Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 69 of 160
Found at i:14436720 original size:18 final size:18
Alignment explanation
Indices: 14436690--14436739 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
14436680 AATTTGTTTC
*
14436690 TTGTTTTGTTTTTCATTT
1 TTGTTTTTTTTTTCATTT
**
14436708 TTGTTTTTTTTTTGTTTT
1 TTGTTTTTTTTTTCATTT
*
14436726 TTATTTTTATTTTT
1 TTGTTTTT-TTTTT
14436740 TTGTCTTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.84
Consensus pattern (18 bp):
TTGTTTTTTTTTTCATTT
Found at i:14436731 original size:24 final size:24
Alignment explanation
Indices: 14436663--14436770 Score: 112
Period size: 24 Copynumber: 4.4 Consensus size: 24
14436653 ACTCTTTCTT
*
14436663 TTTTTTTTTTGTTTTTCA-ATTTG
1 TTTTTTTTTTGTTTTTCATTTTTG
*
14436686 TTTCTTGTTTTGTTTTTCATTTTTG
1 TTT-TTTTTTTGTTTTTCATTTTTG
* *
14436711 TTTTTTTTTTGTTTTTTATTTTTA
1 TTTTTTTTTTGTTTTTCATTTTTG
**
14436735 TTTTTTTGTCTTGTTGTTTTGTTTTT-
1 TTTTTTT-T-TTGTT-TTTCATTTTTG
14436761 TTTTTTTTTT
1 TTTTTTTTTT
14436771 ATGAATTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.04
24 41 0.55
25 9 0.12
26 12 0.16
27 9 0.12
ACGTcount: A:0.05, C:0.04, G:0.09, T:0.82
Consensus pattern (24 bp):
TTTTTTTTTTGTTTTTCATTTTTG
Found at i:14436740 original size:13 final size:13
Alignment explanation
Indices: 14436661--14436770 Score: 72
Period size: 12 Copynumber: 8.8 Consensus size: 13
14436651 TAACTCTTTC
*
14436661 TTTTTTTTTTTTG
1 TTTTTTATTTTTG
* *
14436674 TTTTTCA-ATTTG
1 TTTTTTATTTTTG
* *
14436686 TTTCTT-GTTTTG
1 TTTTTTATTTTTG
*
14436698 TTTTTCATTTTTG
1 TTTTTTATTTTTG
14436711 -TTTTT-TTTTTG
1 TTTTTTATTTTTG
*
14436722 TTTTTTATTTTTA
1 TTTTTTATTTTTG
*
14436735 TTTTTT-TGTCTTG
1 TTTTTTAT-TTTTG
*
14436748 TTGTTTTGTTTTT-
1 TT-TTTTATTTTTG
14436761 TTTTTT-TTTT
1 TTTTTTATTTT
14436771 ATGAATTTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
11 10 0.13
12 30 0.39
13 28 0.37
14 7 0.09
15 1 0.01
ACGTcount: A:0.05, C:0.04, G:0.09, T:0.83
Consensus pattern (13 bp):
TTTTTTATTTTTG
Found at i:14436761 original size:29 final size:28
Alignment explanation
Indices: 14436682--14436770 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
14436672 TGTTTTTCAA
14436682 TTTGTTTCTTGTTTTGTTTTTCATT-TTTGT
1 TTTGTTTCTTGTTTTGTTTTT--TTATTT-T
*
14436712 TTT-TTTTTTGTTTT-TTATTTTTATTTT
1 TTTGTTTCTTGTTTTGTT-TTTTTATTTT
* *
14436739 TTTGTCTTGTTGTTTTGTTTTTTTTTTTT
1 TTTGT-TTCTTGTTTTGTTTTTTTATTTT
14436768 TTT
1 TTT
14436771 ATGAATTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 6 0.12
28 6 0.12
29 34 0.67
30 5 0.10
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.83
Consensus pattern (28 bp):
TTTGTTTCTTGTTTTGTTTTTTTATTTT
Found at i:14436779 original size:24 final size:21
Alignment explanation
Indices: 14436662--14436770 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 21
14436652 AACTCTTTCT
14436662 TTTTTTTTTTTGTTTTTCAATTTG
1 TTTTTTTTTTT-TTTTT--ATTTG
14436686 TTTCTTGTTTTGTTTTTCATT-TTTG
1 TTT-TT-TTTT-TTTTT--TTATTTG
14436711 TTTTTTTTTTGTTTTTTATTT-
1 TTTTTTTTTT-TTTTTTATTTG
*
14436732 TTATTTTTTTGTCTTGTTGT-TTTG
1 TT-TTTTTTT-T-TT-TTTTATTTG
14436756 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
14436771 ATGAATTTGA
Statistics
Matches: 71, Mismatches: 3, Indels: 26
0.71 0.03 0.26
Matches are distributed among these distances:
20 2 0.03
21 6 0.08
22 12 0.17
23 21 0.30
24 10 0.14
25 9 0.13
26 7 0.10
27 2 0.03
28 2 0.03
ACGTcount: A:0.05, C:0.04, G:0.09, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTTATTTG
Found at i:14437017 original size:105 final size:104
Alignment explanation
Indices: 14436828--14437130 Score: 367
Period size: 105 Copynumber: 2.9 Consensus size: 104
14436818 AAAACAAATG
** * * * *
14436828 CTTACAAATCTTGAGATTTTTGTATGCTCCT-CTAATCAAAGGCATTGAAACTTTGAAATTTTAA
1 CTTACAAATCTCAACATCTTTGAATGCTCCTCCTAATCAAAGGCATTGAAACTTTGAAAATTTAA
* *
14436892 AATGTTTCT-CCTGGAGGTTTTAGAGATTATGCACACAGGT
66 AATGTTT-TGCCT-AAAGTTTTAGAGATTATGCACACAGGT
* * *
14436932 TTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTGAAACATTGAAAATTTAA
1 CTTACAAATCTCAACATCTTTGAATGCTCCTCCTAATCAAAGGCATTGAAACTTTGAAAATTTAA
* * *
14436997 AATGTTTTGCCTAAAAGTTTTGGAGATTATGCTCAGAGGT
66 AATGTTTTGCCT-AAAGTTTTAGAGATTATGCACACAGGT
* * * * * *
14437037 CTTACAAATCTTAACATCTTTGAATACTCTTCATAATTAAATGCATTGAAACTTTGAAAATTTAA
1 CTTACAAATCTCAACATCTTTGAATGCTCCTCCTAATCAAAGGCATTGAAACTTTGAAAATTTAA
*
14437102 AATGTTTTGCCTAGAGTTTTTAGAGATTA
66 AATGTTTTGCCTAAAG-TTTTAGAGATTA
14437131 CCTTGGGTGC
Statistics
Matches: 170, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
104 29 0.17
105 141 0.83
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (104 bp):
CTTACAAATCTCAACATCTTTGAATGCTCCTCCTAATCAAAGGCATTGAAACTTTGAAAATTTAA
AATGTTTTGCCTAAAGTTTTAGAGATTATGCACACAGGT
Found at i:14437218 original size:32 final size:32
Alignment explanation
Indices: 14437137--14437255 Score: 112
Period size: 32 Copynumber: 3.7 Consensus size: 32
14437127 ATTACCTTGG
* * * * * *
14437137 GTGCTAGCTTGACTGGACTTAGTTCGATCTGG
1 GTGCCAGCTAGACTGGGCTTAGTTTGATTTGA
* *
14437169 GTGCCAGCTTGACTGGGCTTAGTTTGATTTAA
1 GTGCCAGCTAGACTGGGCTTAGTTTGATTTGA
* * * *
14437201 GTGCTAGCTAGATTGGGCTTGGTTTAATTTGA
1 GTGCCAGCTAGACTGGGCTTAGTTTGATTTGA
* *
14437233 GTGCCAACTAGATTGGGCTTAGT
1 GTGCCAGCTAGACTGGGCTTAGT
14437256 GTGCCAGTAG
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.36
Consensus pattern (32 bp):
GTGCCAGCTAGACTGGGCTTAGTTTGATTTGA
Found at i:14438990 original size:142 final size:143
Alignment explanation
Indices: 14438475--14439111 Score: 566
Period size: 145 Copynumber: 4.4 Consensus size: 143
14438465 TTATTTATTA
* * * * *
14438475 TTTTTTTTTTGGAAACATTTGGCCTT-AATTTTTGCATTCTACTTTCTTGAATTTTATCTTCTTT
1 TTTTTTTTTT-GAAACATTT-GACTTCAACTTTAGCATTCTACTTTCTTGAATTCTATCTTC-CT
* * * * * * * * * *
14438539 TTTTACTTAGAATTCTAACT-GAAGCTTTTGTTCACTTTTTGCCTTGAATTTTCATCTCTAAGGT
63 TTTTACTTGGAATTCTAA-TAGAAGC-TTTATTCAC-TTTTACCCTGGACTCTCATCTTTTAGAT
* * *
14438603 GTATATCTTTTTTTCTTTG
125 GCATGTCTTTCTTTCTTTG
* * * * *
14438622 CTCTTGCTTTTTTGGAAACATCTGACCTCAACTTTAGGATTCTACTTTCTTGAATTCTATCTTCT
1 -T-TT--TTTTTTTGAAACATTTGACTTCAACTTTAGCATTCTACTTTCTTGAATTCTATCTTCC
* * * * * *
14438687 TTTTTACTTGGAATTCTAATAGAAGTTTTATTCACTTTTGGCCCTAGACTTTTATCTCTTAGATG
62 TTTTTACTTGGAATTCTAATAGAAGCTTTATTCACTTTT-ACCCTGGACTCTCATCTTTTAGATG
14438752 CATGTCTTTCTTTCTTTG
126 CATGTCTTTCTTTCTTTG
* * * * **
14438770 TTTTTTTTTTTTAAACATTTGACTTCACCTTTAACAATCTACTTTCTTGAATTCTATCTTAGTTT
1 -TTTTTTTTTTGAAACATTTGACTTCAACTTTAGCATTCTACTTTCTTGAATTCTATCTTCCTTT
** * * *
14438835 TTACTTTAAATTCTAATAGAAACTTTATTCACTTTGTACTCTGGACTCTCATGTTTTAGATGCAT
65 TTACTTGGAATTCTAATAGAAGCTTTATTCACTTT-TACCCTGGACTCTCATCTTTTAGATGCAT
*
14438900 GT-TTT-TTTTTTTG
129 GTCTTTCTTTCTTTG
* * *
14438913 TTTTTTTTTTGAAACATTTGATTTCAACTTTAGCATTCCA-TTTAATTGAATTCTATCTTCCTTT
1 TTTTTTTTTTGAAACATTTGACTTCAACTTTAGCATTCTACTTT-CTTGAATTCTATCTTCCTTT
* * * * *
14438977 TCACTAGGAATTCTAACTA-AAGCTTTATTCACTTATTACCCTGAACACTCATCTTTAAGATGCA
65 TTACTTGGAATTCTAA-TAGAAGCTTTATTCACTT-TTACCCTGGACTCTCATCTTTTAGATGCA
14439041 TGTCTTTCTTTCTTTG
128 TGTCTTTCTTTCTTTG
* * ** ** * *
14439057 TTTTTTCTTTTAAAATATTTGACTTCATGTTTAATAATCTACTTTTTTGAATTCT
1 TTTTTT-TTTTGAAACATTTGACTTCAACTTTAGCATTCTACTTTCTTGAATTCT
14439112 TGGGATTCTA
Statistics
Matches: 401, Mismatches: 74, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
141 3 0.01
142 103 0.26
143 13 0.03
144 16 0.04
145 139 0.35
146 4 0.01
147 6 0.01
148 44 0.11
149 28 0.07
150 39 0.10
151 6 0.01
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.52
Consensus pattern (143 bp):
TTTTTTTTTTGAAACATTTGACTTCAACTTTAGCATTCTACTTTCTTGAATTCTATCTTCCTTTT
TACTTGGAATTCTAATAGAAGCTTTATTCACTTTTACCCTGGACTCTCATCTTTTAGATGCATGT
CTTTCTTTCTTTG
Found at i:14441958 original size:16 final size:15
Alignment explanation
Indices: 14441939--14441972 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
14441929 ATTTGTTTCC
14441939 TTTTTTTTTGCCTTTT
1 TTTTTTTTTG-CTTTT
14441955 TTTTTTTTTGCTTTT
1 TTTTTTTTTGCTTTT
14441970 TTT
1 TTT
14441973 AGAAGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTGCTTTT
Found at i:14462961 original size:27 final size:27
Alignment explanation
Indices: 14462901--14462955 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
14462891 AAAATGGAGA
**
14462901 AAATTGAAGAAGATCCATGTGAAGATG
1 AAATTGAAGAAGATCCAAATGAAGATG
14462928 AAATTGAAGAAGATCCAAATGAAGATG
1 AAATTGAAGAAGATCCAAATGAAGATG
14462955 A
1 A
14462956 GCTTGAGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.24, T:0.20
Consensus pattern (27 bp):
AAATTGAAGAAGATCCAAATGAAGATG
Found at i:14483339 original size:18 final size:18
Alignment explanation
Indices: 14483316--14483400 Score: 72
Period size: 18 Copynumber: 4.8 Consensus size: 18
14483306 CATTAAGTAA
14483316 AAAAATAATAAATATAAT
1 AAAAATAATAAATATAAT
*
14483334 AAAAAT-ATAAAAAT-AT
1 AAAAATAATAAATATAAT
14483350 AAAAAGTAAT-AATAATAAAT
1 AAAAA-TAATAAAT-AT-AAT
* *
14483370 ATAAAT-ATAAATATAAA
1 AAAAATAATAAATATAAT
14483387 AAGAAATAA-AAATA
1 AA-AAATAATAAATA
14483401 ACTTGGCCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
16 7 0.13
17 13 0.24
18 23 0.43
19 5 0.09
20 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATAATAAATATAAT
Found at i:14483382 original size:34 final size:35
Alignment explanation
Indices: 14483314--14483401 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 35
14483304 ACCATTAAGT
14483314 AAAA-AAATAATAAATATAATAAAAATATAAAAATATA
1 AAAAGAAATAAT-AATA-AATAAAAATAT-AAAATATA
* *
14483351 AAAAGTAATAATAATAAATATAAATAT-AAATATA
1 AAAAGAAATAATAATAAATAAAAATATAAAATATA
*
14483385 AAAAGAAATAAAAATAA
1 AAAAGAAATAATAATAA
14483402 CTTGGCCTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 22 0.48
36 10 0.22
37 8 0.17
38 6 0.13
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (35 bp):
AAAAGAAATAATAATAAATAAAAATATAAAATATA
Found at i:14485849 original size:7 final size:7
Alignment explanation
Indices: 14485837--14485865 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
14485827 AGATTTTAGC
14485837 TAGGGTT
1 TAGGGTT
14485844 TAGGGTT
1 TAGGGTT
14485851 TAGGGTT
1 TAGGGTT
14485858 TAGGGTT
1 TAGGGTT
14485865 T
1 T
14485866 CACCCAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:14485899 original size:19 final size:19
Alignment explanation
Indices: 14485875--14485911 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14485865 TCACCCAAGG
14485875 TTTCAGACTTTACCTAAGA
1 TTTCAGACTTTACCTAAGA
*
14485894 TTTCAGATTTTACCTAAG
1 TTTCAGACTTTACCTAAG
14485912 GTTTAAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTCAGACTTTACCTAAGA
Found at i:14485923 original size:19 final size:19
Alignment explanation
