Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 57 of 147
Found at i:10985961 original size:13 final size:13
Alignment explanation
Indices: 10985943--10985969 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10985933 AAATGAATTC
10985943 ATGACATGGTTAT
1 ATGACATGGTTAT
10985956 ATGACATGGTTAT
1 ATGACATGGTTAT
10985969 A
1 A
10985970 AGAAATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
ATGACATGGTTAT
Found at i:10989351 original size:17 final size:18
Alignment explanation
Indices: 10989306--10989351 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
10989296 TATTCTTTTT
10989306 TTTTTGTTTTTTGCAAAA
1 TTTTTGTTTTTTGCAAAA
**
10989324 TTTTTCATTTTT-CAAAA
1 TTTTTGTTTTTTGCAAAA
10989341 TTTTTGTTTTT
1 TTTTTGTTTTT
10989352 GAAAAATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTGTTTTTTGCAAAA
Found at i:10989357 original size:17 final size:17
Alignment explanation
Indices: 10989306--10989358 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
10989296 TATTCTTTTT
10989306 TTTTTGTTTTTTGCAAAA
1 TTTTTG-TTTTTGCAAAA
*
10989324 TTTTTCATTTTT-CAAAA
1 TTTTT-GTTTTTGCAAAA
*
10989341 TTTTTGTTTTTGAAAAA
1 TTTTTGTTTTTGCAAAA
10989358 T
1 T
10989359 AGAAATAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.17
17 15 0.50
18 10 0.33
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (17 bp):
TTTTTGTTTTTGCAAAA
Found at i:10989616 original size:18 final size:20
Alignment explanation
Indices: 10989595--10989632 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10989585 AATTATTTTT
10989595 TTAA-TAAAAATT-TTAAAA
1 TTAATTAAAAATTATTAAAA
*
10989613 TTAATTAAAACTTATTAAAA
1 TTAATTAAAAATTATTAAAA
10989633 ATATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAATTAAAAATTATTAAAA
Found at i:10993393 original size:18 final size:19
Alignment explanation
Indices: 10993352--10993394 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
10993342 TTTATTAAGG
10993352 AAATATAAAAAATTAAAGTT
1 AAAT-TAAAAAATTAAAGTT
*
10993372 -AATTAAAAAA-TAAATTT
1 AAATTAAAAAATTAAAGTT
10993389 AAATTA
1 AAATTA
10993395 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAAAAAATTAAAGTT
Found at i:10995174 original size:20 final size:22
Alignment explanation
Indices: 10995141--10995184 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
10995131 TCATTTTTCC
*
10995141 TTTTTTTCTTTTC-TTTTCTTT
1 TTTTTTTCTCTTCTTTTTCTTT
10995162 TTTTTTTC-CTTCTTTTTCTTT
1 TTTTTTTCTCTTCTTTTTCTTT
10995183 TT
1 TT
10995185 CTTCCTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTCTTCTTTTTCTTT
Found at i:10995188 original size:15 final size:16
Alignment explanation
Indices: 10995129--10995185 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
10995119 TTTTAAATAG
10995129 TTTCATTTTTCCTT-TT
1 TTTC-TTTTTCCTTCTT
*
10995145 TTTC-TTTTCTTTTCTT
1 TTTCTTTTTC-CTTCTT
10995161 TTT-TTTTTCCTTCTT
1 TTTCTTTTTCCTTCTT
10995176 TTTCTTTTTC
1 TTTCTTTTTC
10995186 TTCCTACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.14
15 10 0.29
16 20 0.57
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTCCTTCTT
Found at i:10995189 original size:19 final size:19
Alignment explanation
Indices: 10995143--10995200 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
10995133 ATTTTTCCTT
*
10995143 TTTTTCTT--TTCTTTTCTT
1 TTTTTCTTCCTTCTTTT-TC
*
10995161 TTTTTTTTCCTTCTTTTTC
1 TTTTTCTTCCTTCTTTTTC
* *
10995180 TTTTTCTTCCTACATTTTC
1 TTTTTCTTCCTTCTTTTTC
10995199 TT
1 TT
10995201 CTCTCTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 7 0.21
19 19 0.58
20 7 0.21
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCTTCCTTCTTTTTC
Found at i:11000000 original size:5 final size:5
Alignment explanation
Indices: 10999991--11000073 Score: 55
Period size: 5 Copynumber: 15.8 Consensus size: 5
10999981 TTCATTTTCC
* * *
10999991 CTTTT TTTTT CTTTT CTTTT CTTTT -TTTT C-CTT CTTTTT CTTTCT CTTCCTA
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT C-TTTT CTTT-T CTT--TT
11000043 CATTTT CTTTT -TTTT CCTTTT CTTTCT CTTT
1 C-TTTT CTTTT CTTTT -CTTTT CTTT-T CTTT
11000074 CTCCTTCCTG
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
4 11 0.18
5 29 0.47
6 18 0.29
7 1 0.02
8 3 0.05
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (5 bp):
CTTTT
Found at i:11000017 original size:19 final size:19
Alignment explanation
Indices: 10999993--11000061 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
10999983 CATTTTCCCT
*
10999993 TTTTTTTTCTTTTC-TTTTC
1 TTTTTTTTC-CTTCATTTTC
*
11000012 TTTTTTTTCCTTCTTTTTC
1 TTTTTTTTCCTTCATTTTC
* * *
11000031 TTTCTCTTCCTACATTTTC
1 TTTTTTTTCCTTCATTTTC
11000050 TTTTTTTTCCTT
1 TTTTTTTTCCTT
11000062 TTCTTTCTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 3 0.07
19 38 0.93
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTTCCTTCATTTTC
Found at i:11000025 original size:23 final size:23
Alignment explanation
Indices: 10999992--11000038 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
10999982 TCATTTTCCC
10999992 TTTTTTTTTC-TTTTCTTT-TCT
1 TTTTTTTTTCTTTTTCTTTCTCT
11000013 TTTTTTTCCTTCTTTTTCTTTCTCT
1 TTTTTTT--TTCTTTTTCTTTCTCT
11000038 T
1 T
11000039 CCTACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
23 3 0.14
24 8 0.36
25 4 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTCTTTTTCTTTCTCT
Found at i:11000049 original size:38 final size:40
Alignment explanation
Indices: 11000007--11000082 Score: 120
Period size: 38 Copynumber: 1.9 Consensus size: 40
10999997 TTTTCTTTTC
*
11000007 TTTTCTTTTTTTTCC-TTCTTTTTCTTTCT-CTTCCTACA
1 TTTTCTTTTTTTTCCTTTCTTTCTCTTTCTCCTTCCTACA
11000045 TTTTCTTTTTTTTCCTTTTCTTTCTCTTTCTCCTTCCT
1 TTTTCTTTTTTTTCC-TTTCTTTCTCTTTCTCCTTCCT
11000083 GTTTCCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 15 0.44
40 13 0.38
41 6 0.18
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.70
Consensus pattern (40 bp):
TTTTCTTTTTTTTCCTTTCTTTCTCTTTCTCCTTCCTACA
Found at i:11000068 original size:19 final size:18
Alignment explanation
Indices: 10999993--11000069 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
10999983 CATTTTCCCT
*
10999993 TTTTTTTTCTTTTCTTTTC
1 TTTTTTTTCCTTT-TTTTC
11000012 TTTTTTTTCCTTCTTTTTC
1 TTTTTTTTCCTT-TTTTTC
* * **
11000031 TTTCTCTTCCTACATTTTC
1 TTTTTTTTCCT-TTTTTTC
11000050 TTTTTTTTCCTTTTCTTTC
1 TTTTTTTTCCTTTT-TTTC
11000069 T
1 T
11000070 CTTTCTCCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
18 1 0.02
19 44 0.96
20 1 0.02
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTTTCCTTTTTTTC
Found at i:11000093 original size:38 final size:36
Alignment explanation
Indices: 11000008--11000095 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 36
10999998 TTTCTTTTCT
* *
11000008 TTTCTTTTTTTTCCTTCTTTTTCTTTCTCTTCCTACAT
1 TTTCTTTTTTTTCCTTCTTTCTCTTTCTCTTCCT--AG
11000046 TTTCTTTTTTTTCCTTTTCTTTCTCTTTCTCCTTCCT-G
1 TTTCTTTTTTTTCC--TTCTTTCTCTTTCT-CTTCCTAG
*
11000084 TTTCCTTTTTTT
1 TTTCTTTTTTTT
11000096 ATTTTTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
38 25 0.57
40 13 0.30
41 6 0.14
ACGTcount: A:0.02, C:0.26, G:0.01, T:0.70
Consensus pattern (36 bp):
TTTCTTTTTTTTCCTTCTTTCTCTTTCTCTTCCTAG
Found at i:11000094 original size:40 final size:37
Alignment explanation
Indices: 11000011--11000095 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 37
11000001 CTTTTCTTTT
* *
11000011 CTTTTTTTTCCTTCTTTTTCTTTCTCTTCCTACATTTT
1 CTTTTTTTTCCTTCTTTCTCTTTCTCTTCCTA-ATTTC
*
11000049 CTTTTTTTTCCTTTTCTTTCTCTTTCTCCTTCCT-GTTTC
1 CTTTTTTTTCC--TTCTTTCTCTTTCT-CTTCCTAATTTC
11000088 CTTTTTTT
1 CTTTTTTT
11000096 ATTTTTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 11 0.27
39 11 0.27
40 13 0.32
41 6 0.15
ACGTcount: A:0.02, C:0.27, G:0.01, T:0.69
Consensus pattern (37 bp):
CTTTTTTTTCCTTCTTTCTCTTTCTCTTCCTAATTTC
Found at i:11001942 original size:605 final size:606
Alignment explanation
Indices: 11000760--11001993 Score: 2283
Period size: 605 Copynumber: 2.0 Consensus size: 606
11000750 GTTCTTCTAA
* *
11000760 ATGCACCAAACTTTGAGCAAGGGGAGTCAGAAAGAGATATGCCAGTTTCGCACAATTCCATACTT
1 ATGCACCAAACTTTGAGCAAGGGGAGTCAGAAAGAGATATGCCAATTTCGCACAATCCCATACTT
11000825 TCATAGTCTTAAGACTTTGGAGGTTAACAAGATGGGTGGGCCCTTTCCATATCCACTGTAGTTCT
66 TCATAGTCTTAAGACTTTGGAGGTTAACAAGATGGGTGGGCCCTTTCCATATCCACTGTAGTTCT
*
11000890 GGTAATGACTTTAGCTCCAAAGAAGTTAAATTAGAGAGTGGTCGTGCCTGACATGAATTCATTGA
131 GGTAATGACTCTAGCTCCAAAGAAGTTAAATTAGAGAGTGGTCGTGCCTGACATGAATTCATTGA
11000955 TTGAAAAGGTAAATAAATATAGAAAAAACATTACATACAAAGGCAATAATAGTAGTTATTGAATA
196 TTGAAAAGGTAAATAAATATAGAAAAAACATTACATACAAAGGCAATAATAGTAGTTATTGAATA
*
11001020 ATATATAATTTAATAAAGAATAAAAAAAAAGAGAAAAAATACATTGATTTTATAAAGTGTACTAA
261 ATATATAATTTAATAAAGAATAAAAAAAAAGAG-AAAAATACAATGATTTTATAAAGTGTACTAA
*
11001085 TAAAGAGAACAAAAAAAGATATATAGTGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
325 TAAAGAGAAAAAAAAAAGATATATAGTGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
* *
11001150 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTCGTCTCTTCTAATCTTCAATAGAGGTTA
