACCTCCTTCTTTGATGGATTTGAGAGAAATAAAAATGTC
Found at i:210051 original size:20 final size:20
Alignment explanation
Indices: 210022--210071 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
210012 CGTTTATTCG
* * *
210022 GTATGAAGACCAATTTTTTA
1 GTATGGAGACCAATCTTTCA
*
210042 GTATGGAGACCAGTCTTTCA
1 GTATGGAGACCAATCTTTCA
210062 GTATGGAGAC
1 GTATGGAGAC
210072 TGAGTGGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (20 bp):
GTATGGAGACCAATCTTTCA
Found at i:214577 original size:27 final size:27
Alignment explanation
Indices: 214513--214577 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
214503 ACCTAAATCA
214513 ATATTAATT-AATTAAATAAAAGCTAT
1 ATATTAATTAAATTAAATAAAAGCTAT
* *
214539 ATATTATTTAAATTAATTATAAA-CTAT
1 ATATTAATTAAATTAAATA-AAAGCTAT
* *
214566 TTTTTAATTAAA
1 ATATTAATTAAA
214578 AATATTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.25
27 21 0.66
28 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (27 bp):
ATATTAATTAAATTAAATAAAAGCTAT
Found at i:218661 original size:62 final size:63
Alignment explanation
Indices: 218551--218668 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 63
218541 CTCCCGGATA
* * *
218551 GAAAAACTTTCAAGAATTTTCCATATAGTTAGGAGAAGTTCTCAAGATGACAAACCCCAGTTT
1 GAAAAACTTTAAAGAATTTTCCATATAGCTAGGAGAAGTTATCAAGATGACAAACCCCAGTTT
*
218614 GAAAAACTTTAAAGAATTTT-CATATAGCTAGG-GAAAGTTATCAAGATGATAAACC
1 GAAAAACTTTAAAGAATTTTCCATATAGCTAGGAG-AAGTTATCAAGATGACAAACC
218669 AGAACAGCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 1 0.02
62 30 0.60
63 19 0.38
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (63 bp):
GAAAAACTTTAAAGAATTTTCCATATAGCTAGGAGAAGTTATCAAGATGACAAACCCCAGTTT
Found at i:242882 original size:50 final size:50
Alignment explanation
Indices: 242687--242921 Score: 302
Period size: 51 Copynumber: 4.8 Consensus size: 50
242677 ACACAACAAC
*
242687 AAAATGTAGCACTTAACACATACTTACACCGATGAAAGTGAATAAAATAA
1 AAAATGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAA
* * * * *
242737 ACAAGTGTAACACTTAACACATACTTATACCGGTGTAAGTGAATAAAACAA
1 A-AAATGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAA
* *
242788 AAAATTGTAGCAGTTAACACATAC-TACACCGCTGTAAGTG-----AATAA
1 AAAA-TGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAA
* *
242833 AAAATGTAGCACTTAACACATACTTACAACGATGTAAGTAAATAAAATAA
1 AAAATGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAA
**
242883 AAAATGTAGCACTTAACACATACTTACACTAATGTAAGT
1 AAAATGTAGCACTTAACACATACTTACACCGATGTAAGT
242922 ATGTACATCT
Statistics
Matches: 158, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
44 18 0.11
45 21 0.13
50 58 0.37
51 61 0.39
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (50 bp):
AAAATGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAA
Found at i:242919 original size:95 final size:99
Alignment explanation
Indices: 242681--242921 Score: 312
Period size: 95 Copynumber: 2.4 Consensus size: 99
242671 TGATTCACAC
*
242681 AACAACAAAATGTAGCACTTAACACATACTTACACCGATGAAAGTGAATAAAATAAACAAGTGTA
1 AACAA-AAAATGTAGCACTTAACACATACTTACACCGATGTAAGTGAAT--AATAAACAAGTGTA
* * * *
242746 ACACTTAACACATACTTATACCGGTGTAAGTGAATAA
63 ACACTTAACACATACTTACAACGATGTAAGTAAATAA
* * *
242783 AACAAAAAATTGTAGCAGTTAACACATAC-TACACCGCTGTAAGTGAAT-A-AAA-AA-TGTAGC
1 AACAAAAAA-TGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAATAAACAAGTGTAAC
242843 ACTTAACACATACTTACAACGATGTAAGTAAATAA
65 ACTTAACACATACTTACAACGATGTAAGTAAATAA
* **
242878 AATAAAAAATGTAGCACTTAACACATACTTACACTAATGTAAGT
1 AACAAAAAATGTAGCACTTAACACATACTTACACCGATGTAAGT
242922 ATGTACATCT
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
94 18 0.15
95 56 0.45
96 2 0.02
97 3 0.02
98 1 0.01
101 21 0.17
102 23 0.19
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (99 bp):
AACAAAAAATGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAATAAACAAGTGTAACA
CTTAACACATACTTACAACGATGTAAGTAAATAA
Found at i:243066 original size:2 final size:2
Alignment explanation
Indices: 243059--243092 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
243049 AATTTTATTA
243059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
243093 AACTTATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:244254 original size:163 final size:162
Alignment explanation
Indices: 243983--244358 Score: 585
Period size: 163 Copynumber: 2.3 Consensus size: 162
243973 CGGTATTGAA
