Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167901.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_167, 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: 60114
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Found at i:233 original size:11 final size:11
Alignment explanation
Indices: 217--246 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
207 ACTTTTATTG
217 AAATTTCATCC
1 AAATTTCATCC
228 AAATTTCATCC
1 AAATTTCATCC
239 AAACTTTC
1 AAA-TTTC
247 TCACTTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTTCATCC
Found at i:871 original size:16 final size:15
Alignment explanation
Indices: 832--875 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 15
822 TTTTTCTCAA
832 ATTTTTCTTTCCCTT
1 ATTTTTCTTTCCCTT
*
847 A--TCTCTTTCCTCTT
1 ATTTTTCTTTCC-CTT
861 ATTTTTCTTTCCCTT
1 ATTTTTCTTTCCCTT
876 TCTCTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
13 8 0.33
14 4 0.17
15 4 0.17
16 8 0.33
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTTCTTTCCCTT
Found at i:1617 original size:32 final size:34
Alignment explanation
Indices: 1576--1645 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
1566 CTCAATATTC
* *
1576 TTACATAATAGTG-TATTGATTAGATATATTT-T
1 TTACATAATAGAGACATTGATTAGATATATTTCT
*
1608 TTACTTAATAGAGCACATTGATTAGATATATTTCT
1 TTACATAATAGAG-ACATTGATTAGATATATTTCT
1643 TTA
1 TTA
1646 AGCATAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.34
34 17 0.53
35 4 0.12
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.47
Consensus pattern (34 bp):
TTACATAATAGAGACATTGATTAGATATATTTCT
Found at i:3719 original size:17 final size:17
Alignment explanation
Indices: 3697--3743 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
3687 AGGTTAATTT
3697 AAATAATAAAAAAATAA
1 AAATAATAAAAAAATAA
* * *
3714 AAATAATGATAAAATAG
1 AAATAATAAAAAAATAA
3731 AAATAATAAAAAA
1 AAATAATAAAAAA
3744 GCAAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAATAATAAAAAAATAA
Found at i:6126 original size:11 final size:11
Alignment explanation
Indices: 6110--6134 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6100 TTTGACATAA
6110 AATAATTTATT
1 AATAATTTATT
6121 AATAATTTATT
1 AATAATTTATT
6132 AAT
1 AAT
6135 TTTATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATAATTTATT
Found at i:6589 original size:17 final size:17
Alignment explanation
Indices: 6567--6599 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6557 AAAAACATAT
6567 ACTTAA-TAGAAATAAAC
1 ACTTAAGTA-AAATAAAC
6584 ACTTAAGTAAAATAAA
1 ACTTAAGTAAAATAAA
6600 TTACCATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (17 bp):
ACTTAAGTAAAATAAAC
Found at i:10941 original size:89 final size:87
Alignment explanation
Indices: 10790--10961 Score: 263
Period size: 89 Copynumber: 2.0 Consensus size: 87
10780 CAAGTAGTAT
* *
10790 TAAGATTGCAACTTTTCAAATTTAAGTACCAAAAAATTTTGCTCTAATTCATGTATCAAATGTGC
1 TAAGATTGCAACTTTTCAAATTTAAGTACCAAAAAATTTTACTCTAATTCAAGTATCAAATGT--
10855 AATTAATCTTTGAAGTTTAACACA
64 AATTAATCTTTGAAGTTTAACACA
* * ** *
10879 TAAGATTGTAAGTTTTCAAATTTAAGTTTCAAAGAATTTTACTCTAATTCAAGTATCAAATGTAA
1 TAAGATTGCAACTTTTCAAATTTAAGTACCAAAAAATTTTACTCTAATTCAAGTATCAAATGTAA
10944 TTAATCTTTGAAGTTTAA
66 TTAATCTTTGAAGTTTAA
10962 TACTTAATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
87 20 0.26
89 56 0.74
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (87 bp):
TAAGATTGCAACTTTTCAAATTTAAGTACCAAAAAATTTTACTCTAATTCAAGTATCAAATGTAA
TTAATCTTTGAAGTTTAACACA
Found at i:16204 original size:3 final size:3
Alignment explanation
Indices: 16196--16221 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16186 TCAAAGCCCT
16196 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
16222 TTTTTTGGGT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17830 original size:52 final size:52
Alignment explanation
Indices: 17744--17890 Score: 224
Period size: 52 Copynumber: 2.8 Consensus size: 52
17734 TATAACCATA
* * *
17744 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCATGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCATGCAAGT
* *
17796 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCATGCAAGT
*
17848 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCT
17891 TTTACAAGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 83 0.95
53 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCATGCAAGT
Found at i:17941 original size:11 final size:11
Alignment explanation
Indices: 17925--17966 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
17915 GCAATATCTG
*
17925 ACAAATCCCAA
1 ACAAATCTCAA
*
17936 ACAAATCTCTA
1 ACAAATCTCAA
*
17947 ACAAATCTTAA
1 ACAAATCTCAA
17958 ACAAATCTC
1 ACAAATCTC
17967 TTACGGGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:17950 original size:22 final size:22
Alignment explanation
Indices: 17925--17967 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17915 GCAATATCTG
17925 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
**
17947 ACAAATCTTAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
17968 TACGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:18234 original size:25 final size:25
Alignment explanation