390 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTCATCTCTTCTAATCTTCAATAGAAGTTA
* *
11001215 ATTATATGAGCAATATATAAAGTTTAGCGATTTCTCATTATCCATTATAGGAAAAATGGAGAGAA
455 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
*
11001280 AACAGATACCTCAAGCTCTCCCACTTCTTGGGGAAAATCAAAGACTTGTTCTAATCTATGGCACC
520 AACAGATACCTCAAGCTCTCCCACTTCTTGGGGAAAATCAAAGACTTGTTCTAATCTATCGCACC
*
11001345 CAGATATTTCAAGTTCCTGTAG
585 CAAATATTTCAAGTTCCTGTAG
* *
11001367 ATGCACCAAACTTTGAGCAAGGGGAGTCGGAAAGAGATATGCCAATTTCGCACAGTCCCATA-TT
1 ATGCACCAAACTTTGAGCAAGGGGAGTCAGAAAGAGATATGCCAATTTCGCACAATCCCATACTT
11001431 GTCATAGTCTTAAGACTTTGGAGGTTAACAAGATGGGTGGGCCCTTTCCATATCCACTGTAGTTC
66 -TCATAGTCTTAAGACTTTGGAGGTTAACAAGATGGGTGGGCCCTTTCCATATCCACTGTAGTTC
11001496 TGGTAATGACTCTAGCTCCAAAGAAGTTAAATTAGAGAGTGGTCGTGCCTGACATGAATTCATTG
130 TGGTAATGACTCTAGCTCCAAAGAAGTTAAATTAGAGAGTGGTCGTGCCTGACATGAATTCATTG
11001561 ATTGAAAAGGTAAATAAATATAGAAAAAACATTACATACAAAGGCAATAATAGTAGTTATTGAAT
195 ATTGAAAAGGTAAATAAATATAGAAAAAACATTACATACAAAGGCAATAATAGTAGTTATTGAAT
11001626 AATATATAATTTAATAAAGAATAAAAAAAAAGAG-AAAATACAATGATTTTATAAAGTGTACTAA
260 AATATATAATTTAATAAAGAATAAAAAAAAAGAGAAAAATACAATGATTTTATAAAGTGTACTAA
11001690 TAAAGAGAAAAAAAAAAGATATATAGTGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
325 TAAAGAGAAAAAAAAAAGATATATAGTGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
*
11001755 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
390 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTCATCTCTTCTAATCTTCAATAGAAGTTA
11001820 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
455 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
*
11001885 AACAGATACCTCAAGCTCTCCCACTTCTTGGGGAAAATCAAAGACTTGTTCTAATCTATCGCACT
520 AACAGATACCTCAAGCTCTCCCACTTCTTGGGGAAAATCAAAGACTTGTTCTAATCTATCGCACC
*
11001950 CAAATATTTCAAGTTCTTGTAG
585 CAAATATTTCAAGTTCCTGTAG
*
11001972 ATGCAACAAACTTTGAGCAAGG
1 ATGCACCAAACTTTGAGCAAGG
11001994 CAAGGCGGGA
Statistics
Matches: 609, Mismatches: 17, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
605 322 0.53
606 2 0.00
607 285 0.47
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (606 bp):
ATGCACCAAACTTTGAGCAAGGGGAGTCAGAAAGAGATATGCCAATTTCGCACAATCCCATACTT
TCATAGTCTTAAGACTTTGGAGGTTAACAAGATGGGTGGGCCCTTTCCATATCCACTGTAGTTCT
GGTAATGACTCTAGCTCCAAAGAAGTTAAATTAGAGAGTGGTCGTGCCTGACATGAATTCATTGA
TTGAAAAGGTAAATAAATATAGAAAAAACATTACATACAAAGGCAATAATAGTAGTTATTGAATA
ATATATAATTTAATAAAGAATAAAAAAAAAGAGAAAAATACAATGATTTTATAAAGTGTACTAAT
AAAGAGAAAAAAAAAAGATATATAGTGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATAC
ATTTAGATTAGTTACTAATATAATTTAATTAAACTTCATCTCTTCTAATCTTCAATAGAAGTTAA
TTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAAA
ACAGATACCTCAAGCTCTCCCACTTCTTGGGGAAAATCAAAGACTTGTTCTAATCTATCGCACCC
AAATATTTCAAGTTCCTGTAG
Found at i:11003088 original size:20 final size:21
Alignment explanation
Indices: 11003063--11003103 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11003053 TAAATTACTT
11003063 AATAAAGTAA-AT-AAAAGAAA
1 AATAAA-TAACATAAAAAGAAA
11003083 AATAAATAACATAAAAAGAAA
1 AATAAATAACATAAAAAGAAA
11003104 TACTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 8 0.42
21 8 0.42
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (21 bp):
AATAAATAACATAAAAAGAAA
Found at i:11009907 original size:17 final size:19
Alignment explanation
Indices: 11009880--11009915 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11009870 TTATGATTTT
11009880 TAATCTTTAAAA-ATAAAA
1 TAATCTTTAAAATATAAAA
11009898 TAAT-TTTAAAATATAAAA
1 TAATCTTTAAAATATAAAA
11009916 ATAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATCTTTAAAATATAAAA
Found at i:11009938 original size:21 final size:23
Alignment explanation
Indices: 11009888--11009940 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
11009878 TTTAATCTTT
*
11009888 AAAAATAAAATAATTTTAAAATAT
1 AAAAAT-AAATAATTTTAAAATAA
*
11009912 AAAAATAAA-AATTTT-AGATAA
1 AAAAATAAATAATTTTAAAATAA
11009933 AAAAATAA
1 AAAAATAA
11009941 TTTCCAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 6 0.22
23 3 0.11
24 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAATAAATAATTTTAAAATAA
Found at i:11010271 original size:20 final size:19
Alignment explanation
Indices: 11010248--11010287 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11010238 TGAATAAAAA
* *
11010248 TAAATTTAATTGTTTAATTT
1 TAAATTCAATTATTT-ATTT
11010268 TAAATTCAATTATTTATTT
1 TAAATTCAATTATTTATTT
11010287 T
1 T
11010288 CAAACAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TAAATTCAATTATTTATTT
Found at i:11012308 original size:24 final size:24
Alignment explanation
Indices: 11012286--11012345 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
11012276 TAATGTAAAA
11012286 AAAAAACATAAAGTAATTTTAAAATAT
1 AAAAAA-ATAAA--AATTTTAAAATAT
*
11012313 AAAAAAATAAAAATTTT-AAATGTT
1 AAAAAAATAAAAATTTTAAAAT-AT
11012337 AAAAAAATA
1 AAAAAAATA
11012346 TAAGACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 4 0.13
24 16 0.52
26 5 0.16
27 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (24 bp):
AAAAAAATAAAAATTTTAAAATAT
Found at i:11014990 original size:40 final size:40
Alignment explanation
Indices: 11014916--11014991 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
11014906 TATGCATTTT
* * * **
11014916 ATTATTTCTCTCACATGTTTGTGTTAATTTTTTTTTGAAG
1 ATTATTTCTCACACATGTTTATATTAATGATTTTTTGAAG
*
11014956 ATTATTTCTCACATATGTTTATATTAATGATTTTTT
1 ATTATTTCTCACACATGTTTATATTAATGATTTTTT
11014992 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (40 bp):
ATTATTTCTCACACATGTTTATATTAATGATTTTTTGAAG
Found at i:11016398 original size:26 final size:25
Alignment explanation
Indices: 11016369--11016426 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
11016359 AATTAGAATA
11016369 AATATATTTTTATTAAAAAATATCTT
1 AATATATTTTTATTAAAAAATATC-T
* * *
11016395 AATAGATATTTATTAAAAATTATCT
1 AATATATTTTTATTAAAAAATATCT
11016420 -ATATATT
1 AATATATT
11016427 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
26 21 0.78
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
AATATATTTTTATTAAAAAATATCT
Found at i:11016521 original size:6 final size:6
Alignment explanation
Indices: 11016510--11016587 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
11016500 TTAAATATTT
* * * * *
11016510 ATAAAA ATAAAA ATAAAT TTAAAA TATTTAAAT ATAAAA ATAAAT AT-AAT
1 ATAAAA ATAAAA ATAAAA ATAAAA -A--TAAAA ATAAAA ATAAAA ATAAAA
*
11016560 ATAAAA CTATATAA ATAAAA ATAAAA AT
1 ATAAAA --ATAAAA ATAAAA ATAAAA AT
11016588 TATTTTTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.09
6 41 0.73
8 6 0.11
9 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (6 bp):
ATAAAA
Found at i:11016547 original size:15 final size:15
Alignment explanation
Indices: 11016522--11016582 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
11016512 AAAAATAAAA
*
11016522 ATAAATTTAAAATAT
1 ATAAATATAAAATAT
* *
11016537 TTAAATATAAAAATAA
1 ATAAATAT-AAAATAT
11016553 ATATAATATAAAACTAT
1 ATA-AATATAAAA-TAT
11016570 ATAAATA-AAAATA
1 ATAAATATAAAATA
11016583 AAAATTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 16 0.42
17 10 0.26
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATATAAAATAT
Found at i:11016551 original size:33 final size:32
Alignment explanation
Indices: 11016509--11016587 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
11016499 ATTAAATATT
* *
11016509 TATAAAAATAAAAATAAATTTAAAA-TATTTAAA
1 TATAAAAATAAAAAT-AATATAAAACTATAT-AA
*
11016542 TATAAAAATAAATATAATATAAAACTATATAA
1 TATAAAAATAAAAATAATATAAAACTATATAA
11016574 -ATAAAAATAAAAAT
1 TATAAAAATAAAAAT
11016588 TATTTTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.32
32 10 0.24
33 18 0.44
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (32 bp):
TATAAAAATAAAAATAATATAAAACTATATAA
Found at i:11019524 original size:18 final size:17
Alignment explanation
Indices: 11019478--11019531 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
11019468 TTTTTAGGAC
* *
11019478 TTTGGATTTTAAGAGGT
1 TTTGGATTTTTAGGGGT
*
11019495 TTT-GAATTTTAGGGGAT
1 TTTGGATTTTTAGGGG-T
11019512 TTTGGATTTTTAGGGGT
1 TTTGGATTTTTAGGGGT
11019529 TTT
1 TTT
11019532 AAAAACTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 9 0.29
17 11 0.35
18 11 0.35
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (17 bp):
TTTGGATTTTTAGGGGT
Found at i:11021074 original size:17 final size:16
Alignment explanation
Indices: 11021034--11021071 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11021024 TTTTTTAATA
*
11021034 ATTTTTTAATTATTAT
1 ATTTTTTAAATATTAT
*
11021050 ATATTTTAAATATT-T
1 ATTTTTTAAATATTAT
11021065 ATTTTTT
1 ATTTTTT
11021072 TTATTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTAAATATTAT
Found at i:11021746 original size:2 final size:2
Alignment explanation
Indices: 11021739--11021765 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11021729 TTATCCTAAC
