Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 166 of 193
Found at i:51813089 original size:59 final size:55
Alignment explanation
Indices: 51813017--51813503 Score: 303
Period size: 59 Copynumber: 8.3 Consensus size: 55
51813007 AAAACTTTAA
*
51813017 AAAATTACATTTTAACCCCGAAACTTTTA-AAAATTACCATTTTACCCTAAAATTTTCC
1 AAAATTCCATTTTAACCCCG--A-TTTTACAAAATTACCATTTTACCCTAAAATTTT-C
* * *
51813075 AAAATTCTATTTTTAACCCCGATTTCATCCAAAATTACCATTTTTCCCTAAAATTTTC
1 AAAATTCCA-TTTTAACCCCGATTT--TACAAAATTACCATTTTACCCTAAAATTTTC
**
51813133 TAAAATTCCATTTTAACCCTAATTTTATCCAAAATTACCATTTTACCCTAAAACTTTTC
1 -AAAATTCCATTTTAACCCCGATTTTA--CAAAATTACCATTTTACCCTAAAA-TTTTC
* ** * *
51813192 GAAATTCCATTTTAACCTTGATTTCACCAAAATTACCATTTTACCCTTAAACTTTTC
1 AAAATTCCATTTTAACCCCGATTTTA-CAAAATTACCATTTTACCC-TAAAATTTTC
* ** **
51813249 AAAATTCTATTTTTAACCCCGATTGCACCCAAAATTACCATTTTACCCCTGAACCTTTT-
1 AAAATTCCA-TTTTAACCCCGATTTTA--CAAAATTACCATTTTA-CCCT-AAAATTTTC
* * * * * * * *
51813308 AAAATTCTATTTTTAACCTCGATTTCACTGAAAATTATCGTTTTACCCTCGAACTTTCC
1 AAAATTCCA-TTTTAACCCCGATTTTAC--AAAATTACCATTTTACCCT-AAAATTTTC
** * * * ** **
51813367 AAAATTTTATTTTTAATCTCGATTTCATCGAAAATTACCATTTTATTCTCGAATTTTCC
1 AAAATTCCA-TTTTAACCCCGATTTTA-C-AAAATTACCATTTTACCCTAAAATTTT-C
* ** * * ** *
51813426 AAAATCCCATTTTTAACCCTAATTTTACCAAAAACTACCACTTTACCCTCGAATCTTC
1 AAAATTCCA-TTTTAACCCCGATTTTA-C-AAAATTACCATTTTACCCTAAAATTTTC
*
51813484 TAAAATCCCATTTTTAACCC
1 -AAAATTCCA-TTTTAACCC
51813504 TAAATTTTCC
Statistics
Matches: 357, Mismatches: 53, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.01
57 34 0.10
58 99 0.28
59 209 0.59
60 11 0.03
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (55 bp):
AAAATTCCATTTTAACCCCGATTTTACAAAATTACCATTTTACCCTAAAATTTTC
Found at i:51813262 original size:29 final size:29
Alignment explanation
Indices: 51813008--51813263 Score: 135
Period size: 29 Copynumber: 8.9 Consensus size: 29
51812998 TTTGACCCCA
** * *
51813008 AAACTTTAAAAAATTA-CATTTTAACCCCG
1 AAACTTTTCAAAATTACCATTTTTA-CCCT
*
51813037 AAACTTTTAAAAATTACCA-TTTTACCCT
1 AAACTTTTCAAAATTACCATTTTTACCCT
* *
51813065 AAAATTTTCCAAAATT-CTATTTTTAACCC-
1 AAACTTTT-CAAAATTACCATTTTT-ACCCT
**
51813094 CGA-TTTCATCCAAAATTACCATTTTT-CCCT
1 AAACTTT--T-CAAAATTACCATTTTTACCCT
* *
51813124 AAAATTTTCTAAAATT-CCATTTTAACCCT
1 AAACTTTTC-AAAATTACCATTTTTACCCT
*
51813153 -AATTTTATCCAAAATTACCA-TTTTACCCT
1 AAACTTT-T-CAAAATTACCATTTTTACCCT
* *
51813182 AAAACTTTTCGAAATT-CCA-TTTTAACCT
1 -AAACTTTTCAAAATTACCATTTTTACCCT
** *
51813210 TGA-TTTCACCAAAATTACCA-TTTTACCCTT
1 AAACTTT--TCAAAATTACCATTTTTACCC-T
*
51813240 AAACTTTTCAAAATT-CTATTTTTA
1 AAACTTTTCAAAATTACCATTTTTA
51813264 ACCCCGATTG
Statistics
Matches: 179, Mismatches: 26, Indels: 44
0.72 0.10 0.18
Matches are distributed among these distances:
26 3 0.02
27 1 0.01
28 47 0.26
29 87 0.49
30 23 0.13
31 18 0.10
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
AAACTTTTCAAAATTACCATTTTTACCCT
Found at i:51813342 original size:30 final size:30
Alignment explanation
Indices: 51813308--51813403 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
51813298 TGAACCTTTT
*
51813308 AAAATTCTATTTTTAACCTCGATTTCACTG
1 AAAATTATATTTTTAACCTCGATTTCACTG
** *
51813338 AAAATTATCGTTTTACCCTCGAACTTTC-C--
1 AAAATTATATTTTTAACCTCG-A-TTTCACTG
* *
51813367 AAAATTTTATTTTTAATCTCGATTTCA-TCG
1 AAAATTATATTTTTAACCTCGATTTCACT-G
51813397 AAAATTA
1 AAAATTA
51813404 CCATTTTATT
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 16 0.32
30 23 0.46
31 2 0.04
32 4 0.08
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (30 bp):
AAAATTATATTTTTAACCTCGATTTCACTG
Found at i:51813390 original size:118 final size:116
Alignment explanation
Indices: 51813046--51813503 Score: 397
Period size: 118 Copynumber: 3.9 Consensus size: 116
51813036 GAAACTTTTA
* *
51813046 AAAATTACCATTTTACCCTAAAA-TTTTCCAAAATTCTATTTTTAACCCCGATTTCATCCAAAAT
1 AAAATTACCATTTTACCCTAAAACTTTT-CAAAATTCCA-TTTTAACCTCGATTTCA-CCAAAAT
* * * * * ** ** *
51813110 TACCATTTTTCCCTAAAATTTTCTAAAATTCCA-TTTTAACCCTAATTTTATCC
63 TACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCCGATTGCACCC
* *
51813163 AAAATTACCATTTTACCCTAAAACTTTTCGAAATTCCATTTTAACCTTGATTTCACCAAAATTAC
1 AAAATTACCATTTTACCCTAAAACTTTTCAAAATTCCATTTTAACCTCGATTTCACCAAAATTAC
* *
51813228 CATTTTACCCTTAAACTTTTCAAAATTCTATTTTTAACCCCGATTGCACCC
66 CATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCCGATTGCACCC
* * * *
51813279 AAAATTACCATTTTACCCCTGAACCTTTT-AAAATTCTATTTTTAACCTCGATTTCACTGAAAAT
1 AAAATTACCATTTTA-CCCTAAAACTTTTCAAAATTCCA-TTTTAACCTCGATTTCAC-CAAAAT
* * * * * * * * *
51813343 TATCGTTTTACCCTCGAACTTTCCAAAATTTTATTTTTAATCTCGATTTCATCG
63 TACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCCGATTGCACCC
** ** * * *
51813397 AAAATTACCATTTTATTCTCGAA-TTTTCCAAAATCCCATTTTTAACC-CTAATTTTACCAAAAA
1 AAAATTACCATTTTACCCTAAAACTTTT-CAAAATTCCA-TTTTAACCTC-GATTTCACC-AAAA
* * * * * *
51813460 CTACCACTTTACCCTCGAA-TCTTCTAAAATCCCATTTTTAACCC
62 TTACCATTTTACCCTCAAACT-TTCCAAAATTCTATTTTTAACCC
51813504 TAAATTTTCC
Statistics
Matches: 279, Mismatches: 52, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
115 34 0.12
116 56 0.20
117 64 0.23
118 125 0.45
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.40
Consensus pattern (116 bp):
AAAATTACCATTTTACCCTAAAACTTTTCAAAATTCCATTTTAACCTCGATTTCACCAAAATTAC
CATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCCGATTGCACCC
Found at i:51813439 original size:29 final size:29
Alignment explanation
Indices: 51813355--51813500 Score: 75
Period size: 29 Copynumber: 5.0 Consensus size: 29
51813345 TCGTTTTACC
* ***
51813355 CTCGAACTTTCCAAAATTTTATTTTTAAT
1 CTCGAATTTTCCAAAATACCATTTTTAAT
* *
51813384 CTCG-ATTTCATCGAAAATTACCA-TTTTATT
1 CTCGAATTT--TCCAAAA-TACCATTTTTAAT
*
51813414 CTCGAATTTTCCAAAATCCCATTTTTAA-
1 CTCGAATTTTCCAAAATACCATTTTTAAT
* * * **
51813442 CCCTAATTTTACCAAAAACTACCA-CTTTACC
1 CTCGAATTTT-CC-AAAA-TACCATTTTTAAT
* * *
51813473 CTCGAATCTTCTAAAATCCCATTTTTAA
1 CTCGAATTTTCCAAAATACCATTTTTAA
51813501 CCCTAAATTT
Statistics
Matches: 86, Mismatches: 21, Indels: 20
0.68 0.17 0.16
Matches are distributed among these distances:
28 19 0.22
29 25 0.29
30 25 0.29
31 17 0.20
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (29 bp):
CTCGAATTTTCCAAAATACCATTTTTAAT
Found at i:51815207 original size:17 final size:17
Alignment explanation
Indices: 51815185--51815240 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
51815175 CAAATATGGA
* *
51815185 ATGCAACCTTTGAAGAT
1 ATGCAATCTTAGAAGAT
51815202 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGA-A-GAT
*
51815221 ATGTAATCTTAGAAGAT
1 ATGCAATCTTAGAAGAT
51815238 ATG
1 ATG
51815241 ATTCTGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 17 0.50
18 2 0.06
19 15 0.44
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (17 bp):
ATGCAATCTTAGAAGAT
Found at i:51815260 original size:23 final size:24
Alignment explanation
Indices: 51815212--51815271 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
51815202 ATGCAATCTT
*
51815212 AGATATGA-TATGT-AATCTTAGA
1 AGATATGATTATGTAAATATTAGA
*
51815234 AGATATGATTCTGTAAATATTAG-
1 AGATATGATTATGTAAATATTAGA
* *
51815257 AGATTTGATTTTGTA
1 AGATATGATTATGTA
51815272 TATTGCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 8 0.25
23 17 0.53
24 7 0.22
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (24 bp):
AGATATGATTATGTAAATATTAGA
Found at i:51815412 original size:21 final size:21
Alignment explanation
Indices: 51815388--51815429 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
51815378 TCTTGAGAGA
51815388 ATTCATTCAAACTTTTGTGCT
1 ATTCATTCAAACTTTTGTGCT
51815409 ATTCATTCAAACTTTTGTGCT
1 ATTCATTCAAACTTTTGTGCT
51815430 TTCTCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.48
Consensus pattern (21 bp):
ATTCATTCAAACTTTTGTGCT
Found at i:51815948 original size:22 final size:21
Alignment explanation
Indices: 51815918--51815961 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
51815908 AACTAAGTAT
* *
51815918 AAATAGGTTTGATTAAGGTTAA
1 AAATAGG-TTAATTAAGGCTAA
*
51815940 AAATGGGTTAATTAAGGCTAA
1 AAATAGGTTAATTAAGGCTAA
51815961 A
1 A
51815962 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (21 bp):
AAATAGGTTAATTAAGGCTAA
Found at i:51818028 original size:29 final size:30
Alignment explanation
Indices: 51817995--51818051 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
51817985 GTAGAATGGT
51817995 AATTTTGA-AAGTTTTAGGGTCAAAAATAG
1 AATTTTGAGAAGTTTTAGGGTCAAAAATAG
* *
51818024 AATTTTTAGAAGTTTTGGGGTCAAAAAT
1 AATTTTGAGAAGTTTTAGGGTCAAAAAT
51818052 GTATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.37
Consensus pattern (30 bp):
AATTTTGAGAAGTTTTAGGGTCAAAAATAG
Found at i:51818038 original size:30 final size:28
Alignment explanation
Indices: 51817995--51818059 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
51817985 GTAGAATGGT
*
51817995 AATTTTGAAAGTTTTAGGGTCAAAAATAG
1 AATTTTTAAAGTTTTAGGGTCAAAAAT-G
*
51818024 AATTTTTAGAAGTTTTGGGGTCAAAAATG
1 AATTTTTA-AAGTTTTAGGGTCAAAAATG
*
51818053 TATTTTT
1 AATTTTT
51818060 TTTGAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (28 bp):
AATTTTTAAAGTTTTAGGGTCAAAAATG
Found at i:51818060 original size:30 final size:30
Alignment explanation
Indices: 51818003--51818111 Score: 103
Period size: 31 Copynumber: 3.6 Consensus size: 30
51817993 GTAATTTTGA
* *
51818003 AAGTTTTAGGGTCAAAAATAG-AATTTTTAG
1 AAGTTTTGGGGTCAAAAAT-GTATTTTTTAG
*
51818033 AAGTTTTGGGGTCAAAAATGTATTTTTTTTG
1 AAGTTTTGGGGTCAAAAATGTA-TTTTTTAG
* * ** *
51818064 AAGTTTCGGGGTTAAAAATGTAATTTTGGAT
1 AAGTTTTGGGGTCAAAAATGT-ATTTTTTAG
*
51818095 AAGTTTAGGGGTCAAAA
1 AAGTTTTGGGGTCAAAA
51818112 TATAATTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
29 1 0.02
30 19 0.29
31 44 0.68
32 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.39
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAAATGTATTTTTTAG
Found at i:51818099 original size:31 final size:31
Alignment explanation
Indices: 51817993--51818134 Score: 93
Period size: 31 Copynumber: 4.7 Consensus size: 31
51817983 GGGTAGAATG
*
51817993 GTAATTTT-GA-AAGTTTTA-GGGTCAAAAAT
1 GTAATTTTGGATAAG-TTTAGGGGTTAAAAAT
* * * *
51818022 AG-AATTTT-TAGAAGTTTTGGGGTCAAAAAT
1 -GTAATTTTGGATAAGTTTAGGGGTTAAAAAT
*** *
51818052 GT-ATTTTTTTTGAAGTTTCGGGGTTAAAAAT
1 GTAATTTTGGAT-AAGTTTAGGGGTTAAAAAT
*
51818083 GTAATTTTGGATAAGTTTAGGGG-TCAAAAT
1 GTAATTTTGGATAAGTTTAGGGGTTAAAAAT
*
51818113 ATAATTTTTGGAT-AGTTTAGGG
1 GTAA-TTTTGGATAAGTTTAGGG
51818135 ACTTTCAGGG
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
29 16 0.17
30 34 0.37
31 37 0.40
32 6 0.06
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (31 bp):
GTAATTTTGGATAAGTTTAGGGGTTAAAAAT
Found at i:51818118 original size:30 final size:32
Alignment explanation
Indices: 51818064--51818134 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 32