Indices: 18204--18293 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 25
18194 TCTTAAACCA
*
18204 AGCTCTTCCCACATCTGAAATCTTT
1 AGCTCTTCCCACATCTCAAATCTTT
18229 AGCTCTTCCCACATCTCAAA-CTTT
1 AGCTCTTCCCACATCTCAAATCTTT
* *
18253 CAGCTATT-TCACATCTCAAATCTTCT
1 -AGCTCTTCCCACATCTCAAATCTT-T
**
18279 -GCTCTTTTCACATCT
1 AGCTCTTCCCACATCT
18294 TGAATCTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
24 20 0.35
25 36 0.63
26 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.38
Consensus pattern (25 bp):
AGCTCTTCCCACATCTCAAATCTTT
Found at i:18308 original size:25 final size:25
Alignment explanation
Indices: 18213--18309 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 25
18203 AAGCTCTTCC
* * * **
18213 CACATCTGAAATCTTTAGCTCTTCC
1 CACATCTCAAATCTTCAACTCTTTT
* *
18238 CACATCTCAAA-CTTTCAGCT-ATTT
1 CACATCTCAAATC-TTCAACTCTTTT
**
18262 CACATCTCAAATCTTCTGCTCTTTT
1 CACATCTCAAATCTTCAACTCTTTT
**
18287 CACATCTTGAATCTTCAACTCTT
1 CACATCTCAAATCTTCAACTCTT
18310 CTCATGTTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.33
25 39 0.67
ACGTcount: A:0.25, C:0.31, G:0.05, T:0.39
Consensus pattern (25 bp):
CACATCTCAAATCTTCAACTCTTTT
Found at i:18362 original size:31 final size:31
Alignment explanation
Indices: 18327--18411 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
18317 TTCGAACCTT
* *
18327 CAGCTCTGATACCACTTGTTGGGAAACATCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
* * *
18358 CAGCTATGATACCATTTGTTGGGGATCACCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
*
18389 CTGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
18412 CTAAAAGCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGAAACACCA
Found at i:18981 original size:52 final size:52
Alignment explanation
Indices: 18895--19040 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
18885 TATAACCATA
* * * *
18895 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCATGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCATGCAAGT
*
18947 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCATGCAAGT
* *
18999 CAAACTTACCTATTAAGAATCCTCTTT-C-TCTAGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTTTTAGAATTCTTCT
19041 TTTACAGTCT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
51 13 0.15
52 69 0.80
53 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCATGCAAGT
Found at i:24834 original size:20 final size:20
Alignment explanation
Indices: 24796--24833 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
24786 TGTATCAAAC
24796 ATTTTTTGTTTATGTTTTTT
1 ATTTTTTGTTTATGTTTTTT
24816 ATTTTTT-TTT-TGTTTTTT
1 ATTTTTTGTTTATGTTTTTT
24834 TGAATTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (20 bp):
ATTTTTTGTTTATGTTTTTT
Found at i:25951 original size:19 final size:19
Alignment explanation
Indices: 25929--25965 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25919 AATTGTAATC
*
25929 TTTTTAATATTAAACTATA
1 TTTTTAATACTAAACTATA
*
25948 TTTTTCATACTAAACTAT
1 TTTTTAATACTAAACTAT
25966 TATATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTTAATACTAAACTATA
Found at i:26123 original size:25 final size:22
Alignment explanation
Indices: 26090--26158 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 22
26080 TAATAAAAAT
*
26090 AATAAAAT-ATAATTATTTTAAA
1 AATAAAATAAT-ATAATTTTAAA
26112 AATAAAAT-A-ATAATTTTAAA
1 AATAAAATAATATAATTTTAAA
26132 AATAAAAT-A-ATAATTTTAAA
1 AATAAAATAATATAATTTTAAA
26152 AATAAAA
1 AATAAAA
26159 ATTTGTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 37 0.80
22 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAAATAATATAATTTTAAA
Found at i:26127 original size:20 final size:20
Alignment explanation
Indices: 26098--26158 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
26088 ATAATAAAAT
*
26098 ATAATTATTTTAAAAATAAA
1 ATAATAATTTTAAAAATAAA
26118 ATAATAATTTTAAAAATAAA
1 ATAATAATTTTAAAAATAAA
26138 ATAATAATTTTAAAAATAAA
1 ATAATAATTTTAAAAATAAA
26158 A
1 A
26159 ATTTGTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATAATTTTAAAAATAAA
Found at i:26972 original size:8 final size:8
Alignment explanation
Indices: 26959--26989 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
26949 CAAATTTTCT
26959 GAAAGTTG
1 GAAAGTTG
*
26967 GAAAGTTT
1 GAAAGTTG
26975 GAAAGTTG
1 GAAAGTTG
26983 GAAAGTT
1 GAAAGTT
26990 TGCATTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (8 bp):
GAAAGTTG
Found at i:26979 original size:16 final size:16
Alignment explanation
Indices: 26958--26991 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26948 GCAAATTTTC
26958 TGAAAGTTGGAAAGTT
1 TGAAAGTTGGAAAGTT
26974 TGAAAGTTGGAAAGTT
1 TGAAAGTTGGAAAGTT
26990 TG
1 TG
26992 CATTTCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
TGAAAGTTGGAAAGTT
Found at i:28671 original size:22 final size:19
Alignment explanation
Indices: 28646--28715 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 19
28636 TAAATTTATC
28646 AAATTATTGAAAAATAAGAATA
1 AAATTATT-AAAAATAA-AA-A
28668 AAATTAATTAAATAATAACAAA
1 AAATT-ATTAAA-AATAA-AAA
*
28690 TAATTATTTTAAAAATAAAAA
1 AAATTA--TTAAAAATAAAAA
28711 AAATT
1 AAATT
28716 TAAATAATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 8 0.20
22 18 0.44
23 15 0.37
