Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 43 of 284
Found at i:15217810 original size:86 final size:86
Alignment explanation
Indices: 15217662--15217964 Score: 376
Period size: 86 Copynumber: 3.7 Consensus size: 86
15217652 ACATAGGATT
* * *
15217662 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTAGCATTGAAATGTGATTACGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGTAAG
* * *
15217727 ACCACATCTGAGACGTTGTCA
66 ACCACGTCTGGGACGTTGGCA
* *
15217748 TCAATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGTAAG
* *
15217813 ACCACGGCTGGGACATTGGCA
66 ACCACGTCTGGGACGTTGGCA
*
15217834 TTGATATGTGATTAC--GTAAGACCACGTCTAGGACG-T----T---TATGTGATTACGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGTAAG
*
15217889 A-CACGTCTGGGATGTTGGCA
66 ACCACGTCTGGGACGTTGGCA
* * ** *
15217909 TCGATATGTGATTACGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATT
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATT
15217965 CCGATATGTG
Statistics
Matches: 186, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
75 30 0.16
76 19 0.10
77 17 0.09
78 1 0.01
79 1 0.01
82 1 0.01
83 1 0.01
84 19 0.10
85 8 0.04
86 89 0.48
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (86 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGTAAG
ACCACGTCTGGGACGTTGGCA
Found at i:15217919 original size:75 final size:77
Alignment explanation
Indices: 15217795--15217937 Score: 227
Period size: 75 Copynumber: 1.9 Consensus size: 77
15217785 TTGGCATCGA
*
15217795 TATGTGATTACGTGTAAGACCACGGCTGGGACATTGGCATTGATATGTGATTAC-GTAAGACCAC
1 TATGTGATTACGTGTAAGACCACGGCTGGGACATTGGCATCGATATGTGATTACAGTAAGACCAC
15217859 GTCTAGGACGTT
66 GTCTAGGACGTT
* **
15217871 TATGTGATTACGTGTAAGA-CACGTCTGGGATGTTGGCATCGATATGTGATTACGAGTAAGACCA
1 TATGTGATTACGTGTAAGACCACGGCTGGGACATTGGCATCGATATGTGATTAC-AGTAAGACCA
15217935 CGT
65 CGT
15217938 TTAATACGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
75 30 0.49
76 19 0.31
77 12 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (77 bp):
TATGTGATTACGTGTAAGACCACGGCTGGGACATTGGCATCGATATGTGATTACAGTAAGACCAC
GTCTAGGACGTT
Found at i:15221073 original size:34 final size:33
Alignment explanation
Indices: 15221029--15221103 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 33
15221019 ATTGCATTTA
15221029 TGATACTGTTATTGTAATGGGCTAAGGCCCACAC
1 TGATACTGTTATTGTAATGGGCT-AGGCCCACAC
* * *
15221063 TGATATTGTTATTGTAATGGTCTAGGGCCACAC
1 TGATACTGTTATTGTAATGGGCTAGGCCCACAC
*
15221096 TGAAACTG
1 TGATACTG
15221104 AACTGTCGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 15 0.42
34 21 0.58
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (33 bp):
TGATACTGTTATTGTAATGGGCTAGGCCCACAC
Found at i:15226694 original size:42 final size:42
Alignment explanation
Indices: 15226635--15226898 Score: 354
Period size: 42 Copynumber: 6.2 Consensus size: 42
15226625 TAGGATTTCG
* *
15226635 ATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGG-ATTCA
1 ATATGTGA-TATGTGTAAGACCACGTCTAGGACGTTGGCA-TCA
*
15226678 ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCG
1 ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCA
* * *
15226720 ATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGG-ATTCA
1 ATATGTGA-TATGTGTAAGACCACGTCTAGGACGTTGGCA-TCA
*
15226763 ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCG
1 ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCA
* * *
15226805 ATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGG-ATTCA
1 ATATGTGA-TATGTGTAAGACCACGTCTAGGACGTTGGCA-TCA
*
15226848 ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCG
1 ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCA
15226890 ATATGTGAT
1 ATATGTGAT
15226899 TCTGATATGT
Statistics
Matches: 195, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
42 112 0.57
43 83 0.43
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (42 bp):
ATATGTGATATGTGTAAGACCACGTCTAGGACGTTGGCATCA
Found at i:15226775 original size:85 final size:85
Alignment explanation
Indices: 15226632--15226899 Score: 527
Period size: 85 Copynumber: 3.2 Consensus size: 85
15226622 ACATAGGATT
*
15226632 TCGATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
15226697 CCACGTCTAGGACGTTGGCA
66 CCACGTCTAGGACGTTGGCA
15226717 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
15226782 CCACGTCTAGGACGTTGGCA
66 CCACGTCTAGGACGTTGGCA
15226802 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
15226867 CCACGTCTAGGACGTTGGCA
66 CCACGTCTAGGACGTTGGCA
15226887 TCGATATGTGATT
1 TCGATATGTGATT
15226900 CTGATATGTG
Statistics
Matches: 182, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 182 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (85 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGATTCAATATGTGATATGTGTAAGA
CCACGTCTAGGACGTTGGCA
Found at i:15226926 original size:56 final size:56
Alignment explanation
Indices: 15226861--15227007 Score: 154
Period size: 56 Copynumber: 2.6 Consensus size: 56
15226851 TGTGATATGT
** *
15226861 GTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCAA
1 GTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTCCAATATGTGTGTACAA
** * * * *
15226917 GTAAGACCACGT-TAAATACGTTGTCATCGATAGGTGATTCCAATATGTGTTTACGA
1 GTAAGACCACGTCT-AGGACGTTGGCATCGATATGTGATTCCAATATGTGTGTACAA
** *
15226973 GTAAGACCGTGTCTGGGACAG-TGGCATCGATATGT
1 GTAAGACCACGTCTAGGAC-GTTGGCATCGATATGT
15227008 AATTACATAC
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
55 1 0.01
56 69 0.96
57 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (56 bp):
GTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTCCAATATGTGTGTACAA
Found at i:15235095 original size:42 final size:44
Alignment explanation
Indices: 15235033--15235147 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 44
15235023 TAATCAAACA
* *
15235033 TCGATGCCACTGT-CTCAGACAGGGTCTTACACA-AAATCAG-AT
1 TCGATGCCAATGTCCT-AGACAGGGTCTTACACATAAAACAGAAT
*
15235075 AT-GATGCCAATGTCCTAGACATGGTCTTACACATAAAACAGAAT
1 -TCGATGCCAATGTCCTAGACAGGGTCTTACACATAAAACAGAAT
* *
15235119 TCGATGCCAACGTCCCAGAC-GTGGTCTTA
1 TCGATGCCAATGTCCTAGACAG-GGTCTTA
15235148 GACGAAACCA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
42 26 0.43
43 10 0.16
44 25 0.41
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (44 bp):
TCGATGCCAATGTCCTAGACAGGGTCTTACACATAAAACAGAAT
Found at i:15249202 original size:37 final size:36
Alignment explanation
Indices: 15249158--15249232 Score: 123
Period size: 37 Copynumber: 2.1 Consensus size: 36
15249148 AACAACACCC
* *
15249158 ATTTAAAACGTTATTTTGATGAGATTGATAGCAGGA
1 ATTTAAAACCTTATTTTGATAAGATTGATAGCAGGA
15249194 ATNTTAAAACCTTATTTTGATAAGATTGATAGCAGGA
1 AT-TTAAAACCTTATTTTGATAAGATTGATAGCAGGA
15249231 AT
1 AT
15249233 GAGGAGTACG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.36
Consensus pattern (36 bp):
ATTTAAAACCTTATTTTGATAAGATTGATAGCAGGA
Found at i:15250281 original size:7 final size:7
Alignment explanation
Indices: 15250269--15250302 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
15250259 TTCAAACTAC
15250269 TTTTTAT
1 TTTTTAT
15250276 TTTTTAT
1 TTTTTAT
15250283 TTTTTAT
1 TTTTTAT
15250290 TTTATT-T
1 TTT-TTAT
15250297 TTTTTA
1 TTTTTA
15250303 GAAGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:15254571 original size:16 final size:15
Alignment explanation
Indices: 15254547--15254576 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15254537 AACTATTTTA
15254547 TTACAAATTTCACTC
1 TTACAAATTTCACTC
15254562 TTACATAATTTCACT
1 TTACA-AATTTCACT
15254577 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:15254955 original size:51 final size:50
Alignment explanation
Indices: 15254774--15255065 Score: 284
Period size: 50 Copynumber: 5.8 Consensus size: 50
15254764 GTAACCGAAG
* * *
15254774 CTATCTGGTACCCATAGTATCCTGCACTTAGTACTACACATGTGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
15254823 CAATCTAGTACACGTAGTAGCGTGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
15254873 CCATCTGATTCACATAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * *
15254923 GT-TCTCGGGTACATATAGTAGCCTGCACTTAGTAATACACATGCGACCTAA
1 CTATCT--GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
15254974 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AA
* *** * *
15255026 CCATCTTAAACATATAGTAGCCTGCACATAGTACTACACA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
15255066 TGTGTTCTTA
Statistics
Matches: 196, Mismatches: 39, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
49 45 0.23
50 78 0.40
51 35 0.18
52 38 0.19
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:15254964 original size:101 final size:101
Alignment explanation
Indices: 15254837--15255018 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
15254827 CTAGTACACG
* * * * * *
15254837 TAGTAGCGTGCACTTAGTACTACACATGTGACCTAACCATCTGATTCACATAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGATACACATAGTAGCCTACACTT
15254902 AGTACTACACACGTGATTGAAGTTCTCGGGTACATA
66 AGTACTACACACGTGATTGAAGTTCTCGGGTACATA
* * *
15254938 TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGATACACATAGTAGCCTACACTT
15255003 AGTACTACACACGTGA
66 AGTACTACACACGTGA
15255019 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGATACACATAGTAGCCTACACTT
AGTACTACACACGTGATTGAAGTTCTCGGGTACATA
Found at i:15255021 original size:151 final size:151
Alignment explanation
Indices: 15254787--15255065 Score: 407
Period size: 151 Copynumber: 1.8 Consensus size: 151
15254777 TCTGGTACCC
* * * * *
15254787 ATAGTATCCTGCACTTAGTACTACACATGTGACCAACAATCTAGTACACGTAGTAGCGTGCACTT
1 ATAGTAGCCTGCACTTAGTAATACACATGCGACCAACAATCTAGTACACGTAGTAGCCTACACTT
* ** * *
15254852 AGTACTACACATGTGACCT-AACCATCTGATTCACATAGTAGCTTGCACTTAGTACTACACACGT
66 AGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACACGT
15254916 GATTGAAGTTCTCGGGTACAT
131 GATTGAAGTTCTCGGGTACAT
* *
15254937 ATAGTAGCCTGCACTTAGTAATACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTACACT
1 ATAGTAGCCTGCACTTAGTAATACACATGCGACC-AACAATCTAGTACACGTAGTAGCCTACACT
* *
15255002 TAGTACTACACACGTGACCTAAAACCATCTTAAACATATAGTAGCCTGCACATAGTACTACACA
65 TAGTACTACACACGTGACCT-AAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACA
15255066 TGTGTTCTTA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
150 31 0.28
151 45 0.40
153 36 0.32
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (151 bp):