Indices: 14485871--14485924 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
14485861 GGTTTCACCC
* *
14485871 AAGGTTTCAGACTTTACCT
1 AAGGTTTAAGATTTTACCT
* *
14485890 AAGATTTCAGATTTTACCT
1 AAGGTTTAAGATTTTACCT
*
14485909 AAGGTTTAAGGTTTTA
1 AAGGTTTAAGATTTTA
14485925 TTCTAAAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (19 bp):
AAGGTTTAAGATTTTACCT
Found at i:14486184 original size:3 final size:3
Alignment explanation
Indices: 14486178--14486229 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
14486168 TTTTTTGCTA
14486178 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14486226 TAT T
1 TAT T
14486230 TTAAAATGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14487845 original size:7 final size:7
Alignment explanation
Indices: 14487833--14487889 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
14487823 TTTCAATTTC
14487833 AATTTTA
1 AATTTTA
14487840 AATTTTTA
1 AA-TTTTA
14487848 AATTTTA
1 AATTTTA
* *
14487855 AGTTCTA
1 AATTTTA
*
14487862 AGTTTTA
1 AATTTTA
*
14487869 AGTTTT-
1 AATTTTA
14487875 AATTTTA
1 AATTTTA
14487882 TAATTTTA
1 -AATTTTA
14487890 TATGCTTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
6 5 0.12
7 24 0.56
8 14 0.33
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:14487888 original size:14 final size:13
Alignment explanation
Indices: 14487822--14487889 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 13
14487812 ATTTTCCAAT
* *
14487822 TTTTCAATTTCAA
1 TTTTAAATTTTAA
14487835 TTTTAAATTTTTAAA
1 TTTTAAA-TTTT-AA
* *
14487850 TTTTAAGTTCTAA
1 TTTTAAATTTTAA
*
14487863 GTTTTAAGTTTTAA
1 -TTTTAAATTTTAA
14487877 TTTTATAATTTTA
1 TTTTA-AATTTTA
14487890 TATGCTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
13 13 0.29
14 24 0.53
15 8 0.18
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:14488253 original size:25 final size:24
Alignment explanation
Indices: 14488166--14488256 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 24
14488156 TCTAAGGGAA
14488166 TTTTTTT-TTGCTTTTGTTTTTTTGTT
1 TTTTTTTCTTG-TTTTG-TTTTTTG-T
* *
14488192 TTTTTTTCTTGCTTTATTTTTTGT
1 TTTTTTTCTTGTTTTGTTTTTTGT
14488216 TTTTTTTCCTTGTTTTGTTCTTTTGT
1 TTTTTTT-CTTGTTTTGTT-TTTTGT
14488242 TTTTATTT-TTGTTTT
1 TTTT-TTTCTTGTTTT
14488257 TCATTTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.14
25 23 0.40
26 20 0.35
27 6 0.11
ACGTcount: A:0.02, C:0.07, G:0.10, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTGTTTTGTTTTTTGT
Found at i:14488257 original size:13 final size:12
Alignment explanation
Indices: 14488166--14488257 Score: 94
Period size: 13 Copynumber: 7.2 Consensus size: 12
14488156 TCTAAGGGAA
14488166 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
14488179 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
*
14488192 TTTTTTTCTTGCT
1 TTTTTTT-TTGTT
*
14488205 TTATTTTTTGTT
1 TTTTTTTTTGTT
*
14488217 TTTTTTCCTTGTT
1 TTTTTT-TTTGTT
*
14488230 TTGTTCTTTTGTT
1 TT-TTTTTTTGTT
*
14488243 TTTATTTTTGTT
1 TTTTTTTTTGTT
14488255 TTT
1 TTT
14488258 CATTTTTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
12 25 0.38
13 30 0.45
14 11 0.17
ACGTcount: A:0.02, C:0.07, G:0.10, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:14488574 original size:35 final size:35
Alignment explanation
Indices: 14488535--14488603 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
14488525 TGACTAGGAT
* *
14488535 AATATCGCAAGTCAAAAATAAAGAACGATCAAGAC
1 AATATCACAAGCCAAAAATAAAGAACGATCAAGAC
* * * *
14488570 AATATCATAAGCCAGATATAAAGAATGATCAAGA
1 AATATCACAAGCCAAAAATAAAGAACGATCAAGA
14488604 TGAAATTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.17
Consensus pattern (35 bp):
AATATCACAAGCCAAAAATAAAGAACGATCAAGAC
Found at i:14488736 original size:35 final size:34
Alignment explanation
Indices: 14488690--14488805 Score: 92
Period size: 35 Copynumber: 3.4 Consensus size: 34
14488680 AAGTGCCAAC
*
14488690 TAAACTAGGCTTATATCTTTTCATGAGGTACTAGA
1 TAAACTGGGCTTA-ATCTTTTCATGAGGTACTAGA
* * * * *
14488725 TAAGCTGGGCTTAA-ATTTCCAT-TGGTGCTAGA
1 TAAACTGGGCTTAATCTTTTCATGAGGTACTAGA
* * * *
14488757 CAAACTGGGTTTAAATCTTTTCATGAGATACTACA
1 TAAACTGGGCTT-AATCTTTTCATGAGGTACTAGA
* *
14488792 TAAAATGAGCTTAA
1 TAAACTGGGCTTAA
14488806 AATTACATTA
Statistics
Matches: 59, Mismatches: 19, Indels: 7
0.69 0.22 0.08
Matches are distributed among these distances:
32 17 0.29
33 8 0.14
34 9 0.15
35 25 0.42
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (34 bp):
TAAACTGGGCTTAATCTTTTCATGAGGTACTAGA
Found at i:14488762 original size:67 final size:67
Alignment explanation
Indices: 14488691--14489143 Score: 239
Period size: 68 Copynumber: 6.8 Consensus size: 67
14488681 AGTGCCAACT
* * * *
14488691 AAACTAGGCTTATATCTTTTCATGAGGTACTAGATAAGCTGGGCTTAAATTTCCATTGGTGCTAG
1 AAACTAGGCTTAAATCTTTTCATGAGATACTAGATAAACTGGGCTTAAATTTACATTGGTGCTAG
14488756 AC
66 AC
* * * * * * *
14488758 AAACTGGGTTTAAATCTTTTCATGAGATACTACATAAAATGAGCTTAAAATTACATTAGTGCTAG
1 AAACTAGGCTTAAATCTTTTCATGAGATACTAGATAAACTGGGCTTAAATTTACATTGGTGCTAG
**
14488823 TG
66 AC
* * * * * * * *
14488825 AATACTAGACTTAAATTTTTTCATGAAATGCTAGATAAACTAGGTTTAAATCTTTCTTTGGATGC
1 AA-ACTAGGCTTAAATCTTTTCATGAGATACTAGATAAACTGGGCTTAAAT-TTACATTGG-TGC
*
14488890 TA-ATT
63 TAGA-C
* ** * * * * * *
14488895 AAACT-GGACTTAAATCTTTTCATGAGGTGTTAGCTAAATTAGGCTT-AATTTTCATTAGTGCCA
1 AAACTAGG-CTTAAATCTTTTCATGAGATACTAGATAAACTGGGCTTAAATTTACATTGGTGCTA
*
14488958 -ATT
65 GA-C
** * * * * * *
14488961 AAACTAAACTTAAATCTTTTCATGATG-T-GTCAAATAAACTAGGTTTAAATCTTTCATTGATGC
1 AAACTAGGCTTAAATCTTTTCATGA-GATACT-AGATAAACTGGGCTTAAAT-TTACATTGGTGC
* *
14489024 CAGTC
63 TAGAC
* * * * * *
14489029 AAACTAAGCTTAAATCTTTTCATGAGGT-GTCA-ACTAAACTGGGCTT-AATTTTCATTGGTACC
1 AAACTAGGCTTAAATCTTTTCATGAGATACT-AGA-TAAACTGGGCTTAAATTTACATTGGTGCT
14489091 AG-C
64 AGAC
** * *
14489094 TCGACTAAGCTTAAAT-TTTTC-TGAG-TACTAGATAAACTAGGCTTAAATTT
1 -AAACTAGGCTTAAATCTTTTCATGAGATACTAGATAAACTGGGCTTAAATTT
14489144 TTCATGAGTT
Statistics
Matches: 308, Mismatches: 61, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
63 13 0.04
64 11 0.04
65 7 0.02
66 67 0.22
67 72 0.23
68 91 0.30
69 40 0.13
70 7 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (67 bp):
AAACTAGGCTTAAATCTTTTCATGAGATACTAGATAAACTGGGCTTAAATTTACATTGGTGCTAG
AC
Found at i:14488981 original size:34 final size:34
Alignment explanation
Indices: 14488943--14489051 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 34
14488933 TTAGGCTTAA
*
14488943 TTTTCATTAGTGCCAATTAAACTAAACTTAAATC
1 TTTTCATTAGTGCCAATTAAACTAAGCTTAAATC
* * * * *
14488977 TTTTCATGATGTGTCAAATAAACTAGGTTTAAATC
1 TTTTCATTA-GTGCCAATTAAACTAAGCTTAAATC
* *
14489012 -TTTCATT-GATGCCAGTCAAACTAAGCTTAAATC
1 TTTTCATTAG-TGCCAATTAAACTAAGCTTAAATC
14489045 TTTTCAT
1 TTTTCAT
14489052 GAGGTGTCAA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
32 1 0.02
33 18 0.31
34 20 0.34
35 20 0.34
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (34 bp):
TTTTCATTAGTGCCAATTAAACTAAGCTTAAATC
Found at i:14488981 original size:135 final size:133
Alignment explanation
Indices: 14488670--14489148 Score: 402
Period size: 135 Copynumber: 3.6 Consensus size: 133
14488660 TTGAGCTTAA
** * * * *
14488670 AATTTTCATTAAGTGCCAACTAAACTAGGCTTATATCTTTTCATGAGGTACTAGATAAGCTGGGC
1 AATTTTCATT-AGTGCCAACTAAACTAAACTTAAATCTTTTCATGAAGTACTAGATAAACTAGGC
* ** * **
14488735 TTAAAT-TTCCATTGG-TGCTAGA-CAAACTGGGTTTAAATCTTTTCATGAGATACTACATAAAA
65 TTAAATCTTTCATTGGATGCTA-ATCAAACTGGACTTAAATCTTTTCATGAGGTGTTAC-TAAAA
14488797 TGAGCTT
128 TG-GCTT
* * * * * * * *
14488804 AAAATTACATTAGTG-CTAGTGAATACTAGACTTAAATTTTTTCATGAAATGCTAGATAAACTAG
1 -AATTTTCATTAGTGCCAACT-AA-ACTAAACTTAAATCTTTTCATGAAGTACTAGATAAACTAG
* * *
14488868 GTTTAAATCTTTCTTTGGATGCTAATTAAACTGGACTTAAATCTTTTCATGAGGTGTTAGCTAAA
63 GCTTAAATCTTTCATTGGATGCTAATCAAACTGGACTTAAATCTTTTCATGAGGTGTTA-CTAAA
*
14488933 TTAGGCTT
127 AT-GGCTT
* * * * *
14488941 AATTTTCATTAGTGCCAATTAAACTAAACTTAAATCTTTTCATGATGT-GTCAAATAAACTAGGT
1 AATTTTCATTAGTGCCAACTAAACTAAACTTAAATCTTTTCATGAAGTACT-AGATAAACTAGGC
* * * * *
14489005 TTAAATCTTTCATT-GATGCCAGTCAAACT-AAGCTTAAATCTTTTCATGAGGTGTCAACTAAAC
65 TTAAATCTTTCATTGGATGCTAATCAAACTGGA-CTTAAATCTTTTCATGAGGTGT-TACTAAAA
14489068 TGGGCTT
128 T-GGCTT
* * * ** *
14489075 AATTTTCATTGGTACCAGCTCGACTAAGCTTAAAT-TTTTC-TG-AGTACTAGATAAACTAGGCT
1 AATTTTCATTAGTGCCAACTAAACTAAACTTAAATCTTTTCATGAAGTACTAGATAAACTAGGCT
*
14489137 TAAATTTTTCAT
66 TAAATCTTTCAT
14489149 GAGTTCTAGG
Statistics
Matches: 280, Mismatches: 52, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
131 25 0.09
132 3 0.01
133 9 0.03
134 80 0.29
135 95 0.34
136 22 0.08
137 44 0.16
138 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (133 bp):
AATTTTCATTAGTGCCAACTAAACTAAACTTAAATCTTTTCATGAAGTACTAGATAAACTAGGCT
TAAATCTTTCATTGGATGCTAATCAAACTGGACTTAAATCTTTTCATGAGGTGTTACTAAAATGG
CTT
Found at i:14489075 original size:35 final size:34
Alignment explanation
Indices: 14488894--14489076 Score: 137
Period size: 35 Copynumber: 5.4 Consensus size: 34
14488884 GGATGCTAAT
* *
14488894 TAAACT-GGACTTAAATCTTTTCATGAGGTGTTAGC
1 TAAACTAGG-CTTAAATCTTTTCATGA-GTGTCAAC
* * * *
14488929 TAAATTAGGCTT-AA--TTTTCATTAGTGCCAAT
1 TAAACTAGGCTTAAATCTTTTCATGAGTGTCAAC
** *
14488960 TAAACTAAACTTAAATCTTTTCATGATGTGTCAAA
1 TAAACTAGGCTTAAATCTTTTCATGA-GTGTCAAC
* * *
14488995 TAAACTAGGTTTAAATC-TTTCATTGA-TG-CCAG
1 TAAACTAGGCTTAAATCTTTTCA-TGAGTGTCAAC
*
14489027 TCAAACTAAGCTTAAATCTTTTCATGAGGTGTCAAC
1 T-AAACTAGGCTTAAATCTTTTCATGA-GTGTCAAC
*
14489063 TAAACTGGGCTTAA
1 TAAACTAGGCTTAA
14489077 TTTTCATTGG
Statistics
Matches: 114, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
31 13 0.11
32 13 0.11
33 19 0.17
34 20 0.18
35 44 0.39
36 5 0.04
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (34 bp):
TAAACTAGGCTTAAATCTTTTCATGAGTGTCAAC
Found at i:14489101 original size:134 final size:133
Alignment explanation
Indices: 14488828--14489148 Score: 362
Period size: 134 Copynumber: 2.4 Consensus size: 133
14488818 GCTAGTGAAT
* * * *
14488828 ACTAGACTTAAATTTTTTCATGAAATGCTAGATAAACTAGGTTTAAATCTTTCTTTGGATGCTAA
1 ACTAAACTTAAA-TTTTTCATG-AGTGCTAGATAAACTAGGTTTAAATCTTTCATTGGATGCCAA
* * * * * *
14488893 TTAAACTGGACTTAAATCTTTTCATGAGGTGTTAGCTAAATTAGGCTTAATTTTCATTAGTGCCA
64 TCAAACTAGACTTAAATCTTTTCATGAGGTGTCAACTAAACTAGGCTTAATTTTCATTAGTACCA
*
14488958 ATTAA
129 ACTAA
*
14488963 ACTAAACTTAAATCTTTTCATGATGTG-TCAAATAAACTAGGTTTAAATCTTTCATT-GATGCCA
1 ACTAAACTTAAAT-TTTTCATGA-GTGCT-AGATAAACTAGGTTTAAATCTTTCATTGGATGCCA
* * *
14489026 GTCAAACTA-AGCTTAAATCTTTTCATGAGGTGTCAACTAAACTGGGCTTAATTTTCATTGGTAC
63 ATCAAACTAGA-CTTAAATCTTTTCATGAGGTGTCAACTAAACTAGGCTTAATTTTCATTAGTAC
* **
14489090 CAGCTCG
127 CAACTAA
* * * *