11021739 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11021766 AAACCCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11027466 original size:36 final size:36
Alignment explanation
Indices: 11027421--11027509 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
11027411 ATCATTATTT
* *
11027421 TCTTAACTCGTGGTTTAGTCCCAATCGTCTTTATCC
1 TCTTGACTCGTGGTTCAGTCCCAATCGTCTTTATCC
* **
11027457 TCTTGACTCGTGGTTCAGTCTCGGTCGTCTTTATCC
1 TCTTGACTCGTGGTTCAGTCCCAATCGTCTTTATCC
* * *
11027493 TTTTGACTTGTAGTTCA
1 TCTTGACTCGTGGTTCA
11027510 ACCCTAGTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.44
Consensus pattern (36 bp):
TCTTGACTCGTGGTTCAGTCCCAATCGTCTTTATCC
Found at i:11028500 original size:23 final size:23
Alignment explanation
Indices: 11028432--11028488 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
11028422 ACCGCTATCC
11028432 AGTCCCATCAGGCCAACCACCCT
1 AGTCCCATCAGGCCAACCACCCT
11028455 AGTCCCATCAGGCCAACCACCCT
1 AGTCCCATCAGGCCAACCACCCT
11028478 AGTCCCATCAG
1 AGTCCCATCAG
11028489 ACCAGCGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.46, G:0.14, T:0.14
Consensus pattern (23 bp):
AGTCCCATCAGGCCAACCACCCT
Found at i:11029725 original size:3 final size:3
Alignment explanation
Indices: 11029717--11029760 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11029707 ATATGCATAG
11029717 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 AA
11029761 CTTTTCCTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11031374 original size:4 final size:4
Alignment explanation
Indices: 11031365--11031429 Score: 51
Period size: 4 Copynumber: 15.5 Consensus size: 4
11031355 CAATTCTAAC
* * *
11031365 TTTA TTTA TTTA TTTA TTTA TTTTC TTTA TTCA TTTTCA TTTA -TTA ATTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA
*
11031415 TTATA TTTT TTTA TT
1 TT-TA TTTA TTTA TT
11031430 AATTATTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
3 3 0.06
4 33 0.67
5 12 0.24
6 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:11031395 original size:13 final size:13
Alignment explanation
Indices: 11031364--11031409 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
11031354 CCAATTCTAA
11031364 CTTTATTTA-TTT
1 CTTTATTTATTTT
*
11031376 ATTTATTTATTTT
1 CTTTATTTATTTT
*
11031389 CTTTATTCATTTT
1 CTTTATTTATTTT
11031402 CATTTATT
1 C-TTTATT
11031410 AATTATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 8 0.28
13 15 0.52
14 6 0.21
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTATTTATTTT
Found at i:11031996 original size:29 final size:29
Alignment explanation
Indices: 11031950--11032026 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
11031940 ATTTTATGAA
*
11031950 AATTTAA-AA-TTTAATTTTTATATTA-T
1 AATTTAATAATTTTAGTTTTTATATTATT
*
11031976 AATTTATATAGTTTTAGTTTTTATATTATTTT
1 AATTTA-ATAATTTTAGTTTTTATATTA--TT
11032008 AATTTAATAATTTTAGTTT
1 AATTTAATAATTTTAGTTT
11032027 ATTCATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.14
27 1 0.02
28 1 0.02
29 15 0.36
31 12 0.29
32 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (29 bp):
AATTTAATAATTTTAGTTTTTATATTATT
Found at i:11032027 original size:29 final size:28
Alignment explanation
Indices: 11031950--11032028 Score: 72
Period size: 31 Copynumber: 2.8 Consensus size: 28
11031940 ATTTTATGAA
* *
11031950 AATTTAA-AA-TTTAATTTTTATATTAT
1 AATTTAATAATTTTAGTTTATATATTAT
* *
11031976 AATTTATATAGTTTTAGTTTTTATATTATTTT
1 AATTTA-ATAATTTTAG--TTTATA-TATTAT
11032008 AATTTAATAATTTTAGTTTAT
1 AATTTAATAATTTTAGTTTAT
11032029 TCATTAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 6 0.14
27 1 0.02
28 1 0.02
29 9 0.21
31 14 0.33
32 11 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
AATTTAATAATTTTAGTTTATATATTAT
Found at i:11032039 original size:32 final size:32
Alignment explanation
Indices: 11031975--11032040 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
11031965 TTTTATATTA
* *
11031975 TAATTTATATAGTTTTAGTTTTTATATTATTT
1 TAATTTATATAATTTTAGTTTTTATATAATTT
11032007 TAATTTA-ATAATTTTAGTTTATTCAT-TAATTT
1 TAATTTATATAATTTTAGTTT-TT-ATATAATTT
11032039 TA
1 TA
11032041 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 12 0.40
32 16 0.53
33 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (32 bp):
TAATTTATATAATTTTAGTTTTTATATAATTT
Found at i:11032228 original size:31 final size:31
Alignment explanation
Indices: 11032174--11032272 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
11032164 ATTATACAAA
11032174 TAATTTTTATATTAAAATAAAATTTAAAATT
1 TAATTTTTATATTAAAATAAAATTTAAAATT
* ** * *
11032205 TAATTTTTGTATTAGCATGAAATTTGAAATT
1 TAATTTTTATATTAAAATAAAATTTAAAATT
** * ** * *
11032236 TAATTCATATACTCTAATAAAATATGAAATT
1 TAATTTTTATATTAAAATAAAATTTAAAATT
11032267 TAATTT
1 TAATTT
11032273 CTCTAAGATA
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (31 bp):
TAATTTTTATATTAAAATAAAATTTAAAATT
Found at i:11032305 original size:11 final size:11
Alignment explanation
Indices: 11032289--11032321 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
11032279 GATAAAAATA
11032289 TTTTGAATTTT
1 TTTTGAATTTT
11032300 TTTTGAA-TTT
1 TTTTGAATTTT
11032310 TTTT-AATTTT
1 TTTTGAATTTT
11032320 TT
1 TT
11032322 AAAGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.10
10 12 0.57
11 7 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTTGAATTTT
Found at i:11032366 original size:13 final size:13
Alignment explanation
Indices: 11032348--11032381 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11032338 AATAAATGCC
*
11032348 ACAATATTATGTT
1 ACAATATTATATT
*
11032361 ACAATATTCTATT
1 ACAATATTATATT
11032374 ACAATATT
1 ACAATATT
11032382 GAAAAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (13 bp):
ACAATATTATATT
Found at i:11032622 original size:22 final size:21
Alignment explanation
Indices: 11032588--11032629 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
11032578 ATATGGAAAA
* *
11032588 AAAAATTTACACAAATTTATT
1 AAAAATCTACACAAACTTATT
11032609 AAAAATCTATCACAAACTTAT
1 AAAAATCTA-CACAAACTTAT
11032630 CAACATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATCTACACAAACTTATT
Found at i:11033109 original size:18 final size:18
Alignment explanation
Indices: 11033088--11033126 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11033078 GTATTTTATT
11033088 TTTATTT-TTGTTTATTCA
1 TTTATTTGTT-TTTATTCA
*
11033106 TTTATTTGTTTTTATTTA
1 TTTATTTGTTTTTATTCA
11033124 TTT
1 TTT
11033127 GCTAGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATTTGTTTTTATTCA
Found at i:11033408 original size:57 final size:56
Alignment explanation
Indices: 11033324--11033437 Score: 142
Period size: 57 Copynumber: 2.0 Consensus size: 56
11033314 AAGAAAATCC
** *
11033324 ATAAATTTCTACCAATAGATTGGAAGATTTT-TATGAGTTTGAAAATAATTTTGTAAAA
1 ATAAATTTCTACCAATAGATTAAAAGATTTTAT-TGA-TTTGAAAATAAATTT-TAAAA
* *
11033382 ATAAATTT-TATCAATATATTAAAAGATTTTATTGATTTGAAAATAAATTTTAAAA
1 ATAAATTTCTACCAATAGATTAAAAGATTTTATTGATTTGAAAATAAATTTTAAAA
11033437 A
1 A
11033438 ATTAAAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
55 6 0.12
56 14 0.28
57 21 0.42
58 9 0.18
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.41
Consensus pattern (56 bp):
ATAAATTTCTACCAATAGATTAAAAGATTTTATTGATTTGAAAATAAATTTTAAAA
Found at i:11033423 original size:56 final size:57
Alignment explanation
Indices: 11033324--11033437 Score: 144
Period size: 56 Copynumber: 2.0 Consensus size: 57
11033314 AAGAAAATCC
** *
11033324 ATAAATTTCTACCAATAGATTGGAAGATTTTTATGAGTTTGAAAATAATTTTGTAAAA
1 ATAAATTTCTACCAATAGATTAAAAGATTTTTATGAGTTTGAAAATAAATTT-TAAAA
* *
11033382 ATAAATTT-TATCAATATATTAAAAGA-TTTTATTGA-TTTGAAAATAAATTTTAAAA
1 ATAAATTTCTACCAATAGATTAAAAGATTTTTA-TGAGTTTGAAAATAAATTTTAAAA
11033437 A
1 A
11033438 ATTAAAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
55 6 0.12
56 19 0.38
57 17 0.34
58 8 0.16
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.41
Consensus pattern (57 bp):
ATAAATTTCTACCAATAGATTAAAAGATTTTTATGAGTTTGAAAATAAATTTTAAAA
Found at i:11034222 original size:7 final size:7
Alignment explanation
Indices: 11034210--11034249 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
11034200 CCTTTTCTTA
11034210 GGAGTTG
1 GGAGTTG
11034217 GGAGTTG
1 GGAGTTG
11034224 GGAGTTG
1 GGAGTTG
11034231 GGAGTTG
1 GGAGTTG
* *
11034238 GAAGATG
1 GGAGTTG
11034245 GGAGT
1 GGAGT
11034250 AATGACTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.55, T:0.25
Consensus pattern (7 bp):
GGAGTTG
Found at i:11040556 original size:22 final size:21
Alignment explanation
Indices: 11040519--11040560 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11040509 AAAAGAAGGG
11040519 AGAAAAAGAAAAAGGAGAAGA
1 AGAAAAAGAAAAAGGAGAAGA
11040540 AGAACAAA-AAAAGAGGAGAAG
1 AGAA-AAAGAAAA-AGGAGAAG
11040561 CTTTGGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (21 bp):
AGAAAAAGAAAAAGGAGAAGA
Found at i:11051865 original size:53 final size:52
Alignment explanation
Indices: 11051750--11051854 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 52