ATAGTAGCCTGCACTTAGTAATACACATGCGACCAACAATCTAGTACACGTAGTAGCCTACACTT
AGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACACGT
GATTGAAGTTCTCGGGTACAT
Found at i:15258330 original size:39 final size:39
Alignment explanation
Indices: 15258256--15258330 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
15258246 TCTTATTCAA
* *
15258256 TATAATCAGTGGATAATGCTCGTTTAAGCAAACATTTAG
1 TATAATCAGTGGATAATACTCATTTAAGCAAACATTTAG
* * *
15258295 TATAATTAGTGGAT-ATCACTCATTTGAGCATACATT
1 TATAATCAGTGGATAAT-ACTCATTTAAGCAAACATT
15258331 CAATAGAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.07
39 28 0.93
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (39 bp):
TATAATCAGTGGATAATACTCATTTAAGCAAACATTTAG
Found at i:15258363 original size:39 final size:39
Alignment explanation
Indices: 15258318--15259216 Score: 813
Period size: 39 Copynumber: 22.7 Consensus size: 39
15258308 TATCACTCAT
* *
15258318 TTGAGCATACATTCAATAGAATCAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
** * * *
15258357 GCGAGCATACATTCAGTAGAATCAGTAGGTATGACTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
15258396 TTGAGCATACATTCAATAAAATCAGTAGGTGTGGCGT-GA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGC-TCGA
* * *
15258435 TAGAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
15258474 TTGAGCAGA-TTTCAGTAGAATAAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
15258512 TTGAGCATACTTTAACTAGAATCAGTAGGTATGGCACGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
15258551 TTGAGCATACTTTAAGTAGAATCAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
15258590 TAGAGCATACTTTTAGTAGAATCGGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
15258629 TAGAGCATACTTTTAGTAGAGTCAATAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
*
15258668 TTGAGCATACTTTCAGTAGAATCACTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
15258707 TAGAGCATACTTTTAGTATAATTAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
15258746 TTAAGCATACTTTTAGTAGAATCAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * * * ** * *
15258785 TTAAGCATGGC--TCAGTTGAGCATACTTTCAATAGAAACAATAAGTATGGC
1 TTGAGCAT-ACTTTCAG-T-AG-A-A---TCAGTAG-----GTATGGCTCGA
* * * ** * *
15258835 TCGAG--TGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTTGA
1 TTGAGCAT-A-CTTTCAGT-AGAA---TCAGTAGGTATGGCTCGA
** * *
15258878 GAGAGCATACTTTCAGTAGAATTATTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
15258917 TAGAGAATACTTTCAGTAGAATCAGTAGATATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
15258956 GTGAGCTTACTTTCAGTAGAATCAGTAGGTATGACTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
15258995 TTGAGCATACTTTCAGTAGAATCAATAAGTATCGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
15259034 TTGAGCATACTTTCAGTTGAATTAGTAGGCATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * * * *
15259073 TTCAGCATACCTTT-AATAGATTCAATAGGTATAGCTCAA
1 TTGAGCATA-CTTTCAGTAGAATCAGTAGGTATGGCTCGA
** * * *
15259112 TAAAGAATACTTTCGGTAGAATTAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
15259151 TTGAGCATATTTTCAGTAGAATCAATAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
*
15259190 TAGAGCATACTTTCAGTAGAATCAGTA
1 TTGAGCATACTTTCAGTAGAATCAGTA
15259217 TCCCATTTTT
Statistics
Matches: 695, Mismatches: 142, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
38 43 0.06
39 598 0.86
40 8 0.01
41 1 0.00
42 4 0.01
43 12 0.02
44 1 0.00
45 7 0.01
48 9 0.01
49 1 0.00
50 10 0.01
51 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (39 bp):
TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
Found at i:15262092 original size:21 final size:20
Alignment explanation
Indices: 15262068--15262107 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15262058 CCGTGTTGAT
15262068 TTTGTACTTTGGCCCATTTTC
1 TTTGT-CTTTGGCCCATTTTC
* *
15262089 TTTGTTTTTGGCCCGTTTT
1 TTTGTCTTTGGCCCATTTT
15262108 TTGTTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.20, G:0.17, T:0.57
Consensus pattern (20 bp):
TTTGTCTTTGGCCCATTTTC
Found at i:15262112 original size:18 final size:20
Alignment explanation
Indices: 15262075--15262112 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15262065 GATTTTGTAC
*
15262075 TTTGGCCCATTTTCTTTGTT
1 TTTGGCCCAGTTTCTTTGTT
15262095 TTTGGCCC-GTTT-TTTGTT
1 TTTGGCCCAGTTTCTTTGTT
15262113 CCTTTCGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.61
Consensus pattern (20 bp):
TTTGGCCCAGTTTCTTTGTT
Found at i:15264429 original size:46 final size:46
Alignment explanation
Indices: 15264379--15265290 Score: 1679
Period size: 46 Copynumber: 19.8 Consensus size: 46
15264369 TGGTTGAGCA
15264379 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264425 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264471 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264517 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264563 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264655 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264747 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264793 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264839 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264885 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264931 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15264977 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15265023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15265069 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15265115 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15265161 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
15265206 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15265254 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15265291 GCGGGTTACA
Statistics
Matches: 846, Mismatches: 11, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
45 3 0.00
46 798 0.94
47 29 0.03
48 3 0.00
50 4 0.00
51 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15269047 original size:49 final size:49
Alignment explanation
Indices: 15268990--15269087 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
15268980 CAACTATCTT
*
15268990 AACCATGAATATTCACTTCTAACTAATCAAATGGAGTAGGGAAATCATG
1 AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAATCATG
15269039 AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAATCATG
1 AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAATCATG
15269088 TAATGAGTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (49 bp):
AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAATCATG
Found at i:15272233 original size:101 final size:101
Alignment explanation
Indices: 15272058--15272969 Score: 1799
Period size: 101 Copynumber: 9.0 Consensus size: 101
15272048 GAGGGAGTAA
15272058 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272123 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272159 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272224 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272260 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272325 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272361 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272426 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272462 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272527 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272563 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272628 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272664 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272729 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272765 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
15272830 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
15272866 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
*
15272931 TTATCATAATTACACTTTTGCTGATATTT-TGGTCAT
66 TTATCATAATTACACTTTTCCTGAT-TTTCTGGTCAT
15272967 GCT
1 GCT
15272970 GTTTTCTTGA
Statistics
Matches: 809, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
101 806 1.00
102 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (101 bp):
GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
Found at i:15273817 original size:50 final size:50
Alignment explanation
Indices: 15273737--15274026 Score: 332
Period size: 50 Copynumber: 5.8 Consensus size: 50
15273727 TAAAGCTCTT
* * *
15273737 TGGTACACATAGTAGCC-GAACTTAGTACTACACATGCGACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
** * * * *
15273786 TGGTACATGTAATAGCCTGCACTTAGTACTACACACATGACTTAACAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
* * * * *
15273836 TGATACACATAGGAGCCTGCACTTACTACTACACACGTGACTTAACAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
* ** *
15273886 TGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-C
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATC
* * * * *
15273937 GGGTACACATAGCAGCCTGCACTTAGTACTACAAATGCGACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
*
15273987 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
15274027 TCGAAATGGA
Statistics
Matches: 200, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
49 17 0.09
50 144 0.72
51 37 0.19
52 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
Found at i:15273986 original size:101 final size:100
Alignment explanation
Indices: 15273738--15274031 Score: 378
Period size: 101 Copynumber: 2.9 Consensus size: 100
15273728 AAAGCTCTTT
* * * *
15273738 GGTACACATAGTAGCC-GAACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAATAGC
1 GGTACACATAGCAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
15273802 CTGCACTTAGTACTACACACATGA-CTTAACAATCT
66 CTGCACTTAGTACTACACACGTGATC-GAACAATCG
* * * * * * * * *
15273837 GATACACATAGGAGCCTGCACTTACTACTACACACGTGACTTAACAATCTGATACACATAGTAGC
1 GGTACACATAGCAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
15273902 CTGCACTTAGTACTACACACGTGATCGAAGTTAA-CG
66 CTGCACTTAGTACTACACACGTGATCGAA--CAATCG
*
15273938 GGTACACATAGCAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGCAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
15274003 CTGCACTTAGTACTACACACGTGATCGAA
66 CTGCACTTAGTACTACACACGTGATCGAA
15274032 ATGGATCATT
Statistics
Matches: 165, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
99 14 0.08
100 63 0.38
101 86 0.52
102 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (100 bp):
GGTACACATAGCAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGATCGAACAATCG
Found at i:15274404 original size:18 final size:20
Alignment explanation
Indices: 15274375--15274420 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15274365 AAGAACATGT
15274375 TATATCATCAAA-TAATCACA
1 TATAT-ATCAAATTAATCACA
*
15274395 TA-ATATCAAATTATTCACA
1 TATATATCAAATTAATCACA
15274414 TATATAT
1 TATATAT
15274421 ACTTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATATCAAATTAATCACA
Found at i:15275884 original size:16 final size:16
Alignment explanation
Indices: 15275865--15275896 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15275855 AATTGTTTTA
15275865 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
15275881 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
15275897 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:15276214 original size:50 final size:50
Alignment explanation
Indices: 15276096--15276441 Score: 286
Period size: 50 Copynumber: 6.9 Consensus size: 50
15276086 AATGAAGCTC
* * * * * * * *
15276096 TCTGGTACTCATAGTAGCCTGCAATTAGTACTACACATGCGTCCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* ** *
15276146 TCTAGTACACACAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * * *
15276196 TCTGATACATGTAATAGCCTGCACTTAGTACTACACACGTGA-TCAA-AGTTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACA---A
* * * * * * ** * *
15276247 ACGGGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * *
15276297 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTT-AA--CAA
* * * * *
15276349 -CGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* *
15276398 TTTGGTACACGTAGTAGTCTGCACTTAGTACTACACACGTGACT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
15276442 CACAACGGAT
Statistics
Matches: 231, Mismatches: 55, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
49 6 0.03
50 149 0.65
51 71 0.31
52 4 0.02
53 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
Found at i:15276315 original size:101 final size:101
Alignment explanation
Indices: 15276150--15276439 Score: 427
Period size: 101 Copynumber: 2.9 Consensus size: 101
15276140 TATCAATCTA
* * * * * * * * *
15276150 GTACACACAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAATAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATTTGGTACACGTAGTAGCC
15276215 TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
66 TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
* * **
15276251 GTACGCATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATTTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATTTGGTACACGTAGTAGCC
* **
15276316 TGCACTTAGTACTACACATGTGATTGAAGTTAACGG
66 TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
*
15276352 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATTTGGTACACGTAGTAGTC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATTTGGTACACGTAGTAGCC
15276417 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
15276440 CTCACAACGG
Statistics
Matches: 167, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 167 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATTTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
Found at i:15276385 original size:26 final size:26
Alignment explanation
Indices: 15276302--15276385 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
15276292 ATCAATTTGG
*
15276302 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
** * *
15276328 TACACAT-GT-GATTGAAGTTA--AC
1 TACACATAGTAGCCTGCACTTAGTAC
15276350 GGGTACACATAGTAGCCTGCACTTAGTAC
1 ---TACACATAGTAGCCTGCACTTAGTAC
15276379 TACACAT
1 TACACAT
15276386 GTGACCTATC
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 2 0.05
24 7 0.17
25 9 0.21
26 15 0.36
27 7 0.17
29 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:15276405 original size:151 final size:151
Alignment explanation
Indices: 15276097--15276430 Score: 377
Period size: 151 Copynumber: 2.2 Consensus size: 151
15276087 ATGAAGCTCT
* * * **
15276097 CTGGTACTCATAGTAGCCTGCAATTAGTACTACACATGCGTCCTATCAATCTAGTACACACAGTA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATCTAGTACACACAGTA
* * **
15276162 GCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAATAGCCTGCACTTAGTAC
66 GCCTGCACTTAGTACTACACACGTGACTTAACCAACGGATACACATAATAGCCTGCACTTAGTAC
*
15276227 TACACACGTGATCAAAGTTAA
131 TACACACGTGATCAAAGTCAA
* * * * **
15276248 CGGGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATTTGGTACACGTAGTA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATCTAGTACACACAGTA
* ** * *
15276313 GCCTGCACTTAGTACTACACATGTGA-TTGAAGTTAACGGGTACACATAGTAGCCTGCACTTAGT
66 GCCTGCACTTAGTACTACACACGTGACTT-AA-CCAACGGATACACATAATAGCCTGCACTTAGT
* **
15276377 ACTACACATGTGA-CCTA-TCAA
129 ACTACACACGTGATCAAAGTCAA
* * *
15276398 TTTGGTACACGTAGTAGTCTGCACTTAGTACTA
1 -CTGGTACACATAGTAGCCTGCACTTAGTACTA
15276431 CACACGTGAC
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
150 5 0.03
151 111 0.73
152 36 0.24
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (151 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATCTAGTACACACAGTA
GCCTGCACTTAGTACTACACACGTGACTTAACCAACGGATACACATAATAGCCTGCACTTAGTAC
TACACACGTGATCAAAGTCAA
Found at i:15276816 original size:19 final size:20
Alignment explanation
Indices: 15276788--15276834 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15276778 AAGAACATGT
15276788 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
15276809 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
15276828 TATATAT
1 TATATAT
15276835 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:15277112 original size:30 final size:30
Alignment explanation
Indices: 15277055--15277113 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
15277045 CAAAAATCAT
* *
15277055 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTGACAAATTTACACTTTGACCCCTAA
* * *
15277085 ACTTTGACATATTTGCACTTTGCCCCCTA
1 ACTTTGACAAATTTACACTTTGACCCCTA
15277114 GGCTCATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTGACAAATTTACACTTTGACCCCTAA
Found at i:15300289 original size:45 final size:44
Alignment explanation
Indices: 15300171--15300297 Score: 143
Period size: 45 Copynumber: 2.8 Consensus size: 44
15300161 CATTGGTGTG
* *
15300171 AGTC-AGTGTAAGACCATGCCTGGGACATGGCATTGGCATTGAGACA
1 AGTCTAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCATTGAGACA
*
15300217 AGTGCTAGTGTAAGACATGTCTGGACATGCATCGGCCTTGAGACGTA
1 AGT-CTAGTGTAAGACATGTCTGGACATGCATCGGCATTGAGAC--A
15300264 AGT-T-GTGTAAGACATGTCTGTGACATGCATCGGC
1 AGTCTAGTGTAAGACATGTCTG-GACATGCATCGGC
15300298 TACAAGATGT
Statistics
Matches: 73, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
44 16 0.22
45 28 0.38
46 9 0.12
47 11 0.15
48 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTCTAGTGTAAGACATGTCTGGACATGCATCGGCATTGAGACA
Found at i:15304851 original size:30 final size:30
Alignment explanation
Indices: 15304815--15304871 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15304805 TTCTTTGTCT
*
15304815 GCTTCAAATTCTAGAA-TAACAAAGTCAGCA
1 GCTTCAAAGTCTAGAACTAA-AAAGTCAGCA
*
15304845 GCTTCAAAGTCTTGAACTAAAAAGTCA
1 GCTTCAAAGTCTAGAACTAAAAAGTCA
15304872 ACAGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (30 bp):
GCTTCAAAGTCTAGAACTAAAAAGTCAGCA
Found at i:15310666 original size:22 final size:22
Alignment explanation
Indices: 15310638--15310685 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
15310628 CCTGAGCTGA
15310638 TGAACAGTAAGCTCTAT-CGAGC
1 TGAACAGTAAGCT-TATACGAGC
15310660 TGAACAGTAAGCTTATACGAGC
1 TGAACAGTAAGCTTATACGAGC
15310682 TGAA
1 TGAA
15310686 ACGATAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTTATACGAGC
Found at i:15316690 original size:46 final size:46
Alignment explanation
Indices: 15316623--15317531 Score: 1510
Period size: 46 Copynumber: 19.7 Consensus size: 46
15316613 AACCCGCCCC
15316623 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
* * *
15316669 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACATCCA
* * * * *
15316717 TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
*
15316762 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15316808 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15316854 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15316900 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15316946 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15316992 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317038 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317084 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317130 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317176 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317222 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317268 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317314 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
15317360 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
* * *
15317406 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACATCCA
* * * * *
15317454 TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
*
15317499 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
15317532 ATGCTCAACC
Statistics
Matches: 820, Mismatches: 25, Indels: 36
0.93 0.03 0.04
Matches are distributed among these distances:
42 4 0.00
43 8 0.01
44 2 0.00
45 4 0.00
46 726 0.89
47 54 0.07
48 6 0.01
49 2 0.00
50 10 0.01
51 4 0.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
Found at i:15323202 original size:17 final size:17
Alignment explanation
Indices: 15323180--15323213 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15323170 TTTAGGATAA
*
15323180 ATTTTGATTGATTTATG
1 ATTTTGATTGATATATG
15323197 ATTTTGATTGATATATG
1 ATTTTGATTGATATATG
15323214 TTGTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (17 bp):
ATTTTGATTGATATATG
Found at i:15337555 original size:27 final size:27
Alignment explanation
Indices: 15337524--15337578 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15337514 ATGAGAATTT
15337524 TAGTGTTTTAAGAAAAGGGCATTTTGG
1 TAGTGTTTTAAGAAAAGGGCATTTTGG
15337551 TAGTGTTTTAAGAAAAGGGCATTTTGG
1 TAGTGTTTTAAGAAAAGGGCATTTTGG
15337578 T
1 T
15337579 CATTTAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (27 bp):
TAGTGTTTTAAGAAAAGGGCATTTTGG
Found at i:15338473 original size:42 final size:42
Alignment explanation
