Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 171 of 187
Found at i:50951287 original size:16 final size:17
Alignment explanation
Indices: 50951256--50951288 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50951246 AGTTCAGTCA
50951256 AAAATTCATACTTTTGC
1 AAAATTCATACTTTTGC
*
50951273 AAAATT-ATCCTTTTGC
1 AAAATTCATACTTTTGC
50951289 TCTTATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (17 bp):
AAAATTCATACTTTTGC
Found at i:50953112 original size:27 final size:27
Alignment explanation
Indices: 50953007--50953259 Score: 179
Period size: 27 Copynumber: 9.3 Consensus size: 27
50952997 CTTCACAACA
* *
50953007 ATAGTCCTAACAGACTTTCCCTATATTAG
1 ATAGTCCTAACAGA-ATTCCC-ACATTAG
** * * *
50953036 ATAGTTTTGATAGACTT-CCACATTAAG
1 ATAGTCCTAACAGAATTCCCACATT-AG
* *
50953063 ATGGTCCTGAC-GAACTTCCCACATTAG
1 ATAGTCCTAACAGAA-TTCCCACATTAG
* * * *
50953090 ATAGTCCTGATAGAAATCTCACATTAG
1 ATAGTCCTAACAGAATTCCCACATTAG
** *
50953117 ATAGTCCTAATGGACTTCCCACATTAG
1 ATAGTCCTAACAGAATTCCCACATTAG
*
50953144 ATAGTCCTAACAG-ACTCCTCACATTAG
1 ATAGTCCTAACAGAATTCC-CACATTAG
* * *
50953171 ATAGTCTTGACAGACTTCCCACATTAG
1 ATAGTCCTAACAGAATTCCCACATTAG
* *
50953198 ATAGTCCTAGCAGACTTCCCACATTAG
1 ATAGTCCTAACAGAATTCCCACATTAG
* * * ** *
50953225 TTATTACTGGCAGACTTCCCACATTAG
1 ATAGTCCTAACAGAATTCCCACATTAG
*
50953252 ATATTCCT
1 ATAGTCCT
50953260 GGTTGGCTTC
Statistics
Matches: 181, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 9 0.05
27 147 0.81
28 15 0.08
29 10 0.06
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (27 bp):
ATAGTCCTAACAGAATTCCCACATTAG
Found at i:50953261 original size:27 final size:27
Alignment explanation
Indices: 50953047--50953307 Score: 224
Period size: 27 Copynumber: 9.7 Consensus size: 27
50953037 TAGTTTTGAT
* *
50953047 AGACTT-CCACATTAAGATGGTCCTGAC
1 AGACTTCCCACATT-AGATAGTCCTGGC
**
50953074 -GAACTTCCCACATTAGATAGTCCTGAT
1 AG-ACTTCCCACATTAGATAGTCCTGGC
** * ***
50953101 AGAAATCTCACATTAGATAGTCCTAAT
1 AGACTTCCCACATTAGATAGTCCTGGC
* **
50953128 GGACTTCCCACATTAGATAGTCCTAAC
1 AGACTTCCCACATTAGATAGTCCTGGC
* *
50953155 AGAC-TCCTCACATTAGATAGTCTTGAC
1 AGACTTCC-CACATTAGATAGTCCTGGC
*
50953182 AGACTTCCCACATTAGATAGTCCTAGC
1 AGACTTCCCACATTAGATAGTCCTGGC
* * *
50953209 AGACTTCCCACATTAGTTATTACTGGC
1 AGACTTCCCACATTAGATAGTCCTGGC
* *
50953236 AGACTTCCCACATTAGATATTCCTGGT
1 AGACTTCCCACATTAGATAGTCCTGGC
* * * *
50953263 TGGCTTCCCA-ATTAGGTAGTCCTTGC
1 AGACTTCCCACATTAGATAGTCCTGGC
* *
50953289 AAACTTCCTACATTAGATA
1 AGACTTCCCACATTAGATA
50953308 TTCATGGTGG
Statistics
Matches: 193, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 22 0.11
27 160 0.83
28 11 0.06
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (27 bp):
AGACTTCCCACATTAGATAGTCCTGGC
Found at i:50953270 original size:81 final size:81
Alignment explanation
Indices: 50953076--50953309 Score: 256
Period size: 81 Copynumber: 2.9 Consensus size: 81
50953066 GTCCTGACGA
** * ***
50953076 ACTTCCCACATTAGATAGTCCTGATAGAAATCTCACATTAGATAGTCCTAATGGACTTCCCACAT
1 ACTTCCCACATTAGATAGTCCTGATAGACTTCCCACATTAGATAGTCCTAGCAGACTTCCCACAT
* *
50953141 TAGATAGTCCTAACAG
66 TAGATATTACTAACAG
* *
50953157 AC-TCCTCACATTAGATAGTCTTGACAGACTTCCCACATTAGATAGTCCTAGCAGACTTCCCACA
1 ACTTCC-CACATTAGATAGTCCTGATAGACTTCCCACATTAGATAGTCCTAGCAGACTTCCCACA
* **
50953221 TTAGTTATTACTGGCAG
65 TTAGATATTACTAACAG
* * * * * * * *
50953238 ACTTCCCACATTAGATATTCCTGGTTGGCTTCCCA-ATTAGGTAGTCCTTGCAAACTTCCTACAT
1 ACTTCCCACATTAGATAGTCCTGATAGACTTCCCACATTAGATAGTCCTAGCAGACTTCCCACAT
50953302 TAGATATT
66 TAGATATT
50953310 CATGGTGGCC
Statistics
Matches: 127, Mismatches: 24, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
80 35 0.28
81 89 0.70
82 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (81 bp):
ACTTCCCACATTAGATAGTCCTGATAGACTTCCCACATTAGATAGTCCTAGCAGACTTCCCACAT
TAGATATTACTAACAG
Found at i:50956927 original size:15 final size:16
Alignment explanation
Indices: 50956902--50956947 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
50956892 CTAAGAGAGT
50956902 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
50956917 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
*
50956933 TGATATGAG-GGATGA
1 TGAGATGAGAGGATGA
50956948 AGGATGAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 6 0.22
17 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.46, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:50957421 original size:13 final size:14
Alignment explanation
Indices: 50957395--50957424 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
50957385 TAATTTTATT
50957395 AATGAATTATTTAA
1 AATGAATTATTTAA
50957409 AATGAATTA-TTAA
1 AATGAATTATTTAA
50957422 AAT
1 AAT
50957425 ATAACATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
AATGAATTATTTAA
Found at i:50958007 original size:28 final size:28
Alignment explanation
Indices: 50957962--50958016 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
50957952 TGATTGTCTT
*
50957962 ATGTGGAAAGTCCACCAAGGACTATCTC
1 ATGTGGAAAGTCCACCAAGAACTATCTC
* * *
50957990 ATGTGGAATGTTCGCCAAGAACTATCT
1 ATGTGGAAAGTCCACCAAGAACTATCT
50958017 TGAAGATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (28 bp):
ATGTGGAAAGTCCACCAAGAACTATCTC
Found at i:50959589 original size:48 final size:48
Alignment explanation
Indices: 50959531--50959639 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
50959521 GCACTAACTG
* *
50959531 TGTGTAGGCCACCAATATTCTGCTAAGATACAAGGGTGGCACGGACTC
1 TGTGCAGGCCACCAATATTCTGCTAAGATACAAGGGTGGCACGGACTA
* * *
50959579 TGTGCTGGCCACCAATATTCTGTTAAGATACAAGGGTGGCATGGACTA
1 TGTGCAGGCCACCAATATTCTGCTAAGATACAAGGGTGGCACGGACTA
50959627 TGTGCAGGCCACC
1 TGTGCAGGCCACC
50959640 GAGAGTCGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTGCAGGCCACCAATATTCTGCTAAGATACAAGGGTGGCACGGACTA
Found at i:50972027 original size:37 final size:37
Alignment explanation
Indices: 50971980--50972052 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
50971970 AAACGCAAAA
50971980 CTCAAAAATGATCTTTTAGAAAA-GATTTTCCAAATTC
1 CTCAAAAATGATCTTTTA-AAAATGATTTTCCAAATTC
*
50972017 CTCAAAAATGATCTTTTAAAAATGGTTTTCCAAATT
1 CTCAAAAATGATCTTTTAAAAATGATTTTCCAAATT
50972053 TCTATAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (37 bp):
CTCAAAAATGATCTTTTAAAAATGATTTTCCAAATTC
Found at i:50972111 original size:13 final size:13
Alignment explanation
Indices: 50972093--50972117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50972083 TTACACCTAC
50972093 ATATTTTCATGTG
1 ATATTTTCATGTG
50972106 ATATTTTCATGT
1 ATATTTTCATGT
50972118 TTTATCACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (13 bp):
ATATTTTCATGTG
Found at i:50999966 original size:7 final size:7
Alignment explanation
Indices: 50999954--50999979 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50999944 ATTTAAAAAT
50999954 GAATTGA
1 GAATTGA
50999961 GAATTGA
1 GAATTGA
50999968 GAATTGA
1 GAATTGA
50999975 GAATT
1 GAATT
50999980 ACCTTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (7 bp):
GAATTGA
Found at i:51013045 original size:39 final size:42
Alignment explanation
Indices: 51012967--51013047 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 42
51012957 TCCTAGAAGA
* * *
51012967 AAAAAGAATTTAAAAAGAGGAGAAGATAACCTTGGGTTGTTG
1 AAAAAGAATTTAAAAAGAGGAGAAGATAAACATGAGTTGTTG
51013009 AAAAAGAATTT-AAAA-A-GAGAAGATAAACATGAGTTGTTG
1 AAAAAGAATTTAAAAAGAGGAGAAGATAAACATGAGTTGTTG
51013048 GATTTATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 20 0.56
40 1 0.03
41 4 0.11
42 11 0.31
ACGTcount: A:0.49, C:0.04, G:0.23, T:0.23
Consensus pattern (42 bp):
AAAAAGAATTTAAAAAGAGGAGAAGATAAACATGAGTTGTTG
Found at i:51015821 original size:12 final size:11
Alignment explanation
Indices: 51015791--51015822 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
51015781 GAAAGAAAAT
51015791 CTTTTTATTTA
1 CTTTTTATTTA
51015802 CTTTTTATTTA
1 CTTTTTATTTA
51015813 CTTTATTATT
1 CTTT-TTATT
51015823 AATTTATCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTTTTATTTA
Found at i:51018073 original size:5 final size:5
Alignment explanation
Indices: 51018063--51018090 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
51018053 TAAATATTTA
51018063 TTGAT TTGAT TTGAT TTGAT TTGAT TTG
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTG
51018091 TACGTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (5 bp):
TTGAT
Found at i:51027035 original size:138 final size:136
Alignment explanation
Indices: 51026778--51027186 Score: 541
Period size: 138 Copynumber: 2.9 Consensus size: 136
51026768 ATGGGCCTTT
* * *
51026778 TCACACAATTTGTTGGTCAAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTATTTG
1 TCACACAAGTTGTTGGTCGAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTATATG
* *
51026843 CAAATAATGTCGAACCTCAGCCATCGGTAGGACATTCAAGACCAGCACCCGAAACATGGTAACCT
66 CAACTAATGTCG-ACCTCAGCCATCCGTAGGACATTCAAGA-CAGCACCCGAAACATGGTAACCT
51026908 AGGTCTGC
129 AGGTCTGC
* * **
51026916 TCATACAAGTTGTTGGTCGAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAATATCGG
1 TCACACAAGTTGTTGGTCGAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTATATG
* *
51026981 CAACTAATGCCAGACCTCAGCCATCCGTAGGACATTCAAGACGAGCACCCGAAACATGGTACCCT
66 CAACTAATGTC-GACCTCAGCCATCCGTAGGACATTCAAGAC-AGCACCCGAAACATGGTAACCT
* *
51027046 GGGTTTGC
129 AGGTCTGC
* * * * * *
51027054 TCACACAAGCTATTGGTTGGAATGTAAGCTACACGATGTTGTTCACACAAGCTGTCGAGTATATG
1 TCACACAAGTTGTTGGTCGAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTATATG
* *
51027119 CAACTAATGATCGGAACTCAGCCA-CCGGTAGGACATTCAAGAACAGCACCTGAAACATGGTAAA
66 CAACTAATG-TC-GACCTCAGCCATCC-GTAGGACATTCAAG-ACAGCACCCGAAACATGGT-AA
51027183 CCTA
126 CCTA
51027187 ATGACATGTC
Statistics
Matches: 237, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
137 1 0.00
138 188 0.79
139 42 0.18
140 6 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (136 bp):
TCACACAAGTTGTTGGTCGAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTATATG
CAACTAATGTCGACCTCAGCCATCCGTAGGACATTCAAGACAGCACCCGAAACATGGTAACCTAG
GTCTGC
Found at i:51028066 original size:22 final size:22
Alignment explanation
Indices: 51028038--51028080 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51028028 GAAGAAAACA
*
51028038 TTATGTTTTCTTTATTTTAATC
1 TTATGTTTCCTTTATTTTAATC
51028060 TTATGTTTCCTTTATTTTAAT
1 TTATGTTTCCTTTATTTTAAT
51028081 AATAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATGTTTCCTTTATTTTAATC
Found at i:51029834 original size:42 final size:42
Alignment explanation
Indices: 51029775--51029858 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
51029765 GGTCAATGAC
51029775 CATCTTTTACAGATGAAGCATGTTTGATAGAATAAACAATAA
1 CATCTTTTACAGATGAAGCATGTTTGATAGAATAAACAATAA
51029817 CATCTTTTACAGATGAAGCATGTTTGATAGAATAAACAATAA
1 CATCTTTTACAGATGAAGCATGTTTGATAGAATAAACAATAA
51029859 GAACGAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (42 bp):
CATCTTTTACAGATGAAGCATGTTTGATAGAATAAACAATAA
Found at i:51033834 original size:140 final size:138
Alignment explanation
Indices: 51033452--51033851 Score: 479
Period size: 137 Copynumber: 2.9 Consensus size: 138
51033442 CTACTTACAT
* * * *
51033452 AAGCTAACGGTC-AGAATGTAAGCTACACGATGCTGCTC--ACACAAGCTATTGAGTATTCGTAA
1 AAGCTATCGGTCGA-AATGTAAGCTACACGATGCT-CTCTTACACAAGCTATCGAGTATCCGCAA
* ***
51033514 CTAATGGCGAACCTCAGCCATCGGTAGGACATTCAAGACTGGCACCCGAAACATGGTAACCTAGG
64 CTAAT-GCCAACCTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAACATGGTAACCTAGG
51033579 TCTTCTCACAC
128 TCTTCTCACAC
* * * *
51033590 AGGCTATCGGTCGAAATGTAAGCTACACAATG-T-TGTTCACACAAGCTATCGAGTGTCCGCAAC
1 AAGCTATCGGTCGAAATGTAAGCTACACGATGCTCTCTT-ACACAAGCTATCGAGTATCCGCAAC
* * * *
51033653 TAATGCCAGCCTCAGCCATCGGTAGGACATTCAGGAACAACACCCGAAACATGGTAACCTGGGT-
65 TAATGCCAACCTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAACATGGTAACCTAGGTC
*
51033717 TTACTCACTC
130 TT-CTCACAC
* * *
51033727 AAGCTGTCGGTCGAAATGTAAGCTACACGATGCTACTCCTTACATAAGCTGTCGAGTATCCGCAA
1 AAGCTATCGGTCGAAATGTAAGCTACACGATGCT-CT-CTTACACAAGCTATCGAGTATCCGCAA
* * * *
51033792 CTAATGTCAAACTCAGCCACCGATAGGACATTCAAGACCAACACCCGAAACATGGTAACC
64 CTAATGCCAACCTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAACATGGTAACC
51033852 ATAATGACAT
Statistics
Matches: 222, Mismatches: 31, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
135 1 0.00
136 2 0.01
137 88 0.40
138 53 0.24
139 1 0.00
140 75 0.34
141 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (138 bp):
AAGCTATCGGTCGAAATGTAAGCTACACGATGCTCTCTTACACAAGCTATCGAGTATCCGCAACT
AATGCCAACCTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAACATGGTAACCTAGGTCT
TCTCACAC
Found at i:51035505 original size:137 final size:138
Alignment explanation
Indices: 51035294--51035573 Score: 359
Period size: 137 Copynumber: 2.0 Consensus size: 138
51035284 TGTCATTAGG
* *
51035294 GTTACCATGTTTCAGGTGGTAGTCGTAAATGTCCTACCGATGTCTGAGGTGCGACATTAGTTGCG
1 GTTACCATGTTTCAGGTGGTAGTCGTAAATGTCCTACCGATGTCTAAGGTCCGACATTAGTTGCG
* * ** * *
51035359 GATTCTCGATAGCTT-TGGTGAGCAGCATTGTGTAGC-TATGTTTCGATCGACAACTTTTGTGAG
66 GATACTCGATAGCTTAT-GTGAGCAGCATCGTGTAGCTTACATTCCGATCGACAACTTGTGTGAG
51035422 CAGACCCAT
130 CAGACCCAT
* * * * * *
51035431 GTTACCATGTTT-AGGGTGTTCGTCTTGAATGTCCTACCGATGTCTAAGGTCCGGCATTAGTTGT
1 GTTACCATGTTTCA-GGTGGTAGTCGTAAATGTCCTACCGATGTCTAAGGTCCGACATTAGTTGC
* * *
51035495 GGATACTCGATAGCTTATGTGAGTAGCATCGTGTAGCTTACATTCCGATCGATAGCTTGTGTGAG
65 GGATACTCGATAGCTTATGTGAGCAGCATCGTGTAGCTTACATTCCGATCGACAACTTGTGTGAG
51035560 CAGACCCAT
130 CAGACCCAT
*
51035569 TTTAC
1 GTTAC
51035574 AGCTCGTGTG
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
136 1 0.01
137 86 0.70
138 35 0.29
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (138 bp):
GTTACCATGTTTCAGGTGGTAGTCGTAAATGTCCTACCGATGTCTAAGGTCCGACATTAGTTGCG
GATACTCGATAGCTTATGTGAGCAGCATCGTGTAGCTTACATTCCGATCGACAACTTGTGTGAGC
AGACCCAT
Found at i:51037337 original size:30 final size:30
Alignment explanation
Indices: 51037297--51037363 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
51037287 TCCCAACCCT
*
51037297 TTTTCATAGCTCAATAGTCGAAGCTATCCC
1 TTTTCATAGCTCAATAGCCGAAGCTATCCC
* **
51037327 TTTTCTTAGCTTGATAGCCGAAGCTATCCC
1 TTTTCATAGCTCAATAGCCGAAGCTATCCC
51037357 TTTTCAT
1 TTTTCAT
51037364 TATTTGATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (30 bp):
TTTTCATAGCTCAATAGCCGAAGCTATCCC
Found at i:51037371 original size:30 final size:30
Alignment explanation
Indices: 51037310--51037551 Score: 172
Period size: 30 Copynumber: 8.1 Consensus size: 30
51037300 TCATAGCTCA
*
51037310 ATAGTCGAAGCTATCCCTTTTC-TTAGCTTG
1 ATAGTCGAAGCTATCCCTTTTCATTA-TTTG
*
51037340 ATAGCCGAAGCTATCCCTTTTCATTATTTG
1 ATAGTCGAAGCTATCCCTTTTCATTATTTG
* * * * *
51037370 ATGGTCGTCA-CCATCCTTTTTCATAATTTG
1 ATAGTCG-AAGCTATCCCTTTTCATTATTTG
* * * *
51037400 GTAG-CTAAAGCTATCCCTTTTCATTGTTCG
1 ATAGTC-GAAGCTATCCCTTTTCATTATTTG
* * * * *
51037430 ATGGTCGTCA-CCATCCTTTTTCATT-GTTG
1 ATAGTCG-AAGCTATCCCTTTTCATTATTTG
* * * * *
51037459 ATGGTTGTCA-CTATCCCTTTTCATAATGTG
1 ATAGTCG-AAGCTATCCCTTTTCATTATTTG
*
51037489 ATAGTCGAGGCTATCCCTTTTCATTATTTTG
1 ATAGTCGAAGCTATCCCTTTTCATTA-TTTG
* *
51037520 ATAGCCGAAGCTATCCCTTTTCATTAGTTG
1 ATAGTCGAAGCTATCCCTTTTCATTATTTG
51037550 AT
1 AT
51037552 GATCGTCGAT
Statistics
Matches: 163, Mismatches: 40, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
29 25 0.15
30 105 0.64
31 33 0.20
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (30 bp):
ATAGTCGAAGCTATCCCTTTTCATTATTTG
Found at i:51037391 original size:60 final size:61
Alignment explanation
Indices: 51037322--51037558 Score: 223
Period size: 60 Copynumber: 4.0 Consensus size: 61
51037312 AGTCGAAGCT
*
51037322 ATCCCTTTTC-TTAGCTTGATAGCCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATTAGTTTGATAGCCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACC
* * * ** * *
51037382 ATCCTTTTTCA-TAATTTGGTAGCTAAAGCTATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTAGTTTGATAGCCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACC
* * ** * * * * *** *
51037442 ATCCTTTTTCATT-G-TTGATGGTTGTCA-CTATCCCTTTTCATAATGTGATAGTCGAGGCT
1 ATCCCTTTTCATTAGTTTGATAGCCG-AAGCTATCCCTTTTCATTATTTGATGGTCGTCACC
* * *
51037501 ATCCCTTTTCATTATTTTGATAGCCGAAGCTATCCCTTTTCATTAGTTGATGATCGTC
1 ATCCCTTTTCATTAGTTTGATAGCCGAAGCTATCCCTTTTCATTATTTGATGGTCGTC
51037559 GATACGCCAT
Statistics
Matches: 135, Mismatches: 36, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
59 41 0.30
60 64 0.47
61 30 0.22
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (61 bp):
ATCCCTTTTCATTAGTTTGATAGCCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACC
Found at i:51043734 original size:21 final size:20
Alignment explanation
Indices: 51043710--51043755 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
51043700 TGATGTCGTG
51043710 ACACTAG-AAGCCAATGTTGCA
1 ACACTAGCAAGCC--TGTTGCA
*
51043731 ACACT-GCAGGCCTGTTGCA
1 ACACTAGCAAGCCTGTTGCA
51043750 ACACTA
1 ACACTA
51043756 CCCTTGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 12 0.55
20 1 0.05
21 9 0.41
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (20 bp):
ACACTAGCAAGCCTGTTGCA
Found at i:51044688 original size:14 final size:14
Alignment explanation
Indices: 51044671--51044702 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
51044661 AATCCCTTAG
*
51044671 GTACGATCCTCGCA
1 GTACAATCCTCGCA
51044685 GTACAATCCTCGCA
1 GTACAATCCTCGCA
51044699 GTAC
1 GTAC
51044703 TTACCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (14 bp):
GTACAATCCTCGCA
Found at i:51051373 original size:16 final size:15
Alignment explanation
Indices: 51051352--51051396 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
51051342 ATTGGGTTGA
51051352 GAAAATTATTTAATT
1 GAAAATTATTTAATT
*
51051367 GGAAAATTAATTAATT
1 -GAAAATTATTTAATT
51051383 -AAAATTAATTTAAT
1 GAAAATT-ATTTAAT
51051397 AAACAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.23
15 6 0.23
16 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (15 bp):
GAAAATTATTTAATT
Found at i:51055119 original size:3 final size:3
Alignment explanation
Indices: 51055113--51055158 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
51055103 GTAAAAAAAG
*
51055113 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
51055159 GTAGTAATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:51057498 original size:161 final size:161
Alignment explanation
Indices: 51057317--51057606 Score: 553
Period size: 161 Copynumber: 1.8 Consensus size: 161
51057307 CTTAGAATTG
51057317 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
1 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
*
51057382 AAGACAATCTTCATGCTAGAGAGTACCGCCACGTTCACCTATTTTTGGCTCTTTGAGCAATGTTT
66 AAGACAATCTTCATGCTAGACAGTACCGCCACGTTCACCTATTTTTGGCTCTTTGAGCAATGTTT
51057447 TTTATTTAGTATTCAACAATTAAACAAAAAC
131 TTTATTTAGTATTCAACAATTAAACAAAAAC
*
51057478 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTTTTTTGGCTTCAAATTTAAAGCA
1 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
*
51057543 AAGACAATCTTCATGCTAGACAGTGCCGCCACGTTCACCTATTTTTGGCTCTTTGAGCAATGTT
66 AAGACAATCTTCATGCTAGACAGTACCGCCACGTTCACCTATTTTTGGCTCTTTGAGCAATGTT
51057607 AATAAATCAA
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 126 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (161 bp):
AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
AAGACAATCTTCATGCTAGACAGTACCGCCACGTTCACCTATTTTTGGCTCTTTGAGCAATGTTT
TTTATTTAGTATTCAACAATTAAACAAAAAC
Found at i:51062126 original size:19 final size:20
Alignment explanation
Indices: 51062102--51062148 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
51062092 TTTATTATTA
51062102 TATTATTTCTA-TTTTTTGT
1 TATTATTTCTATTTTTTTGT
51062121 TATTATTTCTATTTTTTTGT
1 TATTATTTCTATTTTTTTGT
51062141 TATTATTT
1 TATTATTT
51062149 AGATAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (20 bp):
TATTATTTCTATTTTTTTGT
Found at i:51064147 original size:25 final size:25
Alignment explanation
Indices: 51064087--51064201 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
51064077 ATACATGTAT
* * * *
51064087 GCTCATACGAGCAATGAACCGGTAT
1 GCTCATACGAGCTATAAATCGGTAA
*
51064112 GCTC-TCTCGAGCTATAAATCGGTAA
1 GCTCAT-ACGAGCTATAAATCGGTAA
* *
51064137 GCTCATACGAGCTGA-GAATCGATAA
1 GCTCATACGAGCT-ATAAATCGGTAA
**
51064162 GCTC-TCACGAGCTGCAAATCGGTAA
1 GCTCAT-ACGAGCTATAAATCGGTAA
51064187 GCTCATACGAGCTAT
1 GCTCATACGAGCTAT
51064202 GGTGTGTCCG
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
24 2 0.03
25 66 0.93
26 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGTAA
Found at i:51064148 original size:50 final size:50
Alignment explanation
Indices: 51064087--51064200 Score: 149
Period size: 50 Copynumber: 2.3 Consensus size: 50
51064077 ATACATGTAT
* * * *
51064087 GCTCATACGAGC-AATGAACCGGTATGCTCTCTCGAGCTATAAATCGGTAA
1 GCTCATACGAGCTAA-GAACCGATAAGCTCTCACGAGCTACAAATCGGTAA
* * *