51818054 ATTTTTTTTG
* *
51818064 AAGTTTCGGGGTTAAAAATGTAA-TTTTGGAT
1 AAGTTTAGGGGTTAAAAATATAATTTTTGGAT
*
51818095 AAGTTTAGGGG-TCAAAATATAATTTTTGGAT
1 AAGTTTAGGGGTTAAAAATATAATTTTTGGAT
51818126 -AGTTTAGGG
1 AAGTTTAGGG
51818135 ACTTTCAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (32 bp):
AAGTTTAGGGGTTAAAAATATAATTTTTGGAT
Found at i:51819391 original size:3 final size:3
Alignment explanation
Indices: 51819312--51819372 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
51819302 TTATTAAAAA
* * * *
51819312 TAT TAT TAT TAT TAT TAGT TAT TAA TGT TA- TACT TAT TAC TAT TAC
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT TAT
51819358 TAT TATT TAT TAT TA
1 TAT TA-T TAT TAT TA
51819373 GTAAAACGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 2 0.04
3 36 0.78
4 8 0.17
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:51820041 original size:17 final size:17
Alignment explanation
Indices: 51820021--51820096 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
51820011 AATTTGATTT
*
51820021 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
* **
51820038 TAAATTTAAATTTTATG
1 TAAATTTAAATTTAAAA
* *
51820055 TAATTTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
51820072 TAACTTT-AATTTAAAAA
1 TAAATTTAAATTT-AAAA
51820089 TAAATTTA
1 TAAATTTA
51820097 CATCCCATTG
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
16 4 0.09
17 41 0.91
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:51821201 original size:31 final size:30
Alignment explanation
Indices: 51821137--51821206 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
51821127 TTTAATCAAA
*
51821137 TTTAGGCTCTATACTTTTCAAACTAATTGAT
1 TTTAGTCTCTATACTTTTCAAAC-AATTGAT
*
51821168 TTTAGTCTCTATACTTTTCAAA-ATTTGAAAT
1 TTTAGTCTCTATACTTTTCAAACAATTG--AT
51821199 TTTAGTCT
1 TTTAGTCT
51821207 AGACTCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 4 0.11
31 31 0.89
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTAGTCTCTATACTTTTCAAACAATTGAT
Found at i:51822263 original size:13 final size:13
Alignment explanation
Indices: 51822231--51822264 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51822221 TTGAATTTTT
*
51822231 TTCAAATTTCGAG
1 TTCAAATTTCGAA
*
51822244 TTTAAATTTCGAA
1 TTCAAATTTCGAA
51822257 TTCAAATT
1 TTCAAATT
51822265 ATTCAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (13 bp):
TTCAAATTTCGAA
Found at i:51826351 original size:24 final size:24
Alignment explanation
Indices: 51826306--51826352 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51826296 GATTCAGACA
*
51826306 TATTCTCGTATATAAAATCAGATG
1 TATTCTCATATATAAAATCAGATG
*
51826330 TATTCTCATA-ATCAAATACAGAT
1 TATTCTCATATATAAAAT-CAGAT
51826353 ACGTATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (24 bp):
TATTCTCATATATAAAATCAGATG
Found at i:51827999 original size:73 final size:69
Alignment explanation
Indices: 51827916--51828058 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 69
51827906 CTGCTGCATC
51827916 GGGGGTAACAATCACAATAATAGACAGCGGGGGAGTGGGACAGCAAGCAAGCAAGCAAAAGAGAT
1 GGGGGTAACAATCACAATAATAGACAGCGGGGGAGTGGGACAGCAAG-AAGC---CAAAAGAGAT
51827981 AATTTAGG
62 AATTTAGG
*
51827989 GGGGGTAACAATCACAATAATAGACAGCGGGGGAGTGGGACAGCAAGTAGCCAAAAGAGATAATT
1 GGGGGTAACAATCACAATAATAGACAGCGGGGGAGTGGGACAGCAAGAAGCCAAAAGAGATAATT
51828054 TAGG
66 TAGG
51828058 G
1 G
51828059 ATAACTTCCT
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
69 19 0.28
72 3 0.04
73 47 0.68
ACGTcount: A:0.40, C:0.13, G:0.34, T:0.13
Consensus pattern (69 bp):
GGGGGTAACAATCACAATAATAGACAGCGGGGGAGTGGGACAGCAAGAAGCCAAAAGAGATAATT
TAGG
Found at i:51829876 original size:18 final size:18
Alignment explanation
Indices: 51829854--51829904 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
51829844 ATTAAAACGT
51829854 TATTTATTTTTAACTCAAA
1 TATTTATTTTTAA-TCAAA
* *
51829873 -ATTTAAAATTTTAATTAAA
1 TATTT--ATTTTTAATCAAA
51829892 TATTTATTTTTAA
1 TATTTATTTTTAA
51829905 GTTCAAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
20 11 0.42
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTATTTTTAATCAAA
Found at i:51837757 original size:36 final size:36
Alignment explanation
Indices: 51837717--51837791 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
51837707 TATATTCAAG
*
51837717 TTTGTTCATATGTTGTAGTTAGGTTGGGTTCAAATC
1 TTTGTTCATACGTTGTAGTTAGGTTGGGTTCAAATC
51837753 TTTGTTCATACGTTGTAGTTAGGTTGGGTTCAAATC
1 TTTGTTCATACGTTGTAGTTAGGTTGGGTTCAAATC
51837789 TTT
1 TTT
51837792 ATTGGATCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.48
Consensus pattern (36 bp):
TTTGTTCATACGTTGTAGTTAGGTTGGGTTCAAATC
Found at i:51845373 original size:6 final size:6
Alignment explanation
Indices: 51845362--51845387 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51845352 CCCGCCACGT
51845362 CAGCAC CAGCAC CAGCAC CAGCAC CA
1 CAGCAC CAGCAC CAGCAC CAGCAC CA
51845388 CCCTTCAACT
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:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
CAGCAC
Found at i:51845801 original size:13 final size:13
Alignment explanation
Indices: 51845783--51845810 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51845773 TAAAATTAAT
51845783 ATTAAATAAATAA
1 ATTAAATAAATAA
51845796 ATTAAATAAATAA
1 ATTAAATAAATAA
51845809 AT
1 AT
51845811 ATTTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAATAAATAA
Found at i:51845807 original size:17 final size:19
Alignment explanation
Indices: 51845775--51845811 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
51845765 TTTTATTTTA
51845775 AAATTAATATTAAATAAAT
1 AAATTAATATTAAATAAAT
51845794 AAATTAA-A-TAAATAAAT
1 AAATTAATATTAAATAAAT
51845811 A
1 A
51845812 TTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTAATATTAAATAAAT
Found at i:51845825 original size:11 final size:11
Alignment explanation
Indices: 51845804--51845831 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
51845794 AAATTAAATA
51845804 AATAAATATTT
1 AATAAATATTT
51845815 AATAAATATTT
1 AATAAATATTT
51845826 AATAAA
1 AATAAA
51845832 AAGAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATAAATATTT
Found at i:51846028 original size:14 final size:14
Alignment explanation
Indices: 51846009--51846035 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51845999 CCCTTTTTAA
51846009 AAAAAATATATAAC
1 AAAAAATATATAAC
51846023 AAAAAATATATAA
1 AAAAAATATATAA
51846036 AACAATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAATATATAAC
Found at i:51846028 original size:16 final size:16
Alignment explanation
Indices: 51846007--51846040 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51845997 GTCCCTTTTT
*
51846007 AAAAAAAATATATAAC
1 AAAAAAAATATAAAAC
*
51846023 AAAAAATATATAAAAC
1 AAAAAAAATATAAAAC
51846039 AA
1 AA
51846041 TTTTAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAAATATAAAAC
Found at i:51847046 original size:91 final size:90
Alignment explanation
Indices: 51846930--51847102 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 90
51846920 AATTGGTCCT
* *
51846930 TTGACCCCAGAATTGTCCAAAAATCATATTTTGACCCCCAAACTTTTCAAAAATTATATTTTGAC
1 TTGACCCCAGAATTGTCCAAAAATCATATTTTGACCCCCAAACTTTCCAAAAATTATATATTGAC
* * *
51846995 CCTTGAACTTCCTAGAAATTATATA
66 CCCTAAACTTCCGAGAAATTATATA
* ***
51847020 TTGACCCCTGAACTT-TCCAAAAAATCATATTTTGACCTTTAAACTTTCCAAAAATTATATATTG
1 TTGACCCCAGAA-TTGTCC-AAAAATCATATTTTGACCCCCAAACTTTCCAAAAATTATATATTG
51847084 ACCCCTAAACTTCCGAGAA
64 ACCCCTAAACTTCCGAGAA
51847103 CATAGTGCCC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
90 14 0.19
91 58 0.81
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (90 bp):
TTGACCCCAGAATTGTCCAAAAATCATATTTTGACCCCCAAACTTTCCAAAAATTATATATTGAC
CCCTAAACTTCCGAGAAATTATATA
Found at i:51847065 original size:61 final size:60
Alignment explanation
Indices: 51846945--51847095 Score: 196
Period size: 61 Copynumber: 2.5 Consensus size: 60
51846935 CCCAGAATTG
* * * * * *
51846945 TCCAAAAATCATATTTTGACCCCCAAACTTTTCAAAAATTATATTTTGACCCTTGAAC-T
1 TCCAAAAATTATATATTGACCCCTAAACTTTCCAAAAATCATATTTTGACCCTTAAACTT
* * *
51847004 TCCTAGAAATTATATATTGACCCCTGAACTTTCCAAAAAATCATATTTTGACCTTTAAACTT
1 TCC-AAAAATTATATATTGACCCCTAAACTTTCC-AAAAATCATATTTTGACCCTTAAACTT
51847066 TCCAAAAATTATATATTGACCCCTAAACTT
1 TCCAAAAATTATATATTGACCCCTAAACTT
51847096 CCGAGAACAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 3 0.04
60 24 0.31
61 47 0.60
62 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (60 bp):
TCCAAAAATTATATATTGACCCCTAAACTTTCCAAAAATCATATTTTGACCCTTAAACTT
Found at i:51847093 original size:30 final size:30
Alignment explanation
Indices: 51846929--51847095 Score: 169
Period size: 30 Copynumber: 5.5 Consensus size: 30
51846919 AAATTGGTCC
*
51846929 TTTGACCCC-AGAA-TTGTCCAAAAATCATAT
1 TTTGACCCCTA-AACTT-TCCAAAAATTATAT
* *
51846959 TTTGACCCCCAAACTTTTCAAAAATTATAT
1 TTTGACCCCTAAACTTTCCAAAAATTATAT
* * *
51846989 TTTGACCCTTGAAC-TTCCTAGAAATTATAT
1 TTTGACCCCTAAACTTTCC-AAAAATTATAT
* * *
51847019 ATTGACCCCTGAACTTTCCAAAAAATCATAT
1 TTTGACCCCTAAACTTTCC-AAAAATTATAT
**
51847050 TTTGACCTTTAAACTTTCCAAAAATTATAT
1 TTTGACCCCTAAACTTTCCAAAAATTATAT
*
51847080 ATTGACCCCTAAACTT
1 TTTGACCCCTAAACTT
51847096 CCGAGAACAT
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
29 3 0.03
30 79 0.70
31 31 0.27
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCCAAAAATTATAT
Found at i:51850754 original size:13 final size:13
Alignment explanation
Indices: 51850718--51850756 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
51850708 TTTAAAACCC
51850718 AAAAAAAGAGAAA-
1 AAAAAAA-AGAAAG
51850731 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
51850744 AAAAGAAAGAAAG
1 AAAAAAAAGAAAG
51850757 TCAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:51851642 original size:17 final size:15
Alignment explanation
Indices: 51851585--51851645 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 15
51851575 GGATTCGATG
51851585 AAGAAAAATAAATAAAA
1 AAGAAAAA-AAA-AAAA
51851602 AAGAGAAGAAAAAAATAA
1 AAGA-AA-AAAAAAA-AA
51851620 ATAGAAAAAGAAAAAAA
1 A-AGAAAAA-AAAAAAA
51851637 GAAGAAAAA
1 -AAGAAAAA
51851646 CAAGAACCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
17 17 0.45
18 16 0.42
19 5 0.13
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAAAAAAAAAAA
Found at i:51851645 original size:12 final size:12
Alignment explanation
Indices: 51851627--51851669 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
51851617 TAAATAGAAA
51851627 AAGAAAAA-AAG
1 AAGAAAAACAAG
51851638 AAGAAAAACAAG
1 AAGAAAAACAAG
*
51851650 AACCAAAAACAA-
1 AA-GAAAAACAAG
51851662 AAGAAAAA
1 AAGAAAAA
51851670 GAAAAGGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 13 0.46
12 7 0.25
13 8 0.29
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (12 bp):
AAGAAAAACAAG
Found at i:51852692 original size:50 final size:50