Indices: 15338427--15338581 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 42
15338417 CTAAGACTAT
* *
15338427 GTGTAAGACCATACCTGGGATATGGCATCAGTATGAGACTTC
1 GTGTAAGACCATAACTAGGATATGGCATCAGTATGAGACTTC
* * *
15338469 GTGTAAGGCCATAAATGGGATATGGCATC-GATATGAGACTTC
1 GTGTAAGACCATAACTAGGATATGGCATCAG-TATGAGACTTC
* * *
15338511 GTGTAAGACCATAGCTAGG-TCATTGGCATCAATACGAGA-TTAC
1 GTGTAAGACCATAACTAGGAT-A-TGGCATCAGTATGAGACTT-C
* *
15338554 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATAACTAGGATATGGCAT
15338582 TGGTACGATT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 61 0.64
43 32 0.33
44 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATAACTAGGATATGGCATCAGTATGAGACTTC
Found at i:15338566 original size:85 final size:84
Alignment explanation
Indices: 15338427--15338581 Score: 188
Period size: 85 Copynumber: 1.8 Consensus size: 84
15338417 CTAAGACTAT
* * * * * *
15338427 GTGTAAGACCATACCTGGGATATGGCATCAGTATGAGACTTCGTGTAAGGCCATAAATGGGATAT
1 GTGTAAGACCATACCTGGCATATGGCATCAATACGAGACTTCATGTAAGACCATAAATAGGATAT
15338492 GGCATCGATATGAGACTTC
66 GGCATCGATATGAGACTTC
* **
15338511 GTGTAAGACCATAGCTAGGTCAT-TGGCATCAATACGAGA-TTACATGTAAGACCATATCTAGGA
1 GTGTAAGACCATACCT-GG-CATATGGCATCAATACGAGACTT-CATGTAAGACCATAAATAGGA
15338574 TATGGCAT
63 TATGGCAT
15338582 TGGTACGATT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
84 17 0.29
85 40 0.68
86 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (84 bp):
GTGTAAGACCATACCTGGCATATGGCATCAATACGAGACTTCATGTAAGACCATAAATAGGATAT
GGCATCGATATGAGACTTC
Found at i:15344865 original size:38 final size:38
Alignment explanation
Indices: 15344812--15344888 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
15344802 AATACCAAAA
*
15344812 TTCTGGCATTTCATGGGCTTGTGAGTATGCGAATGCTC
1 TTCTGGCATTCCATGGGCTTGTGAGTATGCGAATGCTC
15344850 TTCTGGCATTCCATGGGCTTGTGAGTATGCGAATGCTC
1 TTCTGGCATTCCATGGGCTTGTGAGTATGCGAATGCTC
15344888 T
1 T
15344889 CAAGACGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (38 bp):
TTCTGGCATTCCATGGGCTTGTGAGTATGCGAATGCTC
Found at i:15351025 original size:195 final size:195
Alignment explanation
Indices: 15350693--15351082 Score: 726
Period size: 195 Copynumber: 2.0 Consensus size: 195
15350683 TCCCCACATA
* * *
15350693 GAGTGTAGGGCTGGTATGGGGTAGTGTAGCGGTTGGTGGGTTGAGTAGTCTCCCCATTTGGGCTT
1 GAGTGTAGGGCTGGTACGGGGCAGTGTAGCGGTTGGTGGGTTGAGTAGTCTCCCCAGTTGGGCTT
*
15350758 GCATTCATTACTACTATTGTTACTTATGTTACTGAATTGGGCCTATGGGCCACACTGTTATGTAA
66 GCATTCATTACTACTATTGTTACTTATGTTACTGAACTGGGCCTATGGGCCACACTGTTATGTAA
*
15350823 AAAGGGGCTAAGGCCTTGCTACTGTATTCTGAAAAGGGTTTCGGTCCATTGTGTACTGTGATCTG
131 AAAGGGGCTAAGGCCTTGCTACTGTATTCTGAAAAGGGCTTCGGTCCATTGTGTACTGTGATCTG
*
15350888 GAGTGTAGGGCTGGTACGGGGCAGTGTAGCGGTTGGTGGGTTGAGTGGTCTCCCCAGTTGGGCTT
1 GAGTGTAGGGCTGGTACGGGGCAGTGTAGCGGTTGGTGGGTTGAGTAGTCTCCCCAGTTGGGCTT
15350953 GCATTCATTACTACTATTGTTACTTATGTTACTGAACTGGGCCTATGGGCCACACTGTTATGTAA
66 GCATTCATTACTACTATTGTTACTTATGTTACTGAACTGGGCCTATGGGCCACACTGTTATGTAA
15351018 AAAGGGGCTAAGGCCTTGCTACTGTATTCTGAAAAGGGCTTCGGTCCATTGTGTACTGTGATCTG
131 AAAGGGGCTAAGGCCTTGCTACTGTATTCTGAAAAGGGCTTCGGTCCATTGTGTACTGTGATCTG
15351083 AATGGGGCTT
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
195 189 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (195 bp):
GAGTGTAGGGCTGGTACGGGGCAGTGTAGCGGTTGGTGGGTTGAGTAGTCTCCCCAGTTGGGCTT
GCATTCATTACTACTATTGTTACTTATGTTACTGAACTGGGCCTATGGGCCACACTGTTATGTAA
AAAGGGGCTAAGGCCTTGCTACTGTATTCTGAAAAGGGCTTCGGTCCATTGTGTACTGTGATCTG
Found at i:15364818 original size:15 final size:15
Alignment explanation
Indices: 15364794--15364823 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15364784 CTAAGAATTT
15364794 CTCCCCTTTTATCGA
1 CTCCCCTTTTATCGA
*
15364809 CTCCCTTTTTATCGA
1 CTCCCCTTTTATCGA
15364824 GATATGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.37, G:0.07, T:0.43
Consensus pattern (15 bp):
CTCCCCTTTTATCGA
Found at i:15367008 original size:88 final size:87
Alignment explanation
Indices: 15366859--15367031 Score: 319
Period size: 88 Copynumber: 2.0 Consensus size: 87
15366849 TGACCATCAA
15366859 GTTGTATTCTCGAGGATTCAGTAAGGCTCCACATCTTGGATTTCATTATCACGATTTTCTTATCA
1 GTTGTATTCTCGAGGATTCAGTAAGGCTCCACATCTTGGATTTCATTATCACGATTTTCTTATC-
15366924 TTCTTATTGTTTAATCTATCACG
65 TTCTTATTGTTTAATCTATCACG
* *
15366947 GTTGTATTCTCGAGGATTTAGTAAGGCTCCACATCTTGGATTTCATTATCACGGTTTTCTTATCT
1 GTTGTATTCTCGAGGATTCAGTAAGGCTCCACATCTTGGATTTCATTATCACGATTTTCTTATCT
15367012 TCTTATTGTTTAATCTATCA
66 TCTTATTGTTTAATCTATCA
15367032 AACACGGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 21 0.25
88 62 0.75
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (87 bp):
GTTGTATTCTCGAGGATTCAGTAAGGCTCCACATCTTGGATTTCATTATCACGATTTTCTTATCT
TCTTATTGTTTAATCTATCACG
Found at i:15369794 original size:25 final size:25
Alignment explanation
Indices: 15369760--15369834 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
15369750 CAAGCCCATT
* *
15369760 TTCATAGCTCATGTAAGCATTTTGA
1 TTCACAGCTCATGTAAGCATTCTGA
15369785 TTCACAGCTCATGTGAGCATAGCATTCTGA
1 TTCACAGCTCATGT----A-AGCATTCTGA
*
15369815 TTCACAGCTCATGTGAGCAT
1 TTCACAGCTCATGTAAGCAT
15369835 ACATGTATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
25 18 0.43
29 1 0.02
30 23 0.55
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCATGTAAGCATTCTGA
Found at i:15369816 original size:30 final size:30
Alignment explanation
Indices: 15369775--15369835 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15369765 AGCTCATGTA
*
15369775 AGCATTTTGATTCACAGCTCATGTGAGCAT
1 AGCATTCTGATTCACAGCTCATGTGAGCAT
15369805 AGCATTCTGATTCACAGCTCATGTGAGCAT
1 AGCATTCTGATTCACAGCTCATGTGAGCAT
15369835 A
1 A
15369836 CATGTATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (30 bp):
AGCATTCTGATTCACAGCTCATGTGAGCAT
Found at i:15370959 original size:15 final size:16
Alignment explanation
Indices: 15370939--15370968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15370929 TGGTTCGTTG
15370939 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
15370954 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
15370969 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:15374845 original size:28 final size:26
Alignment explanation
Indices: 15374814--15374865 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
15374804 TTTATCATTT
15374814 TATTTTATTAATATAATTTTTTTGAAAG
1 TATTTTA-TAA-ATAATTTTTTTGAAAG
*
15374842 TATTTTATCAATAATTTTTTTGAA
1 TATTTTATAAATAATTTTTTTGAA
15374866 TAATCTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 2 0.09
28 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (26 bp):
TATTTTATAAATAATTTTTTTGAAAG
Found at i:15377741 original size:48 final size:46
Alignment explanation
Indices: 15377683--15377793 Score: 109
Period size: 46 Copynumber: 2.4 Consensus size: 46
15377673 GCCATGTCGT
*
15377683 AGACAGGTCTTACACTAACT-T-GTATATCAAGAGGCTGATGCATGTCCC
1 AGACATGTCTTACACTAACTCTCG--TATCAA-AGGC-GATGCATGTCCC
* * * * * *
15377731 AGACATGTCTTATAGTAGCTCTCGTCTCAATGTCGATGCATGTCCC
1 AGACATGTCTTACACTAACTCTCGTATCAAAGGCGATGCATGTCCC
15377777 AGACATGTCTTACACTA
1 AGACATGTCTTACACTA
15377794 GCACACATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
46 27 0.52
47 2 0.04
48 21 0.40
49 1 0.02
50 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (46 bp):
AGACATGTCTTACACTAACTCTCGTATCAAAGGCGATGCATGTCCC
Found at i:15394152 original size:6 final size:6
Alignment explanation
Indices: 15394111--15394137 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15394101 ACAGTTTCTA
15394111 TCAGTT TCAGTT TCAGTT TCAGTT TCA
1 TCAGTT TCAGTT TCAGTT TCAGTT TCA
15394138 CTACGGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TCAGTT
Found at i:15397491 original size:17 final size:17
Alignment explanation
Indices: 15397469--15397503 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15397459 GAATGCAAAA
15397469 TTGGTAT-AATATAAATT
1 TTGGTATCAATA-AAATT
15397486 TTGGTATCAATAAAATT
1 TTGGTATCAATAAAATT
15397503 T
1 T
15397504 AATAAGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (17 bp):
TTGGTATCAATAAAATT
Found at i:15400306 original size:72 final size:72
Alignment explanation
Indices: 15400189--15400377 Score: 238
Period size: 72 Copynumber: 2.6 Consensus size: 72
15400179 AATGCCCGCA
* * * * *
15400189 ATTGAGCTACTCACAGGTCTGTACACAAAGTCAGCACCCGAACCCCAAAGCATTATCATG-TAAT
1 ATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTAGCATGAT-AT
*
15400253 GTTCGCTC
65 GCTCGCTC
*
15400261 ATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAGCATGATATG
1 ATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTAGCATGATATG
15400326 CTCGCTC
66 CTCGCTC
** * * *
15400333 AGCGA-CTTACTCATGGATTTATACATAAAGTCAGTACCCGAACCC
1 ATTGAGC-TACTCACGGGTTTATACACAAAGTCAGTACCCGAACCC
15400378 ACATTACATA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.01
72 100 0.98
73 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (72 bp):
ATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTAGCATGATATG
CTCGCTC
Found at i:15403857 original size:150 final size:150
Alignment explanation
Indices: 15403586--15404428 Score: 1659
Period size: 150 Copynumber: 5.6 Consensus size: 150
15403576 CTGCAAGTAT
* * *
15403586 CTTAAAAGTCCTATGCGTATCAATGCTTTGAAAATAAGTATCGATATTTTTCAGAAAGTATCAAT
1 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
15403651 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
66 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
15403716 ACATGAATTTTATGTTTTAA
131 ACATGAATTTTATGTTTTAA
15403736 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
1 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
15403801 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
66 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
15403866 ACATGAATTTTATGTTTTAA
131 ACATGAATTTTATGTTTTAA
15403886 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
1 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
15403951 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
66 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
15404016 ACATGAATTTTATGTTTTAA
131 ACATGAATTTTATGTTTTAA
15404036 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
1 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
15404101 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
66 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
15404166 ACATGAATTTTATGTTTTAA