** * * * *
243983 ATGATAAAACCGGTAAAGTGGTACCGGATATATTTAAAGTGTCTATACTTTAATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* * *
244048 CAATTCGTTAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCTATACTTTAAAAAAATG
66 CAATTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
*
244113 TATCGATCCACAACGATATAATAGGTAAAAAAAT
131 TATCGATCCACAACGATATAACAGGT--AAAAAT
244147 ATGATAAAACCGGTAAAACGCTACTGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* * *
244211 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTTAAAAAATG
66 CAATTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
*
244276 TATTGATCCACAACGATATAACAGGTAAAAAT
131 TATCGATCCACAACGATATAACAGGTAAAAAT
244308 ATGATAAAACCGGTAAAACGCTA-TCGGATATATTGAAAGTGTCGATACTTT
1 ATGATAAAACCGGTAAAACGCTACT-GGATATATTGAAAGTGTCGATACTTT
244359 CGTAAGTACG
Statistics
Matches: 197, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
160 1 0.01
161 55 0.28
163 96 0.49
164 45 0.23
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
CAATTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
TATCGATCCACAACGATATAACAGGTAAAAAT
Found at i:249770 original size:184 final size:184
Alignment explanation
Indices: 249451--249799 Score: 637
Period size: 184 Copynumber: 1.9 Consensus size: 184
249441 ATATCATCAT
*
249451 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTCTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
249516 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAATC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
249581 TATATCGACACTTTTTAATATTGTGT-CACTACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCCA-TACTTTATGTCCAGAATGGATGAAA
*
249635 AAAGTCTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAATATCGGAACCCATAATTATAATGTA
1 AAAGTCTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
*
249700 ATAGGTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
249765 TATATCGACACTTTTTAATATTGTGTCCATACTTT
131 TATATCGACACTTTTTAATATTGTGTCCATACTTT
249800 TAAGTAACGC
Statistics
Matches: 159, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
184 157 0.99
185 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
AAAGTCTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCCATACTTTATGTCCAGAATGGATGAAA
Found at i:251679 original size:20 final size:21
Alignment explanation
Indices: 251635--251676 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
251625 GGTAAAGCGC
251635 TACCGGTTTTGTTATTTTTTT
1 TACCGGTTTTGTTATTTTTTT
251656 TACCGGTTTTGTTATTTTTTT
1 TACCGGTTTTGTTATTTTTTT
251677 ACCTGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.14, T:0.67
Consensus pattern (21 bp):
TACCGGTTTTGTTATTTTTTT
Found at i:251684 original size:113 final size:112
Alignment explanation
Indices: 251547--251887 Score: 583
Period size: 112 Copynumber: 3.0 Consensus size: 112
251537 TAATAAAACT
* * *
251547 GGTTTTGTCATTTTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAAGATCGATAC
1 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
251612 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTTACC
66 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTA-TTTTTTTACC
251660 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
* **
251725 TTTCAATATATCAGGTAAAGCGCTACCGATTTTGTTATTTTTTTATT
66 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
* **
251772 GGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATATTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
*
251837 TTTCAATATATCATGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
66 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
251884 GGTT
1 GGTT
251888 ATATTGTAAA
Statistics
Matches: 215, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
112 117 0.54
113 98 0.46
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (112 bp):
GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
Found at i:251878 original size:92 final size:92
Alignment explanation
Indices: 251772--251974 Score: 334
Period size: 92 Copynumber: 2.2 Consensus size: 92
251762 TTTTTTTATT
* * *
251772 GGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATATTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATACTTTTTATAAAAGGATCGATAC
*
251837 TTTCAATATATCATGTAAAGCGCTACC
66 TTTCAATATATCAGGTAAAGCGCTACC
* *
251864 GGTTTTGTTATTTTTTTACCGGTTATATTGTAAAATATCGATCCTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATACTTTTTATAAAAGGATCGATAC
*
251929 TTTCAATATATTAGGTAAAGCGCTACC
