Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 46 of 199
Found at i:13662994 original size:41 final size:41
Alignment explanation
Indices: 13662937--13663092 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
13662927 GAATGTAATA
* *
13662937 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
13662978 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
13663019 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
13663060 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
13663093 TATTGAATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 3 0.03
41 109 0.97
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:13663117 original size:82 final size:82
Alignment explanation
Indices: 13662937--13663134 Score: 283
Period size: 82 Copynumber: 2.4 Consensus size: 82
13662927 GAATGTAATA
13662937 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
*
13663002 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATAT
* *
13663019 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
**
13663083 AGTGCCGGTGTATTGA-AT
66 A-TGCCGGTG-ATACATAT
* * **
13663101 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
13663135 ATCTGTTTAA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
81 3 0.03
82 97 0.94
83 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATAT
Found at i:13677863 original size:24 final size:23
Alignment explanation
Indices: 13677814--13677857 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
13677804 AATTATAATC
13677814 ATTAAAATAATAATAATAATTAT
1 ATTAAAATAATAATAATAATTAT
13677837 ATTAACAATAATAATAA-AATT
1 ATTAA-AATAATAATAATAATT
13677858 TTTATTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAAATAATAATAATAATTAT
Found at i:13678671 original size:5 final size:5
Alignment explanation
Indices: 13678663--13678705 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
13678653 CTTTTTTTTT
*
13678663 TAATA TAATA CAATA TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
13678706 AGCATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:13692561 original size:30 final size:30
Alignment explanation
Indices: 13692520--13692585 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13692510 ATGTATACAT
*
13692520 TAATAAACAAATGTAA-AATTTCAAATTAA
1 TAATAAACAAATGCAATAATTTCAAATTAA
* *
13692549 TAATAATACAAATGCAATATTTTGAAATTAA
1 TAATAA-ACAAATGCAATAATTTCAAATTAA
13692580 -AATAAA
1 TAATAAA
13692586 AATATAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.22
30 14 0.44
31 11 0.34
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (30 bp):
TAATAAACAAATGCAATAATTTCAAATTAA
Found at i:13696301 original size:29 final size:29
Alignment explanation
Indices: 13696268--13696328 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
13696258 GTACTGTGAT
* *
13696268 ATTTA-AAAAGATCATTTTTTAGTATACAA
1 ATTTATAAAA-ATAATTTTTAAGTATACAA
* *
13696297 ATTTATTAAAATAATTTTTAAGTATACCA
1 ATTTATAAAAATAATTTTTAAGTATACAA
13696326 ATT
1 ATT
13696329 ATTTTTGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
ATTTATAAAAATAATTTTTAAGTATACAA
Found at i:13698853 original size:46 final size:46
Alignment explanation
Indices: 13698786--13699112 Score: 410
Period size: 46 Copynumber: 7.6 Consensus size: 46
13698776 TTTGAGTACT
* *
13698786 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13698832 TCTGATCAAGTGACAATGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13698868 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13698914 TCTGATTAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
13698950 TCTGATTAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13698996 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13699042 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13699088 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13699113 ATCATACGTA
Statistics
Matches: 247, Mismatches: 14, Indels: 42
0.82 0.05 0.14
Matches are distributed among these distances:
36 60 0.24
37 5 0.02
40 4 0.02
42 4 0.02
44 12 0.05
45 10 0.04
46 152 0.62
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:13698863 original size:36 final size:36
Alignment explanation
Indices: 13698822--13698976 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
13698812 GGTAGCTTTA
* *
13698822 GCTACACTTATCTGATCAAGTGACAATGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
13698858 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGAGACAAAGTGAT-A-----AG---T
* *
13698903 AGCTACACTTATCTGATTAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
13698940 ACTACACTTATCTGATTAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
13698976 G
1 G
13698977 GTAGCTTTAG
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
36 64 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:13698925 original size:82 final size:82
Alignment explanation
Indices: 13698786--13699112 Score: 478
Period size: 82 Copynumber: 3.9 Consensus size: 82
13698776 TTTGAGTACT
* *
13698786 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAATGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
13698851 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
13698868 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
13698933 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
*
13698950 TCTGATTAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
13699015 GATAAGTGTTAGCTTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * *
13699042 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC-AGGGAC-AAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
13699105 GATAAGTG
66 GATAAGTG
13699113 ATCATACGTA
Statistics
Matches: 224, Mismatches: 11, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
80 1 0.00
81 1 0.00
82 144 0.64
83 1 0.00
84 2 0.01
88 2 0.01
89 1 0.00
90 7 0.03
91 6 0.03
92 59 0.26
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:13702780 original size:381 final size:381
Alignment explanation
Indices: 13702068--13702837 Score: 1524
Period size: 381 Copynumber: 2.0 Consensus size: 381
13702058 TCATATATTT
13702068 TAATA-TATTGAAAGCCTATCTTCCATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGTATGTAA
1 TAATAGTATTGAAAGCCTATCTTCCATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGTATGTAA
13702132 CTCTTGTATAACATGACTTCAATTACAAAAATGAAATTCATAACTCGATTAAAGGGTAAATGATA
66 CTCTTGTATAACATGACTTCAATTACAAAAATGAAATTCATAACTCGATTAAAGGGTAAATGATA
13702197 ACTTACTACTAACATTGCATGGATTATGAAAAAAGGAATGTGGTCATGGGTCATTTGTTAAGGGA
131 ACTTACTACTAACATTGCATGGATTATGAAAAAAGGAATGTGGTCATGGGTCATTTGTTAAGGGA
13702262 TGAATGATCGTTATTACAATTAGTTAGTAATAATTTTTTCATTGTGAAAGATGCAATGGTGACTA
196 TGAATGATCGTTATTACAATTAGTTAGTAATAATTTTTTCATTGTGAAAGATGCAATGGTGACTA
13702327 TGAGATAAAATAAGATTGTATTAGGTGGACAGATTTAACCCAAATGGATTAATTATATGTTATAA
261 TGAGATAAAATAAGATTGTATTAGGTGGACAGATTTAACCCAAATGGATTAATTATATGTTATAA
13702392 AAGTAACACGCTAATGACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCG
326 AAGTAACACGCTAATGACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCG
13702448 TAATAGTATTGAAAGCCTATCTTCCATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGTATGTAA
1 TAATAGTATTGAAAGCCTATCTTCCATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGTATGTAA
13702513 CTCTTGTATAACATGACTTCAATTACAAAAATGAAATTCATAACTCGATTAAAGGGTAAATGATA
66 CTCTTGTATAACATGACTTCAATTACAAAAATGAAATTCATAACTCGATTAAAGGGTAAATGATA
13702578 ACTTACTACTAACATTGCATGGATTATGAAAAAAGGAATGTGGTCATGGGTCATTTGTTAAGGGA
131 ACTTACTACTAACATTGCATGGATTATGAAAAAAGGAATGTGGTCATGGGTCATTTGTTAAGGGA
13702643 TGAATGATCGTTATTACAATTAGTTAGTAATAATTTTTTCATTGTGAAAGATGCAATGGTGACTA
196 TGAATGATCGTTATTACAATTAGTTAGTAATAATTTTTTCATTGTGAAAGATGCAATGGTGACTA
13702708 TGAGATAAAATAAGATTGTATTAGGTGGACAGATTTAACCCAAATGGATTAATTATATGTTATAA
261 TGAGATAAAATAAGATTGTATTAGGTGGACAGATTTAACCCAAATGGATTAATTATATGTTATAA
*
13702773 GAGTAACACGCTAATGACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCG
326 AAGTAACACGCTAATGACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCG
13702829 TAATAGTAT
1 TAATAGTAT
13702838 ATAATAGAGA
Statistics
Matches: 388, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
380 5 0.01
381 383 0.99
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (381 bp):
TAATAGTATTGAAAGCCTATCTTCCATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGTATGTAA
CTCTTGTATAACATGACTTCAATTACAAAAATGAAATTCATAACTCGATTAAAGGGTAAATGATA
ACTTACTACTAACATTGCATGGATTATGAAAAAAGGAATGTGGTCATGGGTCATTTGTTAAGGGA
TGAATGATCGTTATTACAATTAGTTAGTAATAATTTTTTCATTGTGAAAGATGCAATGGTGACTA
TGAGATAAAATAAGATTGTATTAGGTGGACAGATTTAACCCAAATGGATTAATTATATGTTATAA
AAGTAACACGCTAATGACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCG
Found at i:13709303 original size:16 final size:16
Alignment explanation
Indices: 13709282--13709324 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
13709272 GTACATTGAC
13709282 ATGGAATAGA-TGAGGA
1 ATGGAATAGAGTGA-GA
13709298 ATGGAATTA-AGTGAGA
1 ATGGAA-TAGAGTGAGA
13709314 ATGGAATAGAG
1 ATGGAATAGAG
13709325 AATAGAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 17 0.71
17 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (16 bp):
ATGGAATAGAGTGAGA
Found at i:13719331 original size:14 final size:14
Alignment explanation
Indices: 13719312--13719339 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13719302 GTTAGGTGAT
13719312 GGTGGGAGTTAGGC
1 GGTGGGAGTTAGGC
13719326 GGTGGGAGTTAGGC
1 GGTGGGAGTTAGGC
13719340 AGTGATGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.57, T:0.21
Consensus pattern (14 bp):
GGTGGGAGTTAGGC
Found at i:13724003 original size:39 final size:40
Alignment explanation
Indices: 13723958--13724038 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
13723948 ATTACAAAAT
* * *
13723958 AATTCAAAATAATTT-TCAAAATTTTAAA-ATTATTTTTAA
1 AATTCAAAAT-ATTTATAAAAATTTCAAATATTATATTTAA
*
13723997 AATTCAAAATATTTATAAAAATTTCAAATTTTATATTTAA
1 AATTCAAAATATTTATAAAAATTTCAAATATTATATTTAA
13724037 AA
1 AA
13724039 AAATATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.11
39 21 0.58
40 11 0.31
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (40 bp):
AATTCAAAATATTTATAAAAATTTCAAATATTATATTTAA
Found at i:13724024 original size:20 final size:19
Alignment explanation
Indices: 13723960--13724024 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
13723950 TACAAAATAA
*
13723960 TTCAAAATAATTTTCAAAAT
1 TTCAAAAT-ATTTTAAAAAT
* *
13723980 TTTAAAATTATTTTTAAAA-
1 TTCAAAA-TATTTTAAAAAT
13723999 TTCAAAATATTTATAAAAAT
1 TTCAAAATATTT-TAAAAAT
13724019 TTCAAA
1 TTCAAA
13724025 TTTTATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 5 0.13
19 11 0.29
20 21 0.55