131 ACATGAATTTTATGTTTTAA
15404186 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
1 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
15404251 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
66 AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
15404316 ACATGAATTTTATGTTTTAA
131 ACATGAATTTTATGTTTTAA
15404336 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
1 CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
15404401 AAAATGGTATCAGTATTGATACCAAATG
66 AAAATGGTATCAGTATTGATACCAAATG
15404429 AATAAGTTTT
Statistics
Matches: 690, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 690 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (150 bp):
CTTAAAAGTCCTATGAGTATCAATGCCTTGAAAATAAGTATTGATATTTTTCAGAAAGTATCAAT
AAAATGGTATCAGTATTGATACCAAATGCTGAAACTATTTTTTGAAGTGCAAACAAAAATTCCCA
ACATGAATTTTATGTTTTAA
Found at i:15414612 original size:39 final size:40
Alignment explanation
Indices: 15414567--15414751 Score: 187
Period size: 40 Copynumber: 4.7 Consensus size: 40
15414557 GCTCCTCGTT
* * * *
15414567 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
15414607 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15414646 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
15414686 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
15414727 CAAA-GCCTTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15414752 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 37 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15414760 original size:41 final size:41
Alignment explanation
Indices: 15414683--15414760 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
15414673 TTAGTATCTC
* * * *
15414683 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGAACTTAGCCCGGACACATTCACTTA
15414724 GCACAAA-GCCTTCGGAACTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTCGGAACTTAGCCCGGACA-CATTCA
15414761 ATTAATCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGAACTTAGCCCGGACACATTCACTTA
Found at i:15424749 original size:20 final size:18
Alignment explanation
Indices: 15424718--15424779 Score: 88
Period size: 20 Copynumber: 3.3 Consensus size: 18
15424708 GTAGAATGCA
15424718 AATTTTTGGTATTGATAT
1 AATTTTTGGTATTGATAT
15424736 AATTTTACTGGTATTGATAT
1 AATTTT--TGGTATTGATAT
*
15424756 AAATTTTTGGTATTGATAA
1 -AATTTTTGGTATTGATAT
15424775 AATTT
1 AATTT
15424780 AATAGGTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 11 0.28
19 11 0.28
20 12 0.30
21 6 0.15
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.52
Consensus pattern (18 bp):
AATTTTTGGTATTGATAT
Found at i:15424768 original size:19 final size:19
Alignment explanation
Indices: 15424717--15424779 Score: 94
Period size: 18 Copynumber: 3.3 Consensus size: 19
15424707 AGTAGAATGC
15424717 AAATTTTTGGTATTGATAT
1 AAATTTTTGGTATTGATAT
15424736 -AATTTTACTGGTATTGATAT
1 AAATTTT--TGGTATTGATAT
15424756 AAATTTTTGGTATTGATA-
1 AAATTTTTGGTATTGATAT
15424774 AAATTT
1 AAATTT
15424780 AATAGGTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.29
19 11 0.27
20 12 0.29
21 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (19 bp):
AAATTTTTGGTATTGATAT
Found at i:15424795 original size:39 final size:39
Alignment explanation
Indices: 15424717--15424800 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
15424707 AGTAGAATGC
* * **
15424717 AAATTTTTGGTATTGATATAATTTTACTGGTATTGATAT
1 AAATTTTTGGTATTGATATAAATTTAATGGTATCAATAT
15424756 AAATTTTTGGTATTGATA-AAATTTAATAGGTATCAATAT
1 AAATTTTTGGTATTGATATAAATTTAAT-GGTATCAATAT
15424795 -AATTTT
1 AAATTTT
15424801 CAAGGTATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 13 0.32
39 27 0.68
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (39 bp):
AAATTTTTGGTATTGATATAAATTTAATGGTATCAATAT
Found at i:15428821 original size:46 final size:46
Alignment explanation
Indices: 15428768--15428943 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
15428758 TATTTGGGCA
* *
15428768 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
15428814 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
15428861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
15428907 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15428944 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:15428921 original size:93 final size:93
Alignment explanation
Indices: 15428764--15428935 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
15428754 GGGATATTTG
* * * *
15428764 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
15428829 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
15428857 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
15428922 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
15428936 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:15433442 original size:2 final size:2
Alignment explanation
Indices: 15433437--15433462 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15433427 TAACATCTAC
15433437 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
15433463 TGTTGTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15439298 original size:20 final size:20
Alignment explanation
Indices: 15439261--15439299 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15439251 GAGTTTTTAA
* * *
15439261 ATATATATAGTTTCAAATAT
1 ATATATATACTCTAAAATAT
15439281 ATATATATACTCTAAAATA
1 ATATATATACTCTAAAATA
15439300 GAATTAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
ATATATATACTCTAAAATAT
Found at i:15440258 original size:21 final size:19
Alignment explanation
Indices: 15440230--15440269 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
15440220 TTCTTTAAAT
15440230 AAATTAAAAATATAGAAAAA
1 AAATTAAAAATATA-AAAAA
*
15440250 AAATGTAAAATTATAAAAAA
1 AAAT-TAAAAATATAAAAAA
15440270 TCCTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATTAAAAATATAAAAAA
Found at i:15440493 original size:19 final size:20
Alignment explanation
Indices: 15440468--15440512 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15440458 TAACAAAAAT
15440468 GAAAAAAGAAAA-AAAATCA
1 GAAAAAAGAAAAGAAAATCA
*
15440487 TAAAAAAGAAAAGAAAATCA
1 GAAAAAAGAAAAGAAAATCA
15440507 GAAAAA
1 GAAAAA
15440513 TAGTCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (20 bp):
GAAAAAAGAAAAGAAAATCA
Found at i:15442391 original size:19 final size:20
Alignment explanation
Indices: 15442363--15442405 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
15442353 ACTCAAATTG
*
15442363 AAAATTTAAATAGAAG-AAA
1 AAAATCTAAATAGAAGCAAA
*
15442382 AAAATCTAAATGGAAGCAAA
1 AAAATCTAAATAGAAGCAAA
15442402 AAAA
1 AAAA
15442406 CTTCTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.16
Consensus pattern (20 bp):
AAAATCTAAATAGAAGCAAA
Found at i:15454455 original size:12 final size:12
Alignment explanation
Indices: 15454440--15454478 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15454430 GCAAAAGGAG
15454440 ATGCAAGAACAA
1 ATGCAAGAACAA
* *
15454452 ATGCAAGTACAG
1 ATGCAAGAACAA
*
15454464 ATGCAAGAGCAA
1 ATGCAAGAACAA
15454476 ATG
1 ATG
15454479 GCTAAGATCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.23, T:0.13
Consensus pattern (12 bp):
ATGCAAGAACAA
Found at i:15462220 original size:44 final size:45
Alignment explanation
Indices: 15462172--15462280 Score: 125
Period size: 44 Copynumber: 2.4 Consensus size: 45
15462162 AGCCACCAGC
* * *
15462172 CTTATCTCCTTGATGTAGCAAGGGAGCAGGC-GAAAGATTGTAG-T
1 CTTATCTCCTTGAGGTAGCAAGGAAGCAGACTG-AAGATTGTAGAT
*
15462216 CTTATCTTCC-TGAGGTAGCAAGGAAGTAGACTGAAGATTGTAGAT
1 CTTATC-TCCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
* *
15462261 CTTATCTCCTTCAGATAGCA
1 CTTATCTCCTTGAGGTAGCA
15462281 GTGGCGTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 36 0.65
45 19 0.35
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
CTTATCTCCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAT
Found at i:15462389 original size:178 final size:178
Alignment explanation
Indices: 15462079--15462470 Score: 511
Period size: 178 Copynumber: 2.2 Consensus size: 178
15462069 TGGTAAATTC
* *
15462079 AGATCTTATCTCCCTGAGATAGCAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTCCCGAGGT
1 AGATCTTATCTCCCTCAGATAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCGAGGT
* * *
15462144 AGCAGAGGAGCAAATTTTAGCCACCAGCCTTATCTCCTTGATGTAGCAAGGGAGCAGGCGAAAGA
66 AGCAGAGGAGCAAATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAAGCGAAAGA
* * *
15462209 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGT
131 TTGTAATCTTATCATACTGAGGTAGCAAGGAAGTAGACTGAAGATTGT
* * *
15462257 AGATCTTATCTCCTTCAGATAGCAGTGGCGTAGATCGAAGACGGTGAATCTTATCTTCCCGAGGT
1 AGATCTTATCTCCCTCAGATAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCGAGGT
* * * * **
15462322 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATTTCCCTGAGGTAGCGAGGGAGCAAATTG-AAG
66 AGCAGAGGAGCAAATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGC-AAGCGAAAG
* * * *
15462386 ATTGTAATCTTATCATACTGAGGTAGCAATAGAA-CAGACTAAAAATTG-
130 ATTGTAATCTTATCATACTGAGGTAGCAA-GGAAGTAGACTGAAGATTGT
* * * *
15462434 AAAGTCTTATCTCCCTAAGATAGCAGTGAAGCAGATC
1 AGA-TCTTATCTCCCTCAGATAGCAGTGGAGTAGATC
15462471 AAAGCCACCA
Statistics
Matches: 184, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
177 2 0.01
178 177 0.96
179 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (178 bp):
AGATCTTATCTCCCTCAGATAGCAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCGAGGT
AGCAGAGGAGCAAATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAAGCGAAAGA
TTGTAATCTTATCATACTGAGGTAGCAAGGAAGTAGACTGAAGATTGT
Found at i:15462808 original size:44 final size:44
Alignment explanation
Indices: 15462753--15462838 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
15462743 TAGAATAGGT
* *
15462753 TGAAGTTACAAGTCATATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGTCACAAGCCATATCTCCCTGAAGTTGCAGTGGAGCAGAC
*
15462797 TGAAGTCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TGAAGTCACAAGCCATATCTCCCTGAAGTTGCAGTGGAGCAG
15462839 GTTGAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (44 bp):
TGAAGTCACAAGCCATATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:15463142 original size:14 final size:14
Alignment explanation
Indices: 15463123--15463159 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
15463113 CTGGGCCCAT
15463123 ACAAAAATAAAACC
1 ACAAAAATAAAACC
15463137 AC-AAAATAAAACC
1 ACAAAAATAAAACC