66 TTTCAATATATCAGGTAAAGCGCTACC
*
251956 GATTTTGTTATTTTTTTAC
1 GGTTTTGTTATTTTTTTAC
251975 CAATTTTATT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 103 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (92 bp):
GGTTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATACTTTTTATAAAAGGATCGATAC
TTTCAATATATCAGGTAAAGCGCTACC
Found at i:251980 original size:20 final size:20
Alignment explanation
Indices: 251952--252002 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
251942 GGTAAAGCGC
*
251952 TACCGATTTTGTTATTTTTT
1 TACCGATTTTATTATTTTTT
*
251972 TACCAATTTTATTATTTTTT
1 TACCGATTTTATTATTTTTT
251992 TACCGATTTTA
1 TACCGATTTTA
252003 CCGAAAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.61
Consensus pattern (20 bp):
TACCGATTTTATTATTTTTT
Found at i:252379 original size:24 final size:25
Alignment explanation
Indices: 252352--252420 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
252342 AGCATCAAAT
252352 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
* *
252376 ACAA-AATAATATTATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
252399 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
252421 ATATTATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.19
24 22 0.59
25 6 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:252454 original size:14 final size:14
Alignment explanation
Indices: 252435--252507 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
252425 TATCTATGTC
252435 AATATTATTATTAA
1 AATATTATTATTAA
*
252449 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
252463 AATTTTATAAATAA
1 AATATTATTATTAA
* * *
252477 AAAATTATGATTAT
1 AATATTATTATTAA
*
252491 TATATT-TTATTAA
1 AATATTATTATTAA
252504 AATA
1 AATA
252508 AATTTGCAAT
Statistics
Matches: 42, Mismatches: 15, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
13 11 0.26
14 30 0.71
15 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:252470 original size:28 final size:28
Alignment explanation
Indices: 252435--252507 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
252425 TATCTATGTC
252435 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
252463 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
*
252491 TATATT-TTATTAAAATA
1 AATATTATTATTAAAATA
252508 AATTTGCAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 8 0.23
28 25 0.71
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:252607 original size:23 final size:23
Alignment explanation
Indices: 252551--252607 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
252541 TTTATGATAG
* *
252551 AATATGTCAATATAAGCATTACCT
1 AATATGT-TATATAAGCACTACCT
* **
252575 ATTACATTATATAAGCACTACCT
1 AATATGTTATATAAGCACTACCT
252598 AATATGTTAT
1 AATATGTTAT
252608 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (23 bp):
AATATGTTATATAAGCACTACCT
Found at i:252662 original size:87 final size:87
Alignment explanation
Indices: 252560--252799 Score: 358
Period size: 87 Copynumber: 2.8 Consensus size: 87
252550 GAATATGTCA
** * *
252560 ATATAAGCATTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTT
*
252625 AC-AGTAATTAACCTATTTTATT
66 -CTAATAATTAACCTATTTTATT
*
252647 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTT
252712 CTAATAATTAACCTATTTTATT
66 CTAATAATTAACCTATTTTATT
* * * *
252734 ATATAAGCGCTTA-CTATTACATTATATAAGCGCTACCTAATTTATTATTTTACTTGATAATATT
1 ATATAAGCGC-TACCTATTACATTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTT
252798 TC
65 TC
252800 CGATTGAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 137 0.98
88 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTT
CTAATAATTAACCTATTTTATT
Found at i:252670 original size:23 final size:23
Alignment explanation
Indices: 252635--252694 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
252625 ACAGTAATTA
* *
252635 ACCTATTTTATTATATAAGCGCT
1 ACCTATTATATTATATAAACGCT
*
252658 ACCTATTACATTATATAAACGCT
1 ACCTATTATATTATATAAACGCT
*
252681 ACCTAATATATTAT
1 ACCTATTATATTAT
252695 TGTGCTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (23 bp):
ACCTATTATATTATATAAACGCT
Found at i:252750 original size:23 final size:23
Alignment explanation
Indices: 252722--252781 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
252712 CTAATAATTA
252722 ACCTATTTTATTATATAAGCGCTT
1 ACCTATTTTATTATATAAGCGC-T
**
252746 A-CTATTACATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
*
252768 ACCTAATTTATTAT