21 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TTCAAAATATTTTAAAAAT
Found at i:13724050 original size:9 final size:9
Alignment explanation
Indices: 13724036--13724078 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
13724026 TTTATATTTA
13724036 AAAAAATAT
1 AAAAAATAT
13724045 AAAAAATAT
1 AAAAAATAT
* *
13724054 AAAATATTCT
1 AAAA-AATAT
13724064 AAAAATATAT
1 AAAAA-ATAT
13724074 AAAAA
1 AAAAA
13724079 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:13724060 original size:28 final size:27
Alignment explanation
Indices: 13724029--13724093 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 27
13724019 TTCAAATTTT
13724029 ATATTTAAAAAAATATAAAAAATATAAA
1 ATATTTAAAAAAATATAAAAAAT-TAAA
* *
13724057 ATATTCTAAAAATATATAAAAAGTTAAA
1 ATATT-TAAAAAAATATAAAAAATTAAA
13724085 AT-TTTAAAA
1 ATATTTAAAA
13724094 CTTTTCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.15
27 2 0.06
28 11 0.32
29 16 0.47
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATTTAAAAAAATATAAAAAATTAAA
Found at i:13724084 original size:18 final size:19
Alignment explanation
Indices: 13724044--13724085 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13724034 TAAAAAAATA
*
13724044 TAAAAAATATAAAATATTC
1 TAAAAAATATAAAATAGTC
13724063 TAAAAATATATAAAA-AGT-
1 TAAAAA-ATATAAAATAGTC
13724081 TAAAA
1 TAAAA
13724086 TTTTAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATATAAAATAGTC
Found at i:13725322 original size:24 final size:24
Alignment explanation
Indices: 13725295--13725343 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13725285 GAAACCCTCC
13725295 ACCTCAATTGGTATTTTTTCACGA
1 ACCTCAATTGGTATTTTTTCACGA
13725319 ACCTCAATTGGTATTTTTTCACGA
1 ACCTCAATTGGTATTTTTTCACGA
13725343 A
1 A
13725344 AAACAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (24 bp):
ACCTCAATTGGTATTTTTTCACGA
Found at i:13725573 original size:10 final size:10
Alignment explanation
Indices: 13725558--13725585 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13725548 TTTTCTACAC
13725558 AAAGATGGAA
1 AAAGATGGAA
13725568 AAAGATGGAA
1 AAAGATGGAA
13725578 AAAGATGG
1 AAAGATGG
13725586 CCACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.32, T:0.11
Consensus pattern (10 bp):
AAAGATGGAA
Found at i:13728953 original size:5 final size:5
Alignment explanation
Indices: 13728945--13728979 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
13728935 AGGTTTTCAT
*
13728945 TTTTC TTTTC TCTTC TTTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
13728980 TTGTTGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:13728965 original size:16 final size:16
Alignment explanation
Indices: 13728944--13728980 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13728934 TAGGTTTTCA
13728944 TTTTTCTTTTCTCTTC
1 TTTTTCTTTTCTCTTC
*
13728960 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTCTTC
13728976 TTTTT
1 TTTTT
13728981 TGTTGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTC
Found at i:13731248 original size:76 final size:77
Alignment explanation
Indices: 13731122--13731269 Score: 228
Period size: 76 Copynumber: 1.9 Consensus size: 77
13731112 ACTTTCTTAG
* * *
13731122 TAGCAATGTAACTAGTAAATGACATTGTAATAAATCTGAATTTTAAC-AAAATAATTTTAACAAT
1 TAGCAATGTAACTAATAAATGACATTCTAATAAATCTAAATTTTAACAAAAATAATTTTAACAAT
*
13731186 GTTAATAACTGA
66 GTAAATAACTGA
*
13731198 TAGCAATGTAACTAATAAATGACGTTCTAATGAAA-CTAAATTTTAACAAAAATAATTTTAACAA
1 TAGCAATGTAACTAATAAATGACATTCTAAT-AAATCTAAATTTTAACAAAAATAATTTTAACAA
13731262 TGTAAATA
65 TGTAAATA
13731270 GTTGGACTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 39 0.60
77 26 0.40
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (77 bp):
TAGCAATGTAACTAATAAATGACATTCTAATAAATCTAAATTTTAACAAAAATAATTTTAACAAT
GTAAATAACTGA
Found at i:13743591 original size:6 final size:6
Alignment explanation
Indices: 13743573--13743603 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
13743563 CATAATGGAA
13743573 TAAAAC TTAAAAC TAAAAC TAAAAC TAAAAC
1 TAAAAC -TAAAAC TAAAAC TAAAAC TAAAAC
13743604 CATAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAC
Found at i:13744682 original size:11 final size:11
Alignment explanation
Indices: 13744663--13744704 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
13744653 TTTAATTTTG
*
13744663 TAATTATTATT
1 TAATAATTATT
13744674 TAATAATTATT
1 TAATAATTATT
*
13744685 T-ATTATTATT
1 TAATAATTATT
13744695 TAATAATTAT
1 TAATAATTAT
13744705 ATTTCCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAATAATTATT
Found at i:13744691 original size:21 final size:22
Alignment explanation
Indices: 13744641--13744704 Score: 91
Period size: 21 Copynumber: 3.1 Consensus size: 22
13744631 AACATTTGAG
13744641 ATGTTATTATTATTTAAT--TT
1 ATGTTATTATTATTTAATAATT
*
13744661 -TGTAATTATTATTTAATAATT
1 ATGTTATTATTATTTAATAATT
13744682 AT-TTATTATTATTTAATAATT
1 ATGTTATTATTATTTAATAATT
13744703 AT
1 AT
13744705 ATTTCCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.41
21 22 0.56
22 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (22 bp):
ATGTTATTATTATTTAATAATT
Found at i:13744851 original size:25 final size:25
Alignment explanation
Indices: 13744823--13744876 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
13744813 TTTTTTATCT
*
13744823 TAATTAT-AATTTTTAT-ATATTTAAA
1 TAATTATCAA-TTTTATCAAATTT-AA
13744848 TAA-TATCAATTTTATCAAATTTAA
1 TAATTATCAATTTTATCAAATTTAA
13744872 TAATT
1 TAATT
13744877 GATTAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATTATCAATTTTATCAAATTTAA
Found at i:13749550 original size:61 final size:61
Alignment explanation
Indices: 13749498--13749685 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
13749488 TTATAGTATT
13749498 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
13749559 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-TATTTTA-TAGTAT
1 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTT-AATATTAAGAATTTTATTA-AAT
13749617 C
61 C
* * * * *
13749618 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
13749679 ATATATT
1 ATATATT
13749686 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
58 10 0.11
59 30 0.32
60 8 0.09
61 35 0.37
62 11 0.12
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:13749573 original size:120 final size:120
Alignment explanation
Indices: 13749433--13749720 Score: 479
Period size: 120 Copynumber: 2.4 Consensus size: 120
13749423 AGTATGATGA
* * *
13749433 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
* *
13749498 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
* *
13749553 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTAT
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTAT
* *
13749617 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
65 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
13749673 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
13749721 ATATGATTAA
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 2 0.01
120 151 0.97
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:13749694 original size:18 final size:17
Alignment explanation
Indices: 13749666--13749700 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13749656 ATTATTAAGA
*
13749666 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13749683 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13749701 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13749954 original size:16 final size:16
Alignment explanation
Indices: 13749933--13749969 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13749923 TTGATTTGCT
*
13749933 ATTACACCTTTATTTC
1 ATTACACCTTTATTCC
13749949 ATTACACCTTTATTCC
1 ATTACACCTTTATTCC
13749965 ATTAC
1 ATTAC
13749970 GCCTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTACACCTTTATTCC
Found at i:13752343 original size:20 final size:20
Alignment explanation
Indices: 13752318--13752355 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13752308 CGGAAAATGA
13752318 TTTCTGGAAAATAATTTATT
1 TTTCTGGAAAATAATTTATT
*
13752338 TTTCTGGAAAATGATTTA
1 TTTCTGGAAAATAATTTA
13752356 CTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTATT
Found at i:13752363 original size:34 final size:33
Alignment explanation
Indices: 13752301--13752364 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
13752291 GCCAGTAAAA
*
13752301 TATTTTTCGGAAAATGATTTCTGGAAAATAATT
1 TATTTTTCGGAAAATGATTTCTGAAAAATAATT
13752334 TATTTTTCTGGAAAATGATTTACT-AAAAATA
1 TATTTTTC-GGAAAATGATTT-CTGAAAAATA
13752365 TTTTTTGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.29
34 18 0.64
35 2 0.07
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (33 bp):
TATTTTTCGGAAAATGATTTCTGAAAAATAATT
Found at i:13752520 original size:20 final size:20
Alignment explanation
Indices: 13752445--13752519 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
13752435 CGGAAAAGTT
13752445 ATTTTTACATATATTAATAA
1 ATTTTTACATATATTAATAA
* * *
13752465 ATTTATATACATATTAATAA
1 ATTTTTACATATATTAATAA
* *
13752485 ATTTTT--ATATTTTAA-ATT
1 ATTTTTACATATATTAATA-A
13752503 ATTTTTACATATATTAA
1 ATTTTTACATATATTAA
13752520 AATGATTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
20 30 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTACATATATTAATAA
Found at i:13755214 original size:6 final size:6
Alignment explanation
Indices: 13755203--13755265 Score: 101
Period size: 6 Copynumber: 10.7 Consensus size: 6
13755193 TGTCAAGGAT
*
13755203 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGGGGA AGGGGA
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA
*
13755251 A-GGGA AAGGGA AGGG
1 AGGGGA AGGGGA AGGG
13755266 AAGATCGGTG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
5 5 0.09
6 48 0.91
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:13757338 original size:3 final size:3
Alignment explanation
Indices: 13757332--13757359 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13757322 AAAAAGTATG
13757332 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13757360 GATATTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13759678 original size:45 final size:45
Alignment explanation
Indices: 13759580--13759978 Score: 252
Period size: 45 Copynumber: 8.6 Consensus size: 45
13759570 AAATTTTACA
* * ** * *
13759580 TCCCTGAAGTTACGGTGGAGCAGATTGAAGCCA-CAAAACTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
* *
13759624 TCCCTAAAGTTGCAGTGTAGCAGATTGAAGATAGCAAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
* * * * *
13759669 TCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGCCACAAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---CAAATCTTATT
* * *