51064137 GCTCATACGAGCTGAGAATCGATAAGCTCTCACGAGCTGCAAATCGGTAA
1 GCTCATACGAGCTAAGAACCGATAAGCTCTCACGAGCTACAAATCGGTAA
51064187 GCTCATACGAGCTA
1 GCTCATACGAGCTA
51064201 TGGTGTGTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (50 bp):
GCTCATACGAGCTAAGAACCGATAAGCTCTCACGAGCTACAAATCGGTAA
Found at i:51068516 original size:18 final size:18
Alignment explanation
Indices: 51068493--51068529 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51068483 TCTTCTCTTT
51068493 CTTTTTCATT-TTTAGCAA
1 CTTTTTC-TTCTTTAGCAA
51068511 CTTTTTCTTCTTTAGCAA
1 CTTTTTCTTCTTTAGCAA
51068529 C
1 C
51068530 AACTTCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.19, C:0.22, G:0.05, T:0.54
Consensus pattern (18 bp):
CTTTTTCTTCTTTAGCAA
Found at i:51073286 original size:45 final size:45
Alignment explanation
Indices: 51073217--51073303 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
51073207 AACAAATACT
* * * *
51073217 CGGTGGATTCATCACATAGTAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
51073262 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
51073304 TTTCGCTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:51082427 original size:12 final size:12
Alignment explanation
Indices: 51082410--51082440 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
51082400 TCCAACGGTG
51082410 AAAGCGATGAAC
1 AAAGCGATGAAC
51082422 AAAGCGATGAAC
1 AAAGCGATGAAC
51082434 AAAGCGA
1 AAAGCGA
51082441 GGATAGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.26, T:0.06
Consensus pattern (12 bp):
AAAGCGATGAAC
Found at i:51085349 original size:13 final size:13
Alignment explanation
Indices: 51085331--51085360 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
51085321 AGCCCAAACT
51085331 CAATTACCCAACC
1 CAATTACCCAACC
51085344 CAATTACCCAACC
1 CAATTACCCAACC
51085357 CAAT
1 CAAT
51085361 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:51085512 original size:9 final size:9
Alignment explanation
Indices: 51085500--51085585 Score: 102
Period size: 9 Copynumber: 9.4 Consensus size: 9
51085490 AAAATAAAAA
51085500 AATTCGGGT
1 AATTCGGGT
51085509 AATTCGGGT
1 AATTCGGGT
51085518 AATTCGGGT
1 AATTCGGGT
*
51085527 ATTTTTC-GGT
1 A--ATTCGGGT
*
51085537 AATTCGGTT
1 AATTCGGGT
**
51085546 AATTCGATT
1 AATTCGGGT
*
51085555 AATTCGGTT
1 AATTCGGGT
51085564 AATTCGGGT
1 AATTCGGGT
51085573 AATTCGGGT
1 AATTCGGGT
51085582 AATT
1 AATT
51085586 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
8 3 0.04
9 58 0.85
10 4 0.06
11 3 0.04
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:51088837 original size:138 final size:138
Alignment explanation
Indices: 51088676--51089067 Score: 576
Period size: 137 Copynumber: 2.8 Consensus size: 138
51088666 GAGAACATAG
* *
51088676 ATATTATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
*
51088741 AATATAAACAGTTATATTAATTAA-TTCTGATCAAAATATAAAAGACATAGAAATTAATATTATT
66 AATATAAACAGTTATATTAATTAATTTC-GGTCAAAATATAAAAGACAT-GAAATTAATATTATT
*
51088805 TTGGAAA-TA
129 TTGGAAAGGA
* ** *
51088814 ATATAATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACCAAATTTATC
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
*
51088879 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAATTAATATTCTTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAATTAATATTATTTT
51088944 GGAAAGGA
131 GGAAAGGA
* * * * *
51088952 A-ATAATTAATATATGAATTTTATTCATACAAAATATTACTTGTACATGTTGTA-TCGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACT-GAATTTAT
* * *
51089015 TAATATAAACAATAATATTAATTAATTTCGGTCAAAATATAAAAGGCATGAAA
65 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAA
51089068 ATCAATAAAA
Statistics
Matches: 230, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
137 123 0.53
138 104 0.45
139 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAATTAATATTATTTT
GGAAAGGA
Found at i:51095302 original size:68 final size:69
Alignment explanation
Indices: 51095230--51095361 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 69
51095220 AATAGATTTC
*
51095230 ATATTAAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGATTAT
1 ATATTAAATTTAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTAT
51095294 CTTA
66 CTTA
* * *
51095298 ATATTAAATTTAATTTAATATTTATCTTGATAAGTATTATATTAATTTAATATTATAGTGATTA
1 ATATTAAATTTAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTA
51095362 AGTTTAATCA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 29 0.49
69 30 0.51
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (69 bp):
ATATTAAATTTAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTAT
CTTA
Found at i:51095364 original size:32 final size:32
Alignment explanation
Indices: 51095261--51095364 Score: 93
Period size: 32 Copynumber: 3.1 Consensus size: 32
51095251 TTATCTTAAT
* *
51095261 AGTATTTTATTAATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTATAGTGATTA
* * **
51095293 TCTTAATATTAAATTTAATTTAATATTTATCTTGA-TA
1 ----AGTATTATA-TTAATTTAATA-TTATAGTGATTA
51095330 AGTATTATATTAATTTAATATTATAGTGATTA
1 AGTATTATATTAATTTAATATTATAGTGATTA
51095362 AGT
1 AGT
51095365 TTAATCATAG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
31 7 0.13
32 16 0.29
33 7 0.13
36 6 0.11
37 13 0.24
38 6 0.11
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (32 bp):
AGTATTATATTAATTTAATATTATAGTGATTA
Found at i:51095851 original size:15 final size:16
Alignment explanation
Indices: 51095831--51095865 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51095821 ATCCTAATAA
*
51095831 ATATTATT-ATATTTT
1 ATATTATTAAAATTTT
51095846 ATATTATTAAAATTTT
1 ATATTATTAAAATTTT
51095862 ATAT
1 ATAT
51095866 ATTTTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTATTAAAATTTT
Found at i:51095880 original size:18 final size:17
Alignment explanation
Indices: 51095831--51095880 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
51095821 ATCCTAATAA
*
51095831 ATATTATT-ATATTT-T
1 ATATTATTAAAATTTAT
51095846 ATATTATTAAAATTTTAT
1 ATATTATTAAAA-TTTAT
*
51095864 ATATTTTTACAAATTTA
1 ATATTATTA-AAATTTA
51095881 ATGATATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 8 0.28
16 2 0.07
17 3 0.10
18 13 0.45
19 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTATTAAAATTTAT
Found at i:51098766 original size:133 final size:133
Alignment explanation
Indices: 51098573--51098950 Score: 720
Period size: 133 Copynumber: 2.8 Consensus size: 133
51098563 CGTTCCTTAT
*
51098573 TCGAGATCAAATCATCAATTATTCAATTTTTTTTCTCTTCCGAATCGTTTGTGTTTTTCACATGA
1 TCGAGATCAAATCATCAATTATTCAA-TTTTTTTCTCTTCCGAATTGTTTGTGTTTTTCACATGA
* *
51098638 TTTATTCAATCGAGAGCGAGACTATGAATAACATGAGTGGCTAAATCATCAATTATTCATTATTC
65 TTTAATCAATCGAGAGAGAGACTATGAATAACATGAGTGGCTAAATCATCAATTATTCATTATTC
51098703 CGAA
130 CGAA
51098707 TCGAGATCAAATCATCAATTATTCAATTTTTTTCTCTTCCGAATTGTTTGTGTTTTTCACATGAT
1 TCGAGATCAAATCATCAATTATTCAATTTTTTTCTCTTCCGAATTGTTTGTGTTTTTCACATGAT
51098772 TTAATCAATCGAGAGAGAGACTATGAATAACATGAGTGGCTAAATCATCAATTATTCATTATTCC
66 TTAATCAATCGAGAGAGAGACTATGAATAACATGAGTGGCTAAATCATCAATTATTCATTATTCC
51098837 GAA
131 GAA
51098840 TCGAGATCAAATCATCAATTATTCAATTTTTTTCTCTTCCGAATTGTTTGTGTTTTTCACATGAT
1 TCGAGATCAAATCATCAATTATTCAATTTTTTTCTCTTCCGAATTGTTTGTGTTTTTCACATGAT
51098905 TTAATCAATCGAGAGAGAGACTATGAATAACATGAGTGGCTAAATC
66 TTAATCAATCGAGAGAGAGACTATGAATAACATGAGTGGCTAAATC
51098951 CCTTAGGGAG
Statistics
Matches: 241, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
133 215 0.89
134 26 0.11
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (133 bp):
TCGAGATCAAATCATCAATTATTCAATTTTTTTCTCTTCCGAATTGTTTGTGTTTTTCACATGAT
TTAATCAATCGAGAGAGAGACTATGAATAACATGAGTGGCTAAATCATCAATTATTCATTATTCC
GAA
Found at i:51099268 original size:24 final size:24
Alignment explanation
Indices: 51099235--51099291 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
51099225 ATCCACCCTA
* *
51099235 AAACCCTAATCCAAAGTTAGTTGC
1 AAACCCTAATCCAAAGTTAATTAC
* *
51099259 CAACCCTAATCTAAAGTTAATTAC
1 AAACCCTAATCCAAAGTTAATTAC
51099283 AAACCCTAA
1 AAACCCTAA
51099292 AGTGAGTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (24 bp):
AAACCCTAATCCAAAGTTAATTAC
Found at i:51102679 original size:24 final size:24
Alignment explanation
Indices: 51102652--51102699 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
51102642 TTTGGAAATC
51102652 ACATTCAT-AATATGTATTTATGAT
1 ACATTCATAAATAT-TATTTATGAT
51102676 ACATTCATAAAATATTATTTATGA
1 ACATTCAT-AAATATTATTTATGA
51102700 CGCTTAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 9 0.41
26 5 0.23
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (24 bp):
ACATTCATAAATATTATTTATGAT
Found at i:51104298 original size:22 final size:22
Alignment explanation
Indices: 51104257--51104577 Score: 356
Period size: 22 Copynumber: 15.0 Consensus size: 22
51104247 TCAAATTATA
51104257 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
51104278 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104300 TTAAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
51104322 TTAAAGTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104344 TTCAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104365 ATTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104387 TTTAATTTAAGGG-TTGGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
51104408 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
**
51104429 TTTAAGTTAAGGGTCCAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
51104451 TTAAAGTTAA-GATTTAGCG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104471 TTTAGGTTAAGGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
51104492 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104514 TTAAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
51104535 TTTAGGTTAAGGGGTTAGGAG-T
1 TTTAAGTTAAGGGTTTAGG-GTT
51104557 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
51104578 AGGGTATTTA
Statistics
Matches: 254, Mismatches: 36, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
20 15 0.06
21 113 0.44
22 125 0.49
23 1 0.00
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:51104324 original size:43 final size:41
Alignment explanation
Indices: 51104257--51104577 Score: 374
Period size: 43 Copynumber: 7.5 Consensus size: 41
51104247 TCAAATTATA
51104257 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGT
* *
51104299 TTTAAAGTTAAGGGTCTAGGGTTTTAAAGTTAAAGGTTTAAGGT
1 TTT-AAGTTAAGGGT-TAGGGTTTT-AAGTTAAGGGTTTAGGGT
* *