11051740 AGACAAGAAA
* * *
11051750 ACTTGTAGAAAAAGAATTCTAAGAGGAAAATAGATTTTTAATAGGCAAGTTTG
1 ACTTGTATAAGAAGAATTCTAAGA-GAAAAAAGATTTTTAATAGGCAAGTTTG
*
11051803 ACTTGTATAAGAAGAATTTTAAGA-AAAAAAGATTTCTTAATAGGCAAGTTTG
1 ACTTGTATAAGAAGAATTCTAAGAGAAAAAAGATTT-TTAATAGGCAAGTTTG
11051855 TATGCTTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
51 10 0.21
52 16 0.34
53 21 0.45
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (52 bp):
ACTTGTATAAGAAGAATTCTAAGAGAAAAAAGATTTTTAATAGGCAAGTTTG
Found at i:11052092 original size:35 final size:35
Alignment explanation
Indices: 11052036--11052108 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
11052026 ATAGATATGA
* * *
11052036 TGAATGGGTACATATGGGTATGTATTTTTTTGTGT
1 TGAAAGGGTACATATGGGTATGTATTTGTTTGGGT
* *
11052071 TGAAAGGGTGCATATGGGTATGTGTTTGTTTGGGT
1 TGAAAGGGTACATATGGGTATGTATTTGTTTGGGT
11052106 TGA
1 TGA
11052109 GAATATTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (35 bp):
TGAAAGGGTACATATGGGTATGTATTTGTTTGGGT
Found at i:11054325 original size:28 final size:28
Alignment explanation
Indices: 11054285--11054374 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 28
11054275 AATGAGACCT
11054285 GATTTCAATTCAACTGGGCTTCAAGTCC
1 GATTTCAATTCAACTGGGCTTCAAGTCC
*
11054313 GATTTCAATTCAATTGGGCTTCAAGTCC
1 GATTTCAATTCAACTGGGCTTCAAGTCC
* * * * *
11054341 AATTTCAATTCGACTGGGCCTAAAGTCT
1 GATTTCAATTCAACTGGGCTTCAAGTCC
11054369 GATTTC
1 GATTTC
11054375 GATCGGGCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (28 bp):
GATTTCAATTCAACTGGGCTTCAAGTCC
Found at i:11055546 original size:12 final size:12
Alignment explanation
Indices: 11055511--11055556 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11055501 TTTGTTGTTT
11055511 TATAATAATAAT-
1 TATAATAA-AATA
11055523 TAATAA-AAAATA
1 T-ATAATAAAATA
*
11055535 TATATTAAAATA
1 TATAATAAAATA
11055547 TATAATAAAA
1 TATAATAAAA
11055557 AAAATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 6 0.21
12 19 0.66
13 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATAATAAAATA
Found at i:11055748 original size:18 final size:18
Alignment explanation
Indices: 11055709--11055751 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11055699 ATATATAAAA
*
11055709 TAATAAATAAAAATTAAT
1 TAATAAATAAAAATTAAG
*
11055727 TAATAAATTAAGAA-TAAG
1 TAATAAA-TAAAAATTAAG
11055745 TAATAAA
1 TAATAAA
11055752 AAATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATTAAG
Found at i:11057164 original size:20 final size:20
Alignment explanation
Indices: 11057141--11057178 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11057131 ACAAAACAAA
11057141 CAAAAC-AAAACAAAAAATCT
1 CAAAACTAAAA-AAAAAATCT
11057161 CAAAACTAAAAAAAAAAT
1 CAAAACTAAAAAAAAAAT
11057179 GTTGTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.74, C:0.16, G:0.00, T:0.11
Consensus pattern (20 bp):
CAAAACTAAAAAAAAAATCT
Found at i:11066890 original size:14 final size:14
Alignment explanation
Indices: 11066866--11066904 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
11066856 TTTGCTTAAA
11066866 AAAAAGAAAAAAAGG
1 AAAAAG-AAAAAAGG
*
11066881 AAAAAGAAAAAAGT
1 AAAAAGAAAAAAGG
11066895 AAAAATGAAA
1 AAAAA-GAAA
11066905 TGAAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAAAGG
Found at i:11067811 original size:49 final size:49
Alignment explanation
Indices: 11067706--11067860 Score: 140
Period size: 49 Copynumber: 3.2 Consensus size: 49
11067696 TAAAAGATAG
* * *
11067706 ATTTTTAAAGTTGTTGAGTCTCTGCTGAGATGAGCTTTTTCCAGATGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGATGAGCTTTTTCCAGATGAA
* *
11067755 ATCTTTAAAGTTGTTGAGCCTCTGCTAAGA-GAAGC-TTTT-CAGATTTTAA
1 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGATG-AGCTTTTTCCAGA--TGAA
* * * * *
11067804 ATTTTTAAAAATTGTTGAGCATCTACTGAA-ATGAGC-TTTTCCAAATGAG
1 ATTTTT-AAAGTTGTTGAGCCTCTGCT-AAGATGAGCTTTTTCCAGATGAA
11067853 ATTTTTAA
1 ATTTTTAA
11067861 CCTTTGCTGA
Statistics
Matches: 87, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
47 4 0.05
48 7 0.08
49 45 0.52
50 25 0.29
51 6 0.07
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (49 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTAAGATGAGCTTTTTCCAGATGAA
Found at i:11068269 original size:28 final size:28
Alignment explanation
Indices: 11068196--11068270 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
11068186 ACCGAGACCT
* *
11068196 AATTTCAATTCAACTGGACTTCAGGCCT
1 AATTTCAATTCAACTGGGCTTCAGGCCC
* *
11068224 GATTTCAATTCAATTGGGCTTCAGGCCC
1 AATTTCAATTCAACTGGGCTTCAGGCCC
*
11068252 AATTTCAATTCGACTGGGC
1 AATTTCAATTCAACTGGGC
11068271 CTAAAGTCTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (28 bp):
AATTTCAATTCAACTGGGCTTCAGGCCC
Found at i:11068396 original size:27 final size:27
Alignment explanation
Indices: 11068360--11068411 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
11068350 AAATTAAACA
11068360 AAAATACAAAAAAATA-TACAAAAATAC
1 AAAATACAAAAAAATATTA-AAAAATAC
11068387 AAAATACAAAAAAATATTAAAAAAT
1 AAAATACAAAAAAATATTAAAAAAT
11068412 TAAAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAATACAAAAAAATATTAAAAAATAC
Found at i:11068417 original size:27 final size:26
Alignment explanation
Indices: 11068359--11068417 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
11068349 TAAATTAAAC
11068359 AAAAATACAAAAAAATATACAAAAAT
1 AAAAATACAAAAAAATATACAAAAAT
11068385 ACAAAATACAAAAAAATATTA-AAAAATT
1 A-AAAATACAAAAAAATA-TACAAAAA-T
11068413 AAAAA
1 AAAAA
11068418 AAGGGGGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.03
27 25 0.83
28 4 0.13
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (26 bp):
AAAAATACAAAAAAATATACAAAAAT
Found at i:11069662 original size:18 final size:18
Alignment explanation
Indices: 11069623--11069665 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11069613 ATATATAAAA
*
11069623 TAATAAATAAAAATGAAT
1 TAATAAATAAAAATGAAG
*
11069641 TAATAAATTAAGAAT-AAG
1 TAATAAA-TAAAAATGAAG
11069659 TAATAAA
1 TAATAAA
11069666 AAATGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
TAATAAATAAAAATGAAG
Found at i:11071366 original size:2 final size:2
Alignment explanation
Indices: 11071359--11071385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11071349 TAAATCCGTC
11071359 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11071386 AGTGGACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11073377 original size:256 final size:260
Alignment explanation
Indices: 11072985--11073469 Score: 646
Period size: 257 Copynumber: 1.9 Consensus size: 260
11072975 AAATTTTTAA
* * * * *
11072985 TAAAAATTTTAATTTGATTAAAACTTATTAGAAAGATATTTTTTTTTATATGAAAATGACATCTA
1 TAAAAATTTAAATTTAACTAAAACTTATTAGAAAGATATTTTTTTGTATATGAAAATCACATCTA
* * *** * * ***
11073050 GGTTCATGAATTATGGTTATGTGTGATGAATGATTAGCATTCCACAAAACCCATTAAAAAATGGT
66 AGTTCATGAAGTACAATTATGTGTGATGAAGGATTAGCATCCCACAAAACCCATTAAAAAACAAT
*
11073115 ACCAATTAATAACATAATATCCTTTATTATTGAT-AAAAGATGT-CCTTAATTTTAAAATTTAAA
131 ACCAATTAATAACATAATATCCTTTATTATTGATAAAAAAAT-TACCTTAATTTTAAAATTTAAA
11073178 AATAATTTCTTAAATCCCATTTATTAT-TATAAAACCCCCCTTTTGTCAATTTTTTTAGAATCGC
195 AATAATTTCTTAAATCCCATTTATTATCT-TAAAACCCCCCTTTTGTCAATTTTTTTAGAATCGC
11073242 TT
259 TT
*
11073244 TAAAAATTTAAATTTAACTAAAACTTATTA-AAA-ATATATTTTTTGTATGTGAAAA-CACATCT
1 TAAAAATTTAAATTTAACTAAAACTTATTAGAAAGATAT-TTTTTTGTATATGAAAATCACATCT
* * *
11073306 AAGTTTA-GAAGTACAATTGCATGTG-GAT-AAGGATTAGCATCCCATAATACCCATTAAAAAAC
65 AAGTTCATGAAGTACAATT--ATGTGTGATGAAGGATTAGCATCCCACAAAACCCATTAAAAAAC
* ** *
11073368 AATACCAATTAATAGCATGTTATTCTTTATTATTGATAAAAAAATTACCTTAATTTTAAAATTTA
128 AATACCAATTAATAACATAATATCCTTTATTATTGATAAAAAAATTACCTTAATTTTAAAATTTA
11073433 AAAATAATTTCTTAAATCCCATTTATTATCTTAAAAC
193 AAAATAATTTCTTAAATCCCATTTATTATCTTAAAAC
11073470 ATTTTTTTTC
Statistics
Matches: 196, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
256 68 0.35
257 77 0.39
258 24 0.12
259 27 0.14
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (260 bp):
TAAAAATTTAAATTTAACTAAAACTTATTAGAAAGATATTTTTTTGTATATGAAAATCACATCTA
AGTTCATGAAGTACAATTATGTGTGATGAAGGATTAGCATCCCACAAAACCCATTAAAAAACAAT
ACCAATTAATAACATAATATCCTTTATTATTGATAAAAAAATTACCTTAATTTTAAAATTTAAAA
ATAATTTCTTAAATCCCATTTATTATCTTAAAACCCCCCTTTTGTCAATTTTTTTAGAATCGCTT
Found at i:11073491 original size:256 final size:258
Alignment explanation
Indices: 11072985--11073501 Score: 620
Period size: 256 Copynumber: 2.0 Consensus size: 258
11072975 AAATTTTTAA
* * * * *
11072985 TAAAAATTTTAATTTGATTAAAACTTATTAGAAAGATATTTTTTTTTATATGAAAATGACATCTA
1 TAAAAATTTAAATTTAACTAAAACTTATTAGAAAGATATTTTTTTGTATATGAAAATCACATCTA
* * *** * * ***
11073050 GGTTCATGAATTATGGTTATGTGTGATGAATGATTAGCATTCCACAAAACCCATTAAAAAATGGT
66 AGTTCATGAAGTACAATTATGTGTGATGAAGGATTAGCATCCCACAAAACCCATTAAAAAACAAT
*
11073115 ACCAATTAATAACATAATATCCTTTATTATTGATAAAAGATGTCCTTAATTTTAAAATTTAAAAA
131 ACCAATTAATAACATAATATCCTTTATTATTGATAAAAAATGTCCTTAATTTTAAAATTTAAAAA
* *
11073180 TAATTTCTTAAATCCCATTTATTATTATAAAACCCCCCTTTTGTCAATTTTTTTAGAATCGCTT