Alignment explanation
Indices: 51852607--51852915 Score: 234
Period size: 50 Copynumber: 6.2 Consensus size: 50
51852597 AGGCCACGAT
* * * * *
51852607 GGCGAATCTGGTACCTTAAGAAGATGTGATGGGAAAGATTGAGCCCGCAAC
1 GGCGAACCCGGTACC-TAAGAAGATGTGAAGGGAAAGGTTGAGACCGCAAC
* * * ** *
51852658 GGTGAACCCGGTACCTAAGAAGACGTGATGGGAAAGGTTGAGGTCACAAC
1 GGCGAACCCGGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGACCGCAAC
* * * * * *
51852708 GACGAATCCGGTAGC-ATGAAGATGTAAAGGGAAAGGTTGAGACCGTAAC
1 GGCGAACCCGGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGACCGCAAC
* * * * *
51852757 GGCAAACTCGGTACCTAAGAAGATGTGAAGGGAAAGGTTAAGGCTGCAAC
1 GGCGAACCCGGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGACCGCAAC
* * *
51852807 GGCGAATCCAGTACCATGAAG-AGATGAT-AAGGG--AGGATTGACACCGCAAC
1 GGCGAACCCGGTACC-T-AAGAAGATG-TGAAGGGAAAGG-TTGAGACCGCAAC
* * * * * *
51852857 GGCGAATCCGATACCTTAAAAAGATGTAAAAGGAAAGGTTGAGGA-CGCAAT
1 GGCGAACCCGGTACC-TAAGAAGATGTGAAGGGAAAGGTTGA-GACCGCAAC
51852908 GGCGAACC
1 GGCGAACC
51852916 TAACACCTTA
Statistics
Matches: 201, Mismatches: 47, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
49 42 0.21
50 112 0.56
51 39 0.19
52 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.16
Consensus pattern (50 bp):
GGCGAACCCGGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGACCGCAAC
Found at i:51852769 original size:99 final size:99
Alignment explanation
Indices: 51852626--51852896 Score: 260
Period size: 99 Copynumber: 2.7 Consensus size: 99
51852616 GGTACCTTAA
* * * ** *
51852626 GAAGATGTGATGGGAAAGATTGAGCCCGCAACGGTGAACCCGGTACCTAAGAAGACGTGATGGGA
1 GAAGATGTAAAGGGAAAGATTGAGACCGCAACGGCAAACCCGGTACCTAAGAAGACGTGAAGGGA
* * *
51852691 AAGGTTGAGG-TCACAACGACGAATCCGGTAGCAT
66 AAGGTTAAGGCT-ACAACGACGAATCCAGTACCAT
* * * *
51852725 GAAGATGTAAAGGGAAAGGTTGAGACCGTAACGGCAAACTCGGTACCTAAGAAGATGTGAAGGGA
1 GAAGATGTAAAGGGAAAGATTGAGACCGCAACGGCAAACCCGGTACCTAAGAAGACGTGAAGGGA
* *
51852790 AAGGTTAAGGCTGCAACGGCGAATCCAGTACCAT
66 AAGGTTAAGGCTACAACGACGAATCCAGTACCAT
* * * * * * * *
51852824 GAAGA-GATGATAAGGG-AGGATTGACACCGCAACGGCGAATCCGATACCTTAAAAAGATGTAAA
1 GAAGATG-T-A-AAGGGAAAGATTGAGACCGCAACGGCAAACCCGGTACC-TAAGAAGACGTGAA
*
51852887 AGGAAAGGTT
62 GGGAAAGGTT
51852897 GAGGACGCAA
Statistics
Matches: 141, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
98 1 0.01
99 88 0.62
100 26 0.18
101 26 0.18
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.16
Consensus pattern (99 bp):
GAAGATGTAAAGGGAAAGATTGAGACCGCAACGGCAAACCCGGTACCTAAGAAGACGTGAAGGGA
AAGGTTAAGGCTACAACGACGAATCCAGTACCAT
Found at i:51853231 original size:39 final size:38
Alignment explanation
Indices: 51853188--51853331 Score: 123
Period size: 39 Copynumber: 3.7 Consensus size: 38
51853178 AAAGATTCCG
*
51853188 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATTAGCCA
1 ATCTCTTACCCCGAGCTTAGGGCAGATCACCATTA-CCA
* * * ** *
51853227 ATCTCTTATCCCAAGCATAGGGCAGATGGTTGCCATT--CG
1 ATCTCTTACCCCGAGCTTAGGGCAGA---TCACCATTACCA
* * *
51853266 ATCTTTTACCCTGAG-TTTGGGTCAGATCACCATTAACCA
1 ATCTCTTACCCCGAGCTTAGGG-CAGATCACCATT-ACCA
51853305 ATCTCTTACCCCGAGCTTAGGGCAGAT
1 ATCTCTTACCCCGAGCTTAGGGCAGAT
51853332 TGCAGTCATT
Statistics
Matches: 78, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
36 6 0.08
38 4 0.05
39 57 0.73
40 5 0.06
42 6 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCTTAGGGCAGATCACCATTACCA
Found at i:51853347 original size:78 final size:78
Alignment explanation
Indices: 51853186--51853373 Score: 223
Period size: 78 Copynumber: 2.4 Consensus size: 78
51853176 TTAAAGATTC
* * *
51853186 CGATCTCTTACCCCGAGCTTGGGGCAGATCACCATTAGCCAATCTCTTATCCCAAGCATAGGGCA
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATTAACCAATCTCTTACCCCAAGCATAGGGCA
**
51853251 GATGGTTGCCATT
66 GATGGCAGCCATT
* * * * *
51853264 CGATCTTTTACCCTGAGTTTGGGTCAGATCACCATTAACCAATCTCTTACCCCGAGCTTAGGGCA
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATTAACCAATCTCTTACCCCAAGCATAGGGCA
* *
51853329 GATTGCAGTCATT
66 GATGGCAGCCATT
* * * * *
51853342 TGATCTTTTAACTCGACCATGGGGCAGATCAC
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCAC
51853374 AGCTATCCAA
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 90 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (78 bp):
CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATTAACCAATCTCTTACCCCAAGCATAGGGCA
GATGGCAGCCATT
Found at i:51853811 original size:204 final size:208
Alignment explanation
Indices: 51853435--51854000 Score: 836
Period size: 204 Copynumber: 2.7 Consensus size: 208
51853425 ATAAAGCAGA
* * *
51853435 CATCTTTCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCGATCATCATCCTGATGAGA
1 CATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGA-GAGA
**
51853500 TACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGATGCTTCGAACCCCAGCTT
65 TACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTT
* * * *
51853565 CTTGATGAGGTATTGAGAAGCAGGACGAAGCAATAAAATGGTCGTCTTCTTGATGAGATACAGAG
130 CCTGATGAGGTACTGAGAAGCAGGACGAAGCAATAAAATGGTCGTCTTCCTAATGAGATACAGAG
* *
51853630 AAGTGGACTAAATC
195 AAGTGAACCAAATC
* *
51853644 CATCTTCCCGATGAGATACAGAGAAGCAGATTGAAACAAGTGAGGCGGTCATCTTCC-G-G-GAT
1 CATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGAGAGAT
* *
51853706 ACAGAGAAGTGTACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTC-AAACCCAGCTTC
66 ACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTC
*
51853770 CTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTCTTCCTAATGAGATACAGAGA
131 CTGATGAGGTACTGAGAAGCAGGACGAAGCAATAAAATGGTCGTCTTCCTAATGAGATACAGAGA
51853835 AGTGAACCAAATC
196 AGTGAACCAAATC
* * *
51853848 CATCTTCCTGATGAGATACAAAGAAGTGGATTGAAAC-AGTGATGCAGTCGGTTATCTTCCTGAT
1 CATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGA-G--G-CGGTCATCTTCCTGA-
* * *
51853912 GAGATACAAAGAAGCATACCAAATCAATGAAACAAAGCTCAATGTGAACGAAACTTCGAACCCCA
61 GAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCA
*
51853977 GCTTCCTGATGAGATACTGAGAAG
126 GCTTCCTGATGAGGTACTGAGAAG
51854001 TGGACCAAAT
Statistics
Matches: 321, Mismatches: 27, Indels: 15
0.88 0.07 0.04
Matches are distributed among these distances:
203 5 0.02
204 116 0.36
205 52 0.16
206 2 0.01
207 11 0.03
208 2 0.01
209 52 0.16
210 1 0.00
211 51 0.16
212 29 0.09
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (208 bp):
CATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGAGAGAT
ACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTC
CTGATGAGGTACTGAGAAGCAGGACGAAGCAATAAAATGGTCGTCTTCCTAATGAGATACAGAGA
AGTGAACCAAATC
Found at i:51854111 original size:161 final size:163
Alignment explanation
Indices: 51853814--51854162 Score: 436
Period size: 161 Copynumber: 2.1 Consensus size: 163
51853804 AAATGGTCGT
* * *
51853814 CTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAAAGAAGTGGAT
1 CTTCCTGATGAGATACTGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAAAGAAGCGGAT
* ** * * * *
51853879 TGAAACAGTGATGCAGTCGGTTATCTTCCTGATGAGATACAAAGAAGCATACCAAATCAATGAAA
66 TAAAACAACGATGCAGTC-GTCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCAAGGAAA
*
51853944 CAAAGCTCAATGTGAACGAAA-CTTCGAACCCCAG
130 CAAAGCTCAAAGTGAAC-AAATCTTCGAACCCCAG
* * * * *
51853978 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAAAGAAGCGGAT
* ** * *
51854043 TAAAACAAACGA-GGA-T-GTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAGGGAAA
66 TAAAAC-AACGATGCAGTCGTCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCAAGGAAA
* *
51854105 CAAAGCTCAAAGTGAGCAAATCTTCGAACCCTAG
130 CAAAGCTCAAAGTGAACAAATCTTCGAACCCCAG
51854139 CTTCCTGATGAGATACTGAGAAGT
1 CTTCCTGATGAGATACTGAGAAGT
51854163 AGGTCGAAGA
Statistics
Matches: 160, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
160 3 0.02
161 89 0.56
163 1 0.01
164 64 0.40
165 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (163 bp):
CTTCCTGATGAGATACTGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAAAGAAGCGGAT
TAAAACAACGATGCAGTCGTCATCTTCCTAATGAGATACAAAGAAGCAGACCAAATCAAGGAAAC
AAAGCTCAAAGTGAACAAATCTTCGAACCCCAG
Found at i:51854203 original size:373 final size:365
Alignment explanation
Indices: 51853610--51854370 Score: 1035
Period size: 373 Copynumber: 2.1 Consensus size: 365
51853600 AAATGGTCGT
* * *
51853610 CTTCTTGATGAGATACAGAGAAGTGGACTAAATCCATCTTCCCGATGAGATACAGAGAAGCAGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATCCATCTTCCCGATGAGATACAGAGAAGCAGAT
* ** * * *
51853675 TGAAACAAGTGAGGCGGTCATCTTCCGGGATACAGAGAAGTGTACCAAATCAATGAAACAAAGCT
66 TAAAACAAACGAGGAGGTCATCTTCCGAGATACAGAGAAGTGTACCAAATCAAGGAAACAAAGCT
* * *
51853740 CAATGTGAGCGAAACTTCAAACCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAA
131 CAAAGTGAGCGAAACTTCAAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAA
** *
51853805 AATGGTCGTCTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACA-A
196 AATGGTCACCTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGA
* * * * * *
51853869 AGAAGTGGATT-GAAACAGTGATGCAGTCGGTTATCTTCCTGATGAGATACAAAGAAGCATACCA
261 A-AAGTGGATTAAAAACA--AACG-AGGCGATCATCTTCCTGATGAGATACAAAGAAGCATACCA
51853933 AATCAATGAAACAAAGCTCAATGTGAACGAAACTTCGAACCCCAG
322 AATCAATGAAACAAAGCTCAATGTGAACGAAACTTCGAA-CCCAG
* * * * *
51853978 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATCCATCTTCCCGATGAGATACAGAGAAGCAGAT
* * *
51854043 TAAAACAAACGAGGATGTCATCTTCCTAATGAGATACTGAGAAGTAG-ACCAAATCAGGGAAACA
66 TAAAACAAACGAGGAGGTCATCTTCC----GAGATACAGAGAAGT-GTACCAAATCAAGGAAACA
* *
51854107 AAGCTCAAAGTGAGC-AAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAA
126 AAGCTCAAAGTGAGCGAAA-CTTCAAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* * * *
51854171 GAAATAAAGTGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCTATCTTCCTAATGAG
189 GAAATAAAATGGTCACCTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTAATGAG
* *
51854236 ATACAGAAAAGTGGATTAAAAACAAACGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTATA
254 ATACAGAAAAGTGGATTAAAAACAAACGAGGCGATCATCTTCCTGATGAGATACAAAGAAGCATA
* *
51854301 CCAACTCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCAG
319 CCAAATCAATGAAACAAAGCTCAATGTGAACGAAACTTCGAACCCAG
51854348 CTTCCTGATGAGATACTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
51854371 CAGGTCGAAG
Statistics
Matches: 345, Mismatches: 39, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
368 78 0.23
370 28 0.08
371 75 0.22
372 53 0.15
373 104 0.30
374 7 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (365 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATCCATCTTCCCGATGAGATACAGAGAAGCAGAT
TAAAACAAACGAGGAGGTCATCTTCCGAGATACAGAGAAGTGTACCAAATCAAGGAAACAAAGCT
CAAAGTGAGCGAAACTTCAAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAA
AATGGTCACCTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGA
AAAGTGGATTAAAAACAAACGAGGCGATCATCTTCCTGATGAGATACAAAGAAGCATACCAAATC
AATGAAACAAAGCTCAATGTGAACGAAACTTCGAACCCAG