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATTATTAAAAATAAAAA
Found at i:28771 original size:17 final size:19
Alignment explanation
Indices: 28749--28784 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
28739 ATATTTTAAT
28749 TTTAAAAAT-TAAA-AAAA
1 TTTAAAAATATAAACAAAA
28766 TTTAAAAATATAAACAAAA
1 TTTAAAAATATAAACAAAA
28785 GTTATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TTTAAAAATATAAACAAAA
Found at i:32092 original size:59 final size:57
Alignment explanation
Indices: 31962--32422 Score: 615
Period size: 59 Copynumber: 7.8 Consensus size: 57
31952 TTTTTTGTAG
31962 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTGGAAATTT--ATTTT-AA
* * * *
32022 GGAAAATTGATACTTTCAACTTTTCTTCAAAAACACTTTTTTTGAAAATTTATTTATAA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTGGAAATTTATTT-TAA
32081 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTGGAAA-TTT-ATTTT-AA
**
32141 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTCAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGGAAATTTATT-TTAA
32200 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGGAAATTTATTT-TAA
* * *
32259 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGGAAATTTA-TTTTAA
*
32318 GGAAAATTGATACTTTCAACTTTTCCCCAAAAGTA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTGGAAATTTATTT-TAA
*
32375 GGAAAATTGATACTTTCAACTTTTCCCTAAAACTATTTTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTTTGGAA
32423 CTTTTGATTT
Statistics
Matches: 365, Mismatches: 18, Indels: 36
0.87 0.04 0.09
Matches are distributed among these distances:
56 5 0.01
57 46 0.13
58 4 0.01
59 195 0.53
60 98 0.27
61 17 0.05
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTAA
Found at i:32173 original size:119 final size:115
Alignment explanation
Indices: 31962--32417 Score: 668
Period size: 119 Copynumber: 3.9 Consensus size: 115
31952 TTTTTTGTAG
31962 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTCT-AAGGAA
* * *
32026 AATTGATACTTTCAACTTTT-CTTCAAAAACACTTTTTTTGAAAATTTATTTATAA
63 AATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTT-TAA
*
32081 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTT-TCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTT-ATTTCT-AAGGAA
*
32145 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTCAAATTTATTCTTAA
63 AATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATT-TTAA
*
32200 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAAGGAAAA
* *
32265 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTCTGA
65 TTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTA-TTTTAA
*
32318 GGAAAATTGATACTTTCAACTTTTCCCCAAAAGTA-TTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
*
32382 TGATACTTTCAACTTTTCCCTAAAACTATTTTTTTT
66 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
32418 TGGAACTTTT
Statistics
Matches: 317, Mismatches: 13, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
115 8 0.03
116 56 0.18
118 92 0.29
119 137 0.43
120 24 0.08
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTAA
Found at i:32467 original size:18 final size:18
Alignment explanation
Indices: 32441--32508 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
32431 TTTTTTTATT
* *
32441 TAAAGAAAAATAGAAAAA
1 TAAAAAAAAATAAAAAAA
32459 TAAAAAAAAATAAAAAAA
1 TAAAAAAAAATAAAAAAA
* ** * *
32477 GAAAAGTAAA-ACAAAAC
1 TAAAAAAAAATAAAAAAA
32494 TAAAAATAAAATAAA
1 TAAAAA-AAAATAAA
32509 GATAAAAAGA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
17 9 0.24
18 26 0.70
19 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
TAAAAAAAAATAAAAAAA
Found at i:32474 original size:17 final size:17
Alignment explanation
Indices: 32441--32604 Score: 54
Period size: 18 Copynumber: 9.4 Consensus size: 17
32431 TTTTTTTATT
*
32441 TAAAGAAAAATAGAAAAA
1 TAAAAAAAAATA-AAAAA
32459 TAAAAAAAAATAAAAAA
1 TAAAAAAAAATAAAAAA
* *
32476 -AGAAAAGTAAAA-CAAAAC
1 TA-AAAA--AAAATAAAAAA
*
32494 TAAAAATAAAAT-AAAGA
1 TAAAAA-AAAATAAAAAA
* **
32511 T-AAAAAGAATATTAAA
1 TAAAAAAAAATAAAAAA
** ** *
32527 TAAACCCAATCTAATAAA
1 TAAA-AAAAAATAAAAAA
32545 TAAAAATAATAAATAAACAAA
1 T-AAAA-AA-AAATAAA-AAA
* *
32566 T-AAAACAAATAAAAAT
1 TAAAAAAAAATAAAAAA
32582 TCAAAAAAAAA-AAAAAA
1 T-AAAAAAAAATAAAAAA
32599 -AAAAAA
1 TAAAAAA
32605 CCTGGAGCGG
Statistics
Matches: 108, Mismatches: 24, Indels: 31
0.66 0.15 0.19
Matches are distributed among these distances:
15 10 0.09
16 11 0.10
17 32 0.30
18 35 0.32
19 12 0.11
20 4 0.04
21 4 0.04
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (17 bp):
TAAAAAAAAATAAAAAA
Found at i:32479 original size:24 final size:25
Alignment explanation
Indices: 32446--32499 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
32436 TTATTTAAAG
*
32446 AAAAATAGAAAAATAAAA-AAAAAT
1 AAAAAAAGAAAAATAAAACAAAAAT
* *
32470 AAAAAAAGAAAAGTAAAACAAAACT
1 AAAAAAAGAAAAATAAAACAAAAAT
32495 AAAAA
1 AAAAA
32500 TAAAATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (25 bp):
AAAAAAAGAAAAATAAAACAAAAAT
Found at i:32513 original size:11 final size:11
Alignment explanation
Indices: 32454--32515 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
32444 AGAAAAATAG
32454 AAAAATAAAA-
1 AAAAATAAAAT
32464 AAAAATAAAA-