51104343 TTTCAAGTTAAGGGTTAAGGTTATTAGGTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGGTTAGGGTT-TTAAGTTAAGGGTTTAGGG-T
* *
51104387 TTTAATTTAAGGGTTGGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGT
* * *
51104429 TTTAAGTTAAGGGTCCAGGGTTTTAAAGTTAA-GATTTAGCGT
1 TTTAAGTTAAGGGT-TAGGGTTTT-AAGTTAAGGGTTTAGGGT
* * *
51104471 TTTAGGTTAAGGGTTAGAGTTTTTAGGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTAG-GGTTTTAAGTTAAGGGTTTAGGGT
* * *
51104513 TTTAAAGTTAAGGGTTAGTGTTTTTAGGTTAAGGGGTTAGGAGT
1 TTT-AAGTTAAGGGTTAG-GGTTTTAAGTTAAGGGTTTAGG-GT
51104557 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
51104578 AGGGTATTTA
Statistics
Matches: 241, Mismatches: 26, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
41 8 0.03
42 61 0.25
43 124 0.51
44 48 0.20
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (41 bp):
TTTAAGTTAAGGGTTAGGGTTTTAAGTTAAGGGTTTAGGGT
Found at i:51105201 original size:43 final size:42
Alignment explanation
Indices: 51105140--51105249 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 42
51105130 CACTATTGGC
51105140 AACGCCGCTAAAAATCATGACTTTTAGCGGCGCTTCTACCACA
1 AACGCCGCT-AAAATCATGACTTTTAGCGGCGCTTCTACCACA
* **
51105183 AACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTATTACA
1 AACGCCGCTAAA-ATCATGACTTTTAGCGGCGCTTCTACCACA
*
51105226 AACGCCGCTAAAA-CATTACTTTTA
1 AACGCCGCTAAAATCATGACTTTTA
51105250 AAAAAATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 9 0.15
42 4 0.07
43 48 0.79
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (42 bp):
AACGCCGCTAAAATCATGACTTTTAGCGGCGCTTCTACCACA
Found at i:51107704 original size:5 final size:5
Alignment explanation
Indices: 51107694--51107719 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51107684 ACTTGGTTTG
51107694 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
51107720 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:51109458 original size:21 final size:20
Alignment explanation
Indices: 51109417--51109499 Score: 72
Period size: 21 Copynumber: 4.4 Consensus size: 20
51109407 AAACCCTAAA
51109417 CCCTAACCCCTAA--AT--C
1 CCCTAACCCCTAAGCATAAC
*
51109433 CCCTAACCTCTGAAGCATAAC
1 CCCTAACCCCT-AAGCATAAC
*
51109454 CCCTAACCCCTAA--AT-CC
1 CCCTAACCCCTAAGCATAAC
51109471 CCCTAACCCCTAAAGCATAAC
1 CCCTAACCCCT-AAGCATAAC
*
51109492 ACCTAACC
1 CCCTAACC
51109500 TTTAAACCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
16 10 0.19
17 14 0.26
18 4 0.08
19 2 0.04
20 4 0.08
21 19 0.36
ACGTcount: A:0.34, C:0.46, G:0.04, T:0.17
Consensus pattern (20 bp):
CCCTAACCCCTAAGCATAAC
Found at i:51109460 original size:37 final size:38
Alignment explanation
Indices: 51109417--51109499 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
51109407 AAACCCTAAA
* *
51109417 CCCTAACCCCTAAAT-CCCCTAACCTCTGAAGCATAAC
1 CCCTAACCCCTAAATCCCCCTAACCCCTAAAGCATAAC
51109454 CCCTAACCCCTAAATCCCCCTAACCCCTAAAGCATAAC
1 CCCTAACCCCTAAATCCCCCTAACCCCTAAAGCATAAC
*
51109492 ACCTAACC
1 CCCTAACC
51109500 TTTAAACCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 15 0.36
38 27 0.64
ACGTcount: A:0.34, C:0.46, G:0.04, T:0.17
Consensus pattern (38 bp):
CCCTAACCCCTAAATCCCCCTAACCCCTAAAGCATAAC
Found at i:51109462 original size:7 final size:7
Alignment explanation
Indices: 51109410--51109483 Score: 51
Period size: 7 Copynumber: 9.9 Consensus size: 7
51109400 ACCGTTGAAA
*
51109410 CCCTAAA
1 CCCTAAC
51109417 CCCTAAC
1 CCCTAAC
51109424 CCCTAAATC
1 CCCT-AA-C
51109433 CCCTAAC
1 CCCTAAC
*
51109440 CTCTGAA-
1 CCCT-AAC
* *
51109447 GCATAAC
1 CCCTAAC
51109454 CCCTAAC
1 CCCTAAC
51109461 CCCTAAATCC
1 CCCT-AA--C
51109471 CCCTAAC
1 CCCTAAC
51109478 CCCTAA
1 CCCTAA
51109484 AGCATAACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
6 2 0.04
7 31 0.58
8 8 0.15
9 7 0.13
10 5 0.09
ACGTcount: A:0.32, C:0.47, G:0.03, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:51109953 original size:114 final size:114
Alignment explanation
Indices: 51109753--51110580 Score: 1106
Period size: 114 Copynumber: 7.3 Consensus size: 114
51109743 AATCCTTGAA
* * *
51109753 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGGTGCCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
*
51109818 CTTAGTTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
* * ** ** * **
51109867 CATTAGCGGTGCTTCCTTAAAAACGTTGCTAAATCCCTAAAAGCTCAGAAAACGGCACCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
* *
51109932 CTTAGTTTTTTTTGCGGCGCTTTACCAAAAATGCCGCTAAAGCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
* * * *
51109981 CATTAGCGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAGAGCTCAGAAAATGGC-ACTGCTGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTC-GTTGG
*
51110045 GCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
65 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
* * * *
51110095 CATTAGCGGCGCTTTCTTAAAAATGCCGTTAAAT-CCCGAAAGCTCAGGAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
* * *
51110159 ATTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
* * * * *
51110208 CATTAGCGGCGCTTTCTTAAAAACACAGTTAAATCCCCGAAAGCTCAGAAAACGGCGTTGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
* * * * *
51110273 CTCAGGTTTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAATCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
* * *
51110322 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAGAGCTCAGAAAATGGTGTTGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
* * * *
51110387 CTTA-GTTTTTTTGCAGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAA
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
* * * * *
51110435 CATTAGCGGCGCTTTTTTAAAAATGCTGCTAAATCCCCGAAAACTCAGAAAATGGCATCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
* * * * * *
51110500 ATTAGGTTTTTTTACAGCGCTTTCACAAAAACT-CCGCTAAATCCCTGAT
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAA-TGCCGCTAAAGCCCTGAG
*
51110549 CATTAGCGGCGCTTTCTTAAAAACGCCACTAA
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
51110581 TTCTTATTTT
Statistics
Matches: 635, Mismatches: 74, Indels: 10
0.88 0.10 0.01
Matches are distributed among these distances:
113 198 0.31
114 437 0.69
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (114 bp):
CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGG
CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAG
Found at i:51110224 original size:227 final size:227
Alignment explanation
Indices: 51109753--51110580 Score: 1117
Period size: 227 Copynumber: 3.6 Consensus size: 227
51109743 AATCCTTGAA
* ** *
51109753 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGGTGCCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCACTGTTGGG
* * *
51109818 CTTAGTTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTCC
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
** * ** *
51109883 TTAAAAACGTTGCTAAATCCCTAAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTTGCG
131 TTAAAAACGCCGCTAAATCCC-GAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
*
51109948 GCGCTTTAC-CAAAAATGCCGCTAAAGCCCTGAG
195 GCGCTTT-CTCAAAAACGCCGCTAAAGCCCTGAG
* * *
51109981 CATTAGCGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAGAGCTCAGAAAATGGCACTGCTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCACTGTTGGG
*
51110046 CTTAGTTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* * * *
51110111 TTAAAAATGCCGTTAAATCCCGAAAGCTCAGGAAACGGCGTCGTTGGGATTAGGTTTTTTTGCGG
131 TTAAAAACGCCGCTAAATCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGG
51110176 CGCTTTCTCAAAAACGCCGCTAAAGCCCTGAG
196 CGCTTTCTCAAAAACGCCGCTAAAGCCCTGAG
* * * * **
51110208 CATTAGCGGCGCTTTCTTAAAAACACAGTTAAATCCCCGAAAGCTCAGAAAACGGCGTTGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCACTGTTGGG
* * * * *
51110273 CTCAGGTTTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTC
66 CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* * * * *
51110338 TTAAAAACGCCGCTAAATCCCCGAGAGCTCAGAAAATGGTGTTGTTGGGCTTA-GTTTTTTTGCA
131 TTAAAAACGCCGCTAAAT-CCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
*
51110402 GCGCTTT-TCCAAAAACGCCGCTAAAGCCCTGAA
195 GCGCTTTCT-CAAAAACGCCGCTAAAGCCCTGAG
* * * *
51110435 CATTAGCGGCGCTTTTTTAAAAATGCTGCTAAATCCCCGAAAACTCAGAAAATGGCA-TCGTTGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCACT-GTTGG
* * * * * *
51110499 GATTAGGTTTTTTTACAGCGCTTTCACAAAAACT-CCGCTAAATCCCTGATCATTAGCGGCGCTT
65 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAA-TGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
*
51110563 TCTTAAAAACGCCACTAA
129 TCTTAAAAACGCCGCTAA
51110581 TTCTTATTTT
Statistics
Matches: 533, Mismatches: 62, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
226 3 0.01
227 364 0.68
228 166 0.31
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (227 bp):
CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCACTGTTGGG
CTTAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
TTAAAAACGCCGCTAAATCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGG
CGCTTTCTCAAAAACGCCGCTAAAGCCCTGAG
Found at i:51110389 original size:341 final size:341
Alignment explanation
Indices: 51109749--51110572 Score: 1202
Period size: 341 Copynumber: 2.4 Consensus size: 341
51109739 TTTAAATCCT
* * * *
51109749 TGAACATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAATGGTGCCGT
1 TGAACATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGT
* * * * *
51109814 TGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGTGC
66 TGGGATTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* *** * * *
51109879 TTCCTTAAAAACGTTGCTAAATCCCTAAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTT
131 TTTCTTAAAAACACAGCTAAATCCCCAAAAGCTCAGAAAACGGCACCGTTGGGCTCAGGTTTTTT
* *
51109944 TGCGGCGCTTTACCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTTAAAAACGCCG
196 TGCGGCGCTTTACCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
*
51110009 CTAAATCCCCGAGAGCTCAGAAAATGGCACTGCTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAA
261 CTAAATCCCCGAGAGCTCAGAAAATGGCACTGCTGGGCTTAG-TTTTTTTGCAGCGCTTTCCCAA
*
51110074 AAATGCCGCTAAAGCCC
325 AAACGCCGCTAAAGCCC
* * * *
51110091 TGAGCATTAGCGGCGCTTTCTTAAAAATGCCGTTAAAT-CCCGAAAGCTCAGGAAACGGCGTCGT
1 TGAACATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGT
*
51110155 TGGGATTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
66 TGGGATTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* * ***