196 TAATTTCTTAAATCCCATTTATTATTATAAAA-CCACCTTTTGTCAATCTTTTTAGAATCGCTT
*
11073244 TAAAAATTTAAATTTAACTAAAACTTATTA-AAA-ATATATTTTTTGTATGTGAAAA-CACATCT
1 TAAAAATTTAAATTTAACTAAAACTTATTAGAAAGATAT-TTTTTTGTATATGAAAATCACATCT
* * *
11073306 AAGTTTA-GAAGTACAATTGCATGTG-GAT-AAGGATTAGCATCCCATAATACCCATTAAAAAAC
65 AAGTTCATGAAGTACAATT--ATGTGTGATGAAGGATTAGCATCCCACAAAACCCATTAAAAAAC
* ** *
11073368 AATACCAATTAATAGCATGTTATTCTTTATTATTGATAAAAAAAT-TACCTTAATTTTAAAATTT
128 AATACCAATTAATAACATAATATCCTTTATTATTGAT-AAAAAATGT-CCTTAATTTTAAAATTT
** * *
11073432 AAAAATAATTTCTTAAATCCCATTTATTATCT-TAAAA-CATTTTTTTTCCATCCTTTTTAGAAT
191 AAAAATAATTTCTTAAATCCCATTTATTAT-TATAAAACCACCTTTTGTCAAT-CTTTTTAGAAT
*
11073495 TGCTT
254 CGCTT
11073500 TA
1 TA
11073502 TTTAGGAATC
Statistics
Matches: 220, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
255 9 0.04
256 84 0.38
257 76 0.35
258 24 0.11
259 27 0.12
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (258 bp):
TAAAAATTTAAATTTAACTAAAACTTATTAGAAAGATATTTTTTTGTATATGAAAATCACATCTA
AGTTCATGAAGTACAATTATGTGTGATGAAGGATTAGCATCCCACAAAACCCATTAAAAAACAAT
ACCAATTAATAACATAATATCCTTTATTATTGATAAAAAATGTCCTTAATTTTAAAATTTAAAAA
TAATTTCTTAAATCCCATTTATTATTATAAAACCACCTTTTGTCAATCTTTTTAGAATCGCTT
Found at i:11074799 original size:2 final size:2
Alignment explanation
Indices: 11074794--11074820 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11074784 ATTAAAAAAA
11074794 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11074821 CATGAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11077571 original size:18 final size:19
Alignment explanation
Indices: 11077548--11077588 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11077538 GTTCATTACT
11077548 TTTCTTTTTCA-TATTTTA
1 TTTCTTTTTCATTATTTTA
* *
11077566 TTTCTTTTTTATTTTTTTA
1 TTTCTTTTTCATTATTTTA
11077585 TTTC
1 TTTC
11077589 CTCCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCTTTTTCATTATTTTA
Found at i:11079763 original size:22 final size:21
Alignment explanation
Indices: 11079738--11079783 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
11079728 ACTTCCTACA
*
11079738 TTTTC-TTCTTTCATTTCTTTTT
1 TTTTCTTTCTTT--TTTCCTTTT
11079760 TTTTCTTTCTTTTTTCCTTTT
1 TTTTCTTTCTTTTTTCCTTTT
11079781 TTT
1 TTT
11079784 CCCTTCCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTCCTTTT
Found at i:11079770 original size:14 final size:15
Alignment explanation
Indices: 11079746--11079774 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11079736 CATTTTCTTC
11079746 TTTCATTTCTTTTTT
1 TTTCATTTCTTTTTT
11079761 TTTC-TTTCTTTTTT
1 TTTCATTTCTTTTTT
11079775 CCTTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCATTTCTTTTTT
Found at i:11080656 original size:16 final size:17
Alignment explanation
Indices: 11080621--11080658 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
11080611 ATACAAAGGT
11080621 AATAATAGTAGTTATTA
1 AATAATAGTAGTTATTA
11080638 AATAATA-TA-TTATTTA
1 AATAATAGTAGTTA-TTA
11080654 AATAA
1 AATAA
11080659 ACAACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 10 0.50
17 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
AATAATAGTAGTTATTA
Found at i:11085284 original size:21 final size:21
Alignment explanation
Indices: 11085259--11085307 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
11085249 AAAATACATG
11085259 AAAAATAATTTTAAA-GTATAA
1 AAAAATAATTTTAAATGT-TAA
*
11085280 AAAAAGAATTTTAAATGTTAA
1 AAAAATAATTTTAAATGTTAA
11085301 AAAAATA
1 AAAAATA
11085308 TAGGACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
AAAAATAATTTTAAATGTTAA
Found at i:11091451 original size:31 final size:30
Alignment explanation
Indices: 11091397--11091474 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
11091387 TATTTATATA
* ***
11091397 AAATTTAAAATTTAATTTTTATACTAGCACG
1 AAATTTGAAATTTAATCCATATACTAGCA-G
** *
11091428 AAATTTGAAATTTAATCCATATACTCTCAT
1 AAATTTGAAATTTAATCCATATACTAGCAG
11091458 AAATTTTGAAATTTAAT
1 AAA-TTTGAAATTTAAT
11091475 TCCTCTAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATTTGAAATTTAATCCATATACTAGCAG
Found at i:11091521 original size:19 final size:18
Alignment explanation
Indices: 11091488--11091532 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
11091478 TCTAATATAA
11091488 AAAATATTTTAAATTTTTT
1 AAAAT-TTTTAAATTTTTT
*
11091507 AGAAATTTTTTAATTTTTT
1 A-AAATTTTTAAATTTTTT
11091526 AAAATTT
1 AAAATTT
11091533 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 14 0.58
20 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
AAAATTTTTAAATTTTTT
Found at i:11092377 original size:17 final size:16
Alignment explanation
Indices: 11092332--11092377 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
11092322 TATTCAATAG
*
11092332 TTTAGTTTATTATATA
1 TTTAGTTAATTATATA
*
11092348 TTTTGTTATATTATATA
1 TTTAGTTA-ATTATATA
11092365 TTTAAGTTAATTA
1 TTT-AGTTAATTA
11092378 AAATAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 15 0.60
18 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (16 bp):
TTTAGTTAATTATATA
Found at i:11092405 original size:29 final size:27
Alignment explanation
Indices: 11092371--11092492 Score: 78
Period size: 26 Copynumber: 4.6 Consensus size: 27
11092361 TATATTTAAG
11092371 TTAATTAAAATAATATTAACTTTAATATA
1 TTAATTAAAATAATATTAA-TTTAATA-A
* *
11092400 TTAATTTAAAT--TATTAATTTTATAA
1 TTAATTAAAATAATATTAATTTAATAA
*
11092425 TTAATTAATATAA-ATGATAA--TAATAA
1 TTAATTAAAATAATAT--TAATTTAATAA
* * *
11092451 TATTATTAATATGATATT-A-TTAATAA
1 T-TAATTAAAATAATATTAATTTAATAA
*
11092477 TTAATTATATATAATA
1 TTAATTA-AAATAATA
11092493 AAAACATAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
25 16 0.21
26 29 0.38
27 16 0.21
28 5 0.07
29 10 0.13
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
TTAATTAAAATAATATTAATTTAATAA
Found at i:11092491 original size:43 final size:43
Alignment explanation
Indices: 11092409--11092493 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
11092399 ATTAATTTAA
* *
11092409 ATTATTAATTTTATAATTAATTAATATAAATGATAATAATAAT
1 ATTATTAATATGATAATTAATTAATATAAATGATAATAATAAT
* *
11092452 ATTATTAATATGAT-ATT-ATTAATAATTAATTATATATAATAA
1 ATTATTAATATGATAATTAATTAAT-ATAAATGATA-ATAATAA
11092494 AAACATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 6 0.17
42 11 0.31
43 19 0.53
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (43 bp):
ATTATTAATATGATAATTAATTAATATAAATGATAATAATAAT
Found at i:11093725 original size:52 final size:51
Alignment explanation
Indices: 11093638--11093793 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 51
11093628 GGATAAGAAA
*
11093638 ACTTACAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAA-A-GATTCTTAATAGGTAAGTTTG
*
11093690 ACTTACAAGAGAAGAATTCTAAGAGGAAAATGATTCTTAGTAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAA-GATTCTTAATAGGTAAGTTTG
* * * *
11093742 ACTTGC-AGAAAAAGAATTTTAAGAGGAAAAGAATTCTTAATGGGTAAGTTTG
1 ACTTACAAG-AGAAGAATTCTAAGAGGAAAAG-ATTCTTAATAGGTAAGTTTG
11093794 TATGGTTATA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 3 0.03
52 86 0.92
53 4 0.04
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.28
Consensus pattern (51 bp):
ACTTACAAGAGAAGAATTCTAAGAGGAAAAGATTCTTAATAGGTAAGTTTG
Found at i:11094317 original size:25 final size:25
Alignment explanation
Indices: 11094283--11094362 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
11094273 AAGTGGTATC
11094283 AGAGCTGAAGGTTCGAGATGT-GAAA
1 AGAGCTGAAGGTTCGAGATGTAG-AA
*
11094308 AGAGCTGAAGGTTCAAGATGTAGAA
1 AGAGCTGAAGGTTCGAGATGTAGAA
* * *
11094333 AGAGCTGAAGCTTCGAGATATAGGA
1 AGAGCTGAAGGTTCGAGATGTAGAA
11094358 AGAGC
1 AGAGC
11094363 ATGGTTTAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
25 48 0.98
26 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.19
Consensus pattern (25 bp):
AGAGCTGAAGGTTCGAGATGTAGAA
Found at i:11094763 original size:52 final size:52
Alignment explanation
Indices: 11094644--11094765 Score: 174
Period size: 52 Copynumber: 2.3 Consensus size: 52
11094634 GGATAAGAAA
* * *
11094644 ACTTACAAAAGAAAAATTTTAAGAGAATGAAGATTCTTAATAGGTAAGTTTG
1 ACTTACAAAAGAAGAATTTTAAGAGAATAAAGATTCTTAATAGGGAAGTTTG
*
11094696 ACTTACAAAAAAAGAATTTTAAGATGAA-AAAGATTCTTAATAGGGAAGTTTG
1 ACTTACAAAAGAAGAATTTTAAGA-GAATAAAGATTCTTAATAGGGAAGTTTG
**
11094748 ACTTACAGGAGAAGAATT
1 ACTTACAAAAGAAGAATT
11094766 CTAAAAGGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 59 0.95
53 3 0.05
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (52 bp):
ACTTACAAAAGAAGAATTTTAAGAGAATAAAGATTCTTAATAGGGAAGTTTG
Found at i:11094788 original size:52 final size:52
Alignment explanation
Indices: 11094673--11094776 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
11094663 TAAGAGAATG
* * * *
11094673 AAGATTCTTAATAGGTAAGTTTGACTTACAAAAAAAGAATTTTAAGATGAAA
1 AAGATTCTTAATAGGGAAGTTTGACTTACAAAAAAAGAATTCTAAAAGGAAA
** *
11094725 AAGATTCTTAATAGGGAAGTTTGACTTACAGGAGAAGAATTCTAAAAGGAAA
1 AAGATTCTTAATAGGGAAGTTTGACTTACAAAAAAAGAATTCTAAAAGGAAA