13759720 TCCCCGAAGTTGCAATAGG-GCAGATTGAAGATAGCAAATCTTATC
1 TCCCTGAAGTTGCAGT-GGAGCAGATTGAAGATAGCAAATCTTATT
* * *
13759765 TCCCTGAAGTTGCAGTGGAGCAGATT-AAAACTA-CAATTTTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAATCTTATT
* * * * ** *
13759809 TCCCTGAAGTTGCAGTGGAACATATTAAAACTACAAATTATAAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATT-----GA-AGA-TAGCAAATCTTATT
* * * * * ** *
13759861 TCTCTGAATTTGCAGTGGAACAAATTGAATATAGTGAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
** *
13759906 TCTTTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATCT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT-T
* * *
13759951 T-CCTGAAGTTGCAGCGGAGTATATTGAA
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAA
13759979 ACTAAAGTTC
Statistics
Matches: 280, Mismatches: 56, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
44 94 0.34
45 107 0.38
46 2 0.01
47 2 0.01
48 4 0.01
49 1 0.00
50 1 0.00
51 37 0.13
52 32 0.11
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (45 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
Found at i:13759743 original size:96 final size:96
Alignment explanation
Indices: 13759607--13759800 Score: 273
Period size: 96 Copynumber: 2.0 Consensus size: 96
13759597 GAGCAGATTG
* * *
13759607 AAGCCACAAAACTTATCTCCCTAAAGTTGCAGTGTAGCAGATTGAAGATAGCAAATCTTATTTCC
1 AAGCCACAAAACTTATCTCCCCAAAGTTGCAATGTAGCAGATTGAAGATAGCAAATCTTATCTCC
*
13759672 CTAAAGTTACAGTGGAACAGATTAAAGCTAC
66 CTAAAGTTACAGTGGAACAGATTAAAACTAC
* * * *
13759703 AAGCCACAAATCTTATTTCCCCGAAGTTGCAATAG-GGCAGATTGAAGATAGCAAATCTTATCTC
1 AAGCCACAAAACTTATCTCCCCAAAGTTGCAAT-GTAGCAGATTGAAGATAGCAAATCTTATCTC
* * *
13759767 CCTGAAGTTGCAGTGGAGCAGATTAAAACTAC
65 CCTAAAGTTACAGTGGAACAGATTAAAACTAC
13759799 AA
1 AA
13759801 TTTTTATTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 85 0.99
97 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (96 bp):
AAGCCACAAAACTTATCTCCCCAAAGTTGCAATGTAGCAGATTGAAGATAGCAAATCTTATCTCC
CTAAAGTTACAGTGGAACAGATTAAAACTAC
Found at i:13759823 original size:44 final size:44
Alignment explanation
Indices: 13759708--13760011 Score: 181
Period size: 44 Copynumber: 6.7 Consensus size: 44
13759698 GCTACAAGCC
* * *
13759708 ACAAATCTTATTTCCCCGAAGTTGCAATAGG-GCAGATTGAAGA-T
1 ACAAATCTTATTTCCCTGAAGTTGCAGT-GGAGCAGATT-AAAACT
*
13759752 AGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
1 A-CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * *
13759797 ACAATTTTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAACT
1 ACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * *
13759841 ACAAAT-TATAAAATCTTATCTCTCTGAATTTGCAGTGGAACAAATTGAATA-T
1 ACAAATCT-T---A--TT-TC-C-CTGAAGTTGCAGTGGAGCAGATT-AAAACT
** * ** * *
13759893 AGTGAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGCT
1 A-CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * *
13759938 ACAAATCTTATCTT-CCTGAAGTTGCAGCGGAGTATATTGAAACT
1 ACAAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* *
13759982 A-AAGTTCTTA-TACCTCTGAAGTTGCAGTGG
1 ACAA-ATCTTATTTCC-CTGAAGTTGCAGTGG
13760012 GTTAGAATGA
Statistics
Matches: 204, Mismatches: 36, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 103 0.50
45 55 0.27
47 3 0.01
48 1 0.00
49 2 0.01
50 3 0.01
51 1 0.00
52 23 0.11
53 7 0.03
54 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (44 bp):
ACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
Found at i:13759888 original size:141 final size:140
Alignment explanation
Indices: 13759613--13759982 Score: 386
Period size: 141 Copynumber: 2.6 Consensus size: 140
13759603 ATTGAAGCCA
* * * * *
13759613 CAAAACTTATCTCCCTAAAGTTGCAGTGTAGCAGATTGAAGA-TAGCAAATCTTATTTCCCTAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACTA-CAAATCTTATTTCCCTGAA
* * * * * * *
13759677 GTTACAGTGGAACAGATTAAAGCTACAAGCCACAAATCTTATTTCCCCGAAGTTGCAATAGGGCA
64 GTTGCAGTGGAACATATTAAAACTACAAACCAAAAATCTTATCTCCCCGAAGTTGCAATAGGACA
*
13759742 GATTGAAGATAG
129 AATTGAAGATAG
* *
13759754 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAATTTTTATTTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATTTCCCTGAAGT
** * * * *
13759819 TGCAGTGGAACATATTAAAACTACAAATTATAAAATCTTATCTCTCTGAATTTGCAGT-GGAACA
66 TGCAGTGGAACATATTAAAACTACAAACCA-AAAATCTTATCTCCCCGAAGTTGCAATAGG-ACA
*
13759883 AATTGAATATAG
129 AATTGAAGATAG
** ** * *
13759895 TGAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTT-CCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTAT-TTCCCTGAAG
* ** *
13759959 TTGCAGCGGAGTATATTGAAACTA
65 TTGCAGTGGAACATATTAAAACTA
13759983 AAGTTCTTAT
Statistics
Matches: 191, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
140 47 0.25
141 142 0.74
142 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (140 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAAATCTTATTTCCCTGAAGT
TGCAGTGGAACATATTAAAACTACAAACCAAAAATCTTATCTCCCCGAAGTTGCAATAGGACAAA
TTGAAGATAG
Found at i:13763239 original size:27 final size:27
Alignment explanation
Indices: 13763206--13763291 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 27
13763196 GACTTTTATG
13763206 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* *
13763233 TCTTCAT-CAGAT-TGATT-ACTA-ATTTT
1 TCTTCATCCTGATCTG-TTGA--AGTTTTT
*
13763259 T-TT-ATCCTGATCTGCTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
13763284 TCTTCATC
1 TCTTCATC
13763292 AGTTTGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
24 3 0.07
25 15 0.33
26 16 0.36
27 11 0.24
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.51
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:13769827 original size:17 final size:17
Alignment explanation
Indices: 13769800--13769845 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
13769790 CCCGATATAT
* *
13769800 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
*
13769817 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
13769834 AAATATTTTTAA
1 AAATATTTTTAA
13769846 AATACTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:13769871 original size:39 final size:39
Alignment explanation
Indices: 13769821--13769941 Score: 226
Period size: 39 Copynumber: 3.1 Consensus size: 39
13769811 TTTTTAAAAT
13769821 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
13769860 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
*
13769898 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
13769937 TTTTT
1 TTTTT
13769942 AAAATAAATT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
38 38 0.47
39 42 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
Found at i:13769894 original size:38 final size:38
Alignment explanation
Indices: 13769821--13769943 Score: 228
Period size: 38 Copynumber: 3.2 Consensus size: 38
13769811 TTTTTAAAAT
13769821 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTA
13769860 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
13769898 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
13769936 ATTTTTAA
1 TTTTTTAA
13769944 AATAAATTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
38 53 0.64
39 30 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:13769953 original size:21 final size:21
Alignment explanation
Indices: 13769915--13769954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13769905 ATTTTAAAAT
**
13769915 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
13769936 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
13769955 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:13769961 original size:22 final size:21
Alignment explanation
Indices: 13769914--13769972 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
13769904 AATTTTAAAA
* *
13769914 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
13769934 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
13769957 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
13769973 GGGTCGGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:13776899 original size:10 final size:10
Alignment explanation
Indices: 13776884--13776914 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
13776874 AAAAAATAAA
13776884 AACTAAAATG
1 AACTAAAATG
13776894 AACTAAAATG
1 AACTAAAATG
13776904 AACTAAAATG
1 AACTAAAATG
13776914 A
1 A
13776915 GATGATTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.19
Consensus pattern (10 bp):
AACTAAAATG
Found at i:13782332 original size:21 final size:22
Alignment explanation
Indices: 13782291--13782332 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13782281 AGCAAGACTA
*
13782291 AAAAAGTTATAAAATGTAAGAC
1 AAAAAGTTACAAAATGTAAGAC
*
13782313 AAAAAGTTCCAAAATG-AAGA
1 AAAAAGTTACAAAATGTAAGA
13782333 ATTATTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (22 bp):
AAAAAGTTACAAAATGTAAGAC
Found at i:13785452 original size:30 final size:30
Alignment explanation
Indices: 13785411--13785468 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
13785401 CACAGGCCAG
* *
13785411 CACATGGGCGTGTGGCCAGCCCGTGTGGTT
1 CACACGGGCGTGTGCCCAGCCCGTGTGGTT
13785441 CACACGGGCGTGTGCCCAGCCCGTGTGG
1 CACACGGGCGTGTGCCCAGCCCGTGTGG
13785469 AAAAGCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.40, T:0.19
Consensus pattern (30 bp):
CACACGGGCGTGTGCCCAGCCCGTGTGGTT
Found at i:13787631 original size:229 final size:226
Alignment explanation
Indices: 13787110--13787642 Score: 551
Period size: 229 Copynumber: 2.3 Consensus size: 226
13787100 GTTTAATATA
* * * * * *
13787110 AAACGCCGGTAAAGTATAATATTAGCGGCG-TGTTGTGGTAAGTGCCGCAAAACATCTTAACCAA
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCT-TTGTGATAAGCGCCGCAAAATATCTTAACCAA
* * *
13787174 AACGCAGAGTTTGGTCTTGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAATGCA
65 AACGCAGAGTTT-TTCATGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAAAGCA
* ** **
13787239 TAAATTAGCGGCGCTTTCGTTTAAGCGCCGTAAAATTTGATAACAAAAATGCAACGTTTTTGTCT
129 TAAATTAGCGGCGCTTTCGTTTAAGCGCCGGAAAAGATGATAACAAAAATGCAACGTTTAAGTCT
** * *
13787304 TGATGTATACAGTTATTAGTGGCGCATATTAAG
194 TGATGTATACAGGAATTAGTGGCGCACATCAAG
* * * *
13787337 AAACGCCGCTAAATCATAGTATTAGCGGCGC-TTGGGCA-AACGCGCCGTAAAATATGC-TCACC
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTG-ATAA-GCGCCGCAAAATAT-CTTAACC
* * * * * * *
13787399 AAAACGCTGAGTTTTTACATGAGGTATATTAGAATTAGTGGCGCTTGCGGGATATCGCCGCTAAA
63 AAAACGCAGAGTTTTT-CATGAGGTATACTAGAACTAGTGGCGC-AGAGGGAAAACGCCGCTAAA
* * * *
13787464 GTATATTATTAGCGGCGC-TTCTTTATAAGCGCCGGAAAAGAT-ATTAACAAAAATGCAGCGTTT
126 GCATA-AATTAGCGGCGCTTTCGTT-TAAGCGCCGGAAAAGATGA-TAACAAAAATGCAACGTTT
* *
13787527 AAGTCTTGATGTATACTGGAATTAGTGGCGTC-CA-CGAG
188 AAGTCTTGATGTATACAGGAATTAGTGGCG-CACATCAAG
* * * *