51110220 TTTCTTAAAAACACAGTTAAATCCCCGAAAGCTCAGAAAACGGCGTTGTTGGGCTCAGGTTTTTT
131 TTTCTTAAAAACACAGCTAAATCCCCAAAAGCTCAGAAAACGGCACCGTTGGGCTCAGGTTTTTT
* *
51110285 TGCGGTGCTTT-CTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCC
196 TGCGGCGCTTTAC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCC
*** * *
51110349 GCTAAATCCCCGAGAGCTCAGAAAATGGTGTTGTTGGGCTTAGTTTTTTTGCAGCGCTTTTCCAA
260 GCTAAATCCCCGAGAGCTCAGAAAATGGCACTGCTGGGCTTAGTTTTTTTGCAGCGCTTTCCCAA
51110414 AAACGCCGCTAAAGCCC
325 AAACGCCGCTAAAGCCC
* * * *
51110431 TGAACATTAGCGGCGCTTTTTTAAAAATGCTGCTAAATCCCCGAAAACTCAGAAAATGGCATCGT
1 TGAACATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGT
* * * * *
51110496 TGGGATTAGGTTTTTTTACAGCGCTTTCACAAAAACTCCGCTAAATCCCTGATCATTAGCGGCGC
66 TGGGATTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
51110561 TTTCTTAAAAAC
131 TTTCTTAAAAAC
51110573 GCCACTAATT
Statistics
Matches: 430, Mismatches: 50, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
340 71 0.17
341 324 0.75
342 35 0.08
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (341 bp):
TGAACATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGT
TGGGATTAGGTTTTTTTGCGGCGCTTTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
TTTCTTAAAAACACAGCTAAATCCCCAAAAGCTCAGAAAACGGCACCGTTGGGCTCAGGTTTTTT
TGCGGCGCTTTACCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
CTAAATCCCCGAGAGCTCAGAAAATGGCACTGCTGGGCTTAGTTTTTTTGCAGCGCTTTCCCAAA
AACGCCGCTAAAGCCC
Found at i:51110838 original size:18 final size:18
Alignment explanation
Indices: 51110812--51110854 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51110802 GACTCGAAAA
* *
51110812 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
51110830 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
51110848 AGGAAAC
1 AGGAAAC
51110855 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:51111487 original size:7 final size:7
Alignment explanation
Indices: 51111472--51111504 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
51111462 TTATATAAGT
51111472 AATACTA
1 AATACTA
*
51111479 AATATTA
1 AATACTA
51111486 AATACTA
1 AATACTA
51111493 AATACTA
1 AATACTA
51111500 AATAC
1 AATAC
51111505 CAATCGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:51111710 original size:20 final size:20
Alignment explanation
Indices: 51111673--51111710 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51111663 TTTATTTTTA
*
51111673 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
51111693 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
51111711 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:51112698 original size:51 final size:51
Alignment explanation
Indices: 51112643--51112740 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
51112633 AAAATTTTTA
51112643 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
51112694 AAATATGGATTTTAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
51112741 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:51112740 original size:11 final size:11
Alignment explanation
Indices: 51112716--51112771 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
51112706 TAGAGAAATT
*
51112716 TTGA-AGGAAT
1 TTGAGAGGAAA
*
51112726 TTGAGAGCAAA
1 TTGAGAGGAAA
51112737 TTGAGAGGAAA
1 TTGAGAGGAAA
* * *
51112748 TTTAGAAGACA
1 TTGAGAGGAAA
51112759 TTGAGAGGAAA
1 TTGAGAGGAAA
51112770 TT
1 TT
51112772 TGAAATAGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 4 0.11
11 32 0.89
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.25
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:51112745 original size:22 final size:23
Alignment explanation
Indices: 51112716--51112774 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
51112706 TAGAGAAATT
51112716 TTGA-AGG-AATTTGAG-AGCAAA
1 TTGAGAGGAAATTTGAGAAG-AAA
*
51112737 TTGAGAGGAAATTT-AGAAGACA
1 TTGAGAGGAAATTTGAGAAGAAA
51112759 TTGAGAGGAAATTTGA
1 TTGAGAGGAAATTTGA
51112775 AATAGGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.12
22 21 0.64
23 8 0.24
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.25
Consensus pattern (23 bp):
TTGAGAGGAAATTTGAGAAGAAA
Found at i:51113372 original size:7 final size:7
Alignment explanation
Indices: 51113360--51113424 Score: 78
Period size: 7 Copynumber: 9.1 Consensus size: 7
51113350 ACTAATTAAT
51113360 CTAAACC
1 CTAAACC
51113367 CTAAACCC
1 CTAAA-CC
51113375 CT-AACC
1 CTAAACC
*
51113381 CTTAACC
1 CTAAACC
*
51113388 CCAAACC
1 CTAAACC
51113395 CATAAACC
1 C-TAAACC
*
51113403 ATAAACC
1 CTAAACC
51113410 CTAAACC
1 CTAAACC
51113417 CTAAACC
1 CTAAACC
51113424 C
1 C
51113425 ATAATCCTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
6 4 0.08
7 37 0.74
8 9 0.18
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:51113387 original size:21 final size:22
Alignment explanation
Indices: 51113361--51113428 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
51113351 CTAATTAATC
* *
51113361 TAAACCCTAAACCCCT-AACCC
1 TAAACCCTAAACCCATAAACCA
* *
51113382 TTAACCCCAAACCCATAAACCA
1 TAAACCCTAAACCCATAAACCA
51113404 TAAACCCTAAACCC-TAAACCCA
1 TAAACCCTAAACCCATAAA-CCA
51113426 TAA
1 TAA
51113429 TCCTTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (22 bp):
TAAACCCTAAACCCATAAACCA
Found at i:51113631 original size:7 final size:7
Alignment explanation
Indices: 51113621--51113708 Score: 59
Period size: 7 Copynumber: 12.4 Consensus size: 7
51113611 AATCATAAAA
51113621 AAACCAT
1 AAACCAT
*
51113628 AAACCCTT
1 AAA-CCAT
*
51113636 AACCCAT
1 AAACCAT
*
51113643 AACCCAT
1 AAACCAT
*
51113650 AACCCAT
1 AAACCAT
* *
51113657 AATCCCT
1 AAACCAT
* *
51113664 AAATCTT
1 AAACCAT
**
51113671 AAACCCC
1 AAACCAT
51113678 AAACCAT
1 AAACCAT
51113685 AAACCAT
1 AAACCAT
* *
51113692 AATCCTT
1 AAACCAT
51113699 AAACCAT
1 AAACCAT
51113706 AAA
1 AAA
51113709 GCTCGATCTG
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
7 58 0.92
8 5 0.08
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:51114003 original size:40 final size:40
Alignment explanation
Indices: 51113948--51114107 Score: 178
Period size: 40 Copynumber: 4.0 Consensus size: 40
51113938 AATTCTTTTA
* * *
51113948 CGGCGTTTTTTAAAAAGCGCTACTAATGGTCGACCTATAG
1 CGGCATTTTTCAAAAAGCGCTACTAATGCTCGACCTATAG
* * * *
51113988 AGGCATTTTTCAAAAAGTGCCACTAATGCTAGACCTATAG
1 CGGCATTTTTCAAAAAGCGCTACTAATGCTCGACCTATAG
* * *
51114028 CGGTATTTTTCAAGAAGCGCTGCTAATGCTCGACCTATAG
1 CGGCATTTTTCAAAAAGCGCTACTAATGCTCGACCTATAG
* ** *
51114068 CGGCATTTTTTGAAAAA-CGCCGCTAATGCTCGATCTATAG
1 CGGCA-TTTTTCAAAAAGCGCTACTAATGCTCGACCTATAG
51114108 TGGTGTTTTT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
40 91 0.91
41 9 0.09
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
CGGCATTTTTCAAAAAGCGCTACTAATGCTCGACCTATAG
Found at i:51114094 original size:80 final size:80
Alignment explanation
Indices: 51113953--51114117 Score: 206
Period size: 80 Copynumber: 2.1 Consensus size: 80
51113943 TTTTACGGCG
* * *
51113953 TTTTTTAAAAAGCGCTACTAATGGTCGACCTATAGAGGCATTTTTCAAAAAGTGCCACTAATGCT
1 TTTTTCAAAAAGCGCTACTAATGCTCGACCTATAGAGGCATTTTTCAAAAAGCGCCACTAATGCT
51114018 AGACCTATAGCGGTA
66 AGACCTATAGCGGTA
* * * * *
51114033 TTTTTCAAGAAGCGCTGCTAATGCTCGACCTATAGCGGCATTTTTTGAAAAA-CGCCGCTAATGC
1 TTTTTCAAAAAGCGCTACTAATGCTCGACCTATAGAGGCA-TTTTTCAAAAAGCGCCACTAATGC
* * * *
51114097 TCGATCTATAGTGGTG
65 TAGACCTATAGCGGTA
51114113 TTTTT
1 TTTTT
51114118 ATCCAAACGC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 62 0.86
81 10 0.14
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (80 bp):
TTTTTCAAAAAGCGCTACTAATGCTCGACCTATAGAGGCATTTTTCAAAAAGCGCCACTAATGCT
AGACCTATAGCGGTA
Found at i:51118839 original size:50 final size:50
Alignment explanation
Indices: 51118776--51118876 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
51118766 TGTTCATGGC
** * * *
51118776 ACCATATTGTGTAAGACCATAACTAGTGGGCTATAGCGTCATATGCAAAG
1 ACCATATCATGTAAGACAATAACTAGTGCGCTATAGCATCATATGCAAAG
* * *
51118826 ACCATATCATGTAAGATAATAACTAGTGCGCTATGGCATCATATGGAAAG
1 ACCATATCATGTAAGACAATAACTAGTGCGCTATAGCATCATATGCAAAG
51118876 A
1 A
51118877 ACTAAAGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (50 bp):
ACCATATCATGTAAGACAATAACTAGTGCGCTATAGCATCATATGCAAAG
Found at i:51119046 original size:26 final size:27
Alignment explanation
Indices: 51118984--51119177 Score: 186
Period size: 27 Copynumber: 7.3 Consensus size: 27
51118974 AACACACCAA
*
51118984 GAAATGGAAGCATTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* * * * *
51119011 GAAGTGGAAGCTTTTGTGGC-GTGTCT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
*
51119037 GAAATGGAAGCATTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* *
51119064 GAAATGGAAGCCTTTATGGCGTATCTA-
1 GAAATGGAAGCCTTTGTGGC-AATCTAT
* **
51119091 -AAATGAAAGCCTTTGTGGTGTATCTA-
1 GAAATGGAAGCCTTTGTGG-CAATCTAT
*
51119117 -AAATAGAAG-CTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
*
51119142 GAAATGTAAGCCTTTGTGGCAATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
51119169 GGAAA-GGAA
1 -GAAATGGAA
51119178 TTTCCTCGTG
Statistics
Matches: 137, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
24 5 0.04
25 8 0.06
26 57 0.42
27 58 0.42
28 9 0.07
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (27 bp):
GAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:51119046 original size:53 final size:52
Alignment explanation
Indices: 51118984--51119177 Score: 198
Period size: 53 Copynumber: 3.7 Consensus size: 52
51118974 AACACACCAA
* *
51118984 GAAATGGAAGCATTTGTGGCAATCTATGAAGTGGAAGCTTTTGTGGCGTGTCT
1 GAAATGGAAGCATTTGTGGCAATCTATGAAATGGAAGC-TTTGTGGCGTATCT
*
51119037 GAAATGGAAGCATTTGTGGCAATCTATGAAATGGAAGCCTTTATGGCGTATCT
1 GAAATGGAAGCATTTGTGGCAATCTATGAAATGGAAG-CTTTGTGGCGTATCT
* * * ** * *
51119090 AAAATGAAAGCCTTTGTGGTGTATCTA--AAATAGAAGCTTTGTGGC-AATCTAT
1 GAAATGGAAGCATTTGTGG-CAATCTATGAAATGGAAGCTTTGTGGCGTATC--T
* *
51119142 GAAATGTAAGCCTTTGTGGCAATCTATGGAAA-GGAA
1 GAAATGGAAGCATTTGTGGCAATCTAT-GAAATGGAA
51119178 TTTCCTCGTG
Statistics
Matches: 118, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
50 3 0.03
51 13 0.11
52 26 0.22
53 67 0.57
54 9 0.08
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (52 bp):
GAAATGGAAGCATTTGTGGCAATCTATGAAATGGAAGCTTTGTGGCGTATCT
Found at i:51122402 original size:19 final size:19
Alignment explanation
Indices: 51122375--51122411 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51122365 TTTAAAAGCT
*
51122375 AAAGGAAGAAAAAAAGAGA