14489097 ACTAAGCTTAAATTTTTC-TGAGTACTAGATAAACTAGGCTTAAATTTTTCAT
1 ACTAAACTTAAATTTTTCATGAGTGCTAGATAAACTAGGTTTAAATCTTTCAT
14489149 GAGTTCTAGG
Statistics
Matches: 158, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
131 25 0.16
132 4 0.03
133 6 0.04
134 77 0.49
135 46 0.29
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (133 bp):
ACTAAACTTAAATTTTTCATGAGTGCTAGATAAACTAGGTTTAAATCTTTCATTGGATGCCAATC
AAACTAGACTTAAATCTTTTCATGAGGTGTCAACTAAACTAGGCTTAATTTTCATTAGTACCAAC
TAA
Found at i:14489192 original size:31 final size:31
Alignment explanation
Indices: 14489154--14489240 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
14489144 TTCATGAGTT
*
14489154 CTAGGTAATTTGGGCTTAAAACTTTATTGGA
1 CTAGGTAATCTGGGCTTAAAACTTTATTGGA
* *
14489185 CTAGGTAATCTAGGCTTAAAACTTTATTGGG
1 CTAGGTAATCTGGGCTTAAAACTTTATTGGA
* * *
14489216 CTAAGTAATCTGAGCTTAAATCTTT
1 CTAGGTAATCTGGGCTTAAAACTTT
14489241 CATTAGATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (31 bp):
CTAGGTAATCTGGGCTTAAAACTTTATTGGA
Found at i:14489396 original size:67 final size:66
Alignment explanation
Indices: 14489309--14489433 Score: 196
Period size: 67 Copynumber: 1.9 Consensus size: 66
14489299 TAAAATCTGG
* * *
14489309 GTGCCAACTAATCTGGGCTTAAATCTTTTCATGGGATGCTAGCTAAACAAGGCTTAAATTTCCTT
1 GTGCCAACTAAGCTAGGCTTAAATCTTTTCATGAG-TGCTAGCTAAACAAGGCTTAAATTTCCTT
14489374 TA
65 TA
* *
14489376 GTGCTAACTAAGCTAGGCTTAAATCTTTTCATGAGTGCTAGCTAAACTAGGCTTAAAT
1 GTGCCAACTAAGCTAGGCTTAAATCTTTTCATGAGTGCTAGCTAAACAAGGCTTAAAT
14489434 CTTTCATCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 22 0.42
67 31 0.58
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (66 bp):
GTGCCAACTAAGCTAGGCTTAAATCTTTTCATGAGTGCTAGCTAAACAAGGCTTAAATTTCCTTT
A
Found at i:14489448 original size:67 final size:67
Alignment explanation
Indices: 14489314--14489465 Score: 191
Period size: 67 Copynumber: 2.3 Consensus size: 67
14489304 TCTGGGTGCC
* * * * * *
14489314 AACTAATCTGGGCTTAAATCTTTTCATGGGATGCTAGCTAAACAAGGCTTAAATTTCCTTTAGTG
1 AACTAAGCTAGGCTTAAATCTTTTCATGAGATGCTAGCTAAACAAGGCTTAAATTTCCATCAATG
14489379 CT
66 CT
* *
14489381 AACTAAGCTAGGCTTAAATCTTTTCATGAG-TGCTAGCTAAACTAGGCTTAAATCTTTCATCAAT
1 AACTAAGCTAGGCTTAAATCTTTTCATGAGATGCTAGCTAAACAAGGCTTAAAT-TTCCATCAAT
14489445 GCT
65 GCT
*
14489448 -AGTAAGACTAGGCTTAAA
1 AACTAAG-CTAGGCTTAAA
14489466 ATTTTTTAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
66 27 0.36
67 47 0.64
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (67 bp):
AACTAAGCTAGGCTTAAATCTTTTCATGAGATGCTAGCTAAACAAGGCTTAAATTTCCATCAATG
CT
Found at i:14489500 original size:99 final size:98
Alignment explanation
Indices: 14489391--14489664 Score: 283
Period size: 99 Copynumber: 2.8 Consensus size: 98
14489381 AACTAAGCTA
*
14489391 GGCTTAAATCTTTTCATGAGTGCTAGCTAAACTAGGCTTAAATCTTTCATCAATGCTAG-TAAGA
1 GGCTTCAATCTTTTCATGAGTGCTAGCTAAACTAGGCTTAAATCTTTCATCAATGC-AGCTAA-A
14489455 CTAGGCTTAAAATTTTTTAAGTGCCAGATAAATTG
64 CTAGGCTTAAAATTTTTTAAGTGCCAGATAAATTG
* * *
14489490 GGCTTCAATCTTTTCATAAGTG-TCAGCTAAA-TTGAACTTAAATCTTTCATCGATAT-CAGCTA
1 GGCTTCAATCTTTTCATGAGTGCT-AGCTAAACTAG-GCTTAAATCTTTCATC-A-ATGCAGCTA
* * *
14489552 AACTGGGCTTAAATTTTTTTGAGTGCCAGATAAATTG
62 AACTAGGCTTAAAATTTTTTAAGTGCCAGATAAATTG
* * * * * *
14489589 GAC-TCAA-GTTTTCATTGTA-TGCTGGCTAAACTAGGCTTAAATTTTTTCATGAATGCGAACTA
1 GGCTTCAATCTTTTCA-TG-AGTGCTAGCTAAACTAGGCTTAAA-TCTTTCATCAATGC-AGCTA
*
14489651 AATTAGGCTTAAAA
62 AACTAGGCTTAAAA
14489665 CTTCAATTGT
Statistics
Matches: 144, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
97 8 0.06
98 24 0.17
99 105 0.73
100 5 0.03
101 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (98 bp):
GGCTTCAATCTTTTCATGAGTGCTAGCTAAACTAGGCTTAAATCTTTCATCAATGCAGCTAAACT
AGGCTTAAAATTTTTTAAGTGCCAGATAAATTG
Found at i:14489754 original size:32 final size:32
Alignment explanation
Indices: 14489345--14489758 Score: 116
Period size: 32 Copynumber: 12.7 Consensus size: 32
14489335 TTTCATGGGA
* * * *
14489345 TGCTAGCTAAACAAGGCTTAAATTTCCTTTAG
1 TGCTAGATAAACTAGGCTTAAATTTTCTTGAG
* *
14489377 TGCTA-ACTAAGCTAGGCTTAAATCTTTTCATGAG
1 TGCTAGA-TAAACTAGGCTTAAA--TTTTCTTGAG
* * * *
14489411 TGCTAGCTAAACTAGGCTTAAATCTTTCATCAA
1 TGCTAGATAAACTAGGCTTAAAT-TTTCTTGAG
*
14489444 TGCTAG-TAAGACTAGGCTTAAAATTTT-TTAAG
1 TGCTAGATAA-ACTAGGCTT-AAATTTTCTTGAG
* * * * * *
14489476 TGCCAGATAAATTGGGCTTCAATCTTTTCATAAG
1 TGCTAGATAAACTAGGCTT-AA-ATTTTCTTGAG
* * * *
14489510 TG-TCAGCTAAA-TTGAACTTAAATCTTTCATCGA-
1 TGCT-AGATAAACTAG-GCTTAAAT-TTTC-TTGAG
* * * *
14489543 T-ATCAGCTAAACTGGGCTTAAATTTTTTTGAG
1 TGCT-AGATAAACTAGGCTTAAATTTTCTTGAG
* * * *
14489575 TGCCAGATAAA-TTGGACTCAAGTTTTCATTGTA-
1 TGCTAGATAAACTAGG-CTTAAATTTTC-TTG-AG
* * * *
14489608 TGCTGGCTAAACTAGGCTTAAATTTTTTCATGAA
1 TGCTAGATAAACTAGGCTTAAA--TTTTCTTGAG
* * **
14489642 TGCGA-ACTAAATTAGGCTTAAAACTTCAATT--G
1 TGCTAGA-TAAACTAGGCTTAAATTTTC--TTGAG
* * * ** *
14489674 TGCTAGTTAGACTGGGCTTAAAACTTCAATG-G
1 TGCTAGATAAACTAGGCTTAAATTTTC-TTGAG
* * *
14489706 TGCCAGCTATACTAGGCTTAAATTTTCTTGAG
1 TGCTAGATAAACTAGGCTTAAATTTTCTTGAG
*
14489738 TGCTAGATAAATTAGGCTTAA
1 TGCTAGATAAACTAGGCTTAA
14489759 GTTCTTAAGA
Statistics
Matches: 281, Mismatches: 70, Indels: 62
0.68 0.17 0.15
Matches are distributed among these distances:
31 10 0.04
32 121 0.43
33 73 0.26
34 72 0.26
35 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (32 bp):
TGCTAGATAAACTAGGCTTAAATTTTCTTGAG
Found at i:14490627 original size:14 final size:14
Alignment explanation
Indices: 14490610--14490692 Score: 53
Period size: 14 Copynumber: 5.8 Consensus size: 14
14490600 CATCTATTCA
14490610 TTTCTTTTCTTCTT
1 TTTCTTTTCTTCTT
*
14490624 TTTCTTTT-TTTTCT
1 TTTCTTTTCTTCT-T
* *
14490638 TTTCCTTTGTTCTT
1 TTTCTTTTCTTCTT
*
14490652 TGTTCTTTCCTT-TT
1 T-TTCTTTTCTTCTT
* **
14490666 TCCTCATTTTCTTCAA
1 T-TTC-TTTTCTTCTT
14490682 TTTCTTTTCTT
1 TTTCTTTTCTT
14490693 TTACTAAGTG
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
13 3 0.06
14 30 0.58
15 18 0.35
16 1 0.02
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCTTTTCTTCTT
Found at i:14490637 original size:15 final size:15
Alignment explanation
Indices: 14490610--14490651 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
14490600 CATCTATTCA
14490610 TTTC-TTTTCTTCTT
1 TTTCTTTTTCTTCTT
*
14490624 TTTCTTTTTTTTCTT
1 TTTCTTTTTCTTCTT
*
14490639 TTCCTTTGTTCTT
1 TTTCTTT-TTCTT
14490652 TGTTCTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTCTTCTT
Found at i:14491021 original size:41 final size:41
Alignment explanation
Indices: 14490964--14491041 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
14490954 ATTGAAGAGT
*
14490964 AATTCCCTTTGGAAAAATGAACTTAAAGAAAAGTTTTTTTC
1 AATTCCCTTTGGAAAAATAAACTTAAAGAAAAGTTTTTTTC
14491005 AATTCCCTTTGGAAAAATAAACTTAAAGAAAAGTTTT
1 AATTCCCTTTGGAAAAATAAACTTAAAGAAAAGTTTT
14491042 CATTTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (41 bp):
AATTCCCTTTGGAAAAATAAACTTAAAGAAAAGTTTTTTTC
Found at i:14491226 original size:13 final size:12
Alignment explanation
Indices: 14491198--14491236 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14491188 GTCATAACCA
**
14491198 TTTTTCTTTTCC
1 TTTTTCTTTTTT
*
14491210 TTTTCCTTTTTT
1 TTTTTCTTTTTT
14491222 TTTTTCTTTTTT
1 TTTTTCTTTTTT
14491234 TTT
1 TTT
14491237 GTTATTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:14492759 original size:3 final size:3
Alignment explanation
Indices: 14492743--14492812 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
14492733 TGGTATAATC
* * * *
14492743 ATT ATT GTT GTT ATT ATC AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14492791 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
14492813 GTTTGCTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:14495700 original size:26 final size:27
Alignment explanation
Indices: 14495653--14495704 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
14495643 TATTTTTTTG
***
14495653 AAAAATTAAAATAAAGGGAATTAAATT
1 AAAAATTAAAATAAAACCAATTAAATT
14495680 AAAAATT-AAATAAAACCAATTAAAT
1 AAAAATTAAAATAAAACCAATTAAAT
14495705 CCAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAAATTAAAATAAAACCAATTAAATT
Found at i:14495710 original size:27 final size:27
Alignment explanation
Indices: 14495653--14495712 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
14495643 TATTTTTTTG
*** *
14495653 AAAAATTAAAATAAAGGGAATTAAATT
1 AAAAATTAAAATAAAACCAATTAAATC
14495680 AAAAATT-AAATAAAACCAATTAAATC
1 AAAAATTAAAATAAAACCAATTAAATC
*
14495706 CAAAATT
1 AAAAATT
14495713 TTTAATAGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAAATTAAAATAAAACCAATTAAATC
Found at i:14498332 original size:17 final size:17
Alignment explanation
Indices: 14498293--14498338 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
14498283 GGGCTAAACC
14498293 TTTTTTATTTTT-TTAA
1 TTTTTTATTTTTATTAA
14498309 TTATTTTATTTTTATTATA
1 TT-TTTTATTTTTATTA-A
14498328 TTTTTATATTT
1 TTTTT-TATTT
14498339 AAATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.08
17 10 0.38
18 6 0.23
19 8 0.31
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTTATTAA
Found at i:14498397 original size:7 final size:6
Alignment explanation
Indices: 14498382--14498460 Score: 59
Period size: 7 Copynumber: 11.8 Consensus size: 6
14498372 ATTTTCCAAT
* * *
14498382 TTTTCA TTTTCAA TTTTAAA TTTTAAAA TTTAAAA TTTAAAA TTTTAA
1 TTTTAA TTTT-AA TTTT-AA TTTT--AA TTT-TAA TTTTA-A TTTTAA
14498430 GTTTTAA TTTTTAA TTTTAA TTTTAA TTTTA
1 -TTTTAA -TTTTAA TTTTAA TTTTAA TTTTA
14498461 TAATTTTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
6 24 0.38
7 33 0.52
8 6 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (6 bp):
TTTTAA
Found at i:14498404 original size:14 final size:13
Alignment explanation
Indices: 14498382--14498468 Score: 77
Period size: 14 Copynumber: 6.4 Consensus size: 13
14498372 ATTTTCCAAT
* *
14498382 TTTTCATTTTCAA
1 TTTTAATTTTAAA
14498395 TTTTAAATTTTAAAA
1 TTTT-AATTTT-AAA
* *
14498410 TTTAAAATTTAAAA
1 TTT-TAATTTTAAA
*
14498424 TTTTAAGTTTTAAT
1 TTTTAA-TTTTAAA
14498438 TTTTAATTTT-AA
1 TTTTAATTTTAAA
14498450 TTTTAATTTTATAA
1 TTTTAATTTTA-AA
14498464 TTTTA
1 TTTTA
14498469 TATGCTTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
12 11 0.18
13 10 0.17
14 29 0.48
15 10 0.17
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (13 bp):
TTTTAATTTTAAA
Found at i:14498445 original size:20 final size:20
Alignment explanation
Indices: 14498382--14498468 Score: 88
Period size: 20 Copynumber: 4.2 Consensus size: 20
14498372 ATTTTCCAAT
*
14498382 TTTTCATTTTCAATTTTA-AA
1 TTTTAATTTT-AATTTTATAA
* * *
14498402 TTTTAAAATTTAAAATTTAAAA
1 TTTT--AATTTTAATTTTATAA
14498424 TTTTAAGTTTTAATTTT-TAA
1 TTTTAA-TTTTAATTTTATAA