Found at i:51854254 original size:209 final size:207
Alignment explanation
Indices: 51853978--51854545 Score: 809
Period size: 209 Copynumber: 2.7 Consensus size: 207
51853968 CGAACCCCAG
* *
51853978 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGCGGAT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAAAAGCGGAT
*
51854043 TAAAACAAACGAGGATGTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAGGGAAACAA
66 TAAAACAAACGAGGA-GTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAAGGAAACAA
*
51854108 AGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGA
130 AGCTCAAAGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGA
* *
51854173 AATAAAGTGGTTAC
194 AATAAAATGGTCAC
* * * * *
51854187 CTTCCTGATGAGATACAGAGAAGTGAACCAAA-TCTATCTTCCTAATGAGATACAGAAAAGTGGA
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAGAAAAGCGGA
* * * * * *
51854251 TTAAAAACAAACGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAATGAAAC
65 TT-AAAACAAACGAGGAG-TCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAAGGAAAC
*
51854316 AAAGCTCAATGTGAGCGAAA-CTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
128 AAAGCTCAAAGTGAGC-AAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* *
51854380 GTAATAAAATGGTCAG
192 GAAATAAAATGGTCAC
* * * *
51854396 CTTCCTAATGAGATGCTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACA-AAGAAACAGA
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAA-AAGCGGA
* *
51854460 TTAAAACAAACGAGGCAGTCATCTTCCTTATTAGATACTGAGAAGTAGACCAAATCAAGGAAACA
65 TTAAAACAAACGAGG-AGTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAAGGAAACA
51854525 AAGCTCAAAGTGAGCAAATCT
129 AAGCTCAAAGTGAGCAAATCT
51854546 AAAACAAACA
Statistics
Matches: 314, Mismatches: 37, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
207 3 0.01
208 74 0.24
209 154 0.49
210 80 0.25
211 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (207 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAAAAGCGGAT
TAAAACAAACGAGGAGTCATCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAAGGAAACAAA
GCTCAAAGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAA
TAAAATGGTCAC
Found at i:51854580 original size:84 final size:84
Alignment explanation
Indices: 51854461--51854629 Score: 284
Period size: 84 Copynumber: 2.0 Consensus size: 84
51854451 AGAAACAGAT
* * *
51854461 TAAAACAAACGAGGCAGTCATCTTCCTTATTAGATACTGAGAAGTAGACCAAATCAAGGAAACAA
1 TAAAACAAACAAGGCAGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAGGAAACAA
51854526 AGCTCAAAGTGAGCAAATC
66 AGCTCAAAGTGAGCAAATC
* * *
51854545 TAAAACAAACAAGGCGGTCATCTTCCTGATGAGATATTGAGAAGTAGACCAAATCAATGAAACAA
1 TAAAACAAACAAGGCAGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAGGAAACAA
51854610 AGCTCAAAGTGAGCAAATC
66 AGCTCAAAGTGAGCAAATC
51854629 T
1 T
51854630 TCGAACCCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (84 bp):
TAAAACAAACAAGGCAGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAGGAAACAA
AGCTCAAAGTGAGCAAATC
Found at i:51855804 original size:11 final size:11
Alignment explanation
Indices: 51855804--51855844 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
51855794 TAATATTAAA
*
51855804 TAAATATATAT
1 TAAATAAATAT
51855815 TAAATAAATAT
1 TAAATAAATAT
*
51855826 TTAATAAATAT
1 TAAATAAATAT
51855837 TAAATAAA
1 TAAATAAA
51855845 AAAGAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:51855808 original size:15 final size:16
Alignment explanation
Indices: 51855790--51855823 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
51855780 ATTTATTTCG
51855790 AAATTA-ATATTAAAT
1 AAATTATATATTAAAT
51855805 AAA-TATATATTAAAT
1 AAATTATATATTAAAT
51855820 AAAT
1 AAAT
51855824 ATTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATATATTAAAT
Found at i:51855824 original size:15 final size:15
Alignment explanation
Indices: 51855796--51855835 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
51855786 TTCGAAATTA
51855796 ATATTAAATAAATAT
1 ATATTAAATAAATAT
51855811 ATATTAAATAAATAT
1 ATATTAAATAAATAT
* *
51855826 TTAATAAATA
1 ATATTAAATA
51855836 TTAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATTAAATAAATAT
Found at i:51855844 original size:26 final size:26
Alignment explanation
Indices: 51855790--51855844 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
51855780 ATTTATTTCG
* *
51855790 AAATTAATATTAAATAAATATATATT
1 AAATAAATATTAAATAAATATATAAT
*
51855816 AAATAAATATTTAATAAATAT-TAAAT
1 AAATAAATATTAAATAAATATAT-AAT
51855842 AAA
1 AAA
51855845 AAAGAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATAAATATTAAATAAATATATAAT
Found at i:51856908 original size:30 final size:30
Alignment explanation
Indices: 51856852--51857234 Score: 275
Period size: 29 Copynumber: 13.1 Consensus size: 30
51856842 TGAATTGTCT
* *
51856852 AAAAATCATATTTTGACCCT-AAACTTTCT
1 AAAAATTATATTTTGACCCTCAAACTTTCC
*
51856881 AAAAATTATATTTTAACCCTCAAACTTTCC
1 AAAAATTATATTTTGACCCTCAAACTTTCC
* * ** * *
51856911 AAAAATTATATATTGATCCTTGAGCTTTCT
1 AAAAATTATATTTTGACCCTCAAACTTTCC
51856941 AAAAATTATATTTTGACCCTTC-AACTTTCC
1 AAAAATTATATTTTGACCC-TCAAACTTTCC
51856971 AAAAATTATATTTTGACCC-CTAAAC-TTCC
1 AAAAATTATATTTTGACCCTC-AAACTTTCC
* * *
51857000 AAAAATCACATTTTGA-CCTCTAAC-TTCTC
1 AAAAATTATATTTTGACCCTCAAACTTTC-C
* *
51857029 AAAAATTACATTTTTACCC-CTAAAC-TTCC
1 AAAAATTATATTTTGACCCTC-AAACTTTCC
* * * * * *
51857058 AAAAATCACATTTTAACTC-CGAACTTTCT
1 AAAAATTATATTTTGACCCTCAAACTTTCC
* * *
51857087 AAAAATTACCATTTT-ACCCTCGAAC-ATCC
1 AAAAATTA-TATTTTGACCCTCAAACTTTCC
* *
51857116 -AAAATTACCATTTT-ACCC-CAAGA-TGTCC
1 AAAAATTA-TATTTTGACCCTCAA-ACTTTCC
*
51857144 AAAAATTACATTTTGACCCT-AAACTTTCC
1 AAAAATTATATTTTGACCCTCAAACTTTCC
*
51857173 -AAAATTACTATTTT-ACCCTCAAA-TGTCC
1 AAAAATTA-TATTTTGACCCTCAAACTTTCC
* * *
51857201 AAAAATTGTATTTTTGA-TCGCAAACTTTCC
1 AAAAATTATA-TTTTGACCCTCAAACTTTCC
51857231 AAAA
1 AAAA
51857235 TTACCATTTT
Statistics
Matches: 292, Mismatches: 39, Indels: 45
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.01
28 59 0.20
29 126 0.43
30 104 0.36
31 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAAATTATATTTTGACCCTCAAACTTTCC
Found at i:51857072 original size:28 final size:29
Alignment explanation
Indices: 51856852--51857278 Score: 244
Period size: 29 Copynumber: 14.7 Consensus size: 29
51856842 TGAATTGTCT
* * *
51856852 AAAAATCATATTTTGA-CCCTAAACTTTCT
1 AAAAATTACATTTTGACCCCTAAAC-TTCC
* *
51856881 AAAAATTATATTTT-AACCCTCAAACTTTCC
1 AAAAATTACATTTTGACCCCT-AAAC-TTCC
* * * * * * *
51856911 AAAAATTATATATTGATCCTTGAGCTTTCT
1 AAAAATTACATTTTGACCCCTAAAC-TTCC
* * *
51856941 AAAAATTATATTTTGACCCTTCAACTTTCC
1 AAAAATTACATTTTGACCCCTAAAC-TTCC
*
51856971 AAAAATTATATTTTGACCCCTAAACTTCC
1 AAAAATTACATTTTGACCCCTAAACTTCC
* *
51857000 AAAAATCACATTTTGACCTCT-AACTTCTC
1 AAAAATTACATTTTGACCCCTAAACTTC-C
*
51857029 AAAAATTACATTTTTACCCCTAAACTTCC
1 AAAAATTACATTTTGACCCCTAAACTTCC
* * * * *
51857058 AAAAATCACATTTTAACTCC-GAACTTTCT
1 AAAAATTACATTTTGACCCCTAAAC-TTCC
* *
51857087 AAAAATTACCATTTT-A-CCCTCGAACATCC
1 AAAAATTA-CATTTTGACCCCT-AAACTTCC
51857116 -AAAATTACCATTTT-ACCCC-AAGA-TGTCC
1 AAAAATTA-CATTTTGACCCCTAA-ACT-TCC
51857144 AAAAATTACATTTTGA-CCCTAAACTTTCC
1 AAAAATTACATTTTGACCCCTAAAC-TTCC
51857173 -AAAATTACTATTTT-A-CCCTCAAA-TGTCC
1 AAAAATTAC-ATTTTGACCCCT-AAACT-TCC
** * *
51857201 AAAAATTGTATTTTTGATCGC-AAACTTTCC
1 AAAAATTACA-TTTTGACCCCTAAAC-TTCC
* * *
51857231 -AAAATTACCATTTT-ACCCTTGAACATCC
1 AAAAATTA-CATTTTGACCCCTAAACTTCC
51857259 AAAAATTACCATTTT-ACCCC
1 AAAAATTA-CATTTTGACCCC
51857279 CGAATATTTG
Statistics
Matches: 326, Mismatches: 43, Indels: 58
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.01
28 63 0.19
29 157 0.48
30 97 0.30
31 7 0.02
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCCTAAACTTCC
Found at i:51857325 original size:87 final size:86
Alignment explanation
Indices: 51857228--51857396 Score: 205
Period size: 87 Copynumber: 2.0 Consensus size: 86
51857218 TCGCAAACTT
* * * **
51857228 TCCAAAATTACCATTTTACCCTTGAA-CATCCAAAAATTACCATTTTACCCCCGAATATTTGAAA
1 TCCAAAATTACCATTTTACCCTCGAAGCATCC-AAAATTACCATTTTACCCCAGAACATTCAAAA
*
51857292 ATTACCATTTTTCCCTCGAGTG
65 ATTACCATTTTGCCCTCGAGTG
* * ** * *
51857314 TCCAAATATTACTATTTTGCCCTCGAAGTGTCCAAAATTACCTTTTTACCCCAGAACGTTCAAAA
1 TCCAAA-ATTACCATTTTACCCTCGAAGCATCCAAAATTACCATTTTACCCCAGAACATTCAAAA
51857379 ATTACCATTTTGCCCTCG
65 ATTACCATTTTGCCCTCG
51857397 GGCATACAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
86 6 0.09
87 60 0.87
88 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (86 bp):
TCCAAAATTACCATTTTACCCTCGAAGCATCCAAAATTACCATTTTACCCCAGAACATTCAAAAA
TTACCATTTTGCCCTCGAGTG
Found at i:51857346 original size:30 final size:29
Alignment explanation
Indices: 51857088--51857396 Score: 156
Period size: 29 Copynumber: 10.7 Consensus size: 29
51857078 GAACTTTCTA
* **
51857088 AAAATTACCATTTTACCCTCGAA-CATCC
1 AAAATTACCATTTTGCCCTCGAAGTGTCC
*
51857116 AAAATTACCATTTTACCC-C-AAGATGTCC
1 AAAATTACCATTTTGCCCTCGAAG-TGTCC
* * *
51857144 AAAAATTA-CATTTTGACCCT-AAACTTTCC
1 -AAAATTACCATTTTG-CCCTCGAAGTGTCC
* * *
51857173 AAAATTACTATTTTACCCTC-AAATGTCC
1 AAAATTACCATTTTGCCCTCGAAGTGTCC
** ** * * * *
51857201 AAAAATT-GTATTTTTGATCGCAAACTTTCC
1 -AAAATTACCA-TTTTGCCCTCGAAGTGTCC
* * **
51857231 AAAATTACCATTTTACCCTTGAA-CATCC
1 AAAATTACCATTTTGCCCTCGAAGTGTCC
* * * **
51857259 AAAAATTACCATTTTACCCCCGAA-TATTTG
1 -AAAATTACCATTTTGCCCTCGAAGT-GTCC
*
51857289 AAAATTACCATTTTTCCCTCG-AGTGTCC
1 AAAATTACCATTTTGCCCTCGAAGTGTCC
*
51857317 AAATATTACTATTTTGCCCTCGAAGTGTCC
1 AAA-ATTACCATTTTGCCCTCGAAGTGTCC
* * *
51857347 AAAATTACCTTTTTACCC-CAGAACGT-TCA
1 AAAATTACCATTTTGCCCTC-GAA-GTGTCC
51857376 AAAATTACCATTTTGCCCTCG
1 AAAATTACCATTTTGCCCTCG
51857397 GGCATACAAA
Statistics
Matches: 216, Mismatches: 45, Indels: 39
0.72 0.15 0.13
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 55 0.25
29 135 0.62
30 23 0.11
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCTCGAAGTGTCC
Found at i:51857390 original size:58 final size:57
Alignment explanation
Indices: 51857087--51857396 Score: 222
Period size: 58 Copynumber: 5.4 Consensus size: 57
51857077 CGAACTTTCT
* ** * *
51857087 AAAAATTACCATTTTACCCTCGAACATCCAAAATTACCATTTTACCCCA-AGATGTCC
1 AAAAATTACCATTTTGCCCTCGAATTTCCAAAATTACCTTTTTACCCCAGA-ACGTCC
* *
51857144 AAAAATTA-CATTTTGACCCT-AAACTTTCCAAAATTA-CTATTTTACCCTCA-AATGTCC
1 AAAAATTACCATTTTG-CCCTCGAA-TTTCCAAAATTACCT-TTTTACCC-CAGAACGTCC
** ** * * * ** *
51857201 AAAAATT-GTATTTTTGATCGCAAACTTTCCAAAATTACCATTTTACCCTTGAACATCC
1 AAAAATTACCA-TTTTGCCCTCGAA-TTTCCAAAATTACCTTTTTACCCCAGAACGTCC
* * ** **
51857259 AAAAATTACCATTTTACCCCCGAATATTTGAAAATTACCATTTTT-CCCTC-GAGTGTCC
1 AAAAATTACCATTTTGCCCTCGAAT-TTCCAAAATTACC-TTTTTACCC-CAGAACGTCC
* * * *
51857317 AAATATTACTATTTTGCCCTCGAAGTGTCCAAAATTACCTTTTTACCCCAGAACGTTC
1 AAAAATTACCATTTTGCCCTCGAA-TTTCCAAAATTACCTTTTTACCCCAGAACGTCC