1 AAAAATAAAAT
* *
32474 AAAGA-AAAGT
1 AAAAATAAAAT
*
32484 AAAACA-AAACT
1 AAAA-ATAAAAT
32495 AAAAATAAAAT
1 AAAAATAAAAT
*
32506 AAAGATAAAA
1 AAAAATAAAA
32516 AGAATATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
9 3 0.07
10 18 0.42
11 22 0.51
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:32586 original size:21 final size:21
Alignment explanation
Indices: 32562--32601 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32552 AATAAATAAA
* * *
32562 CAAATAAAACAAATAAAAATT
1 CAAAAAAAAAAAAAAAAAATT
32583 CAAAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAAAA
32602 AAACCTGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (21 bp):
CAAAAAAAAAAAAAAAAAATT
Found at i:32678 original size:18 final size:19
Alignment explanation
Indices: 32657--32701 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
32647 GGAAGAAAAA
32657 CGGCTCGG-GGGATCGGCT
1 CGGCTCGGCGGGATCGGCT
*
32675 CGG--CGGCTTGGATCGGCT
1 CGGCTCGGC-GGGATCGGCT
32693 CGGCTCGGC
1 CGGCTCGGC
32702 TCGGAGGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.14
18 15 0.68
20 4 0.18
ACGTcount: A:0.04, C:0.31, G:0.47, T:0.18
Consensus pattern (19 bp):
CGGCTCGGCGGGATCGGCT
Found at i:32969 original size:19 final size:20
Alignment explanation
Indices: 32925--32971 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
32915 GAACACCGGT
* *
32925 GCCGGATTCTGGAAAATTTC
1 GCCGGAATCTGGAAAATTTA
*
32945 GTCGGAATCTGG-AAATTTA
1 GCCGGAATCTGGAAAATTTA
32964 GCCGGAAT
1 GCCGGAAT
32972 TTCGCCGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCGGAATCTGGAAAATTTA
Found at i:33027 original size:20 final size:20
Alignment explanation
Indices: 32983--33030 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
32973 TCGCCGGAAG
32983 TTCGCCGGTTTCTGGGATTA
1 TTCGCCGGTTTCTGGGATTA
* *
33003 GTCGCCGGTTTCTGGGATTC
1 TTCGCCGGTTTCTGGGATTA
33023 TTCGCCGG
1 TTCGCCGG
33031 AAATTGGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.06, C:0.25, G:0.33, T:0.35
Consensus pattern (20 bp):
TTCGCCGGTTTCTGGGATTA
Found at i:33835 original size:17 final size:16
Alignment explanation
Indices: 33813--33879 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 16
33803 GTGTCTACAA
33813 TATTATTAACTAAAAAT
1 TATTATTAA-TAAAAAT
* *
33830 TATTATTTTATAAAATT
1 TATTA-TTAATAAAAAT
33847 TATTATTATATAAAAA-
1 TATTATTA-ATAAAAAT
33863 -ATTAATTAACTAAAAAT
1 TATT-ATTAA-TAAAAAT
33880 AAAATTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 4 0.10
16 12 0.29
17 22 0.54
18 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTATTAATAAAAAT
Found at i:33846 original size:16 final size:17
Alignment explanation
Indices: 33813--33861 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
33803 GTGTCTACAA
*
33813 TATTATTA-ACTAAAAAT
1 TATTATTATA-TAAAATT
*
33830 TATTATTTTATAAAATT
1 TATTATTATATAAAATT
33847 TATTATTATATAAAA
1 TATTATTATATAAAA
33862 AATTAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 27 0.96
18 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTATTATATAAAATT
Found at i:34048 original size:19 final size:20
Alignment explanation
Indices: 34026--34068 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
34016 TTTTGCATAA
*
34026 AAATAATTTACTGATTTT-T
1 AAATAATTTACTAATTTTAT
* *
34045 AAATTATTTATTAATTTTAT
1 AAATAATTTACTAATTTTAT
34065 AAAT
1 AAAT
34069 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTAATTTTAT
Found at i:34715 original size:17 final size:18
Alignment explanation
Indices: 34693--34726 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34683 TATGATAGAG
34693 TTTTTAAAAAT-TATTAA
1 TTTTTAAAAATATATTAA
*
34710 TTTTTATAAATATATTA
1 TTTTTAAAAATATATTA
34727 TTATAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTAAAAATATATTAA
Found at i:35993 original size:18 final size:18
Alignment explanation
Indices: 35942--35997 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 18
35932 TTAATATATT
*
35942 TGATTAGTTCAAAAAATA
1 TGATTAGTTCAAAGAATA
35960 TGATAAAATAAGTTCAAAGAATA
1 TGAT----T-AGTTCAAAGAATA
35983 TGATTAGTTCAAAGA
1 TGATTAGTTCAAAGA
35998 GCATGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
18 14 0.44
19 1 0.03
22 1 0.03
23 16 0.50
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.30
Consensus pattern (18 bp):
TGATTAGTTCAAAGAATA
Found at i:37474 original size:58 final size:59
Alignment explanation
Indices: 37325--37919 Score: 635
Period size: 58 Copynumber: 9.9 Consensus size: 59
37315 TCTTGTGCAG
* *
37325 GGAAAATTGATACTTTCAACTTTTCC-CTGAAAATAT-TTTTTTTGAAAATTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TCTTTTTTTGAAAATTTT-ATTTCAA
*
37385 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTTA-TT-AA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTCTTTTTTTGAAAATTTTATTTCAA
* * * *
37443 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTGAAAATTTTA-TTTCAA
* *
37501 GGAAAATTGATACTTTCAACTCTTCCTAAAAAATAAATCCTCTTTTTTG-AAATTTTGATTTTCA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT---T-CT-TTTTTTGAAAATTTT-A-TTTCA
37565 A
59 A
*
37566 GGAAAATTGATACTTTCAACTCTTCCTCAAAAATAAATCCTTTTTTTTTG-AAATTTTGATTTTC
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT---T-C--TTTTTTTGAAAATTTT-A-TTTC