14498444 TTTTAATTTTAATTTTATAA
1 TTTTAATTTTAATTTTATAA
14498464 TTTTA
1 TTTTA
14498469 TATGCTTATA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.18
20 22 0.39
21 14 0.25
22 10 0.18
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTAATTTTAATTTTATAA
Found at i:14498460 original size:6 final size:6
Alignment explanation
Indices: 14498422--14498460 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
14498412 TAAAATTTAA
14498422 AATTTT AAGTTTT AATTTTT AATTTT AATTTT AATTTT A
1 AATTTT AA-TTTT AA-TTTT AATTTT AATTTT AATTTT A
14498461 TAATTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:14501006 original size:10 final size:10
Alignment explanation
Indices: 14500991--14501016 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14500981 AAGTTTGAAC
14500991 AAATTTTTGA
1 AAATTTTTGA
14501001 AAATTTTTGA
1 AAATTTTTGA
14501011 AAATTT
1 AAATTT
14501017 GGCCTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
AAATTTTTGA
Found at i:14504074 original size:21 final size:22
Alignment explanation
Indices: 14504039--14504079 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14504029 CATAAATCTA
* *
14504039 AATTACAAAGCAAATTAACAAC
1 AATTACAAACCAAATAAACAAC
14504061 AATTA-AAACCAAATAAACA
1 AATTACAAACCAAATAAACA
14504080 TGTAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.17, G:0.02, T:0.17
Consensus pattern (22 bp):
AATTACAAACCAAATAAACAAC
Found at i:14509489 original size:10 final size:9
Alignment explanation
Indices: 14509441--14509494 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
14509431 TTTATTTTCC
*
14509441 TTTTCCTTT
1 TTTTTCTTT
14509450 TTTTTCTTT
1 TTTTTCTTT
*
14509459 TCTCTTCTTT
1 T-TTTTCTTT
*
14509469 TATTTTTTTT
1 T-TTTTCTTT
*
14509479 TTTTTCATT
1 TTTTTCTTT
14509488 TTTTTCT
1 TTTTTCT
14509495 ACCTTTTTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
9 21 0.58
10 15 0.42
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:14510380 original size:22 final size:22
Alignment explanation
Indices: 14510355--14510404 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
14510345 ATGTACAAAG
14510355 AAACAACAAAATAAGCAAATGA
1 AAACAACAAAATAAGCAAATGA
* * * *
14510377 AAACATCAAAATATGTAAATGT
1 AAACAACAAAATAAGCAAATGA
14510399 AAACAA
1 AAACAA
14510405 AAAGAATCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (22 bp):
AAACAACAAAATAAGCAAATGA
Found at i:14513502 original size:41 final size:41
Alignment explanation
Indices: 14513421--14513502 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
14513411 GATCTTATTG
* * *
14513421 ATTTATTTCCTTTAGCTTCAAACTCTATTAGAATGGAAAGA
1 ATTTATTTCCTTTAACTTCAAACTCTATTAAAATGAAAAGA
*
14513462 ATTTGTTTCCTTTAACTTCAAACTCT-TTAAAAATGAAAAGA
1 ATTTATTTCCTTTAACTTCAAACTCTATT-AAAATGAAAAGA
14513503 GTCCTCATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 34 0.94
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (41 bp):
ATTTATTTCCTTTAACTTCAAACTCTATTAAAATGAAAAGA
Found at i:14514366 original size:32 final size:32
Alignment explanation
Indices: 14514325--14514388 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
14514315 TTTATTTTGA
* *
14514325 TTTTTTTTTTACT-TAGCCATTTTCGGCTTTTC
1 TTTTATTTTTACTCTAGCCATGTT-GGCTTTTC
*
14514357 TTTTATTTTTCCTCTAGCCATGTTGGCTTTTC
1 TTTTATTTTTACTCTAGCCATGTTGGCTTTTC
14514389 ATTTGCCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.09, C:0.20, G:0.11, T:0.59
Consensus pattern (32 bp):
TTTTATTTTTACTCTAGCCATGTTGGCTTTTC
Found at i:14514680 original size:43 final size:43
Alignment explanation
Indices: 14514619--14514704 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
14514609 CAATCTAAAG
14514619 AATGCCTAAATCATCTCTTAAGTCAAGTATAACCTAGGATTTT
1 AATGCCTAAATCATCTCTTAAGTCAAGTATAACCTAGGATTTT
14514662 AATGCCTAAATCATCTCTTAAGTCAAGTATAACCTAGGATTTT
1 AATGCCTAAATCATCTCTTAAGTCAAGTATAACCTAGGATTTT
14514705 GCCTTGAGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (43 bp):
AATGCCTAAATCATCTCTTAAGTCAAGTATAACCTAGGATTTT
Found at i:14517612 original size:89 final size:89
Alignment explanation
Indices: 14517459--14517627 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 89
14517449 AATGAGAGTC
* * * *
14517459 TGGAAGATTTTACTAGTTTTTGAAATTGATTCTATGGCTTTCTTTATTTATTTCCTTTAGCTTCA
1 TGGAAGATTTGACTAGTTTTTGAAATTGATTCCATGGCTTTCTTGATTTATTTCCTTTAACTTCA
* *
14517524 GACTCTTTTAAAATGCAATCAGTT
66 AACTCTTTAAAAATGCAATCAGTT
* * * * *
14517548 TGGAAGATTTGGCTGGTTTTTTAAATTGATTCCAT-GATCTTCTTGATTTGTTTCCTTTAACTTC
1 TGGAAGATTTGACTAGTTTTTGAAATTGATTCCATGGCT-TTCTTGATTTATTTCCTTTAACTTC
14517612 AAACTCTTTAAAAATG
65 AAACTCTTTAAAAATG
14517628 AAAAGAGTCC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 2 0.03
89 66 0.97
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (89 bp):
TGGAAGATTTGACTAGTTTTTGAAATTGATTCCATGGCTTTCTTGATTTATTTCCTTTAACTTCA
AACTCTTTAAAAATGCAATCAGTT
Found at i:14523760 original size:11 final size:12
Alignment explanation
Indices: 14523734--14523762 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14523724 CTTCGCCTAA
14523734 TAAAAAGAAACT
1 TAAAAAGAAACT
14523746 TAAAAAGAAAC-
1 TAAAAAGAAACT
14523757 TAAAAA
1 TAAAAA
14523763 AACTAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (12 bp):
TAAAAAGAAACT
Found at i:14526103 original size:16 final size:16
Alignment explanation
Indices: 14526082--14526113 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14526072 ACTATTTGTA
14526082 CTTAATTTTTGTAATG
1 CTTAATTTTTGTAATG
14526098 CTTAATTTTTGTAATG
1 CTTAATTTTTGTAATG
14526114 GCATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (16 bp):
CTTAATTTTTGTAATG
Found at i:14526937 original size:68 final size:69
Alignment explanation
Indices: 14526857--14527007 Score: 200
Period size: 68 Copynumber: 2.2 Consensus size: 69
14526847 AAACGTCGCT
* ** * *
14526857 ATATTAGCGGCATTTGTATGTGAAAAATGTTGCTATATTAGCAGTGTTTGTAT-TTGGAAAACAC
1 ATATTAGTGGCATTTGTATCCGAAAAATGGTACTATATTAGCAGTGTTTGTATATTGG-AAACAC
14526921 CAC-A
65 CACTA
* * *
14526925 ATATTAGTGGCATTTGTATCCGAAAAATGGTACTATTTTAGCAGTGTTTGTATATTTGAAACACT
1 ATATTAGTGGCATTTGTATCCGAAAAATGGTACTATATTAGCAGTGTTTGTATATTGGAAACACC
14526990 ACTA
66 ACTA
14526994 AT-TTAGTGGCATTT
1 ATATTAGTGGCATTT
14527008 TTATTAGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
68 67 0.92
69 6 0.08
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (69 bp):
ATATTAGTGGCATTTGTATCCGAAAAATGGTACTATATTAGCAGTGTTTGTATATTGGAAACACC
ACTA
Found at i:14527712 original size:21 final size:20
Alignment explanation
Indices: 14527661--14527708 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
14527651 CAACTACTAA
*
14527661 AATTTTGCATGCTCTTGCTC
1 AATTTTGCATGCTCTTCCTC
* * *
14527681 TATTCTAGCATGTTCTTCCTC
1 AATT-TTGCATGCTCTTCCTC
14527702 AATTTTG
1 AATTTTG
14527709 GCATACTCCT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (20 bp):
AATTTTGCATGCTCTTCCTC
Found at i:14535014 original size:186 final size:185
Alignment explanation
Indices: 14534745--14535100 Score: 522
Period size: 186 Copynumber: 1.9 Consensus size: 185
14534735 GAATAAACGG
**
14534745 CTTCAATAATTTTTTATTAAAAATTTATTAGGATTATTAAAGATGTCTTGTAGCAGAAAATACCT
1 CTTCAATAATTTCCTATTAAAAATTTATTAGGATTATTAAAGA-GTCTTGTAGCAGAAAATACCT
* *
14534810 TTAATATTTCACTACTAAAATTTTAAGGGGTTATTGAAGGCGTTTATTTGAGAAAAATACCTTCA
65 TCAATATTTCACTACTAAAATTTTAAGGGGTTATTGAAGGCGTTTATTCGAGAAAAATACCTTCA
** *
14534875 CTAATTTGTTCTAATTTTTGAAGAAATTTATTGAAGGCATTTTTTGCATTATATGC
130 CTAATTCATTCTAATTTTTGAAGAAATTTATTGAAAGCATTTTTTGCATTATATGC
*
14534931 CTTCAATAATTTCCTATTAAAAATTGT-TT-GGTATTATTAAATGCA-TCTTGTAGCAGAAAATG
1 CTTCAATAATTTCCTATTAAAAATT-TATTAGG-ATTATTAAA-G-AGTCTTGTAGCAGAAAATA
* **
14534993 CCTTCAATA-TTCTACTACTAAAATTTTAAGGGGTTATTGATGGCGTTTATTCGAGAAAAATGTC
62 CCTTCAATATTTC-ACTACTAAAATTTTAAGGGGTTATTGAAGGCGTTTATTCGAGAAAAATACC
*
14535057 TTCACTAATTCATTCTAATTTTTGAAGGAATTTATTGAAAGCAT
126 TTCACTAATTCATTCTAATTTTTGAAGAAATTTATTGAAAGCAT
14535101 CTTCTAGTAG
Statistics
Matches: 153, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
185 5 0.03
186 145 0.95
187 2 0.01
188 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (185 bp):
CTTCAATAATTTCCTATTAAAAATTTATTAGGATTATTAAAGAGTCTTGTAGCAGAAAATACCTT
CAATATTTCACTACTAAAATTTTAAGGGGTTATTGAAGGCGTTTATTCGAGAAAAATACCTTCAC
TAATTCATTCTAATTTTTGAAGAAATTTATTGAAAGCATTTTTTGCATTATATGC
Found at i:14536047 original size:28 final size:29
Alignment explanation
Indices: 14536002--14536063 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
14535992 TTTTCTTTAA
*
14536002 ATATTGTGATTTGCTGAATGGTATTGTGTG
1 ATATTGT-ATTTGCTGAATGGTATTGTATG
*
14536032 ATATTGT-TTTGTTGAATGGTATTGTATG
1 ATATTGTATTTGCTGAATGGTATTGTATG
14536060 ATAT
1 ATAT
14536064 CGATATGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 23 0.77
30 7 0.23
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.50
Consensus pattern (29 bp):
ATATTGTATTTGCTGAATGGTATTGTATG
Found at i:14536077 original size:28 final size:28
Alignment explanation
Indices: 14536013--14536079 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
14536003 TATTGTGATT
* * * *
14536013 TGCTGAATGGTATTGTGTGATATTGTTT
1 TGCTGAATGGTATTGTATGATATCGATA
*
14536041 TGTTGAATGGTATTGTATGATATCGATA
1 TGCTGAATGGTATTGTATGATATCGATA
*
14536069 TGCTAAATGGT
1 TGCTGAATGGT
14536080 TCGCTGAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (28 bp):
TGCTGAATGGTATTGTATGATATCGATA
Found at i:14539633 original size:126 final size:126
Alignment explanation
Indices: 14539408--14539637 Score: 297
Period size: 126 Copynumber: 1.8 Consensus size: 126
14539398 TAACAAAATG
*
14539408 TTATTGAAGGTGTTTTTGATCAAAACCACTTACAATAATCCCACCCAAAAATTTATTGTCTAGAT
1 TTATTGAAGGTATTTTTGATCAAAACCACTTACAATAATCCCACCCAAAAATTTATTGTCTAGAT
* * *
14539473 TATTAAAGGCCTTTTGGGCCAAAAACACTTTCAAGAATCTACTACAACTTTTTTGTATGGA
66 TATTAAAGACCTTTTGAGCCAAAAACACCTTCAAGAATCTACTACAACTTTTTTGTATGGA
* * ** *
14539534 TTATTGAAGGTATTTTTTA-CAAAAACCACCTT-TAATAATCCCACTTAAAAATTTATTGAT-TG
1 TTATTGAAGGTATTTTTGATC-AAAACCA-CTTACAATAATCCCACCCAAAAATTTATTG-TCTA
**
14539596 GATTATTAAAGACGCTTTT-AGCCAAAAATGCCTTCAAGAATC
63 GATTATTAAAGAC-CTTTTGAGCCAAAAACACCTTCAAGAATC
14539638 CATTCCATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
125 1 0.01
126 79 0.89
127 9 0.10
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (126 bp):
TTATTGAAGGTATTTTTGATCAAAACCACTTACAATAATCCCACCCAAAAATTTATTGTCTAGAT
TATTAAAGACCTTTTGAGCCAAAAACACCTTCAAGAATCTACTACAACTTTTTTGTATGGA
Found at i:14542644 original size:2 final size:2
Alignment explanation
Indices: 14542637--14542680 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
14542627 AGCTTTTGGG
14542637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14542679 TA
1 TA