13787565 AAATCGCCGCTAAAGCATGGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATGTCTTAACCAA
1 AAA-CGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGATAAGCGCCGCAAAATATCTTAACCAA
13787630 AACGCAGAGTTTT
65 AACGCAGAGTTTT
13787643 GGTCTTAACC
Statistics
Matches: 249, Mismatches: 43, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
226 7 0.03
227 78 0.31
228 32 0.13
229 126 0.51
230 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (226 bp):
AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGATAAGCGCCGCAAAATATCTTAACCAAA
ACGCAGAGTTTTTCATGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAAAGCATA
AATTAGCGGCGCTTTCGTTTAAGCGCCGGAAAAGATGATAACAAAAATGCAACGTTTAAGTCTTG
ATGTATACAGGAATTAGTGGCGCACATCAAG
Found at i:13787648 original size:115 final size:115
Alignment explanation
Indices: 13787113--13787648 Score: 384
Period size: 115 Copynumber: 4.7 Consensus size: 115
13787103 TAATATAAAA
* * * * * * * *
13787113 CGCCGGTAAAGTATAATATTAGCGGCG-TGTTGTGGTAAGTGCCGCAAAACATCTTAACCAAAAC
1 CGCCGCTAAAGCATAGTATTAGCGGCGCT-TTTTGATAAGCGCCGGAAAATATCTTAACCAAAAC
* * * *
13787177 GCAGAG-TTTGGTCTTGAGGTATACTAGAACTAGTGGCGCAGA-GGGAAAA
65 GCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCACACGAGAAAT
* * * * ** *
13787226 CGCCGCTAATGCATA-AATTAGCGGCGCTTTCGTT--TAAGCGCCGTAAAATTTGATAACAAAAA
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTTT--TTGATAAGCGCCGGAAAATATCTTAACCAAAA
* * * * * **
13787288 TGCA-ACGTTTTTGTCTTGATGTATAC-AGTTATTAGTGGCGCATATTAAGAAA-
64 CGCAGA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCGCACA-CGAGAAAT
* ** * *
13787340 CGCCGCTAAATCATAGTATTAGCGGCGC-TTGGGCA-AACGCGCCGTAAAATATGC-TCACCAAA
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTG-ATAA-GCGCCGGAAAATAT-CTTAACCAAA
* * * *** * *
13787402 ACGCTGAGTTTT--TACATGAGGTATATTAGAATTAGTGGCGCTTGCGGGATAT
63 ACGCAGAGTTTTGGT-CTTGAGGTATACTAGAATTAGTGGCGCACACGAGAAAT
* * * * * *
13787454 CGCCGCTAAAGTATATTATTAGCGGCGCTTCTTT-ATAAGCGCCGGAAAAGATATTAACAAAAAT
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTT-TTTGATAAGCGCCGGAAAATATCTTAACCAAAAC
* ** * *
13787518 GCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CACGAGAAAT
65 GCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCG-CACACGAGAAAT
* *
13787569 CGCCGCTAAAGCATGGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATGTCTTAACCAAAACG
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATATCTTAACCAAAACG
13787634 CAGAGTTTTGGTCTT
66 CAGAGTTTTGGTCTT
13787649 AACCATGCAT
Statistics
Matches: 323, Mismatches: 74, Indels: 50
0.72 0.17 0.11
Matches are distributed among these distances:
111 1 0.00
112 39 0.12
113 45 0.14
114 94 0.29
115 140 0.43
116 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (115 bp):
CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATATCTTAACCAAAACG
CAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCACACGAGAAAT
Found at i:13787732 original size:21 final size:20
Alignment explanation
Indices: 13787708--13787746 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13787698 TTTGGTCTAT
*
13787708 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
13787729 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
13787747 ATATGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:13791690 original size:9 final size:9
Alignment explanation
Indices: 13791629--13791812 Score: 167
Period size: 9 Copynumber: 20.4 Consensus size: 9
13791619 CACAAATTAA
*
13791629 ATAAGTTAC
1 ATAACTTAC
13791638 ATTAA-TTAC
1 A-TAACTTAC
13791647 ATAACTTAC
1 ATAACTTAC
*
13791656 ATAAATTA-
1 ATAACTTAC
* *
13791664 AGTAAATTAA
1 A-TAACTTAC
*
13791674 ATATCTTAC
1 ATAACTTAC
13791683 ATAACTTAC
1 ATAACTTAC
* *
13791692 ATAAATTAA
1 ATAACTTAC
*
13791701 ATATCTTAC
1 ATAACTTAC
13791710 ATAACTTAC
1 ATAACTTAC
*
13791719 ATAAATTA-
1 ATAACTTAC
* *
13791727 AGTAAATTAA
1 A-TAACTTAC
13791737 ATAACTTAC
1 ATAACTTAC
13791746 ATAACTTAC
1 ATAACTTAC
* *
13791755 ATAAATTAA
1 ATAACTTAC
*
13791764 ATATCTTAC
1 ATAACTTAC
13791773 ATAACTTAC
1 ATAACTTAC
* *
13791782 ATAAATTAA
1 ATAACTTAC
*
13791791 ATATCTTAC
1 ATAACTTAC
13791800 ATAACTTAC
1 ATAACTTAC
13791809 ATAA
1 ATAA
13791813 ATTATAAGGG
Statistics
Matches: 143, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
8 5 0.03
9 133 0.93
10 5 0.03
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13791718 original size:63 final size:63
Alignment explanation
Indices: 13791643--13791812 Score: 295
Period size: 63 Copynumber: 2.7 Consensus size: 63
13791633 GTTACATTAA
*
13791643 TTACATAACTTACATAAATTAAGTAAATTAAATATCTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
13791706 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
* ** *
13791769 TTACATAACTTACATAAATTAAATATCTTACATAACTTACATAA
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAA
13791813 ATTATAAGGG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 102 1.00
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (63 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
Found at i:13793397 original size:12 final size:12
Alignment explanation
Indices: 13793380--13793418 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
13793370 GTGGATGCCG
13793380 CAGCGAGAGAAA
1 CAGCGAGAGAAA
*
13793392 CAGCGAGAGAAG
1 CAGCGAGAGAAA
*
13793404 CAGCGATAGAAA
1 CAGCGAGAGAAA
13793416 CAG
1 CAG
13793419 AGGTTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.33, T:0.03
Consensus pattern (12 bp):
CAGCGAGAGAAA
Found at i:13793944 original size:43 final size:42
Alignment explanation
Indices: 13793831--13794082 Score: 296
Period size: 42 Copynumber: 6.0 Consensus size: 42
13793821 GTTTGTGAAA
**
13793831 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTAAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* * *
13793874 -AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
* *
13793916 AAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
* * * *
13793959 TAAGCGCCACTAAAGAACATGATCTTTAGCAGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
13794001 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
13794043 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCATTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
13794083 TATGTAAGCG
Statistics
Matches: 186, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 114 0.61
43 70 0.38
44 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:13794083 original size:85 final size:85
Alignment explanation
Indices: 13793831--13794101 Score: 309
Period size: 85 Copynumber: 3.2 Consensus size: 85
13793821 GTTTGTGAAA
* *
13793831 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTAAAC-AAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TACTAAGCGCCGCTAAAGAACAT
* * * * *
13793893 TA-CTTTTAGAGGCGTTTTCTTCC
63 GATC-TTTAGCGGCATTTTTTTTC
* * * *
13793916 AAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTCTTCCTAAGCGCCACTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTACTAAGCGCCGCTAAAGAACATGA
*
13793981 TCTTTAGCAGCA-TTTTTTTC
65 TCTTTAGCGGCATTTTTTTTC
* *
13794001 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAGCATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCCGCTAAAGAACATGAT
*
13794066 CTTTAGCGGCATTTTTTTATG
66 CTTTAGCGGCATTTTTTT-TC
*
13794087 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
13794102 TTAGCGACGT
Statistics
Matches: 159, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
84 35 0.22
85 81 0.51
86 42 0.26
87 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCATTTTTTTTC
Found at i:13796458 original size:5 final size:6
Alignment explanation
Indices: 13796429--13796465 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
13796419 TTTTATAGCC
*
13796429 GAAATA GAAAAGA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA GAAAAA
13796466 TCTAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:13797235 original size:44 final size:44
Alignment explanation
Indices: 13797181--13798704 Score: 1110
Period size: 44 Copynumber: 34.3 Consensus size: 44
13797171 ACCGATATGG
* * *
13797181 GAAGACAAGATCTGCTGTCTTTGATAC-ACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGAT-CTACTTCACGCCAATACAT
* * * ** ***
13797225 GAATACAAGATCTGCTTTTTTCGATCTACTTCACCACCTGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACAT
* * *
13797270 GAAGACAAGACCTACTTTCTTCGATCTACTTCACGCCAATATAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
13797314 GAAGACAAGATATG-TTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13797358 GAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * *
13797403 GAAGACAAGATCCGCTTTCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13797447 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * * * * *
13797492 GAAGATAAGGTCTG-TTATCTTTGATCTACCTCACACCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13797536 GAAGACAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * * *
13797581 GAAGACAAGATCTG-TTATCTTTGATCAACTTCACACCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13797625 GAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * * *
13797670 GAAGATAAGATCTG-TTGTCTTTGATCTACTTCACACCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
13797714 GAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * * * *
13797759 GAAGAAAAGATCT-ATTATCTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * ***
13797803 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* *
13797848 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13797892 GAAGACAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* *
13797937 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* ***
13797981 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-CACAAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC-CAA-TACAT
* * *
13798026 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACGT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * * *
13798070 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * *
13798115 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACGT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* ***
13798159 GAAGACAAGATCTGCTTTCTTCGATCTAC--CCCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA--A-TACAT
* *
13798204 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * ***
13798248 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
** * *
13798293 GAAGACAAGATCTG-TTATCTTTTATCTACATCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13798337 GAAGATAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-CACGCCAATACAT
* * * * *
13798382 GAAGTCAAGATCTGCTATCTTTGATCTACTTCACGCCAGTAGAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * ***