51857375 AAAAATTACCATTTTGCCCTCG
1 AAAAATTACCATTTTGCCCTCG
51857397 GGCATACAAA
Statistics
Matches: 197, Mismatches: 40, Indels: 31
0.74 0.15 0.12
Matches are distributed among these distances:
56 9 0.05
57 52 0.26
58 129 0.65
59 7 0.04
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.34
Consensus pattern (57 bp):
AAAAATTACCATTTTGCCCTCGAATTTCCAAAATTACCTTTTTACCCCAGAACGTCC
Found at i:51859530 original size:19 final size:19
Alignment explanation
Indices: 51859488--51859534 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
51859478 TTTTTTTACA
* *
51859488 AATATTAAATTATTTATAT
1 AATATTATATTATATATAT
51859507 -A-ATTATATTATATATAT
1 AATATTATATTATATATAT
51859524 AATATTATATT
1 AATATTATATT
51859535 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 14 0.58
18 2 0.08
19 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATATTATATATAT
Found at i:51860035 original size:17 final size:18
Alignment explanation
Indices: 51860013--51860051 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51860003 TTTAATTATT
51860013 ATATTTA-AAATAAAACC
1 ATATTTATAAATAAAACC
* *
51860030 ATATTTATAGATAAAACT
1 ATATTTATAAATAAAACC
51860048 ATAT
1 ATAT
51860052 GTATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATTTATAAATAAAACC
Found at i:51860264 original size:17 final size:18
Alignment explanation
Indices: 51860242--51860276 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
51860232 GACACCTATG
*
51860242 TATTTTTTTAA-ATACGA
1 TATTTTATTAATATACGA
51860259 TATTTTATTAATATACGA
1 TATTTTATTAATATACGA
51860277 AATACGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
TATTTTATTAATATACGA
Found at i:51860546 original size:60 final size:57
Alignment explanation
Indices: 51860305--51860566 Score: 235
Period size: 57 Copynumber: 4.5 Consensus size: 57
51860295 AAAATTTGGC
* * * * *
51860305 ATGGCCGACACCCCTTTTTTGTC-ATATAAAAATAT-AATTTTTTTGTATTGGTCATCAA
1 ATGGTCGACACCCC-TTTTTCTCGA-A-AAAAATTTAAATTTTTTTGTGTTGGCCATCAA
* * * * ** * * ***
51860363 ATGGCCGACACTCCC-TTTTCTCGAAAAAAAATTATAGTTTTGGGTGTTAGTCATTGC
1 ATGGTCGACAC-CCCTTTTTCTCGAAAAAAATTTAAATTTTTTTGTGTTGGCCATCAA
*
51860420 ATGGTCGACACCCTCTTTTTC-AGAAAAAAATTTAAATTTTTTTGTGTTGGCCATCAA
1 ATGGTCGACACCC-CTTTTTCTCGAAAAAAATTTAAATTTTTTTGTGTTGGCCATCAA
**
51860477 ATGAACGACACCCCTTTTTCTCGAAAAAAATTTCAAAATTTTTTTGGTGTTGGCCATCAA
1 ATGGTCGACACCCCTTTTTCTCGAAAAAAATTT--AAATTTTTTT-GTGTTGGCCATCAA
* *
51860537 ATGGTCGACACCCCCTTTTCTCAAAAAAAA
1 ATGGTCGACACCCCTTTTTCTCGAAAAAAA
51860567 AATTACAAAT
Statistics
Matches: 164, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
56 15 0.09
57 79 0.48
58 17 0.10
59 13 0.08
60 40 0.24
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (57 bp):
ATGGTCGACACCCCTTTTTCTCGAAAAAAATTTAAATTTTTTTGTGTTGGCCATCAA
Found at i:51862201 original size:24 final size:23
Alignment explanation
Indices: 51862173--51862219 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
51862163 TCTATAATGT
51862173 AATATTAGAAGATATGATTTTGTA
1 AATATTA-AAGATATGATTTTGTA
*
51862197 AATATTAAAGATTTGATTTTGTA
1 AATATTAAAGATATGATTTTGTA
51862220 GATTGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (23 bp):
AATATTAAAGATATGATTTTGTA
Found at i:51864266 original size:23 final size:23
Alignment explanation
Indices: 51864226--51864282 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
51864216 CTTTAACTCG
*
51864226 ATAATTTTTT-AATTAAATTTAA
1 ATAATTTTTTAAATCAAATTTAA
*
51864248 ATTATTTTTTAAATCAAATTTAA
1 ATAATTTTTTAAATCAAATTTAA
*
51864271 ATAATTTATTAA
1 ATAATTTTTTAA
51864283 TACTAATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATAATTTTTTAAATCAAATTTAA
Found at i:51867221 original size:15 final size:16
Alignment explanation
Indices: 51867188--51867232 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
51867178 AATTCGGATT
51867188 ATTTTAATATTGAATC
1 ATTTTAATATTGAATC
51867204 ATTTTGAAT-TTG-ATC
1 ATTTT-AATATTGAATC
51867219 A-TTTAGATATTGAA
1 ATTTTA-ATATTGAA
51867233 CTGAGACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.04
14 5 0.20
15 7 0.28
16 9 0.36
17 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (16 bp):
ATTTTAATATTGAATC
Found at i:51872967 original size:22 final size:21
Alignment explanation
Indices: 51872929--51872969 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
51872919 ACTTGATAAT
* *
51872929 TTTTCAATTGAATTTAAATTA
1 TTTTCAATCGAACTTAAATTA
51872950 TTTTCGAATCGAACTTAAAT
1 TTTTC-AATCGAACTTAAAT
51872970 AACTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTTCAATCGAACTTAAATTA
Found at i:51873642 original size:6 final size:6
Alignment explanation
Indices: 51873633--51873709 Score: 75
Period size: 6 Copynumber: 12.3 Consensus size: 6
51873623 TTTTGAATTT
* * *
51873633 ATTTAA ATTTAA ATTTAT CTTAATAA ATTTAA TTATTTAA ATTT-A CTTTAA
1 ATTTAA ATTTAA ATTTAA ATT--TAA ATTTAA --ATTTAA ATTTAA ATTTAA
*
51873684 ATTTAA ATTTAA ATTTAA ATTAAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
51873710 ACTAAAGTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.07
6 45 0.76
8 10 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:51873684 original size:11 final size:11
Alignment explanation
Indices: 51873667--51873707 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
51873657 AAATTTAATT
51873667 ATTTAAATTTA
1 ATTTAAATTTA
*
51873678 CTTTAAATTTAA
1 ATTTAAATTT-A
51873690 ATTTAAATTTA
1 ATTTAAATTTA
*
51873701 AATTAAA
1 ATTTAAA
51873708 ATACTAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:51875467 original size:30 final size:30
Alignment explanation
Indices: 51875426--51875601 Score: 210
Period size: 30 Copynumber: 5.9 Consensus size: 30
51875416 AAGTTGTCCA
*
51875426 AAAATTGCATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* **
51875456 AAAATTACATTTTGACCCTAAAACTTTTTT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
51875486 AAAATTACATTTTGGCCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
51875516 AGAATTACATTTTGACTCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * * *
51875546 AAAATTATACTTTGACCCTAAAAC-TTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
51875575 AAAATTACCATTTTTACCCCCAAACTT
1 AAAATTA-CATTTTGACCCCAAAACTT
51875602 CCCTAAATCC
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
29 11 0.09
30 110 0.90
31 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:51875600 original size:90 final size:90
Alignment explanation
Indices: 51875428--51875601 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 90
51875418 GTTGTCCAAA
* * *
51875428 AATTGCATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTTTAAAATTA
1 AATTACATTTTGACCCCAAAACTTTTCCAAAATTACACTTTGACCCTAAAACTTTTCTAAAATTA
* *
51875493 CATTTTGGCCCTAAAACTTTTCCAG
66 CATTTTGACCCCAAAACTTTTCCAG
* *
51875518 AATTACATTTTGACTCCAAAACTTTTCCAAAATTATACTTTGACCCTAAAAC-TTTCTAAAATTA
1 AATTACATTTTGACCCCAAAACTTTTCCAAAATTACACTTTGACCCTAAAACTTTTCTAAAATTA
* *
51875582 CCATTTTTACCCCCAAACTT
66 -CATTTTGACCCCAAAACTT
51875602 CCCTAAATCC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 11 0.15
90 63 0.85
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (90 bp):
AATTACATTTTGACCCCAAAACTTTTCCAAAATTACACTTTGACCCTAAAACTTTTCTAAAATTA
CATTTTGACCCCAAAACTTTTCCAG
Found at i:51875675 original size:59 final size:57
Alignment explanation
Indices: 51875575--51875768 Score: 201
Period size: 59 Copynumber: 3.3 Consensus size: 57
51875565 AAAACTTTCT
* * *
51875575 AAAATTACCATTTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCAATTTCACC
1 AAAATTACCA-TTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCACC
* * * * * ** * **
51875634 AAAACTTACCATTTTGCCTCCGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTGCC
1 AAAA-TTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCACC
* *
51875693 AAAATTTACTATTTTACCCCCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA-C
1 AAAA-TTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCACC
51875750 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
51875769 TAAAAACCCA
Statistics
Matches: 106, Mismatches: 28, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
56 14 0.13
57 5 0.05
58 18 0.17
59 63 0.59
60 6 0.06
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.37
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCACC
Found at i:51875734 original size:27 final size:28
Alignment explanation
Indices: 51875692--51875768 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 28
51875682 TTGTTTTTGC
*
51875692 CAAAATTTACTATTTTACCCCCAAACTTTC-
1 CAAAA-TTACCATTTTACCCCC-AA-TTTCA
* *
51875722 C-AAATT-CCATTTTTAGCCCCGATTTCA
1 CAAAATTACCA-TTTTACCCCCAATTTCA
51875749 CAAAATTACCATTTTACCCC
1 CAAAATTACCATTTTACCCC
51875769 TAAAAACCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 24 0.62
29 6 0.15
30 1 0.03
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.35
Consensus pattern (28 bp):
CAAAATTACCATTTTACCCCCAATTTCA
Found at i:51877452 original size:30 final size:29
Alignment explanation
Indices: 51877414--51877569 Score: 154
Period size: 30 Copynumber: 5.3 Consensus size: 29
51877404 AAGAATACGA
* *
51877414 GGTTAAAATATAATTTTGGAAAAATTTAGG
1 GGTTAAAATGTAATTTTGG-AAAGTTTAGG
* *
51877444 GGTAAAAATGTAATATTAGG-AAGTTTA-G
1 GGTTAAAATGTAAT-TTTGGAAAGTTTAGG
* * *
51877472 GGTTAAAATGTGATATTAGGAAATTTTAGG
1 GGTTAAAATGTAAT-TTTGGAAAGTTTAGG
* *
51877502 GATTAAAATGTAATTTTGGAAAAGTTTAAG
1 GGTTAAAATGTAATTTTGG-AAAGTTTAGG
*
51877532 GGTTAAAATGTAATTTTGGGAAAGTTTAGA
1 GGTTAAAATGTAATTTT-GGAAAGTTTAGG
*
51877562 GGTCAAAA
1 GGTTAAAA
51877570 CATACTTTTG
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
28 19 0.18
29 16 0.15
30 64 0.61
31 6 0.06
ACGTcount: A:0.41, C:0.01, G:0.24, T:0.35
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGGAAAGTTTAGG
Found at i:51879515 original size:48 final size:48
Alignment explanation
Indices: 51879426--51879517 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
51879416 TTAAACTTCA
* * * *
51879426 CTTCATTGATTTGGTCTACTTCTCTGTATCTGATCAAGAAGATGATCG
1 CTTCATTGATTTGATCCACTTCCCTGTATCTCATCAAGAAGATGATCG
* *
51879474 CTTCATT-ATTGTGATCCACTTCCCTGTATCTCATTAGGAAGATG
1 CTTCATTGATT-TGATCCACTTCCCTGTATCTCATCAAGAAGATG
51879518 GATTTGGTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 3 0.08
48 34 0.92
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (48 bp):
CTTCATTGATTTGATCCACTTCCCTGTATCTCATCAAGAAGATGATCG
Found at i:51879643 original size:161 final size:161
Alignment explanation
Indices: 51879376--51879715 Score: 464
Period size: 161 Copynumber: 2.1 Consensus size: 161
51879366 CACTTCTTTG
* * *
51879376 TATCTCATCAGGAAGATAGGGGTTTGAAGTTTCACTCGCATTAAACTTCACTTCATTGATTTGGT
1 TATCTCATCAGGAAGATAGGGGTTCGAAGTTTCACTCACATTAAACTTCACTTCATTGAATTGGT
* * * * * *
51879441 CTACTTCTCTGTATCTGATCAAGAAGATGATCGCTTCATTATTGTGATCCACTTCCCTGTATCTC
66 CTACTCCTCTGTATCTCATCAAGAAGATGACCGCATCATTATTGTGATCCACTTCCCTATACCTC