15463150 A-AACAAATAA
1 ACAA-AAATAA
15463160 TAAACCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.73, C:0.19, G:0.00, T:0.08
Consensus pattern (14 bp):
ACAAAAATAAAACC
Found at i:15464601 original size:15 final size:15
Alignment explanation
Indices: 15464581--15464622 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
15464571 TCTTATACAT
15464581 TATTATTTTTATATA
1 TATTATTTTTATATA
*
15464596 TATTATTTATAT-TA
1 TATTATTTTTATATA
* *
15464610 AACTATTTTTATA
1 TATTATTTTTATA
15464623 ATTTATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATTTTTATATA
Found at i:15468312 original size:48 final size:48
Alignment explanation
Indices: 15468259--15468489 Score: 195
Period size: 48 Copynumber: 4.7 Consensus size: 48
15468249 TATGAGGGCC
*
15468259 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGATAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGATAGCT
** * * * *
15468307 AGTGTAAGACCATGTCCGGGACATGGCATCGGCCTCGAGATATGAAAGAT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAG--ATGATAGCT
* * *
15468357 AGTGTAAGACCATGTCT-GGAACATGGCATCGGCCTCAAT-ATATGAGAGTCT
1 AGTGTAAGACCATGTCTAGG-ACATGGCATCGG---CATTGAGATGATAG-CT
* * *
15468408 -GTGTAAGACCATGTCTAGGACATGGTATCGACTTTGATG-TG-TGAG-T
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA-GATGAT-AGCT
* *
15468454 CAGTGTAAGACCATGTCCAGGACATGGCATTGGCAT
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
15468490 CTTACCCTAT
Statistics
Matches: 145, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 69 0.48
49 2 0.01
50 66 0.46
51 3 0.02
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGATAGCT
Found at i:15468370 original size:50 final size:48
Alignment explanation
Indices: 15468258--15468483 Score: 210
Period size: 50 Copynumber: 4.6 Consensus size: 48
15468248 TTATGAGGGC
* * *
15468258 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAG-ACGATAG-
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGTATGA-AGT
**
15468305 CTAGTGTAAGACCATGTCCGGGACATGGCATCGGCCTCGAGATATGAAAGAT
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAG-TATG-AAG-T
* *
15468357 -AGTGTAAGACCATGTCT-GGAACATGGCATCGGCCTCAATATATGAGAGT
1 CAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCGA-GTATGA-AGT
* * * * * *
15468406 CTGTGTAAGACCATGTCTAGGACATGGTATCGACTTTGATGTGTG-AGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA-GTATGAAGT
*
15468454 CAGTGTAAGACCATGTCCAGGACATGGCAT
1 CAGTGTAAGACCATGTCTAGGACATGGCAT
15468484 TGGCATCTTA
Statistics
Matches: 149, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
47 1 0.01
48 65 0.44
49 4 0.03
50 76 0.51
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGTATGAAGT
Found at i:15471594 original size:40 final size:40
Alignment explanation
Indices: 15471539--15471770 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
15471529 ATTTGAATAC
*
15471539 ATCCGGGCTAAGACCCGAAGGCATTTCTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
15471579 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
15471619 ATCCGGGCTCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGG--CTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
15471661 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTTATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
15471701 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
15471741 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
15471771 TTGTGGTTAT
Statistics
Matches: 176, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 137 0.78
42 39 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:15471683 original size:82 final size:80
Alignment explanation
Indices: 15471539--15471770 Score: 374
Period size: 82 Copynumber: 2.9 Consensus size: 80
15471529 ATTTGAATAC
* * *
15471539 ATCCGGGCTAAGACCCGAAGGCATTTCTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
15471604 TGTGCAAGTTGATAT
66 TGTGCAAGTTGATAT
15471619 ATCCGGGCTCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGG--CTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
*
15471684 ATTGTGCAAGTTTATAT
64 ATTGTGCAAGTTGATAT
* * * *
15471701 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
15471766 TGTGC
66 TGTGC
15471771 TTGTGGTTAT
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 66 0.46
82 76 0.54
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTTGATAT
Found at i:15477938 original size:50 final size:50
Alignment explanation
Indices: 15477814--15478062 Score: 208
Period size: 50 Copynumber: 5.1 Consensus size: 50
15477804 AGGGTAAGGT
* * * * * * *
15477814 GCCGACGCCATGTCCCTGACATGGTCTTACACTG--GCTCACACATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATCGAG
** * * * *
15477862 GTTGATGTCATGTCCCAAACAAGGTCTTACACTGACACTCGTATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATCGAG
* *
15477912 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACA--C--AGATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATCGAG
** * * * *
15477957 GATGATGTCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCATATATCGAG
* * * *
15478007 GCCGATGCCATGTCCCAGACATGGTCTTACGCTAACTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATCGAG
15478057 GCCGAT
1 GCCGAT
15478063 CTCATATCTC
Statistics
Matches: 159, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
44 1 0.01
45 32 0.20
46 4 0.03
47 1 0.01
48 28 0.18
49 2 0.01
50 90 0.57
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATCGAG
Found at i:15478009 original size:95 final size:98
Alignment explanation
Indices: 15477814--15478036 Score: 310
Period size: 95 Copynumber: 2.3 Consensus size: 98
15477804 AGGGTAAGGT
* * * *
15477814 GCCGACGCCATGTCCCTGACATGGTCTTACACTGGCTCACACATCAAAGTTGATGTCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGATGATGTCATGTCCCA
*
15477879 AACAAGGTCTTACACTGACACTCGTATATCGAG
66 AACAAGGTCTTACACTGACACTCATATATCGAG
*
15477912 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAGATC-AAGATGATGTCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGATGATGTCATGTCCCA
* * * * *
15477974 GACATGGTCTTACACT-AGCTCTCATATCTTGAG
66 AACAAGGTCTTACACTGA-CACTCATATATCGAG
15478007 GCCGATGCCATGTCCCAGACATGGTCTTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTAC
15478037 GCTAACTCTC
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
94 1 0.01
95 73 0.65
96 7 0.06
97 1 0.01
98 31 0.27
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (98 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGATGATGTCATGTCCCA
AACAAGGTCTTACACTGACACTCATATATCGAG
Found at i:15478618 original size:21 final size:21
Alignment explanation
Indices: 15478589--15478643 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
15478579 CTACAGGGGC
* *
15478589 ACACACCCATGTGGAATGGCG
1 ACACACCCATGTGGAAAGGCA
*
15478610 ACACTCCCATGTGGAAAGGCA
1 ACACACCCATGTGGAAAGGCA
* *
15478631 ACACGCCCGTGTG
1 ACACACCCATGTG
15478644 TCTTCTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (21 bp):
ACACACCCATGTGGAAAGGCA
Found at i:15485970 original size:144 final size:144
Alignment explanation
Indices: 15485705--15486034 Score: 421
Period size: 144 Copynumber: 2.3 Consensus size: 144
15485695 GGTGAATTGT
* * * * * * *
15485705 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCTAGA
* * * ** *
15485770 CATGGTCTTACACTAGCTCTCGTCTCATTGCTGATGCCACGTCCCAGACACAGTCTTACACTGGC
66 CATGGTCTTACACTAGCTCTCGACACATAGCCAATGCCACGTCCCAAACACAGTCTTACACTGGC
*
15485835 TCTCATGAT-GTGGC
131 TCTCAT-ATCATGGC
* *
15485849 CGATGCCATGTCCCAGACATGGCCTTACACTAGCACACATATCAACGTCGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCTAGA
* * * **
15485914 CATGGTCTTACACTGGCTCTC-ACAACATAGCCAATGCCATGTTCCAAACATGGTCTTACACTGG
66 CATGGTCTTACACTAGCTCTCGAC-ACATAGCCAATGCCACGTCCCAAACACAGTCTTACACTGG
*
15485978 CTCTCATATCATGGT
130 CTCTCATATCATGGC
*
15485993 CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
15486035 TACCCAAATG
Statistics
Matches: 160, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
143 3 0.02
144 157 0.98
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCTAGA
CATGGTCTTACACTAGCTCTCGACACATAGCCAATGCCACGTCCCAAACACAGTCTTACACTGGC
TCTCATATCATGGC
Found at i:15486034 original size:48 final size:48
Alignment explanation
Indices: 15485705--15486023 Score: 336
Period size: 48 Copynumber: 6.6 Consensus size: 48
15485695 GGTGAATTGT
* * * *
15485705 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * *
15485753 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * ** *
15485801 TGATGCCACGTCCCAGACACAGTCTTACACTGGCTCTCATGAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGC
* * * * ** *
15485849 CGATGCCATGTCCCAGACATGGCCTTACACTAGCACACATATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * * *
15485897 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACAACATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * * *
15485945 CAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
*
15485993 CAATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
15486024 AGCACACATA
Statistics
Matches: 218, Mismatches: 50, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
47 3 0.01
48 214 0.98
49 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:15493265 original size:30 final size:29
Alignment explanation
Indices: 15493231--15493289 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
15493221 CTTTAATATG
*
15493231 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACA-CTTTGCCCCTA
* * *
15493261 AACTTTTGCATAATTACACTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTGCCCCTA
15493290 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTGCCCCTA
Found at i:15496286 original size:40 final size:40
Alignment explanation
Indices: 15496095--15496279 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
15496085 TTGAATGATG
* * *
15496095 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
15496134 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
15496175 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15496214 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15496253 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15496280 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 37 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:15496301 original size:79 final size:79
Alignment explanation
Indices: 15496148--15496312 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
15496138 GGACTAAGAT