1 AAAGAAAGAAAAAAAGAGA
*
51122394 AAAGAAAGAAGAAAAGAG
1 AAAGAAAGAAAAAAAGAG
51122412 TTACATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAAAAGAGA
Found at i:51122406 original size:12 final size:12
Alignment explanation
Indices: 51122379--51122410 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51122369 AAAGCTAAAG
51122379 GAAGAAAA-AAA
1 GAAGAAAAGAAA
51122390 G-AGAAAAGAAA
1 GAAGAAAAGAAA
51122401 GAAGAAAAGA
1 GAAGAAAAGA
51122411 GTTACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.32
11 5 0.26
12 8 0.42
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
GAAGAAAAGAAA
Found at i:51124182 original size:50 final size:50
Alignment explanation
Indices: 51124090--51124188 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
51124080 AGTCTATAGC
* * * * **
51124090 ACCATATTGTGTAAGACCATAGCTGGTGGGCTACGATGTCATATGGAAAG
1 ACCATATCGTGTAAGACAATAGATGGTAGGCTACGACATCATATGGAAAG
* *
51124140 ACCATATCGTGTAAGACAATAGATGGTAGGTTATGACATCATATGGAAA
1 ACCATATCGTGTAAGACAATAGATGGTAGGCTACGACATCATATGGAAA
51124189 TAACTAAAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.26
Consensus pattern (50 bp):
ACCATATCGTGTAAGACAATAGATGGTAGGCTACGACATCATATGGAAAG
Found at i:51124335 original size:26 final size:26
Alignment explanation
Indices: 51124301--51124405 Score: 113
Period size: 26 Copynumber: 4.0 Consensus size: 26
51124291 CACTCTAGGA
* *
51124301 AATGAAAGCCTGTGTGGCAATCTATG
1 AATGGAAGCCTTTGTGGCAATCTATG
** *
51124327 AATGGAAGCCTTTGTGGTGTATCTA-A
1 AATGGAAGCCTTTGTGG-CAATCTATG
* *
51124353 AATGGAAGCCTTTGTAGAAATCTATG
1 AATGGAAGCCTTTGTGGCAATCTATG
*
51124379 AAATGGAAGCCTTTGAGGCAATCTATG
1 -AATGGAAGCCTTTGTGGCAATCTATG
51124406 GAAATGAATG
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
25 5 0.08
26 31 0.48
27 28 0.44
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (26 bp):
AATGGAAGCCTTTGTGGCAATCTATG
Found at i:51124401 original size:27 final size:27
Alignment explanation
Indices: 51124294--51124411 Score: 109
Period size: 27 Copynumber: 4.4 Consensus size: 27
51124284 TCGTGAACAC
* * * *
51124294 TCTAGGAAATGAAAGCCTGTGTGGCAA
1 TCTATGAAATGGAAGCCTTTGAGGCAA
* **
51124321 TCTATG-AATGGAAGCCTTTGTGGTGTA
1 TCTATGAAATGGAAGCCTTTGAGG-CAA
*
51124348 TCTA--AAATGGAAGCCTTTGTA-GAAA
1 TCTATGAAATGGAAGCCTTTG-AGGCAA
51124373 TCTATGAAATGGAAGCCTTTGAGGCAA
1 TCTATGAAATGGAAGCCTTTGAGGCAA
51124400 TCTATGGAAATG
1 TCTAT-GAAATG
51124412 AATGTCTTCG
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
25 5 0.07
26 31 0.41
27 33 0.44
28 6 0.08
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (27 bp):
TCTATGAAATGGAAGCCTTTGAGGCAA
Found at i:51124403 original size:52 final size:52
Alignment explanation
Indices: 51124300--51124403 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
51124290 ACACTCTAGG
* * * **
51124300 AAATGAAAGCCTGTGTGGCAATCTATGAATGGAAGCCTTTGTGGTGTATCTA
1 AAATGAAAGCCTGTGTAGAAATCTATGAATGGAAGCCTTTGAGGTCAATCTA
* *
51124352 AAATGGAAGCCTTTGTAGAAATCTATGAAATGGAAGCCTTTGAGG-CAATCTA
1 AAATGAAAGCCTGTGTAGAAATCTATG-AATGGAAGCCTTTGAGGTCAATCTA
51124404 TGGAAATGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 28 0.64
53 16 0.36
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (52 bp):
AAATGAAAGCCTGTGTAGAAATCTATGAATGGAAGCCTTTGAGGTCAATCTA
Found at i:51124547 original size:27 final size:27
Alignment explanation
Indices: 51124517--51124576 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
51124507 GTGAAAATCC
** * *
51124517 CTGAAGAAACAATATGTGTGGCTAACT
1 CTGAAGAAACAATACATATGGCAAACT
* *
51124544 CTGAAGGAATAATACATATGGCAAACT
1 CTGAAGAAACAATACATATGGCAAACT
51124571 CTGAAG
1 CTGAAG
51124577 GAATAGTACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (27 bp):
CTGAAGAAACAATACATATGGCAAACT
Found at i:51124597 original size:27 final size:27
Alignment explanation
Indices: 51124535--51124611 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
51124525 ACAATATGTG
* * *
51124535 TGGCTAACTCTGAAGGAATAATACATA
1 TGGCAAACTCTGAAGGAATAGTACAAA
51124562 TGGCAAACTCTGAAGGAATAGTACAAA
1 TGGCAAACTCTGAAGGAATAGTACAAA
** * *
51124589 TGGTGAACTCTAAATGAATAGTA
1 TGGCAAACTCTGAAGGAATAGTA
51124612 TGTATGGCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.25
Consensus pattern (27 bp):
TGGCAAACTCTGAAGGAATAGTACAAA
Found at i:51127332 original size:138 final size:137
Alignment explanation
Indices: 51127084--51127431 Score: 511
Period size: 138 Copynumber: 2.5 Consensus size: 137
51127074 CACCTATGTG
* ** *
51127084 AATTATTTTAATTAATTTCGGTCAAAATATAAAAGAAATGAAACTTAATATTCTTTTGGAAAGAA
1 AATTATATTAATTAATTTTAGTCAAAATATAAAAGAATTGAAA-TTAATATTCTTTTGGAAAGAA
* *
51127149 TATAATTAATATATGAATTTGATTTATACAAAATATTGATTGTATATATTTTACTC-AATTTATT
65 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC-CGAATTTATT
51127213 AATATAAAC
129 AATATAAAC
* **
51127222 AATTATATTAATTAATTTTAGTCAAAATATAAAAGATATTGAAATTAATATTATTTTTAAAAGAA
1 AATTATATTAATTAATTTTAGTCAAAATATAAAAGA-ATTGAAATTAATATTCTTTTGGAAAGAA
* * *
51127287 TATAATTAGTATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTGCCGAATTTATTA
65 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
51127352 ATATAAAC
130 ATATAAAC
* *
51127360 AGTTATATTAATTAA-TTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGA
1 AATTATATTAATTAATTTTA-GTCAAAATATAAAAGA-ATTGAAATTAATATTCTTTTGGAAAGA
51127424 ATATAATT
64 ATATAATT
51127432 CATTTTTATA
Statistics
Matches: 189, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
137 5 0.03
138 178 0.94
139 6 0.03
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (137 bp):
AATTATATTAATTAATTTTAGTCAAAATATAAAAGAATTGAAATTAATATTCTTTTGGAAAGAAT
ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAA
TATAAAC
Found at i:51127502 original size:79 final size:79
Alignment explanation
Indices: 51127410--51127639 Score: 415
Period size: 79 Copynumber: 2.9 Consensus size: 79
51127400 GAAATTAATA
*
51127410 TTCTTTTGGAAAGAATATAATTCATTTTTATAACTTTCCATTTGCCTTCTCTATTAATAAGAGAA
1 TTCTTTTGGAAAGAATATAATTCCTTTTTATAACTTTCCATTTGCCTTCTCTATTAATAAGAGAA
51127475 TAATCCTATATTCT
66 TAATCCTATATTCT
51127489 TTCTTTTGGAAAGAATATAATTCCTTTTTATAACTTTCCATTTGCCTTCTCTATTAATAAGAGAA
1 TTCTTTTGGAAAGAATATAATTCCTTTTTATAACTTTCCATTTGCCTTCTCTATTAATAAGAGAA
51127554 TAATCCTATATTCT
66 TAATCCTATATTCT
* * * *
51127568 TTCTTTTGGAAAGAATATAATTCCTTTTTCTAGCTTGCCATTTGCCTTCTCTATTAATAAGGGAA
1 TTCTTTTGGAAAGAATATAATTCCTTTTTATAACTTTCCATTTGCCTTCTCTATTAATAAGAGAA
51127633 TAATCCT
66 TAATCCT
51127640 GGTTTTCCTT
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 146 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (79 bp):
TTCTTTTGGAAAGAATATAATTCCTTTTTATAACTTTCCATTTGCCTTCTCTATTAATAAGAGAA
TAATCCTATATTCT
Found at i:51131114 original size:19 final size:19
Alignment explanation
Indices: 51131090--51131129 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
51131080 AAGAAACAAG
51131090 TAAATATAGTTAAACATAA
1 TAAATATAGTTAAACATAA
51131109 TAAATATAGTTAAACATAA
1 TAAATATAGTTAAACATAA
51131128 TA
1 TA
51131130 CACCATCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATATAGTTAAACATAA
Found at i:51138471 original size:13 final size:13
Alignment explanation
Indices: 51138453--51138501 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
51138443 GTTTGGTGAG
*
51138453 GAAAGATTTGCTT
1 GAAAGATTTGCCT
51138466 GAAAGATTTGCCT
1 GAAAGATTTGCCT
51138479 GAAAGATTTGCCT
1 GAAAGATTTGCCT
* *
51138492 AAAAGCTTTG
1 GAAAGATTTG
51138502 ATATCACATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (13 bp):
GAAAGATTTGCCT
Found at i:51139875 original size:29 final size:29
Alignment explanation
Indices: 51139821--51140020 Score: 172
Period size: 29 Copynumber: 6.9 Consensus size: 29
51139811 TGTATAAGTG
* * * *
51139821 AGCCTTTATGGTTATTTGTGTGAAAAGAA
1 AGCCTTTATGGTGATCTCTGTTAAAAGAA
* * * *
51139850 ACCCTTTGTGGTGAGCTCTGTTAAAAGGA
1 AGCCTTTATGGTGATCTCTGTTAAAAGAA
* *
51139879 AGTCTTTATGGTGATCTCTGTTAAAAGGA
1 AGCCTTTATGGTGATCTCTGTTAAAAGAA
*
51139908 AGTCTTTATGGTGATCTCTGTTAAAA-AGA
1 AGCCTTTATGGTGATCTCTGTTAAAAGA-A
*
51139937 AGCCTTTATGGTCATCTCTGTTAAAAGAA
1 AGCCTTTATGGTGATCTCTGTTAAAAGAA
* * * * *
51139966 TGTCTTTGTGGCT-ATCTCAGTTAAATGAA
1 AGCCTTTATGG-TGATCTCTGTTAAAAGAA
* * * *
51139995 TGCC-TTGTGGTAAACTCTGTTAAAAG
1 AGCCTTTATGGTGATCTCTGTTAAAAG
51140021 GATGCCTTGT
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.01
28 17 0.12
29 123 0.86
30 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (29 bp):
AGCCTTTATGGTGATCTCTGTTAAAAGAA
Found at i:51139983 original size:58 final size:58
Alignment explanation
Indices: 51139821--51140020 Score: 192
Period size: 58 Copynumber: 3.5 Consensus size: 58
51139811 TGTATAAGTG
* * * * *** * *
51139821 AGCCTTTATGGTTATTTGTGTGAAAAGAAACCCTTTGTGGTGAGCTCTGTTAAAAGGA
1 AGCCTTTATGGTAATCTCTGTTAAAAGAATGTCTTTGTGGTGATCTCTGTTAAAAAGA
* * *
51139879 AGTCTTTATGGTGATCTCTGTTAAAAGGAA-GTCTTTATGGTGATCTCTGTTAAAAAGA
1 AGCCTTTATGGTAATCTCTGTTAAAA-GAATGTCTTTGTGGTGATCTCTGTTAAAAAGA
* * *
51139937 AGCCTTTATGGTCATCTCTGTTAAAAGAATGTCTTTGTGGCT-ATCTCAGTT-AAATGA
1 AGCCTTTATGGTAATCTCTGTTAAAAGAATGTCTTTGTGG-TGATCTCTGTTAAAAAGA
* *
51139994 ATGCC-TTGTGGTAAACTCTGTTAAAAG
1 A-GCCTTTATGGTAATCTCTGTTAAAAG
51140021 GATGCCTTGT
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
57 28 0.23
58 88 0.73
59 4 0.03
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (58 bp):
AGCCTTTATGGTAATCTCTGTTAAAAGAATGTCTTTGTGGTGATCTCTGTTAAAAAGA
Found at i:51140016 original size:28 final size:28
Alignment explanation
Indices: 51139952--51140033 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
51139942 TTATGGTCAT
* *
51139952 CTCTGTTAAAAGAATGTCTTTGTGGCTAT
1 CTCTGTTAAAAGAATG-CCTTGTGGCTAA
* *
51139981 CTCAGTTAAATGAATGCCTTGTGG-TAAA
1 CTCTGTTAAAAGAATGCCTTGTGGCT-AA
*
51140009 CTCTGTTAAAAGGATGCCTTGTGGC
1 CTCTGTTAAAAGAATGCCTTGTGGC
51140034 AAGACTTTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 29 0.66
29 14 0.32
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (28 bp):
CTCTGTTAAAAGAATGCCTTGTGGCTAA
Found at i:51140089 original size:28 final size:28
Alignment explanation
Indices: 51140027--51140090 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
51140017 AAAGGATGCC
*
51140027 TTGTGGCAAGACTTTGAAAGGAAAGTCT
1 TTGTGGCAAGACTTTGAAAGGAAAGCCT
* * * *
51140055 CTATGGCTA-ACTTTGGAAAGGAACGCCT
1 TTGTGGCAAGACTTT-GAAAGGAAAGCCT
51140083 TTGTGGCA
1 TTGTGGCA
51140091 GAATCTGAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
TTGTGGCAAGACTTTGAAAGGAAAGCCT