* *
51879506 ATTAGGAAGATGGATTTGGTCCACTTATCTA
131 ATCAAGAAGATGGATTTGGTCCACTTATCTA
* * * * *
51879537 TATCTCATCAGGAATATGGGGGTTCGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGT
1 TATCTCATCAGGAAGATAGGGGTTCGAAGTTTCACTCACATTAAACTTCACTTCATTGAATTGGT
* * **
51879602 CTTCTCCTCTGTATCTCATCAGGAAGATGACCGCATCATTATTGTGATCCACTTTTCTATACCTC
66 CTACTCCTCTGTATCTCATCAAGAAGATGACCGCATCATTATTGTGATCCACTTCCCTATACCTC
* * *
51879667 ATCAAGAAGATGGATTTGGTCCACTTCTTTG
131 ATCAAGAAGATGGATTTGGTCCACTTATCTA
*
51879698 TATCTCATCAAGAAGATA
1 TATCTCATCAGGAAGATA
51879716 ACCGCTTTAT
Statistics
Matches: 153, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
161 153 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (161 bp):
TATCTCATCAGGAAGATAGGGGTTCGAAGTTTCACTCACATTAAACTTCACTTCATTGAATTGGT
CTACTCCTCTGTATCTCATCAAGAAGATGACCGCATCATTATTGTGATCCACTTCCCTATACCTC
ATCAAGAAGATGGATTTGGTCCACTTATCTA
Found at i:51879818 original size:209 final size:206
Alignment explanation
Indices: 51879526--51880184 Score: 838
Period size: 209 Copynumber: 3.2 Consensus size: 206
51879516 TGGATTTGGT
* * * * *
51879526 CCACTTATCTATATCTCATCAGGAATATGGGGGTTCGAAGTTTCACTCACATTGAGCTTCGCTTC
1 CCACTTCTCTGTATCTCATCAAGAAGAT-GGGGTTAGAAGTTTCACTCACATTGAGCTTCGCTTC
*
51879591 ATTGAATTGGTCTTCTCCTCTGTATCTCATCAGGAAGATGACCGCATCATT-ATTGTGATCCACT
65 ATTGAATTGGTCTTCTCCTCTGTATCTCATCAGGAAGATGACCGC-TCATTGATT-TAATCCACT
* * * * * *
51879655 TTTCTATACCTCATCAAGAAGATGGATTTGGTCCACTTCTTTGTATCTCATCAAGAAGATAACCG
128 TCTCTGT-TCTCATCAAGAAGACGGATTTGGTCCACTTCTTTGTATCTCATCAAGAAGGTGACCG
*
51879720 CTTTATTGTTTTGAC
192 CTTTATTGCTTTGAC
* * *
51879735 CCACTTCTCAGTATCTCATCAAGAAGATGGAGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTC
1 CCACTTCTCTGTATCTCATCAAGAAGATGG-GGTTAGAAGTTTCACTCACATTGAGCTTCGCTTC
* * * * * *
51879800 ATCGATTTAGTCTTCTCCTTTGTATCTCATTAGGAAGATGACTGGCTCATTGATTTAATCCACTT
65 ATTGAATTGGTCTTCTCCTCTGTATCTCATCAGGAAGATGAC-CGCTCATTGATTTAATCCACTT
* * * * *
51879865 CTCTGTGTCTCATCAAAAAGACAGATTTGGCCCACTTCTCTGTATCTCATCCAGAAGGTGACCGC
129 CTCTGT-TCTCATCAAGAAGACGGATTTGGTCCACTTCTTTGTATCTCATCAAGAAGGTGACCGC
51879930 TTTATTGCTTTGAC
193 TTTATTGCTTTGAC
* * *
51879944 CTACTTCTCTGTATCTCATCAGGAAGATGGGGTTAGAAGCTTCACTCACATTGAGCCTT-GCTTC
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTAGAAGTTTCACTCACATTGAG-CTTCGCTTC
**
51880008 ATTGAATTGGTCTTCTTTTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTT
65 ATTGAATTGGTCTTCTCCTCTGTATCTCATCAGGAAGATGACCGC-TCATTGATTTAATCCACTT
* * *
51880073 CTCTGTTCTCATCAAGAAAACGGATTTGGTTCACTT-TTCTGTATCTCATCAGGAAGGTGACCGC
129 CTCTGTTCTCATCAAGAAGACGGATTTGGTCCACTTCTT-TGTATCTCATCAAGAAGGTGACCGC
* *
51880137 TTTATTGCTTTAAT
193 TTTATTGCTTTGAC
* * * *
51880151 CCACCTCTTTGCATCTCATCAAGAAGATCGGGTT
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGGTT
51880185 TAAAAACTTC
Statistics
Matches: 387, Mismatches: 57, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
206 1 0.00
207 90 0.23
208 89 0.23
209 202 0.52
210 5 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (206 bp):
CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTAGAAGTTTCACTCACATTGAGCTTCGCTTCA
TTGAATTGGTCTTCTCCTCTGTATCTCATCAGGAAGATGACCGCTCATTGATTTAATCCACTTCT
CTGTTCTCATCAAGAAGACGGATTTGGTCCACTTCTTTGTATCTCATCAAGAAGGTGACCGCTTT
ATTGCTTTGAC
Found at i:51883940 original size:12 final size:12
Alignment explanation
Indices: 51883923--51883949 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51883913 AAAGAATGAC
51883923 CTGCTGTATTAT
1 CTGCTGTATTAT
51883935 CTGCTGTATTAT
1 CTGCTGTATTAT
51883947 CTG
1 CTG
51883950 TATTCCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.48
Consensus pattern (12 bp):
CTGCTGTATTAT
Found at i:51892001 original size:23 final size:23
Alignment explanation
Indices: 51891926--51892039 Score: 126
Period size: 23 Copynumber: 5.0 Consensus size: 23
51891916 AAGTGCTGGA
*
51891926 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACACAGTGC
* * * *
51891949 -AATCAGTAGGCGCACATAGCGC
1 GAAACAGTAGGCACACACAGTGC
51891971 -AAATCAGTAGGCACACGA-AGTGC
1 GAAA-CAGTAGGCACAC-ACAGTGC
*
51891994 GAAACAGTAGGCACACAAAGTGC
1 GAAACAGTAGGCACACACAGTGC
*
51892017 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACACAGTGC
51892040 TGAACGGTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
22 20 0.26
23 53 0.69
24 4 0.05
ACGTcount: A:0.40, C:0.25, G:0.25, T:0.11
Consensus pattern (23 bp):
GAAACAGTAGGCACACACAGTGC
Found at i:51892025 original size:46 final size:45
Alignment explanation
Indices: 51891926--51892039 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
51891916 AAGTGCTGGA
* * *
51891926 GAAACAGTAAGCACACACAGTGCAATCAGTAGGCGCACATAGCGC
1 GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
* *
51891971 -AAATCAGTAGGCACACGA-AGTGCGAAACAGTAGGCACACAAAGTGC
1 GAAA-CAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACAAAGCGC
51892017 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
51892040 TGAACGGTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.40, C:0.25, G:0.25, T:0.11
Consensus pattern (45 bp):
GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
Found at i:51892051 original size:23 final size:23
Alignment explanation
Indices: 51891902--51892039 Score: 120
Period size: 23 Copynumber: 5.9 Consensus size: 23
51891892 CGAAGTACTT
51891902 AACAGTAAGCACAC-AAGTGCTGGAGA
1 AACAGTAAGCACACAAAGTGC----GA
*
51891928 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
51891950 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
51891972 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
51891996 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
51892019 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
51892040 TGAACGGTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
22 19 0.20
23 54 0.57
24 3 0.03
26 14 0.15
27 5 0.05
ACGTcount: A:0.41, C:0.24, G:0.25, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:51894441 original size:30 final size:30
Alignment explanation
Indices: 51894398--51894742 Score: 310
Period size: 30 Copynumber: 11.6 Consensus size: 30
51894388 AAGAATACGA
51894398 GGTTAAAA-GTAATTTTAGAAAAATTTAGG
1 GGTTAAAATGTAATTTTAGAAAAATTTAGG
* * * *
51894427 GGTAAAAATATAATTTTA-AGAAAGTTTA-A
1 GGTTAAAATGTAATTTTAGA-AAAATTTAGG
* * *
51894456 GGTTAAAATGTGATATTAGGAAAATTTAGG
1 GGTTAAAATGTAATTTTAGAAAAATTTAGG
* *
51894486 GATCAAAATGTAATTTTAGAAAAATTTTAGG
1 GGTTAAAATGTAATTTTAGAAAAA-TTTAGG
* * * * **
51894517 GGTCAAAATATAATTTTGGAAAAGTTTAAA
1 GGTTAAAATGTAATTTTAGAAAAATTTAGG
** * * *
51894547 GGTTAAAACATAATTTTGGAAAAGTTTAAG
1 GGTTAAAATGTAATTTTAGAAAAATTTAGG
* *
51894577 GGTTAAAATGTAATTTTGGAAAAGTTTA-G
1 GGTTAAAATGTAATTTTAGAAAAATTTAGG
* *
51894606 GGTTAAAATATAATTTT-GAAAAAGTTTAAG
1 GGTTAAAATGTAATTTTAGAAAAA-TTTAGG
* * * *
51894636 GGTCAAAATGTAATTTTAGGAAAGTTTAAG
1 GGTTAAAATGTAATTTTAGAAAAATTTAGG
* *
51894666 AGTT-AAATGTAATTTTA-AAAAAGTTTAGA
1 GGTTAAAATGTAATTTTAGAAAAA-TTTAGG
51894695 GGTTAAAATGTAATTTT-GAAAAAGTTTAGG
1 GGTTAAAATGTAATTTTAGAAAAA-TTTAGG
*
51894725 GGTTAAAATTTAATTTTA
1 GGTTAAAATGTAATTTTA
51894743 AAAGGAAATA
Statistics
Matches: 262, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
28 8 0.03
29 70 0.27
30 154 0.59
31 30 0.11
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (30 bp):
GGTTAAAATGTAATTTTAGAAAAATTTAGG
Found at i:51894484 original size:59 final size:59
Alignment explanation
Indices: 51894397--51894745 Score: 350
Period size: 59 Copynumber: 5.9 Consensus size: 59
51894387 GAAGAATACG
* * *
51894397 AGGTTAAAA-GTAATTTTA-GAAAAATTTAGGGGTAAAAATATAATTTTAAGAAAGTTTA
1 AGGTTAAAATGTAA-TTTAGGAAAAGTTTAGGGGTTAAAATATAATTTTAAAAAAGTTTA
* * * * *
51894455 AGGTTAAAATGTGATATTAGGAAAA-TTTAGGGATCAAAATGTAATTTTAGAAAAATTTTA
1 AGGTTAAAATGTAAT-TTAGGAAAAGTTTAGGGGTTAAAATATAATTTTA-AAAAAGTTTA
* * * * ** * **
51894515 GGGGTCAAAATATAATTTTGGAAAAGTTTAAAGGTTAAAACATAATTTTGGAAAAGTTTA
1 -AGGTTAAAATGTAATTTAGGAAAAGTTTAGGGGTTAAAATATAATTTTAAAAAAGTTTA
* *
51894575 AGGGTTAAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATATAATTTTGAAAAAGTTTA
1 A-GGTTAAAATGTAATTTAGGAAAAGTTTAGGGGTTAAAATATAATTTTAAAAAAGTTTA
* * * *
51894634 AGGGTCAAAATGTAATTTTAGG-AAAGTTTAAGAGTT-AAATGTAATTTTAAAAAAGTTTA
1 A-GGTTAAAATGTAA-TTTAGGAAAAGTTTAGGGGTTAAAATATAATTTTAAAAAAGTTTA
* * *
51894693 GAGGTTAAAATGTAATTTTGAAAAAGTTTAGGGGTTAAAATTTAATTTTAAAA
1 -AGGTTAAAATGTAATTTAGGAAAAGTTTAGGGGTTAAAATATAATTTTAAAA
51894746 GGAAATAGGG
Statistics
Matches: 242, Mismatches: 37, Indels: 22
0.80 0.12 0.07
Matches are distributed among these distances:
58 14 0.06
59 120 0.50
60 80 0.33
61 28 0.12
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (59 bp):
AGGTTAAAATGTAATTTAGGAAAAGTTTAGGGGTTAAAATATAATTTTAAAAAAGTTTA
Found at i:51894741 original size:89 final size:90
Alignment explanation
Indices: 51894398--51894742 Score: 409
Period size: 89 Copynumber: 3.9 Consensus size: 90
51894388 AAGAATACGA
* *
51894398 GGTTAAAAGTAATTTTAGAAAAA-TTTAGGGGTAAAAATATAATTTT-AAGAAAGTTT-AAGGTT
1 GGTTAAATGTAATTTTAGAAAAAGTTTAGGGGTTAAAATATAATTTTGAA-AAAGTTTAAAGGTT
* * *
51894460 AAAATGTGATATTAGGAAAATTT-AG
65 AAAATGTAATTTTAGGAAAGTTTAAG
* * * *
51894485 GGATCAAAATGTAATTTTAGAAAAATTTTAGGGGTCAAAATATAATTTTGGAAAAGTTTAAAGGT
1 GG-T-TAAATGTAATTTTAGAAAAAGTTTAGGGGTTAAAATATAATTTTGAAAAAGTTTAAAGGT
**
51894550 TAAAACATAATTTT-GGAAAAGTTTAAG
64 TAAAATGTAATTTTAGG-AAAGTTTAAG
* * *
51894577 GGTTAAAATGTAATTTT-GGAAAAGTTTA-GGGTTAAAATATAATTTTGAAAAAGTTTAAGGGTC
1 GGTT-AAATGTAATTTTAGAAAAAGTTTAGGGGTTAAAATATAATTTTGAAAAAGTTTAAAGGTT
51894640 AAAATGTAATTTTAGGAAAGTTTAAG
65 AAAATGTAATTTTAGGAAAGTTTAAG
* * * **
51894666 AGTTAAATGTAATTTTA-AAAAAGTTTAGAGGTTAAAATGTAATTTTGAAAAAGTTTAGGGGTTA
1 GGTTAAATGTAATTTTAGAAAAAGTTTAGGGGTTAAAATATAATTTTGAAAAAGTTTAAAGGTTA
*
51894730 AAATTTAATTTTA
66 AAATGTAATTTTA
51894743 AAAGGAAATA
Statistics
Matches: 222, Mismatches: 25, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
87 2 0.01
88 22 0.10
89 117 0.53
90 42 0.19
91 35 0.16
92 4 0.02
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (90 bp):
GGTTAAATGTAATTTTAGAAAAAGTTTAGGGGTTAAAATATAATTTTGAAAAAGTTTAAAGGTTA
AAATGTAATTTTAGGAAAGTTTAAG
Found at i:51897069 original size:26 final size:25
Alignment explanation
Indices: 51897026--51897076 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
51897016 AAATTTGATA
*
51897026 TTTTTTTAATTTGATACTTAAATTT
1 TTTTTTTAATTTGATACTCAAATTT
51897051 TTTTATTTAATTT-AGTACTCAAATTT
1 TTTT-TTTAATTTGA-TACTCAAATTT
51897077 GATACTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTTTTAATTTGATACTCAAATTT
Found at i:51897092 original size:31 final size:31
Alignment explanation
Indices: 51897057--51897122 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
51897047 ATTTTTTTAT
* *
51897057 TTAATTTAGTA-CTCAAATTTGATACTTTTTC
1 TTAATTTAGTACCT-AAATTTAACACTTTTTC
* *
51897088 TTAATTTGGTACCTAAATTTAACACTTTTTT