11094777 GGAATTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (52 bp):
AAGATTCTTAATAGGGAAGTTTGACTTACAAAAAAAGAATTCTAAAAGGAAA
Found at i:11097193 original size:12 final size:13
Alignment explanation
Indices: 11097178--11097238 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
11097168 ATTTTTAATA
11097178 TAAATATA-AAAT
1 TAAATATATAAAT
*
11097190 TAAATATATATAAA
1 TAAATATATA-AAT
11097204 TAAATATATAAA-
1 TAAATATATAAAT
*
11097216 TAATTATA-AAAT
1 TAAATATATAAAT
*
11097228 TAAATAAATAA
1 TAAATATATAA
11097239 TTTATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 3 0.07
12 21 0.51
13 5 0.12
14 12 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATATATAAAT
Found at i:11097207 original size:14 final size:13
Alignment explanation
Indices: 11097177--11097238 Score: 60
Period size: 14 Copynumber: 4.9 Consensus size: 13
11097167 TATTTTTAAT
11097177 ATAAATATA-AAA
1 ATAAATATATAAA
*
11097189 TTAAATATATATAA
1 ATAAATATATA-AA
11097203 ATAAATATAT-AA
1 ATAAATATATAAA
11097215 AT-AAT-TATAAA
1 ATAAATATATAAA
*
11097226 ATTAAATAAATAA
1 A-TAAATATATAA
11097239 TTTATATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
10 3 0.07
11 6 0.15
12 13 0.32
13 4 0.10
14 15 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAATATATAAA
Found at i:11097240 original size:12 final size:13
Alignment explanation
Indices: 11097173--11097240 Score: 63
Period size: 12 Copynumber: 5.4 Consensus size: 13
11097163 ATATTATTTT
11097173 TAATATAAATATAA
1 TAAT-TAAATATAA
11097187 -AATTAAATATATA
1 TAATTAAATATA-A
*
11097200 TAAATAAATAT-A
1 TAATTAAATATAA
* *
11097212 TAAATAATTATAA
1 TAATTAAATATAA
11097225 -AATTAAATA-AA
1 TAATTAAATATAA
11097236 TAATT
1 TAATT
11097241 TATATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
11 2 0.04
12 30 0.65
13 5 0.11
14 9 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATTAAATATAA
Found at i:11097320 original size:32 final size:33
Alignment explanation
Indices: 11097251--11097320 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
11097241 TATATTTTTA
* * *
11097251 AATTGTAATTTATATAATTTTAGTTTTTGTATT
1 AATTTTAATTTATATAATTTTAGTTTATGCATT
11097284 -ATTTTAATTTA-ATAATTTTAGTTTAAT-CATT
1 AATTTTAATTTATATAATTTTAGTTT-ATGCATT
11097315 AATTTT
1 AATTTT
11097321 GTTAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
31 16 0.50
32 16 0.50
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (33 bp):
AATTTTAATTTATATAATTTTAGTTTATGCATT
Found at i:11098757 original size:11 final size:11
Alignment explanation
Indices: 11098741--11098780 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
11098731 CAAACAAAAT
11098741 ATTTGTTTAGG
1 ATTTGTTTAGG
11098752 ATTTG-TTAGAG
1 ATTTGTTTAG-G
11098763 ATTTGTTTAGG
1 ATTTGTTTAGG
11098774 ATTTGTT
1 ATTTGTT
11098781 AGATATTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.15
11 19 0.70
12 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (11 bp):
ATTTGTTTAGG
Found at i:11098766 original size:22 final size:22
Alignment explanation
Indices: 11098741--11098783 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11098731 CAAACAAAAT
11098741 ATTTGTTTAGGATTTGTTAGAG
1 ATTTGTTTAGGATTTGTTAGAG
11098763 ATTTGTTTAGGATTTGTTAGA
1 ATTTGTTTAGGATTTGTTAGA
11098784 TATTGCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (22 bp):
ATTTGTTTAGGATTTGTTAGAG
Found at i:11098868 original size:51 final size:52
Alignment explanation
Indices: 11098804--11098907 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 52
11098794 TGGATAAGAA
*
11098804 GACTTGTAAAAAAAGAATTCT-AAGGGAAAATAGATTCTTAATAAGCAA-TTT
1 GACTTGTAAAAAAAGAATTCTAAAAGGAAAA-AGATTCTTAATAAGCAAGTTT
* * * *
11098855 GACTTGTAGAAAAAGAATTTTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGTAAAAAAAGAATTCTAAAAGGAAAAAGATTCTTAATAAGCAAGTTT
11098907 G
1 G
11098908 TATGGTTAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 34 0.74
52 12 0.26
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (52 bp):
GACTTGTAAAAAAAGAATTCTAAAAGGAAAAAGATTCTTAATAAGCAAGTTT
Found at i:11100720 original size:23 final size:21
Alignment explanation
Indices: 11100686--11100731 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
11100676 TTTTTTTTGA
11100686 ATTTTTTATATTTTATATATATT
1 ATTTTTTATATTTTA-AT-TATT
11100709 ATTTTTGT-TATTTTAATTATT
1 ATTTTT-TATATTTTAATTATT
11100730 AT
1 AT
11100732 GCTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 2 0.09
23 13 0.59
24 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTTTATATTTTAATTATT
Found at i:11113174 original size:49 final size:49
Alignment explanation
Indices: 11113122--11113603 Score: 367
Period size: 49 Copynumber: 9.8 Consensus size: 49
11113112 ACAGATTAAA
* *
11113122 ATTTAAAGTTGTTGAGCCTCTGCTGAGATGAACCCTTTTCAAGATAAGAAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTTCAAGATGAG-AT
* * * * *
11113173 TTTTAAAGTTGTTGAGCTTCTGTTGAGA-AGAGCTTTTTCAAAATGAGAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGAGA-ACCTTTTTCAAGATGAGAT
* * * *
11113222 TTTTAAAATTGTTGAGCCTCTGCTGAGAGAAACCCTTTTAAAGATGAGAAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGAG-AACCTTTTTCAAGATGAG-AT
* * * * * *
11113273 TTTTAAAGTAGTTGAACCTCTGCTGAGATGAGCTTTTTTC-ATATGAGAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTTCAAGATGAGAT
* ** * * *
11113322 TTTTAAAGTTGTCAAACCTTTGCTGAGAGGAA-CTTTTTCTAGATGAGAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTTCAAGATGAGAT
* * *
11113371 CTTTAAAGTTGTTAAGCCT-T--TGAGAGAAGCTTTTTC-AGATGAGAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGAGAACCTTTTTCAAGATGAGAT
* * * *
11113416 TTTTAAAGTTGTTAAGCCTCTGCTGAGAAAAGCTTTTTTC-AGATGAGAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGAGAA-CCTTTTTCAAGATGAGAT
* * * * * *
11113465 TTTTAAAGTTGTCGAGCTTTTGTTGAGAGGAA-CTTTTTCCAA-ATAAGAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTT-CAAGATGAGAT
* * * * * *
11113514 CTTTAAAGTTATCGAGCCTCTGCTGAGA-AGAGCTTTTTCAAGATAAAAT
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGAGA-ACCTTTTTCAAGATGAGAT
* * *
11113563 -TTTAAAATTGTTGAGCCTCTGCTAAGAGGAGCCTTTTTCAA
1 ATTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTTCAA
11113604 ATTTTAAAAT
Statistics
Matches: 355, Mismatches: 57, Indels: 40
0.79 0.13 0.09
Matches are distributed among these distances:
45 30 0.08
46 13 0.04
47 1 0.00
48 46 0.13
49 169 0.48
50 36 0.10
51 59 0.17
52 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (49 bp):
ATTTAAAGTTGTTGAGCCTCTGCTGAGAGAACCTTTTTCAAGATGAGAT
Found at i:11113238 original size:100 final size:98
Alignment explanation
Indices: 11113123--11113605 Score: 466
Period size: 100 Copynumber: 4.9 Consensus size: 98
11113113 CAGATTAAAA
* *
11113123 TTTAAAGTTGTTGAGCCTCTGCTGAGATGAACCCTTTTCAAGATAAGAATTTTTAAAGTTGTTGA
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
*
11113188 GCTTCTGTTGAGAAGAGCTTTTTCAAAATGAGATT
65 GCCTCTGTTGAGAAGAGCTTTTTC-AAATGAGATT
* * * *
11113223 TTTAAAATTGTTGAGCCTCTGCTGAGAGAAACCCTTTTAAAGATGAGAATTTTTAAAGTAGTTGA
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAG-AACCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
* * * *
11113288 ACCTCTGCTGAGATGAGCTTTTTTCATATGAGATT
65 GCCTCTGTTGAGAAGAGC-TTTTTCAAATGAGATT
** * * * * *
11113323 TTTAAAGTTGTCAAACCTTTGCTGAGAGGAA-CTTTTTCTAGATGAG-ATCTTTAAAGTTGTTAA
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAACCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
*
11113386 G-C-CT-TTGAG-AGAAGCTTTTTCAGATGAGATT
65 GCCTCTGTTGAGAAG-AGCTTTTTCAAATGAGATT
* * * *
11113417 TTTAAAGTTGTTAAGCCTCTGCTGAGAAAAGCTTTTTTC-AGATGAG-ATTTTTAAAGTTGTCGA
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGAA-CCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
* * * * * *
11113480 GCTTTTGTTGAGAGGAACTTTTTCCAAATAAGATC
65 GCCTCTGTTGAGAAGAGCTTTTT-CAAATGAGATT
* * * * *
11113515 TTTAAAGTTATCGAGCCTCTGCTGAGA-AGAGCTTTTTCAAGAT-A-AAATTTTAAAATTGTTGA
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGA-ACCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
* * *
11113577 GCCTCTGCTAAGAGGAGCCTTTTTCAAAT
65 GCCTCTGTTGAGAAGAG-CTTTTTCAAAT
11113606 TTTAAAATTT
Statistics
Matches: 316, Mismatches: 52, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
93 2 0.01
94 62 0.20
95 13 0.04
96 3 0.01
97 52 0.16
98 58 0.18
99 13 0.04
100 106 0.34
101 7 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (98 bp):
TTTAAAGTTGTTGAGCCTCTGCTGAGAGAACCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAG
CCTCTGTTGAGAAGAGCTTTTTCAAATGAGATT
Found at i:11113472 original size:143 final size:145
Alignment explanation
Indices: 11113123--11113585 Score: 463
Period size: 143 Copynumber: 3.2 Consensus size: 145
11113113 CAGATTAAAA
* * ** * *
11113123 TTTAAAGTTGTTGAGCCTCTGCTGAGATGAA-CCCTTTTCAAGATAAGAATTTTTAAAGTTGT-T
1 TTTAAAGTTGTTAAGCCTCTGCTGAGA-AAAGCTTTTTTC-AGATGAG-ATTTTTAAAGTTGTCA
* * * * * *
11113186 GAGCTTCTGTTGAGAAGAGCTTTTTCAAAATGAGATTTTTAAAATTGTTGAGCCTCTGCTGAGAG
63 AACCTT-TGTTGAGAGGAACTTTTTCAAAATGAGATCTTTAAAGTTGTTGAGCCTCT-CTGAGAG
* **