14542681 GGGTGCATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14550372 original size:126 final size:126
Alignment explanation
Indices: 14550196--14550448 Score: 434
Period size: 126 Copynumber: 2.0 Consensus size: 126
14550186 TAAAGGGAAA
*
14550196 TCTTGATTCCCATAAATAGCCAATAAGTAAAAAGAAGAAGAACTAATTAGCATTTTTTATTTTTT
1 TCTTGATTCCCATAAATAGCCAATAAGTAAAAAAAAGAAGAACTAATTAGCATTTTTTATTTTTT
* *
14550261 ATTTCTTAGGTTTAAAAGTAAAGCCTACCTCTCCCTTTGTTATAATAAGTAAGCAACTAGT
66 ATTTCTTAGGTTTAAAAGCAAAGCCTACCTCTCCCTTTGTTATAATAAGTAAACAACTAGT
* **
14550322 TCTTGATTCCCATAAATAGCTAATGGGTAAAAAAAAGAAGAACTAATTAGCATTTTTTATTTTTT
1 TCTTGATTCCCATAAATAGCCAATAAGTAAAAAAAAGAAGAACTAATTAGCATTTTTTATTTTTT
* *
14550387 GTTTCTTAGGTTTAAAAGCAAAGCCTATCTCTCCCTTTGTTATAATAAGTAAACAACTAGT
66 ATTTCTTAGGTTTAAAAGCAAAGCCTACCTCTCCCTTTGTTATAATAAGTAAACAACTAGT
14550448 T
1 T
14550449 TAAAGAACCC
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (126 bp):
TCTTGATTCCCATAAATAGCCAATAAGTAAAAAAAAGAAGAACTAATTAGCATTTTTTATTTTTT
ATTTCTTAGGTTTAAAAGCAAAGCCTACCTCTCCCTTTGTTATAATAAGTAAACAACTAGT
Found at i:14551700 original size:142 final size:141
Alignment explanation
Indices: 14551349--14551757 Score: 453
Period size: 142 Copynumber: 2.8 Consensus size: 141
14551339 AAAACATCAA
* * * * * *
14551349 AAATTATGAAAATATTATAAAATTGAGATCTAAAATGTTTCATGAAAATCCAAGCTTAGGAAGGC
1 AAATCATG-AAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCAAAGCTCAGGAAGGC
* * * *
14551414 CAAATTATGAAAATACCCTCATAGGGATATTTTGATAATTTTCACATTTTTTGAGGTACTGCTAT
65 CAAATTACGAAAATACCCTTATAGGG-TATTTTGATAA-TTTCACATTCTTGGAGGTACTGCTAT
14551479 GATTTCAAATGCAC
128 GATTTCAAATGCAC
* * *
14551493 AAAAAATCATGAATTATTATGAAATTAAGATCTAGAAAGTTTCATGAAAATCAAAGCTCAAGAAG
1 ---AAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCAAAGCTCAGGAAG
** * * * *
14551558 GTTAAATTACAAAAATACCCTTAAATGGGTATTTTGGTAATTTCACACTTCTTGGA-GTATTGCT
63 GCCAAATTACGAAAATACCCTTATA-GGGTATTTTGATAATTTCACA-TTCTTGGAGGTACTGCT
14551622 ATGATTTCAAATGCATC
126 ATGATTTCAAATGCA-C
* * * * **
14551639 -AATCTTGAAATATTATGAAATTAAGATCCAAAAAATTTCATAAAAATCTGAGCTCAGGAAGGCC
1 AAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCAAAGCTCAGGAAGGCC
* * * *
14551703 AAATTACGAAAATAACCTTGTAGGGGTATTTTGATAATTTCACATTTTTCGAGGT
66 AAATTACGAAAATACCCTTATA-GGGTATTTTGATAATTTCACATTCTTGGAGGT
14551758 GTAATAAAAA
Statistics
Matches: 220, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
141 6 0.03
142 93 0.42
145 29 0.13
146 82 0.37
147 10 0.05
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (141 bp):
AAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCAAAGCTCAGGAAGGCC
AAATTACGAAAATACCCTTATAGGGTATTTTGATAATTTCACATTCTTGGAGGTACTGCTATGAT
TTCAAATGCAC
Found at i:14552433 original size:57 final size:57
Alignment explanation
Indices: 14552343--14552450 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
14552333 TTTTTTTTTG
*
14552343 AACTTGTTTGAAAATGACTCCCCCTAAATAGAGGCTTTGAAACTTAAAAAAAAAAAA
1 AACTTGTTTGAAAATGACTCCCCCTAAACAGAGGCTTTGAAACTTAAAAAAAAAAAA
* * *
14552400 AACTTGTTTGAAAATGGCTCCCCCTAAACAGAGGCTTTGACACTTTAAAAA
1 AACTTGTTTGAAAATGACTCCCCCTAAACAGAGGCTTTGAAACTTAAAAAA
14552451 TTTTGTTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (57 bp):
AACTTGTTTGAAAATGACTCCCCCTAAACAGAGGCTTTGAAACTTAAAAAAAAAAAA
Found at i:14552668 original size:50 final size:50
Alignment explanation
Indices: 14552396--14552910 Score: 535
Period size: 50 Copynumber: 10.3 Consensus size: 50
14552386 TTAAAAAAAA
* *
14552396 AAAAAACTTGTTTGAAAATGGCTCCCCCTAAACAGAGGCTTTGACACTTT
1 AAAAAACTTGTTTGAAAATGGCTCTCCCTAAACAAAGGCTTTGACACTTT
** * *
14552446 AAAAATTTTGTTTGAAAATGGCT-TCTCATAAA-TAAGGCTTTGACA-TTT
1 AAAAAACTTGTTTGAAAATGGCTCTC-CCTAAACAAAGGCTTTGACACTTT
* *
14552494 AAAAAACTTGCTTGAAAATGGCT-TCCTCTAAACAGAGGCTTTGACACTTT
1 AAAAAACTTGTTTGAAAATGGCTCTCC-CTAAACAAAGGCTTTGACACTTT
* * * * * * *
14552544 AAAAAAAACTTGTTTGGAAATGGCTTTTCCTAACCAATGGCTTTGAAAACCTT
1 --AAAAAACTTGTTTGAAAATGGCTCTCCCTAAACAAAGGCTTTG-ACACTTT
**
14552597 AAAAAACTTGTTTGAAAATGGCTCTCCCTAAACAAAACCTTTGACACTTT
1 AAAAAACTTGTTTGAAAATGGCTCTCCCTAAACAAAGGCTTTGACACTTT
* * *
14552647 ATAAAACTTGCTTGAAAATGGCTC-CCCTTAAACAAAGGCTTTGAAACTTT
1 AAAAAACTTGTTTGAAAATGGCTCTCCC-TAAACAAAGGCTTTGACACTTT
* * * *
14552697 AAAAAACTTGTTTGAAAATAGCTCAT-TCTAAACAGAGGCTTTAACACTTT
1 AAAAAACTTGTTTGAAAATGGCTC-TCCCTAAACAAAGGCTTTGACACTTT
* * * * *
14552747 AAAAAGCTTGCTTGAAAATGGCTC-CTCATAAACAGAGGCTTTGAAACTTT
1 AAAAAACTTGTTTGAAAATGGCTCTC-CCTAAACAAAGGCTTTGACACTTT
* * * *
14552797 AAAAATA-TTATTTGAAAATGGCTCCCCCTAAACAAAGGTTTTGAAACTTT
1 AAAAA-ACTTGTTTGAAAATGGCTCTCCCTAAACAAAGGCTTTGACACTTT
* * *
14552847 AAAAAAACTTGTTTGAAAATGGTTCTCACC-AAACAAAGGCTTTAAAACTTT
1 -AAAAAACTTGTTTGAAAATGGCTCTC-CCTAAACAAAGGCTTTGACACTTT
*
14552898 AAAAATCTTGTTT
1 AAAAAACTTGTTT
14552911 TTCTTTTCTC
Statistics
Matches: 387, Mismatches: 60, Indels: 36
0.80 0.12 0.07
Matches are distributed among these distances:
47 1 0.00
48 29 0.07
49 26 0.07
50 210 0.54
51 78 0.20
52 36 0.09
53 7 0.02
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (50 bp):
AAAAAACTTGTTTGAAAATGGCTCTCCCTAAACAAAGGCTTTGACACTTT
Found at i:14552768 original size:201 final size:199
Alignment explanation
Indices: 14552396--14552910 Score: 612
Period size: 201 Copynumber: 2.6 Consensus size: 199
14552386 TTAAAAAAAA
* *
14552396 AAAAAACTTGTTTGAAAATGGCTCCCCCTAAACAGAGGCTTTGACACTTTAAAAATTTTGTTTGA
1 AAAAAACTTGTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGACACTTTAAAAA-CTTGTTTGA
* * * * * *
14552461 AAATGGCTTCTCATAAA-TAAGGCTTTGACA-TTTAAAAAACTTGCTTGAAAATGGCTTCCTCTA
65 AAATGGC-TCCCCTAAACAAAGGCTTTGAAACTTTAAAAAACTTGTTTGAAAATAGCTTCCTCTA
* * * ** * *
14552524 AACAGAGGCTTTGACACTTTAAAAAAAACTTGTTTGGAAATGGCTTTTCCTAACCA-ATGGCTTT
129 AACAGAGGCTTTAACACTTT-AAAAAAACTTGCTTGAAAATGGCTCCTCATAAACAGA-GGCTTT
14552588 GAAAACCTT
192 G-AAACCTT
* ** *
14552597 AAAAAACTTGTTTGAAAATGGCTCTCCCTAAACAAAACCTTTGACACTTTATAAAACTTGCTTGA
1 AAAAAACTTGTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGACACTTTA-AAAACTTGTTTGA
*
14552662 AAATGGCTCCCCTTAAACAAAGGCTTTGAAACTTTAAAAAACTTGTTTGAAAATAGC-TCATTCT
65 AAATGGCTCCCC-TAAACAAAGGCTTTGAAACTTTAAAAAACTTGTTTGAAAATAGCTTC-CTCT
*
14552726 AAACAGAGGCTTTAACACTTT-AAAAAGCTTGCTTGAAAATGGCTCCTCATAAACAGAGGCTTTG
128 AAACAGAGGCTTTAACACTTTAAAAAAACTTGCTTGAAAATGGCTCCTCATAAACAGAGGCTTTG
*
14552790 AAACTTT
193 AAACCTT
* * *
14552797 AAAAATA-TTATTTGAAAATGGCTCCCCCTAAACAAAGGTTTTGAAACTTTAAAAAAACTTGTTT
1 AAAAA-ACTTGTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGACACTTT--AAAAACTTGTTT
* * *
14552861 GAAAATGGTTCTCACC-AAACAAAGGCTTTAAAACTTTAAAAATCTTGTTT
63 GAAAATGG--CTCCCCTAAACAAAGGCTTTGAAACTTTAAAAAACTTGTTT
14552911 TTCTTTTCTC
Statistics
Matches: 271, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
200 51 0.19
201 150 0.55
202 19 0.07
203 51 0.19
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (199 bp):
AAAAAACTTGTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGACACTTTAAAAACTTGTTTGAA
AATGGCTCCCCTAAACAAAGGCTTTGAAACTTTAAAAAACTTGTTTGAAAATAGCTTCCTCTAAA
CAGAGGCTTTAACACTTTAAAAAAACTTGCTTGAAAATGGCTCCTCATAAACAGAGGCTTTGAAA
CCTT
Found at i:14561581 original size:88 final size:88
Alignment explanation
Indices: 14561432--14561594 Score: 299
Period size: 88 Copynumber: 1.9 Consensus size: 88
14561422 TGCACATGTG
* *
14561432 TTATGAAACATATACTATGGTATTACTCTCTTTTTCTTGAGGAGTGTATGTCTTTCATCATTTAT
1 TTATGAAACACATACTATGGTATTACTCTCTTTTTCTTGAGGAGTATATGTCTTTCATCATTTAT
14561497 ATATTAATATTGTATAGGTAATA
66 ATATTAATATTGTATAGGTAATA
*
14561520 TTATGAAACACATACTATGGTATTACTCTTTTTTTCTTGAGGAGTATATGTCTTTCATCATTTAT
1 TTATGAAACACATACTATGGTATTACTCTCTTTTTCTTGAGGAGTATATGTCTTTCATCATTTAT
14561585 ATATTAATAT
66 ATATTAATAT
14561595 CATACTAGTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (88 bp):
TTATGAAACACATACTATGGTATTACTCTCTTTTTCTTGAGGAGTATATGTCTTTCATCATTTAT
ATATTAATATTGTATAGGTAATA
Found at i:14568014 original size:16 final size:15
Alignment explanation
Indices: 14567994--14568036 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14567984 ACTAAACTAA
14567994 AAAAAATAAAAGAAC
1 AAAAAATAAAAGAAC
*
14568009 AAAAAAT-TAAGAAC
1 AAAAAATAAAAGAAC
*
14568023 TAAAAAAGAAAAGA
1 -AAAAAATAAAAGA
14568037 GAAATGAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 6 0.26
15 13 0.57
16 4 0.17
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAATAAAAGAAC
Found at i:14571875 original size:106 final size:106
Alignment explanation
Indices: 14571690--14571897 Score: 276
Period size: 106 Copynumber: 2.0 Consensus size: 106
14571680 CCTATATCCC
* * * * *
14571690 ATCATTTACCATACAATAGACATCATTACATACATCTTTATCTTATCTTTTAAGGTTAAACTTAG
1 ATCATTTACCAAACAATAGACAACATTACATACATCCTTACCTTATCTTTTAAGGTTAAACTTAA
* * *
14571755 TGTTTCTAGGCAAGGTACCTATAGGGTGATTTGCTATGGTT
66 TGTTTATAAGCAAGGTACCTATAGGGTGATTGGCTATGGTT
* * **
14571796 ATCATTTACCAAAGAATAGACAACATTACAT-CCTCCCTTACCTTATCTTTTAAGGTTGGA-TTC
1 ATCATTTACCAAACAATAGACAACATTACATACAT-CCTTACCTTATCTTTTAAGGTTAAACTT-
14571859 AATGTTTATAAGCAAGGTACCTATAGGGTGATTGGCTAT
64 AATGTTTATAAGCAAGGTACCTATAGGGTGATTGGCTAT
14571898 AGCATGGGCT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
105 4 0.05
106 84 0.95
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (106 bp):
ATCATTTACCAAACAATAGACAACATTACATACATCCTTACCTTATCTTTTAAGGTTAAACTTAA
TGTTTATAAGCAAGGTACCTATAGGGTGATTGGCTATGGTT
Found at i:14573215 original size:14 final size:14
Alignment explanation
Indices: 14573198--14573224 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14573188 AAAAGCCAAA
14573198 AAATAAAAGAAAAT
1 AAATAAAAGAAAAT
14573212 AAATAAAAGAAAA
1 AAATAAAAGAAAA
14573225 AGTGTTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.11
Consensus pattern (14 bp):
AAATAAAAGAAAAT
Found at i:14576059 original size:25 final size:25
Alignment explanation
Indices: 14576031--14576078 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14576021 AAAATAATTA
14576031 AACCATAATTTCTTTTGTAATATCG
1 AACCATAATTTCTTTTGTAATATCG
*
14576056 AACCATAATTTTTTTTGTAATAT
1 AACCATAATTTCTTTTGTAATAT
14576079 TGAAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (25 bp):
AACCATAATTTCTTTTGTAATATCG
Found at i:14577404 original size:33 final size:33
Alignment explanation
Indices: 14577350--14577415 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
14577340 TTAAAAATAA
14577350 CATAATATTTAAACGGATATACTAA-CTAGTTTG
1 CATAATATTTAAACGGATATACTAATC-AGTTTG
* * *
14577383 CATAATATTTAAGCTGTTATACTAATCAGTTTG
1 CATAATATTTAAACGGATATACTAATCAGTTTG
14577416 GATCTACTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
CATAATATTTAAACGGATATACTAATCAGTTTG
Found at i:14577597 original size:20 final size:20
Alignment explanation