* **
15496148 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* * *
15496213 TTTCGGGTTAAGTC
66 TATCCGGTTAAATC
* *
15496227 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
15496290 T-ATATCCGGTTAAATT
63 TAATATCCGGTTAAATC
15496306 CCGAAGG
1 CCGAAGG
15496313 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 53 0.72
80 19 0.26
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
TATCCGGTTAAATC
Found at i:15502253 original size:46 final size:46
Alignment explanation
Indices: 15502203--15502471 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 46
15502193 TGGTTGAGCA
15502203 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
15502249 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
15502294 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
15502342 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
15502387 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
15502435 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15502472 GCGGGTTACA
Statistics
Matches: 188, Mismatches: 17, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 93 0.49
47 58 0.31
48 6 0.03
50 8 0.04
51 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:15502359 original size:93 final size:93
Alignment explanation
Indices: 15502200--15502463 Score: 483
Period size: 93 Copynumber: 2.8 Consensus size: 93
15502190 GGATGGTTGA
15502200 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
15502265 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
15502293 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
15502358 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * *
15502386 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
15502451 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15502464 ACTTATGGGC
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:15507853 original size:14 final size:14
Alignment explanation
Indices: 15507826--15507860 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
15507816 ATCCTACCCC
15507826 ATATACAAATACAG
1 ATATACAAATACAG
15507840 ATAT-CAAATAACAG
1 ATATACAAAT-ACAG
15507854 ATATACA
1 ATATACA
15507861 TAAATAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 12 0.63
15 2 0.11
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (14 bp):
ATATACAAATACAG
Found at i:15510611 original size:25 final size:25
Alignment explanation
Indices: 15510560--15510611 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
15510550 AATATATAAC
* * *
15510560 TTTTAAAATATTAAATTTCAAATTA
1 TTTTAAAATATTAAAATTAAAAATA
*
15510585 TTTTAAAATTTTAAAATTAAAAATA
1 TTTTAAAATATTAAAATTAAAAATA
15510610 TT
1 TT
15510612 GTCATAACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTAAAATATTAAAATTAAAAATA
Found at i:15511875 original size:21 final size:22
Alignment explanation
Indices: 15511824--15511883 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
15511814 TCTACTGCCA
*
15511824 TCGCTGCTGCCTCTGCC-TCTC
1 TCGCTGCTGCCGCTGCCTTCTC
* *
15511845 TTGCTACTGCCGCTGCCTTC-C
1 TCGCTGCTGCCGCTGCCTTCTC
*
15511866 TCGCTGCTGCTGCTGCCT
1 TCGCTGCTGCCGCTGCCT
15511884 CTGCTCTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.02, C:0.43, G:0.22, T:0.33
Consensus pattern (22 bp):
TCGCTGCTGCCGCTGCCTTCTC
Found at i:15512320 original size:13 final size:14
Alignment explanation
Indices: 15512294--15512322 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15512284 ACTAACGACG
15512294 AATTAAACCATTAT
1 AATTAAACCATTAT
15512308 AATTAAA-CATTAT
1 AATTAAACCATTAT
15512321 AA
1 AA
15512323 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:15516399 original size:51 final size:50
Alignment explanation
Indices: 15516281--15516424 Score: 184
Period size: 51 Copynumber: 2.9 Consensus size: 50
15516271 TATTGTGAGG
* * *
15516281 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGAT-TGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATATGTTGA
* * * *
15516330 TCGCATGTGTAGTACTAAGTGCAGGCTAGTATGCGTACCTGATAACT-TTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-A-TGTTGA
*
15516381 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
15516425 GCTTCGGCTA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
49 37 0.46
50 1 0.01
51 41 0.51
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATATGTTGA
Found at i:15518923 original size:27 final size:27
Alignment explanation
Indices: 15518893--15519070 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15518883 ATATTGAGTC
* * * *
15518893 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
15518920 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15518947 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
15518975 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15519002 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15519029 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15519056 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15519071 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:15519032 original size:82 final size:81
Alignment explanation
Indices: 15518914--15519069 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15518904 TGCTATATAA
* *
15518914 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15518979 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15518996 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15519060 CACTTAGTGC
65 CACTTAGTGC
15519070 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15519684 original size:112 final size:112
Alignment explanation
Indices: 15519487--15519710 Score: 439
Period size: 112 Copynumber: 2.0 Consensus size: 112
15519477 ACCTTCACAC
15519487 ACATAGATTATAGTAAGCTTTATAATAGTCAATAAATAACTCATTGGCAAATTTTCATTAATGTT
1 ACATAGATTATAGTAAGCTTTATAATAGTCAATAAATAACTCATTGGCAAATTTTCATTAATGTT
15519552 TACAACAAAATCACATATTCACTACGAGCTGTTTTCCTGAGCAGTAG
66 TACAACAAAATCACATATTCACTACGAGCTGTTTTCCTGAGCAGTAG
15519599 ACATAGATTATAGTAAGCTTTATAATAGTCAATAAATAACTCATTGGCAAATTTTCATTAATGTT
1 ACATAGATTATAGTAAGCTTTATAATAGTCAATAAATAACTCATTGGCAAATTTTCATTAATGTT
*
15519664 TCCAACAAAATCACATATTCACTACGAGCTGTTTTCCTGAGCAGTAG
66 TACAACAAAATCACATATTCACTACGAGCTGTTTTCCTGAGCAGTAG
15519711 TCGCTAAATT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (112 bp):
ACATAGATTATAGTAAGCTTTATAATAGTCAATAAATAACTCATTGGCAAATTTTCATTAATGTT
TACAACAAAATCACATATTCACTACGAGCTGTTTTCCTGAGCAGTAG
Found at i:15520338 original size:96 final size:96
Alignment explanation
Indices: 15520174--15520364 Score: 364
Period size: 96 Copynumber: 2.0 Consensus size: 96
15520164 TTCACTCAGT
15520174 TTCTAATTCAACTCCTACAAATTATGACGATTTTCCAAAATCACCTTACTACTGCTGTCCCCAAA
1 TTCTAATTCAACTCCTACAAATTATGACGATTTTCCAAAATCACCTTACTACTGCTGTCCCCAAA
15520239 CAGATTATTACCAAATCAAATACTAACATTC
66 CAGATTATTACCAAATCAAATACTAACATTC
* *
15520270 TTCTAATTCAACTCCTACAAATTATGGCGATTTTCCAAAATCACCTTACTGCTGCTGTCCCCAAA
1 TTCTAATTCAACTCCTACAAATTATGACGATTTTCCAAAATCACCTTACTACTGCTGTCCCCAAA
15520335 CAGATTATTACCAAATCAAATACTAACATT
66 CAGATTATTACCAAATCAAATACTAACATT
15520365 AGCATTTCAC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (96 bp):
TTCTAATTCAACTCCTACAAATTATGACGATTTTCCAAAATCACCTTACTACTGCTGTCCCCAAA
CAGATTATTACCAAATCAAATACTAACATTC
Found at i:15522958 original size:11 final size:11
Alignment explanation
Indices: 15522942--15522979 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
15522932 TGTCCTCAAG
15522942 AAAACTAAACA
1 AAAACTAAACA
15522953 AAAACTAAA-A
1 AAAACTAAACA
15522963 ATAAACTAAACTA
1 A-AAACTAAAC-A
15522976 AAAA
1 AAAA
15522980 TAGAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 17 0.71
12 3 0.12
13 2 0.08
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAACTAAACA
Found at i:15522971 original size:22 final size:23
Alignment explanation
Indices: 15522943--15522989 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
15522933 GTCCTCAAGA
15522943 AAACTAAAC-AAAAACTA-AAAAT
1 AAACTAAACTAAAAA-TAGAAAAT
15522965 AAACTAAACTAAAAATAGAAAAT
1 AAACTAAACTAAAAATAGAAAAT
15522988 AA
1 AA
15522990 CATGAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (23 bp):
AAACTAAACTAAAAATAGAAAAT
Found at i:15524585 original size:26 final size:25
Alignment explanation
Indices: 15524556--15524664 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 25
15524546 TGGTATAAAT
15524556 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
15524582 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
15524608 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
15524633 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
15524659 TGATAA
1 TGATAA
15524665 GAATTTCATG
Statistics
Matches: 80, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
25 23 0.29
26 56 0.70
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:15524661 original size:51 final size:52
Alignment explanation
Indices: 15524556--15524664 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
15524546 TGGTATAAAT
15524556 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
* * *
15524608 TGATAATGGGTTAGGTAAATGTTC-ATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
15524659 TGATAA
1 TGATAA
15524665 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
Found at i:15526147 original size:28 final size:26
Alignment explanation
Indices: 15526105--15526179 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
15526095 AAAAGTAGCT
* * *
15526105 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
15526133 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
15526159 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
15526180 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:15526324 original size:27 final size:27
Alignment explanation
Indices: 15526283--15526395 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
15526273 GAGGAAGCGT
*
15526283 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15526310 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15526337 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
15526365 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
15526391 TCTGG
1 TCTGG
15526396 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15526388 original size:54 final size:54
Alignment explanation
Indices: 15526281--15526395 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
15526271 TGGAGGAAGC
*
15526281 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