13798426 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * *
13798471 GAAGACAAGATCTG-TTATCTTTGATCTACATCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * *
13798515 GAAGATAAGATCTACTTTCTTCGATCTACTT--CGCCATCAGTATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA--A-TACAT
* * *
13798560 GAAGACAAGATCTG-TTATCTTTGATCGACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
13798604 GAAGACAATATCTACTTT-TTCGATCTACATCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * *
13798648 GAAGACAAGATCT-ATTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
13798692 GAAGACAAGATCT
1 GAAGACAAGATCT
13798705 ACTTCGCCAC
Statistics
Matches: 1176, Mismatches: 249, Indels: 110
0.77 0.16 0.07
Matches are distributed among these distances:
42 11 0.01
43 16 0.01
44 607 0.52
45 530 0.45
46 1 0.00
47 11 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:13797310 original size:89 final size:88
Alignment explanation
Indices: 13797180--13798708 Score: 1046
Period size: 89 Copynumber: 17.2 Consensus size: 88
13797170 CACCGATATG
* * * * * *
13797180 GGAAGACAAGATCTGCTGTCTTTGATAC-ACTTCACGTCAATACATGAATACAAGATCTGCTTTT
1 GGAAGACAAGATCTACTTTCTTCGAT-CTACTTCACGCCAATATATGAAGACAAGATCTGCTTTT
* **
13797244 TTCGATCTACTTCACCACCTGTATG
65 TTCGATCTACTTCA-CACCAGTACA
* * *
13797269 GGAAGACAAGACCTACTTTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATATG-TTATC
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTT-TT
* *
13797333 TTCGATCTACTTCACGCCAATACA
65 TTCGATCTACTTCACACCAGTACA
* * * * * * ** *
13797357 TGAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGTATGGGAAGACAAGATCCGCTTTC
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTTT-
*
13797422 TTT-GATCTACTTCACGCCAGTACA
64 TTTCGATCTACTTCACACCAGTACA
* * * * ** * *
13797446 TGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGGTCTG-TTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
*
13797510 CTTT-GATCTACCTCACACCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * * * * **
13797535 TGAAGACAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTG-TTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
*
13797599 CTTT-GATCAACTTCACACCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * * * * ** *
13797624 TGAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTG-TTGT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
13797688 CTTT-GATCTACTTCACACCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * * * ** * *
13797713 TGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGAAAAGATCT-ATTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
**
13797777 CTTT-GATCTACTTCATGCCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * * * **
13797802 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
*
13797866 CTTT-GATCTACTTCACGCCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * * **
13797891 TGAAGACAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
*
13797955 CTTT-GATCTACTTCACGCCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * **
13797980 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-CACAAGTATGGGAAGACAAGATCTG-TTA
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTCACGC-CAA-TATATGAAGACAAGATCTGCTT-
*
13798043 TCTTT-GATCTACTTCACGCCAGTAC-
63 T-TTTCGATCTACTTCACACCAGTACA
** * * * *
13798068 GTGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TTA
1 G-GAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-
*
13798132 TCTTT-GATCTACTTCACGCCAGTAC-
63 T-TTTCGATCTACTTCACACCAGTACA
* * **
13798157 GTGAAGACAAGATCTGCTTTCTTCGATCTAC--CCCGCCACCAGTATGGGAAGACAAGATCTG-T
1 G-GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA--A-TATATGAAGACAAGATCTGCT
*
13798219 TATCTTT-GATCTACTTCACGCCAGTACA
62 T-T-TTTCGATCTACTTCACACCAGTACA
* * * * * **
13798247 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
* * *
13798311 CTTT-TATCTACATCACGCCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * * * * * ** * *
13798336 TGAAGATAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAGTCAAGATCTGCTATC
1 GGAAGACAAGATCTACTTTCTTCGATCTACTT-CACGCCAATATATGAAGACAAGATCTGCT-TT
* *
13798401 TTT-GATCTACTTCACGCCAGTAGA
64 TTTCGATCTACTTCACACCAGTACA
* * * * **
13798425 TGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
* *
13798489 CTTT-GATCTACATCACGCCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
* * *
13798514 TGAAGATAAGATCTACTTTCTTCGATCTACTT--CGCCATCAGTATAGGAAGACAAGATCTG-TT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA--A-TATATGAAGACAAGATCTGCTT
* *
13798576 ATCTTT-GATCGACTTCACGCCAGTACA
63 -T-TTTCGATCTACTTCACACCAGTACA
* * * * * * ** *
13798603 TGAAGACAATATCTACTTT-TTCGATCTACATCGCCACCAGTATGGGAAGACAAGATCT-ATTAT
1 GGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATCTGCTT-T
*
13798666 CTTT-GATCTACTTCACGCCAGTACA
64 -TTTCGATCTACTTCACACCAGTACA
*
13798691 TGAAGACAAGATCTACTT
1 GGAAGACAAGATCTACTT
13798709 CGCCACCAGT
Statistics
Matches: 1305, Mismatches: 102, Indels: 67
0.89 0.07 0.05
Matches are distributed among these distances:
86 9 0.01
87 3 0.00
88 118 0.09
89 1154 0.88
90 9 0.01
91 7 0.01
92 5 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
GGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTTTTT
TCGATCTACTTCACACCAGTACA
Found at i:13797520 original size:178 final size:178
Alignment explanation
Indices: 13797270--13799000 Score: 2724
Period size: 178 Copynumber: 9.8 Consensus size: 178
13797260 ACCTGTATGG
* * * * ** *
13797270 GAAGACAAGACCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATATGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797334 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13797399 ATGGGAAGACAAGATCCGCTT-TCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACAT
* *
13797447 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGGTCTGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797512 TTGATCTACCTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13797577 ATGGGAAGACAAGATCTGTTATCTTTGATCAACTTCACACCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * *
13797625 GAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGTTGTCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797690 TTGATCTACTTCACACCAGTACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
13797755 ATGGGAAGAAAAGATCTATTATCTTTGATCTACTTCATGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
*
13797803 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797868 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTCTTCGATCTACTTCGCCACCAAT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13797933 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* *
13797981 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACAAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13798046 TTGATCTACTTCACGCCAGTACGTGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13798111 ATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACGT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* **
13798159 GAAGACAAGATCTGCTTTCTTCGATCTACCCCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13798224 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13798289 ATGGGAAGACAAGATCTGTTATCTTTTATCTACATCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * * *
13798337 GAAGATAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAGTCAAGATCTGCTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13798402 TTGATCTACTTCACGCCAGTAGATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13798467 ATGGGAAGACAAGATCTGTTATCTTTGATCTACATCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * *
13798515 GAAGATAAGATCTACTTTCTTCGATCTACTTCGCCATCAGTATAGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * * *
13798580 TTGATCGACTTCACGCCAGTACATGAAGACAATATCTACTTT-TTCGATCTACATCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13798644 ATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
13798692 GAAGAC---A---A--------GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13798743 TTGATATACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13798808 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
13798856 GAAGACAAGATCTA-TTATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
1 GAAGACAAGATCTACTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
* * * **
13798920 TTTGATCTACTTCACGCTAGTACATGAAGATAAGATCTGCTTTTTTCGATCTACTTTACCACCAG
65 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
*
13798985 TATGGCAAGACAAGAT
130 TATGGGAAGACAAGAT
13799001 TTACTGCTAC
Statistics
Matches: 1442, Mismatches: 95, Indels: 33
0.92 0.06 0.02
Matches are distributed among these distances:
163 79 0.05
164 74 0.05
167 1 0.00
170 1 0.00
171 1 0.00
174 1 0.00
177 105 0.07
178 1180 0.82
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (178 bp):
GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:13797637 original size:267 final size:267
Alignment explanation
Indices: 13797270--13799000 Score: 2733
Period size: 267 Copynumber: 6.5 Consensus size: 267
13797260 ACCTGTATGG
* * * * * ** *
13797270 GAAGACAAGACCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATATGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797334 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13797399 ATGGGAAGACAAGATCCGCTT-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACT
131 ATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACT
* * * *
13797463 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGGTCTGTTATCTTTGATCTACCTCACAC
195 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
13797528 CAGTACAT
260 CAGTACAT
*
13797536 GAAGACAAGATCTGCTTTCTTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797601 TTGATCAACTTCACACCAGTACATGAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
13797666 ATGGGAAGATAAGATCTGTTGTCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTACTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
* * * *
13797731 TCTTTGATCTACTTCGCCACCAGTATGGGAAGAAAAGATCTATTATCTTTGATCTACTTCATGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13797796 AGTACAT
261 AGTACAT
13797803 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13797868 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTCTTCGATCTACTTCGCCACCAAT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13797933 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
*
13797998 TCTTCGATCTACTTCGCCACAAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
13798063 AGTACGT
261 AGTACAT
* *
13798070 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* **