1 ACCTATTTTATTAT
252782 TTTACTTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.07
23 27 0.90
24 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (23 bp):
ACCTATTTTATTATATAAGCGCT
Found at i:254585 original size:27 final size:27
Alignment explanation
Indices: 254555--254621 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
254545 TGTCAAATGG
254555 TTGAGAGTATTTAGAACAGATATTACT
1 TTGAGAGTATTTAGAACAGATATTACT
** *
254582 TTGAGAGTATTTAGAGTATATATTACT
1 TTGAGAGTATTTAGAACAGATATTACT
*
254609 TTGAAAGTATTTA
1 TTGAGAGTATTTA
254622 TACGTTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (27 bp):
TTGAGAGTATTTAGAACAGATATTACT
Found at i:264819 original size:21 final size:21
Alignment explanation
Indices: 264795--264860 Score: 123
Period size: 21 Copynumber: 3.1 Consensus size: 21
264785 GCCTCCACGC
*
264795 GCGTTGCCTGCTTCCTCTCTT
1 GCGTTGCATGCTTCCTCTCTT
264816 GCGTTGCATGCTTCCTCTCTT
1 GCGTTGCATGCTTCCTCTCTT
264837 GCGTTGCATGCTTCCTCTCTT
1 GCGTTGCATGCTTCCTCTCTT
264858 GCG
1 GCG
264861 GTGCCCCTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.03, C:0.35, G:0.21, T:0.41
Consensus pattern (21 bp):
GCGTTGCATGCTTCCTCTCTT
Found at i:265038 original size:5 final size:5
Alignment explanation
Indices: 265024--265073 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
265014 CATGGAATAA
* * * *
265024 AAAAT AAAAT GAAAT -AAAT AAAAT AAAAT -AAAT AATAT AATAT AATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
265072 AA
1 AA
265074 TATATATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 8 0.20
5 33 0.80
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (5 bp):
AAAAT
Found at i:265044 original size:14 final size:14
Alignment explanation
Indices: 265025--265073 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
265015 ATGGAATAAA
*
265025 AAATAAAATGAAAT
1 AAATAAAATAAAAT
265039 AAATAAAATAAAAT
1 AAATAAAATAAAAT
* *
265053 AAATAATATAATAT
1 AAATAAAATAAAAT
265067 AATATAA
1 AA-ATAA
265074 TATATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:265048 original size:19 final size:18
Alignment explanation
Indices: 265024--265090 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
265014 CATGGAATAA
265024 AAAATAAAATGAAATAAAT
1 AAAATAAAAT-AAATAAAT
265043 AAAATAAAATAAATAATAT
1 AAAATAAAATAAATAA-AT
* * *
265062 AATATAATATAATATATAT
1 AAAATAAAATAA-ATAAAT
265081 AATAATAAAA
1 AA-AATAAAA
265091 AGTATATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.15
19 26 0.65
20 8 0.20
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (18 bp):
AAAATAAAATAAATAAAT
Found at i:265074 original size:5 final size:5
Alignment explanation
Indices: 265037--265084 Score: 57
Period size: 5 Copynumber: 10.2 Consensus size: 5
265027 ATAAAATGAA
* *
265037 ATAA- ATAAA ATAAA ATAA- ATAAT ATAAT ATAAT ATAAT AT-AT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
265084 A
1 A
265085 ATAAAAAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.29
5 29 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:265085 original size:36 final size:36
Alignment explanation
Indices: 265036--265107 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
265026 AATAAAATGA
265036 AATAAATAAAATAA-AATAAA-TAATATAATATAATAT
1 AATAAATAAAATAATAA-AAAGT-ATATAATATAATAT
* * *
265072 AATATATATAATAATAAAAAGTATATAATATTATAT
1 AATAAATAAAATAATAAAAAGTATATAATATAATAT
265108 TATACATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 28 0.90
37 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (36 bp):
AATAAATAAAATAATAAAAAGTATATAATATAATAT
Found at i:265725 original size:37 final size:37
Alignment explanation
Indices: 265684--265765 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
265674 AGCTAGAATC
* * *
265684 TAGAAGATAATACATGTGTT-TTTTCTTAGTGTGATTG
1 TAGAAAATAATACATAT-TTATGTTCTTAGTGTGATTG
*
265721 TAGAAAATAATCCATATTTATGTTCTTAGTGTGATTG
1 TAGAAAATAATACATATTTATGTTCTTAGTGTGATTG
265758 TAGAAAAT
1 TAGAAAAT
265766 GATGTCTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (37 bp):
TAGAAAATAATACATATTTATGTTCTTAGTGTGATTG
Found at i:272856 original size:15 final size:15
Alignment explanation
Indices: 272838--272868 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
272828 TATAGTTTCC
272838 ATATTTATAATCATT
1 ATATTTATAATCATT
272853 ATATTTATAATCATT
1 ATATTTATAATCATT
272868 A
1 A
272869 AATTAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTTATAATCATT
Done.