1 TTAATTTAGTACCTAAATTTAACACTTTTTC
51897119 TTAA
1 TTAA
51897123 GTTGATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (31 bp):
TTAATTTAGTACCTAAATTTAACACTTTTTC
Found at i:51897445 original size:61 final size:61
Alignment explanation
Indices: 51897337--51897533 Score: 197
Period size: 58 Copynumber: 3.3 Consensus size: 61
51897327 AATATTTAAT
* ** * *
51897337 AAATTTAGGTACCAAATTGAATCTAAAAAAAAGCTTAGGTACCAAATTAGGAAAAAAATG-C
1 AAATTCAGGTACCAAATTGGGTC-CAAAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTC
* *
51897398 TAAGTTCAGGTACCAAATTGGGTCCAAAAAAAGTTTAGGTACTAAATTAGG-AAAAAATGTC
1 -AAATTCAGGTACCAAATTGGGTCCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTC
** ** * * *
51897459 AAATTCAAATATTAAATTAGGT-CAAAAAAA-TTTAGGTACCAAATTA-AAAAAAAATTTC
1 AAATTCAGGTACCAAATTGGGTCCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTC
**
51897517 AAATTCAAATACCAAAT
1 AAATTCAGGTACCAAAT
51897534 GTTATATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
58 39 0.34
59 8 0.07
60 24 0.21
61 25 0.22
62 19 0.17
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (61 bp):
AAATTCAGGTACCAAATTGGGTCCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAAATGTC
Found at i:51897503 original size:58 final size:60
Alignment explanation
Indices: 51897362--51897533 Score: 206
Period size: 58 Copynumber: 2.9 Consensus size: 60
51897352 ATTGAATCTA
* * ** *
51897362 AAAAAAAGCTTAGGTACCAAATTAGGAAAAAAATG-CTAAGTTCAGGTACCAAATTGGGTCC
1 AAAAAAAGTTTAGGTACCAAATTAGG-AAAAAATGTC-AAATTCAAATACCAAATTAGGTCC
* **
51897423 AAAAAAAGTTTAGGTACTAAATTAGGAAAAAATGTCAAATTCAAATATTAAATTAGGT-C
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAATTCAAATACCAAATTAGGTCC
** *
51897482 AAAAAAA-TTTAGGTACCAAATTAAAAAAAAATTTCAAATTCAAATACCAAAT
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAATTCAAATACCAAAT
51897534 GTTATATTAA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
58 39 0.41
59 8 0.08
60 24 0.25
61 25 0.26
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAATTCAAATACCAAATTAGGTCC
Found at i:51898219 original size:17 final size:17
Alignment explanation
Indices: 51898197--51898230 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51898187 AACGTTTTCA
51898197 AATTTTGGCCTGAATAG
1 AATTTTGGCCTGAATAG
*
51898214 AATTTTTGCCTGAATAG
1 AATTTTGGCCTGAATAG
51898231 TTGTACCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (17 bp):
AATTTTGGCCTGAATAG
Found at i:51898337 original size:72 final size:72
Alignment explanation
Indices: 51898220--51898360 Score: 246
Period size: 72 Copynumber: 2.0 Consensus size: 72
51898210 ATAGAATTTT
* * *
51898220 TGCCTGAATAGTTGTACCCATCCCTCTTAAATTTTATCTTTCATTTAATGATGGCAAGTAGTGGT
1 TGCCTGAATAGATCTACCCATCCCTCTTAAATTTTATCTTTCATTTAATAATGGCAAGTAGTGGT
51898285 TGTACTG
66 TGTACTG
*
51898292 TGCCTGAATAGATCTACCCATCGCTCTTAAATTTTATCTTTCATTTAATAATGGCAAGTAGTGGT
1 TGCCTGAATAGATCTACCCATCCCTCTTAAATTTTATCTTTCATTTAATAATGGCAAGTAGTGGT
51898357 TGTA
66 TGTA
51898361 GTGTAAAGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (72 bp):
TGCCTGAATAGATCTACCCATCCCTCTTAAATTTTATCTTTCATTTAATAATGGCAAGTAGTGGT
TGTACTG
Found at i:51901951 original size:2 final size:2
Alignment explanation
Indices: 51901946--51901976 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51901936 ATACAATTCC
51901946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51901977 GCATATGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51902894 original size:26 final size:26
Alignment explanation
Indices: 51902836--51902894 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
51902826 TGTCACGTCA
* * *
51902836 ATAAATAATTTAAAATTTATAAGATAT
1 ATAAA-AAATTAAAATTTAAAAAATAT
51902863 -TCAAAAAATTAAAATTTAAAAAATAT
1 AT-AAAAAATTAAAATTTAAAAAATAT
51902889 ATAAAA
1 ATAAAA
51902895 TTTCATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAAAAAATTAAAATTTAAAAAATAT
Found at i:51904135 original size:14 final size:14
Alignment explanation
Indices: 51904112--51904154 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
51904102 CACTATCATG
51904112 TTGTTGTTATTATT
1 TTGTTGTTATTATT
*
51904126 TTGTTATTATTATT
1 TTGTTGTTATTATT
*
51904140 TTATTGTTATTATT
1 TTGTTGTTATTATT
51904154 T
1 T
51904155 AGATATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (14 bp):
TTGTTGTTATTATT
Found at i:51904138 original size:17 final size:17
Alignment explanation
Indices: 51904126--51904189 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
51904116 TGTTATTATT
51904126 TTGTTATTATTATTTTA
1 TTGTTATTATTATTTTA
**
51904143 TTGTTATTATT-TAGATA
1 TTGTTATTATTAT-TTTA
*
51904160 TTGTATAATTTTTATTTTA
1 TTGT-T-ATTATTATTTTA
51904179 TTGTTAATTAT
1 TTGTT-ATTAT
51904190 GCTACTATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.46
18 7 0.19
19 11 0.30
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.66
Consensus pattern (17 bp):
TTGTTATTATTATTTTA
Found at i:51905605 original size:59 final size:57
Alignment explanation
Indices: 51905497--51905606 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
51905487 GAATTTAATA
* * * *
51905497 TTTTTTTATTTTGGTACTTAAATATTTTTTATCTAATTTAGTACCTGAACTCGACAC
1 TTTTTTTATTTTGATACTTAAATATTTTTGACCCAATTTAGTACCTGAACTCGACAC
51905554 TTTTTTTATTTTGATACTTAAACT-TTATTTGGACCCAATTT-GATACCTGAACT
1 TTTTTTTATTTTGATACTTAAA-TATT-TTT-GACCCAATTTAG-TACCTGAACT
51905607 TGGTATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 23 0.51
58 5 0.11
59 17 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (57 bp):
TTTTTTTATTTTGATACTTAAATATTTTTGACCCAATTTAGTACCTGAACTCGACAC
Found at i:51905942 original size:32 final size:31
Alignment explanation
Indices: 51905865--51905930 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
51905855 GGATCCCAAA
*
51905865 AAATTTAAATACC-AATT-TAAAAAAATGTC
1 AAATTTAAATACCAAATTAAAAAAAAATGTC
*
51905894 AAATTTAAGTACCAAATTAAAAAAAAAGTGTC
1 AAATTTAAATACCAAATTAAAAAAAAA-TGTC
51905926 AAATT
1 AAATT
51905931 AATATATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 12 0.38
30 4 0.12
31 7 0.22
32 9 0.28
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (31 bp):
AAATTTAAATACCAAATTAAAAAAAAATGTC
Found at i:51915159 original size:16 final size:16
Alignment explanation
Indices: 51915129--51915163 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51915119 AAATTTAGGG
51915129 TTTGTATTTTATTTTA
1 TTTGTATTTTATTTTA
51915145 TTTGT-TTTTATTTTTA
1 TTTGTATTTTA-TTTTA
51915161 TTT
1 TTT
51915164 TTTATTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTGTATTTTATTTTA
Found at i:51919465 original size:31 final size:25
Alignment explanation
Indices: 51919395--51919441 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
51919385 GGTATCACAC
51919395 TTTTTTTTCTTAATTTGATACTTAT
1 TTTTTTTTCTTAATTTGATACTTAT
51919420 TTTTTTTTC--AATTTGATACTTA
1 TTTTTTTTCTTAATTTGATACTTA
51919442 AACTTGATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 13 0.59
25 9 0.41
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (25 bp):
TTTTTTTTCTTAATTTGATACTTAT
Found at i:51923514 original size:6 final size:6
Alignment explanation
Indices: 51923496--51923531 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
51923486 TAAATCAATA
51923496 ATAAAT A-AAAT ATAAAT ATAAAT ATAAAT ATAAAT A
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT A
51923532 ATATAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATAAAT
Found at i:51923558 original size:21 final size:22
Alignment explanation
Indices: 51923519--51923562 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
51923509 AAATATAAAT
*
51923519 ATAAATATAAATAATATAATTC
1 ATAAATATAAATAACATAATTC
*
51923541 ATAAA-ATAAATAGCATAATTC
1 ATAAATATAAATAACATAATTC
51923562 A
1 A
51923563 AGGGGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (22 bp):
ATAAATATAAATAACATAATTC
Found at i:51924420 original size:18 final size:20
Alignment explanation
Indices: 51924387--51924428 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
51924377 TTTTTGCTGT
51924387 TTTTGTGTTGTTTTTTACTA
1 TTTTGTGTTGTTTTTTACTA
51924407 TTTTG-GTT-TTTTTTACTA
1 TTTTGTGTTGTTTTTTACTA
51924425 TTTT
1 TTTT
51924429 AGTTATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.64
19 3 0.14
20 5 0.23
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.74
Consensus pattern (20 bp):
TTTTGTGTTGTTTTTTACTA
Found at i:51924463 original size:12 final size:12
Alignment explanation
Indices: 51924448--51924514 Score: 63
Period size: 12 Copynumber: 5.9 Consensus size: 12
51924438 TTTCGTGCTG
*
51924448 TTTTTATTGTTA
1 TTTTTGTTGTTA
51924460 TTTTTGTT-TCTA
1 TTTTTGTTGT-TA
51924472 TTTTTGTTG-T-
1 TTTTTGTTGTTA
*
51924482 TTTTT-ATGTTA
1 TTTTTGTTGTTA
*
51924493 -TTTTGTTGTAA
1 TTTTTGTTGTTA
51924504 TTTTTGTTGTT
1 TTTTTGTTGTT
51924515 TGAATTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
9 2 0.05
10 10 0.23
11 6 0.14
12 26 0.59
ACGTcount: A:0.10, C:0.01, G:0.13, T:0.75
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:51924507 original size:32 final size:34
Alignment explanation
Indices: 51924448--51924515 Score: 97
Period size: 32 Copynumber: 2.1 Consensus size: 34
51924438 TTTCGTGCTG
*
51924448 TTTTTATTGTTATTTTTGTTTCTATTTTTGTTGT
1 TTTTTATTGTTATTTTTGTTTCAATTTTTGTTGT
51924482 TTTTTA-TGTTA-TTTTGTTGT-AATTTTTGTTGT
1 TTTTTATTGTTATTTTTGTT-TCAATTTTTGTTGT
51924514 TT
1 TT
51924516 GAATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 20 0.62
33 6 0.19
34 6 0.19
ACGTcount: A:0.10, C:0.01, G:0.13, T:0.75
Consensus pattern (34 bp):
TTTTTATTGTTATTTTTGTTTCAATTTTTGTTGT
Found at i:51924511 original size:20 final size:20
Alignment explanation
Indices: 51924473--51924511 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51924463 TTGTTTCTAT
*
51924473 TTTTGTTGTTTTTTATGTTA
1 TTTTGTTGTATTTTATGTTA
51924493 TTTTGTTGTAATTTT-TGTT
1 TTTTGTTGT-ATTTTATGTT
51924512 GTTTGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.74
Consensus pattern (20 bp):
TTTTGTTGTATTTTATGTTA
Found at i:51924672 original size:17 final size:19
Alignment explanation
Indices: 51924642--51924691 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
51924632 TATAAAAAAA
51924642 TTAATGTATTTTAA-ATTTGT
1 TTAATGT-TTTTAATATTT-T
51924662 TT-AT-TTTTTAATATTTT
1 TTAATGTTTTTAATATTTT
51924679 TTAATGTTTTTAA
1 TTAATGTTTTTAA
51924692 GTGTATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.33
18 7 0.26
19 9 0.33
20 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
TTAATGTTTTTAATATTTT
Found at i:51928147 original size:46 final size:46
Alignment explanation
Indices: 51928080--51928175 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
51928070 AATATGGACA
* * *
51928080 AATTAGTATTTATATATTAAATTAAAAAGTAAACTGGTTCTATAAT
1 AATTAATATTTATACATTAAATCAAAAAGTAAACTGGTTCTATAAT
*
51928126 AATTAATATTTATACATTAAATCAAAGAGTAAACTGGTTCTATAAT
1 AATTAATATTTATACATTAAATCAAAAAGTAAACTGGTTCTATAAT
51928172 AATT
1 AATT