13798135 TTGATCTACTTCACGCCAGTACGTGAAGACAAGATCTGCTTTCTTCGATCTACCCCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13798200 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
* *
13798265 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTTATCTACATCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13798330 AGTACAT
261 AGTACAT
* * * *
13798337 GAAGATAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAGTCAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13798402 TTGATCTACTTCACGCCAGTAGATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13798467 ATGGGAAGACAAGATCTGTTATCTTTGATCTACATCACGCCAGTACATGAAGATAAGATCTACTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
* * *
13798532 TCTTCGATCTACTTCGCCATCAGTATAGGAAGACAAGATCTGTTATCTTTGATCGACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13798597 AGTACAT
261 AGTACAT
* * * *
13798604 GAAGACAATATCTACTTT-TTCGATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13798668 TTGATCTACTTCACGCCAGTACATGAAGAC-A-A------------GATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13798719 ATGGGAAGACAAGATCTGTTATCTTTGATATACTTCACGCCAGTACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
13798784 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13798849 AGTACAT
261 AGTACAT
*
13798856 GAAGACAAGATCT-ATTATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
* * * **
13798920 TTTGATCTACTTCACGCTAGTACATGAAGATAAGATCTGCTTTTTTCGATCTACTTTACCACCAG
65 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
*
13798985 TATGGCAAGACAAGAT
130 TATGGGAAGACAAGAT
13799001 TTACTGCTAC
Statistics
Matches: 1349, Mismatches: 98, Indels: 35
0.91 0.07 0.02
Matches are distributed among these distances:
251 2 0.00
252 162 0.12
253 72 0.05
254 1 0.00
255 1 0.00
264 1 0.00
265 1 0.00
266 101 0.07
267 1008 0.75
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (267 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACAT
Found at i:13798753 original size:75 final size:75
Alignment explanation
Indices: 13798625--13798779 Score: 283
Period size: 75 Copynumber: 2.1 Consensus size: 75
13798615 CTACTTTTTC
*
13798625 GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATATACTTCACGCCAGTAC
13798690 ATGAAGACAA
66 ATGAAGACAA
* *
13798700 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATATACTTCACGCCAGTAC
1 GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATATACTTCACGCCAGTAC
13798765 ATGAAGACAA
66 ATGAAGACAA
13798775 GATCT
1 GATCT
13798780 GCTTTCTTCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (75 bp):
GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATATACTTCACGCCAGTAC
ATGAAGACAA
Found at i:13798771 original size:44 final size:44
Alignment explanation
Indices: 13798723--13798975 Score: 296
Period size: 44 Copynumber: 5.7 Consensus size: 44
13798713 ACCAGTATGG
*
13798723 GAAGACAAGATCTGTTATCTTTGATATACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
13798767 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACAT
13798812 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
13798856 GAAGACAAGATCTATTATCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACAT
*
13798901 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
*
13798945 GAAGATAAGATCTGCTT-T-TTTCGATCTACTT
1 GAAGACAAGATCTG-TTATCTTT-GATCTACTT
13798976 TACCACCAGT
Statistics
Matches: 174, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
43 3 0.02
44 95 0.55
45 76 0.44
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:13798851 original size:89 final size:89
Alignment explanation
Indices: 13798700--13799000 Score: 514
Period size: 89 Copynumber: 3.4 Consensus size: 89
13798690 ATGAAGACAA
*
13798700 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATATACTTCACGCCAGTAC
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
13798765 ATGAAGACAAGATCTGCTTTCTTC
66 ATGAAGACAAGATCTGCTTTCTTC
13798789 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
*
13798854 ATGAAGACAAGATCT-ATTATCTTC
66 ATGAAGACAAGATCTGCTT-TCTTC
*
13798878 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
* *
13798943 ATGAAGATAAGATCTGCTTTTTTC
66 ATGAAGACAAGATCTGCTTTCTTC
** *
13798967 GATCTACTTTACCACCAGTATGGCAAGACAAGAT
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGAT
13799001 TTACTGCTAC
Statistics
Matches: 201, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
88 2 0.01
89 197 0.98
90 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
ATGAAGACAAGATCTGCTTTCTTC
Found at i:13800295 original size:14 final size:13
Alignment explanation
Indices: 13800260--13800301 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13800250 CCTTAGCCTC
*
13800260 TTCATTTTAC-TT
1 TTCATTTTTCATT
13800272 CTTCATTTTTCATT
1 -TTCATTTTTCATT
13800286 TTCATCTTTTCATT
1 TTCAT-TTTTCATT
13800300 TT
1 TT
13800302 TCACATCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCATTTTTCATT
Found at i:13800299 original size:21 final size:20
Alignment explanation
Indices: 13800260--13800304 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
13800250 CCTTAGCCTC
13800260 TTCATTTTACTTCTTCATTT
1 TTCATTTTACTTCTTCATTT
13800280 TTCATTTTCATCTT-TTCATTT
1 TTCATTTT-A-CTTCTTCATTT
13800301 TTCA
1 TTCA
13800305 CATCACTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 12 0.52
22 3 0.13
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCATTTTACTTCTTCATTT
Found at i:13801256 original size:19 final size:19
Alignment explanation
Indices: 13801232--13801271 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13801222 GGTTTGGCAG
13801232 AAAAAATC-CAAAAGAATGA
1 AAAAAATCGCAAAA-AATGA
*
13801251 AAAAAATCGTAAAAAATGA
1 AAAAAATCGCAAAAAATGA
13801270 AA
1 AA
13801272 GAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAATCGCAAAAAATGA
Found at i:13803666 original size:17 final size:16
Alignment explanation
Indices: 13803640--13803674 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13803630 TTCTATGATG
13803640 AAATGCCATGCAGTCAA
1 AAATGCCATGCAG-CAA
*
13803657 AAATGTCATGCAGCAA
1 AAATGCCATGCAGCAA
13803673 AA
1 AA
13803675 GCAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCAA
Found at i:13805409 original size:25 final size:26
Alignment explanation
Indices: 13805360--13805415 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
13805350 ACCCTTAAAA
*
13805360 GTATATATTAAAATATGCATATATAT
1 GTATATATAAAAATATGCATATATAT
* *
13805386 -TATATATAAAAATATGCGTGTATAT
1 GTATATATAAAAATATGCATATATAT
13805411 GTATA
1 GTATA
13805416 GCAAATACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (26 bp):
GTATATATAAAAATATGCATATATAT
Found at i:13806272 original size:25 final size:26
Alignment explanation
Indices: 13806220--13806272 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13806210 TTATCCCCCC
13806220 TTTTACAGTACTTGAAATCGACCTTT
1 TTTTACAGTACTTGAAATCGACCTTT
*
13806246 TTTTACAGTACTTGAAATCGGCCTTT
1 TTTTACAGTACTTGAAATCGACCTTT
13806272 T
1 T
13806273 ATAGCCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (26 bp):
TTTTACAGTACTTGAAATCGACCTTT
Found at i:13807772 original size:17 final size:18
Alignment explanation
Indices: 13807752--13807789 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
13807742 GTAAAAATAA
*
13807752 AAAATCA-AATCAAATTG
1 AAAATCATAAACAAATTG
13807769 AAAATCATAAACAAATTG
1 AAAATCATAAACAAATTG
13807787 AAA
1 AAA
13807790 GATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATCATAAACAAATTG
Found at i:13811227 original size:20 final size:20
Alignment explanation
Indices: 13811202--13811241 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13811192 CACACATGAC
13811202 ATCAACATATAATGAGACTT
1 ATCAACATATAATGAGACTT
13811222 ATCAACATATAATGAGACTT
1 ATCAACATATAATGAGACTT
13811242 TAAAATCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
ATCAACATATAATGAGACTT
Found at i:13811662 original size:21 final size:19
Alignment explanation
Indices: 13811616--13811670 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 19
13811606 ATTAATTAAT
*
13811616 TTTTTAAAATTTAAAAA--
1 TTTTTAAAAATTAAAAATG
13811633 -TTTTAAAAATATAGAAAATG
1 TTTTTAAAAAT-TA-AAAATG
*
13811653 TTTTTGAAAATTAAAAAT
1 TTTTTAAAAATTAAAAAT
13811671 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 9 0.29
17 2 0.06
18 4 0.13
19 5 0.16
20 2 0.06
21 9 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TTTTTAAAAATTAAAAATG
Found at i:13815917 original size:15 final size:15
Alignment explanation
Indices: 13815897--13815927 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13815887 AAACTGTGTG
13815897 AATAAATGTTATTAA
1 AATAAATGTTATTAA
13815912 AATAAATGTTATTAA
1 AATAAATGTTATTAA
13815927 A
1 A
13815928 TATATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
AATAAATGTTATTAA
Found at i:13818195 original size:21 final size:21
Alignment explanation
Indices: 13818156--13818197 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13818146 ATTTTCATTT
13818156 TTTCTATTTAAGTCGAAACAA
1 TTTCTATTTAAGTCGAAACAA
13818177 TTTCGTATTTAAGTC-AAACAA
1 TTTC-TATTTAAGTCGAAACAA
13818198 CCACTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTCTATTTAAGTCGAAACAA
Found at i:13818541 original size:29 final size:29
Alignment explanation
Indices: 13818480--13818544 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
13818470 GTCTAATGTG
* * * *
13818480 TAATTTTATATATGAAGTTTGATTTTGTT
1 TAATTTTATATATAAAATTTGAATTTGTC
13818509 TAATTTTATATATAAAATTT-AATTTGATC
1 TAATTTTATATATAAAATTTGAATTTG-TC
13818538 TAATTTT
1 TAATTTT
13818545 CACAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (29 bp):
TAATTTTATATATAAAATTTGAATTTGTC
Found at i:13822377 original size:14 final size:14
Alignment explanation
Indices: 13822358--13822396 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13822348 TTGTTTCATT
*
13822358 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
13822372 GAAAATGATTTCTG
1 GAAAATGACTTCCG
13822386 GAAAATGACTT
1 GAAAATGACTT
13822397 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:13823008 original size:18 final size:18
Alignment explanation
Indices: 13822970--13823005 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13822960 TTATTATTTT
*
13822970 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
13822988 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
13823006 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:13823150 original size:10 final size:9
Alignment explanation
Indices: 13823121--13823146 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13823111 ATTTTATATT
13823121 AATATTTTA
1 AATATTTTA
13823130 AATATTTTA
1 AATATTTTA
13823139 AATATTTT
1 AATATTTT
13823147 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:13825998 original size:22 final size:21