Indices: 14577559--14577599 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14577549 ATTAAGCATA
**
14577559 TTTTTTTCTTTTTGGTTTCT
1 TTTTTTTCTTTTTCCTTTCT
*
14577579 TTTTTTTTTTTTTCCTTTCT
1 TTTTTTTCTTTTTCCTTTCT
14577599 T
1 T
14577600 GATTAATTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (20 bp):
TTTTTTTCTTTTTCCTTTCT
Found at i:14586738 original size:23 final size:22
Alignment explanation
Indices: 14586706--14586749 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14586696 CTCTTATCTT
14586706 TTTTAGTTCTTTATCTTTAGTTC
1 TTTTAGTTCTTTA-CTTTAGTTC
* *
14586729 TTTTATTTCTTTAGTTTAGTT
1 TTTTAGTTCTTTACTTTAGTT
14586750 ATTGGCTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTTTAGTTCTTTACTTTAGTTC
Found at i:14594421 original size:29 final size:28
Alignment explanation
Indices: 14594389--14594448 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
14594379 TAATGACCAA
14594389 AATTATAACACAT-TAACTATATTCAAACT
1 AATTATAACAC-TCTAACTATA-TCAAACT
14594418 AATTATAACACTCTAACTATATCAAACT
1 AATTATAACACTCTAACTATATCAAACT
14594446 AAT
1 AAT
14594449 GGAAGAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (28 bp):
AATTATAACACTCTAACTATATCAAACT
Found at i:14594861 original size:20 final size:22
Alignment explanation
Indices: 14594838--14594890 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
14594828 ACTTAAACAC
14594838 AAATTAAAAGTAAC-AA-AA-CT
1 AAATTAAAA-TAACTAAGAAGCT
14594858 AAATTGAAAATAACTAAGAAGCT
1 AAATT-AAAATAACTAAGAAGCT
14594881 AAATTAAAAT
1 AAATTAAAAT
14594891 TTTAATTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.31
21 6 0.21
22 7 0.24
23 7 0.24
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (22 bp):
AAATTAAAATAACTAAGAAGCT
Found at i:14596999 original size:20 final size:20
Alignment explanation
Indices: 14596960--14596997 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14596950 ATTTATTGTT
*
14596960 ATTACATGTTTTTAAGTTTA
1 ATTACATGTATTTAAGTTTA
14596980 ATTACAT-TATTTAAGTTT
1 ATTACATGTATTTAAGTTT
14596998 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTACATGTATTTAAGTTTA
Found at i:14597117 original size:29 final size:29
Alignment explanation
Indices: 14597085--14597145 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
14597075 TACTTGATTC
14597085 ACTCTATTTACAATCCTTATGGGAACAAT
1 ACTCTATTTACAATCCTTATGGGAACAAT
14597114 ACTCTATTTACAATCCTTATGGGAACAAT
1 ACTCTATTTACAATCCTTATGGGAACAAT
14597143 ACT
1 ACT
14597146 ATACTTACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (29 bp):
ACTCTATTTACAATCCTTATGGGAACAAT
Found at i:14597153 original size:29 final size:29
Alignment explanation
Indices: 14597092--14597153 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
14597082 TTCACTCTAT
* *
14597092 TTACAATCCTTATGGGAACAATACTCTAT
1 TTACAATCCTTATGGGAACAATACTATAC
14597121 TTACAATCCTTATGGGAACAATACTATAC
1 TTACAATCCTTATGGGAACAATACTATAC
14597150 TTAC
1 TTAC
14597154 TCTATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (29 bp):
TTACAATCCTTATGGGAACAATACTATAC
Found at i:14603657 original size:102 final size:102
Alignment explanation
Indices: 14603540--14603743 Score: 345
Period size: 102 Copynumber: 2.0 Consensus size: 102
14603530 AATTATTGAA
*
14603540 ATAATAAAAATAAAGTAATAAAAGATAAATAAATGATAAATAAAATATTTTAATTAAAAGGGAGA
1 ATAATAAAAATAAAGTAATAAAAGATAAATAAACGATAAATAAAATATTTTAATTAAAAGGGAGA
14603605 TAAAAGAAAAATATAAAAATTCAAATTTTAGAAAAAT
66 TAAAAGAAAAATATAAAAATTCAAATTTTAGAAAAAT
* * *
14603642 ATAATAAAAATAAAGTAATAAAAGATACATAAACGATAAATAAAATTTTTTAATTAAAAGGGGGA
1 ATAATAAAAATAAAGTAATAAAAGATAAATAAACGATAAATAAAATATTTTAATTAAAAGGGAGA
* * *
14603707 TAAGAGAAAAATATAAAAATTCAATTTTTTGAAAAAT
66 TAAAAGAAAAATATAAAAATTCAAATTTTAGAAAAAT
14603744 TCTAAAAAGT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (102 bp):
ATAATAAAAATAAAGTAATAAAAGATAAATAAACGATAAATAAAATATTTTAATTAAAAGGGAGA
TAAAAGAAAAATATAAAAATTCAAATTTTAGAAAAAT
Found at i:14604054 original size:38 final size:38
Alignment explanation
Indices: 14604001--14604074 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
14603991 CCCTAAATCA
* *
14604001 AAACCCTAGAGAAAATCATAATCCTTAAGTGAAACCCT
1 AAACCCTAGAGAAAATCATAAACCTTAAGCGAAACCCT
*
14604039 AAACCCTAG-GTAAAATCTTAAACCTTAAGCGAAACC
1 AAACCCTAGAG-AAAATCATAAACCTTAAGCGAAACC
14604075 TTGAGACCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.20
Consensus pattern (38 bp):
AAACCCTAGAGAAAATCATAAACCTTAAGCGAAACCCT
Found at i:14616033 original size:3 final size:3
Alignment explanation
Indices: 14616016--14616077 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
14616006 AAAGTAAATT
* * *
14616016 AAC AAC AAT AGC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
14616064 AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AA
14616078 TAATAATAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.29, G:0.02, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:14616082 original size:3 final size:3
Alignment explanation
Indices: 14616076--14616117 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14616066 CAACAACAAC
14616076 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14616118 GATTATACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14616870 original size:16 final size:14
Alignment explanation
Indices: 14616849--14616892 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 14
14616839 AAAAAAGGAT
14616849 AAAAAGGTGAAAAAGA
1 AAAAAGGT-AAAAA-A
14616865 AAAAAGGTAAAAAA
1 AAAAAGGTAAAAAA
14616879 AAAAA--TAAAAAA
1 AAAAAGGTAAAAAA
14616891 AA
1 AA
14616893 GAACTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.32
14 6 0.21
15 5 0.18
16 8 0.29
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAAGGTAAAAAA
Found at i:14616876 original size:15 final size:15
Alignment explanation
Indices: 14616849--14616883 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
14616839 AAAAAAGGAT
14616849 AAAAAGGTGAAAAAGA
1 AAAAAGGTGAAAAA-A
14616865 AAAAAGGT-AAAAAA
1 AAAAAGGTGAAAAAA
14616879 AAAAA
1 AAAAA
14616884 TAAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 5 0.26
16 8 0.42
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (15 bp):
AAAAAGGTGAAAAAA
Found at i:14617741 original size:16 final size:16
Alignment explanation
Indices: 14617720--14617750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14617710 GGGACATGTA
14617720 AAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
*
14617736 AAAAAAAACAAAAGA
1 AAAAAAAAAAAAAGA
14617751 AAAGGAAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:14625252 original size:30 final size:30
Alignment explanation
Indices: 14625218--14625324 Score: 126
Period size: 30 Copynumber: 3.6 Consensus size: 30
14625208 TTAGGCCTAA
*
14625218 TTTATCTGGTATCAAAGAAATTAAGTCCAG
1 TTTATCTAGTATCAAAGAAATTAAGTCCAG
* * * * *
14625248 TTTATCTAATATTAAAG-ATTTAAGCCCAA
1 TTTATCTAGTATCAAAGAAATTAAGTCCAG
* *
14625277 TTTATCTGGTATCAAAGAAATTACGTCCAG
1 TTTATCTAGTATCAAAGAAATTAAGTCCAG
*
14625307 TTTATCTAGTATTAAAGA
1 TTTATCTAGTATCAAAGA
14625325 TTTAAGCCTA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 23 0.38
30 38 0.62
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (30 bp):
TTTATCTAGTATCAAAGAAATTAAGTCCAG
Found at i:14625279 original size:59 final size:59
Alignment explanation
Indices: 14625202--14625339 Score: 240
Period size: 59 Copynumber: 2.3 Consensus size: 59
14625192 GCACTCATGA
*
14625202 AAAGATTTAGGCCTAATTTATCTGGTATCAAAGAAATTAAGTCCAGTTTATCTAATATT
1 AAAGATTTAAGCCTAATTTATCTGGTATCAAAGAAATTAAGTCCAGTTTATCTAATATT
* * *
14625261 AAAGATTTAAGCCCAATTTATCTGGTATCAAAGAAATTACGTCCAGTTTATCTAGTATT
1 AAAGATTTAAGCCTAATTTATCTGGTATCAAAGAAATTAAGTCCAGTTTATCTAATATT
14625320 AAAGATTTAAGCCTAATTTA
1 AAAGATTTAAGCCTAATTTA
14625340 GCTGACACTT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (59 bp):
AAAGATTTAAGCCTAATTTATCTGGTATCAAAGAAATTAAGTCCAGTTTATCTAATATT
Found at i:14625280 original size:29 final size:29
Alignment explanation
Indices: 14625202--14625339 Score: 123
Period size: 30 Copynumber: 4.7 Consensus size: 29
14625192 GCACTCATGA
* * *
14625202 AAAGATTTAGGCCTAATTTATCTGGTATC
1 AAAGATTTAAGCCCAATTTATCTAGTATC
* * * * *
14625231 AAAGAAATTAAGTCCAGTTTATCTAATATT
1 AAAG-ATTTAAGCCCAATTTATCTAGTATC
*
14625261 AAAGATTTAAGCCCAATTTATCTGGTATC
1 AAAGATTTAAGCCCAATTTATCTAGTATC
* * * * *
14625290 AAAGAAATTACGTCCAGTTTATCTAGTATT
1 AAAG-ATTTAAGCCCAATTTATCTAGTATC
*
14625320 AAAGATTTAAGCCTAATTTA
1 AAAGATTTAAGCCCAATTTA
14625340 GCTGACACTT
Statistics
Matches: 82, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
29 38 0.46
30 44 0.54
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (29 bp):
AAAGATTTAAGCCCAATTTATCTAGTATC
Found at i:14625392 original size:34 final size:34
Alignment explanation
Indices: 14625320--14625434 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 34
14625310 ATCTAGTATT
* * * *
14625320 AAAGATTTAAGCCTAATTTAGCTGACACTTAATGA
1 AAAGATTTAAGCCCAACTTAACTGGCAC-TAATGA
**
14625355 AAAGATTTAAGCCCAACTTATTTGGCACTAATGA
1 AAAGATTTAAGCCCAACTTAACTGGCACTAATGA
* * *
14625389 AAAGATTTAAGCTCAGCTTAACTGGCATTAATGA
1 AAAGATTTAAGCCCAACTTAACTGGCACTAATGA
14625423 AAAGATTTAAGC
1 AAAGATTTAAGC
14625435 TTAGTTTAGC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 47 0.67
35 23 0.33
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (34 bp):
AAAGATTTAAGCCCAACTTAACTGGCACTAATGA
Found at i:14625695 original size:33 final size:34
Alignment explanation
Indices: 14625658--14625738 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 34
14625648 TTGGTGCCAA
14625658 TGAAAATTTAAGCCAAATTTAGCTAGCATC-CAG
1 TGAAAATTTAAGCCAAATTTAGCTAGCATCTCAG
* * * * *
14625691 TGAAAA-TTAAACCCAGTTTATCTGGCATCTCAG
1 TGAAAATTTAAGCCAAATTTAGCTAGCATCTCAG
*
14625724 GGAAAGATTTAAGCC
1 TGAAA-ATTTAAGCC
14625739 TAGATTACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 18 0.47
33 13 0.34
34 1 0.03
35 6 0.16
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (34 bp):
TGAAAATTTAAGCCAAATTTAGCTAGCATCTCAG
Found at i:14625796 original size:34 final size:36
Alignment explanation
Indices: 14625707--14625914 Score: 115
Period size: 34 Copynumber: 6.1 Consensus size: 36
14625697 TTAAACCCAG
* * *
14625707 TTTATCTGGCATCTCAGGGAAAGATTTAAGCCTAGA
1 TTTATCTTGCACCTCAGAGAAAGATTTAAGCCTAGA
*
14625743 -TTA-CTTGGC-CCTCATAGAAAGA-TTAAGCCTA-A
1 TTTATCTT-GCACCTCAGAGAAAGATTTAAGCCTAGA
* * *
14625775 TTTATCTTGCACCTTAGAGAAAAATTTAAGCCCAG-
1 TTTATCTTGCACCTCAGAGAAAGATTTAAGCCTAGA
* * * * *
14625810 CTTAGCTAGTACC-CA-ATGAAA-A-TTAAACCTAGA
1 TTTATCTTGCACCTCAGA-GAAAGATTTAAGCCTAGA
* * *
14625843 -TTACCTGGC-CCTCATG-GAAAGATTTAAACCTAG-
1 TTTATCTTGCACCTCA-GAGAAAGATTTAAGCCTAGA
* *
14625876 TTTATCTAGCACCTCATGA-AAAAATTTAAGCCTAG-
1 TTTATCTTGCACCTCA-GAGAAAGATTTAAGCCTAGA
14625911 TTTA