Found at i:51142165 original size:14 final size:14
Alignment explanation
Indices: 51142146--51142177 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
51142136 AGTTCGTCTG
51142146 GAGAGACAATGCTA
1 GAGAGACAATGCTA
51142160 GAGAGACAATGCTA
1 GAGAGACAATGCTA
51142174 GAGA
1 GAGA
51142178 AGTAGTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.12
Consensus pattern (14 bp):
GAGAGACAATGCTA
Found at i:51142755 original size:13 final size:12
Alignment explanation
Indices: 51142740--51142775 Score: 63
Period size: 13 Copynumber: 2.9 Consensus size: 12
51142730 TTTTTATGCT
51142740 TTTTCATTTTTA
1 TTTTCATTTTTA
51142752 TTTTCTATTTTTA
1 TTTTC-ATTTTTA
51142765 TTTTCATTTTT
1 TTTTCATTTTT
51142776 TTTCTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCATTTTTA
Found at i:51163393 original size:26 final size:26
Alignment explanation
Indices: 51163357--51163424 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
51163347 TTTACATTGT
* *
51163357 TGCTCAGACGAGCTGTGAAATGAGTC
1 TGCTCACACGAGCTGTGAAATGAGGC
*
51163383 TGCTCACACGAGCTGTGAAATGGGGC
1 TGCTCACACGAGCTGTGAAATGAGGC
51163409 TGCTCACACGAGCTGT
1 TGCTCACACGAGCTGT
51163425 AGGTAGGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGAGGC
Found at i:51169062 original size:68 final size:65
Alignment explanation
Indices: 51168877--51169074 Score: 183
Period size: 65 Copynumber: 3.0 Consensus size: 65
51168867 ATATGATGCC
* * *
51168877 ATGTTTACTG-TCCTAGAGGACTTCATATGTTGTCATAACCCAGCTATGGTCTTACACAAT-ATG
1 ATGTTTA-TGATCCTGGCGGACTTCATATGTTGTCAT-AGCCAGCTATGGTCTTACACAATAATG
51168940 AT
64 AT
* * * *
51168942 ATGTTTATGATCCTGGCGGACTTCAAATGTTGTCATAGCCAAACTTTAGTCTTACACAATACAAT
1 ATGTTTATGATCCTGGCGGACTTCATATGTTGTCATAGCC-AGCTATGGTCTTACACAAT--AAT
51169007 G-T
63 GAT
** *
51169009 CATGTTTATTCTCTTGG-GGAACTTCATATGTTGTCGA-AGCTCAGCTATGGTCTTACACAAT-A
1 -ATGTTTATGATCCTGGCGG-ACTTCATATGTTGTC-ATAGC-CAGCTATGGTCTTACACAATAA
51169071 TGAT
62 TGAT
51169075 TTCATGTTTT
Statistics
Matches: 109, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
64 5 0.05
65 49 0.45
66 1 0.01
67 3 0.03
68 49 0.45
69 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (65 bp):
ATGTTTATGATCCTGGCGGACTTCATATGTTGTCATAGCCAGCTATGGTCTTACACAATAATGAT
Found at i:51169080 original size:68 final size:66
Alignment explanation
Indices: 51168861--51169083 Score: 204
Period size: 68 Copynumber: 3.3 Consensus size: 66
51168851 GTTCGCATCA
* * * * *
51168861 TACACTATATGATGCCATGTTTACTG-TCCTAGAGGACTTCATATGTTGTCATAACCCAGCTATG
1 TACACAATATGAT-TCATGTTTA-TGATCCTGGCGGACTTCATATGTTGTCAT-AGCCAGCTATG
51168925 GTCT
63 GTCT
* * * *
51168929 TACACAATATGA-T-ATGTTTATGATCCTGGCGGACTTCAAATGTTGTCATAGCCAAACTTTAGT
1 TACACAATATGATTCATGTTTATGATCCTGGCGGACTTCATATGTTGTCATAGCC-AGCTATGGT
51168992 CT
65 CT
** ** *
51168994 TACACAATACAATGTCATGTTTATTCTCTTGG-GGAACTTCATATGTTGTCGA-AGCTCAGCTAT
1 TACACAATATGAT-TCATGTTTATGATCCTGGCGG-ACTTCATATGTTGTC-ATAGC-CAGCTAT
51169057 GGTCT
62 GGTCT
51169062 TACACAATATGATTTCATGTTT
1 TACACAATATGA-TTCATGTTT
51169084 TCCTATGGAC
Statistics
Matches: 126, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
64 5 0.04
65 48 0.38
67 3 0.02
68 67 0.53
69 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (66 bp):
TACACAATATGATTCATGTTTATGATCCTGGCGGACTTCATATGTTGTCATAGCCAGCTATGGTC
T
Found at i:51182792 original size:22 final size:22
Alignment explanation
Indices: 51182766--51182821 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
51182756 CAGATTTTAT
***
51182766 TATTTTAATTATATTTTTAAAG
1 TATTTTAATTATATCAATAAAG
51182788 TATTTATAA-TATATCAATAAAG
1 TATTT-TAATTATATCAATAAAG
*
51182810 TCTTTTAATTAT
1 TATTTTAATTAT
51182822 TAAAACTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.11
22 22 0.79
23 3 0.11
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (22 bp):
TATTTTAATTATATCAATAAAG
Found at i:51186443 original size:15 final size:15
Alignment explanation
Indices: 51186425--51186472 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
51186415 AATTTAAAAA
51186425 TTAATTTTTTATATT
1 TTAATTTTTTATATT
*
51186440 TTAATTTTTAATATAAT
1 TTAATTTTT--TATATT
*
51186457 TT-AGTTTTTATATT
1 TTAATTTTTTATATT
51186471 TT
1 TT
51186473 TATAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 9 0.32
16 5 0.18
17 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAATTTTTTATATT
Found at i:51186459 original size:17 final size:16
Alignment explanation
Indices: 51186425--51186469 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
51186415 AATTTAAAAA
*
51186425 TTAATTTTT-TATATT
1 TTAATTTTTATATAAT
51186440 TTAATTTTTAATATAAT
1 TTAATTTTT-ATATAAT
*
51186457 TTAGTTTTTATAT
1 TTAATTTTTATAT
51186470 TTTTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 4 0.15
17 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTAATTTTTATATAAT
Found at i:51187112 original size:18 final size:20
Alignment explanation
Indices: 51187073--51187112 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
51187063 GGTAGGAAGT
*
51187073 TTTATATATAATTATTTATA
1 TTTATATATAAGTATTTATA
51187093 TTTATATA-AAGTATTT-TA
1 TTTATATATAAGTATTTATA
51187111 TT
1 TT
51187113 AAGTCGACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTATATATAAGTATTTATA
Found at i:51189161 original size:39 final size:38
Alignment explanation
Indices: 51189102--51189193 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 38
51189092 GTCAATTGTT
*
51189102 ATGTGATATATGCTTGAATGTTATGTGATCATATGAGTA
1 ATGTGATATATG-TTAAATGTTATGTGATCATATGAGTA
* * *
51189141 TTGTGATATATGTTCAAATGTTATGTGATTATATGTGTA
1 ATGTGATATATGTT-AAATGTTATGTGATCATATGAGTA
*
51189180 ATGTGACATATGTT
1 ATGTGATATATGTT
51189194 TAAAAGTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.04
39 44 0.96
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (38 bp):
ATGTGATATATGTTAAATGTTATGTGATCATATGAGTA
Found at i:51189183 original size:22 final size:21
Alignment explanation
Indices: 51189098--51189176 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 21
51189088 AAGTGTCAAT
*
51189098 TGTTATGTGATATATGCTTGAA
1 TGTTATGTGATATATG-TTAAA
51189120 TGTTATGTGATCATATG----A
1 TGTTATGTGAT-ATATGTTAAA
51189138 -G-TATTGTGATATATGTTCAAA
1 TGTTA-TGTGATATATGTT-AAA
51189159 TGTTATGTGATTATATGT
1 TGTTATGTGA-TATATGT
51189177 GTAATGTGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
16 7 0.15
17 7 0.15
18 1 0.02
21 1 0.02
22 17 0.36
23 14 0.30
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.47
Consensus pattern (21 bp):
TGTTATGTGATATATGTTAAA
Found at i:51193983 original size:26 final size:26
Alignment explanation
Indices: 51193945--51194006 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
51193935 CCTGTAAGTG
*
51193945 TTCTGAAATTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
51193971 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
51193997 TTCTTAAACT
1 TTCTGAAACT
51194007 ACTGTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:51199018 original size:30 final size:30
Alignment explanation
Indices: 51198984--51199048 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
51198974 AATATATAAT
51198984 AAATATTTATTTTTTATTTTTTTAATTTTA
1 AAATATTTATTTTTTATTTTTTTAATTTTA
*
51199014 AAATATTTATTTTTTATTTTTTTATTTTTA
1 AAATATTTATTTTTTATTTTTTTAATTTTA
51199044 AAATA
1 AAATA
51199049 AATTTTTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (30 bp):
AAATATTTATTTTTTATTTTTTTAATTTTA
Found at i:51199055 original size:29 final size:30
Alignment explanation
Indices: 51198991--51199055 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
51198981 AATAAATATT
**
51198991 TATTTTTTATTTTTTTAATTTTAAAATATT
1 TATTTTTTATTTTTTTAATTTTAAAATAAA
*
51199021 TATTTTTTATTTTTTTATTTTTAAAATAAA
1 TATTTTTTATTTTTTTAATTTTAAAATAAA
51199051 T-TTTT
1 TATTTT
51199056 GGTGTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (30 bp):
TATTTTTTATTTTTTTAATTTTAAAATAAA
Found at i:51203073 original size:19 final size:19
Alignment explanation
Indices: 51203049--51203087 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
51203039 GCAAAATAGG
* *
51203049 ATAAAATGGTAATTTTGTT
1 ATAAAAGGGTAATTTGGTT
51203068 ATAAAAGGGTAATTTGGTT
1 ATAAAAGGGTAATTTGGTT
51203087 A
1 A
51203088 ATTGTGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (19 bp):
ATAAAAGGGTAATTTGGTT
Found at i:51212674 original size:12 final size:12
Alignment explanation
Indices: 51212657--51212682 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51212647 AACATCACCA
51212657 AAATAAATGTCC
1 AAATAAATGTCC
51212669 AAATAAATGTCC
1 AAATAAATGTCC
51212681 AA
1 AA
51212683 TCTCCACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATAAATGTCC
Found at i:51214530 original size:20 final size:20
Alignment explanation
Indices: 51214505--51214542 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51214495 TGTTATTTAA
*
51214505 TTAATAAAATAAATAAAAGG
1 TTAATAAAATAAAGAAAAGG
51214525 TTAATAAAATAAAGAAAA
1 TTAATAAAATAAAGAAAA
51214543 CATGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAATAAAATAAAGAAAAGG
Found at i:51215432 original size:87 final size:88
Alignment explanation
Indices: 51215284--51215477 Score: 275
Period size: 87 Copynumber: 2.2 Consensus size: 88
51215274 TATCGGCGAT
51215284 CATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACAGCCATCAAC
1 CATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACAGCCATCAAC
51215349 T-ATGAAAAGGGATGATGACGAC
66 TAATGAAAAGGGATGATGACGAC
* * ** *
51215371 CATCGAATCTGAAAGGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGAC-GACCATCGA
1 CATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACAG-CCATCAA
* * **
51215435 TTAATGAAAAGGGATGGTTTCGAC
65 CTAATGAAAAGGGATGATGACGAC
*
51215459 CATTGAATATGAAAAGGGA
1 CATCGAATATGAAAAGGGA
51215478 CAGTTACGAC
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.01
87 58 0.62
88 34 0.37
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (88 bp):
CATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACAGCCATCAAC
TAATGAAAAGGGATGATGACGAC
Found at i:51215487 original size:29 final size:29
Alignment explanation
Indices: 51215284--51215491 Score: 156
Period size: 29 Copynumber: 7.1 Consensus size: 29
51215274 TATCGGCGAT
*
51215284 CATCGAATATGAAAAGGGATAGCTT-C-AGC
1 CATCGAATATGAAAAGGGAT-GGTTACGA-C
* * *
51215313 TATCGATTATGAAAAGGGATGGTGAC-AGC
1 CATCGAATATGAAAAGGGATGGTTACGA-C
* *
51215342 CATC-AACTATGAAAAGGGATGATGACGAC
1 CATCGAA-TATGAAAAGGGATGGTTACGAC