Alignment explanation
Indices: 13825961--13826016 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
13825951 TAGGAAACTG
*
13825961 CATCTTATTCTAATCTGTTCTA
1 CATCTTA-TCTGATCTGTTCTA
* *
13825983 CATCTGTATCTGATCTGTTTTG
1 CATCT-TATCTGATCTGTTCTA
13826005 CATCTTATCTGA
1 CATCTTATCTGA
13826017 ATTGTTATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 21 0.70
23 2 0.07
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (21 bp):
CATCTTATCTGATCTGTTCTA
Found at i:13827539 original size:27 final size:27
Alignment explanation
Indices: 13827475--13827532 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
13827465 TACTAGTTGG
13827475 GTTTGCCAGTTGGTTTGGCGAACTGGT
1 GTTTGCCAGTTGGTTTGGCGAACTGGT
13827502 GTTTGCCAGTTGGTTTGGCGAACTGGT
1 GTTTGCCAGTTGGTTTGGCGAACTGGT
13827529 GTTT
1 GTTT
13827533 AGCAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.10, C:0.14, G:0.36, T:0.40
Consensus pattern (27 bp):
GTTTGCCAGTTGGTTTGGCGAACTGGT
Found at i:13827590 original size:26 final size:26
Alignment explanation
Indices: 13827520--13827590 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
13827510 GTTGGTTTGG
* *
13827520 CGAACTGGTGTTTAGCAGTTAAGTTA
1 CGAACTGGTGTTCACCAGTTAAGTTA
** *
13827546 CGAACTGGTGTTCGTCAGTTAAGTTG
1 CGAACTGGTGTTCACCAGTTAAGTTA
*
13827572 TGAACTGGTGTTCACCAGT
1 CGAACTGGTGTTCACCAGT
13827591 CAAAGTTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (26 bp):
CGAACTGGTGTTCACCAGTTAAGTTA
Found at i:13828396 original size:12 final size:12
Alignment explanation
Indices: 13828381--13828406 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13828371 CCGAAACTTC
13828381 AAAAGAAAAGAA
1 AAAAGAAAAGAA
13828393 AAAAGAAAAGAA
1 AAAAGAAAAGAA
13828405 AA
1 AA
13828407 GTTAGGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:13829139 original size:44 final size:44
Alignment explanation
Indices: 13829072--13829193 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 44
13829062 GCTGAAATGT
*
13829072 GATTT-CGTGTAAGACCACA-TCTGGGACGTTGGCATCG-ATTTGA
1 GATTTACGTGTAAGACCA-AGTCTGGGACGTTGGCATCGTATAT-A
* * *
13829115 GATTTACGTGTAAGACCAAGTCTGGGACATTAGCGTCGTATATA
1 GATTTACGTGTAAGACCAAGTCTGGGACGTTGGCATCGTATATA
**
13829159 -A-TTACGTGTAAGACCCTGTCTGGGACAG-TGGCATC
1 GATTTACGTGTAAGACCAAGTCTGGGAC-GTTGGCATC
13829194 ATTATTTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
42 28 0.42
43 7 0.11
44 28 0.42
45 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTACGTGTAAGACCAAGTCTGGGACGTTGGCATCGTATATA
Found at i:13829215 original size:43 final size:43
Alignment explanation
Indices: 13829118--13829270 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 43
13829108 GATTTGAGAT
** * * * * *
13829118 TTACGTGTAAGACCAAGTCTGGGACATTAGCGTC-GTATATAA
1 TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
*
13829160 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCATTATTTAA
1 TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
* * * *
13829203 TTATGTGTAAGACTCTGTCTGAGACAATGGCATCATTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
* * * *
13829246 TTACATTTAAGACCATGGCTGGGAC
1 TTACGTGTAAGACCCTGTCTGGGAC
13829271 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.32
43 62 0.68
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
Found at i:13831963 original size:4 final size:4
Alignment explanation
Indices: 13831954--13831997 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
13831944 CTCTTAATCC
* * * *
13831954 TTTA TTTA TTTA GTTA TTTG TTTG TTTA TTTA TATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
13831998 AAATTTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:13832233 original size:16 final size:16
Alignment explanation
Indices: 13832212--13832246 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13832202 CTTTTACATG
*
13832212 TATTTCATTATTTTCA
1 TATTTCATAATTTTCA
*
13832228 TATTTCATAATTTTTA
1 TATTTCATAATTTTCA
13832244 TAT
1 TAT
13832247 ACCTACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTCATAATTTTCA
Found at i:13836939 original size:21 final size:20
Alignment explanation
Indices: 13836911--13836949 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13836901 TATATTTTTT
*
13836911 ATATTTTTATTTTTTATTGC
1 ATATTTTTAGTTTTTATTGC
*
13836931 ATATGTTTTGGTTTTTATT
1 ATAT-TTTTAGTTTTTATT
13836950 TATAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (20 bp):
ATATTTTTAGTTTTTATTGC
Found at i:13839310 original size:15 final size:16
Alignment explanation
Indices: 13839292--13839342 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 16
13839282 TTTTAATTAA
13839292 TTTATTTTATTT-TAT
1 TTTATTTTATTTCTAT
** *
13839307 TTTACATTATTTCTCT
1 TTTATTTTATTTCTAT
*
13839323 CTTTATTTTTTTTCTAT
1 -TTTATTTTATTTCTAT
13839340 TTT
1 TTT
13839343 TTCCTTTCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
15 10 0.37
16 5 0.19
17 12 0.44
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTTATTTCTAT
Found at i:13841054 original size:25 final size:25
Alignment explanation
Indices: 13841003--13841055 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
13840993 ATTTTTTTTA
**
13841003 TTTTAAAATAATTTTAAAATACTTT
1 TTTTAAAATAATTTTAAAATAAATT
*
13841028 TTTTAAAA-ATTTTTCAAAATAAATT
1 TTTTAAAATAATTTT-AAAATAAATT
13841053 TTT
1 TTT
13841056 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTTAAAATAATTTTAAAATAAATT
Found at i:13844958 original size:6 final size:6
Alignment explanation
Indices: 13844947--13844972 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13844937 TCTCCTCAAA
13844947 ATCCCC ATCCCC ATCCCC ATCCCC AT
1 ATCCCC ATCCCC ATCCCC ATCCCC AT
13844973 TTATAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.62, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCCCC
Found at i:13849816 original size:11 final size:11
Alignment explanation
Indices: 13849794--13849851 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
13849784 AACTAATCAT
13849794 CTCTCAAATTTC
1 CTCTC-AATTTC
13849806 CTCTCAATTTC
1 CTCTCAATTTC
*
13849817 CTCTAAATTTC
1 CTCTCAATTTC
*
13849828 CTCTCAATTTG
1 CTCTCAATTTC
*
13849839 CTCTCAAATTC
1 CTCTCAATTTC
13849850 CT
1 CT
13849852 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:13849824 original size:22 final size:23
Alignment explanation
Indices: 13849794--13849870 Score: 99
Period size: 22 Copynumber: 3.4 Consensus size: 23
13849784 AACTAATCAT
13849794 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
13849817 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
13849839 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
13849861 CTCTCAAATT
1 CTCTCAAATT
13849871 CATATTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.71
23 13 0.27
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:13849843 original size:33 final size:33
Alignment explanation
Indices: 13849793--13849867 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
13849783 AAACTAATCA
* *
13849793 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
13849826 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
13849860 TCTCTCAA
1 TCTCTCAA
13849868 ATTCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:13849868 original size:11 final size:11
Alignment explanation
Indices: 13849793--13849870 Score: 74
Period size: 11 Copynumber: 7.0 Consensus size: 11
13849783 AAACTAATCA
13849793 TCTCTCAAATT
1 TCTCTCAAATT
13849804 TCCTCTC-AATT
1 T-CTCTCAAATT
13849815 TC-CTCTAAATT
1 TCTCTC-AAATT
13849826 TCCTCTC-AATT
1 T-CTCTCAAATT
13849837 TGCTCTCAAATT
1 T-CTCTCAAATT
*
13849849 CCT-TCCAAATT
1 TCTCT-CAAATT
13849860 TCTCTCAAATT
1 TCTCTCAAATT
13849871 CATATTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 37 0.66
12 11 0.20
13 3 0.05
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:13851806 original size:18 final size:18
Alignment explanation
Indices: 13851779--13851818 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
13851769 CAGGTGCGTT
*
13851779 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
13851797 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
13851815 TCCT
1 TCCT
13851819 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:13852098 original size:21 final size:21
Alignment explanation
Indices: 13852074--13852122 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13852064 AGATGTCGTA
* *
13852074 CCGAAAGAACCAGAATCC-CCG
1 CCGAAAGAACAACAA-CCACCG
*
13852095 CCGAAGGAACAACAACCACCG
1 CCGAAAGAACAACAACCACCG
13852116 CCGAAAG
1 CCGAAAG
13852123 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.41, C:0.37, G:0.20, T:0.02
Consensus pattern (21 bp):
CCGAAAGAACAACAACCACCG
Found at i:13854156 original size:21 final size:24
Alignment explanation
Indices: 13854108--13854173 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
13854098 CAAATAATAA
*
13854108 AATAATACAGCATAACTTTTAAGT
1 AATAATACAGAATAACTTTTAAGT
* *
13854132 AATAATACATAATAA-TTTTAGAAT
1 AATAATACAGAATAACTTTTA-AGT
13854156 AATAATACACG-ATAACTT
1 AATAATACA-GAATAACTT
13854174 CAAAAATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.14
24 28 0.80
25 2 0.06
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (24 bp):
AATAATACAGAATAACTTTTAAGT
Found at i:13855054 original size:13 final size:13
Alignment explanation
Indices: 13855036--13855060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13855026 AAAATAATCC
13855036 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
13855049 AAAGAAGAAAAA
1 AAAGAAGAAAAA
13855061 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:13855946 original size:87 final size:88
Alignment explanation
Indices: 13855773--13856021 Score: 385
Period size: 87 Copynumber: 2.9 Consensus size: 88
13855763 GGACCATTGG
* *
13855773 CTTCGATCTGCTTCACTATCGATGCAGGAAGGCAAGA-CCGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
13855837 ATCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * *
13855860 CTTTGATCTGCTTCACTGTTGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
13855925 ACCGAGGGAGGCAATGC-TGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * * *
13855947 CTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATTTGTTATCTTCAACCTACTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
13856012 ACCGAGGGAG
66 ACCGAGGGAG
13856022 ATAAGATCTG
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 106 0.72
88 41 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (88 bp):
CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
ACCGAGGGAGGCAAGGCTTGTGT
Found at i:13856089 original size:44 final size:44
Alignment explanation
Indices: 13856053--13856380 Score: 413
Period size: 44 Copynumber: 7.5 Consensus size: 44
13856043 CTACTCTACA