51928176 TTATTCGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (46 bp):
AATTAATATTTATACATTAAATCAAAAAGTAAACTGGTTCTATAAT
Found at i:51933239 original size:31 final size:30
Alignment explanation
Indices: 51933193--51933281 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 30
51933183 ATTTAATCGG
*
51933193 ATTAAAAAAAATTTAATTATTGAATTAAAC
1 ATTAAAAAAAATTTAAATATTGAATTAAAC
* *
51933223 ATTAAAATTAAATTTAAATATTTAATTAAA-
1 ATTAAAA-AAAATTTAAATATTGAATTAAAC
* *
51933253 A-TAAAAAAAACATAAAATATT-AATTAAAC
1 ATTAAAAAAAA-TTTAAATATTGAATTAAAC
51933282 TAAATCAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 10 0.20
29 13 0.26
30 8 0.16
31 19 0.38
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (30 bp):
ATTAAAAAAAATTTAAATATTGAATTAAAC
Found at i:51936009 original size:3 final size:3
Alignment explanation
Indices: 51936001--51936025 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51935991 TTTATATTGG
51936001 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
51936026 AAGTTGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:51949884 original size:23 final size:22
Alignment explanation
Indices: 51949858--51949906 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
51949848 AATTATATCC
* *
51949858 AAAAATTCATAAAAATGCAACAA
1 AAAAATCCATAAAAATCCAA-AA
*
51949881 AAAAATCCCTAAAAATCCAAAA
1 AAAAATCCATAAAAATCCAAAA
51949903 AAAA
1 AAAA
51949907 CAAACATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.67, C:0.16, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAAATCCATAAAAATCCAAAA
Found at i:51956269 original size:21 final size:20
Alignment explanation
Indices: 51956221--51956269 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
51956211 GAAAAGCAAG
* *
51956221 TTAATTCATAATTTGGTTCAA
1 TTAATTCTTAATTT-TTTCAA
51956242 TTCAATTCTTAATTTTTTCATA
1 TT-AATTCTTAATTTTTTCA-A
51956264 TTAATT
1 TTAATT
51956270 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (20 bp):
TTAATTCTTAATTTTTTCAA
Found at i:51964045 original size:1 final size:1
Alignment explanation
Indices: 51964039--51964068 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
51964029 ACAAGCGTGT
51964039 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
51964069 GCACATGTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:51966287 original size:23 final size:23
Alignment explanation
Indices: 51966238--51966316 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
51966228 GCAAAATAAC
* *
51966238 AAAAATAACACCAAAACAATAATAAA
1 AAAAACAACACCAAAAC-AT--CAAA
51966264 AAAAACAACACCAAAACATCAAA
1 AAAAACAACACCAAAACATCAAA
** * *
51966287 AAAATAGTA-ACCAAAATAGCAAA
1 AAAA-ACAACACCAAAACATCAAA
51966310 AAAAACA
1 AAAAACA
51966317 TAGCAAAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.02
23 23 0.52
24 2 0.05
25 2 0.05
26 16 0.36
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.09
Consensus pattern (23 bp):
AAAAACAACACCAAAACATCAAA
Found at i:51966290 original size:26 final size:27
Alignment explanation
Indices: 51966207--51966290 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
51966197 AAAAAAAACC
* * * *
51966207 AAAACAACAACAACAAAAAAAGCAAAA
1 AAAAAAACAACACCAAAACAATCAAAA
* *
51966234 TAACAAAAATAACACCAAAACAAT-AATA
1 -AA-AAAAACAACACCAAAACAATCAAAA
51966262 AAAAAAACAACACCAAAAC-ATCAAAA
1 AAAAAAACAACACCAAAACAATCAAAA
51966288 AAA
1 AAA
51966291 TAGTAACCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.04
26 22 0.48
27 2 0.04
28 5 0.11
29 15 0.33
ACGTcount: A:0.74, C:0.19, G:0.01, T:0.06
Consensus pattern (27 bp):
AAAAAAACAACACCAAAACAATCAAAA
Found at i:51984790 original size:13 final size:14
Alignment explanation
Indices: 51984774--51984806 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
51984764 TATATTTTTC
51984774 TTTATATAT-AATA
1 TTTATATATAAATA
51984787 TTTATATATCAAATA
1 TTTATATAT-AAATA
51984802 TTTAT
1 TTTAT
51984807 TTTTTCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:51984850 original size:8 final size:8
Alignment explanation
Indices: 51984837--51984861 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
51984827 GTGTGATGAT
51984837 TTATAAAA
1 TTATAAAA
51984845 TTATAAAA
1 TTATAAAA
51984853 TTATAAAA
1 TTATAAAA
51984861 T
1 T
51984862 GAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTATAAAA
Found at i:51984915 original size:35 final size:34
Alignment explanation
Indices: 51984870--51984947 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 34
51984860 ATGAAATAAT
* *
51984870 TATTTCAAATATAATTATTATTTTTATATGTAAAA
1 TATTTCAAATAT-ATCATTATGTTTATATGTAAAA
*
51984905 TATTTC-AA-ATATCATTATGTTTATATGTGAAA
1 TATTTCAAATATATCATTATGTTTATATGTAAAA
*
51984937 TATTTTAAATA
1 TATTTCAAATA
51984948 CACATACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 24 0.65
33 4 0.11
34 3 0.08
35 6 0.16
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (34 bp):
TATTTCAAATATATCATTATGTTTATATGTAAAA
Found at i:51985115 original size:35 final size:35
Alignment explanation
Indices: 51985041--51985120 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 35
51985031 TAAAAAGATG
* ** **
51985041 AATTAAAATAAAGAATTGAAAACAAAATATTTATT
1 AATTAAAATAAAAAATTGAAAACAAAATAAATAAA
*
51985076 AATTAAAATAAAAAATTG-AAACAATATGAAATAAA
1 AATTAAAATAAAAAATTGAAAACAAAAT-AAATAAA
51985111 AATTACAAAT
1 AATTA-AAAT
51985121 GTGTTTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 8 0.22
35 25 0.68
36 4 0.11
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.28
Consensus pattern (35 bp):
AATTAAAATAAAAAATTGAAAACAAAATAAATAAA
Found at i:51985922 original size:31 final size:31
Alignment explanation
Indices: 51985876--51985949 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
51985866 ATGTTGATCT
*
51985876 AATTAGGTACATGAACTTGGCTTATTAGT-TCA
1 AATT-GGTACTTGAACTTGGCTTATTAGTCT-A
*
51985908 AATTGGTACTTGAACTTGGCTTTTTAGTCTA
1 AATTGGTACTTGAACTTGGCTTATTAGTCTA
*
51985939 AATTAGTACTT
1 AATTGGTACTT
51985950 AGTAAATGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 33 0.87
32 5 0.13
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTGGTACTTGAACTTGGCTTATTAGTCTA
Found at i:51986090 original size:117 final size:115
Alignment explanation
Indices: 51985927--51986158 Score: 277
Period size: 117 Copynumber: 2.0 Consensus size: 115
51985917 TTGAACTTGG
* * * * * * *
51985927 CTTTTTAGTCTAAATTAGTACTTAGTAAATGACTTATTTGAACCATGAAGCCGAGTTCACGTATC
1 CTTTTTAATCCAAATTAGTACTTAGTAAATGACTAACTTCAACCATGAAGCCAAGTTCAAGTATC
* *
51985992 TAATTGGACCCAAAAAACAAGTTTTGGTACCTAATTG-AACCAAAATAGTT
66 TAATTGGACACAAAAAACAAGTTTAGGTACCTAATTGCAACCAAAA-AGTT
* *
51986042 CTTTTTAATCCAAATTAGTACTTATCGTAAATGGCTAACTTCAACCATGAAGCCAATTTCAAGTA
1 CTTTTTAATCCAAATTAGTACTTA--GTAAATGACTAACTTCAACCATGAAGCCAAGTTCAAGTA
* * ** * *
51986107 TCTAATTTGACATAAAAGCCAAGTTTAGGTAGCTAATTGCACCCAAAAAGTT
64 TCTAATTGGACACAAAAAACAAGTTTAGGTACCTAATTGCAACCAAAAAGTT
51986159 TAGGCACCAA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
115 22 0.23
117 68 0.70
118 7 0.07
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (115 bp):
CTTTTTAATCCAAATTAGTACTTAGTAAATGACTAACTTCAACCATGAAGCCAAGTTCAAGTATC
TAATTGGACACAAAAAACAAGTTTAGGTACCTAATTGCAACCAAAAAGTT
Found at i:51994166 original size:4 final size:4
Alignment explanation
Indices: 51994159--51994188 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
51994149 CTCTCTCTCA
51994159 CTAC CTAC CTAC CTAC CTAC CTA- CTAC CTA
1 CTAC CTAC CTAC CTAC CTAC CTAC CTAC CTA
51994189 TATATGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (4 bp):
CTAC
Found at i:51999915 original size:20 final size:21
Alignment explanation
Indices: 51999890--51999929 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
51999880 AATAATTAAA
51999890 ATTATAATAATGAT-TTGAAG
1 ATTATAATAATGATATTGAAG
51999910 ATTATAATAATGATATTGAA
1 ATTATAATAATGATATTGAA
51999930 ACATGTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTATAATAATGATATTGAAG
Found at i:52001823 original size:38 final size:38
Alignment explanation
Indices: 52001780--52001853 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
52001770 TTCAACATTC
* *
52001780 AAATTTTAATTTTATCAAATCATAACCCTTTAAAAGCT
1 AAATTTTAATTTTATCAAATCACAACCCCTTAAAAGCT
* *
52001818 AAATTTTGATTTTATCAAATCGCAACCCCTTAAAAG
1 AAATTTTAATTTTATCAAATCACAACCCCTTAAAAG
52001854 TATTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (38 bp):
AAATTTTAATTTTATCAAATCACAACCCCTTAAAAGCT
Found at i:52005494 original size:32 final size:31
Alignment explanation
Indices: 52005411--52005497 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
52005401 TGTCGGTGGT
**
52005411 ATATAACTTCATGTTATAGATCTGTTTGTGA
1 ATATAACTTCATGTTATAGATCTGTTAATGA
* * * *
52005442 ATGTATCTTCATGTTTTAGATCTGTTAATGG
1 ATATAACTTCATGTTATAGATCTGTTAATGA
52005473 ATATAACTTTCATGTTATAGATCTG
1 ATATAAC-TTCATGTTATAGATCTG
52005498 AAAAATATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 30 0.65
32 16 0.35
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (31 bp):
ATATAACTTCATGTTATAGATCTGTTAATGA
Found at i:52010061 original size:58 final size:58
Alignment explanation
Indices: 52009999--52010124 Score: 146
Period size: 58 Copynumber: 2.2 Consensus size: 58
52009989 AAACAATTGT
* * * * * * *
52009999 CAAGTTCAAGAG-TTAATTTGGATAAAAAAAGTTTAAGCCCCAATGTGTGAATAGTTGC
1 CAAGTTCAAG-GCTTAACTTGGACAAAAAAAATTCAAGCCCCAATGTGAGAAAAGTTAC
* * *
52010057 CAAGTTTAAGGCTTAACTTGGACAAAAAAAATTCAAGTCCCAATGTGAGAAAAGTTAT
1 CAAGTTCAAGGCTTAACTTGGACAAAAAAAATTCAAGCCCCAATGTGAGAAAAGTTAC
52010115 CAAGTTCAAG
1 CAAGTTCAAG
52010125 CCTCAAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 1 0.02
58 55 0.98
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (58 bp):
CAAGTTCAAGGCTTAACTTGGACAAAAAAAATTCAAGCCCCAATGTGAGAAAAGTTAC
Found at i:52015285 original size:12 final size:12
Alignment explanation
Indices: 52015270--52015294 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52015260 TAAAATTTTG
52015270 ATATTTTAATTA
1 ATATTTTAATTA
52015282 ATATTTTAATTA
1 ATATTTTAATTA
52015294 A
1 A
52015295 AAAAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTTTAATTA
Found at i:52016861 original size:21 final size:21
Alignment explanation
Indices: 52016820--52016863 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
52016810 TATATCTATA
*
52016820 TTATAAAAATAATCTACTTAT
1 TTATAAAAATAATATACTTAT
*
52016841 TTAT-AAAATAATTATAGTTAT
1 TTATAAAAATAA-TATACTTAT
52016862 TT
1 TT
52016864 TTATCGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
TTATAAAAATAATATACTTAT
Found at i:52016928 original size:16 final size:17
Alignment explanation
Indices: 52016901--52016933 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
52016891 CTTTCTAAAG
52016901 TTATAGAAAAATATTAT
1 TTATAGAAAAATATTAT
*
52016918 TTATA-AAAAATCTTAT
1 TTATAGAAAAATATTAT
52016934 GAAATATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TTATAGAAAAATATTAT
Done.