11113251 AAACCCTTTTAAAGATGAGAATT
126 -AA-GCTTTTTCAGATGAG-ATT
* ** *
11113274 TTTAAAGTAGTTGAA-CCTCTGCTGAGATGAGCTTTTTTCATATGAGATTTTTAAAGTTGTCAAA
1 TTTAAAGTTGTT-AAGCCTCTGCTGAGAAAAGCTTTTTTCAGATGAGATTTTTAAAGTTGTCAAA
* * * *
11113338 CCTTTGCTGAGAGGAACTTTTTCTAGATGAGATCTTTAAAGTTGTTAAGCCT-T-TGAGAGAAGC
65 CCTTTGTTGAGAGGAACTTTTTCAAAATGAGATCTTTAAAGTTGTTGAGCCTCTCTGAGAGAAGC
11113401 TTTTTCAGATGAGATT
130 TTTTTCAGATGAGATT
* *
11113417 TTTAAAGTTGTTAAGCCTCTGCTGAGAAAAGCTTTTTTCAGATGAGATTTTTAAAGTTGTCGAGC
1 TTTAAAGTTGTTAAGCCTCTGCTGAGAAAAGCTTTTTTCAGATGAGATTTTTAAAGTTGTCAAAC
* * * * *
11113482 TTTTGTTGAGAGGAACTTTTTCCAAATAAGATCTTTAAAGTTATCGAGCCTCTGCTGAGA-AGAG
66 CTTTGTTGAGAGGAACTTTTTCAAAATGAGATCTTTAAAGTTGTTGAGCCTCT-CTGAGAGA-AG
* *
11113546 CTTTTTCAAGAT-AAAAT
129 CTTTTTC-AGATGAGATT
* *
11113563 TTTAAAATTGTTGAGCCTCTGCT
1 TTTAAAGTTGTTAAGCCTCTGCT
11113586 AAGAGGAGCC
Statistics
Matches: 263, Mismatches: 40, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
142 2 0.01
143 102 0.39
144 13 0.05
145 3 0.01
146 44 0.17
147 4 0.02
148 1 0.00
149 54 0.21
150 10 0.04
151 29 0.11
152 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (145 bp):
TTTAAAGTTGTTAAGCCTCTGCTGAGAAAAGCTTTTTTCAGATGAGATTTTTAAAGTTGTCAAAC
CTTTGTTGAGAGGAACTTTTTCAAAATGAGATCTTTAAAGTTGTTGAGCCTCTCTGAGAGAAGCT
TTTTCAGATGAGATT
Found at i:11114039 original size:16 final size:15
Alignment explanation
Indices: 11114013--11114088 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 15
11114003 ATTAAATTAA
*
11114013 ACAAAAATACATAAT
1 ACAAAAATACAAAAT
11114028 ACAAATAATACAAAAT
1 ACAAA-AATACAAAAT
*
11114044 ACAAAAAATACCAAA-
1 AC-AAAAATACAAAAT
*
11114059 AC-AAAATACCAAAAA
1 ACAAAAATA-CAAAAT
*
11114074 ATATAAAATACAAAA
1 ACA-AAAATACAAAA
11114089 AAAATAGAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
13 6 0.12
14 4 0.08
15 8 0.16
16 24 0.47
17 9 0.18
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (15 bp):
ACAAAAATACAAAAT
Found at i:11114066 original size:13 final size:13
Alignment explanation
Indices: 11114048--11114072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11114038 CAAAATACAA
11114048 AAAATACCAAAAC
1 AAAATACCAAAAC
11114061 AAAATACCAAAA
1 AAAATACCAAAA
11114073 AATATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.20, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAATACCAAAAC
Found at i:11114081 original size:22 final size:21
Alignment explanation
Indices: 11114032--11114081 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
11114022 CATAATACAA
*
11114032 ATAATACAAAATACAAAAAAT
1 ATAAAACAAAATACAAAAAAT
*
11114053 ACCAAAACAAAATACCAAAAAAT
1 A-TAAAACAAAATA-CAAAAAAT
11114076 ATAAAA
1 ATAAAA
11114082 TACAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (21 bp):
ATAAAACAAAATACAAAAAAT
Found at i:11114101 original size:28 final size:30
Alignment explanation
Indices: 11114046--11114110 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 30
11114036 TACAAAATAC
11114046 AAAAAATACCAAAACAAAATACCAAAAAAT
1 AAAAAATACCAAAACAAAATACCAAAAAAT
* *
11114076 ATAAAATA-CAAAA-AAAATA-GAGAAAAAT
1 AAAAAATACCAAAACAAAATACCA-AAAAAT
11114104 AAAAAAT
1 AAAAAAT
11114111 GAGGGATGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 18 0.58
29 5 0.16
30 7 0.23
ACGTcount: A:0.75, C:0.09, G:0.03, T:0.12
Consensus pattern (30 bp):
AAAAAATACCAAAACAAAATACCAAAAAAT
Found at i:11115085 original size:21 final size:20
Alignment explanation
Indices: 11115055--11115107 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
11115045 TTTTTGAATT
11115055 TTTTTATATTTTATATATATTA
1 TTTTTATATTTTA-AT-TATTA
11115077 TTTTT-TATTTTAATTATTA
1 TTTTTATATTTTAATTATTA
*
11115096 TTCTTAATATTT
1 TT-TTTATATTT
11115108 ATTCATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 4 0.14
21 12 0.43
22 5 0.18
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTATATTTTAATTATTA
Found at i:11115459 original size:18 final size:18
Alignment explanation
Indices: 11115417--11115462 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
11115407 TTTCTTATAA
*
11115417 AATAATA-AATAAAAATT
1 AATAATATAATAAAAAAT
*
11115434 AATCAATATATTAAAAAAT
1 AAT-AATATAATAAAAAAT
11115453 AATAATATAA
1 AATAATATAA
11115463 ATAAGGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 10 0.42
19 11 0.46
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAATATAATAAAAAAT
Found at i:11117686 original size:14 final size:13
Alignment explanation
Indices: 11117667--11117720 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
11117657 AATTAAAATA
11117667 ATATTAAGTTTAAT
1 ATATTAA-TTTAAT
11117681 ATATTAATTTAA-
1 ATATTAATTTAAT
11117693 ATTATTAATGTT-AT
1 A-TATTAAT-TTAAT
11117707 A-ATTAA-TTAAT
1 ATATTAATTTAAT
11117718 ATA
1 ATA
11117721 AAAAATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 7 0.20
13 13 0.37
14 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (13 bp):
ATATTAATTTAAT
Found at i:11117689 original size:29 final size:31
Alignment explanation
Indices: 11117656--11117732 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 31
11117646 ATATTTAAGC
11117656 TAATTAAAATAATATTAA-GTT-TAA-TATAT
1 TAATTAAAATAATATTAATGTTATAATTA-AT
*
11117685 TAATTTAAAT--TATTAATGTTATAATTAAT
1 TAATTAAAATAATATTAATGTTATAATTAAT
*
11117714 TAATATAAAA-AATAATAAT
1 TAAT-TAAAATAATATTAAT
11117733 ATTGTTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 6 0.15
28 3 0.08
29 18 0.46
30 6 0.15
31 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (31 bp):
TAATTAAAATAATATTAATGTTATAATTAAT
Found at i:11119319 original size:2 final size:2
Alignment explanation
Indices: 11119312--11119337 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11119302 ATTAGTGAAT
11119312 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
11119338 AAGTAAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11120434 original size:29 final size:29
Alignment explanation
Indices: 11120402--11120465 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
11120392 TAATTGATCC
*
11120402 GTTTGAAATTTAGTTTACAATTTGTTTGA
1 GTTTGAAATATAGTTTACAATTTGTTTGA
*
11120431 GTTTGGAATATAGTTTACAATTTGTTTGA
1 GTTTGAAATATAGTTTACAATTTGTTTGA
11120460 GTTTGA
1 GTTTGA
11120466 TTCAAAGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (29 bp):
GTTTGAAATATAGTTTACAATTTGTTTGA
Found at i:11120545 original size:20 final size:20
Alignment explanation
Indices: 11120520--11120558 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11120510 TTCACTTTCA
11120520 TTTATTAATTATTGTATTTT
1 TTTATTAATTATTGTATTTT
*
11120540 TTTATTAATTATTTTATTT
1 TTTATTAATTATTGTATTT
11120559 GTGACCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTATTAATTATTGTATTTT
Found at i:11121084 original size:14 final size:14
Alignment explanation
Indices: 11121063--11121127 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
11121053 AAATTTGAAA
11121063 TTTAATTTTTATAT
1 TTTAATTTTTATAT
* *
11121077 TGTAATTTATATAAT
1 TTTAATTTTTAT-AT
*
11121092 TTTAGTTTTTACTAT
1 TTTAATTTTTA-TAT
* *
11121107 TTTAA-TTTAATAA
1 TTTAATTTTTATAT
11121120 TTTAATTT
1 TTTAATTT
11121128 AATCATTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
13 7 0.17
14 16 0.40
15 16 0.40
16 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:11121101 original size:29 final size:29
Alignment explanation
Indices: 11121063--11121127 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
11121053 AAATTTGAAA
11121063 TTTAATTTTTA-TATTGTAATTTATATAAT
1 TTTAATTTTTACTATTGTAATTTA-ATAAT
* *
11121092 TTTAGTTTTTACTATTTTAATTTAATAA-
1 TTTAATTTTTACTATTGTAATTTAATAAT
11121120 TTTAATTT
1 TTTAATTT
11121128 AATCATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.22
29 14 0.44
30 11 0.34
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTAATTTTTACTATTGTAATTTAATAAT
Found at i:11121123 original size:13 final size:13
Alignment explanation
Indices: 11121107--11121139 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11121097 TTTTTACTAT
11121107 TTTAATTTAATAA
1 TTTAATTTAATAA
*
11121120 TTTAATTTAATCA
1 TTTAATTTAATAA
11121133 -TTAATTT
1 TTTAATTT
11121140 TGTTAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAATTTAATAA
Found at i:11121303 original size:31 final size:31
Alignment explanation
Indices: 11121275--11121365 Score: 87
Period size: 31 Copynumber: 2.9 Consensus size: 31
11121265 AAATAATTTT
* *
11121275 TATACTTAAATAAAATTTAAAATTTAATTAC
1 TATACTTACATAAAATTTAAAATTTAATTAA
* * * *
11121306 TGTA-TTAGCACAAAATTTAAAATTTAGTTCA
1 TATACTTA-CATAAAATTTAAAATTTAATTAA
*
11121337 TATACTCT-CATAAAATTTGAAATTTAATT
1 TATACT-TACATAAAATTTAAAATTTAATT
11121366 CTTCTAATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
30 3 0.06
31 42 0.89
32 1 0.02
33 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (31 bp):
TATACTTACATAAAATTTAAAATTTAATTAA
Found at i:11121505 original size:19 final size:22
Alignment explanation
Indices: 11121473--11121521 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 22
11121463 GAAAAATCTA
* *
11121473 TTATAATATTTTGTCA-T-AAT