*
13856053 GCTGCTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * * *
13856097 GCTGGTCAGGGAGCTAAGACTTACAGTCTTCCACATATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * * *
13856141 GCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* *
13856185 GCTGGTCAGGGAGCTAGGACTTACAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * ** *
13856229 GTTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCAAT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
** * * * *
13856273 GCTTTTCAGGGAGTTAGGACTTTCAGTCTTTTACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * *
13856317 GTTGGTCAGGGAGCTAGGACTCACAATCTTCTACCTATCCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* *
13856361 GCTGTTCAGGGAGATAGGAC
1 GCTGGTCAGGGAGCTAGGAC
13856381 ATATAGTTTC
Statistics
Matches: 237, Mismatches: 47, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 237 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
Found at i:13856379 original size:132 final size:132
Alignment explanation
Indices: 13856053--13856380 Score: 458
Period size: 132 Copynumber: 2.5 Consensus size: 132
13856043 CTACTCTACA
* *
13856053 GCTGCTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAAGACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
* *
13856118 TACAGTCTTCCACATATTCCACTGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
66 TACAATCTTCCACATATTCCAATGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
13856183 CT
131 CT
* * * *
13856185 GCTGGTCAGGGAGCTAGGACTTACAGTCTTCCACCTATTCCACTGTTGGTCAGGGAGCTAGGATT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
* * ** * * ** *
13856250 TACAATCTTCCGCCTATTCCAATGCTTTTCAGGGAGTTAGGACTTTCAGTCTTTTACCTATTCCA
66 TACAATCTTCCACATATTCCAATGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
13856315 CT
131 CT
* * * * *
13856317 GTTGGTCAGGGAGCTAGGACTCACAATCTTCTACCTATCCCACTGCTGTTCAGGGAGATAGGAC
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGAC
13856381 ATATAGTTTC
Statistics
Matches: 170, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 170 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (132 bp):
GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
TACAATCTTCCACATATTCCAATGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
CT
Found at i:13857747 original size:46 final size:46
Alignment explanation
Indices: 13857680--13857767 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
13857670 TCATTTTTCA
* * * *
13857680 TTTTTTGGACTTAAAGTGCCCTTTGAGGGTTTTCACTTTGATATTT
1 TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGATATTT
*
13857726 TTTTTTGAACTCAAAGCGCCCTTTGTGGGTTTTCACATTGAT
1 TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGAT
13857768 CCTTTCTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (46 bp):
TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGATATTT
Found at i:13862272 original size:13 final size:13
Alignment explanation
Indices: 13862254--13862279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13862244 CCCGAGAGGG
13862254 AGCTTTTTATTTA
1 AGCTTTTTATTTA
13862267 AGCTTTTTATTTA
1 AGCTTTTTATTTA
13862280 TATGAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
AGCTTTTTATTTA
Found at i:13862400 original size:24 final size:25
Alignment explanation
Indices: 13862371--13862439 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
13862361 CAAATAATAA
13862371 AATAATAATACATCATAACTTTTA-
1 AATAATAATACATCATAACTTTTAG
* *
13862395 AGTAATAATACATAATAA-TTTTAG
1 AATAATAATACATCATAACTTTTAG
*
13862419 AATGATAATACA-CGATAACTT
1 AATAATAATACATC-ATAACTT
13862440 CAAAAATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.14
24 30 0.81
25 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (25 bp):
AATAATAATACATCATAACTTTTAG
Found at i:13863322 original size:13 final size:13
Alignment explanation
Indices: 13863304--13863328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13863294 AAAAAAATCC
13863304 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
13863317 AAAGAAGAAAAA
1 AAAGAAGAAAAA
13863329 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:13866323 original size:125 final size:125
Alignment explanation
Indices: 13865947--13866324 Score: 571
Period size: 125 Copynumber: 3.0 Consensus size: 125
13865937 CCCAAACATG
13865947 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
* * * *
13866012 TAGAAGCGATTTTATACTATTTGCTCAGAAGCATCAACTCAAAATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
13866072 CAACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * *
13866136 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATAATTT-TTTCAGGAC
65 GTAGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
13866197 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAACATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
*
13866262 TAAAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
13866322 CTA
1 CTA
13866325 AAAACCTTAA
Statistics
Matches: 222, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
124 41 0.18
125 143 0.64
126 38 0.17
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:13874272 original size:2 final size:2
Alignment explanation
Indices: 13874265--13874299 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13874255 GCACTAAAGT
13874265 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13874300 TTGGAATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13890633 original size:13 final size:13
Alignment explanation
Indices: 13890615--13890639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13890605 ACTATTTCTA
13890615 AATAAGTATTTTT
1 AATAAGTATTTTT
13890628 AATAAGTATTTT
1 AATAAGTATTTT
13890640 ATTAGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AATAAGTATTTTT
Found at i:13899077 original size:27 final size:27
Alignment explanation
Indices: 13899047--13899108 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
13899037 CCTATTTAAT
* *
13899047 AGGCGTGACTAGTTGAGCCTATCTCAG
1 AGGCGCGACTAGTTGAGCCTAACTCAG
* *
13899074 AGGCGCGACTAGTTGTGTCTAACTCAG
1 AGGCGCGACTAGTTGAGCCTAACTCAG
13899101 AGGCGCGA
1 AGGCGCGA
13899109 ATGGTGGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (27 bp):
AGGCGCGACTAGTTGAGCCTAACTCAG
Found at i:13902555 original size:33 final size:32
Alignment explanation
Indices: 13902506--13902569 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
13902496 ATGAACTTGA
*
13902506 GCCGGAAGGAGTGGAGTAC-GACAGTGGATACGG
1 GCCGGAAGGAGCGGAGTACTGA-AGT-GATACGG
*
13902539 GCCGGACGGAGCGGAGTACTGAAGTGATACG
1 GCCGGAAGGAGCGGAGTACTGAAGTGATACG
13902570 AGCTAGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 20 0.71
34 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.44, T:0.12
Consensus pattern (32 bp):
GCCGGAAGGAGCGGAGTACTGAAGTGATACGG
Found at i:13904461 original size:7 final size:7
Alignment explanation
Indices: 13904451--13904483 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13904441 ACTAAACATA
13904451 AATAATT
1 AATAATT
13904458 AATAATT
1 AATAATT
13904465 AATAATT
1 AATAATT
13904472 AATAATT
1 AATAATT
13904479 AATAA
1 AATAA
13904484 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATAATT
Found at i:13904569 original size:4 final size:4
Alignment explanation
Indices: 13904556--13904621 Score: 63
Period size: 4 Copynumber: 17.8 Consensus size: 4
13904546 TAATACATTA
13904556 CTTT -TTT CTTT CTTT CTTT CTTT CTTT C-TT C-TT C-TT C-TT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
13904599 -TTT CTCT CTTTT CTTT CTCT CTT
1 CTTT CTTT C-TTT CTTT CTTT CTT
13904622 CCGGTGGATG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
3 18 0.33
4 33 0.61
5 3 0.06
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:13904938 original size:18 final size:17
Alignment explanation
Indices: 13904915--13904985 Score: 63
Period size: 17 Copynumber: 4.0 Consensus size: 17
13904905 GTGCGACTCA
13904915 ATTTTTTATATTAAAAAT
1 ATTTTTTAT-TTAAAAAT
*
13904933 A-TTTTTATTAAAAAATT
1 ATTTTTTATTTAAAAA-T
*
13904950 AATATTTTATTTAAAAAAT
1 -ATTTTTTATTT-AAAAAT
* *
13904969 ATTTTTAATATAAAAAT
1 ATTTTTTATTTAAAAAT
13904986 TGAGTCGCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
16 6 0.14
17 14 0.33
18 10 0.23
19 8 0.19
20 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTTTATTTAAAAAT
Found at i:13904957 original size:19 final size:21
Alignment explanation
Indices: 13904930--13904968 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13904920 TTATATTAAA
13904930 AATATTTTTA-TTAAAAAATT
1 AATATTTTTATTTAAAAAATT
13904950 AATA-TTTTATTTAAAAAAT
1 AATATTTTTATTTAAAAAAT
13904969 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTTATTTAAAAAATT
Found at i:13905115 original size:5 final size:5
Alignment explanation
Indices: 13905105--13905131 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13905095 AAAACCCTAC
13905105 ACCCA ACCCA ACCCA ACCCA ACCCA AC
1 ACCCA ACCCA ACCCA ACCCA ACCCA AC
13905132 GGAACCGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:13907721 original size:14 final size:13
Alignment explanation
Indices: 13907699--13907734 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
13907689 TAAATTTAGC
13907699 TTAAATTTTTTCAA
1 TTAAATTTTTT-AA
*
13907713 TTTAATTTTTTAA
1 TTAAATTTTTTAA
13907726 TTAAATTTT
1 TTAAATTTT
13907735 AATTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAAATTTTTTAA
Found at i:13911899 original size:23 final size:23
Alignment explanation
Indices: 13911852--13911899 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13911842 AAAATTTATT
**
13911852 TATTTATTCAATAAGTTTTTTAA
1 TATTTATTCAATAAGTTTTAAAA
*
13911875 TATTTATTTAATAAGTTTTAAAA
1 TATTTATTCAATAAGTTTTAAAA
13911898 TA
1 TA
13911900 ATTCAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTTATTCAATAAGTTTTAAAA
Found at i:13916169 original size:19 final size:21
Alignment explanation
Indices: 13916145--13916188 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13916135 CATCGTTTTT
*
13916145 AGAAGCCCG-AAG-GCTAAAC
1 AGAAGCACGTAAGCGCTAAAC
13916164 AGAAGCACGTAAGCGCTAAAC
1 AGAAGCACGTAAGCGCTAAAC
13916185 AGAA
1 AGAA
13916189 ACCCATAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 11 0.50
ACGTcount: A:0.45, C:0.23, G:0.25, T:0.07
Consensus pattern (21 bp):
AGAAGCACGTAAGCGCTAAAC
Found at i:13916197 original size:21 final size:21
Alignment explanation
Indices: 13916157--13916197 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13916147 AAGCCCGAAG
* *
13916157 GCTAAACAGAAGCACGTAAGC
1 GCTAAACAGAAACACATAAGC
*
13916178 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
13916198 GGTTGAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGC
Done.