37630 AA
58 AA
* *
37632 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTGAAAATTTT-A-TTTCAA
* * * *
37693 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TCCTTTTTTGGAAATTTAATTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTGAAAATTTTATTTCAA
* * * *
37751 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTGAAACTTTAATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTGAAAATTTTATTT-CAA
* * *
37809 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TCCTTTTTTGGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTGAAAATTTTA-TTTCAA
*
37867 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATAT-TTTTTTTGGAAATTTTA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TCTTTTTTTGAAAATTTTA
37920 ATTTTTTATT
Statistics
Matches: 480, Mismatches: 31, Indels: 48
0.86 0.06 0.09
Matches are distributed among these distances:
55 14 0.03
56 1 0.00
57 20 0.04
58 174 0.36
59 26 0.05
60 60 0.12
61 67 0.14
62 2 0.00
64 5 0.01
65 54 0.11
66 56 0.12
67 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCTTTTTTTGAAAATTTTATTTCAA
Found at i:37719 original size:308 final size:299
Alignment explanation
Indices: 37325--37901 Score: 865
Period size: 308 Copynumber: 1.9 Consensus size: 299
37315 TCTTGTGCAG
* *
37325 GGAAAATTGATACTTTCAACTTTTCCCTGAAAATATTTTTTTTGAAAATTTTAATTTCGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAATATTTTTTTTGAAAATTTTAATTTCAAGGAAA
*
37390 ATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTT-TATTAAGGAAAATTGAT
66 ATTGATACTTTCAACTTTTCCTCAAAAA--TACTTTTTTGAAAATTTATATTAAGGAAAATTGAT
* *
37454 ACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGATACTTTCA
129 ACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTAATTTCCAAGGAAAATTGATACTTTCA
*
37519 ACTCTTCCTAAAAAATAAATCCTCTTTTTTGAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
194 ACTCTTCCT---AAA-AAATCCT-TTTTTGGAAA-TTT-ATTTTCAAGGAAAATTGATACTTTCA
37584 ACTCTT-CCTCAAAAATAAATCCTTTTTTTTTGAAATTTTGATTTTCAA
252 ACTCTTCCCT-AAAAATAAATCCTTTTTTTTTGAAATTTTGATTTTCAA
* *
37632 GGAAAATTGATACTTTCAACTTTT-CCTCAAAA-ATCCTTTTTTTGGAAATTTTGATTTTCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCTCAAAATAT--TTTTTTTGAAAATTTT-AATTTCAAGG
* * *
37695 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGGAAATTTAATTTTAAGGAAAATTG
63 AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAATTT-ATATTAAGGAAAATTG
37760 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTAATTTCCAAGGAAAATTGATACTTT
127 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTAATTTCCAAGGAAAATTGATACTTT
* * * *
37825 CAACTTTTCCTCAAAAATCCTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTT
192 CAACTCTTCCTAAAAAATCCTTTTTTGGAAATTTATTTTCAAGGAAAATTGATACTTTCAACTCT
37890 TCCCTAAAAATA
257 TCCCTAAAAATA
37902 TTTTTTTTGG
Statistics
Matches: 249, Mismatches: 15, Indels: 18
0.88 0.05 0.06
Matches are distributed among these distances:
301 37 0.15
302 6 0.02
303 9 0.04
304 7 0.03
305 4 0.02
306 21 0.08
307 39 0.16
308 126 0.51
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.43
Consensus pattern (299 bp):
GGAAAATTGATACTTTCAACTTTTCCCTCAAAATATTTTTTTTGAAAATTTTAATTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAATTTATATTAAGGAAAATTGATAC
TTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTAATTTCCAAGGAAAATTGATACTTTCAAC
TCTTCCTAAAAAATCCTTTTTTGGAAATTTATTTTCAAGGAAAATTGATACTTTCAACTCTTCCC
TAAAAATAAATCCTTTTTTTTTGAAATTTTGATTTTCAA
Found at i:37977 original size:17 final size:17
Alignment explanation
Indices: 37957--38010 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
37947 TAAAAAAGTG
37957 AAAATAAATAAAGATAA
1 AAAATAAATAAAGATAA
*
37974 AAAATAAAGGAAAG-TAA
1 AAAATAAA-TAAAGATAA
*
37991 AACCA-AAATAAAGATAA
1 AA-AATAAATAAAGATAA
38008 AAA
1 AAA
38011 GAATATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.13
17 21 0.70
18 5 0.17
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAAGATAA
Found at i:38049 original size:11 final size:10
Alignment explanation
Indices: 38033--38075 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
38023 AACCTAATCT
38033 AATAAATAAAA
1 AATAAA-AAAA
38044 AAT-AAAAAA
1 AATAAAAAAA
38053 AATAAAAAAA
1 AATAAAAAAA
*
38063 ATTCAAAAAAA
1 AAT-AAAAAAA
38074 AA
1 AA
38076 ACCTGGAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 7 0.25
10 10 0.36
11 11 0.39
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:38054 original size:9 final size:9
Alignment explanation
Indices: 38040--38074 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
38030 TCTAATAAAT
38040 AAAAAATAA
1 AAAAAATAA
38049 AAAAAATAA
1 AAAAAATAA
38058 AAAAAATTCAA
1 AAAAAA-T-AA
38069 AAAAAA
1 AAAAAA
38075 AACCTGGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 1 0.04
11 8 0.33
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:38058 original size:20 final size:20
Alignment explanation
Indices: 38033--38074 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38023 AACCTAATCT
38033 AATAAATAAAAAAT-AAAAAA
1 AATAAA-AAAAAATCAAAAAA
*
38053 AATAAAAAAAATTCAAAAAA
1 AATAAAAAAAAATCAAAAAA
38073 AA
1 AA
38075 AACCTGGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (20 bp):
AATAAAAAAAAATCAAAAAA