1 TTATCATATATTGTCACTAAAT
11121493 TT-TCATATATTGTCACTAAAT
1 TTATCATATATTGTCACTAAAT
11121514 TTATCATA
1 TTATCATA
11121522 ATTTTTTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
21 5 0.21
22 5 0.21
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (22 bp):
TTATCATATATTGTCACTAAAT
Found at i:11121695 original size:11 final size:11
Alignment explanation
Indices: 11121667--11121711 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
11121657 ATATGAAAAA
11121667 AAAAATTTA-C
1 AAAAATTTATC
* *
11121677 ACAAATTTATT
1 AAAAATTTATC
11121688 AAAAATTTATC
1 AAAAATTTATC
11121699 AAAAATTTATC
1 AAAAATTTATC
11121710 AA
1 AA
11121712 TATATGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAATTTATC
Found at i:11122176 original size:11 final size:11
Alignment explanation
Indices: 11122162--11122195 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
11122152 TTTTTGGGCA
11122162 TTTTTTTATTT
1 TTTTTTTATTT
11122173 TTTTTTTATTT
1 TTTTTTTATTT
11122184 TTGTTTTTATTT
1 TT-TTTTTATTT
11122196 ATTCGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:11122177 original size:12 final size:12
Alignment explanation
Indices: 11122162--11122195 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11122152 TTTTTGGGCA
11122162 TTTTTTTA-TTT
1 TTTTTTTATTTT
11122173 TTTTTTTATTTT
1 TTTTTTTATTTT
*
11122185 TGTTTTTATTT
1 TTTTTTTATTT
11122196 ATTCGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:11122514 original size:57 final size:57
Alignment explanation
Indices: 11122400--11122516 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 57
11122390 AAGAAAATCC
* ** *
11122400 ATAAATTTCTACTAATAAATTGGAAGATTTTATGAGTTTGAAAATAATTTTGTAAAA
1 ATAAATTTCTACCAATAAATTAAAAGATTTTATGAGTTTGAAAATAATTTAGTAAAA
* *
11122457 ATAAATTT-TACCAATATATTAAAAGATTTTATTGA-TTTGAAAATAAATTTAAGAAAAA
1 ATAAATTTCTACCAATAAATTAAAAGATTTTA-TGAGTTTGAAAAT-AATTT-AGTAAAA
11122515 AT
1 AT
11122517 TAAAATATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
56 28 0.55
57 16 0.31
58 7 0.14
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (57 bp):
ATAAATTTCTACCAATAAATTAAAAGATTTTATGAGTTTGAAAATAATTTAGTAAAA
Found at i:11123007 original size:16 final size:16
Alignment explanation
Indices: 11122988--11123018 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11122978 TATCTTATAA
11122988 TAAATATACTAGAAAT
1 TAAATATACTAGAAAT
11123004 TAAATATACTAGAAA
1 TAAATATACTAGAAA
11123019 ATATGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
TAAATATACTAGAAAT
Found at i:11125080 original size:25 final size:25
Alignment explanation
Indices: 11125052--11125148 Score: 92
Period size: 25 Copynumber: 3.8 Consensus size: 25
11125042 TACATAATAA
11125052 ATAAATAAATATTTTATTAAATAGT
1 ATAAATAAATATTTTATTAAATAGT
* * * *
11125077 ATAAATTATTATTTTAGATTAATTAGA
1 ATAAATAAATATTTT--ATTAAATAGT
*
11125104 ATAAATATAT-TTTTATTAAATA-T
1 ATAAATAAATATTTTATTAAATAGT
11125127 ATATTAATAAATA-TTTATTAAA
1 ATA--AATAAATATTTTATTAAA
11125149 ATATCTATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
23 3 0.05
24 7 0.12
25 28 0.49
26 4 0.07
27 15 0.26
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
ATAAATAAATATTTTATTAAATAGT
Found at i:11125139 original size:14 final size:14
Alignment explanation
Indices: 11125103--11125147 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11125093 GATTAATTAG
*
11125103 AATAAATATATTTTT
1 AATAAATATA-TATT
*
11125118 ATTAAATATATATT
1 AATAAATATATATT
*
11125132 AATAAATATTTATT
1 AATAAATATATATT
11125146 AA
1 AA
11125148 AATATCTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATAAATATATATT
Found at i:11125293 original size:6 final size:6
Alignment explanation
Indices: 11125284--11125322 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
11125274 AAATGCTTAT
* *
11125284 TAAATA TAAATA TAAAAA TAATTA TAAATA T-AATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
11125323 AATTCATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATA
Found at i:11125345 original size:21 final size:20
Alignment explanation
Indices: 11125284--11125346 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 20
11125274 AAATGCTTAT
11125284 TAAATATAAATATAAAAATAATTA
1 TAAATA-AAAT-T-AAAA-AATTA
*
11125308 TAAATATAA-TATAAAAATTCA
1 TAAATAAAATTA-AAAAATT-A
11125329 TAAATAAAATTAAAAAAT
1 TAAATAAAATTAAAAAAT
11125347 ATTTTATCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 5 0.15
21 19 0.56
22 2 0.06
23 2 0.06
24 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATAAAATTAAAAAATTA
Found at i:11125691 original size:25 final size:25
Alignment explanation
Indices: 11125656--11125705 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
11125646 GAATATCACG
* *
11125656 TAATTTTTTTGGATTTTCTTTTATT
1 TAATTTCTTTGGATTCTCTTTTATT
11125681 TAATTTCTTTGGATTCTCTTTTATT
1 TAATTTCTTTGGATTCTCTTTTATT
11125706 ATGATTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (25 bp):
TAATTTCTTTGGATTCTCTTTTATT
Found at i:11126077 original size:27 final size:26
Alignment explanation
Indices: 11126038--11126105 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
11126028 ATATATAATT
* *
11126038 AATAAATAAATTTTTTG-TTAAATAA
1 AATAAATATATTTTTAGTTTAAATAA
*
11126063 AATAAAT-TATTATTTTAGTTTAATTAA
1 AATAAATATA-T-TTTTAGTTTAAATAA
11126090 AATAAATATATTTTTA
1 AATAAATATATTTTTA
11126106 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 1 0.03
25 8 0.22
26 10 0.28
27 15 0.42
28 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
AATAAATATATTTTTAGTTTAAATAA
Found at i:11126277 original size:30 final size:29
Alignment explanation
Indices: 11126221--11126294 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
11126211 CAAATCTATT
* *
11126221 AAATATTTATAAAAATAAAAATAAAAATA
1 AAATATCTATAAAAATAAAAACAAAAATA
* *
11126250 AAATATCTATTAAATATAAATACAAAAAT-
1 AAATATCTA-TAAAAATAAAAACAAAAATA
*
11126279 AAATATAATATAAAAA
1 AAATAT-CTATAAAAA
11126295 CTCATAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 19 0.51
30 18 0.49
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (29 bp):
AAATATCTATAAAAATAAAAACAAAAATA
Found at i:11126283 original size:40 final size:41
Alignment explanation
Indices: 11126214--11126293 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
11126204 AATTACTCAA
**
11126214 ATCTATTAAATATTTATAAAAATAAAAATA-AAAATAAAAT
1 ATCTATTAAATATAAATAAAAATAAAAATATAAAATAAAAT
* *
11126254 ATCTATTAAATATAAATACAAAA-ATAAATATAATATAAAA
1 ATCTATTAAATATAAATA-AAAATAAAAATATAAAATAAAA
11126294 ACTCATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 22 0.65
41 12 0.35
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (41 bp):
ATCTATTAAATATAAATAAAAATAAAAATATAAAATAAAAT
Found at i:11126522 original size:20 final size:21
Alignment explanation
Indices: 11126490--11126528 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11126480 AGAAAAATCG
11126490 TTTTAAGAAAAAACGAAAATA
1 TTTTAAGAAAAAACGAAAATA
*
11126511 TTTTAA-AAAAAATGAAAA
1 TTTTAAGAAAAAACGAAAA
11126529 CCCATTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (21 bp):
TTTTAAGAAAAAACGAAAATA
Found at i:11141887 original size:11 final size:11
Alignment explanation
Indices: 11141873--11141925 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
11141863 ATTTTAAATC
11141873 ATATCATTTTT
1 ATATCATTTTT
11141884 ATAT-ATTTTTT
1 ATATCA-TTTTT
* *
11141895 TTATTATTTTT
1 ATATCATTTTT
11141906 ATATCATATTATT
1 ATATCAT-TT-TT
11141919 ATATCAT
1 ATATCAT
11141926 GATTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 1 0.03
11 22 0.63
12 3 0.09
13 9 0.26
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATCATTTTT
Found at i:11144733 original size:93 final size:93
Alignment explanation
Indices: 11144626--11144813 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 93
11144616 AAATTGCAAT
11144626 TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
1 TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
11144691 TCTCTATAAATAATATCATCCCCATCAA
66 TCTCTATAAATAATATCATCCCCATCAA
11144719 TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
1 TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
*
11144784 TCTCTATAAATAATATCATCCCCGTCAA
66 TCTCTATAAATAATATCATCCCCATCAA
11144812 TT
1 TT
11144814 ACAGCATTTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (93 bp):
TTGGCAAATCAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
TCTCTATAAATAATATCATCCCCATCAA
Found at i:11148548 original size:31 final size:32
Alignment explanation
Indices: 11148508--11148581 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
11148498 GACACTTTCA
* * *
11148508 GCTTTGTTTGGGTTCGAAAATCTAGAT-TTT-G
1 GCTTCGTTTGGGCTCAAAAATCTA-ATGTTTAG
11148539 GCTTCGTTTGGGCTCAAAAATCTAATGTTTAG
1 GCTTCGTTTGGGCTCAAAAATCTAATGTTTAG
11148571 GCTTCGTTTGG
1 GCTTCGTTTGG
11148582 CTTTTATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 24 0.63
32 12 0.32
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.42
Consensus pattern (32 bp):
GCTTCGTTTGGGCTCAAAAATCTAATGTTTAG
Done.