15526335 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
15526389 GTTCTGG
1 GTTCTGG
15526396 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:15526481 original size:19 final size:22
Alignment explanation
Indices: 15526457--15526496 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
15526447 CTCCCCACAC
15526457 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
15526476 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
15526497 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:15528846 original size:38 final size:38
Alignment explanation
Indices: 15528791--15528873 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
15528781 TACTACTTGG
*
15528791 AGTGTAGGGATAGGTGGGTTAATTATATCCCCATATGA
1 AGTGTAGGGATAGGTGGGTTAATTATATCCCCACATGA
* *
15528829 AGTGTAGGGAT-GCGTGGGTTGATTATATCCCCACATGG
1 AGTGTAGGGATAG-GTGGGTTAATTATATCCCCACATGA
15528867 AGTGTAG
1 AGTGTAG
15528874 CGTTGGACGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.30
Consensus pattern (38 bp):
AGTGTAGGGATAGGTGGGTTAATTATATCCCCACATGA
Found at i:15529803 original size:23 final size:23
Alignment explanation
Indices: 15529757--15529804 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15529747 TGTAAGTTCT
*
15529757 CTGAAACTATTATATGTCTTAAA
1 CTGAAACTATTATATGTCTAAAA
*
15529780 CTGAAACTGTTATGAT-TCTAAAA
1 CTGAAACTATTAT-ATGTCTAAAA
15529803 CT
1 CT
15529805 ACTATAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (23 bp):
CTGAAACTATTATATGTCTAAAA
Found at i:15534588 original size:33 final size:33
Alignment explanation
Indices: 15534542--15534607 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
15534532 ATGGTTGAGA
*
15534542 GATTGCAGGAGAGTCTTGAGGAGTGGATCAAGG
1 GATTGCAGAAGAGTCTTGAGGAGTGGATCAAGG
* * *
15534575 GATTGGAGAAGAGTTTTGAGGAGTGGTTCAAGG
1 GATTGCAGAAGAGTCTTGAGGAGTGGATCAAGG
15534608 AAAGGGGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.06, G:0.42, T:0.24
Consensus pattern (33 bp):
GATTGCAGAAGAGTCTTGAGGAGTGGATCAAGG
Found at i:15540480 original size:27 final size:27
Alignment explanation
Indices: 15540450--15540501 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
15540440 TAAAACAAAA
15540450 ATTAAAATCATCCCAAATAAAAAAATG
1 ATTAAAATCATCCCAAATAAAAAAATG
*
15540477 ATTAAAATTATCCCAAATAAAAAAA
1 ATTAAAATCATCCCAAATAAAAAAA
15540502 ATGAAGTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (27 bp):
ATTAAAATCATCCCAAATAAAAAAATG
Found at i:15545837 original size:8 final size:8
Alignment explanation
Indices: 15545826--15545858 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
15545816 AGAGGAAAAA
15545826 GATCATGG
1 GATCATGG
15545834 GATCATGG
1 GATCATGG
15545842 GATCATGG
1 GATCATGG
15545850 GATCATGG
1 GATCATGG
15545858 G
1 G
15545859 CCCACTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.24
Consensus pattern (8 bp):
GATCATGG
Found at i:15550013 original size:16 final size:16
Alignment explanation
Indices: 15549992--15550022 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15549982 GGGGAAAATA
*
15549992 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
15550008 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
15550023 AGTAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:15550376 original size:18 final size:18
Alignment explanation
Indices: 15550353--15550389 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15550343 TATAGTTTGA
*
15550353 TATTCGAATTATTCTAAT
1 TATTCGAATTATTCAAAT
*
15550371 TATTCGAGTTATTCAAAT
1 TATTCGAATTATTCAAAT
15550389 T
1 T
15550390 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (18 bp):
TATTCGAATTATTCAAAT
Found at i:15552325 original size:118 final size:118
Alignment explanation
Indices: 15552117--15552354 Score: 458
Period size: 118 Copynumber: 2.0 Consensus size: 118
15552107 CAACTTTATA
15552117 TCAACATACCACTGGTGGAAGCATTAGAGAAAATGCCAATTAAGTAAAGTTCATGAAGGACATAT
1 TCAACATACCACTGGTGGAAGCATTAGAGAAAATGCCAATTAAGTAAAGTTCATGAAGGACATAT
* *
15552182 TGTTAAAGAAGCACAGACTAGGGGAATTTGAAACTGTTGCTCTCATTGAAGGG
66 TGTCAAAGAAGCACAGACTAGGGGAATTTGAAACTGTTGCTCTAATTGAAGGG
15552235 TCAACATACCACTGGTGGAAGCATTAGAGAAAATGCCAATTAAGTAAAGTTCATGAAGGACATAT
1 TCAACATACCACTGGTGGAAGCATTAGAGAAAATGCCAATTAAGTAAAGTTCATGAAGGACATAT
15552300 TGTCAAAGAAGCACAGACTAGGGGAATTTGAAACTGTTGCTCTAATTGAAGGG
66 TGTCAAAGAAGCACAGACTAGGGGAATTTGAAACTGTTGCTCTAATTGAAGGG
15552353 TC
1 TC
15552355 CATAGTAATG
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (118 bp):
TCAACATACCACTGGTGGAAGCATTAGAGAAAATGCCAATTAAGTAAAGTTCATGAAGGACATAT
TGTCAAAGAAGCACAGACTAGGGGAATTTGAAACTGTTGCTCTAATTGAAGGG
Found at i:15558985 original size:19 final size:19
Alignment explanation
Indices: 15558963--15558999 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15558953 ACTTAGCATA
15558963 CTTGCGAATTTTTAGCTTG
1 CTTGCGAATTTTTAGCTTG
15558982 CTTGCGAATTTTTAGCTT
1 CTTGCGAATTTTTAGCTT
15559000 AATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (19 bp):
CTTGCGAATTTTTAGCTTG
Found at i:15560328 original size:12 final size:12
Alignment explanation
Indices: 15560313--15560339 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15560303 TTTCATGTGG
15560313 ATTGGGGTAGTC
1 ATTGGGGTAGTC
15560325 ATTGGGGTAGTC
1 ATTGGGGTAGTC
15560337 ATT
1 ATT
15560340 TCTTTAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.37, T:0.37
Consensus pattern (12 bp):
ATTGGGGTAGTC
Found at i:15561138 original size:13 final size:13
Alignment explanation
Indices: 15561120--15561145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15561110 TTCTAAATAC
15561120 TGTATTTGTATTT
1 TGTATTTGTATTT
15561133 TGTATTTGTATTT
1 TGTATTTGTATTT
15561146 AGGGGTGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (13 bp):
TGTATTTGTATTT
Found at i:15563370 original size:10 final size:9
Alignment explanation
Indices: 15563346--15563379 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
15563336 GAATAGGGAG
15563346 TAAATTGCA
1 TAAATTGCA
*
15563355 TAAATTTCA
1 TAAATTGCA
15563364 TTAAATTGCA
1 -TAAATTGCA
15563374 TAAATT
1 TAAATT
15563380 TCATTTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (9 bp):
TAAATTGCA
Found at i:15563370 original size:19 final size:19
Alignment explanation
Indices: 15563346--15563384 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15563336 GAATAGGGAG
15563346 TAAATTGCATAAATTTCAT
1 TAAATTGCATAAATTTCAT
15563365 TAAATTGCATAAATTTCAT
1 TAAATTGCATAAATTTCAT
15563384 T
1 T
15563385 TTTCGAGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (19 bp):
TAAATTGCATAAATTTCAT
Found at i:15563741 original size:17 final size:17
Alignment explanation
Indices: 15563719--15563751 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15563709 GACAAAGCCC
15563719 GATGAACGATAATGCCA
1 GATGAACGATAATGCCA
15563736 GATGAACGATAATGCC
1 GATGAACGATAATGCC
15563752 TGAAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (17 bp):
GATGAACGATAATGCCA
Found at i:15564138 original size:57 final size:57
Alignment explanation
Indices: 15563999--15564141 Score: 166
Period size: 57 Copynumber: 2.5 Consensus size: 57
15563989 CCTCATTTCT
* * *
15563999 GATAGGATTTAGCCTGGACAGGTAATCCTGATATAAGTCCTCTCGAGCATATGTTATG
1 GATAGGATTTAGCCTGGACAGGTAATCC-GATATAAGTCCTCTAGAGCATATGTCATA
* * *
15564057 GATTGGATTTAGCCCGGACAGGTAATCC-ATATCAAG-CTCTTTAGAGCATATGTCATAA
1 GATAGGATTTAGCCTGGACAGGTAATCCGATAT-AAGTC-CTCTAGAGCATATGTCAT-A
*
15564115 GA-AGGATTTAGCCTGGACTGGTAATCC
1 GATAGGATTTAGCCTGGACAGGTAATCC
15564142 TATTGTACAC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
56 5 0.07
57 40 0.55
58 28 0.38
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (57 bp):
GATAGGATTTAGCCTGGACAGGTAATCCGATATAAGTCCTCTAGAGCATATGTCATA
Found at i:15567021 original size:17 final size:17
Alignment explanation
Indices: 15566981--15567023 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15566971 GACCCTTTAG
15566981 TTTTTCTTTCTTTCTACT
1 TTTTTC-TTCTTTCTACT
*
15566999 TATTTCTTC-TTCTACT
1 TTTTTCTTCTTTCTACT
15567015 CTTTTTCTT
1 -TTTTTCTT
15567024 TAATCTGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTCTTCTTTCTACT
Found at i:15567876 original size:29 final size:29
Alignment explanation
Indices: 15567822--15567940 Score: 107
Period size: 29 Copynumber: 4.2 Consensus size: 29
15567812 GTGAGCATGA
* * *
15567822 ATAT-AATATGATTTGGACCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
15567850 ATATGAATGTGAATTGGGTCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* * * * *
15567879 ATAAGAATATGAACTGGGCCAAATAGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* * *
15567908 ATTTGAATAAG-ATTAGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
15567936 ATATG
1 ATATG
15567941 CATGTATGTA
Statistics
Matches: 69, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
28 20 0.29
29 49 0.71
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:15578980 original size:36 final size:36
Alignment explanation
Indices: 15578938--15579007 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
15578928 GATCCGAGAC
15578938 TGTTCGAAAATATTTGAGGTAAGTTTTAAGTAGTAT
1 TGTTCGAAAATATTTGAGGTAAGTTTTAAGTAGTAT
15578974 TGTTCGAAAATATTTGAGGTAAGTTTTAAGTAGT
1 TGTTCGAAAATATTTGAGGTAAGTTTTAAGTAGT
15579008 TATATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (36 bp):
TGTTCGAAAATATTTGAGGTAAGTTTTAAGTAGTAT
Found at i:15587445 original size:40 final size:40
Alignment explanation
Indices: 15587389--15587580 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
15587379 CGGATGATAA
* * *
15587389 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
15587429 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
15587469 CCGGGCTAAGTCCCAAAGACATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
15587509 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* * * *
15587550 -CGGGCTATGCCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
15587581 AGCTATATCC
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 133 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:15588979 original size:15 final size:16
Alignment explanation
Indices: 15588950--15588979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15588940 CGGGTACGGG
15588950 GTGTTACAGGTTAGGA
1 GTGTTACAGGTTAGGA
15588966 GTGTTACA-GTTAGG
1 GTGTTACAGGTTAGG
15588980 TAGATAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (16 bp):
GTGTTACAGGTTAGGA
Done.