Found at i:38428 original size:19 final size:19
Alignment explanation
Indices: 38376--38428 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
38366 AGAACACCGG
* *
38376 TGGAATTTTCGTCGGAATC
1 TGGAAATTTCGCCGGAATC
* *
38395 TGGGAAATGTAGCCGGAATC
1 T-GGAAATTTCGCCGGAATC
38415 TGGAAATTTCGCCG
1 TGGAAATTTCGCCG
38429 AAAGTTGGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (19 bp):
TGGAAATTTCGCCGGAATC
Found at i:38601 original size:26 final size:23
Alignment explanation
Indices: 38563--38616 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
38553 AATCTGAAAA
*
38563 TTTCCCAGAAATTTCCAGAAAATAT
1 TTTCCCAAAAATTTCCA-AAAAT-T
*
38588 TTTCGCCAAAAATTTCTAAAAATT
1 TTTC-CCAAAAATTTCCAAAAATT
38612 TTTCC
1 TTTCC
38617 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 5 0.19
25 9 0.35
26 11 0.42
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (23 bp):
TTTCCCAAAAATTTCCAAAAATT
Found at i:38954 original size:18 final size:18
Alignment explanation
Indices: 38933--38967 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38923 GATAAAAAGA
38933 AAAAAAAAATCAGATAAT
1 AAAAAAAAATCAGATAAT
*
38951 AAAAAAGAATCAGATAA
1 AAAAAAAAATCAGATAA
38968 AATTAACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAAAAAATCAGATAAT
Found at i:40353 original size:21 final size:19
Alignment explanation
Indices: 40328--40366 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
40318 TAAAATTAAT
40328 AATTTGATTATAAATTTTTAG
1 AATTT-ATT-TAAATTTTTAG
*
40349 AATTTATTTATATTTTTA
1 AATTTATTTAAATTTTTA
40367 AAATCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AATTTATTTAAATTTTTAG
Found at i:41791 original size:19 final size:20
Alignment explanation
Indices: 41756--41797 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
41746 TTTGACATAA
*
41756 AAATAATTTATGGATTTT-T
1 AAATAATTTATGAATTTTAT
*
41775 AAATAATTTATTAATTTTAT
1 AAATAATTTATGAATTTTAT
41795 AAA
1 AAA
41798 CATTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATAATTTATGAATTTTAT
Found at i:43766 original size:18 final size:19
Alignment explanation
Indices: 43715--43766 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 19
43705 TTAATATATT
43715 TGATTAGTTCAAAGAATACGA
1 TGATTAGTTCAAAGAATA--A
*
43736 TAGAATAAGTTCAAAGAAT-A
1 T-G-ATTAGTTCAAAGAATAA
43756 TGATTAGTTCA
1 TGATTAGTTCA
43767 GAGAGGATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.30
19 1 0.04
20 2 0.07
21 1 0.04
22 1 0.04
23 14 0.52
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (19 bp):
TGATTAGTTCAAAGAATAA
Found at i:45571 original size:144 final size:144
Alignment explanation
Indices: 45358--45959 Score: 879
Period size: 144 Copynumber: 4.2 Consensus size: 144
45348 ACTATCTACG
* ** *
45358 TGGTTCTATCCCTGCTTCCATAGGAAACTTGACCTA-CTTATCTGTTCTCCACCTCTATCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACC-AGCTTATCCATTCTCTACCTCTATCAAAAT
* * *
45422 ATGTTTTGTGGATCGATACCTCAAGAAATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTTAG
65 ATGTTTTCTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
*
45487 TCATAATAATTTCTC
130 TCAAAATAATTTCTC
* * * * *
45502 TGGTTCAGTCCCTTCTTCCATAAGAAACTTGACCAGTTTATCCATTCTCTACCT-TCATCATAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCCATTCTCTACCTCT-ATCAAAAT
* * *
45566 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACGGACTTTGAGTTGAA
65 ATGTTTTCTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
45631 TCAAAATAATTTCTC
130 TCAAAATAATTTCTC
* ** * *
45646 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAACTTATCTTTTTTCTACCTCTACCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCCATTCTCTACCTCTATCAAAATA
*
45711 TGTTTTCTGGATCGATACCTCAAGAGATAGGCATGCTTAAATCTCTCACTGA-TATTGAGTTGAG
66 TGTTTTCTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACT-TTGAGTTGAG
*
45775 TCAAAATAATTTCTT
130 TCAAAATAATTTCTC
* * *
45790 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAG-TCTATCCACTCTTTACCTCGATCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCT-TATCCATTCTCTACCTCTATCAAAAT
* * *
45854 ATGTTTTCAGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGGGTTGAG
65 ATGTTTTCTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
45919 TCAAAATAATTTCTC
130 TCAAAATAATTTCTC
45934 TGGTTCAATCCCTGCTTCCATAGGAA
1 TGGTTCAATCCCTGCTTCCATAGGAA
45960 GCATATCGAA
Statistics
Matches: 408, Mismatches: 44, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
143 4 0.01
144 402 0.99
145 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (144 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGCTTATCCATTCTCTACCTCTATCAAAATA
TGTTTTCTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
CAAAATAATTTCTC
Found at i:50642 original size:24 final size:22
Alignment explanation
Indices: 50607--50650 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
50597 CACTCCAAAC
50607 ATTTGTTCCATC-TTGACATCAA
1 ATTTGTTCCATCGTTG-CATCAA
50629 ATTTGTTCTGCATCGTTGCATC
1 ATTTGTTC--CATCGTTGCATC
50651 GATCTGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (22 bp):
ATTTGTTCCATCGTTGCATCAA
Found at i:53179 original size:34 final size:37
Alignment explanation
Indices: 53121--53197 Score: 115
Period size: 34 Copynumber: 2.2 Consensus size: 37