1 TTTA
14625915 GCTGACACCT
Statistics
Matches: 134, Mismatches: 22, Indels: 33
0.71 0.12 0.17
Matches are distributed among these distances:
31 2 0.01
32 21 0.16
33 17 0.13
34 47 0.35
35 47 0.35
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (36 bp):
TTTATCTTGCACCTCAGAGAAAGATTTAAGCCTAGA
Found at i:14625841 original size:100 final size:101
Alignment explanation
Indices: 14625732--14625917 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 101
14625722 AGGGAAAGAT
* * * * *
14625732 TTAAGCCTAGATTACTTGGCCCTCATAGAAAGA-TTAAGCCTAATTTATCTTGCACCTTA-GAGA
1 TTAAACCTAGATTACCTGGCCCTCATAGAAAGATTTAAACCTAATTTATCTAGCACCTCATGA-A
14625795 AAAATTTAAGCCCAGCTTAGCTAGTACCCAATGAAAA
65 AAAATTTAAGCCCAGCTTAGCTAGTACCCAATGAAAA
* *
14625832 TTAAACCTAGATTACCTGGCCCTCATGGAAAGATTTAAACCTAGTTTATCTAGCACCTCATGAAA
1 TTAAACCTAGATTACCTGGCCCTCATAGAAAGATTTAAACCTAATTTATCTAGCACCTCATGAAA
* *
14625897 AAATTTAAGCCTAGTTTAGCT
66 AAATTTAAGCCCAGCTTAGCT
14625918 GACACCTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
100 30 0.40
101 43 0.57
102 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (101 bp):
TTAAACCTAGATTACCTGGCCCTCATAGAAAGATTTAAACCTAATTTATCTAGCACCTCATGAAA
AAATTTAAGCCCAGCTTAGCTAGTACCCAATGAAAA
Found at i:14625903 original size:35 final size:35
Alignment explanation
Indices: 14625660--14626146 Score: 156
Period size: 33 Copynumber: 14.6 Consensus size: 35
14625650 GGTGCCAATG
* * *
14625660 AAAATTTAAGCCAAATTTAGCTAGCATC-CAGTG--
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCA-TGAA
* * * * * * *
14625693 AAAA-TTAAACCCAGTTTATCTGGCATCTCAGGGA
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
* * *
14625727 AAGATTTAAGCCTAGATTA-CTTGGC-CCTCAT-AGA
1 AAAATTTAAGCCTAGTTTAGC-TAGCACCTCATGA-A
* * * * *
14625761 AAGA-TTAAGCCTAATTTATCTTGCACCTTA-GAGA
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGA-A
* * *
14625795 AAAATTTAAGCCCAGCTTAGCTAGTACC-CAATG--
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTC-ATGAA
* * * * *
14625828 AAAA-TTAAACCTAGATTACCTGGC-CCTCATGGA
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
* * *
14625861 AAGATTTAAACCTAGTTTATCTAGCACCTCATGAA
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
*
14625896 AAAATTTAAGCCTAGTTTAGCT-GACACCTAAT--A
1 AAAATTTAAGCCTAGTTTAGCTAG-CACCTCATGAA
* * * *
14625929 AAAATTTAAGCCCAGTTTA-CGTAGCACGTCAAGGA
1 AAAATTTAAGCCTAGTTTAGC-TAGCACCTCATGAA
* *
14625964 AAGATTTAGGCCTAGTTTAGCTAGCA-C-CA--ACA
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGA-A
* * * * *
14625996 AAAA-TTAAGACTAGATTACCTAGC-CCCCATGGA
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
* * * * * * *
14626029 AAGATTTAAACCCAGATTATCTAACA-CTAATG--
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
* * **
14626061 AAAATTTAAGCCTAGTTTAACTGGCACCAAATG--
1 AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
* * * * *
14626094 AAAATTTAAGCCCATTTTATC-CGTCACCTAATG--
1 AAAATTTAAGCCTAGTTTAGCTAG-CACCTCATGAA
14626127 AAAATTTAAGCCTAGTTTAG
1 AAAATTTAAGCCTAGTTTAG
14626147 TTGGCATCGA
Statistics
Matches: 343, Mismatches: 79, Indels: 64
0.71 0.16 0.13
Matches are distributed among these distances:
31 22 0.06
32 61 0.18
33 107 0.31
34 62 0.18
35 89 0.26
36 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (35 bp):
AAAATTTAAGCCTAGTTTAGCTAGCACCTCATGAA
Found at i:14625905 original size:169 final size:166
Alignment explanation
Indices: 14625697--14626112 Score: 414
Period size: 169 Copynumber: 2.5 Consensus size: 166
14625687 CCAGTGAAAA
* * * * *
14625697 TTAAACCCAGTTTATCTGGCATCTCAGGGAAAGATTTAAGCCTAGATTA-CTTGGC-CCTCATAG
1 TTAAACCCAGTTTATCTAGCA-CTCA-TGAAAAATTTAAGCCTAGATTAGC-TGACACCTAATA-
* * * *
14625760 AAAGA-TTAAGCCTAATTTATC-TTGCACCT-TAGAGAAAAATTTAAGCCCAGCTTAGCTAGTAC
62 AAA-ATTTAAGCCCAATTTA-CGTAGCACCTCAAG-GAAAAATTTAAGCCCAGCTTAGCTAGCA-
** * *
14625822 CCAATGAAAATTAA-ACCTAGATTACCTGGCCCTCATGGAAAGAT
123 CCAACAAAAATTAAGA-CTAGATTACCTAGCCCCCATGGAAAGAT
* *
14625866 TTAAACCTAGTTTATCTAGCACCTCATGAAAAAATTTAAGCCTAGTTTAGCTGACACCTAATAAA
1 TTAAACCCAGTTTATCTAGCA-CTCATG-AAAAATTTAAGCCTAGATTAGCTGACACCTAATAAA
* * * * * *
14625931 AATTTAAGCCCAGTTTACGTAGCACGTCAAGGAAAGATTTAGGCCTAGTTTAGCTAGCACCAACA
64 AATTTAAGCCCAATTTACGTAGCACCTCAAGGAAAAATTTAAGCCCAGCTTAGCTAGCACCAACA
14625996 AAAATTAAGACTAGATTACCTAGCCCCCATGGAAAGAT
129 AAAATTAAGACTAGATTACCTAGCCCCCATGGAAAGAT
* * * * * * * *
14626034 TTAAACCCAGATTATCTAACACTAATG-AAAATTTAAGCCTAGTTTAACTGGCACCAAATGAAAA
1 TTAAACCCAGTTTATCTAGCACTCATGAAAAATTTAAGCCTAGATTAGCTGACACCTAATAAAAA
*
14626098 TTTAAGCCCATTTTA
66 TTTAAGCCCAATTTA
14626113 TCCGTCACCT
Statistics
Matches: 209, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
165 47 0.22
167 5 0.02
168 59 0.28
169 89 0.43
170 9 0.04
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (166 bp):
TTAAACCCAGTTTATCTAGCACTCATGAAAAATTTAAGCCTAGATTAGCTGACACCTAATAAAAA
TTTAAGCCCAATTTACGTAGCACCTCAAGGAAAAATTTAAGCCCAGCTTAGCTAGCACCAACAAA
AATTAAGACTAGATTACCTAGCCCCCATGGAAAGAT
Found at i:14626233 original size:36 final size:36
Alignment explanation
Indices: 14626181--14626289 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
14626171 CATTAATTGC
* * *
14626181 TTGACTTATGGCGTTGTCTTGGTCACTCTTTATTTT
1 TTGACTTGTGGTGTTGTCTTGGTCACTCATTATTTT
* * *
14626217 TTGACTTGTGGTGTTGTCCTAGTCATTCATTATTTT
1 TTGACTTGTGGTGTTGTCTTGGTCACTCATTATTTT
* ** *
14626253 TCGACTTGTGGTGTTGTCTTGGTTGCTCCTTATTTT
1 TTGACTTGTGGTGTTGTCTTGGTCACTCATTATTTT
14626289 T
1 T
14626290 AGATTGGTCG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.10, C:0.16, G:0.21, T:0.53
Consensus pattern (36 bp):
TTGACTTGTGGTGTTGTCTTGGTCACTCATTATTTT
Found at i:14626380 original size:94 final size:94
Alignment explanation
Indices: 14626199--14626382 Score: 253
Period size: 94 Copynumber: 2.0 Consensus size: 94
14626189 TGGCGTTGTC
* * *
14626199 TTGGTCACTCTTTATTTTTTGACTTGTGGTGTTGTCCTAGTCATTCATTATTTTTCGACTTGTGG
1 TTGGTCACTCTTCATTTTTTGACTTGTGGTGTTGTCATAGTCACTCATTATTTTTCGACTTGTGG
* * **
14626264 TGTTGTCTTGGTTGCTCCTTATTTTTAGA
66 TGTTGTCCTAGCCGCTCCTTATTTTTAGA
* *
14626293 TTGGTCGCTCTTCATTTTTTGACTTGTGGTGTTGTCATAGTCACTCCTTA-TTTTCTGACTTGTG
1 TTGGTCACTCTTCATTTTTTGACTTGTGGTGTTGTCATAGTCACTCATTATTTTTC-GACTTGTG
* *
14626357 GTGTTGTCCTAGCCGTTCGTTATTTT
65 GTGTTGTCCTAGCCGCTCCTTATTTT
14626383 CGGCTTGTGG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 5 0.06
94 73 0.94
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.52
Consensus pattern (94 bp):
TTGGTCACTCTTCATTTTTTGACTTGTGGTGTTGTCATAGTCACTCATTATTTTTCGACTTGTGG
TGTTGTCCTAGCCGCTCCTTATTTTTAGA
Found at i:14626397 original size:35 final size:36
Alignment explanation
Indices: 14626306--14626397 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 36
14626296 GTCGCTCTTC
* *
14626306 ATTTTTTGACTTGTGGTGTTGTCATAGTCACTCCTT
1 ATTTTCTGACTTGTGGTGTTGTCATAGCCACTCCTT
* ** *
14626342 ATTTTCTGACTTGTGGTGTTGTCCTAGCCGTTCGTT
1 ATTTTCTGACTTGTGGTGTTGTCATAGCCACTCCTT
*
14626378 ATTTTC-GGCTTGTGGTGTTG
1 ATTTTCTGACTTGTGGTGTTG
14626398 CTCCGATCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 13 0.27
36 36 0.73
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.49
Consensus pattern (36 bp):
ATTTTCTGACTTGTGGTGTTGTCATAGCCACTCCTT
Found at i:14626415 original size:36 final size:36
Alignment explanation
Indices: 14626306--14626419 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 36
14626296 GTCGCTCTTC
* ** * *
14626306 ATTTTTTGACTTGTGGTGTTGTCATAGTCA-CTCCTT
1 ATTTTCTGACTTGTGGTGTTGTCCGAG-CAGTTCGTT
* *
14626342 ATTTTCTGACTTGTGGTGTTGTCCTAGCCGTTCGTT
1 ATTTTCTGACTTGTGGTGTTGTCCGAGCAGTTCGTT
* * * *
14626378 ATTTTC-GGCTTGTGGTGTTGCTCCGATCATTTTGTT
1 ATTTTCTGACTTGTGGTGTTG-TCCGAGCAGTTCGTT
14626414 ATTTTC
1 ATTTTC
14626420 AACCTATGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
35 14 0.22
36 51 0.78
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.50
Consensus pattern (36 bp):
ATTTTCTGACTTGTGGTGTTGTCCGAGCAGTTCGTT
Found at i:14628146 original size:115 final size:116
Alignment explanation
Indices: 14627996--14628217 Score: 320
Period size: 115 Copynumber: 1.9 Consensus size: 116
14627986 AATTGTTAGT
* * * *
14627996 TATACATGGTTGAAAAAAATCCAAGACTTCCCTTTTTAAATATGTTTGTACGTTGGCATAGGCAC
1 TATACATGGTTGAAAAAAATCCAAAACTTCACTTTTTAAATATGTTAGTACGATGGCATAGGCAC
**
14628061 TTGATGTAGTCATTTTGTTTGCATGAAGGTCTTTCATGGTGACCAGTTCCA
66 TTGATGTAGTCATTTTGTTTGCATGAAGACCTTTCATGGTGACCAGTTCCA
* * * *
14628112 TATACATGGTTG-AAAGAGTCCAAAACTTCACTTTTTGAATATGTTAGTACGATGGCATGGGCAC
1 TATACATGGTTGAAAAAAATCCAAAACTTCACTTTTTAAATATGTTAGTACGATGGCATAGGCAC
* * *
14628176 TTGATTTAGTTATTTTGTTTGCATGATGACCTTTCATGGTGA
66 TTGATGTAGTCATTTTGTTTGCATGAAGACCTTTCATGGTGA
14628218 TTAGTCTTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
115 81 0.87
116 12 0.13
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (116 bp):
TATACATGGTTGAAAAAAATCCAAAACTTCACTTTTTAAATATGTTAGTACGATGGCATAGGCAC
TTGATGTAGTCATTTTGTTTGCATGAAGACCTTTCATGGTGACCAGTTCCA
Found at i:14628620 original size:26 final size:25
Alignment explanation
Indices: 14628591--14628682 Score: 112
Period size: 26 Copynumber: 3.6 Consensus size: 25
14628581 GAGATAAGAG
14628591 AAAATTATAAAAATTCAATTTTTAGA
1 AAAATTATAAAAATT-AATTTTTAGA
* ** *
14628617 AAAATTATAAAAAGTGAGCTTTTACAA
1 AAAATTATAAAAA-TTAATTTTTA-GA
*
14628644 AAAAATATAAAAATTAATTTTTAGA
1 AAAATTATAAAAATTAATTTTTAGA
14628669 AAAATTATAAAAAT
1 AAAATTATAAAAAT
14628683 GAGCTTGGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
25 14 0.26
26 26 0.48
27 14 0.26
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
AAAATTATAAAAATTAATTTTTAGA
Found at i:14628699 original size:52 final size:53
Alignment explanation
Indices: 14628591--14628689 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 53
14628581 GAGATAAGAG
* *
14628591 AAAATTATAAAAATTCAATTTTTAGAAAAATTATAAAAAGTGAGCTTTTACAA
1 AAAAATATAAAAATTCAATTTTTAGAAAAATTATAAAAAGTGAGCTTGTACAA
14628644 AAAAATATAAAAATT-AATTTTTAGAAAAATTATAAAAA-TGAGCTTG
1 AAAAATATAAAAATTCAATTTTTAGAAAAATTATAAAAAGTGAGCTTG
14628690 GTCTGAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 7 0.16
52 23 0.52
53 14 0.32
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (53 bp):
AAAAATATAAAAATTCAATTTTTAGAAAAATTATAAAAAGTGAGCTTGTACAA
Found at i:14628890 original size:19 final size:19
Alignment explanation
Indices: 14628866--14628909 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14628856 CTCTATTAAT
*
14628866 ACCCTAAATAAAATCCTAA
1 ACCCTAAATAAAACCCTAA
** *
14628885 ACCCTAGGTGAAACCCTAA
1 ACCCTAAATAAAACCCTAA
14628904 ACCCTA
1 ACCCTA
14628910 GGTAAACTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.32, G:0.07, T:0.18
Consensus pattern (19 bp):
ACCCTAAATAAAACCCTAA
Found at i:14628910 original size:19 final size:19