* * * * *
51215371 CATCGAATCTGAAAGGGGATAGCTT-TGGC
1 CATCGAATATGAAAAGGGAT-GGTTACGAC
* * *
51215400 TATCGATTATGAAAAGGGATGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTTACGAC
* *
51215429 CATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGAAT-ATGAAAAGGGATGGTTACGAC
* **
51215459 CATTGAATATGAAAAGGGACAGTTACGAC
1 CATCGAATATGAAAAGGGATGGTTACGAC
51215488 CATC
1 CATC
51215492 TTTTAGCACA
Statistics
Matches: 142, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
28 5 0.04
29 107 0.75
30 30 0.21
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.23
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTACGAC
Found at i:51232180 original size:5 final size:5
Alignment explanation
Indices: 51232170--51232203 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
51232160 ATAGTTGTTA
*
51232170 AAATT AAATT AAATT AAATT AAATT AAACT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAAT
51232204 GCAAATGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:51237163 original size:23 final size:23
Alignment explanation
Indices: 51237137--51237258 Score: 192
Period size: 23 Copynumber: 5.3 Consensus size: 23
51237127 ATAAGTGCAA
51237137 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
51237160 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
51237183 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
51237206 CACT-ATTATGTAGCCGAAGCTAC
1 CACTGA-TATGTAGCCGAAGCTAC
* *
51237229 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
51237252 CACTGAT
1 CACTGAT
51237259 CAATAACACT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
22 1 0.01
23 88 0.98
24 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:51237204 original size:46 final size:46
Alignment explanation
Indices: 51237137--51237256 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
51237127 ATAAGTGCAA
*
51237137 CACTGATATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
*
51237183 CACTGAAATGTAGCCGAAGCTACCACTATTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
*
51237229 CACTGAAACGTAGCCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
51237257 ATCAATAACA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
Found at i:51249357 original size:24 final size:24
Alignment explanation
Indices: 51249325--51249373 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
51249315 CCCCCACAGG
51249325 CACATCTTTCGTTAATTTGACCAA
1 CACATCTTTCGTTAATTTGACCAA
51249349 CACATCTTTCGTTAATTTGACCAA
1 CACATCTTTCGTTAATTTGACCAA
51249373 C
1 C
51249374 TAGTGTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.37
Consensus pattern (24 bp):
CACATCTTTCGTTAATTTGACCAA
Found at i:51250220 original size:19 final size:19
Alignment explanation
Indices: 51250185--51250240 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
51250175 TTGATAATTC
*
51250185 TTAATT-ATTTTTATTTTAA
1 TTAATTAATTATT-TTTTAA
*
51250204 TTAATTAATTATTTTTTAT
1 TTAATTAATTATTTTTTAA
* *
51250223 TTACTTAA-AATTTTTTAA
1 TTAATTAATTATTTTTTAA
51250241 ATACCTTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 8 0.26
19 18 0.58
20 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAATTAATTATTTTTTAA
Found at i:51253648 original size:19 final size:19
Alignment explanation
Indices: 51253621--51253661 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
51253611 CAGAGCTAAA
*
51253621 AGAGTTGAGAGAGAGGATG
1 AGAGATGAGAGAGAGGATG
* *
51253640 AGAGATGAGAGGGATGATG
1 AGAGATGAGAGAGAGGATG
51253659 AGA
1 AGA
51253662 TGAGGGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.15
Consensus pattern (19 bp):
AGAGATGAGAGAGAGGATG
Found at i:51253651 original size:15 final size:16
Alignment explanation
Indices: 51253626--51253673 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
51253616 CTAAAAGAGT
51253626 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
51253641 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
51253657 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
51253672 TG
1 TG
51253674 GATAAAGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 6 0.20
17 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:51255039 original size:5 final size:5
Alignment explanation
Indices: 51255029--51255053 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51255019 TTTGTGATTG
51255029 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
51255054 GCAAGAGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:51255871 original size:23 final size:22
Alignment explanation
Indices: 51255840--51255887 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
51255830 TTGCAAATAT
*
51255840 TAAACCCTAATTAC-TAAAGAAA
1 TAAACCCTAAATACTTAAA-AAA
51255862 TAAATCCCTAAATACTTAAAAAA
1 TAAA-CCCTAAATACTTAAAAAA
51255885 TAA
1 TAA
51255888 TTAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAATACTTAAAAAA
Found at i:51264626 original size:19 final size:19
Alignment explanation
Indices: 51264598--51264639 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
51264588 TGAGAGCTAA
*
51264598 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
*
51264617 GAGAGATGAGAGAGATGAT
1 GAGAGATGAGAGAGAGGAT
51264636 GAGA
1 GAGA
51264640 TGAGTGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:51264629 original size:17 final size:17
Alignment explanation
Indices: 51264604--51264643 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
51264594 CTAAGAGAGT
51264604 TGAGA-GAGAG-GATGA
1 TGAGATGAGAGAGATGA
51264619 -GAGATGAGAGAGATGA
1 TGAGATGAGAGAGATGA
51264635 TGAGATGAG
1 TGAGATGAG
51264644 TGATGATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 5 0.23
16 5 0.23
17 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.15
Consensus pattern (17 bp):
TGAGATGAGAGAGATGA
Found at i:51264636 original size:12 final size:13
Alignment explanation
Indices: 51264614--51264649 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
51264604 TGAGAGAGAG
51264614 GATGAGA-GATGA
1 GATGAGATGATGA
51264626 GA-GAGATGATGA
1 GATGAGATGATGA
51264638 GATGAG-TGATGA
1 GATGAGATGATGA
51264650 TGGATAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.18
12 15 0.68
13 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (13 bp):
GATGAGATGATGA
Found at i:51276926 original size:38 final size:38
Alignment explanation
Indices: 51276884--51276956 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
51276874 AGTTTTACGA
*
51276884 TTCACGTAGTAGCCTTCACATAGTACTACACACGTCGG
1 TTCACATAGTAGCCTTCACATAGTACTACACACGTCGG
51276922 TTCACATAGTAGCCTTCACATAGTACTACACACGT
1 TTCACATAGTAGCCTTCACATAGTACTACACACGT
51276957 GACCAAAGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (38 bp):
TTCACATAGTAGCCTTCACATAGTACTACACACGTCGG
Found at i:51277098 original size:102 final size:102
Alignment explanation
Indices: 51276922--51277161 Score: 390
Period size: 102 Copynumber: 2.4 Consensus size: 102
51276912 CACACGTCGG
* * * *
51276922 TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
1 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCC
* *
51276987 TTCACTTAGTACTACACATGTGATCATCATTTATCGA
66 TTCACTTAGTACTACACATGTGACCATCATTTAGCGA
* *
51277024 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTATACATTGTAGCC
1 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCC
51277089 TTCACTTAGTACTACACATGTGACCATCATTTAGCGA
66 TTCACTTAGTACTACACATGTGACCATCATTTAGCGA
**
51277126 TTCACGTAGTAGCCTTCACACAACACTACACACGTG
1 TTCACGTAGTAGCCTTCACACAGTACTACACACGTG
51277162 TTCATCGATA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 128 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (102 bp):
TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCC
TTCACTTAGTACTACACATGTGACCATCATTTAGCGA
Found at i:51277138 original size:51 final size:51
Alignment explanation
Indices: 51276922--51277161 Score: 243
Period size: 51 Copynumber: 4.7 Consensus size: 51
51276912 CACACGTCGG
*
51276922 TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGG
1 TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATAA--TTTATCGA
* * * * *
51276973 TACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGA
1 TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTATCGA
* * * * * *
51277024 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGG
1 TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTATCGA
* * * * *
51277075 TAT-ACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTAGCGA
1 T-TCACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTATCGA
* * **
51277126 TTCACGTAGTAGCCTTCACACAACACTACACACGTG
1 TTCACATAGTAGCCTTCACATAGTACTACACACGTG
51277162 TTCATCGATA
Statistics
Matches: 150, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
50 4 0.03
51 144 0.96
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (51 bp):
TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTATCGA
Found at i:51283918 original size:27 final size:27
Alignment explanation
Indices: 51283888--51283945 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
51283878 ATTGCACTGT
51283888 ATTGATAATTATTGGGCTAAGGCCCAC
1 ATTGATAATTATTGGGCTAAGGCCCAC
* *
51283915 ATTGTTACTTATTGGGCTAAGGCCCAC
1 ATTGATAATTATTGGGCTAAGGCCCAC
51283942 ATTG
1 ATTG
51283946 TACCATTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (27 bp):
ATTGATAATTATTGGGCTAAGGCCCAC
Found at i:51291664 original size:26 final size:26
Alignment explanation
Indices: 51291625--51291714 Score: 117
Period size: 26 Copynumber: 3.5 Consensus size: 26
51291615 AGTATAATGC
* * *
51291625 TACTGGCAGCTTTGCTCCGATATTGT
1 TACTGGCAGCTTTGCTACGATACTAT
* *
51291651 TACTGGCAGTTTTGCTATGATACTAT
1 TACTGGCAGCTTTGCTACGATACTAT
*
51291677 TACTGGCAGCTTTGCTATGATACTAT
1 TACTGGCAGCTTTGCTACGATACTAT
*
51291703 TATTGGCAGCTT
1 TACTGGCAGCTT
51291715 GGCAGCAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTACGATACTAT
Found at i:51298469 original size:26 final size:27
Alignment explanation
Indices: 51298408--51298474 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
51298398 CAATTTGACC
*
51298408 CACAGCTCGTGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCAGACCCATTTT
* * *
51298435 CATAGCTCGTGTGAGCATACTC-TTTT
1 CACAGCTCGTGTGAGCAGACCCATTTT
* *
51298461 CACATCTCGCGTGA
1 CACAGCTCGTGTGA
51298475 AAATATATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 15 0.45
27 18 0.55
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.30
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCAGACCCATTTT
Done.