53111 CCGATTTTAG
*
53121 TTTTTTATTATTATTATTATTTATTTTTGGTTTTCTA
1 TTTTTTATTATTATTATTACTTATTTTTGGTTTTCTA
*
53158 TTTTTTATT-TTATT-TT-CTTATTTTTGGTTTTTTA
1 TTTTTTATTATTATTATTACTTATTTTTGGTTTTCTA
53192 TTTTTT
1 TTTTTT
53198 TCGGTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 22 0.58
35 2 0.05
36 5 0.13
37 9 0.24
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (37 bp):
TTTTTTATTATTATTATTACTTATTTTTGGTTTTCTA
Found at i:53195 original size:7 final size:7
Alignment explanation
Indices: 53115--53197 Score: 62
Period size: 7 Copynumber: 11.6 Consensus size: 7
53105 AATGGCCCGA
53115 TTTTAGTT
1 TTTTA-TT
53123 TTTTATT
1 TTTTATT
53130 ATTATTATT
1 -TT-TTATT
*
53139 ATTTATT
1 TTTTATT
**
53146 TTTGGTT
1 TTTTATT
*
53153 TTCTATT
1 TTTTATT
53160 TTTTA--
1 TTTTATT
53165 TTTTATT
1 TTTTATT
53172 TTCTTATT
1 TT-TTATT
**
53180 TTTGGTT
1 TTTTATT
53187 TTTTATT
1 TTTTATT
53194 TTTT
1 TTTT
53198 TCGGTTTCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
5 5 0.09
7 33 0.57
8 15 0.26
9 5 0.09
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:53463 original size:23 final size:22
Alignment explanation
Indices: 53422--53465 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53412 CAGTTTAGGA
**
53422 TTTTTTTTTTGAATTTTTTTGG
1 TTTTTTTTTTGAAAATTTTTGG
53444 TTTTTTTTTTGGAAAATTTTTG
1 TTTTTTTTTT-GAAAATTTTTG
53466 AAAATTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTTGAAAATTTTTGG
Found at i:59801 original size:120 final size:121
Alignment explanation
Indices: 59271--59787 Score: 780
Period size: 120 Copynumber: 4.3 Consensus size: 121
59261 GGTTTTGTAC
* *
59271 AGGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAACTTTATTGAAAATTTATTTTTAAA
1 AGGAAAAATTGATACTTTCAACTTTTCCTC-AAAAAAAAAACTTTTTTGAAAATTTATTTTTAAG
* **
59336 AAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTGGAAACTTTAATTTTG
65 AAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTAGAAACTTTAATTTCA
*
59393 AGG-AAAATTGATACTTTCAACTTTTCCTCCAAAAAAAAAACTTTTTTGGAAATTTATTTTTAAG
1 AGGAAAAATTGATACTTTCAACTTTTCCT-CAAAAAAAAAACTTTTTTGAAAATTTATTTTTAAG
*
59457 -AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTAGAAACTTTAATTTCA
65 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAACTTTAATTTCA
* *
59513 A-GAAAAATTAATACTTTCAACTTTTCCT-AAAAAAAAACCCTTTTTTGAAAATTTATTTTTAAG
1 AGGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAA-ACTTTTTTGAAAATTTATTTTTAAG
* * *
59576 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTAATTTCG
65 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAACTTTAATTTCA
* * *
59633 A-GAAAAATTGATATTTTCAACTTTTCCTCAAAAAAAAAATTTTTTTGAAAATTTATTTTTAAGG
1 AGGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAACTTTTTTGAAAATTTATTTTTAAGA
*
59697 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTAGAAAGC-TTATTTTCA
66 AAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTAGAAA-CTTTAATTTCA
59754 AGGAAAAA-TGATACTTTCAACTTTTCCTCAAAAA
1 AGGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
59788 TATTGTTTTT
Statistics
Matches: 362, Mismatches: 24, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
118 9 0.02
119 24 0.07
120 203 0.56
121 115 0.32
122 11 0.03
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.41
Consensus pattern (121 bp):
AGGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAACTTTTTTGAAAATTTATTTTTAAGA
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAACTTTAATTTCA
Found at i:59822 original size:60 final size:61
Alignment explanation
Indices: 59333--59822 Score: 249
Period size: 59 Copynumber: 8.1 Consensus size: 61
59323 ATTTATTTTT
* * **
59333 AAAAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGGAAACTT-TAATT-TTG
1 AAAAAAAA-TGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAACTTATTATTAAAG
** * * * * * *
59393 AGGAAAATTGATACTTTCAACTTTTCCTCCAAAAAAAAAACTTTTTTGGAAATTTATT-TTTAAG
1 AAAAAAAATGATACTTTCAACTTTTCCT-C---AAAAATATTTTTTTTGAAACTTATTATTAAAG
* * * * *
59457 ---AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTTAGAAACTT-TAATTTCAAG
1 AAAAAAAATGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTGAAACTTATTA-TTAAAG
* * * * ** * *
59515 --AAAAATTAATACTTTCAACTTTTCCTAAAAAAAAACCCTTTTTTGAAAATTTATT-TTTAAG
1 AAAAAAAATGATACTTTCAACTTTTCCT-CAAAAATA-TTTTTTTTG-AAACTTATTATTAAAG
* * * * **
59576 --AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTT-TAATT-TCG
1 AAAAAAAATGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTATTATTAAAG
* * * * * * *
59633 AGAAAAATTGATATTTTCAACTTTTCCTCAAAAAAAAAATTTTTTTGAAAATTTATT-TTTAAG
1 AAAAAAAATGATACTTTCAACTTTTCCTC--AAAAATATTTTTTTTG-AAACTTATTATTAAAG
* * *
59696 --GAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTAGAAAGCTTATT-TTCAAG
1 AAAAAAAATGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTT-GAAA-CTTATTATTAAAG
*
59756 --GAAAAATGATACTTTCAACTTTTCCTCAAAAATATTGTTTTTTG-AA-TT-TTATTAAAG
1 AAAAAAAATGATACTTTCAACTTTTCCTCAAAAATATT-TTTTTTGAAACTTATTATTAAAG
59813 AAAATAAAAT
1 AAAA-AAAAT
59823 AAAAATAAAA
Statistics
Matches: 343, Mismatches: 57, Indels: 60
0.75 0.12 0.13
Matches are distributed among these distances:
56 3 0.01
57 27 0.08
58 12 0.03
59 96 0.28
60 66 0.19
61 95 0.28
62 18 0.05