Alignment explanation
Indices: 14628880--14628948 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
14628870 TAAATAAAAT
14628880 CCTAAACCCTAGGTGAAAC
1 CCTAAACCCTAGGTGAAAC
14628899 CCTAAACCCTAGGT-AAAC
1 CCTAAACCCTAGGTGAAAC
* * **
14628917 TCTTAAGCCCTAAATGAAAC
1 -CCTAAACCCTAGGTGAAAC
*
14628937 CTCGAAACCCTA
1 C-CTAAACCCTA
14628949 TATTAAAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.10
19 25 0.62
20 11 0.28
ACGTcount: A:0.38, C:0.32, G:0.12, T:0.19
Consensus pattern (19 bp):
CCTAAACCCTAGGTGAAAC
Found at i:14629975 original size:35 final size:35
Alignment explanation
Indices: 14629936--14630008 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
14629926 TGTTGTCTCA
14629936 GTCATACATTATTTCTAACTTATGGTATTGTCGTG
1 GTCATACATTATTTCTAACTTATGGTATTGTCGTG
*** *
14629971 GTCATTTTTTATTTCTAACTTATGGTGTTGTCGTG
1 GTCATACATTATTTCTAACTTATGGTATTGTCGTG
14630006 GTC
1 GTC
14630009 GTTTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.49
Consensus pattern (35 bp):
GTCATACATTATTTCTAACTTATGGTATTGTCGTG
Found at i:14630014 original size:35 final size:35
Alignment explanation
Indices: 14629944--14630037 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 35
14629934 CAGTCATACA
*
14629944 TTATTTCTAACTTATGGTATTGTCGTGGTCATTTT
1 TTATTTCTAACTTATGGTGTTGTCGTGGTCATTTT
*
14629979 TTATTTCTAACTTATGGTGTTGTCGTGGTCGTTTT
1 TTATTTCTAACTTATGGTGTTGTCGTGGTCATTTT
* * * *
14630014 TTATTTTTGACTTTTAGTGTTGTC
1 TTATTTCTAACTTATGGTGTTGTC
14630038 CTAGTTGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.56
Consensus pattern (35 bp):
TTATTTCTAACTTATGGTGTTGTCGTGGTCATTTT
Found at i:14630168 original size:35 final size:34
Alignment explanation
Indices: 14630127--14630251 Score: 124
Period size: 35 Copynumber: 3.6 Consensus size: 34
14630117 CGTAATTACT
* *
14630127 TGACTTATGGTGTTGTCCCTATCATTCATTATTTC
1 TGACTTATGATATTGT-CCTATCATTCATTATTTC
* * * *
14630162 AGACTTATGATGTTATCCTGATCGTTCATTATTTC
1 TGACTTATGATATTGTCCT-ATCATTCATTATTTC
* * * * *
14630197 TGATTTATGGTATTGTCCAAGTCATTCTTTATTTT
1 TGACTTATGATATTGTCCTA-TCATTCATTATTTC
14630232 TGACTTATGATATTGTCCTA
1 TGACTTATGATATTGTCCTA
14630252 GTGTTCAGTT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
34 4 0.06
35 68 0.94
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (34 bp):
TGACTTATGATATTGTCCTATCATTCATTATTTC
Found at i:14630564 original size:35 final size:35
Alignment explanation
Indices: 14630520--14630596 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
14630510 TTTTTGACGT
* * * *
14630520 TGGTATTGTCTCAGTCGTCCTTTATTTCTGACTTA
1 TGGTGTTGTCTAAGTCATCCATTATTTCTGACTTA
*
14630555 TGGTGTTGTCTAAGTCATTCATTATTTCTGACTTA
1 TGGTGTTGTCTAAGTCATCCATTATTTCTGACTTA
14630590 TGGTGTT
1 TGGTGTT
14630597 ATCGTGATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (35 bp):
TGGTGTTGTCTAAGTCATCCATTATTTCTGACTTA
Found at i:14630608 original size:35 final size:35
Alignment explanation
Indices: 14630541--14630616 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
14630531 CAGTCGTCCT
*
14630541 TTATTTCTGACTTATGGTGTTGTCTAAGTCATTCA
1 TTATTTCTGACTTATGGTGTTATCTAAGTCATTCA
*
14630576 TTATTTCTGACTTATGGTGTTATCGTGA-TCATTCA
1 TTATTTCTGACTTATGGTGTTATC-TAAGTCATTCA
14630611 TTATTT
1 TTATTT
14630617 TTTACTTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 36 0.95
36 2 0.05
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (35 bp):
TTATTTCTGACTTATGGTGTTATCTAAGTCATTCA
Found at i:14630745 original size:8 final size:8
Alignment explanation
Indices: 14630734--14630801 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 8
14630724 AAAAACAAAC
14630734 CTAAAAAA
1 CTAAAAAA
14630742 CTAAAAAA
1 CTAAAAAA
*
14630750 ATAAAAAAA
1 CT-AAAAAA
14630759 CTAAAAACA
1 CTAAAAA-A
14630768 C-AAAAAA
1 CTAAAAAA
*
14630775 C-ACAAAA
1 CTAAAAAA
14630782 -TAAAAAA
1 CTAAAAAA
14630789 -TAAAAAA
1 CTAAAAAA
14630796 -TAAAAA
1 CTAAAAA
14630802 CAAAACAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
7 25 0.47
8 19 0.36
9 9 0.17
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (8 bp):
CTAAAAAA
Found at i:14630748 original size:9 final size:9
Alignment explanation
Indices: 14630736--14630774 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
14630726 AAACAAACCT
14630736 AAAAAACTA
1 AAAAAACTA
14630745 AAAAAA-TA
1 AAAAAACTA
14630753 AAAAAACTA
1 AAAAAACTA
*
14630762 AAAACAC-A
1 AAAAAACTA
14630770 AAAAA
1 AAAAA
14630775 CACAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAACTA
Found at i:14630813 original size:7 final size:7
Alignment explanation
Indices: 14630717--14630806 Score: 51
Period size: 7 Copynumber: 12.4 Consensus size: 7
14630707 GATCATTCAT
14630717 AAAAACA
1 AAAAACA
14630724 AAAAAC-
1 AAAAACA
*
14630730 -AAACCTA
1 AAAAAC-A
14630737 AAAAACTAA
1 AAAAAC--A
*
14630746 AAAAATAA
1 AAAAA-CA
14630754 AAAAACTA
1 AAAAAC-A
14630762 AAAACACA
1 AAAA-ACA
14630770 AAAAACA
1 AAAAACA
* *
14630777 CAAAATA
1 AAAAACA
*
14630784 AAAAATA
1 AAAAACA
*
14630791 AAAAA-T
1 AAAAACA
14630797 AAAAACA
1 AAAAACA
14630804 AAA
1 AAA
14630807 CAAAAAAGGA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 5 0.08
7 28 0.43
8 20 0.31
9 8 0.12
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (7 bp):
AAAAACA
Found at i:14631181 original size:6 final size:6
Alignment explanation
Indices: 14631167--14631199 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14631157 TTGTATGACA
*
14631167 AAATGT AAATAT AAATAT AAATAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAA
14631200 AACAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (6 bp):
AAATAT
Found at i:14639336 original size:19 final size:19
Alignment explanation
Indices: 14639295--14639337 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14639285 AAGAAGGTTT
**
14639295 TCCTATTTTGAGTTGGATT
1 TCCTATTTTGAGTTGGAAA
14639314 TCCTATTTTGA-TTCGGAAA
1 TCCTATTTTGAGTT-GGAAA
14639333 TCCTA
1 TCCTA
14639338 CATTGGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (19 bp):
TCCTATTTTGAGTTGGAAA
Found at i:14639571 original size:14 final size:13
Alignment explanation
Indices: 14639552--14639644 Score: 62
Period size: 13 Copynumber: 6.9 Consensus size: 13
14639542 AACAATAATC
14639552 ATTTAGGGTTTGGA
1 ATTTAGGGTTT-GA
14639566 ATTTAGGGTTT-A
1 ATTTAGGGTTTGA
* * *
14639578 GGTTTAGGGTTAAGT
1 -ATTTAGGGTT-TGA
* *
14639593 TTTTAGGGTTTTA
1 ATTTAGGGTTTGA
* * *
14639606 TTTTAGGGTGTCA
1 ATTTAGGGTTTGA
*
14639619 ATTTAGGATTTGA
1 ATTTAGGGTTTGA
14639632 AGTTTAGGGTTTG
1 A-TTTAGGGTTTG
14639645 GGCATTAGGA
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
12 1 0.02
13 30 0.49
14 30 0.49
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.47
Consensus pattern (13 bp):
ATTTAGGGTTTGA
Found at i:14642281 original size:20 final size:20
Alignment explanation
Indices: 14642256--14642293 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14642246 AGGTTTACAA
14642256 GATTCACACCAAAAGGCTGG
1 GATTCACACCAAAAGGCTGG
* *
14642276 GATTCATACCAAAGGGCT
1 GATTCACACCAAAAGGCT
14642294 TTTTAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (20 bp):
GATTCACACCAAAAGGCTGG
Found at i:14642387 original size:33 final size:31
Alignment explanation
Indices: 14642328--14642428 Score: 139
Period size: 31 Copynumber: 3.2 Consensus size: 31
14642318 AAAAGGCTAG
*
14642328 GATTCATAAAAGGTTTCTTCAAAAGGTTTGG
1 GATTCATAAAAGGTTTCTTCAAAAGGTTTGA
* *
14642359 GATTCATAAAAGGTTTTTTTTCAAAAGGTTTAA
1 GATTCATAAAAGG--TTTCTTCAAAAGGTTTGA
* *
14642392 GATTTATAAAAGGTTTCTTCAAAAGATTTGA
1 GATTCATAAAAGGTTTCTTCAAAAGGTTTGA
14642423 GATTCA
1 GATTCA
14642429 CACCAAGATT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
31 33 0.55
33 27 0.45
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.39
Consensus pattern (31 bp):
GATTCATAAAAGGTTTCTTCAAAAGGTTTGA
Found at i:14642458 original size:30 final size:30
Alignment explanation
Indices: 14642422--14642490 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
14642412 AAAAGATTTG
14642422 AGATTCACACCAAGATTCTT-CAAAGGTTCA
1 AGATTCACACCAAGATT-TTACAAAGGTTCA
*
14642452 AGATTCAGACCAAGATTTTACAAAGGTTCA
1 AGATTCACACCAAGATTTTACAAAGGTTCA
14642482 AGATTCACA
1 AGATTCACA
14642491 ATGAAAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (30 bp):
AGATTCACACCAAGATTTTACAAAGGTTCA
Found at i:14642772 original size:51 final size:50
Alignment explanation
Indices: 14642706--14642976 Score: 152
Period size: 51 Copynumber: 5.3 Consensus size: 50
14642696 AAATTGTTCA
* *
14642706 AGATTCATACTAAAAGGCTAGGATTCAAACCAAATTATTTAATAGTTTTG
1 AGATTCACACCAAAAGGCTAGGATTCAAACCAAATTATTTAATAGTTTTG
* * * * * * * * *
14642756 ATATTCACACCAAAAAGTTAGGATCCATACTAGGATTATTCAAAAGTTTTG
1 AGATTCACACCAAAAGGCTAGGATTCAAACCA-AATTATTTAATAGTTTTG
* * * * * *
14642807 AGATTCAAACCAAAAGGTTGGGATTCACACCAAGATTCTTT-ATAAGTTTTA
1 AGATTCACACCAAAAGGCTAGGATTCAAACCAA-ATTATTTAAT-AGTTTTG
* * * ** * * * *
14642858 AGATTAACATCAAAAGACTAGGATTCTTACCATGATTCTTCGAA-AGGTTTG
1 AGATTCACACCAAAAGGCTAGGATTCAAACCA-AATTATT-TAATAGTTTTG
* * * * * * *
14642909 AGATTCACACTAAAAGGCTGGGACTCATACCAGGATTCTTTAAAAGTTTT-
1 AGATTCACACCAAAAGGCTAGGATTCAAACCA-AATTATTTAATAGTTTTG
*
14642959 AGACATCACACCAAAAGG
1 AGA-TTCACACCAAAAGG
14642977 ATGATTCATA
Statistics
Matches: 166, Mismatches: 47, Indels: 15
0.73 0.21 0.07
Matches are distributed among these distances:
50 30 0.18
51 135 0.81
53 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (50 bp):
AGATTCACACCAAAAGGCTAGGATTCAAACCAAATTATTTAATAGTTTTG
Found at i:14642974 original size:102 final size:101
Alignment explanation
Indices: 14642706--14642975 Score: 258
Period size: 102 Copynumber: 2.6 Consensus size: 101
14642696 AAATTGTTCA
* * * * *
14642706 AGATTCATACTAAAAGGCTAGGATTCAAACCAAATTATTTAATAGTTTT-GATATTCACACCAAA
1 AGATTCAAACTAAAAGGCTGGGATTCAAACCAGATTCTTTAAAAGTTTTAGA-A-TCACACCAAA
* * *
14642770 A-AGTTAGGATCCATACTAGGATTATTCAAAAGTTTTG
64 AGAGCTAGGATCCATACCAGGATTATTCAAAAGGTTTG
* * * * * * *
14642807 AGATTCAAACCAAAAGGTTGGGATTCACACCAAGATTCTTTATAAGTTTTAAGATTAACATCAAA
1 AGATTCAAACTAAAAGGCTGGGATTCAAACC-AGATTCTTTAAAAGTTTT-AGAATCACACCAAA
* * * * *
14642872 AGA-CTAGGATTCTTACCATGATTCTTCGAAAGGTTTG
64 AGAGCTAGGATCCATACCAGGATTATTCAAAAGGTTTG
* * *
14642909 AGATTCACACTAAAAGGCTGGGACTCATACCAGGATTCTTTAAAAGTTTTAGACATCACACCAAA
1 AGATTCAAACTAAAAGGCTGGGATTCAAACCA-GATTCTTTAAAAGTTTTAGA-ATCACACCAAA
14642974 AG
64 AG
14642976 GATGATTCAT
Statistics
Matches: 134, Mismatches: 29, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
101 30 0.22
102 101 0.75
103 1 0.01
104 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (101 bp):
AGATTCAAACTAAAAGGCTGGGATTCAAACCAGATTCTTTAAAAGTTTTAGAATCACACCAAAAG
AGCTAGGATCCATACCAGGATTATTCAAAAGGTTTG
Done.