63 24 0.07
64 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (61 bp):
AAAAAAAATGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTATTATTAAAG
Found at i:59829 original size:6 final size:6
Alignment explanation
Indices: 59813--59968 Score: 70
Period size: 6 Copynumber: 24.7 Consensus size: 6
59803 TTTATTAAAG
*
59813 AAAAT- AAAATA AAAATA AAAATA AAGGAAAA TAAAATA AAAATA AAAAGTA
1 AAAATA AAAATA AAAATA AAAATA AA--AATA -AAAATA AAAATA AAAA-TA
* * ** * *
59864 TTAAACA AATCTA ATAAAT- -AAATA AATAATA ATAATA ATAAATA AATATA
1 -AAAATA AAAATA A-AAATA AAAATA AA-AATA AAAATA A-AAATA AAAATA
* * *
59914 TAAATA TATAA-A AAAATA AAAAAA TAAAATGA AAAATGA AAAATGA AAAA-A
1 AAAATA -AAAATA AAAATA AAAATA -AAAAT-A AAAAT-A AAAAT-A AAAATA
59965 AAAA
1 AAAA
59969 CCTGGAACAT
Statistics
Matches: 116, Mismatches: 20, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
4 4 0.03
5 13 0.11
6 48 0.41
7 42 0.36
8 7 0.06
9 2 0.02
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:59844 original size:27 final size:26
Alignment explanation
Indices: 59808--59860 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
59798 TGAATTTTAT
59808 TAAAGAAAATAAAATAAAAATAAAAA
1 TAAAGAAAATAAAATAAAAATAAAAA
59834 TAAAGGAAAATAAAATAAAAATAAAAA
1 TAAA-GAAAATAAAATAAAAATAAAAA
59861 GTATTAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (26 bp):
TAAAGAAAATAAAATAAAAATAAAAA
Found at i:59850 original size:21 final size:22
Alignment explanation
Indices: 59818--59858 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
59808 TAAAGAAAAT
59818 AAAATAAAAATAAAAATAAAGG
1 AAAATAAAAATAAAAATAAAGG
59840 AAAAT-AAAATAAAAATAAA
1 AAAATAAAAATAAAAATAAA
59859 AAGTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAGG
Found at i:59859 original size:16 final size:16
Alignment explanation
Indices: 59813--59955 Score: 60
Period size: 16 Copynumber: 8.2 Consensus size: 16
59803 TTTATTAAAG
59813 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
**
59829 AAAA-ATAAAGGAAAAT
1 AAAATA-AAATAAAAAT
59845 AAAATAAAAATAAAAAGT
1 AAAAT-AAAATAAAAA-T
* *
59863 ATTAAACAAATCTAATAAAT
1 A--AAATAAA-ATAA-AAAT
*
59883 -AAAT-AAATAATAAT
1 AAAATAAAATAAAAAT
59897 AATAAT-AAATAAATATAT
1 AA-AATAAAATAAA-A-AT
* *
59915 AAATATATAAAAAAATAAA
1 AAA-ATA-AAATAAA-AAT
59934 AAAATAAAATGAAAAAT
1 AAAATAAAAT-AAAAAT
59951 GAAAA
1 -AAAA
59956 ATGAAAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 32
0.68 0.10 0.23
Matches are distributed among these distances:
14 3 0.03
15 5 0.05
16 27 0.28
17 17 0.18
18 19 0.20
19 7 0.07
20 15 0.16
21 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:59885 original size:4 final size:4
Alignment explanation
Indices: 59876--59941 Score: 68
Period size: 4 Copynumber: 17.5 Consensus size: 4
59866 AAACAAATCT
*
59876 AATA AATA AATA AAT- AAT- AAT- AAT- AATA AATA AATA TATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * *
59920 TATA AAAA AATA AAAA AATA AA
1 AATA AATA AATA AATA AATA AA
59942 ATGAAAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 12 0.23
4 41 0.77
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:59907 original size:24 final size:25
Alignment explanation
Indices: 59875--59940 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 25
59865 TAAACAAATC
59875 TAATAAATAAATAAATAATA-ATAA
1 TAATAAATAAATAAATAATATATAA
*
59899 TAATAAATAAATATATAAATATATAA
1 TAATAAATAAATAAAT-AATATATAA
*
59925 -AA-AAATAAAAAAATAA
1 TAATAAATAAATAAATAA
59941 AATGAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 2 0.05
24 25 0.68
25 6 0.16
26 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
TAATAAATAAATAAATAATATATAA
Found at i:59924 original size:20 final size:20
Alignment explanation
Indices: 59846--59931 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
59836 AAGGAAAATA
* *
59846 AAATAAAAATAAAAAGTAT-T
1 AAATAAATATATAAA-TATAT
* * *
59866 AAACAAATCTAATAAATAAAT
1 AAATAAATAT-ATAAATATAT
59887 AAAT-AATA-AT-AATA-AT
1 AAATAAATATATAAATATAT
59903 AAATAAATATATAAATATAT
1 AAATAAATATATAAATATAT
*
59923 AAAAAAATA
1 AAATAAATA
59932 AAAAAATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
16 6 0.12
17 8 0.15
18 4 0.08
19 4 0.08
20 22 0.42
21 8 0.15
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (20 bp):
AAATAAATATATAAATATAT
Found at i:59941 original size:24 final size:28
Alignment explanation
Indices: 59876--59941 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
59866 AAACAAATCT
59876 AATAAATAAATAAATAATAATAATAATA
1 AATAAATAAATAAATAATAATAATAATA
* *
59904 AATAAATATATAAATATATAA-AAAAATA
1 AATAAATAAATAAATA-ATAATAATAATA
*
59932 AAAAAATAAA
1 AATAAATAAA
59942 ATGAAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (28 bp):
AATAAATAAATAAATAATAATAATAATA
Found at i:59948 original size:14 final size:13
Alignment explanation
Indices: 59923--59968 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
59913 ATAAATATAT
59923 AAAAAAAT-AAAA
1 AAAAAAATGAAAA
59935 AAATAAAATGAAAA
1 AAA-AAAATGAAAA
*
59949 ATGAAAAATGAAAA
1 A-AAAAAATGAAAA
59963 AAAAAA
1 AAAAAA
59969 CCTGGAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 16 0.55
15 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAAAAATGAAAA
Done.